2JA9
Structure of the N-terminal deletion of yeast exosome component Rrp40
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | d2ja9a1 | All beta proteins | OB-fold | Nucleic acid-binding proteins | Cold shock DNA-binding domain-like | S1-domain of exosome component 3 (RRP40) | BAKERS' YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ], | SCOPe (2.08) |
A | d2ja9a2 | Alpha and beta proteins (a+b) | Eukaryotic type KH-domain (KH-domain type I) | Eukaryotic type KH-domain (KH-domain type I) | Eukaryotic type KH-domain (KH-domain type I) | Ribosomal RNA-processing protein 40, RRP40 | BAKERS' YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2 Family | Cold shock DNA-binding domain-like | 8022276 | 4001909 | SCOP2 (2022-06-29) |
A | SCOP2 Family | Eukaryotic type KH-domain (KH-domain type I) | 8022277 | 4001190 | SCOP2 (2022-06-29) |
A | SCOP2 Superfamily | Nucleic acid-binding proteins | 8034656 | 3000135 | SCOP2 (2022-06-29) |
A | SCOP2 Superfamily | Eukaryotic type KH-domain (KH-domain type I) | 8034657 | 3001023 | SCOP2 (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | S1 | e2ja9A1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: S1 | ECOD (1.6) |
A | KH_6 | e2ja9A2 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Eukaryotic type KH-domain (KH-domain type I) | F: KH_6 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 2.40.50.140 | Mainly Beta | Beta Barrel | OB fold (Dihydrolipoamide Acetyltransferase, E2P) | Nucleic acid-binding proteins | CATH (4.3.0) |
A | 3.30.1370.10 | Alpha Beta | 2-Layer Sandwich | Ribosomal Protein S8 | Chain: A, domain 1 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF21262 | Exosome complex component RRP40, S1 domain (RRP40_S1) | Exosome complex component RRP40, S1 domain | RRP40 is a non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. It consists of a N-terminal beta-sandwich hybrid domain (Pfam:P ... | Domain | |
PF15985 | KH domain (KH_6) | KH domain | KH motifs bind RNA in vitro. Auto-antibodies to Nova, a KH domain protein, cause para-neoplastic opsoclonus ataxia. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR041054 | Exosome complex exonuclease Rrp40, N-terminal domain, eukaryotes | Domain | |
IPR049469 | Exosome complex component RRP40, type I KH domain | Domain | |
IPR037319 | Rrp40, S1 domain | Domain | |
IPR036612 | K Homology domain, type 1 superfamily | Homologous Superfamily | |
IPR012340 | Nucleic acid-binding, OB-fold | Homologous Superfamily | |
IPR026699 | Exosome complex RNA-binding protein 1/RRP40/RRP4 | Family | |
IPR004088 | K Homology domain, type 1 | Domain |