3PSI
Crystal Structure of the Spt6 core domain from Saccharomyces cerevisiae, Form Spt6(239-1451)
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | PF21710 | e3psiA7 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF21710 | ECOD (1.6) |
A | PF14641 | e3psiA27 | A: alpha arrays | X: HTH | H: Tex N-terminal domain (From Topology) | T: Tex N-terminal domain | F: PF14641 | ECOD (1.6) |
A | PF14635 | e3psiA26 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: SAM domain-like | F: PF14635 | ECOD (1.6) |
A | PF17674 | e3psiA6 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: SAM domain-like | F: PF17674 | ECOD (1.6) |
A | F_UNCLASSIFIED | e3psiA28 | A: alpha bundles | X: immunoglobulin/albumin-binding domain-like | H: Tex bundle domain-like (From Topology) | T: Tex bundle domain-like | F: F_UNCLASSIFIED | ECOD (1.6) |
A | PF22706 | e3psiA24 | A: alpha complex topology | X: Tex N-terminal region-like (From Topology) | H: Tex N-terminal region-like (From Topology) | T: Tex N-terminal region-like | F: PF22706 | ECOD (1.6) |
A | PF14639 | e3psiA25 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF14639 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 1.10.150.850 | Mainly Alpha | Orthogonal Bundle | DNA polymerase | domain 1 | CATH (4.3.0) |
A | 1.10.10.650 | Mainly Alpha | Orthogonal Bundle | Arc Repressor Mutant, subunit A | RuvA domain 2-like | CATH (4.3.0) |
A | 1.10.3500.10 | Mainly Alpha | Orthogonal Bundle | Tex N-terminal region-like | Tex N-terminal region-like | CATH (4.3.0) |
A | 3.30.420.140 | Alpha Beta | 2-Layer Sandwich | Nucleotidyltransferase | domain 5 | CATH (4.3.0) |
A | 1.10.10.2740 | Mainly Alpha | Orthogonal Bundle | Arc Repressor Mutant, subunit A | Spt6, Death-like domain | CATH (4.3.0) |
A | 2.40.50.140 | Mainly Beta | Beta Barrel | OB fold (Dihydrolipoamide Acetyltransferase, E2P) | Nucleic acid-binding proteins | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF14639 | Holliday-junction resolvase-like of SPT6 (YqgF) | Holliday-junction resolvase-like of SPT6 | The YqgF domain of SPT6 proteins is homologous to the E.coli RuvC [1] but its putative catalytic site lacks the carboxylate side chains critical for coordinating magnesium ions that mediate phosphodiester bond-cleavage [2] | Domain | |
PF14641 | Helix-turn-helix DNA-binding domain of SPT6 (HTH_44) | Helix-turn-helix DNA-binding domain of SPT6 | This helix-turn-helix represents the first of two DNA-binding domains on the SPT6 proteins. | Domain | |
PF21710 | Spt6, S1/OB domain (Spt6_S1) | Spt6, S1/OB domain | This entry represents the S1/OB-fold domain of Spt6. This domain has structural similarity to S1 domain but lacks the typical S1 binding cleft residues involved in nucleic acid binding [1], therefore, this domain in Spt6 may be involved in interacti ... | Domain | |
PF14635 | Helix-hairpin-helix motif (HHH_7) | Helix-hairpin-helix motif | - | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR042066 | Spt6, Death-like domain | Homologous Superfamily | |
IPR028231 | Transcription elongation factor Spt6, YqgF domain | Domain | |
IPR037027 | YqgF/RNase H-like domain superfamily | Homologous Superfamily | |
IPR036860 | SH2 domain superfamily | Homologous Superfamily | |
IPR000980 | SH2 domain | Domain | |
IPR006641 | YqgF/RNase H-like domain | Domain | |
IPR010994 | RuvA domain 2-like | Homologous Superfamily | |
IPR023319 | Tex-like protein, HTH domain superfamily | Homologous Superfamily | |
IPR012337 | Ribonuclease H-like superfamily | Homologous Superfamily | |
IPR017072 | Transcription elongation factor Spt6 | Family | |
IPR035420 | Spt6, SH2 domain | Domain | |
IPR032706 | Transcription elongation factor Spt6, helix-hairpin-helix motif | Domain | |
IPR049540 | Spt6-like, S1/OB domain | Domain | |
IPR023323 | Tex-like domain superfamily | Homologous Superfamily | |
IPR028088 | Helix-turn-helix DNA-binding domain of Spt6 | Domain | |
IPR035019 | Spt6, SH2 domain, N terminus | Domain | |
IPR035018 | Spt6, SH2 domain, C terminus | Domain | |
IPR028083 | Spt6 acidic, N-terminal domain | Domain |