SMTL ID : 4z7a.2 (1 other biounit)

Structural and biochemical characterization of a non-functionally redundant M. tuberculosis (3,3) L,D-Transpeptidase, LdtMt5.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 4 residues within 4Å: Chain A: T.130, A.146, G.147, K.148 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.148 PO4.5: 4 residues within 4Å: Chain B: T.130, A.146, G.147, K.148 1 PLIP interactions: 1 interactions with chain B Water bridges: B:K.148

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 8 residues within 4Å: Chain A: P.122, L.123, G.124, Y.239, A.250, Q.251, D.252 Ligands: ACE.4 2 PLIP interactions: 2 interactions with chain A Water bridges: A:E.121, A:P.122 PEG.6: 8 residues within 4Å: Chain B: P.122, L.123, G.124, Y.239, A.250, Q.251, D.252 Ligands: ACE.8 2 PLIP interactions: 2 interactions with chain B Water bridges: B:E.121, B:P.122

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.3: 9 residues within 4Å: Chain A: F.314, Y.315, M.316, S.317, R.333, F.340 Chain B: E.309, K.310, Y.372 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.315, A:S.317, B:K.310 PGE.7: 9 residues within 4Å: Chain A: E.309, K.310, Y.372 Chain B: F.314, Y.315, M.316, S.317, R.333, F.340 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.310, B:Y.315, B:S.317

2 x ACE: ACETYL GROUP(Non-functional Binders)

ACE.4: 9 residues within 4Å: Chain A: N.100, K.104, V.106, E.121, P.122, L.123, G.124, Y.129 Ligands: PEG.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.104 Hydrogen bonds: A:N.100, A:Y.129 ACE.8: 9 residues within 4Å: Chain B: N.100, K.104, V.106, E.121, P.122, L.123, G.124, Y.129 Ligands: PEG.6 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:K.104 Hydrogen bonds: B:N.100, B:Y.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brammer Basta, L.A. et al., Loss of a Functionally and Structurally Distinct ld-Transpeptidase, LdtMt5, Compromises Cell Wall Integrity in Mycobacterium tuberculosis. J.Biol.Chem. (2015)

Release Date

2015-09-02

Peptides

Mycobacterium tuberculosis (3,3)L,D-Transpeptidase type 5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Mycobacterium tuberculosis (3,3)L,D-Transpeptidase type 5

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