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Q87SC6

- END4_VIBPA

UniProt

Q87SC6 - END4_VIBPA

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Protein

Probable endonuclease 4

Gene
nfo, VP0498
Organism
Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Status
Reviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

Functioni

Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin By similarity.UniRule annotation

Catalytic activityi

Endonucleolytic cleavage to 5'-phosphooligonucleotide end-products.UniRule annotation

Cofactori

Binds 3 zinc ions By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi78 – 781Zinc 1 By similarity
Metal bindingi118 – 1181Zinc 1 By similarity
Metal bindingi154 – 1541Zinc 1 By similarity
Metal bindingi154 – 1541Zinc 2 By similarity
Metal bindingi188 – 1881Zinc 2 By similarity
Metal bindingi191 – 1911Zinc 3 By similarity
Metal bindingi225 – 2251Zinc 2 By similarity
Metal bindingi238 – 2381Zinc 3 By similarity
Metal bindingi240 – 2401Zinc 3 By similarity
Metal bindingi270 – 2701Zinc 2 By similarity

GO - Molecular functioni

  1. deoxyribonuclease IV (phage-T4-induced) activity Source: UniProtKB-HAMAP
  2. DNA binding Source: InterPro
  3. zinc ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. DNA repair Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciVPAR223926:GHK4-510-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable endonuclease 4 (EC:3.1.21.2)
Alternative name(s):
Endodeoxyribonuclease IV
Endonuclease IV
Gene namesi
Name:nfo
Ordered Locus Names:VP0498
OrganismiVibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Taxonomic identifieri223926 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000002493: Chromosome 1

Subcellular locationi

GO - Cellular componenti

  1. intracellular Source: InterPro
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 295295Probable endonuclease 4UniRule annotationPRO_0000190885Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi223926.VP0498.

Structurei

3D structure databases

ProteinModelPortaliQ87SC6.
SMRiQ87SC6. Positions 11-285.

Family & Domainsi

Sequence similaritiesi

Belongs to the AP endonuclease 2 family.

Phylogenomic databases

eggNOGiCOG0648.
HOGENOMiHOG000224893.
KOiK01151.
OMAiDEINWIN.
OrthoDBiEOG6Z0QCM.

Family and domain databases

Gene3Di3.20.20.150. 1 hit.
HAMAPiMF_00152. Nfo.
InterProiIPR001719. AP_endonuc_2.
IPR018246. AP_endonuc_F2_Zn_BS.
IPR013022. Xyl_isomerase-like_TIM-brl.
[Graphical view]
PANTHERiPTHR21445. PTHR21445. 1 hit.
PfamiPF01261. AP_endonuc_2. 1 hit.
[Graphical view]
SMARTiSM00518. AP2Ec. 1 hit.
[Graphical view]
SUPFAMiSSF51658. SSF51658. 1 hit.
TIGRFAMsiTIGR00587. nfo. 1 hit.
PROSITEiPS00729. AP_NUCLEASE_F2_1. 1 hit.
PS00730. AP_NUCLEASE_F2_2. 1 hit.
PS00731. AP_NUCLEASE_F2_3. 1 hit.
PS51432. AP_NUCLEASE_F2_4. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q87SC6-1 [UniParc]FASTAAdd to Basket

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MTNMKNKFGN KLIGAHVSAA GGVDQAPLRA REIGANAFAL FTKNQRQWVA    50
KPLEAKTISA FKANCKMLGF GAEHILPHDS YLINLGAPEA EKLDKSRAAF 100
IDEMERCNQL GLTLLNFHPG SHLKKVSEQE CLATIAESIN LAHKTVPDVV 150
AVIENTAGQG TNLGWKFEHL AEIIEQVEDK DRVGVCIDTC HTFTAGYDLR 200
TKEDCERTFA EFDRIVGMHY LRAMHLNDSK VEFASKVDRH HSLGKGEIGW 250
DCFEYIAKDS RFDGIPLILE TIDPDIWQQE INTLRQFHLA AINNQ 295
Length:295
Mass (Da):33,017
Last modified:May 23, 2003 - v1
Checksum:i784D0378858E3E0C
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000031 Genomic DNA. Translation: BAC58761.1.
RefSeqiNP_796877.1. NC_004603.1.

Genome annotation databases

EnsemblBacteriaiBAC58761; BAC58761; BAC58761.
GeneIDi1187966.
KEGGivpa:VP0498.
PATRICi20139202. VBIVibPar50997_0475.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000031 Genomic DNA. Translation: BAC58761.1 .
RefSeqi NP_796877.1. NC_004603.1.

3D structure databases

ProteinModelPortali Q87SC6.
SMRi Q87SC6. Positions 11-285.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 223926.VP0498.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAC58761 ; BAC58761 ; BAC58761 .
GeneIDi 1187966.
KEGGi vpa:VP0498.
PATRICi 20139202. VBIVibPar50997_0475.

Phylogenomic databases

eggNOGi COG0648.
HOGENOMi HOG000224893.
KOi K01151.
OMAi DEINWIN.
OrthoDBi EOG6Z0QCM.

Enzyme and pathway databases

BioCyci VPAR223926:GHK4-510-MONOMER.

Family and domain databases

Gene3Di 3.20.20.150. 1 hit.
HAMAPi MF_00152. Nfo.
InterProi IPR001719. AP_endonuc_2.
IPR018246. AP_endonuc_F2_Zn_BS.
IPR013022. Xyl_isomerase-like_TIM-brl.
[Graphical view ]
PANTHERi PTHR21445. PTHR21445. 1 hit.
Pfami PF01261. AP_endonuc_2. 1 hit.
[Graphical view ]
SMARTi SM00518. AP2Ec. 1 hit.
[Graphical view ]
SUPFAMi SSF51658. SSF51658. 1 hit.
TIGRFAMsi TIGR00587. nfo. 1 hit.
PROSITEi PS00729. AP_NUCLEASE_F2_1. 1 hit.
PS00730. AP_NUCLEASE_F2_2. 1 hit.
PS00731. AP_NUCLEASE_F2_3. 1 hit.
PS51432. AP_NUCLEASE_F2_4. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Genome sequence of Vibrio parahaemolyticus: a pathogenic mechanism distinct from that of V. cholerae."
    Makino K., Oshima K., Kurokawa K., Yokoyama K., Uda T., Tagomori K., Iijima Y., Najima M., Nakano M., Yamashita A., Kubota Y., Kimura S., Yasunaga T., Honda T., Shinagawa H., Hattori M., Iida T.
    Lancet 361:743-749(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: RIMD 2210633.

Entry informationi

Entry nameiEND4_VIBPA
AccessioniPrimary (citable) accession number: Q87SC6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 23, 2003
Last sequence update: May 23, 2003
Last modified: May 14, 2014
This is version 74 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

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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