SMTL ID : 2vhz.1

Crystal structure of holo L-alanine dehydrogenase from Mycobacterium tuberculosis in the closed conformation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

homo-hexamer

Ligands

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

NAI.1: 26 residues within 4Å: Chain A: L.130, M.133, S.134, A.137, G.175, G.177, T.178, A.179, D.198, I.199, N.200, K.203, S.220, A.238, V.239, L.240, L.249, I.267, A.268, D.270, Q.271, V.298, A.299, N.300, M.301, P.302 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:M.133, A:A.137, A:I.267 Hydrogen bonds: A:S.134, A:T.178, A:T.178, A:A.179, A:I.199, A:K.203, A:K.203, A:S.220, A:V.239, A:L.240, A:I.267, A:M.301 Water bridges: A:G.177, A:T.178, A:T.178, A:G.180, A:K.203, A:K.203 Salt bridges: A:K.203 NAI.2: 27 residues within 4Å: Chain B: L.130, M.133, S.134, A.137, G.175, G.177, T.178, A.179, D.198, I.199, N.200, K.203, S.220, A.238, V.239, L.240, L.249, I.267, A.268, I.269, D.270, Q.271, V.298, A.299, N.300, M.301, P.302 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:M.133, B:A.137, B:I.267 Hydrogen bonds: B:S.134, B:T.178, B:A.179, B:I.199, B:K.203, B:S.220, B:V.239, B:L.240, B:I.267, B:M.301 Water bridges: B:G.177, B:T.178, B:T.178, B:T.178, B:G.180, B:K.203 Salt bridges: B:K.203 NAI.3: 26 residues within 4Å: Chain C: L.130, M.133, S.134, A.137, G.175, G.177, T.178, A.179, D.198, I.199, N.200, K.203, S.220, A.238, V.239, L.240, L.249, I.267, A.268, D.270, Q.271, V.298, A.299, N.300, M.301, P.302 22 PLIP interactions: 22 interactions with chain C Hydrophobic interactions: C:M.133, C:A.137, C:I.267 Hydrogen bonds: C:S.134, C:T.178, C:A.179, C:I.199, C:K.203, C:K.203, C:S.220, C:V.239, C:L.240, C:I.267, C:M.301 Water bridges: C:G.177, C:T.178, C:T.178, C:T.178, C:G.180, C:K.203, C:K.203 Salt bridges: C:K.203 NAI.4: 27 residues within 4Å: Chain D: L.130, M.133, S.134, A.137, G.175, G.177, T.178, A.179, D.198, I.199, N.200, K.203, S.220, A.238, V.239, L.240, L.249, I.267, A.268, I.269, D.270, Q.271, V.298, A.299, N.300, M.301, P.302 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:M.133, D:A.137, D:I.267 Hydrogen bonds: D:S.134, D:T.178, D:T.178, D:A.179, D:I.199, D:K.203, D:S.220, D:V.239, D:L.240, D:I.267, D:M.301 Water bridges: D:G.177, D:T.178, D:T.178, D:G.180, D:K.203 Salt bridges: D:K.203 NAI.5: 26 residues within 4Å: Chain E: L.130, M.133, S.134, A.137, G.175, G.177, T.178, A.179, D.198, I.199, N.200, K.203, S.220, A.238, V.239, L.240, L.249, I.267, A.268, D.270, Q.271, V.298, A.299, N.300, M.301, P.302 22 PLIP interactions: 22 interactions with chain E Hydrophobic interactions: E:M.133, E:A.137, E:I.267 Hydrogen bonds: E:S.134, E:T.178, E:A.179, E:I.199, E:K.203, E:K.203, E:S.220, E:V.239, E:L.240, E:I.267, E:M.301 Water bridges: E:G.177, E:T.178, E:T.178, E:T.178, E:G.180, E:K.203, E:K.203 Salt bridges: E:K.203 NAI.6: 27 residues within 4Å: Chain F: L.130, M.133, S.134, A.137, G.175, G.177, T.178, A.179, D.198, I.199, N.200, K.203, S.220, A.238, V.239, L.240, L.249, I.267, A.268, I.269, D.270, Q.271, V.298, A.299, N.300, M.301, P.302 20 PLIP interactions: 20 interactions with chain F Hydrophobic interactions: F:M.133, F:A.137, F:I.267 Hydrogen bonds: F:S.134, F:T.178, F:T.178, F:A.179, F:I.199, F:K.203, F:S.220, F:V.239, F:L.240, F:I.267, F:M.301 Water bridges: F:G.177, F:T.178, F:T.178, F:G.180, F:K.203 Salt bridges: F:K.203

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Agren, D. et al., Three-Dimensional Structures of Apo- and Holo-L-Alanine Dehydrogenase from Mycobacterium Tuberculosis Reveal Conformational Changes Upon Coenzyme Binding. J.Mol.Biol. (2008)

Release Date

2008-03-11

Peptides

ALANINE DEHYDROGENASE: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

ALANINE DEHYDROGENASE

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