4RD5 | pdb_00004rd5

Crystal structure of R.NgoAVII restriction endonuclease B3 domain with cognate DNA

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyDNA-binding pseudobarrel domain 8056986 3000213 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyDNA-binding pseudobarrel domain 8056986 3000213 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APeptidase_M99_Ce4rd5A1 A: alpha bundlesX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: Peptidase_M99_CECOD (develop294)
BPeptidase_M99_Ce4rd5B1 A: alpha bundlesX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: Peptidase_M99_CECOD (develop294)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B
PF20731NgoFVII C-terminal B3-like DNA-binding domain (RE_NgoFVII_C)NgoFVII C-terminal B3-like DNA-binding domainThis family includes the NgoFVII (recognises GCSGC but cleavage site unknown) restriction endonuclease. This entry represents the RIFT related domain [1,2]. Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B
Restriction endonuclease R.NgoVII - -
C, E
DNA (5'-D(*CP*CP*CP*TP*AP*AP*GP*CP*GP*GP*CP*AP*AP*TP*CP*C)-3')---
D, F
DNA (5'-D(*GP*GP*GP*AP*TP*TP*GP*CP*CP*GP*CP*TP*TP*AP*GP*G)-3')---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B
IPR048923Restriction endonuclease, type II, NgoFVII, C-terminal B3-like DNA-binding domainDomain
A, B
IPR019065Restriction endonuclease, type II, NgoFVII, N-terminal domainDomain