6IYV
Crystal sturucture of L,D-transpeptidase LdtMt2 from Mycobacterium tuberculosis in complex with ertapenem adduct
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth B] | d6iyvb1 | All beta proteins | Immunoglobulin-like beta-sandwich | E set domains | automated matches | automated matches | (Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ], | SCOPe (2.08) |
A [auth B] | d6iyvb2 | All beta proteins | L,D-transpeptidase catalytic domain-like | L,D-transpeptidase catalytic domain-like | L,D-transpeptidase catalytic domain-like | automated matches | (Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ], | SCOPe (2.08) |
B [auth A] | d6iyva1 | All beta proteins | Immunoglobulin-like beta-sandwich | E set domains | automated matches | automated matches | (Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ], | SCOPe (2.08) |
B [auth A] | d6iyva2 | All beta proteins | L,D-transpeptidase catalytic domain-like | L,D-transpeptidase catalytic domain-like | L,D-transpeptidase catalytic domain-like | automated matches | (Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ], | 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 [auth B] | LDT_IgD_like_2 | e6iyvB1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: LDT_IgD_like_2 | ECOD (1.6) |
A [auth B] | YkuD | e6iyvB2 | A: beta complex topology | X: L,D-transpeptidase catalytic domain-like (From Topology) | H: L,D-transpeptidase catalytic domain-like (From Topology) | T: L,D-transpeptidase catalytic domain-like | F: YkuD | ECOD (1.6) |
B [auth A] | LDT_IgD_like_2 | e6iyvA2 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: LDT_IgD_like_2 | ECOD (1.6) |
B [auth A] | YkuD | e6iyvA1 | A: beta complex topology | X: L,D-transpeptidase catalytic domain-like (From Topology) | H: L,D-transpeptidase catalytic domain-like (From Topology) | T: L,D-transpeptidase catalytic domain-like | F: YkuD | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A [auth B] | 2.60.40.3710 | Mainly Beta | Sandwich | Immunoglobulin-like | CATH (4.3.0) | |
A [auth B] | 2.40.440.10 | Mainly Beta | Beta Barrel | L,D-transpeptidase catalytic domain-like | L,D-transpeptidase catalytic domain-like | CATH (4.3.0) |
B [auth A] | 2.60.40.3710 | Mainly Beta | Sandwich | Immunoglobulin-like | CATH (4.3.0) | |
B [auth A] | 2.40.440.10 | Mainly Beta | Beta Barrel | L,D-transpeptidase catalytic domain-like | L,D-transpeptidase catalytic domain-like | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth B], B [auth A] | PF03734 | L,D-transpeptidase catalytic domain (YkuD) | L,D-transpeptidase catalytic domain | This family of proteins are found in a range of bacteria. It has been shown that this domain can act as an L,D-transpeptidase that gives rise to an alternative pathway for peptidoglycan cross-linking [1]. This gives bacteria resistance to beta-lacta ... | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
A [auth B], B [auth A] | IPR050979 | Bacterial L,D-transpeptidase | Family |
A [auth B], B [auth A] | IPR041280 | Bacterial Ig domain, transpeptidase-associated | Domain |
A [auth B], B [auth A] | IPR005490 | L,D-transpeptidase catalytic domain | Domain |
A [auth B], B [auth A] | IPR038063 | L,D-transpeptidase catalytic domain-like | Homologous Superfamily |