2HBM
Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain; Protein in complex with Mn, Zn, and UMP
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | d2hbma1 | All alpha proteins | SAM domain-like | HRDC-like | EXOSC10 HRDC domain-like | Exosome complex exonuclease RRP6 domain | baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ], | SCOPe (2.08) |
A | d2hbma2 | Alpha and beta proteins (a/b) | Ribonuclease H-like motif | Ribonuclease H-like | DnaQ-like 3'-5' exonuclease | Exosome complex exonuclease RRP6 | baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ], | SCOPe (2.08) |
A | d2hbma3 | Artifacts | Tags | Tags | Tags | N-terminal Tags | baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ], | SCOPe (2.08) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | HRDC | e2hbmA1 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: SAM domain-like | F: HRDC | ECOD (1.6) |
A | DNA_pol_A_exo1 | e2hbmA2 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: DNA_pol_A_exo1 | ECOD (1.6) |
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) |
A | 1.10.150.80 | Mainly Alpha | Orthogonal Bundle | DNA polymerase | domain 1 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF01612 | 3'-5' exonuclease (DNA_pol_A_exo1) | 3'-5' exonuclease | This domain is responsible for the 3'-5' exonuclease proofreading activity of E. coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the ... | Domain | |
PF00570 | HRDC domain (HRDC) | HRDC domain | The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding. Mutations in the HRDC domain cause human disease. It is interesting to note that the RecQ helicase in Deinococcus radiodurans has three tandem HRDC domains ... | 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 | |
IPR002121 | HRDC domain | Domain | |
IPR012588 | Exosome-associated factor Rrp6, N-terminal | Domain | |
IPR012337 | Ribonuclease H-like superfamily | Homologous Superfamily | |
IPR045092 | Exosome complex exonuclease Rrp6-like | Family | |
IPR002562 | 3'-5' exonuclease domain | Domain | |
IPR049559 | Rrp6-like, 3'-5' exonuclease domain | Domain | |
IPR010997 | HRDC-like superfamily | Homologous Superfamily | |
IPR044876 | HRDC domain superfamily | Homologous Superfamily |