SMTL ID : 1yl7.1 (1 other biounit)

the crystal structure of Mycobacterium tuberculosis dihydrodipicolinate reductase (Rv2773c) in complex with NADH (crystal form C)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.34 Å

Oligo State

homo-tetramer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: V.20, A.21, A.23, D.24, L.26 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:V.20, A:A.21, A:A.23, A:L.26 MG.3: 4 residues within 4Å: Chain B: V.20, A.21, A.23, L.26 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:V.20, B:A.21, B:A.23, B:L.26, H2O.4 MG.6: 4 residues within 4Å: Chain D: V.20, A.21, A.23, L.26 6 PLIP interactions: 4 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:V.20, D:A.21, D:A.23, D:L.26, H2O.6, H2O.9

4 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)

NAI.2: 21 residues within 4Å: Chain A: L.6, G.7, K.9, G.10, K.11, V.12, L.32, D.33, A.34, F.52, T.53, P.55, V.57, G.75, T.76, T.77, A.102, P.103, N.104, F.105, F.217 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.12 Hydrogen bonds: A:G.7, A:K.11, A:V.12, A:G.13, A:A.34, A:G.75, A:T.77, A:F.105 Salt bridges: A:K.11, A:K.11 pi-Stacking: A:F.52, A:F.217 NAI.4: 19 residues within 4Å: Chain B: G.7, K.9, G.10, K.11, V.12, L.32, D.33, A.34, F.52, T.53, V.57, G.75, T.76, T.77, A.102, P.103, N.104, F.105, F.217 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:V.12 Hydrogen bonds: B:G.7, B:G.7, B:K.11, B:V.12, B:G.75, B:T.77, B:F.105 Water bridges: B:G.13 Salt bridges: B:K.11, B:K.11 pi-Stacking: B:F.52, B:F.217 NAI.5: 18 residues within 4Å: Chain C: G.7, K.9, G.10, K.11, V.12, D.33, A.34, F.52, T.53, V.57, G.75, T.76, T.77, A.102, P.103, N.104, F.105, F.217 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:V.12 Hydrogen bonds: C:G.7, C:K.9, C:K.11, C:V.12, C:A.34, C:G.75, C:T.77, C:F.105 Water bridges: C:G.13 Salt bridges: C:K.11, C:K.11 pi-Stacking: C:F.52, C:F.217 NAI.7: 21 residues within 4Å: Chain D: L.6, G.7, K.9, G.10, K.11, V.12, L.32, D.33, A.34, F.52, T.53, P.55, V.57, G.75, T.76, T.77, A.102, P.103, N.104, F.105, F.217 16 PLIP interactions: 16 interactions with chain D Hydrophobic interactions: D:V.12 Hydrogen bonds: D:G.7, D:K.11, D:V.12, D:N.61, D:G.75, D:T.77, D:F.105 Water bridges: D:K.11, D:K.11, D:G.13, D:D.33 Salt bridges: D:K.11, D:K.11 pi-Stacking: D:F.52, D:F.217

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Janowski, R. et al., The structure of dihydrodipicolinate reductase (DapB) from Mycobacterium tuberculosis in three crystal forms. Acta Crystallogr.,Sect.D (2010)

Release Date

2006-01-17

Peptides

Dihydrodipicolinate reductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Dihydrodipicolinate reductase

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