Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Basket 0
(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

Q8U2D5

- AGOG_PYRFU

UniProt

Q8U2D5 - AGOG_PYRFU

Protein

N-glycosylase/DNA lyase

Gene

PF0904

Organism
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
    • BLAST
    • Align
    • Format
    • Add to basket
    • History
      Entry version 66 (01 Oct 2014)
      Sequence version 1 (01 Jun 2002)
      Previous versions | rss
    • Help video
    • Feedback
    • Comment

    Functioni

    DNA repair enzyme that is part of the base excision repair (BER) pathway; protects from oxidative damage by removing the major product of DNA oxidation, 8-oxoguanine (GO), from single- and double-stranded DNA substrates.UniRule annotation

    Catalytic activityi

    The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei26 – 2618-oxoguanineUniRule annotation
    Binding sitei53 – 5318-oxoguanine; via carbonyl oxygenUniRule annotation
    Binding sitei64 – 6418-oxoguanineUniRule annotation
    Active sitei144 – 1441Schiff-base intermediate with DNAUniRule annotation
    Binding sitei148 – 14818-oxoguanineUniRule annotation
    Binding sitei174 – 17418-oxoguanine; via carbonyl oxygenUniRule annotation
    Active sitei176 – 1761UniRule annotation
    Binding sitei210 – 21018-oxoguanineUniRule annotation
    Binding sitei214 – 21418-oxoguanineUniRule annotation

    GO - Molecular functioni

    1. DNA-(apurinic or apyrimidinic site) lyase activity Source: UniProtKB-HAMAP
    2. oxidized base lesion DNA N-glycosylase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. base-excision repair Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Hydrolase, Lyase

    Keywords - Biological processi

    DNA damage, DNA excision, DNA repair

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    N-glycosylase/DNA lyaseUniRule annotation
    Alternative name(s):
    8-oxoguanine DNA glycosylaseUniRule annotation (EC:3.2.2.-UniRule annotation)
    AGOGUniRule annotation
    DNA-(apurinic or apyrimidinic site) lyaseUniRule annotation (EC:4.2.99.18UniRule annotation)
    Short name:
    AP lyaseUniRule annotation
    Gene namesi
    Ordered Locus Names:PF0904
    OrganismiPyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
    Taxonomic identifieri186497 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
    ProteomesiUP000001013: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 242242N-glycosylase/DNA lyasePRO_0000185114Add
    BLAST

    Proteomic databases

    PRIDEiQ8U2D5.

    Interactioni

    Protein-protein interaction databases

    STRINGi186497.PF0904.

    Structurei

    Secondary structure

    1
    242
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi2 – 2221
    Helixi25 – 3410
    Helixi39 – 5113
    Helixi60 – 7112
    Helixi79 – 868
    Turni87 – 893
    Helixi97 – 11216
    Helixi116 – 1249
    Helixi126 – 13712
    Helixi144 – 16017
    Helixi177 – 1848
    Helixi191 – 20212
    Helixi206 – 21712
    Helixi227 – 23913

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1XG7X-ray1.88A/B2-242[»]
    ProteinModelPortaliQ8U2D5.
    SMRiQ8U2D5. Positions 2-242.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ8U2D5.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni120 – 18465Helix-hairpin-helixAdd
    BLAST

    Domaini

    Contains two alpha-helical subdomains, with the 8-oxoguanine binding site located in a cleft at their interface. Contains a helix-hairpin-helix (HhH) structural motif and a Gly/Pro-rich sequence followed by a conserved Asp (HhH-GPD motif).

    Sequence similaritiesi

    Belongs to the archaeal N-glycosylase/DNA lyase (AGOG) family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG4047.
    HOGENOMiHOG000254352.
    KOiK01741.
    OMAiVKMFGYA.

    Family and domain databases

    Gene3Di1.10.1670.10. 1 hit.
    1.10.340.30. 1 hit.
    HAMAPiMF_01168. AGOG.
    InterProiIPR011257. DNA_glycosylase.
    IPR023170. HTH_base_excis_C.
    IPR015254. N-Glyclase/DNA_lyase-like_arc.
    IPR016544. N-Glyclase/DNA_lyase_arc.
    [Graphical view]
    PfamiPF09171. DUF1886. 1 hit.
    [Graphical view]
    PIRSFiPIRSF008955. AGOG. 1 hit.
    SUPFAMiSSF48150. SSF48150. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q8U2D5-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRELVEIIKG IGIEGAKEVE EKVDRQFYAL QYLFRHQDPE MFIKLVIANS    50
    LVSYQLTGRG EDWWWEFARY FSGREVDSIW KAYGEFLPKS KNNRRLIEAK 100
    LNRIRKVEGF LSTLTLKDLE GYYKNMKMLW KALIKIMGSR EDSKTIVFTV 150
    KMFGYASRIA FSRFIPYPME IPIPEDLRIK SVTSKLTQEK PTKFWMKIGQ 200
    ESGVPPLHID SLIWPLLGNA DLTPLDIELR NKLMKLTELL GL 242
    Length:242
    Mass (Da):28,345
    Last modified:June 1, 2002 - v1
    Checksum:i6FA190D348D3E823
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE009950 Genomic DNA. Translation: AAL81028.1.
    RefSeqiNP_578633.2. NC_003413.1.

    Genome annotation databases

    EnsemblBacteriaiAAL81028; AAL81028; PF0904.
    GeneIDi1468768.
    KEGGipfu:PF0904.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE009950 Genomic DNA. Translation: AAL81028.1 .
    RefSeqi NP_578633.2. NC_003413.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1XG7 X-ray 1.88 A/B 2-242 [» ]
    ProteinModelPortali Q8U2D5.
    SMRi Q8U2D5. Positions 2-242.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 186497.PF0904.

    Proteomic databases

    PRIDEi Q8U2D5.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAL81028 ; AAL81028 ; PF0904 .
    GeneIDi 1468768.
    KEGGi pfu:PF0904.

    Phylogenomic databases

    eggNOGi COG4047.
    HOGENOMi HOG000254352.
    KOi K01741.
    OMAi VKMFGYA.

    Miscellaneous databases

    EvolutionaryTracei Q8U2D5.

    Family and domain databases

    Gene3Di 1.10.1670.10. 1 hit.
    1.10.340.30. 1 hit.
    HAMAPi MF_01168. AGOG.
    InterProi IPR011257. DNA_glycosylase.
    IPR023170. HTH_base_excis_C.
    IPR015254. N-Glyclase/DNA_lyase-like_arc.
    IPR016544. N-Glyclase/DNA_lyase_arc.
    [Graphical view ]
    Pfami PF09171. DUF1886. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF008955. AGOG. 1 hit.
    SUPFAMi SSF48150. SSF48150. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Divergence of the hyperthermophilic archaea Pyrococcus furiosus and P. horikoshii inferred from complete genomic sequences."
      Maeder D.L., Weiss R.B., Dunn D.M., Cherry J.L., Gonzalez J.M., DiRuggiero J., Robb F.T.
      Genetics 152:1299-1305(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 43587 / DSM 3638 / JCM 8422 / Vc1.
    2. "Conserved hypothetical protein Pfu-877259-001 from Pyrococcus furiosus."
      Chang J., Zhao M., Horanyi P., Xu H., Yang H., Liu Z.-J., Chen L., Zhou W., Habel J., Tempel W., Lee D., Lin D., Chang S.-H., Eneh J.C., Hopkins R.C., Jenney F.E., Lee H.-S., Li T.
      , Poole F.L., Shah C., Sugar F.J., Chen C.-Y., Arendall W.B., Richardson J.S., Richardson D.C., Rose J.P.
      Submitted (SEP-2004) to the PDB data bank
      Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS).

    Entry informationi

    Entry nameiAGOG_PYRFU
    AccessioniPrimary (citable) accession number: Q8U2D5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 10, 2006
    Last sequence update: June 1, 2002
    Last modified: October 1, 2014
    This is version 66 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3