P16901 (POL_OMVVS) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Pol polyprotein

Cleaved into the following 4 chains:

1. Protease
   EC=3.4.23.-
   Alternative name(s):
   Retropepsin
2. Reverse transcriptase/ribonuclease H
   Short name=RT
   EC=2.7.7.49
   EC=3.1.26.13
   Alternative name(s):
   Exoribonuclease H
   EC=3.1.13.2
3. Deoxyuridine 5'-triphosphate nucleotidohydrolase
   Short name=dUTPase
   EC=3.6.1.23
4. Integrase
   Short name=IN

Gene names

Name:

pol

Organism

Ovine maedi visna related virus (strain South Africa) (SA-OMVV) (Ovine lentivirus)

Taxonomic identifier

11664 [NCBI]

Taxonomic lineage

Viruses › Retro-transcribing viruses › Retroviridae › Orthoretrovirinae › Lentivirus › Ovine/caprine lentivirus group › Visna/maedi virus › Visna/maedi virus SA-OMVV

Virus host

Ovis aries (Sheep) [TaxID: 9940]

Protein attributes

Sequence length	1086 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

Function	During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.
Catalytic activity	Endohydrolysis of RNA in RNA/DNA hybrids. Three different cleavage modes: 1. sequence-specific internal cleavage of RNA. Human immunodeficiency virus type 1 and Moloney murine leukemia virus enzymes prefer to cleave the RNA strand one nucleotide away from the RNA-DNA junction. 2. RNA 5'-end directed cleavage 13-19 nucleotides from the RNA end. 3. DNA 3'-end directed cleavage 15-20 nucleotides away from the primer terminus. 3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid. dUTP + H2O = dUMP + diphosphate. Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).
Post-translational modification	Cleavage sites that yield the mature proteins remain to be determined.
Sequence similarities	Belongs to the retroviral Pol polyprotein family. Contains 1 integrase catalytic domain. Contains 1 integrase-type DNA-binding domain. Contains 1 integrase-type zinc finger. Contains 1 peptidase A2 domain. Contains 1 reverse transcriptase domain. Contains 1 RNase H domain.

Ontologies

Keywords
Biological process	DNA integration DNA recombination Nucleotide metabolism Viral genome integration Virus entry into host cell
Domain	Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Molecular function	Aspartyl protease Endonuclease Hydrolase Nuclease Nucleotidyltransferase Protease RNA-directed DNA polymerase Transferase
Technical term	Multifunctional enzyme
Gene Ontology (GO)
Biological_process	DNA integration Inferred from electronic annotation. Source: UniProtKB-KW DNA recombination Inferred from electronic annotation. Source: UniProtKB-KW RNA-dependent DNA replication Inferred from electronic annotation. Source: InterPro dUTP metabolic process Inferred from electronic annotation. Source: InterPro establishment of integrated proviral latency Inferred from electronic annotation. Source: UniProtKB-KW nucleic acid phosphodiester bond hydrolysis Inferred from electronic annotation. Source: GOC proteolysis Inferred from electronic annotation. Source: UniProtKB-KW viral entry into host cell Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW RNA binding Inferred from electronic annotation. Source: InterPro RNA-directed DNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW aspartic-type endopeptidase activity Inferred from electronic annotation. Source: UniProtKB-KW dUTP diphosphatase activity Inferred from electronic annotation. Source: EC exoribonuclease H activity Inferred from electronic annotation. Source: EC ribonuclease H activity Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 120	120	Protease By similarity		PRO_0000038853
	Chain	121 – 671	551	Reverse transcriptase/ribonuclease H By similarity		PRO_0000038854
	Chain	672 – 805	134	Deoxyuridine 5'-triphosphate nucleotidohydrolase By similarity		PRO_0000038855
	Chain	806 – 1086	281	Integrase By similarity		PRO_0000038856
Regions
	Domain	39 – 110	72	Peptidase A2
	Domain	167 – 356	190	Reverse transcriptase
	Domain	551 – 673	123	RNase H
	Domain	850 – 1010	161	Integrase catalytic
	Zinc finger	808 – 849	42	Integrase-type
	DNA binding	1027 – 1079	53	Integrase-type
Sites
	Active site	44	1	By similarity

Sequences

	Sequence		Length	Mass (Da)
	P16901 [UniParc]. Last modified August 1, 1990. Version 1. Checksum: 099F9614679FC8BD	FASTA	1,086	124,515
	10 20 30 40 50 60 SNITAGKQQE GATCGAVRAP YVVTEAPPKI DIKVGTNWKK VLVDTGADRT IVRYHDNSGI 70 80 90 100 110 120 PTGRIKLQGI GGIIEGEKWD KVVIQYKEKR IEGTIVVLPS SPVEVLGRDN MAKLDIGIIM 130 140 150 160 170 180 ANLEEKKIPI TQVKLKEGCK GPHIAQWPLT QEKLEGLKEI VDKLEKEGKV GRAPPHWTCN 190 200 210 220 230 240 TPIFCIKKKS GKWRMLIDFR ELNKQTEDLA EAQLGLPHPG GLQKKKHVTI LDIGDAYFTI 250 260 270 280 290 300 PLYEPYRPYT CFTMLSPNNL GPCTRYYWKV LPQGWKLSPS VYQFTMQEIL RDWIAKHPMI 310 320 330 340 350 360 QFGIYMDDIY IGSDLDIMKH REIVEELASY IAQYGFMLPE EKRQEGYPAK WLGFELHPEK 370 380 390 400 410 420 WRFQKHTLPE IKEGTITLNK LQKLVGDLVW RQSLIGKSIP NILKLMEGDR ALQSERRIEL 430 440 450 460 470 480 RHVKEWEECR RKLAEMEGNY YDEEKDVYGQ IDWGDKAIEY IVFQERGKPL WVNVVHNIKN 490 500 510 520 530 540 LSQSQQIIKA AQKLTQEVII RIGKIPWILL PGKEEDWILE LQIGNITWMP SFWSCYRGSI 550 560 570 580 590 600 RWKKRNVITE VVEGPTYYTD GGKKNGKGSL GFIASTGVKF RKHEEGTNQQ LELRAIEEAC 610 620 630 640 650 660 KQGPEKMNIV TDSRYAYEFM RRNWDEEVIK NPIQARIMKL VHDKEQIGVH WVPGHKGIPQ 670 680 690 700 710 720 NEEIDKYISE IFLAREGSGI LPKRAEDAGY DLICPQEVCI PAGQVRKIPI NLRINLKEDQ 730 740 750 760 770 780 WAMVGTKSSF ASKGVFVQGG IIDSGYQGII QVVVYNSNDK EVIIPQGRKF AQLILMPLIH 790 800 810 820 830 840 EDLEAWGETR RTERGNQGFG STGAYWIENI PLAEEDHSKW HQDAGSLHLD FGIPRTAAED 850 860 870 880 890 900 IVQQCEVCQE NKMPSTIRGS NRRGIDHWQV DYTHYEDKII LVWVETNSGL IYAERVKGET 910 920 930 940 950 960 GQEFRIMTIR WYGLFAPKSL QSDNGPAFVA EPTQLLMKYL GITHTTGIPW NPQSQALVER 970 980 990 1000 1010 1020 THQTLKNTIE KFVSMFASFD SAIAAALITL NIKRKGGLGT SPMDIFIFNK EQQRIQQQST 1030 1040 1050 1060 1070 1080 RNQSKFRFCY YRVRKRGHPG EWLGPTQVLW EGEGAIVIKD KNLEKYLVIA KKDVKFIPQP KEIQTE

References

[1]	"Nucleotide sequence analysis of SA-OMVV, a visna-related ovine lentivirus: phylogenetic history of lentiviruses." Querat G., Audoly G., Sonigo P., Vigne R. Virology 175:434-447(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases
EMBL GenBank DDBJ	M31646 Genomic RNA. Translation: AAA66812.1.
3D structure databases
ProteinModelPortal	P16901.
ModBase	Search...
Protein family/group databases
MEROPS	A02.006.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
Gene3D	1.10.10.200. 1 hit. 2.30.30.10. 1 hit. 2.40.70.10. 1 hit.
InterPro	IPR008180. dUTP_pyroPase. IPR001037. Integrase_C_retrovir. IPR001584. Integrase_cat-core. IPR017856. Integrase_Zn-bd_dom-like_N. IPR003308. Integrase_Zn-bd_dom_N. IPR018061. Pept_A2A_retrovirus_sg. IPR001995. Peptidase_A2_cat. IPR021109. Peptidase_aspartic. IPR001969. Peptidase_aspartic_AS. IPR012337. RNaseH-like_dom. IPR002156. RNaseH_domain. IPR000477. RVT. IPR010659. RVT_connect. IPR010661. RVT_thumb. [Graphical view]
Pfam	PF00692. dUTPase. 1 hit. PF00552. IN_DBD_C. 1 hit. PF02022. Integrase_Zn. 1 hit. PF00075. RNase_H. 1 hit. PF00665. rve. 1 hit. PF00077. RVP. 1 hit. PF00078. RVT_1. 1 hit. PF06815. RVT_connect. 1 hit. PF06817. RVT_thumb. 1 hit. [Graphical view]
SUPFAM	SSF50122. Integrase_C. 1 hit. SSF46919. Integrase_Zn_N. 1 hit. SSF50630. Pept_Aspartic. 1 hit. SSF53098. RNaseH_fold. 2 hits.
PROSITE	PS50175. ASP_PROT_RETROV. 1 hit. PS00141. ASP_PROTEASE. 1 hit. PS50994. INTEGRASE. 1 hit. PS51027. INTEGRASE_DBD. 1 hit. PS50879. RNASE_H. 1 hit. PS50878. RT_POL. 1 hit. PS50876. ZF_INTEGRASE. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

POL_OMVVS

Accession

Primary (citable) accession number: P16901

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 1, 1990
Last sequence update:	August 1, 1990
Last modified:	April 3, 2013
This is version 110 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program