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P23427

- POL_VILV2

UniProt

P23427 - POL_VILV2

Protein

Pol polyprotein

Gene

pol

Organism
Maedi visna virus (strain 1514 / clone LV1-1KS2) (MVV) (Visna lentivirus)
Status
Reviewed - Annotation score: 5 out of 5- Protein inferred from homologyi
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    • History
      Entry version 111 (01 Oct 2014)
      Sequence version 1 (01 Nov 1991)
      Previous versions | rss
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    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).PROSITE-ProRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei63 – 631PROSITE-ProRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri827 – 86842Integrase-typePROSITE-ProRule annotationAdd
    BLAST
    DNA bindingi1046 – 109853Integrase-typePROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

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

    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 LV1-1KS2) (MVV) (Visna lentivirus)
    Taxonomic identifieri11744 [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 – 139139ProteaseBy similarityPRO_0000038865Add
    BLAST
    Chaini140 – 690551Reverse transcriptase/ribonuclease HBy similarityPRO_0000038866Add
    BLAST
    Chaini691 – 824134Deoxyuridine 5'-triphosphate nucleotidohydrolaseBy similarityPRO_0000038867Add
    BLAST
    Chaini825 – 1105281IntegraseBy similarityPRO_0000038868Add
    BLAST

    Post-translational modificationi

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

    Structurei

    3D structure databases

    ProteinModelPortaliP23427.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini58 – 12972Peptidase A2PROSITE-ProRule annotationAdd
    BLAST
    Domaini186 – 375190Reverse transcriptasePROSITE-ProRule annotationAdd
    BLAST
    Domaini570 – 692123RNase HPROSITE-ProRule annotationAdd
    BLAST
    Domaini869 – 1029161Integrase catalyticPROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the retroviral Pol polyprotein family.Curated
    Contains 1 integrase catalytic domain.PROSITE-ProRule annotation
    Contains 1 integrase-type DNA-binding domain.PROSITE-ProRule annotation
    Contains 1 integrase-type zinc finger.PROSITE-ProRule annotation
    Contains 1 peptidase A2 domain.PROSITE-ProRule annotation
    Contains 1 reverse transcriptase domain.PROSITE-ProRule annotation
    Contains 1 RNase H domain.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri827 – 86842Integrase-typePROSITE-ProRule annotationAdd
    BLAST

    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.

    P23427-1 [UniParc]FASTAAdd to Basket

    « Hide

    TRNNMPSLWK KRTYAKGLPA EETAGKQQEG ATCGAVRAPY VVTEAPPKIE     50
    IKVGTRWKKL LVDTGADKTI VTSHDMSGIP KGRIILQGIG GIIEGEKWEQ 100
    VHLQYKDKMI KGTIVVLATS PVEVLGRDNM RELGIGLIMA NLEEKKIPST 150
    RVRLKEGCKG PHIAQWPLTQ EKLEGLKEIV DRLEKEGKVG RAPPHWTCNT 200
    PIFCIKKKSG KWRMLIDFRE LNKQTEDLAE AQLGLPHPGG LQRKKHVTIL 250
    DIGDAYFTIP LYEPYRQYTC FTMLSPNNLG PCVRYYWKVL PQGWKLSPAV 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 VPGPTYYTDG GKKNGRGSLG YIASTGEKFR 600
    IHEEGTNQQL ELRAIEEACK QGPEKMNIVT DSRYAYEFML RNWDEEVIRN 650
    PIQARIMELV HNKEKIGVHW VPGHKGIPQN EEIDRYISEI FLAKEGRGIL 700
    QKRAEDAGYD LICPQEISIP AGQVKRIAID LKINLKKDQW AMIGTKSSFA 750
    NKGVFVQGGI IDSGYQGTIQ VVIYNSNNKE VVIPQGRKFA QLILMPLIHE 800
    ELKPWGETRK 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):126,623
    Last modified:November 1, 1991 - v1
    Checksum:i34F9E772E96DB520
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M60610 Unassigned DNA. Translation: AAA17529.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M60610 Unassigned DNA. Translation: AAA17529.1 .

    3D structure databases

    ProteinModelPortali P23427.
    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_VILV2
    AccessioniPrimary (citable) accession number: P23427
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1991
    Last sequence update: November 1, 1991
    Last modified: October 1, 2014
    This is version 111 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