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Protein

N-glycosylase/DNA lyase

Gene

PYRAB10170

Organism
Pyrococcus abyssi (strain GE5 / Orsay)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

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.

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.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei248-oxoguanine1
Binding sitei518-oxoguanine; via carbonyl oxygen1
Binding sitei628-oxoguanine1
Active sitei142Schiff-base intermediate with DNA1
Binding sitei1468-oxoguanine1
Binding sitei1728-oxoguanine; via carbonyl oxygen1
Active sitei1741
Binding sitei2088-oxoguanine1
Binding sitei2128-oxoguanine1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase, Lyase
Biological processDNA damage, DNA excision, DNA repair

Names & Taxonomyi

Protein namesi
Recommended name:
N-glycosylase/DNA lyase
Alternative name(s):
8-oxoguanine DNA glycosylase (EC:3.2.2.-)
AGOG
DNA-(apurinic or apyrimidinic site) lyase (EC:4.2.99.18)
Short name:
AP lyase
Gene namesi
Ordered Locus Names:PYRAB10170
ORF Names:PAB1695
OrganismiPyrococcus abyssi (strain GE5 / Orsay)
Taxonomic identifieri272844 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000810 Componenti: Chromosome
  • UP000009139 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001851131 – 239N-glycosylase/DNA lyaseAdd BLAST239

Interactioni

Protein-protein interaction databases

STRINGi272844.PAB1695.

Structurei

3D structure databases

ProteinModelPortaliQ9UZY0.
SMRiQ9UZY0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni118 – 182Helix-hairpin-helixAdd BLAST65

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.

Phylogenomic databases

eggNOGiarCOG04144. Archaea.
COG4047. LUCA.
HOGENOMiHOG000254352.
KOiK01741.
OMAiVKMFGYA.
OrthoDBiPOG093Z09FD.

Family and domain databases

Gene3Di1.10.1670.10. 1 hit.
HAMAPiMF_01168. AGOG. 1 hit.
InterProiView protein in InterPro
IPR016544. AGOG.
IPR015254. AGOG-like.
IPR011257. DNA_glycosylase.
IPR023170. HTH_base_excis_C.
PfamiView protein in Pfam
PF09171. AGOG. 1 hit.
PIRSFiPIRSF008955. AGOG. 1 hit.
SUPFAMiSSF48150. SSF48150. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9UZY0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIARIIGEIG IEGARFIEEN IDEQFKALRY LSKGIDSETF VKLVIANSLV
60 70 80 90 100
SYQLTGKGEQ WWWEFAKYFY GRDVKSIYLA YKEFLPNSRF NRRLIPQKLS
110 120 130 140 150
RIRRVETFLS TLTEERIEEY YGDMSSLWGS IARALGVDKE SKTVVFSVKM
160 170 180 190 200
FGYAARIVLS TFNPYPMEIP IPEDSRIVKL TKKLTNEKPR KFWMKIARES
210 220 230
GVPPLHIDSI LWPLLGGASI DSAPPELRDK LAELIKIIR
Length:239
Mass (Da):27,662
Last modified:May 1, 2000 - v1
Checksum:i8C9F4D3656DEC791
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248286 Genomic DNA. Translation: CAB49926.1.
HE613800 Genomic DNA. Translation: CCE70424.1.
PIRiA75078.
RefSeqiWP_010868134.1. NC_000868.1.

Genome annotation databases

EnsemblBacteriaiCAB49926; CAB49926; PAB1695.
GeneIDi1496368.
KEGGipab:PAB1695.
PATRICifig|272844.11.peg.1069.

Similar proteinsi

Entry informationi

Entry nameiAGOG_PYRAB
AccessioniPrimary (citable) accession number: Q9UZY0
Secondary accession number(s): G8ZII3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: May 1, 2000
Last modified: October 25, 2017
This is version 80 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families