1RDD
CRYSTAL STRUCTURE OF ESCHERICHIA COLI RNASE HI IN COMPLEX WITH MG2+ AT 2.8 ANGSTROMS RESOLUTION: PROOF FOR A SINGLE MG2+ SITE
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | d1rdda_ | Alpha and beta proteins (a/b) | Ribonuclease H-like motif | Ribonuclease H-like | Ribonuclease H | RNase H (RNase HI) | (Escherichia coli ) [TaxId: 562 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Domain Annotation: ECOD Classification ECOD Database Homepage
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 3.30.420.10 | Alpha Beta | 2-Layer Sandwich | Nucleotidyltransferase | domain 5 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF00075 | RNase H (RNase_H) | RNase H | RNase H digests the RNA strand of an RNA/DNA hybrid. Important enzyme in retroviral replication cycle, and often found as a domain associated with reverse transcriptases. Structure is a mixed alpha+beta fold with three a/b/a layers. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR036397 | Ribonuclease H superfamily | Homologous Superfamily | |
IPR022892 | Ribonuclease HI | Family | |
IPR002156 | Ribonuclease H domain | Domain | |
IPR050092 | Ribonuclease H | Family | |
IPR012337 | Ribonuclease H-like superfamily | Homologous Superfamily |
Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage
Chains | Enzyme Name | Description | Catalytic Residues |
---|---|---|---|
ribonuclease HI M-CSA #163 | Members of the RNase H family hydrolyze the P-O3' bond of the RNA strand of an RNA-DNA hybrid duplex in the presence of divalent cations such as Mg(II) and Mn(II). RNase HI is found in Escherichia coli and is structurally homologous to the RNase H domain of HIV-1 reverse transcriptase, a target for anti-HIV therapy. Two alternative mechanisms have been proposed for this enzyme. One is a two-metal-ion mechanism where one of the two metal ions activates the attacking hydroxide ion and the other is a general acid-base mechanism where an amino acid residue fulfils this role. Computational studies seem to favour the two metal ion proposal, however NMR and kinetic studies suggest only one metal binds to this protein and that the protein is inactivated by subsequent metal binding events. | Defined by 6 residues: ASP:A-10GLY:A-11GLU:A-48ASP:A-70HIS:A-124ASP:A-134 | EC: 3.1.26.4 (PDB Primary Data) |