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P19028

- POL_FIVSD

UniProt

P19028 - POL_FIVSD

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Protein
Pol polyprotein
Gene
pol
Organism
Feline immunodeficiency virus (strain San Diego) (FIV)
Status
Reviewed - Annotation score: 5 out of 5 - Protein inferred from homologyi

Functioni

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 activityi

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).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei68 – 681For protease activity By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri848 – 88942Integrase-type
Add
BLAST
DNA bindingi1067 – 111549Integrase-type
Add
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. RNA binding Source: InterPro
  3. RNA-DNA hybrid ribonuclease activity Source: InterPro
  4. RNA-directed DNA polymerase activity Source: UniProtKB-KW
  5. aspartic-type endopeptidase activity Source: UniProtKB-KW
  6. dUTP diphosphatase activity Source: UniProtKB-EC
  7. exoribonuclease H activity Source: UniProtKB-EC
  8. zinc ion binding Source: InterPro
Complete GO annotation...

GO - Biological processi

  1. DNA integration Source: UniProtKB-KW
  2. DNA recombination Source: UniProtKB-KW
  3. dUTP metabolic process Source: InterPro
  4. establishment of integrated proviral latency Source: UniProtKB-KW
  5. viral entry into host cell Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Aspartyl protease, Endonuclease, Hydrolase, Nuclease, Nucleotidyltransferase, Protease, RNA-directed DNA polymerase, Transferase

Keywords - Biological processi

DNA integration, DNA recombination, Nucleotide metabolism, Viral genome integration, Virus entry into host cell

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Pol polyprotein
Cleaved into the following 4 chains:
Alternative name(s):
Retropepsin
Alternative name(s):
Exoribonuclease H (EC:3.1.13.2)
Integrase
Short name:
IN
Gene namesi
Name:pol
OrganismiFeline immunodeficiency virus (strain San Diego) (FIV)
Taxonomic identifieri11675 [NCBI]
Taxonomic lineageiVirusesRetro-transcribing virusesRetroviridaeOrthoretrovirinaeLentivirusFeline lentivirus group
Virus hostiFelidae (cat family) [TaxID: 9681]

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 154154Protease By similarity
PRO_0000038845Add
BLAST
Chaini155 – 710556Reverse transcriptase/ribonuclease H By similarity
PRO_0000038846Add
BLAST
Chaini711 – 843133Deoxyuridine 5'-triphosphate nucleotidohydrolase By similarity
PRO_0000038847Add
BLAST
Chaini844 – 1124281Integrase By similarity
PRO_0000038848Add
BLAST

Post-translational modificationi

Cleavage sites that yield the mature proteins remain to be determined.

Structurei

3D structure databases

ProteinModelPortaliP19028.
SMRiP19028. Positions 42-154, 711-843.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini63 – 14482Peptidase A2
Add
BLAST
Domaini200 – 389190Reverse transcriptase
Add
BLAST
Domaini592 – 712121RNase H
Add
BLAST
Domaini899 – 1049151Integrase catalytic
Add
BLAST

Sequence similaritiesi

Contains 1 RNase H domain.

Keywords - Domaini

Zinc-finger

Family and domain databases

Gene3Di1.10.10.200. 1 hit.
2.30.30.10. 1 hit.
2.40.70.10. 1 hit.
2.70.40.10. 1 hit.
3.30.420.10. 2 hits.
InterProiIPR001969. Aspartic_peptidase_AS.
IPR029054. dUTPase-like.
IPR008180. dUTPase/dCTP_deaminase.
IPR008181. dUTPase_1.
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_dom.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
IPR000477. RT_dom.
IPR010659. RVT_connect.
IPR010661. RVT_thumb.
[Graphical view]
PfamiPF00692. 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]
SUPFAMiSSF46919. SSF46919. 1 hit.
SSF50122. SSF50122. 1 hit.
SSF50630. SSF50630. 1 hit.
SSF51283. SSF51283. 1 hit.
SSF53098. SSF53098. 2 hits.
TIGRFAMsiTIGR00576. dut. 1 hit.
PROSITEiPS50175. 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]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P19028-1 [UniParc]FASTAAdd to Basket

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KKFGKLEGGA SCSPSESSAA NSNAICTSNG GKIIGFINYN KVGTTTSLEK     50
RPEILIFVNG YPIKFLLDTG ADITILNRRD FQVKNSIENG RQNMIGVGGG 100
KRGTNYINVH LEIRDENYKT QCIFGNVCVL EDNSLIQPLL GRDNMIKFNI 150
RLVMAQISDK IPIVKVKMKD PNKGPQIKQW PLSNEKIEAL TEIVERLERE 200
GKVKRADPNN PWNTPVFAIK KKSGKWRMLI DFRELNKLTE KGAEVQLGLP 250
HPAGLQMKKQ ITVLDIGDAY FTNPLDPDYA PYTAFTLPRK NNAGPGRRFV 300
WCSLPQGWIL SPLIYQSTLD NIIQPFIRQN PQLDIYQYMD DIYIGSNLSK 350
KEHKEKVEEL RKLLLWWGFE TPEDKLQEEP PYKWMGYELH PLTWTIQQKQ 400
LEIPEKPTLN ELQKLAGKIN WASQTIPELS IKSLTNMTRG NQNLNSTREW 450
TEEARLEVQK AKRAIEEQVQ LGYYDPSKEL YAKLSLVGPH QISYQVYQKC 500
PEKILWYGKM SRQKKKAENT CDIALRACYK IREESIIRIG KEPRYEIPTS 550
REAWESNLIN SPYLKAPPPE VDYIHAALNI KRALSMIKDP PISGAETWYI 600
DGGRKLGKAA KAAYWTDTGK WQVMELEGSN QKAEIQALLL ALKAGPEEMN 650
IITDSQYMIN ILSQQPDKME GIWQEVLEEL EKKTAIFIDW VPGHKGIPGN 700
EEVDKLCQTM MIIEGDGILD KRTEDAGYDL LAAKEIHLLP GEVKVIPTGV 750
KLMLPKGHWG LIMGKSSIGS KGLDVLGGVI DEGYRGEIGV IMINLSKKSI 800
TLLEQQKIAQ LIILPHKHEA LEQGKVVMDS ERGEKGYGST GVFSSWVDRI 850
EEAETNHEKF HSDPQYLRTE FNLPKMVAEE IRRKCPVCRI RGEQVGGQLK 900
IGPGIWQMDC THFDGKIILV AIHVESGYIW AQIISQETAD CTVKAVLQLL 950
SAHIVTELQT DNGPNFKNQK MEGVLNYMGV KHKFGIPGNP QSQALVENVN 1000
QTLKVWVHKF LPETTSLDNA LALAVHCLNF KQRGRIGGMA PYELLAQQES 1050
LRIQDYFSAI PQKLQAQWIY YKDQKDKKWK GPMRVEYWGQ GSVLLKDEEK 1100
GYFLIPRRHV KRVPEPCALP EGDE 1124
Length:1,124
Mass (Da):127,605
Last modified:November 1, 1990 - v1
Checksum:i1A4706685CFDA8CF
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M36968 Genomic RNA. Translation: AAA43076.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M36968 Genomic RNA. Translation: AAA43076.1 .

3D structure databases

ProteinModelPortali P19028.
SMRi P19028. Positions 42-154, 711-843.
ModBasei Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 1.10.10.200. 1 hit.
2.30.30.10. 1 hit.
2.40.70.10. 1 hit.
2.70.40.10. 1 hit.
3.30.420.10. 2 hits.
InterProi IPR001969. Aspartic_peptidase_AS.
IPR029054. dUTPase-like.
IPR008180. dUTPase/dCTP_deaminase.
IPR008181. dUTPase_1.
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_dom.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
IPR000477. RT_dom.
IPR010659. RVT_connect.
IPR010661. RVT_thumb.
[Graphical view ]
Pfami 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 ]
SUPFAMi SSF46919. SSF46919. 1 hit.
SSF50122. SSF50122. 1 hit.
SSF50630. SSF50630. 1 hit.
SSF51283. SSF51283. 1 hit.
SSF53098. SSF53098. 2 hits.
TIGRFAMsi TIGR00576. dut. 1 hit.
PROSITEi 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 ]
ProtoNeti Search...

Publicationsi

  1. "Comparison of two host cell range variants of feline immunodeficiency virus."
    Phillips T.R., Talbott R.L., Lamont C., Muir S., Lovelace K.M., Elder J.H.
    J. Virol. 64:4605-4613(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    Strain: Isolate PPR.

Entry informationi

Entry nameiPOL_FIVSD
AccessioniPrimary (citable) accession number: P19028
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: November 1, 1990
Last modified: June 11, 2014
This is version 119 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Caution

The N-terminus of the polypeptide is uncertain.

Keywords - Technical termi

Multifunctional enzyme

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi