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Protein

Probable endonuclease 4

Gene

nfo

Organism
Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Status
Reviewed-Annotation score: Annotation score: 2 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.UniRule annotation

Catalytic activityi

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

Cofactori

Zn2+UniRule annotationNote: Binds 3 Zn2+ ions.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi78Zinc 1UniRule annotation1
Metal bindingi118Zinc 1UniRule annotation1
Metal bindingi154Zinc 1UniRule annotation1
Metal bindingi154Zinc 2UniRule annotation1
Metal bindingi188Zinc 2UniRule annotation1
Metal bindingi191Zinc 3UniRule annotation1
Metal bindingi225Zinc 2UniRule annotation1
Metal bindingi238Zinc 3UniRule annotation1
Metal bindingi240Zinc 3UniRule annotation1
Metal bindingi270Zinc 2UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Probable endonuclease 4UniRule annotation (EC:3.1.21.2UniRule annotation)
Alternative name(s):
Endodeoxyribonuclease IVUniRule annotation
Endonuclease IVUniRule annotation
Gene namesi
Name:nfoUniRule annotation
Ordered Locus Names:VP0498
OrganismiVibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Taxonomic identifieri223926 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
Proteomesi
  • UP000002493 Componenti: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001908851 – 295Probable endonuclease 4Add BLAST295

Interactioni

Protein-protein interaction databases

STRINGi223926.VP0498.

Structurei

3D structure databases

ProteinModelPortaliQ87SC6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the AP endonuclease 2 family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105EFU. Bacteria.
COG0648. LUCA.
HOGENOMiHOG000224893.
KOiK01151.
OMAiMKYVGAH.

Family and domain databases

Gene3Di3.20.20.150. 1 hit.
HAMAPiMF_00152. Nfo. 1 hit.
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

« Hide

        10         20         30         40         50
MTNMKNKFGN KLIGAHVSAA GGVDQAPLRA REIGANAFAL FTKNQRQWVA
60 70 80 90 100
KPLEAKTISA FKANCKMLGF GAEHILPHDS YLINLGAPEA EKLDKSRAAF
110 120 130 140 150
IDEMERCNQL GLTLLNFHPG SHLKKVSEQE CLATIAESIN LAHKTVPDVV
160 170 180 190 200
AVIENTAGQG TNLGWKFEHL AEIIEQVEDK DRVGVCIDTC HTFTAGYDLR
210 220 230 240 250
TKEDCERTFA EFDRIVGMHY LRAMHLNDSK VEFASKVDRH HSLGKGEIGW
260 270 280 290
DCFEYIAKDS RFDGIPLILE TIDPDIWQQE INTLRQFHLA AINNQ
Length:295
Mass (Da):33,017
Last modified:May 23, 2003 - v1
Checksum:i784D0378858E3E0C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000031 Genomic DNA. Translation: BAC58761.1.
RefSeqiNP_796877.1. NC_004603.1.
WP_005479588.1. NC_004603.1.

Genome annotation databases

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

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000031 Genomic DNA. Translation: BAC58761.1.
RefSeqiNP_796877.1. NC_004603.1.
WP_005479588.1. NC_004603.1.

3D structure databases

ProteinModelPortaliQ87SC6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi223926.VP0498.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Phylogenomic databases

eggNOGiENOG4105EFU. Bacteria.
COG0648. LUCA.
HOGENOMiHOG000224893.
KOiK01151.
OMAiMKYVGAH.

Family and domain databases

Gene3Di3.20.20.150. 1 hit.
HAMAPiMF_00152. Nfo. 1 hit.
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]
ProtoNetiSearch...

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: November 2, 2016
This is version 85 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.