CA2164811A1 - Super proteins including interferons and interleukins - Google Patents

Abstract

A new class of polypeptides is disclosed, along with a method foridentifying and producing such polypeptides, having the characteristic of being unique to diseased states, particularly tumors andblood-borne malignancies. These new polypeptides are active and will be useful for therapeutic purposes.

Description

2 ~ 6 ~ 8 ~ 1 PCT/US94/06704 .~

Super Proteins Including Interferons and Interleukins CROSS REFERENCE TO RELATED APPLICATION
This application is a continuation in part of copending U.S.
application serial number 08/076,231, filed June 11, 1993.

TECHNICAL FIELD OF THE INVENTION
This invention relates to the field of biotechnology and more particularly to polypeptides having antitumor, antiviral, immunomodulatory and other activities, DNA that codes for such polypeptides, recombinant vectors that include such DNA, host org~ni~m~ transformed with the recombinant vector that produces the polypeptide and therapeutic application of the polypeptide.
The publications and other materials hereof used to illuminate the background of the invention, and in particular cases, to provide additional details respecting its practice are hereby incorporated by reference, and for convenience are numerically referenced by the following text and respectively grouped in the appended bibliography.

BACKGROUND ART
Human leukocyte interferon was first discovered and prepared in the form of very crude fractions by Isaacs and Lindenmann (1, 2). Efforts to purify and characterize the material have led to the preparation of relatively homogeneous leukocyte interferons derived from normal or leukemic (chronic myelogenous leukemia or "CML") donors' leukocytes. These interferons are a family of proteins characterized by a potent ability to confer a virus-resistant state in their target cells. In addition, interferon can inhibit cell proliferation, modulate immune responses and alter expression of proteins. These properties 8 ~
have prompted the clinical use of leukocyte interferon as a therapeutic agent for the treatment of viral infections and m~lign:~ncies.
With the advent of recombinant DNA technology, the controlled microbial production of an enormous variety of useful polypeptides has become possible. The workhorse of recombinant DNA technology is the plasmid, a non-chromosomal circle of double-stranded DNA found in bacteria and other microbes, oftentimes in multiple copies per cell. Included in the information encoded in the plasmid DNAis that required to reproduce the plasmid (i.e., an origin of replication) and ordinarily, one or more selection characteristics such as, in the case of bacteria, resistance to antibiotics which permit clones of the host cell cont~inin~ the plasmid of interest to be recognized and preferentially grown in selective media. The utility of plasmids lies in the fact that they can be specifically cleaved by one or another restriction endonucleaseor "restriction enzyme," each of which recognizes a specific site in the DNA.
Heterologous genes or gene fragments may be inserted into the plasmid at the cleavage site. To construct vectors with specific sequences inserted, DNA
recombination is performed outside the cell, but the resulting "recombinant"
plasmid can be introduced into cells by a process known as transformation and large quantities of the heterologous gene-cont~ininE recombinant plasmid obtained by growing the transformant. Moreover, where a promoter which governs the transcription of the encoded DNA message, is properly placed upstream (5') of a coding sequence or a gene, the resulting expression vector can be used to produce the polypeptide sequence for which the inserted sequence or gene codes, a process referred to as expression.
Expression is initiated in a region known as the promoter which is recognized by and bound by RNA polymerase. In many cases promoter regions are overlapped by "control" regions such as the bacterial operators.
Operators are DNA sequences which are recognized by so-called repressor proteins which serve to regulate the frequency of transcription initiation at a particular promoter. The polymerase travels along the DNA, transcribing the _ information contained in the coding strand from its 5' to 3' end into messenger RNA (mRNA) which is in turn translated into a polypeptide having the amino acid sequence for which the DNA codes. Each amino acid is encoded by a nucleotide triplet or "codon" within the coding sequence, i.e., that part which encodes the amino acid sequence of the expressed product. In bacteria (e.g.
Eschenchia coli) the mRNA contains a ribosome binding site, a translation initiation or "start" signal (ordinarily ATG in the DNA, which in the resulting mRNA becomes AUG), the nucleotide codons within the coding sequence itself, one or more stop codons, and an additional sequence of messenger RNA, the 3' untranslated region. Ribosomes bind to the binding site provided on the messenger RNA, in bacteria ordinarily as the mRNA is formed, and produce the encoded polypeptide, beginning at the translation start signal and ending at the stop signal. The desired product is produced if the sequences encoding the ribosome binding site are positioned properly with respect to the AUG initiator codon and if all rem~ining codons follow the initiator codon in phase. The resulting product may be obtained from the host cell and recovered by approp~iate purification. In other systems, proteins may be secreted from the host cells. A wide variety of expression vectors and host systems exist so that RNA and proteins may be expressed in prokaryotic and eukaryotic cells as well as in intact ~nim~l~ and plants.
During the past several decades a large number of human and animal interferons have been produced, identified, purified and cloned (see ref.1-72). Several of the interferon preparations have been prepared for clinical trial in both crude form, for some of the original interferon preparations, as well as in purified form. Several individual recombinant interferon-a species have been cloned and expressed. The proteins have then been purified by various procedures and formulated for clinical use in a variety of formulations (73). Most of the interferons in clinical use that have been approved by various regulatory agencies throughout the world are mixtures or individual species of human o~ interferon (Hu-IFN-~). In some countries Hu-IFN-13 and ~l64~l y have also been approved for clinical trial and in some cases approved for therapeutic use (56,74). The major thesis underlying clinical use of these interferons was that they were natural molecules produced by normal individuals. Indeed, the specific thesis was that all the interferons prepared for clinical use, be they natural- or recombinant-generated products, represented interferons that were produced naturally by normal people. This is true for a large number of interferons as well as specific growth factors, lymphokines, cytokines, hormones, clotting factors and other proteins that have been produced (17, 21, 22, 25-27, 29-34, 39, 40, 45-51, 53-57, 62-64, 68-72).
Reports have suggested that Hu-IFN-aA (also designated Hu-IFN-a2a and by the trade name Roferon A) was not represented in interferons produced by a norrnal population of individuals (75-79). Believing that certain interferons (or, more generically, certain polypeptides) are uniquely found in diseased cells, the inventor of the present invention undertook to identify interferons which are so uniquely characterized. For convenience the inventor began by screening known interferons, in particular, the sources of the several 100 variants of Hu-IFN-a2 that have been described. As discussed more fully below, it was found that the source of two of the variants of Hu-IFN-a2, Hu-IFN-a2a and Hu-IFN-a2c, are not present in normal individuals. Only Hu-IFN-a2b is found in normal individuals (79).

BRIEF DESCRIPTION OF THE DRAWINGS
105 Fig. 1. Nucleotide and Amino Acid Sequence of Hu-IFN-aO01.
The location of the AlwNI site is underlined. The signal peptide is shown as the 23 amino acids labeled -1 to -23.
Fig. 2. Comparison of the Protein Sequence of Hu-IFN-aO01 with that of Hu-IFN-aJ. The signal peptide represents the first 23 amino acids 110 at the amino terminus.

WO 94/29344 ~ ~i 4 81 I PCT/US94/06704 Fig. 3. Expression vector for Hu-IFN-aO01. The structure of the plasmid pHu-IFN-~001 is shown. The NsiI site represents nucleotide position #1. The PR promoter drives expression of Hu-IFN-o~001.
Fig. 4. SDS-Polyacrylamide Gel Electrophoresis of the Purified 115 Hu-IFN-aO01. Hu-IFN-aO01 was placed in lanes 1, 2 and 3 in amounts of 3 ~g, 1.5 ~lg and 0.75 ~g, respectively. The columns labeled M represent the molecular weight markers with the values in kilodaltons given to the left of each respective molecular weight marker.

DISCLOSURE OF THE INVENTION
120 An extensive analysis of normal individuals from various ethnic and racial backgrounds as well as two tumor cell lines has shown that certain interferons originated from two cell lines that were obtained from patients withdisease, in particular, m~lign~ncies of the hemopoietic system (79). These results lead the inventor to conclude that there is a new class of interferon 125 molecules which are present in diseased states, specifically in tumors and blood borne m~lign~ncies. This discovery of a new class of interferons provides a wide variety of potentially new interferons for clinical and therapeutic use.
These interferons include not only Hu-IFN-cx species, but also Hu-IFN-13, Hu-IFN-y and Hu-IFN-~, as well as other newly described interferons in other 130 ~nim~ls and species. The observations suggest that growth factors, cytokines, lymphokines, clotting factors, peptide and polypeptide hormones, adhesion factors and many other molecules are also modified in disease processes.
Therefore, modified forms of all these cytokines, Iymphokines, growth factors, adhesion molecules, enzymes, clotting factors, peptide and polypeptide 135 hormones, etc. will also occur in tumors and other diseases. Based on two presently identified members of this class (not previously recognized as such), these interferons are active, are as active as the standard molecules, and in fact have been used effectively for therapeutic purposes. A paper co-authored by the inventor and listed hereafter as Reference No. 79 is particularly related to WO 94/29344 ~ 48 1 1 PCT/USg4l06704 14() the invention and is incorporated herein by reference insofar as may be needed for a full understanding of the invention. That paper is more fully described, and is furnished as an attachment to a contemporaneously filed Information Disclosure Statement.

BEST MODE FOR CARRYING OUT THE INVENTION
145 Four distinct classes of interferons (IFNs) are known to exist in humans. The IFN-a family represents the predominant class of IFNs and are produced by stim~ ted peripheral blood leukocytes (10-15, 17-27, 29, 50, 51, 57-59, 61, 63, 64, 68, 70), and Iymphoblastoid and myeloblastoid cell lines (28,30, 60). Cloning of the IFN-a genes from these cells has revealed that IFN-a 150 is encoded by a multigene family consisting of about 15 functional genes and four pseudogenes (17, 26, 27, 29, 31, 50, 51, 53, 54, 57, 61, 63, 64, 65). It has been uncertain whether or not some of the cloned human IFN-a genes and cDNAs with few nucleotide differences, such as the Hu-IFN-aA, Hu-IFN-a2 and Hu-IFN-a2(Arg) genes, are allelic variants or represent distinct genes.
155 To determine if these sequences do indeed represent separategenes or are instead polymorphic variants of a single gene, sequences representing only the Hu-IFN-aA, Hu-IFN-a2 and Hu-IFN-a2(Arg) genes were amplified by nested polymerase chain reaction (PCR) from human genomic DNAs of healthy consenting individuals. These sequences were then subcloned 160 and examined by sequencing of individual clones. In addition, the DNAs were examined from KG-1 (80) and Namalwa (81) cell lines from which the Hu-IFN-aA and Hu-IFN-a2(Arg) cDNAs, respectively, were cloned.

MODES FOR CARRYING OUT lNVENTION
Three oligodeoxynucleotides were prepared by the phosphoramidite 165 method (82, 83) and purified (84). Primer I
(5'-TGGGCTGTGATCTGCCTC-3') complementary to nucleotides 125 to 142 at the 5' end was used with Primer II

Wo 94/29344 216 4 8 ~ I PCT/US94/06704 (5'-CATGATl'rCTGCTCTGACAACC-3') complementary to nucleotides 552 to 573 at the 3' end to amplify the desired nucleotide sequences. The DNA, 170 as amplified by the polymerase chain reaction (PCR) with this primer pair, was expected to represent sequences from most of the IFN-o~ gene family (79).
This conserved PCR product was then used as template in a second amplification reaction with the same 3' oligonucleotide but with a 5' oligonucleotide specific for the human IFN-o~A, IFN-~2 and IFN-a2(Arg) genes 175 only (79). The second reaction produced a product of 430 bp when Primer III
(5'-AACCCACAGCCTGGGTAG-3') complementary to nucleotides 144 to 161 was substituted for the Primer I. The 430 bp DNA was purified and cloned into the SmaI site of pBluescript-SK+ (Stratagene, LaJolla, CA) as described (79, 85, 86).
180 DNA of the plasmids was prepared by the alkaline lysis miniprep procedure (86, 87) from 1 ml cultures grown overnight in LB medium cont~inin~ 100 ~lg/ml ampicillin. The resultant DNA pellet was sequenced by the dideoxy chain termination procedure (79, 88, 89). The reactions were run on 6~ polyacrylamide gels which were then dried and exposed to X-ray film 185 overnight at room temperature with an intensifying screen.
Reverse transcriptase PCR (RT-PCR) was used to analyze the expression of the IFN-~ subtypes aA, o~2 and ~2(Arg) in the KG-1 and Namalwa cell lines (90). RNA was isolated at 6 hours after induction from Sendai virus-induced KG-1 cells (60) and at 8 hours post induction from NDV-190 stim~ ted Namalwa cells (91, 92).
DNA was extracted from the human myeloblastoid cell line KG- 1 and from the lymphoblastoid Namalwa cell line by a modification of the method of Pellicer et al. (93).
After obtaining informed consent, human genomic DNA was prepared from 195 whole blood samples collected from normal, healthy individuals by ammonium acetate precipitation as described (79, 94).

6 4~

METHODOLOGICAL BASIS FOR INVENTION
The DNA from 11 normal individuals was amplified by nested PCR then cloned and sequenced as described above. The number of 200 sequences corresponding to the various human IFN-~ species is shown in Table 1. It can be seen that neither the sequence for the aA gene nor the a2(Arg) gene was detected in any of the normal individuals examined in this study. As shown in Table 2, however, the aA sequence was detected in the DNA from the KG-1 cell line, but not in Namalwa cells; and the c~2(Arg) sequence was detected in the DNA from the Namalwa cell line, but not in KG-1 cells.

F.c. -,, of Hu-lFN-aA, -a2 and a2(Arg) Clones From Normal Ir ' ~
r.. . Variant Number of Clones IFN-a2 165 IFN-~A 0 IFN-a2(Arg) 0 Otherl 36 Total 201 Other refers to sequences which contained one or more mutations in an area unrelated to the A and 2(Arg) specific d~ ~ It should be noted that the frequency of mutations detected is in the range or slightly lower than that predicted from the combined error rates of Taq DNA fhJl~ _a~ and Sequenase DNA pol~ ,e (95, 96).
Previous analysis of IFN~2 genes have been reported (97,98), but did not discern any d'~ in their ..p.~ in the DNA from normal i . ' ~c De ~1 - and ~ .C~ t: relevant to i fe., are described in detail in several references (1~12. 61, 99,100).

~1 648I~

Fn~ of IFN-a Clones From KG-l and N~ a Cell Lines Cells IFN-a2 IFN-aA IFN-a2(A~) Other Total KG-1 cells 15 10 0 16 41 Namalwa cells 22 0 13 2 37 Restriction endonuclease analysis to detect the IFN-aA gene was also performed on DNA from five of the individuals from whom clones had been sequenced and on DNA from seven additional people that were not examined by DNA sequencing.
5 It was found that the restriction endonuclease analysis of the amplified DNA from all of these individuals showed no IFN-aA gene present (See Ref. 79, Fig. 2).

PREFERRED EMBODIMENT OF INVENTION
From the foregoing analysis, it can be concluded that in human DNA from 10 a wide variety of humans only Hu-IFN-a2 is present. The species Hu-IFN-aA and Hu-IFN-a2(Arg), not present in the DNA of 11 normal individuals, apparently arose during the development of the disease and/or the establishment of the cell lines in culture. It is noteworthy that the expression of these alleles of Hu-IFN-a2 yields IFN-a species with high activity in a wide variety of assays (63, 68, 69, 101-115). The specific activities of 15 all three of these IFN-a species are comparable. Furthermore, it has been reported that patients treated with Hu-IFN-aA produced a higher level of anti-interferon antibodies than patients treated with Hu-IFN-a2 or Hu-IFN-an (Welferon: a preparation of mixed Hu-IFN-~ species produced by induced Namalwa cells) (116-124). Some of the new interferons produced by the described invention may be able to by-pass neutralization 4~
by the antibodies produced in patients treated with IFN-c~ preparations in current use.
Such new IFN-a species should be able to be used to treat patients who have relapsed because of neutralization of the ~lmini~tered IFN-a species.
While the inventor has, for convenience, used Hu-IFN-a2 and its known 5 variants for establishing his hypothesis of the existence of a class of super or tumor interferons, it will be apparent to those skilled in the art that the results extend to an entire class of such interferons, as well as other polypeptides. Illustrative of this conclusion is the extraordinary high percentage of variant forms of the IFN-a2 and aA
genes in KG-1 cells -- i.e., 39% (16/41), much more than could be explained by 10 experimental error, as shown in the column labeled "Other" of Table 2.
It will also be apparent that the method of the invention, as illustrated above for Hu-IFN-a2, can be applied to any protein. In the general case, a primer pair is chosen to encompass part or all of the nucleotide coding sequence with the use of DNA from tumor cells or from cultured cells as templates for the PCR. The PCR
15 product is then cloned and sequenced. The amino acid sequence predicted by the nucleotide sequence so obtained is compared to the sequence of the protein in normal individuals. Proteins with amino acid sequences different from those proteins in normal individuals are then cloned in ap~Lo~liate expression vectors (11, 12, 14, 17, 45, 53, 54, 57, 63, 69, 86, 103), produced, purified and characterized. Those with desirable activities 20 are then developed for therapeutic use.
The origin of the tumor interferons or super interferons is unknown. Yet, it is clear that they are developed during the pathological process. It is believed that the cells producing these interferons have been selected during development and progress of the disease. The presence of allelic forms of IFN-~2 in the KG-1 and wo 94/2934~ 2 ~ 11 PCT/US94/06704 Namalwa cells is most noteworthy. DNA from leukocytes from normal individuals did not contain these variants. Because both the KG-1 and Namalwa cells originated from patients with leukemia or Iymphoma, it is believed that this alteration is an early change in progression of these diseases. Indeed, it has been reported that there are significant 5 gross changes in restriction endonuclease digestion patterns for the IFN-a genes in acute leukemias (125, 126).
The disease mech~ni~ms involved in developing m~lign~nt cells and selection of those cells produce a wide variety of genetic changes in the resultant tumor cells. In order for cancer cells to grow unfettered, to escape the normal controls and to 10 metastasize, the usual regulatory network of the immune system, involving growth inhibitors as the interferons and growth factors and hormones, may be modified. The control of cell growth and nonm~lign~nt behavior is a delicate balance of many regulatory factors, a few of which gone astray can alter the normal growth patterns.
Although it has been reported that changes in the DNA of cancer cells occurs, the 15 changes have been focussed on oncogenes and tumor suppressor genes that lead to the m~3lign~nt phenotype. The inventor has provided data that the changes are more pervasive than expected, not merely those changes focussed on oncogenes and tumor suppressors. Furthermore, by genetic changes (mutations in DNA) and selection of tumor cells for aggressiveness, many alterations will be embodied in the final tumor cell 20 population. The new proteins produced will have lower, the same or higher activities - than the normal proteins. By identifying those modified proteins associated with changes in activity, it will be possible to identify those proteins with new and/or enhanced activities.

WO 94/29344 ,~ PCT/US94/06704 2~64 _, From an analysis of initial clones obtained from the KG1 cell line (53, 54, 63), it was shown that several abnormal interferons exist in this cell line (also see ref. 61 for list of IF~ species). This is especially evident in that o~B (not previously recognized as an abnormal interferon) has an insertion and compensating deletion m~king an 5 abnormal protein that differs from Hu-IFN-a8, the normal counterpart. The presence of an insertion and a compensating deletion producing a normal sized molecule suggests some enormous selective pressures to produce these interferons. The fact that an insertion and a deletion would be incorporated into a molecule simply by random stochastic processes without external pressures is highly unlikely. Thus, these modified 10 interferons are seen to represent an entire new family of molecules that have been developed under the pressure of enormous external forces to provide for the selection of these species.
With respect to the interferons produced by mech~ni~m~ to enhance or combat the disease process, some may indeed have llnll~ l properties and may be more 15 active than some of the interferons produced by normal cells. For example, since interferon is a growth inhibitory molecule, production of a new interferon that could down regulate the receptors for interferon in cells and help select for cells without interferon receptors or low levels of interferon receptors may enhance the disease process. Such interferons could also help select cells with an altered signal transduction 20 mec~l~ni~m, but normal receptor number. Thus, a cell producing spontaneously some interferon, could be expected to have initially a low level of receptors due to down regulation and its growth would likely be reduced. Nevertheless, during the multiplication of such cells, cells would be selected that would have low levels of receptors so that they could escape the inhibition of the endogenous interferon. The l2 wo 94/29344 21 64 BI ~ pcTluss4lo67o4 same would hold for a wide variety of other molecules such as cytokines, Iymphokines, tumor suppressors, growth factors, anti-growth factors, matrix molecules, hormones, angiogenic factors, clotting factors, etc., all molecules that can control growth and/or metastases in one manner or another.
The altered proteins described herein are found in tumor cells or cultured cells obtained from tumors. Furthermore, selection of cell-lines in culture can also produce some of the alterations as selection in vivo.

CLONING OF Hu-IFN-a001 A new interferon was amplified from the genomic DNA of KG-1 cells (ATCC CCL 246) based on the strategies outlined hereinbefore and by the procedures described herein and elsewhere (79). The primers used to amplify the genes are shown in Table 3. The 5' primer contains an ApaI site, and the 3' primer contains an X~aI site for cloning. The PCR reactions were carried out in 50 ~l with 100 ng KG-1 template DNA, 100 ng of each primer (6431 and 6432), 0.2 mM of each dNTP, and 2.5 units of Taq DNA Polymerase for 30 cycles of 94C 30 seconds, 50C 30 seconds, 72C 30 seconds in the Perkin Elmer model 9600 thermocycler. Products of the PCR amplification were cloned into theApaI andX~aI sites of plasmid pBluescript II KS+ (Stratagene) and then transformed into competent E. coli strain DH5cx cells. Competent cells were prepared in 12~o PEG and 36~o glycerol in Luria-Bertani medium (L-broth medium, 10 g tryptone, 5 g yeast extract, 10 g NaCl, pH 7.3) from Digene (Silver Spring, MD 20904, Cat. No.
3500-1002) as described (127). Plasmid DNA was isolated from 2.0 ml of overnightcultures grown at 37C by a modified alkaline lysis procedure as reported ( 128). The size of the inserts was determined by digestion with restriction endonucleases K~7nI and SacI

2l6 4~
that flanked the cloning sites in the vector pBluescript. A total of 10 independent colonies were identified that contained a 700 base pair insert.

Table 3 5 ~ .. cl s for PCR Amplification Primer Sequence LengthPrimer No.
5'GCGGGCCCCAATGGCCYTGYCCTTT 25 6431 3'GCTCTAGAAYTCATGAAAGYGTGA 24 6432 The sequence of the primers are given in the 5' to 3' direction. The "Y" represents a pyrimidine (T
or C).

The DNA from one of the clones (plasmid pBS001) was sequenced in both directions. Automated DNA sequencing was performed on a Genesis 2000 Automated DNA Sequencer (DuPont, Wilmington, DE) with the primers shown in Table 4 by methods previously reported (86,88,89). All sequences were performed on both strands.
Automated sequencing was carried out and the results were compiled to create a 20 consensus sequence. The sequence determined from the T3 primer represents the 5' end of the insert; the T7- derived sequence represents the 3' end.
The sequence so determined is designated Hu-IFN-aO01 and is shown in Fig. 1. The location of the AlwNI restriction endonuclease recognition site (5' CAGNNNCTG 3') that was used for the splicing of the Hu-IFN-aO01 insert into the 25 expression vector TGATG (129) is indicated in the figure by underlining. The signal peptide is shown as the 23 amino acids labeled -1 to -23. As seen in Fig. 1, the mature protein contains 166 amino acids.

wo 94/29344 216 ~ ~11 PCT/US94106704 Table 4 Primers used for Sequencing Designation SequencePrimer Position in Direction No. Hu-IFN-aO01 IFN-A1 ~irl'GAAGGACAGACATG 6942 157- 172 F
IFN-A2 Cl'GTCCI'CCATGAGATG 6941 233 - 249 F
IFN-A3 GGTCAl'rCAGClGCTGG 6940 339 - 355 R
IFN-A4 TCCI'C~_'l'l'CATCAGGGG6939 397 - 413 R
T3 Al-rAACCCTCACI'AAAG T3 Vector F
1`'7 TAATACGACTCACI'ATA r,~ Vector R

All primers are shown from S' to 3' orient~tion The column ~iecigr~ed "Direction" ~ ese,ll~ the direction of sequencing with respect to the sequence of the Hu-IFN-~: "F' represents forward; "R" - reverse.
Oligodeoxynucleotides were 5r~heci7ed on an Applied Biosystem DNA 5yn~hesi7f r model 380B by the pho~ ",idite method (83,130).

A comparison of the protein sequence with other human interferon alpha species (Hu-IFN-a) demonstrates that Hu-IFN-aO01 is most closely related to Hu-IFN-20 aJ. That comparison is graphically depicted in Fig. 2. A snmm~ry of the known Hu-IFN-a sequences has been previously reported (61). There are a total of six amino acid changes compared to Hu-IFN-aJ. The data clearly demonstrate that this tumor derived Hu-IFN-a species is different from any other known Hu-IFN-a species previously reported. Furthermore, it would not have been possible to predict this specific sequence 25 as the number of possible proteins with alterations in these six positions is 206 or 64,000,000. One of the amino acid changes is in the signal peptide sequence; the rem~inin~ five alternatlons are in the mature protein. It is also to be emphasized that the derived Hu-IFN-a species presented here is a natural interferon derived from tumor cells. It is not a synthetic construct prepared by simply mutating six positions.

4 ~Z ~ ~ 481~ PCT/US94/06704 Expression of the Hu-IFN-aO01 gene was accomplished in two steps. The plasmid pBS001 was digested with restriction endonuclease Ki7nI (5' end of Hu-IFN-aO01 sequence). The Ki7nI ends were made blunt by incubation with T4 DNA polymerase in the following reaction mixture: 1 71g of DNA; 33 mM Tris acetate, pH 7.9; 66 mM
pot~cillm acetate; 10 mM magnesium acetate; 0.5 mM dithiothreitol; 100 11g/ml BSA
(bovine serum albumin); 2 mM of each of the four dNTPs; 5 units of T4 DNA
polymerase (United States Biochemical Corp.); total volume of 18 ~l. Incubation was performed for 5 minutes at 37C to prepare the blunt ends. The plasmid DNA was then digested with X~aI (3' end of Hu-IFN-aO01 sequence) to release the insert containing the Hu-IFN-aO01 sequence. The DNA fragments were then purified as described (86).
The TGATG vector was prepared by digestion with restriction endonuclease SacI, followed by preparing blunt ends with T4 DNA polymerase as described above, and then digested with restriction endonucleaseX~aI. The fragment containing the Hu-IFN-aO01 insert was then ligated to the pTGATG expression vector ( 129). After ligation the DNA
was transformed into competent E. coli DHSa cells. Colonies were analyzed by growing the cells as described above to isolate plasmid DNA. The plasmids were then digested with restriction endonucleases EcoRI and XbaI to determine the size of the insert. An expression vector for Hu-IFN-aJ was prepared as previously described for the expression plasmids for Hu-IFN-aB2 and Hu-IFN-aA/D (131).
The nucleotide sequences encoding Hu-IFN-aJ and Hu-IFN-aO01 contain anAlwNI site in identical positions of the sequence (Fig. 3); and, as illustrated in Fig.
3, which shows the structure of the plasmid pHu-IFN-aO01 cont:~ining the expression vector for Hu-IFN-aO01, there is a second AlwNI site in the vector itsel WO 94/29344 . 2:16 ~ 8 I I PCT/US94/06704 In addition, because the AlwNI recognition sites (CAGNNN^CTG) have three unspecified nucleotides (NNN) in the 3' overhang, the religations are specific and asymmetric. Accordingly, pTGATG vectors (129) encoding Hu-IFN-~J and Hu-IFN-o~OOl were digested with restriction endonuclease AlwNI to isolate the large vector and 5 Hu-IFN-aO01 (3' end) fragments, respectively. The Hu-IFN-aO01 fragment was then ligated into the vector fragment from plasmid pHu-IFN-aJ to yield the E. coli expression vector pHu-IFN-o~001, as shown in Fig. 3, which was transfected into competent E. coli (DH5a) cells (86).
Plasmid pHu-IFN-aO01 is deposited with the American Type Culture Collection (ATCC) at 12301 Parklawn Drive, Rockville, MD 20852: Accession number:
; Deposit date June 7, 1994; and designated as plasmid pHu-IFN-aO01 (E. coli DH5a/pHu-IFN-aO01 as the host vector system).
The E. coli (DH5a) cells cont~ining the expression vector pHu-IFN-aO01 were grown in 875 ml of Medium A overnight at 30C in one 2 liter flask with rotary ~h~king Medium A consists of KH2PO4 (4.5 g/L), Na2HPO4-7H20 (18.9 g/L), NH4Cl (1.5 g/L), NaCl (0.75 g/L), glucose (15 g/L), c~s~mino acids (7.5 g/L), MgSO4-7H20 (0.369 g/L), thi~mine hydrochloride (0.0015 g/L), leucine (0.04 g/L), proline (0.04 g/L) and ampicillin (0.05 g/L) adjusted to pH 7.4. The overnight culture was used to inoculate 22.5 liters of Medium A in a fermentor. The E. coli containing the expression 20 vector were grown at 30C until the Asso reached 7.0 at which time the temperature was raised to 42C. The cells were harvested 3 hrs after temperature induction at 42C by centrifugation and cell pellets divided into 50 g portions prior to freezing at -80C. The cells were stored at -80C until used for preparation of interferon.

g~ _ PURIFICATION OF Hu-IFN-aO01 For purification of Hu-IFN-aO01, frozen E. coli cell paste was thawed by suspension in 10 volumes of Buffer A (50 mM Tris-HCl, pH 8.0, 50 mM NaCl, 10 mM
EDTA, 0.1 mM PMSF, phenylmethylsufonylfluoride). After the addition of egg white S lysozyme (0.2 mg/ml) the suspension was sonicated four times with 30 second bursts while kept in an ice bath, then incubated at 23C overnight while stirring vigorously to elimin~te viscosity contributed by DNA. The suspension was centrifuged for 20 minutes at 12,000 rpm at 4C. The pellet was resuspended again in 10 volumes of Buffer A with l~o Triton X-100, 50 mM EDTA and 0.5 M NaCl and incubated for at least 2 hours (2 -1016 hrs) at room temperature with ~h~king and then centrifuged for 20 min at 12,000 rpm at 4C. Once again, the pellet was resuspended in 5 volumes of Buffer A with 0.5 M
NaCl and incubated for 60 min at room temperature with .~h~king and then centrifuged for 20 rnin at 12,000 rpm at 4C; the supernatant was discarded. The pellet was dispersed in 2 volumes of Buffer A in the presence of a mixture of oxidized/reduced 15forrns of glutathione (0.2 mM/2.0 mM) and solid guanidine-HCl (2.5 times bacterial weight) was added and the solution was stirred at room temperature for 7 hours. After this, the mixture was diluted tenfold with Buffer A and allowed to stand overnight.
Renaturation of the interferon was carried out by very slow addition of 7 M
guanidine-HCl to 0.7 M. The refolding of Hu-IF~-aO01 in solution takes more than 15 20 hours. Since Hu-IFN-aO01 contains two disulfide bonds, this step involves slow oxidation of the protein during dilution from guanidine-cont~ining solution. Then suspension was then centrifuged to remove debris. Solid (NH4)2SO4 was added to the supernatant to a final concentration 1 M, and the solution, after clarification by centrifugation, was loaded at 5 ml/min onto a column (Pharmacia XK 26/20 #18-1000-72) packed with 100 ml of the sorbent Phenyl-Toyopearl 650 S (20-50 m) (Supelco, #8-14477: 100 g), previously wo 94/29344 2 ~ fi ~ 811 PCT/US94/06704 equilibrated with 3-4 column volumes of Buffer B (50 mM Tris-HCl, pH 7.4, 0.5 M
guanidine-HCl and 1 M (NH4)2SO4. The column effluent was monitored at 280 nm.
After loading, the column was washed with Buffer B until the A280 Of the effluent returned to near baseline level and then was eluted sequentially with 2-3 column volumes of Buffer C (50 mM Tris-HCl, 0.5 M guanidine-HCl, 0.6 M (NH4)~SO4) with which the Hu-IFN-aO01 was eluted. Peak fractions showing maximum bands of Hu-IFN-aO01 on SDS-polyacrylamide gel electrophoresis were pooled. The Phenyl-Toyopearl column was regenerated in situ with 100 ml 0.5 M NaOH and 1 M NaCl solution; and was stored in 0.01% sodium azide. Fractions with Hu-IFN-001 as measured by antiviral activity and/or gel electrophoresis were pooled and concentrated 10-fold with an Amicon Centriprep 10 concentrator. The solution was then diluted 3-fold with Buffer D (20 mM Tris-HCl, pH
8.0, 5% glycerol) and was loaded onto a FPLC monoQ HR 10/10 ion exchange column (Pharmacia # 17-0556-01) equilibrated with Buffer D. The column was washed with about 10 ml of Buffer D until the A28o reached baseline. Elution of Hu-IFN-aO01 was accomplished with a linear gradient of Buffer D and Buffer E (Buffer D plus 1 M NaCl) at a flow rate of 1.5 ml/min from O to 100% Buffer E over 3 hours. The Hu-IFN-aO01 was eluted at 0.15 M NaCl in a single peak. The fractions were pooled, analyzed by sodium dodecylsulfate (SDS) polyacrylamide gel electrophoresis and assayed for antiviral activity. From 6 g of bacterial pellet (wet weight), about 8-10 mg of purified Hu-IFN-aO01 was obtained.
The purified protein was mixed with 15 ~l of SDS sample buffer (0.5 M
Tris-HCl, pH 6.8, 1% (v/v) 13-mercaptoethanol, 1% (w/v) sodium dodecylsulfate (SDS), 12% (v/v) glycerol, 2 mM ethylenediaminetetraacetic acid (EDTA), bromphenol blue) in a total volume of 35 ~l. The solution was boiled for two minutes after which 25 ~l was loaded onto a 12.5% polyacrylamide gel with a 4% polyacrylamide stacking gel. The WO 94/2934~,~ 6~ PCT/US94/06704 separating gel was buffered in 0.3 M Tris-HCl, 0.08~c SDS, 2 mM EDTA, pH 8.8. The stacking gel was in 0.065 M Tris-HCl, pH 6.8, and 0.05YG SDS. The chamber buffer was 25 mM Tris-HCl, 0.1~ SDS, 0.2 M glycine. Electrophoresis was carried out for 1 hour at 150 V, 20 mA in the BioRad miniproteian II apparatus (132). The gel was stained with Coomassie Blue R-250 (2.4~o, w/v, Coomassie Blue in 45~o methanol, 9~o, v/v, acetic acid) for 1 hour at room temperature; and destained in 8~o acetic acid. From SDS-polyacrylamide gel electrophoresis it was apparent that the purified Hu-IFN-aO01 migrated with a Mr of 20,000 as shown in Fig. 4. As indicated in that figure, Hu-IFN-aO01 was placed in lanes 1, 2 and 3 in amounts of 3 71g, 1.5 ~g and 0.75 71g, respectively.
The columns labeled M represent the molecular weight markers with the values in kilodaltons given to the left of each respective molecular weight marker. As can be seen, the Hu-IFN-aO01 exhibited a slightly slower mobility than Hu-IFN-aJ on SDS-polyacrylamide gel electrophoresis (SDS PAGE, ref. 132).
Antiviral activity of Hu-IFN-aO01 was assayed on bovine MDBK and human FS7 cells with vesicular stomatitis virus (VSV) (Table 5) as described previously (133). The antiviral units were determined with respect to the human IFN-aA international standard GxaO1-901-535. There was appl--xi~ tely equal antiviral activity on human and bovine cells (Table 5) as is seen with many Hu-IFN-a species (17,27,30,100,103,134).

Wo 94/29344 PCT/US94/06704 Table 5 Antiviral Assay of Interferon SampleInte~re.ull Titer (unitstml) Ratio FS-7 Cells MDBK Cells (FS-7/MDBK) ~xOOl 1 x 108 l X 108 1.0 The f~.m titer is given in units/mg as described (10-12,99,100,133,135) with respect to the international standard for human - f~.un alpha A GxaO1-901-535 from the National Institutes of Health. Vesicular storA ~iti~ virus (VSV) was used as the challenge virus with human FS-7 and bovine MDBK cells. The ratio of the antiviral activity of the - f~ ~Jn on FS-7 to that on MDBK cells is S given in the last column. The samples of Hu-IFN-cYOO1 were prepared as described in the text. Protein was determined by the method of Bradford (136).

Herein has been described an entire new class of molecules ~5ign~d as super proteins, proteins not present in normal cells, but present in the cells in various ~lisP~ed states and a method for identifying, producing andexp-essillg such molecules. Although the present embodiment of the invention hasbeen described in detail, it should be understood that various changes, alterations and substitutions can be made therein without departing frûm the spirit and scope of the invention as defined by the appended claims.

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94. Gross-Bellard, M., Oudet, P., and Chambon, P. (1973) "Isolation of High-Molecular-Weight DNA from l~mm~ n Cells," Eur. J. Biochem. 36, 32-38.
95. Saiki, R.K, Scharf, S., Faloona, F., Mullis, K.B., Hom, G.T., Erlich, H.A., and Arnheim, N. (1985) "Enzyrnatic Amplification of Beta-Globin Genomic Sequences and Restriction Site Analysis for Diagnosis of Sickle Cell Anemia," Science 230,1350-1354.
96. Keohavong, P., and Thilly, W.G. (1989) "Fidelity of DNA Polymerases in DNA
Arnplification," Proc. Nat~ Acad. Sci USA 86, 9253-9257.
97. Hotta, K., Collier, K.J., and Pestka, S. (1986) "Detection of a Single Base Substitution Between Human Leukocyte Interferon aA and a2 Genes with Octadecyl Deoxyoligonucleotide Probes," in Methods in Enzymology (S. Pestka, ed.), Academic Press, New York 119, 481-485.
98. Hotta, K., Monahan, J., Collier, K.J., and Pestka, S. (1988) "Detection of Human Leukocyte Interferon A and a2 Genes in Genomic DNAs by the Use of Deo7yoctadecyloligonucleotide Probes," J. Interferon Res. 8, 51-60.
99. Pestka, S., and Baron, S. (1981) "Definition and Classification of the Interferons,"
in Methods in Enzymology (S. Pestka, ed.), Academic Press, New York, 78, 3-14.
100. Pestka, S. (1986) "Interferon Standards and General Abbreviations," in Methods in Enzymology (S. Pestka, ed.), Academic Press, New York, 119, 14-23.

2~
WO 94/2934~ PCT/US94/06704 101. Evinger, M., Maeda, S., and Pestka, S. (1981) "Recombinant Human Leukoc.
Interferon Produced in Bacteria Has Antiproliferative Activity," J. Biol. Chem.
256, 2113-2114.
102. Herberman, R.B., Ortaldo, J.R., Mantovani, A., Hobbs, D.S., Kung, H.-F., and Pestka, S. (1982) "Effect of Human Recombinant Interferon on Cytotoxic Activity of Natural Killer (NK) Cells and Monocytes," Cell Immunol. 67, 160-167.
103. Rehberg, E., Kelder, B., Hoal, E.G., and Pestka, S. (1982) "Specific Molecular Activities of Recombinant and Hybrid Leukocyte Interferons," J. Biol. Chem. 257,11497-11502.
104. Jones, C.M., Varesio, L., Herberman, R.B., and Pestka, S. (1982) "Interferon Activates Macrophages to Produce Plasminogen Activator," J. Inte~feron Res. 2, 377-386.
105. Grant, S., Bhalla, K., Weinstein, I.B., Pestka, S., and Fisher, P.B (1982) "Differential Effect of Recombinant Human Leukocyte Interferon on Human Leukemic and Normal Myeloid Progenitor Cells," Biochem. Biophys. Res.
Commun. 108, 1048-1055.
106. Ortaldo, J.R., Herberman, R.B., and Pestka, S. (1982) "Augmentation of Human Natural Killer Cells with Human Leukocyte and Human Recombinant Leukocyte Interferon," in NK Cells and Other Natural Effector Cells (R.B. Herberman, ed.),Academic Press, New York, 1279-1283.
107. Ortaldo, J.R., Mason, A., Rehberg, E., Moschera, J., Kelder, B., Pestka, S., and Herberman, R.B. (1983) "Effects of Recombinant and Hybrid Recombinant Human Leukocyte Interferons on Cytotoxic Activity of Natural Killer Cells," J.
Biol. Chem. 258, 15011-15015.
108. Fisher, P., Miranda, A.F., Babiss, L.E., Pestka, S., and Weinstein, I.B. (1983) "Opposing Effects of Interferon Produced in Bacteria and of Tumor Promoters on Myogenesis in Human Myoblast Cultures," Proc. Natl. Acad. Sci U.S.A. 80, 2961-2965.
109. Sen, G.C., Herz, R.E., Davatelis, V., and Pestka, S. (1984) "Antiviral and Protein-Intlllcing Activities of Recombinant Human Leukocyte Interferons and Their Hybrids," J. ~rol. 50, 445-450.
110. Giacomini, P., Aguzzi, A., Pestka, S., Fisher, P.B., and Ferrone, S. (1984)"Modulation by ~ecombinant DNA Leukocyte (a) and Fibroblast (13) Interferons of the Expression and Shedding of HLA and Tumor Associated Antigens by Melanoma Cells," J. ~mmunol. 133, 1649-1655.
111. Greiner, J.W., Hand, P.H., Noguchi, P., Fisher, P.B., Pestka, S., and Schlom, J.
(1984) "Enhanced Expression of Surface Tumor-Associated Antigens on Human Breast and Colon Tumor Cells After Recombinant Human Leukocyte a-Interferon Treatment," Cancer Res. 44, 3208-3214.

Wo 94/29344 ~16 4 811 PCT/US94/06704 _.12. Fisher, P.B., Prignoli, D.R., Hermo, H., Jr., Weinstein, I.B., and Pestka, S. (1985) "Effects of Combined Treatment with Interferon and Mezerein on Melanogenesis and Growth in Human Melanoma Cells," J. Inte~feron Res. 5, 11-22.
113. Grant, S., Bhalla, K., Weinstein, I.B., Pestka, S., Mileno, M.D., and Fisher, P.B.
(1985) "Recombinant Human Interferon Sensitizes Resistant Myeloid Leukemic Cells to Induction of Terminal Differentiation," Biochem. Biophys. Res. Commun.
130, 379-388.
114. Gll~d~ni, F., Schlom, J., Johnston, W.W., Szpak, C.Z., Goldstein, D., Smalley, R., Simpson, J.F., Borden, E.C., Pestka, S., and Greiner, J.W., (1989) "Selective Interferon-Induced Enhancement of Tumor-Associated Antigens on a Spectrum of Freshly Isolated Human Adenocarcinoma Cells," J. Natl. Cancer Inst. 81, 502-512.
115. Sperber, S.J., Gocke, D.J., Haberzettl, C., Kuk, R., Schwartz, B., and Pestka, S.
(1992) "Anti-HIV-1 Activity of Recombinant and Hybrid Species of Interferon Alpha," J. nterferon Res. 12, 363-368.
116. Huber, C., Flener, R., and Gastl, G. (1985) "Interferon-Alpha-2c in the Treatment of Advanced Hairy Cell Leukemia," Oncology 42, Suppl 1, 7-9.
117. Foon, K.A., M~ h, A.E., Abrams, P.G., Wrightington, S., Stevenson, H.C., Alarif, A., Fer, M.F., Overton, W.R., and Poole, M. (1986) "Recombinant Leukocyte A Interferon Therapy for Advanced Hairy Cell Leukemia," Am. J.
Med. 80, 351-356.
118. Steis, R.G., Smith, J.W. II, Urba, W.J., Clark, J.W., Itri, L.M., Evans, L.M., Schoenberge, C., and Longo, D.L. (1988) "Resistance to Recombinant Interferon Alfa-2 in Hairy Cell Leukemia Associated with Neutralizing Anti-interferon Antibodies," New EngL J. Med. 318, 1409-1413.
119. Von Wussow, P., Freund, M., Hartmann, F., Diedrich, H., Poliwoda, H., and Deicher, H. (1987) "Anti Interferon Antibodies: Pharmokinetics and Clinical Significance," J. Interferon Res. 7, 680.
120. Freund, M., Von Wussow, P., Diedrich, H., Eisert, R., Link, H., Wilke, H., Buchholz, F., LeBlanc, S., Fonatsch, C., Deicher, H., and Poliwoda, H. (1989) "Recombinant Human Interferon (IFN) Alpha-2b in Chronic Myelogenous Leukernia: Dose Dependency of Response and Frequency of Neutralizing Anti-Interferon Antibodies," Br. J. Haematol. 72, 350-356.
121. Itri, L.M., Campion, M., Dennin, R.A., Palleroni, A.V., Gutterman, J.O., Groopman, J.E., and Trown, P.W. (1987) "Incidence and Clinical Significance of Neutralizing Antibodies in Patients Receiving Recombinant Interferon Alpha-lA
by Intramuscular Injection," Cancer 59, 668-674.
122. Moormeier, J.A., Westbrook, C.A., Ratain, M.J., and Golomb, H.M. (1989) "Interferon Alfa-2b Antibodies and Clinical Resistance in a Patient with Hairy Cell Leul~emia," Leu~ Lymphoma 1, 43-45.

wo 94/293~ ~ 6 4 81 l PCT/US94/06704 123. Quesada, J.R., Rios, A., Swanson, D.A., Trown, P.. and Gutterman, J.U. (198"~n~ mor Activity of Recombinant-derived Interferon Alpha in Metastatic Renal Cell Carcinoma," J. Clin. Oncol. 3, 1522-1528.
124. Antonelli, G., Currenti, M., Turriziani, O., and Di~n7~3ni, F. (1991) "Neutralizing Antibodies to Interferon o~: Relative Frequency in Patients Treated with Different Interferon Preparations," J. Infect. Dis. 163, 882-885.
125. Colamonici, O., Porterfield, B., and Diaz, M.O. (1991) "Interferon Sensitivity of Human Leukemia Cell Lines With and Without Deletion of the Interferon Genes," J. Inte~feron Res. 11, S54.
126. Grandér, D., Heyman, M., Brondum-Nielsen, K., Liu, Y., Lundgren, E., Soderhall, S., and Einhorn, S. (1992) "Interferon System in Primary Acute Lymphocytic Leukemia Cells With or Without Deletions of the o~ -Interferon Genes," Blood 79, 2076-2083.
127. Ni~him~lra, A., Morita, M., Nishimllra, Y. and Sugino, Y. (1990) "A Rapid and Highly Efficient Method for Preparation of Competent Escherichia coli Cells ,"
Nucleic Acids Research 18, 6169.
128. Lee, S. and Rashid, S. (1990) "A Simple Procedure for M~ximl~m Yield of High-quality Plasrnid DNA," BioTechniques 9, 676-679.
129. Mashko, S.V., Veiko, V.P., Lapidus, A.L., Lebedeva, M.I., Mochculsky, A.V.,Shechter, I.I., Trukhan, M.E., Ratmanova, K.I., Rebentish, B.A., Kaluzhsky, V.E.and Debabov, V.G. (1990) TGATG vector: a new expression system for cloned foreign genes in Escherichia coli cells. Gene 88, 121-126.
130. Caruthers, M.H., Barone, A.D., Beaucage, S.L., Dodds, D.R., Fisher, E.F., McBride, L.J., Matteucci, M., Stabinsky, Z., Tang, J.Y. (1987) "Chemical Synthesis of Deoxyoligonucleotides by the Phosphoramidite Method," Methods in En~ymology 154, 287-313.
131. Wang, P., Izotova, L., Mariano, T.M., Donnelly, R.J. and Pestka, S. (1994) "Construction and Activity of Phosphorylatable Human Interferon-aB2 and Interferon-o~A/D." J. Interferon Res. 14, 41-46.
132. Laemmli, U.K. (1990) Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Natllre (London) 227: 680-685 133. Familletti, P.C., Rubinstein, S., and Pestka, S. (1981) "A Convenient and Rapid Cytopathic Effect Inhibition Assay for Interferon," in Methods in Enzymology, Vol.
78 (S. Pestka, ed.), Academic Press, New York, 387-394.
134. Staehelin, T., Hobbs, D.S., Kung, H.-F., Lai, C.-Y., and Pestka, S. (1981) "Purification and Characterization of Recombinant Human Leukocyte Interferon (IFLrA) with Monoclonal Antibodies," J. Biol. Chem. 256, 9750-9754.

WO94/29344 ~ 8 1 ~ PCT/US94/06704 _135. Pestka, S. (1981) "Standard Media and General Abbreviations," in Methods in Enzymology, Vol. 78 (S. Pestka, ed.), Academic Press, New York, 22-25.
136. Bradford, M. M. (1976) "A Rapid and Sensitive Method for the quantitation of Microgram quantities of Protein Utilizing the Principle of Protein-dye Binding,"Anal. Biochem. 72, 248-254.

WO 94/29344 ~ PCT/US94/06704 SEOUENCE LISTING
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Met Ala Leu Ser Phe Ser Leu Leu Met Val Val Leu Val Leu Ser Tyr Lys Ser Ile Cys Ser Leu Gly Cys Asp Leu Pro Gln Thr His Ser Leu Arg Asn Arg Arg Ala Leu Ile Leu Leu Ala Gln 1 lO 20 Met Gly Arg Ile Ser Pro Phe Ser Cys Leu Lys Asp Arg His Glu Phe Arg Phe Pro Glu l90 GAG GAG TTT GAT GGC CAC CAG TTC CAG AAG ACT CAA GCC ATC TCT GTC CTC CAT GAG ATG 249 Glu Glu Phe Asp Gly His Gln Phe Gln Lys Thr Gln Ala Ile Ser Val Leu His Glu Met Ile Gln Gln Thr Phe Asn Leu Phe Ser Thr Glu Asp Ser Ser Ala Ala Trp Giu Gln Ser Leu Leu Glu Lys Phe Ser Thr Glu Leu Tyr Gln Gln Leu Asn Asp Leu Glu Ala Cys Val go 100 Ile Gln Glu Val Gly Val Glu Glu Thr Pro Leu Met Asn Glu Asp Ser Ile Leu Ala Val llO 120 Arg Lys Tyr Phe Gln Arg Ile Thr Leu Tyr Leu Thr Glu Lys Lys Tyr Ser Pro Cys Ala Trp Glu Val Val Arg Ala Glu Ile Met Arg Ser Leu Ser Phe Ser Thr Asn Leu Gln Lys A-g Leu Arg Arg Lys Asp End 166

Claims (36)

I claim the following:

1. A method of identifying and producing modified polypeptides comprising the steps of:
selecting diseased cells from which specific nucleotide sequences may be obtained;
determining an appropriate primer pair to encompass at least a portion of a nucleotide sequence to amplify said nucleotide sequence;
screening cloned nucleotide sequences obtained from said diseased cells for modified sequences to identify sequences that encode said modified polypeptides, expressing said modified polypeptides, and comparing said modified polypeptides with amino acid sequences for proteins obtained from non-diseased cells to determine polypeptides having characteristics different from said non-diseased proteins.

2. The method of Claim 1 wherein said selected diseased cells are derived from hemopoietic cells.

3. The method of Claim 1 wherein said selected diseased cells are derived from leukemic leukocytes.

4. The method of Claim 1 wherein said selected diseased cells are derived from human malignancies.

5. The method of Claim 1 wherein the step of expressing said modified polypeptides is realized by expressing a DNA sequence coding for said modified polypeptide in a host cell.

6. The method of Claim 1 wherein said screening step further includes cloning said nucleotide sequence by insertion in an appropriate plasmid, said plasmid being thereafter transformed in an appropriate host.

7. A recombinantly produced polypeptide having interferon activity, being derived uniquely from diseased cells and being a modification of the natural IFN
species.

8. The recombinantly produced polypeptide of Claim 7 wherein said diseased cells are derived from hemopoietic cells.

9. The recombinantly produced polypeptide of Claim 7 wherein said diseased cells are derived from leukemic leukocytes.

10. The recombinantly produced polypeptide of Claim 7 wherein said diseased cells are derived from human malignancies.

11. A recombinantly produced polypeptide having interferon activity, being derived uniquely from diseased cells and being a modification of the natural IFN
.beta. species.

12. The recombinantly produced polypeptide of Claim 11 wherein said diseased cells are derived from hemopoietic cells.

13. The recombinantly produced polypeptide of Claim 11 wherein said diseased cells are derived from leukemic leukocytes.

14. The recombinantly produced polypeptide of Claim 11 wherein said diseased cells are derived from human malignancies.

15. A recombinantly produced polypeptide having interferon activity, being derived uniquely from diseased cells and being a modification of the natural IFN
.gamma. species.

16. The recombinantly produced polypeptide of Claim 15 wherein said diseased cells are derived from leukemic leukocytes.

17. The recombinantly produced polypeptide of Claim 15 wherein said diseased cells are derived from human malignancies.

18. A recombinantly produced polypeptide having interleukin-2 activity, being derived uniquely from diseased cells and being a modification of the natural interleukin-2 species.

19. The recombinantly produced polypeptide of Claim 18 wherein said diseased cells are derived from leukemic leukocytes.

20. The recombinantly produced polypeptide of Claim 18 wherein said diseased cells are derived from human malignancies.

21. Human leukocyte interferon wherein the interferon has the amino acid sequence from position 1 to position 166 as depicted for Hu-IFN-.alpha.001 in FIG. 1.

22. A recombinantly produced polypeptide having interferon activity and comprising the amino acid sequence of Hu-IFN-.alpha.001,:

23. The polypeptide of claim 22 wherein said polypeptide is derived uniquely from diseased cells.

24. The recombinantly produced polypeptide of Claim 23 wherein said diseased cells are derived from hemopoietic cells.

25. The recombinantly produced polypeptide of Claim 23 wherein said diseased cells are derived from leukemic leukocytes.

26. The recombinantly produced polypeptide of Claim 23 wherein said diseased cells are derived from human malignancies

27. A pharmaceutical composition for providing interferon therapy to a human comprising an effective amount of the polypeptide of claim 22 admixed with a pharmaceutically acceptable vehicle or carrier.

28. A DNA sequence comprising a sequence coding for the polypeptide comprising the amino acid sequence of human IFN-.alpha.001.

29. The DNA sequence according to claim 28 operably linked with a DNA sequence capable of effecting microbial expression of said polypeptide.

30. The DNA sequence according to claim 28 operably linked with a DNA sequence capable of effecting mammalian expression of said polypeptide.

31. The DNA sequence according to claim 28 operably linked with a DNA sequence capable of effecting eucaryotic expression of said polypeptide.

32. A replicable expression vector capable of expressing a polypeptide comprising the amino acid sequence of human IFN-.alpha.001 as a mature human leukocyte interferon.

33. The expression vector of claim 32 which is microbial.

34. The expression vector of claim 32 which is mammalian

35. The expression vector of claim 32 which is eucalyotic.

36. Plasmid pHu-IFN-.alpha.001 deposited with the American Type Culture Collection under Accession Number: ?