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Protein

Probable endonuclease 4

Gene

nfo

Organism
Peptoclostridium difficile (strain 630) (Clostridium difficile)
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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi67 – 671Zinc 1UniRule annotation
Metal bindingi107 – 1071Zinc 1UniRule annotation
Metal bindingi142 – 1421Zinc 1UniRule annotation
Metal bindingi142 – 1421Zinc 2UniRule annotation
Metal bindingi176 – 1761Zinc 2UniRule annotation
Metal bindingi179 – 1791Zinc 3UniRule annotation
Metal bindingi211 – 2111Zinc 2UniRule annotation
Metal bindingi224 – 2241Zinc 3UniRule annotation
Metal bindingi226 – 2261Zinc 3UniRule annotation
Metal bindingi256 – 2561Zinc 2UniRule annotation

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

Enzyme and pathway databases

BioCyciCDIF272563:GJFE-693-MONOMER.

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:CD630_05600
OrganismiPeptoclostridium difficile (strain 630) (Clostridium difficile)
Taxonomic identifieri272563 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesPeptostreptococcaceaePeptoclostridium
Proteomesi
  • UP000001978 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 278278Probable endonuclease 4PRO_1000011301Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi272563.CD0560.

Structurei

3D structure databases

ProteinModelPortaliQ189A4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the AP endonuclease 2 family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105EFU. Bacteria.
COG0648. LUCA.
HOGENOMiHOG000224895.
KOiK01151.
OMAiMKYVGAH.
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.
PROSITEiPS00730. 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.

Q189A4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIKLGTHLSI AKGFANAAET AVYIGANTFQ FFSRNPRGGN AKEFDEKDII
60 70 80 90 100
KFQEIRKENN FAPLLAHAPY TMNLGGTKDD VYEFATRVID EDIRRMDSLG
110 120 130 140 150
IEYMCFHPGS HVGGGVDFGI DRIVKGLNNA IKGDENITIL LETMSGKGTE
160 170 180 190 200
IGFKFEQLKS IIDKIEHKEK IGVCLDTCHI FSAGYDIVND LDGVLEEFDK
210 220 230 240 250
VIGIERLKTV HLNDSMMPFG DKKDRHAPIG EGKIGLKALI DFMEHPSLKH
260 270
LPFFLETPFD DEGHKRELKM IKEILSSK
Length:278
Mass (Da):31,179
Last modified:July 25, 2006 - v1
Checksum:i245382569440909C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM180355 Genomic DNA. Translation: CAJ67393.1.
RefSeqiWP_003438990.1. NZ_CP010905.1.
YP_001087036.1. NC_009089.1.

Genome annotation databases

EnsemblBacteriaiCAJ67393; CAJ67393; CD630_05600.
GeneIDi4916198.
KEGGicdf:CD630_05600.
pdc:CDIF630_00673.
PATRICi19439387. VBICloDif38397_0587.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM180355 Genomic DNA. Translation: CAJ67393.1.
RefSeqiWP_003438990.1. NZ_CP010905.1.
YP_001087036.1. NC_009089.1.

3D structure databases

ProteinModelPortaliQ189A4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272563.CD0560.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAJ67393; CAJ67393; CD630_05600.
GeneIDi4916198.
KEGGicdf:CD630_05600.
pdc:CDIF630_00673.
PATRICi19439387. VBICloDif38397_0587.

Phylogenomic databases

eggNOGiENOG4105EFU. Bacteria.
COG0648. LUCA.
HOGENOMiHOG000224895.
KOiK01151.
OMAiMKYVGAH.
OrthoDBiEOG6Z0QCM.

Enzyme and pathway databases

BioCyciCDIF272563:GJFE-693-MONOMER.

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.
PROSITEiPS00730. AP_NUCLEASE_F2_2. 1 hit.
PS00731. AP_NUCLEASE_F2_3. 1 hit.
PS51432. AP_NUCLEASE_F2_4. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 630.

Entry informationi

Entry nameiEND4_PEPD6
AccessioniPrimary (citable) accession number: Q189A4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: July 25, 2006
Last modified: November 11, 2015
This is version 68 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.