SMTL ID : 4iym.3 (3 other biounits)

Crystal structure of putative methylmalonate-semialdehyde dehydrogenase from Sinorhizobium meliloti 1021 complexed with NAD, target 011934

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 26 residues within 4Å: Chain A: I.169, T.170, P.171, F.172, N.173, F.174, M.177, I.178, K.196, P.197, S.198, E.199, K.229, V.232, F.246, V.247, G.248, S.249, I.252, F.270, G.271, G.272, R.303, C.304, E.406, F.408 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.247 Hydrogen bonds: A:T.170, A:F.172, A:N.173, A:K.196, A:E.199, A:S.249, A:C.304, A:E.406 Water bridges: A:N.173, A:T.250 NAD.3: 25 residues within 4Å: Chain B: I.169, T.170, P.171, F.172, N.173, F.174, M.177, I.178, K.196, S.198, E.199, K.229, V.232, F.246, V.247, G.248, S.249, I.252, F.270, G.271, G.272, R.303, C.304, E.406, F.408 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:V.247 Hydrogen bonds: B:T.170, B:T.170, B:F.172, B:N.173, B:K.196, B:E.199, B:S.249, B:A.273, B:C.304, B:E.406 Water bridges: B:S.249, B:S.249, B:T.250 NAD.4: 23 residues within 4Å: Chain C: I.169, T.170, P.171, F.172, N.173, F.174, K.196, S.198, E.199, K.229, V.232, F.246, V.247, G.248, S.249, I.252, G.271, G.272, A.273, R.303, C.304, E.406, F.408 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:V.247 Hydrogen bonds: C:T.170, C:T.170, C:F.172, C:N.173, C:K.196, C:E.199, C:S.249, C:A.273, C:C.304, C:E.406 Water bridges: C:K.229, C:K.229, C:T.250 NAD.5: 24 residues within 4Å: Chain D: I.169, T.170, P.171, F.172, N.173, F.174, M.177, K.196, P.197, S.198, E.199, K.229, V.232, F.246, V.247, G.248, S.249, I.252, G.271, G.272, R.303, C.304, E.406, F.408 13 PLIP interactions: 13 interactions with chain D Hydrophobic interactions: D:V.247 Hydrogen bonds: D:T.170, D:T.170, D:F.172, D:N.173, D:K.196, D:E.199, D:K.229, D:S.249, D:C.304, D:E.406 Water bridges: D:T.250, D:R.303

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Malashkevich, V.N. et al., Crystal structure of putative methylmalonate-semialdehyde dehydrogenase from Sinorhizobium meliloti 1021 complexed with NAD, target 011934. To be Published

Release Date

2013-04-03

Peptides

Methylmalonate-semialdehyde dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
I

B
J

C
K

D
L

Methylmalonate-semialdehyde dehydrogenase

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