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P23426

- POL_VILV1

UniProt

P23426 - POL_VILV1

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Protein
Pol polyprotein
Gene
pol
Organism
Maedi visna virus (strain 1514 / clone LV1-1KS1) (MVV) (Visna lentivirus)
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 sitei63 – 631 By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri827 – 86842Integrase-type
Add
BLAST
DNA bindingi1046 – 109853Integrase-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

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 (EC:3.4.23.-)
Alternative name(s):
Exoribonuclease H (EC:3.1.13.2)
Integrase
Short name:
IN
Gene namesi
Name:pol
OrganismiMaedi visna virus (strain 1514 / clone LV1-1KS1) (MVV) (Visna lentivirus)
Taxonomic identifieri11743 [NCBI]
Taxonomic lineageiVirusesRetro-transcribing virusesRetroviridaeOrthoretrovirinaeLentivirusOvine/caprine lentivirus group
Virus hostiOvis aries (Sheep) [TaxID: 9940]

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 139139Protease By similarity
PRO_0000038861Add
BLAST
Chaini140 – 690551Reverse transcriptase/ribonuclease H By similarity
PRO_0000038862Add
BLAST
Chaini691 – 824134Deoxyuridine 5'-triphosphate nucleotidohydrolase By similarity
PRO_0000038863Add
BLAST
Chaini825 – 1105281Integrase By similarity
PRO_0000038864Add
BLAST

Post-translational modificationi

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

Structurei

3D structure databases

ProteinModelPortaliP23426.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini58 – 12972Peptidase A2
Add
BLAST
Domaini186 – 375190Reverse transcriptase
Add
BLAST
Domaini570 – 692123RNase H
Add
BLAST
Domaini869 – 1029161Integrase 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.
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.
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.

P23426-1 [UniParc]FASTAAdd to Basket

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TRNNMPSLWK KRTYAKGLPA EETAGKQQEG ATCGAVRAPY VVTEAPPKIE     50
IKVGTRWKKL LVDTGADKTI VTSHDMSGIP KGRIILQGIG GIIEGEKWEQ 100
VHLQYKDKII RGTIVVLATS PVEVLGRDNM SELGIGLIMA NLEEKKIPIT 150
EVRLKEGCKG PHIAQWPLTQ EKLEGLKEIV DRLEKEGKVG RAPPHWTCNT 200
PIFCIKKKSG KWRMLIDFRE LNKQTEDLAE AQLGLPHPGG LQRKKHVTIL 250
DIGDAYFTIP LYEPYRQYTC FTMLSPNNLG PCVRYYWKVL PQGWKLSPSV 300
YQFTMQKILR GWIEEHPMIQ FGIYMDDIYI GSDLGLEEHR GIVNELASYI 350
AQYGFMLPED KRQEGYPAKW LGFELHPEKW KFQKHTLPEI TEGPITLNKL 400
QKLVGDLVWR QSLIGKSIPN ILKLMEGDRA LQSERYIESI HVREWEACRQ 450
KLKEMEGNYY DEEKDIYGQL DWGNKAIEYI VFQEKGKPLW VNVVHSIKNL 500
SQAQQIIKAA QKLTQEVIIR TGKIPWILLP GREEDWILEL QMGNINWMPS 550
FWSCYKGSVR WKKRNVIAEV VSGPTYYTDG GKKNGRGSLG YIASTGEKFR 600
IYEEGTNQQL ELRAIEEACK QGPEKMNIVT DSRYAYEFML RNWDEEVIRN 650
PIQARIMELM HNKEKIGVHW VPGHKGIPQN EEIDRYISEI FLAKEGRGIL 700
QKRAEDAGYD LICPQEISIP AGQVKRIAID LKINLKKDQW AMIGTKSSFA 750
NKGVFVQGGI IDSGYQGTIQ VVIYNSNNKE VVIPQGRKFA QLILMPLIHE 800
ELEPWGETRK TERGEQGFGS TGMYWIENIP LAEEEHNKWH QDAVSLHLEF 850
GIPRTAAEDI VQQCDVCQEN KMPSTLRGSN KRGIDHWQVD YTHYEDKIIL 900
VWVETNSGLI YAERVKGETG QEFRVQTMKW YAMFAPKSLQ SDNGPAFVAE 950
STQLLMKYLG IEHTTGIPWN PQSQALVERT HQTLKNTLEK LIPMFNAFES 1000
ALAGTLITLN IKRKGGLGTS PMDIFIFNKE QQRIQQQSKS KQEKIRFCYY 1050
RTRKRGHPGE WQGPTQVLWG GDGAIVVKDR GTDRYLVIAN KDVKFIPPPK 1100
EIQKE 1105
Length:1,105
Mass (Da):126,628
Last modified:November 1, 1991 - v1
Checksum:i3CD012675D163839
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M60609 Unassigned RNA. Translation: AAA17524.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M60609 Unassigned RNA. Translation: AAA17524.1 .

3D structure databases

ProteinModelPortali P23426.
ModBasei Search...
MobiDBi 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.
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.
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. Cited for: NUCLEOTIDE SEQUENCE.

Entry informationi

Entry nameiPOL_VILV1
AccessioniPrimary (citable) accession number: P23426
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1991
Last sequence update: November 1, 1991
Last modified: June 11, 2014
This is version 110 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Miscellaneous

This protein may be synthesized as a Gag-Pol polyprotein.

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

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