2VL8
CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF LETHAL TOXIN FROM CLOSTRIDIUM SORDELLII IN COMPLEX WITH UDP, CASTANOSPERMINE AND CALCIUM ION
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | d2vl8a_ | Alpha and beta proteins (a/b) | Nucleotide-diphospho-sugar transferases | Nucleotide-diphospho-sugar transferases | Glycosylating toxin catalytic domain-like | automated matches | (Paraclostridium sordellii ) [TaxId: 1505 ], | SCOPe (2.08) |
B | d2vl8b_ | Alpha and beta proteins (a/b) | Nucleotide-diphospho-sugar transferases | Nucleotide-diphospho-sugar transferases | Glycosylating toxin catalytic domain-like | automated matches | (Paraclostridium sordellii ) [TaxId: 1505 ], | SCOPe (2.08) |
C | d2vl8c_ | Alpha and beta proteins (a/b) | Nucleotide-diphospho-sugar transferases | Nucleotide-diphospho-sugar transferases | Glycosylating toxin catalytic domain-like | automated matches | (Paraclostridium sordellii ) [TaxId: 1505 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2 Family | Glycosylating toxin catalytic domain-like | 8025181 | 4002384 | SCOP2 (2022-06-29) |
A | SCOP2 Superfamily | Nucleotide-diphospho-sugar transferases | 8037560 | 3000077 | SCOP2 (2022-06-29) |
B | SCOP2B Superfamily | Nucleotide-diphospho-sugar transferases | 8037560 | 3000077 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | Nucleotide-diphospho-sugar transferases | 8037560 | 3000077 | SCOP2B (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 | MLD | e2vl8A1 | A: alpha bundles | X: Bromodomain-like | H: PMT helical bundle domain-like | T: PMT helical bundle domain-like | F: MLD | ECOD (1.6) |
A | TcdA_TcdB | e2vl8A2 | A: a/b three-layered sandwiches | X: Nucleotide-diphospho-sugar transferases (From Topology) | H: Nucleotide-diphospho-sugar transferases (From Topology) | T: Nucleotide-diphospho-sugar transferases | F: TcdA_TcdB | ECOD (1.6) |
B | MLD | e2vl8B1 | A: alpha bundles | X: Bromodomain-like | H: PMT helical bundle domain-like | T: PMT helical bundle domain-like | F: MLD | ECOD (1.6) |
B | TcdA_TcdB | e2vl8B2 | A: a/b three-layered sandwiches | X: Nucleotide-diphospho-sugar transferases (From Topology) | H: Nucleotide-diphospho-sugar transferases (From Topology) | T: Nucleotide-diphospho-sugar transferases | F: TcdA_TcdB | ECOD (1.6) |
C | MLD | e2vl8C1 | A: alpha bundles | X: Bromodomain-like | H: PMT helical bundle domain-like | T: PMT helical bundle domain-like | F: MLD | ECOD (1.6) |
C | TcdA_TcdB | e2vl8C2 | A: a/b three-layered sandwiches | X: Nucleotide-diphospho-sugar transferases (From Topology) | H: Nucleotide-diphospho-sugar transferases (From Topology) | T: Nucleotide-diphospho-sugar transferases | F: TcdA_TcdB | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 1.20.58.1190 | Mainly Alpha | Up-down Bundle | Methane Monooxygenase Hydroxylase | Chain G, domain 1 | CATH (4.3.0) |
A | 1.10.10.1780 | Mainly Alpha | Orthogonal Bundle | Arc Repressor Mutant, subunit A | CATH (4.3.0) | |
B | 1.20.58.1190 | Mainly Alpha | Up-down Bundle | Methane Monooxygenase Hydroxylase | Chain G, domain 1 | CATH (4.3.0) |
B | 1.10.10.1780 | Mainly Alpha | Orthogonal Bundle | Arc Repressor Mutant, subunit A | CATH (4.3.0) | |
C | 1.20.58.1190 | Mainly Alpha | Up-down Bundle | Methane Monooxygenase Hydroxylase | Chain G, domain 1 | CATH (4.3.0) |
C | 1.10.10.1780 | Mainly Alpha | Orthogonal Bundle | Arc Repressor Mutant, subunit A | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF12919 | TcdA/TcdB catalytic glycosyltransferase domain (TcdA_TcdB) | TcdA/TcdB catalytic glycosyltransferase domain | This domain represents the N-terminal glycosyltransferase from a set of toxins found in some bacteria. This domain in TcdB glycosylates the host RhoA protein. | Domain | |
PF12918 | TcdB toxin N-terminal helical domain (TcdB_N) | TcdB toxin N-terminal helical domain | This is a short helical bundle domain found associated with the catalytic domain of the TcdB toxin from C. difficile [1]. The function of this domain is unknown, but it may be involved in substrate recognition. | Domain | |
PF11647 | Membrane Localization Domain (MLD) | Membrane Localization Domain | This is a membrane localization domain found in multiple families of bacterial toxins including all of the clostridial glucosyltransferase toxins and various MARTX toxins (multifunctional-autoprocessing RTX toxins) [1,4]. In the Pasteurella multocida ... | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR038383 | CGT/MARTX, cysteine protease (CPD) domain superfamily | Homologous Superfamily | |
IPR024772 | TcdA/TcdB toxin, N-terminal helical domain | Domain | |
IPR020974 | CGT/MARTX, cysteine protease (CPD) domain | Domain | |
IPR024769 | TcdA/TcdB toxin, pore forming domain | Domain | |
IPR029044 | Nucleotide-diphospho-sugar transferases | Homologous Superfamily | |
IPR020972 | Dermonecrotic/RTX toxin, membrane localization domain | Domain | |
IPR024770 | TcdA/TcdB toxin, catalytic glycosyltransferase domain | Domain | |
IPR018337 | Cell wall/choline-binding repeat | Repeat |