SMTL ID : 2gsd.1

NAD-dependent formate dehydrogenase from bacterium Moraxella sp.C2 in complex with NAD and azide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x AZI: AZIDE ION(Non-covalent)

AZI.1: 8 residues within 4Å: Chain A: P.98, F.99, G.122, I.123, N.147, R.285, H.333 Ligands: NAD.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:I.123, A:I.123, A:N.147, A:N.147, A:R.285, A:R.285 AZI.3: 8 residues within 4Å: Chain B: P.98, F.99, G.122, I.123, N.147, R.285, H.333 Ligands: NAD.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:I.123, B:N.147, B:R.285, B:R.285

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

NAD.2: 30 residues within 4Å: Chain A: F.99, I.123, N.147, S.148, V.151, A.199, G.201, R.202, I.203, D.222, R.223, H.224, N.255, C.256, P.257, H.259, E.261, T.262, T.283, A.284, R.285, D.309, V.310, H.333, S.335, G.336, V.377, S.381, Y.382 Ligands: AZI.1 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:I.123, A:V.151, A:I.203 Hydrogen bonds: A:R.202, A:I.203, A:R.223, A:H.224, A:H.224, A:E.261, A:E.261, A:D.309, A:G.336, A:S.381 Water bridges: A:G.124, A:S.148, A:S.148, A:G.201, A:G.204, A:R.223, A:R.242, A:L.258, A:H.380, A:Y.382 Salt bridges: A:R.202 NAD.4: 30 residues within 4Å: Chain B: F.99, I.123, N.147, S.148, V.151, A.199, G.201, R.202, I.203, D.222, R.223, H.224, N.255, C.256, P.257, H.259, E.261, T.262, T.283, A.284, R.285, D.309, V.310, H.333, S.335, G.336, V.377, S.381, Y.382 Ligands: AZI.3 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:I.123, B:V.151, B:I.203 Hydrogen bonds: B:R.202, B:I.203, B:R.223, B:H.224, B:H.224, B:E.261, B:D.309, B:G.336, B:S.381, B:Y.382 Water bridges: B:G.124, B:D.126, B:S.148, B:S.148, B:G.201, B:G.204, B:R.223, B:L.258, B:H.380 Salt bridges: B:R.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shabalin, I.G. et al., Structures of the apo and holo forms of formate dehydrogenase from the bacterium Moraxella sp. C-1: towards understanding the mechanism of the closure of the interdomain cleft. Acta Crystallogr.,Sect.D (2009)

Release Date

2006-05-09

Peptides

NAD-dependent formate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

NAD-dependent formate dehydrogenase