4A1I
ykud from B.subtilis
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | L, D-transpeptidase catalytic domain-like | 8034162 | 3000695 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | LysM domain-like | 8034165 | 3001938 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | LysM domain-like | 8034165 | 3001938 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | L, D-transpeptidase catalytic domain-like | 8034162 | 3000695 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | L, D-transpeptidase catalytic domain-like | 8034162 | 3000695 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | LysM domain-like | 8034165 | 3001938 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | L, D-transpeptidase catalytic domain-like | 8034162 | 3000695 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | LysM domain-like | 8034165 | 3001938 | SCOP2B (2022-06-29) |
E | SCOP2B Superfamily | L, D-transpeptidase catalytic domain-like | 8034162 | 3000695 | SCOP2B (2022-06-29) |
E | SCOP2B Superfamily | LysM domain-like | 8034165 | 3001938 | SCOP2B (2022-06-29) |
F | SCOP2B Superfamily | L, D-transpeptidase catalytic domain-like | 8034162 | 3000695 | SCOP2B (2022-06-29) |
F | SCOP2B Superfamily | LysM domain-like | 8034165 | 3001938 | SCOP2B (2022-06-29) |
G | SCOP2B Superfamily | LysM domain-like | 8034165 | 3001938 | SCOP2B (2022-06-29) |
G | SCOP2B Superfamily | L, D-transpeptidase catalytic domain-like | 8034162 | 3000695 | SCOP2B (2022-06-29) |
H | SCOP2B Superfamily | LysM domain-like | 8034165 | 3001938 | SCOP2B (2022-06-29) |
H | SCOP2B Superfamily | L, D-transpeptidase catalytic domain-like | 8034162 | 3000695 | 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 | YkuD | e4a1iA1 | 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) |
A | LysM_1 | e4a1iA2 | A: alpha arrays | X: HTH | H: LysM domain (From Topology) | T: LysM domain | F: LysM_1 | ECOD (1.6) |
B | YkuD | e4a1iB1 | 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 | LysM_1 | e4a1iB2 | A: alpha arrays | X: HTH | H: LysM domain (From Topology) | T: LysM domain | F: LysM_1 | ECOD (1.6) |
C | YkuD | e4a1iC1 | 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) |
C | LysM_1 | e4a1iC2 | A: alpha arrays | X: HTH | H: LysM domain (From Topology) | T: LysM domain | F: LysM_1 | ECOD (1.6) |
D | YkuD | e4a1iD1 | 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) |
D | LysM_1 | e4a1iD2 | A: alpha arrays | X: HTH | H: LysM domain (From Topology) | T: LysM domain | F: LysM_1 | ECOD (1.6) |
E | YkuD | e4a1iE1 | 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) |
E | LysM_1 | e4a1iE2 | A: alpha arrays | X: HTH | H: LysM domain (From Topology) | T: LysM domain | F: LysM_1 | ECOD (1.6) |
F | YkuD | e4a1iF1 | 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) |
F | LysM_1 | e4a1iF2 | A: alpha arrays | X: HTH | H: LysM domain (From Topology) | T: LysM domain | F: LysM_1 | ECOD (1.6) |
G | YkuD | e4a1iG1 | 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) |
G | LysM_1 | e4a1iG2 | A: alpha arrays | X: HTH | H: LysM domain (From Topology) | T: LysM domain | F: LysM_1 | ECOD (1.6) |
H | YkuD | e4a1iH1 | 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) |
H | LysM_1 | e4a1iH2 | A: alpha arrays | X: HTH | H: LysM domain (From Topology) | T: LysM domain | F: LysM_1 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
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 | |
PF01476 | LysM domain (LysM) | LysM domain | The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation [1]. This domain may have a general peptidoglycan binding function. The structure of this domain is known [2]. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR050979 | Bacterial L,D-transpeptidase | Family | |
IPR036779 | LysM domain superfamily | Homologous Superfamily | |
IPR018392 | LysM domain | Domain | |
IPR005490 | L,D-transpeptidase catalytic domain | Domain | |
IPR038063 | L,D-transpeptidase catalytic domain-like | Homologous Superfamily |