P33459 (POL_CAEVC) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Pol polyprotein

Cleaved into the following 3 chains:

1. Protease
   Alternative name(s):
   Retropepsin
   EC=3.4.23.-
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. Integrase
   Short name=IN

Gene names

Name:

pol

Organism

Caprine arthritis encephalitis virus (strain Cork) (CAEV-Co)

Taxonomic identifier

11661 [NCBI]

Taxonomic lineage

Viruses › Retro-transcribing viruses › Retroviridae › Orthoretrovirinae › Lentivirus › Ovine/caprine lentivirus group

Virus host

Capra hircus (Goat) [TaxID: 9925]

Protein attributes

Sequence length	1109 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. Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).
Post-translational modification	Specific enzymatic cleavages in vivo yield mature proteins.
Miscellaneous	This protein may be synthesized as a Gag-Pol polyprotein.
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.
Sequence caution	The sequence AAA91826.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	DNA integration DNA recombination Initiation of viral infection Viral genome integration
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 proteolysis 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 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 – 152	152	Protease		PRO_0000038829
	Chain	153 – 865	713	Reverse transcriptase/ribonuclease H		PRO_0000038830
	Chain	866 – 1109	244	Integrase		PRO_0000038831
Regions
	Domain	63 – 134	72	Peptidase A2
	Domain	191 – 380	190	Reverse transcriptase
	Domain	575 – 697	123	RNase H
	Domain	874 – 1034	161	Integrase catalytic
	Zinc finger	832 – 873	42	Integrase-type
	DNA binding	1051 – 1103	53	Integrase-type
Sites
	Active site	68	1	By similarity

Sequences

	Sequence		Length	Mass (Da)
	P33459 [UniParc]. Last modified February 1, 1994. Version 1. Checksum: 97B2F4B370B03CF3	FASTA	1,109	127,678
	10 20 30 40 50 60 TRNHMSQLWK ERTYAKRMQR KERHKGKTAG KREEGDTCGA VRSSYGITSA PPMVQVRIGS 70 80 90 100 110 120 QQRNLLFDTG ADRTIVRWHE GSGNPAGRIK LQGIGGIVEG EKWNNVELEY KGETRKGTIV 130 140 150 160 170 180 VLPQSPVEVL GRDNMARFGI KIIMANLEEK RIPITKVKLK EGCTGPHVPQ WPLTEEKLKG 190 200 210 220 230 240 LTEIIDKLVE EGKLGKAPPH WTCNTPIFCI KKKSGKWRML IDFRELNKQT EDLTEAQLGL 250 260 270 280 290 300 PHPGGLQKKK HVTILDIGDA YFTIPLYEPY REYTCFTLLS PNNLGPCKRY YWKVLPQGWK 310 320 330 340 350 360 LSPSVYQFTM QEILEDWIQQ HPEIQFGIYM DDIYIGSDLE IKKHREIVKD LANYIAQYGF 370 380 390 400 410 420 TLPEEKRQKG YPAKWLGFEL HPQTWKFQKH TLPELTKGTI TLNKLQKLVG ELVWRQSIIG 430 440 450 460 470 480 KSIPNILKLM EGDRELQSER KIEEVHVKEW EACRKKLEEM EGNYYNKDKD VYGQLAWGDK 490 500 510 520 530 540 AIEYIVYQEK GKPLWVNVVH NIKNLSIPQQ VIKAAQKLTQ EVIIRTGKIP WILLPGKEED 550 560 570 580 590 600 WRLELQLGNI TWMPKFWSCY RGHTRWRKRN IIEEVVEGPT YYTDGGKKNK VGSLGFIVST 610 620 630 640 650 660 GEKFRKHEEG TNQQLELRAI EEALKQGPQT MNLVTDSRYA FEFLLRNWDE EVIKNPIQAR 670 680 690 700 710 720 IMEIAHKKDR IGVHWVPGHK GIPQNEEIDK YISEIFLAKE GEGILPKREE DAGYDLICPE 730 740 750 760 770 780 EVTIEPGQVK CIPIELRLNL KKSQWAMIAT KSSMAAKGVF TQGGIIDSGY QGQIQVIMYN 790 800 810 820 830 840 SNKIAVVIPQ GRKFAQLILM DKKHGKLEPW GESRKTERGE KGFGSTGMYW IENIPLAEED 850 860 870 880 890 900 HTKWHQDARS LHLEFEIPRT AAEDIVNQCE ICKEARTPAV IRGGNKRGVN HWQVDYTHYE 910 920 930 940 950 960 NIILLVWVET NSGLIYAEKV KGESGQEFRI KVMHWYALFG PESLQSDNGP AFAAEPTQLL 970 980 990 1000 1010 1020 MQYLGVKHTT GIPWNPQSQA IVERAHQLLK STLKKFQPQF VAVESAIAAA LVAINIKRKG 1030 1040 1050 1060 1070 1080 GLGTSPMDIF IYNKEQKRIN NKYNKNSQKI QFCYYRIRKR GHQESGKDQP RYCGKGKEPI 1090 1100 VVKDIESEKY LVIPYKDAKF IPPPTKEKE

References

[1]	"Nucleotide sequence and transcriptional analysis of molecular clones of CAEV which generate infectious virus." Saltarelli M., Querat G., Konings D.A.M., Vigne R., Clements J.E. Virology 179:347-364(1990) [PubMed: 2171210] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M33677 Genomic RNA. Translation: AAA91826.1. Different initiation.
PIR	B45345.
3D structure databases
ProteinModelPortal	P33459.
ModBase	Search...
Protein family/group databases
MEROPS	A02.006.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
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. IPR009007. Peptidase_aspartic_catalytic. IPR012337. RNaseH-like_dom. IPR002156. RNaseH_domain. IPR000477. RVT. IPR010659. RVT_connect. IPR010661. RVT_thumb. [Graphical view]
Gene3D	G3DSA:1.10.10.200. Intgrase_N_Zn_bd. 1 hit. G3DSA:2.40.70.10. Pept_Aspartc_cat. 1 hit.
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	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_CAEVC

Accession

Primary (citable) accession number: P33459

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1994
Last sequence update:	February 1, 1994
Last modified:	December 14, 2011
This is version 91 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program