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Protein

Endonuclease II

Gene

denA

Organism
Enterobacteria phage T4 (Bacteriophage T4)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Contributes to the degradation of host DNA, permitting the scavenging of host-derived nucleotides for phage DNA synthesis (PubMed:19666720, PubMed:18539732). Sequence-specific endonuclease. Catalyzes nicking of the bottom strand of double-stranded DNA between the first and second base pair to the right of a top-strand CCGC motif. Does not cleave native phage DNA, which contains 5-hydroxymethylcytosine instead of cytosine.2 Publications3 Publications

Catalytic activityi

Endonucleolytic nicking and cleavage of cytosine-containing double-stranded DNA.4 Publications

Cofactori

Mg2+1 Publication

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, Endonuclease, Hydrolase, Nuclease
Biological processBacterial host gene expression shutoff by virus, Degradation of host chromosome by virus, Host gene expression shutoff by virus, Host-virus interaction
LigandMagnesium, Metal-binding

Enzyme and pathway databases

BRENDAi3.1.21.8. 732.

Names & Taxonomyi

Protein namesi
Recommended name:
Endonuclease II (EC:3.1.21.84 Publications)
Gene namesi
Name:denA
OrganismiEnterobacteria phage T4 (Bacteriophage T4)
Taxonomic identifieri10665 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageCaudoviralesMyoviridaeTevenvirinaeT4virus
Virus hostiEscherichia coli [TaxID: 562]
Proteomesi
  • UP000009087 Componenti: Genome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi49G → A: Nearly abolishes endonuclease activity. 1 Publication1
Mutagenesisi57R → A: Nearly abolishes endonuclease activity. 1 Publication1
Mutagenesisi84L → P: Nearly abolishes endonuclease activity. 1 Publication1
Mutagenesisi118E → A: Abolishes endonuclease activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001649321 – 136Endonuclease IIAdd BLAST136

Interactioni

Subunit structurei

Homotetramer.2 Publications

Structurei

Secondary structure

1136
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi1 – 7Combined sources7
Beta strandi11 – 16Combined sources6
Beta strandi34 – 41Combined sources8
Beta strandi44 – 52Combined sources9
Helixi54 – 66Combined sources13
Helixi75 – 85Combined sources11
Beta strandi90 – 96Combined sources7
Beta strandi99 – 104Combined sources6
Beta strandi107 – 112Combined sources6
Helixi114 – 125Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2WSHX-ray1.90A/B/C/D1-136[»]
SMRiP07059.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP07059.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini32 – 131GIY-YIGPROSITE-ProRule annotationAdd BLAST100

Phylogenomic databases

KOiK20841.
OrthoDBiVOG0900010F.

Family and domain databases

Gene3Di3.40.1440.10. 1 hit.
InterProiView protein in InterPro
IPR000305. GIY-YIG_SF.
IPR016413. Phage_T4_DenA_endoDNaseII.
PfamiView protein in Pfam
PF01541. GIY-YIG. 1 hit.
PIRSFiPIRSF004362. Endonuclease_II_phage_DenA. 1 hit.
SMARTiView protein in SMART
SM00465. GIYc. 1 hit.
SUPFAMiSSF82771. SSF82771. 1 hit.
PROSITEiView protein in PROSITE
PS50164. GIY_YIG. 1 hit.

Sequencei

Sequence statusi: Complete.

P07059-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKEIATEYSF IKYTELELDD NGSIKQLSIP NKYNVIYAIA INDELVYIGK
60 70 80 90 100
TKNLRKRINY YRTAINRKDK TSDSTKSALI HSALKEGSKV EFYARQCFNL
110 120 130
SMTNELGTMT IATIDLEEPL FIKLFNPPWN IQHKKK
Length:136
Mass (Da):15,802
Last modified:September 3, 2014 - v3
Checksum:i223499122C6EF8BB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04140 Genomic DNA. Translation: CAA27759.1.
AF158101 Genomic DNA. Translation: AAD42558.1.
PIRiS08603. ZNBPT4.
RefSeqiNP_049840.1. NC_000866.4.

Genome annotation databases

GeneIDi1258710.
KEGGivg:1258710.

Similar proteinsi

Entry informationi

Entry nameiEND2_BPT4
AccessioniPrimary (citable) accession number: P07059
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: September 3, 2014
Last modified: May 10, 2017
This is version 85 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references