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Q72498

- Q72498_9HIV1

UniProt

Q72498 - Q72498_9HIV1

Protein
Submitted name:

POL polyprotein

Gene

pol

Organism
Human immunodeficiency virus 1
Status
Unreviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 125 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Catalytic activityi

    3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid.SAAS annotation
    Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).SAAS annotation
    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.SAAS annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi780 – 7801Cadmium 1Imported
    Metal bindingi780 – 7801Cadmium 2Imported
    Metal bindingi782 – 7821Cadmium 1; via tele nitrogenImported
    Metal bindingi807 – 8071Cadmium 1Imported
    Metal bindingi807 – 8071Cadmium 2Imported
    Binding sitei818 – 8181SucroseImported
    Metal bindingi831 – 8311Cadmium 2Imported
    Binding sitei888 – 8881SucroseImported

    GO - Molecular functioni

    1. aspartic-type endopeptidase activity Source: UniProtKB-KW
    2. DNA binding Source: UniProtKB-KW
    3. RNA binding Source: InterPro
    4. RNA-directed DNA polymerase activity Source: UniProtKB-KW
    5. RNA-DNA hybrid ribonuclease activity Source: InterPro
    6. zinc ion binding Source: InterPro

    GO - Biological processi

    1. DNA integration Source: UniProtKB-KW
    2. DNA recombination Source: UniProtKB-KW
    3. establishment of integrated proviral latency Source: UniProtKB-KW
    4. viral entry into host cell Source: UniProtKB-KW

    Keywords - Molecular functioni

    Aspartyl proteaseSAAS annotation, EndonucleaseSAAS annotation, Hydrolase, Nuclease, Nucleotidyltransferase, Protease, RNA-directed DNA polymeraseSAAS annotation, Transferase

    Keywords - Biological processi

    DNA integration, DNA recombinationSAAS annotation, Viral genome integrationSAAS annotation, Virus entry into host cell

    Keywords - Ligandi

    DNA-bindingSAAS annotation, Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Submitted name:
    POL polyproteinImported
    Gene namesi
    Name:polImported
    OrganismiHuman immunodeficiency virus 1Imported
    Taxonomic identifieri11676 [NCBI]
    Taxonomic lineageiVirusesRetro-transcribing virusesRetroviridaeOrthoretrovirinaeLentivirusPrimate lentivirus group
    Virus hostiHomo sapiens (Human) [TaxID: 9606]

    Structurei

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3AO1X-ray1.90A/B765-927[»]
    3AO3X-ray1.90A/B765-927[»]
    3AO4X-ray1.95A/B765-927[»]
    3AO5X-ray1.80A/B765-927[»]
    3L3UX-ray1.40A/B765-927[»]
    3L3VX-ray2.00A/B765-927[»]
    3OVNX-ray1.95A/B765-927[»]
    3VQ4X-ray1.90A/B770-927[»]
    3VQ5X-ray1.70A/B771-927[»]
    3VQ6X-ray1.80A/B770-927[»]
    3VQ7X-ray1.63A/B770-927[»]
    3VQ8X-ray1.60A/B771-927[»]
    3VQ9X-ray1.90A/B/C765-925[»]
    3VQAX-ray1.90A/B770-927[»]
    3VQBX-ray2.10A/B770-927[»]
    3VQCX-ray2.30A/B770-927[»]
    3VQDX-ray2.00A/B770-927[»]
    3VQEX-ray1.70A/B771-927[»]
    3VQPX-ray2.10A/B770-927[»]
    3VQQX-ray2.00A/B770-927[»]
    ProteinModelPortaliQ72498.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ72498.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni802 – 8032Sucrose bindingImported
    Regioni811 – 8144Sucrose bindingImported

    Sequence similaritiesi

    Belongs to the retroviral Pol polyprotein family.UniRule annotation
    Contains RNase H domain.SAAS annotation
    Contains integrase catalytic domain.SAAS annotation
    Contains integrase-type DNA-binding domain.SAAS annotation
    Contains integrase-type zinc finger.SAAS annotation
    Contains peptidase A2 domain.SAAS annotation
    Contains peptidase Adomain.SAAS annotation
    Contains reverse transcriptase domain.SAAS annotation

    Keywords - Domaini

    Zinc-fingerSAAS annotation

    Family and domain databases

    Gene3Di1.10.10.200. 1 hit.
    2.30.30.10. 1 hit.
    2.40.70.10. 1 hit.
    3.30.420.10. 2 hits.
    InterProiIPR001969. Aspartic_peptidase_AS.
    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]
    PfamiPF00552. 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.
    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: Fragment.

    Q72498-1 [UniParc]FASTAAdd to Basket

    « Hide

    FFREDLAFPQ GKAREFSSEQ TRANSPTRRE LQVWGRDNNS LSEAGADRQG     50
    TVSFSFPQIT LWQRPLVTIK IGGQLKEALL DTGADDTVLE EMNLPGRWKP 100
    KMIGGIGGFI KVRQYDQILI EICGHKAIGT VLVGPTPVNI IGRNLLTQIG 150
    CTLNFPISPI ETVPVKLKPG MDGPKVKQWP LTEEKIKALV EICTEMEKEG 200
    KISKIGPENP YNTPVFAIKK KDSTKWRKLV DFRELNKRTQ DFWEVQLGIP 250
    HPAGLKQKKS VTVLDVGDAY FSVPLDKDFR KYTAFTIPSI NNETPGIRYQ 300
    YNVLPQGWKG SPAIFQCSMT KILEPFRKQN PDVVIYQYMD DLYVGSDLEI 350
    GQHRTKIEEL RQHLLRWGFT TPDKKHQKEP PFLWMGYELH PDKWTVQPIV 400
    LPEKDSWTVN DIQKLVGKLN WASQIYAGIK VRQLCKLLRG TKALTEVVPL 450
    TEEAELELAE NREILKEPVH GVYYDPSKDL IAEIQKQGQG QWTYQIYQEP 500
    FRNLKTGKYA RMKGAHTNDV KQLTEAVQKI ATESIVIWGK TPKFKLPIQK 550
    ETWEAWWTEY WQATWIPEWE FVNTPPLVKL WYQLEKEPII GAETFYVDGA 600
    ANRETKLGKA GYVTDRGRQK VVPLTDTTNQ KTELQAIHLA LQDSGLEVNI 650
    VTDSQYALGI IQAQPDKSES ELVSQIIEQL IKKEKVYLAW VPAHKGIGGN 700
    EQVDKLVSAG IRKVLFLDGI DKAQEEHEKY HSNWRAMASD FNLPPVVAKE 750
    IVASCDKCQL KGEAMHGQVD CSPGIWQLDC THLEGKVILV AVHVASGYIE 800
    AEVIPAETGQ ETAYFLLKLA GRWPVKTVHT DNGSNFTSTT VKAACWWAGI 850
    KQEFGIPYNP QSQGVIESMN KELKKIIGQV RDQAEHLKTA VQMAVFIHNF 900
    KRKGGIGGYS AGERIVDIIA TDIQTKELQK QITKIQNFRV YYRDSRDPVW 950
    KGPAKLLWKG EGAVVIQDNS DIKVVPRRKA KIIRDYGKQM AGDDCVASRQ 1000
    DED 1003
    Length:1,003
    Mass (Da):113,720
    Last modified:November 1, 1996 - v1
    Checksum:i4E67C747EED795C7
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Non-terminal residuei1 – 11Imported

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U26942 Genomic DNA. Translation: AAB60572.1.
    PIRiA47330.
    B47330.
    C47330.
    D47330.
    E47330.
    F47330.
    S32132.
    S32140.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U26942 Genomic DNA. Translation: AAB60572.1 .
    PIRi A47330.
    B47330.
    C47330.
    D47330.
    E47330.
    F47330.
    S32132.
    S32140.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    3AO1 X-ray 1.90 A/B 765-927 [» ]
    3AO3 X-ray 1.90 A/B 765-927 [» ]
    3AO4 X-ray 1.95 A/B 765-927 [» ]
    3AO5 X-ray 1.80 A/B 765-927 [» ]
    3L3U X-ray 1.40 A/B 765-927 [» ]
    3L3V X-ray 2.00 A/B 765-927 [» ]
    3OVN X-ray 1.95 A/B 765-927 [» ]
    3VQ4 X-ray 1.90 A/B 770-927 [» ]
    3VQ5 X-ray 1.70 A/B 771-927 [» ]
    3VQ6 X-ray 1.80 A/B 770-927 [» ]
    3VQ7 X-ray 1.63 A/B 770-927 [» ]
    3VQ8 X-ray 1.60 A/B 771-927 [» ]
    3VQ9 X-ray 1.90 A/B/C 765-925 [» ]
    3VQA X-ray 1.90 A/B 770-927 [» ]
    3VQB X-ray 2.10 A/B 770-927 [» ]
    3VQC X-ray 2.30 A/B 770-927 [» ]
    3VQD X-ray 2.00 A/B 770-927 [» ]
    3VQE X-ray 1.70 A/B 771-927 [» ]
    3VQP X-ray 2.10 A/B 770-927 [» ]
    3VQQ X-ray 2.00 A/B 770-927 [» ]
    ProteinModelPortali Q72498.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Miscellaneous databases

    EvolutionaryTracei Q72498.

    Family and domain databases

    Gene3Di 1.10.10.200. 1 hit.
    2.30.30.10. 1 hit.
    2.40.70.10. 1 hit.
    3.30.420.10. 2 hits.
    InterProi IPR001969. Aspartic_peptidase_AS.
    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 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.
    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. "Production of acquired immunodeficiency syndrome-associated retrovirus in human and nonhuman cells transfected with an infectious molecular clone."
      Adachi A., Gendelman H.E., Koenig S., Folks T., Willey R., Rabson A., Martin M.A.
      J. Virol. 59:284-291(1986) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NL4-3Imported.
    2. "Recovery of virtually full-length HIV-1 provirus of diverse subtypes from primary virus cultures using the polymerase chain reaction."
      Salminen M.O., Koch C., Sanders-Buell E., Ehrenberg P.K., Michael N.L., Carr J.K., Burke D.S., McCutchan F.E.
      Virology 213:80-86(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NL4-3Imported.
    3. Salminen M.S.
      Submitted (MAY-1995) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NL4-3Imported.
    4. "Crystal structure of the HIV-1 integrase core domain in complex with sucrose reveals details of an allosteric inhibitory binding site."
      Wielens J., Headey S.J., Jeevarajah D., Rhodes D.I., Deadman J., Chalmers D.K., Scanlon M.J., Parker M.W.
      FEBS Lett. 584:1455-1462(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.40 ANGSTROMS) OF 765-927.
    5. "Fragment-based design of ligands targeting a novel site on the integrase enzyme of human immunodeficiency virus 1."
      Wielens J., Headey S.J., Deadman J.J., Rhodes D.I., Le G.T., Parker M.W., Chalmers D.K., Scanlon M.J.
      ChemMedChem 6:258-261(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.80 ANGSTROMS) OF 765-927.
    6. "Parallel screening of low molecular weight fragment libraries: do differences in methodology affect hit identification?"
      Wielens J., Headey S.J., Rhodes D.I., Mulder R.J., Dolezal O., Deadman J.J., Newman J., Chalmers D.K., Parker M.W., Peat T.S., Scanlon M.J.
      J. Biomol. Screen. 18:147-159(2013) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.60 ANGSTROMS) OF 771-927.

    Entry informationi

    Entry nameiQ72498_9HIV1
    AccessioniPrimary (citable) accession number: Q72498
    Entry historyi
    Integrated into UniProtKB/TrEMBL: November 1, 1996
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 125 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    3D-structureImported, Multifunctional enzymeSAAS annotation

    External Data

    Dasty 3