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 1LBU | pdb_00001lbu

HYDROLASE METALLO (ZN) DD-PEPTIDASE

External Resource: Annotation


Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Ad1lbua1 All alpha proteins PGBD-like PGBD-like Peptidoglycan binding domain, PGBD Zn2+ DD-carboxypeptidase, N-terminal domain (Streptomyces albus G ) [TaxId: 1962 ], SCOPe (2.08)
Ad1lbua2 Alpha and beta proteins (a+b) Hedgehog/DD-peptidase Hedgehog/DD-peptidase Muramoyl-pentapeptide carboxypeptidase Zn2+ DD-carboxypeptidase C-terminal catalytic domain (Streptomyces albus G ) [TaxId: 1962 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2 FamilyMuramoyl-pentapeptide carboxypeptidase 8023353 4001391 SCOP2 (2022-06-29)
ASCOP2 FamilyPeptidoglycan binding domain, PGBD 8024382 4000784 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyHedgehog/DD-peptidase 8035733 3001458 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyPGBD-like 8036761 3001357 SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APG_binding_1e1lbuA1 A: alpha arraysX: PGBD-likeH: PGBD-likeT: PGBD-likeF: PG_binding_1ECOD (v295.2)
APeptidase_M15_3e1lbuA2 A: a+b two layersX: Hedgehog/DD-peptidaseH: Hedgehog/DD-peptidaseT: Hedgehog/DD-peptidaseF: Peptidase_M15_3ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A1.10.101.10 Mainly Alpha Orthogonal Bundle Muramoyl-pentapeptide Carboxypeptidase domain 1CATH (4.3.0)
A3.30.1380.10 Alpha Beta 2-Layer Sandwich Muramoyl-pentapeptide Carboxypeptidase domain 2CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
MURAMOYL-PENTAPEPTIDE CARBOXYPEPTIDASE -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR002477Peptidoglycan binding-likeDomain
IPR036365PGBD-like superfamilyHomologous Superfamily
IPR009045Peptidase M74/Hedgehog-like, zinc-binding domain superfamilyHomologous Superfamily
IPR013230Peptidase M15A, C-terminalDomain
IPR036366PGBD superfamilyHomologous Superfamily

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

ChainsEnzyme NameDescriptionCatalytic Residues
zinc D-Ala-D-Ala carboxypeptidase  M-CSA #585

The zinc D-Ala-D-Ala carboxypeptidase belongs to the peptidase M15 family and hydrolyses the C-terminal peptide bond of the peptides of general structure R-DAla-D-Xaa, it is secreted by Streptomyces albus G. The lytic activity of the enzyme and its extracellular location suggest that it might be used by Streptomyces for fighting competitors in its ecological niche, since the enzyme does not hydrolyse the Streptomyces peptidoglycan.

Defined by 7 residues: HIS:A-154ASP:A-161TYR:A-189HIS:A-192ASP:A-194HIS:A-195HIS:A-197
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Explore in 3D: M-CSA Motif Definition
Search M-CSA Motif
EC: 3.4.17.8 (PDB Primary Data)
EC: 3.4.17.14 (UniProt)