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Q5KWC1

- Q5KWC1_GEOKA

UniProt

Q5KWC1 - Q5KWC1_GEOKA

Protein

DNA polymerase

Gene

polA

Organism
Geobacillus kaustophilus (strain HTA426)
Status
Unreviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 90 (01 Oct 2014)
      Sequence version 1 (01 Feb 2005)
      Previous versions | rss
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    Functioni

    Catalytic activityi

    Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei617 – 6171CTP
    Binding sitei631 – 6311CTPImported
    Metal bindingi655 – 6551MagnesiumImported
    Metal bindingi655 – 6551ManganeseImported
    Binding sitei655 – 6551Sulfate 6
    Metal bindingi656 – 6561Magnesium; via carbonyl oxygenImported
    Metal bindingi656 – 6561Manganese; via carbonyl oxygenImported
    Binding sitei658 – 6581CTPImported
    Binding sitei684 – 6841CTPImported
    Binding sitei704 – 7041CTPImported
    Binding sitei708 – 7081CTPImported
    Binding sitei712 – 7121CTP
    Binding sitei716 – 7161CTPImported
    Binding sitei750 – 7501Sulfate 5
    Metal bindingi832 – 8321MagnesiumImported
    Metal bindingi832 – 8321ManganeseImported
    Binding sitei832 – 8321CTP
    Binding sitei833 – 8331Sulfate 6

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi471 – 4755CTPImported
    Nucleotide bindingi769 – 7702CTPImported

    GO - Molecular functioni

    1. 3'-5' exonuclease activity Source: InterPro
    2. DNA binding Source: UniProtKB-KW
    3. DNA-directed DNA polymerase activity Source: UniProtKB-KW
    4. metal ion binding Source: UniProtKB-KW
    5. nucleotide binding Source: UniProtKB-KW

    Keywords - Molecular functioni

    DNA-directed DNA polymeraseImported, Hydrolase, NucleaseSAAS annotation, Nucleotidyltransferase, Transferase

    Keywords - Biological processi

    DNA replicationUniRule annotation

    Keywords - Ligandi

    DNA-bindingUniRule annotationSAAS annotation, MagnesiumImported, ManganeseImported, Metal-bindingImported, Nucleotide-bindingImported

    Enzyme and pathway databases

    BioCyciGKAU235909:GJO7-2825-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA polymeraseUniRule annotation (EC:2.7.7.7UniRule annotation)
    Gene namesi
    Name:polAImported
    Ordered Locus Names:GK2730Imported
    OrganismiGeobacillus kaustophilus (strain HTA426)Imported
    Taxonomic identifieri235909 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeGeobacillus
    ProteomesiUP000001172: Chromosome

    Interactioni

    Protein-protein interaction databases

    STRINGi235909.GK2730.

    Structurei

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1NJWX-ray1.90A299-878[»]
    1UA0X-ray2.10A299-878[»]
    2HHUX-ray1.80A300-878[»]
    2HHVX-ray1.55A300-878[»]
    2HHWX-ray1.88A/D299-878[»]
    2HHXX-ray2.26A300-878[»]
    2HVIX-ray1.98A/D300-878[»]
    3HP6X-ray1.81A/D299-878[»]
    3PV8X-ray1.52A/D287-878[»]
    3PX0X-ray1.73A/D287-878[»]
    3PX4X-ray1.58A/D287-878[»]
    3PX6X-ray1.59A/D287-878[»]
    4DQIX-ray1.69A/D287-878[»]
    4DQPX-ray1.74A/D287-878[»]
    4DQQX-ray1.60A/D287-878[»]
    4DQRX-ray1.95A/D287-878[»]
    4DQSX-ray1.66A287-878[»]
    4DS4X-ray1.68A/D287-878[»]
    4DS5X-ray1.68A/D287-878[»]
    4DSEX-ray1.67A/D287-878[»]
    4DSFX-ray1.66A/D287-878[»]
    4E0DX-ray1.58A287-878[»]
    4EZ6X-ray1.64A/D287-878[»]
    4EZ9X-ray1.64A/D287-878[»]
    4F2RX-ray1.63A/D287-878[»]
    4F2SX-ray1.65A/D287-878[»]
    4F3OX-ray1.57A/D287-878[»]
    4F4KX-ray1.60A/D287-878[»]
    4F8RX-ray1.64A/D287-878[»]
    ProteinModelPortaliQ5KWC1.
    SMRiQ5KWC1. Positions 299-878.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ5KWC1.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni669 – 6713Sulfate 5 binding

    Sequence similaritiesi

    Belongs to the DNA polymerase type-A family.UniRule annotation
    Contains 5'-3' exonuclease domain.SAAS annotation

    Phylogenomic databases

    HOGENOMiHOG000020998.
    KOiK02335.
    OMAiAPMQGSA.
    OrthoDBiEOG6SJJH7.

    Family and domain databases

    Gene3Di3.30.420.10. 1 hit.
    3.40.50.1010. 1 hit.
    InterProiIPR002562. 3'-5'_exonuclease_dom.
    IPR020046. 5-3_exonucl_a-hlix_arch_N.
    IPR020045. 5-3_exonuclease_C.
    IPR002421. 5-3_exonuclease_N.
    IPR019760. DNA-dir_DNA_pol_A_CS.
    IPR001098. DNA-dir_DNA_pol_A_palm_dom.
    IPR018320. DNA_polymerase_1.
    IPR002298. DNA_polymerase_A.
    IPR008918. HhH2.
    IPR029060. PIN_domain-like.
    IPR012337. RNaseH-like_dom.
    [Graphical view]
    PfamiPF01367. 5_3_exonuc. 1 hit.
    PF02739. 5_3_exonuc_N. 1 hit.
    PF00476. DNA_pol_A. 1 hit.
    [Graphical view]
    PRINTSiPR00868. DNAPOLI.
    SMARTiSM00474. 35EXOc. 1 hit.
    SM00475. 53EXOc. 1 hit.
    SM00279. HhH2. 1 hit.
    SM00482. POLAc. 1 hit.
    [Graphical view]
    SUPFAMiSSF47807. SSF47807. 1 hit.
    SSF53098. SSF53098. 1 hit.
    SSF88723. SSF88723. 1 hit.
    TIGRFAMsiTIGR00593. pola. 1 hit.
    PROSITEiPS00447. DNA_POLYMERASE_A. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q5KWC1-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRLKKKLVLI DGSSVAYRAF FALPLLHNDK GIHTNAVYGF TMMLNKILAE    50
    EEPTHMLVAF DAGKTTFRHE AFQEYKGGRQ QTPPELSEQF PLLRELLRAY 100
    RIPAYELENY EADDIIGTLA ARAEQEGFEV KVISGDRDLT QLASPHVTVD 150
    ITKKGITDIE PYTPETVREK YGLTPEQIVD LKGLMGDKSD NIPGVPGIGE 200
    KTAVKLLRQF GTVENVLASI DEIKGEKLKE TLRQHREMAL LSKKLAAIRR 250
    DAPVELSLDD IVYQGEDREK VVALFKELGF QSFLEKMESP SSEEEKPLAK 300
    MAFTLADRVT EEMLADKAAL VVEVVEENYH DAPIVGIAVV NEHGRFFLRP 350
    ETALADPQFV AWLGDETKKK SMFDSKRAAV ALKWKGIELC GVSFDLLLAA 400
    YLLDPAQGVD DVAAAAKMKQ YEAVRPDEAV YGKGAKRAVP DEPVLAEHLV 450
    RKAAAIWELE RPFLDELRRN EQDRLLVELE QPLSSILAEM EFAGVKVDTK 500
    RLEQMGKELA EQLGTVEQRI YELAGQEFNI NSPKQLGVIL FEKLQLPVLK 550
    KTKTGYSTSA DVLEKLAPYH EIVENILHYR QLGKLQSTYI EGLLKVVRPD 600
    TKKVHTIFNQ ALTQTGRLSS TEPNLQNIPI RLEEGRKIRQ AFVPSESDWL 650
    IFAADYSQIE LRVLAHIAED DNLMEAFRRD LDIHTKTAMD IFQVSEDEVT 700
    PNMRRQAKAV NFGIVYGISD YGLAQNLNIS RKEAAEFIER YFESFPGVKR 750
    YMENIVQEAK QKGYVTTLLH RRRYLPDITS RNFNVRSFAE RMAMNTPIQG 800
    SAADIIKKAM IDLNARLKEE RLQARLLLQV HDELILEAPK EEMERLCRLV 850
    PEVMEQAVTL RVPLKVDYHY GSTWYDAK 878
    Length:878
    Mass (Da):99,646
    Last modified:February 1, 2005 - v1
    Checksum:iD50E58940CE21B01
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000043 Genomic DNA. Translation: BAD77015.1.
    RefSeqiYP_148583.1. NC_006510.1.

    Genome annotation databases

    EnsemblBacteriaiBAD77015; BAD77015; GK2730.
    GeneIDi3184068.
    KEGGigka:GK2730.
    PATRICi21966931. VBIGeoKau81518_2914.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000043 Genomic DNA. Translation: BAD77015.1 .
    RefSeqi YP_148583.1. NC_006510.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1NJW X-ray 1.90 A 299-878 [» ]
    1UA0 X-ray 2.10 A 299-878 [» ]
    2HHU X-ray 1.80 A 300-878 [» ]
    2HHV X-ray 1.55 A 300-878 [» ]
    2HHW X-ray 1.88 A/D 299-878 [» ]
    2HHX X-ray 2.26 A 300-878 [» ]
    2HVI X-ray 1.98 A/D 300-878 [» ]
    3HP6 X-ray 1.81 A/D 299-878 [» ]
    3PV8 X-ray 1.52 A/D 287-878 [» ]
    3PX0 X-ray 1.73 A/D 287-878 [» ]
    3PX4 X-ray 1.58 A/D 287-878 [» ]
    3PX6 X-ray 1.59 A/D 287-878 [» ]
    4DQI X-ray 1.69 A/D 287-878 [» ]
    4DQP X-ray 1.74 A/D 287-878 [» ]
    4DQQ X-ray 1.60 A/D 287-878 [» ]
    4DQR X-ray 1.95 A/D 287-878 [» ]
    4DQS X-ray 1.66 A 287-878 [» ]
    4DS4 X-ray 1.68 A/D 287-878 [» ]
    4DS5 X-ray 1.68 A/D 287-878 [» ]
    4DSE X-ray 1.67 A/D 287-878 [» ]
    4DSF X-ray 1.66 A/D 287-878 [» ]
    4E0D X-ray 1.58 A 287-878 [» ]
    4EZ6 X-ray 1.64 A/D 287-878 [» ]
    4EZ9 X-ray 1.64 A/D 287-878 [» ]
    4F2R X-ray 1.63 A/D 287-878 [» ]
    4F2S X-ray 1.65 A/D 287-878 [» ]
    4F3O X-ray 1.57 A/D 287-878 [» ]
    4F4K X-ray 1.60 A/D 287-878 [» ]
    4F8R X-ray 1.64 A/D 287-878 [» ]
    ProteinModelPortali Q5KWC1.
    SMRi Q5KWC1. Positions 299-878.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 235909.GK2730.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD77015 ; BAD77015 ; GK2730 .
    GeneIDi 3184068.
    KEGGi gka:GK2730.
    PATRICi 21966931. VBIGeoKau81518_2914.

    Phylogenomic databases

    HOGENOMi HOG000020998.
    KOi K02335.
    OMAi APMQGSA.
    OrthoDBi EOG6SJJH7.

    Enzyme and pathway databases

    BioCyci GKAU235909:GJO7-2825-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q5KWC1.

    Family and domain databases

    Gene3Di 3.30.420.10. 1 hit.
    3.40.50.1010. 1 hit.
    InterProi IPR002562. 3'-5'_exonuclease_dom.
    IPR020046. 5-3_exonucl_a-hlix_arch_N.
    IPR020045. 5-3_exonuclease_C.
    IPR002421. 5-3_exonuclease_N.
    IPR019760. DNA-dir_DNA_pol_A_CS.
    IPR001098. DNA-dir_DNA_pol_A_palm_dom.
    IPR018320. DNA_polymerase_1.
    IPR002298. DNA_polymerase_A.
    IPR008918. HhH2.
    IPR029060. PIN_domain-like.
    IPR012337. RNaseH-like_dom.
    [Graphical view ]
    Pfami PF01367. 5_3_exonuc. 1 hit.
    PF02739. 5_3_exonuc_N. 1 hit.
    PF00476. DNA_pol_A. 1 hit.
    [Graphical view ]
    PRINTSi PR00868. DNAPOLI.
    SMARTi SM00474. 35EXOc. 1 hit.
    SM00475. 53EXOc. 1 hit.
    SM00279. HhH2. 1 hit.
    SM00482. POLAc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47807. SSF47807. 1 hit.
    SSF53098. SSF53098. 1 hit.
    SSF88723. SSF88723. 1 hit.
    TIGRFAMsi TIGR00593. pola. 1 hit.
    PROSITEi PS00447. DNA_POLYMERASE_A. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Structures of mismatch replication errors observed in a DNA polymerase."
      Johnson S.J., Beese L.S.
      Cell 116:803-816(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.90 ANGSTROMS) OF 299-878 IN COMPLEX WITH MAGNESIUM.
    2. "Observing translesion synthesis of an aromatic amine DNA adduct by a high-fidelity DNA polymerase."
      Hsu G.W., Kiefer J.R., Burnouf D., Becherel O.J., Fuchs R.P., Beese L.S.
      J. Biol. Chem. 279:50280-50285(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.10 ANGSTROMS) OF 299-878.
    3. "Thermoadaptation trait revealed by the genome sequence of thermophilic Geobacillus kaustophilus."
      Takami H., Takaki Y., Chee G.-J., Nishi S., Shimamura S., Suzuki H., Matsui S., Uchiyama I.
      Nucleic Acids Res. 32:6292-6303(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: HTA426Imported.
    4. "The structural basis for the mutagenicity of O(6)-methyl-guanine lesions."
      Warren J.J., Forsberg L.J., Beese L.S.
      Proc. Natl. Acad. Sci. U.S.A. 103:19701-19706(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.55 ANGSTROMS) OF 300-878 IN COMPLEX WITH MAGNESIUM AND MANGANESE.
    5. "The structure of a high fidelity DNA polymerase bound to a mismatched nucleotide reveals an "ajar" intermediate conformation in the nucleotide selection mechanism."
      Wu E.Y., Beese L.S.
      J. Biol. Chem. 286:19758-19767(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.81 ANGSTROMS) OF 299-878.
    6. "Structural evidence for the rare tautomer hypothesis of spontaneous mutagenesis."
      Wang W., Hellinga H.W., Beese L.S.
      Proc. Natl. Acad. Sci. U.S.A. 108:17644-17648(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.52 ANGSTROMS) OF 287-878 IN COMPLEX WITH MAGNESIUM AND MANGANESE.
    7. "Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides."
      Wang W., Wu E.Y., Hellinga H.W., Beese L.S.
      J. Biol. Chem. 287:28215-28226(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.58 ANGSTROMS) OF 287-878 IN COMPLEX WITH CTP AND MAGNESIUM.
    8. "Structures of a High-fidelity DNA Polymerase."
      Wang W., Hellinga H.W., Beese L.S.
      Submitted (MAY-2012) to the PDB data bank
      Cited for: X-RAY CRYSTALLOGRAPHY (1.63 ANGSTROMS) OF 287-878 IN COMPLEX WITH CTP.

    Entry informationi

    Entry nameiQ5KWC1_GEOKA
    AccessioniPrimary (citable) accession number: Q5KWC1
    Entry historyi
    Integrated into UniProtKB/TrEMBL: February 1, 2005
    Last sequence update: February 1, 2005
    Last modified: October 1, 2014
    This is version 90 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    3D-structureImported, Complete proteome, Reference proteomeImported

    External Data

    Dasty 3