Reviewed, UniProtKB/Swiss-Prot O58954 (AGOG_PYRHO)

Names and origin

Protein names

Recommended name:
    N-glycosylase/DNA lyase
Alternative name(s):
    AGOG
    8-oxoguanine DNA glycosylase
    EC=3.2.2.-
    DNA-(apurinic or apyrimidinic site) lyase
      Short name=AP lyase
    EC=4.2.99.18

Gene names

Ordered Locus Names:

PH1229

Organism

Pyrococcus horikoshii [Complete proteome] [HAMAP]

Taxonomic identifier

53953 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus

Protein attributes

Sequence length	239 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	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 By similarity.
Catalytic activity	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. HAMAP MF_01168
Domain	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). HAMAP MF_01168
Sequence similarities	Belongs to the archaeal N-glycosylase/DNA lyase (AGOG) family.

Ontologies

Keywords
Biological process	DNA damage DNA excision DNA repair
Molecular function	Hydrolase Lyase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	base-excision repair Inferred from electronic annotation. Source: HAMAP
Molecular function	DNA-(apurinic or apyrimidinic site) lyase activity Inferred from electronic annotation. Source: HAMAP oxidized base lesion DNA N-glycosylase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 239	239	N-glycosylase/DNA lyase HAMAP MF_01168		PRO_0000185115
Regions
	Region	118 – 182	65	Helix-hairpin-helix HAMAP MF_01168
Sites
	Active site	142	1	Schiff-base intermediate with DNA By similarity
	Active site	174	1	Potential
	Binding site	24	1	8-oxoguanine By similarity
	Binding site	51	1	8-oxoguanine; via carbonyl oxygen By similarity
	Binding site	62	1	8-oxoguanine By similarity
	Binding site	146	1	8-oxoguanine By similarity
	Binding site	172	1	8-oxoguanine; via carbonyl oxygen By similarity
	Binding site	208	1	8-oxoguanine By similarity
	Binding site	212	1	8-oxoguanine By similarity

Sequences

	Sequence		Length	Mass (Da)
	O58954-1 [UniParc]. Last modified August 1, 1998. Version 1. Checksum: 5EC26389EBB5B99E	FASTA	239	28,191
	10 20 30 40 50 60 MIAELIREIG IEGARFIEEN IDEQFKALSY LSEGMDRVNF VRLVIANALV SYQLTGKGEM 70 80 90 100 110 120 WWWEFAKYFK GKEVKTIYSA YKEFLPNSKF NRRLIQQKLL RIKKIEPFLS TLTEESIERY 130 140 150 160 170 180 YEDMTLLWKA IAKVLKVDRE SKTVVFSVKM FGYAARIVLS KFNPYPMEIP IPEDVRIIKL 190 200 210 220 230 TRKLTNERPR DFWMKIAKES NVPPLHIDSI LWPLLGGARV EEAPPELKEK LEKLIRVIR

References

[1]

"Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3." Kawarabayasi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T. , Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A., Aoki K., Yoshizawa T., Nakamura Y., Robb F.T., Horikoshi K., Masuchi Y., Shizuya H., Kikuchi H. DNA Res. 5:55-76(1998) [PubMed: 9679194] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: OT3.

Cross-references

Sequence databases
EMBLGenBankDDBJ	BA000001 Genomic DNA. Translation: BAA30329.1.
PIR	G71066.
RefSeq	NP_143123.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	1443551.
GenomeReviews	Gene locus PH1229 in contig BA000001_GR.
KEGG	pho:PH1229.
NMPDR	fig|70601.1.peg.1204.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	O58954.
OMA	PLHIDSI.
Enzyme and pathway databases
BRENDA	4.2.99.18. 74679.
Family and domain databases
HAMAP	MF_01168. [Tree]
InterPro	IPR015254. N-Glyclase/DNA_lyase-like_arc. IPR016544. N-Glyclase/DNA_lyase_arc. [Graphical view]
Pfam	PF09171. DUF1886. 1 hit. [Graphical view]
PIRSF	PIRSF008955. AGOG. 1 hit.
ProtoNet	Search...

Entry information

Entry name

AGOG_PYRHO

Accession

Primary (citable) accession number: O58954

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 10, 2006
Last sequence update:	August 1, 1998
Last modified:	November 3, 2009
This is version 40 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)