SMTL ID : 1z0z.1

Crystal structure of a NAD kinase from Archaeoglobus fulgidus in complex with NAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 20 residues within 4Å: Chain A: D.78, L.82, R.83, L.104, N.144, E.145, I.182, T.185, G.186, Y.187, S.190, D.238, G.239 Chain D: A.154, K.155, M.156, R.172, D.174, A.209, F.211 14 PLIP interactions: 10 interactions with chain A, 4 interactions with chain D Hydrogen bonds: A:D.78, A:R.83, A:N.144, A:E.145, A:I.182, A:T.185, A:Y.187, A:S.190, A:D.238, D:R.172, D:D.174, D:A.209 pi-Stacking: A:Y.187 Salt bridges: D:K.155 NAD.2: 22 residues within 4Å: Chain B: D.78, G.79, L.82, R.83, L.104, N.144, E.145, I.182, T.185, G.186, Y.187, S.190, D.238, G.239, Q.240 Chain C: A.154, K.155, M.156, R.172, D.174, A.209, F.211 16 PLIP interactions: 12 interactions with chain B, 4 interactions with chain C Hydrogen bonds: B:D.78, B:N.144, B:E.145, B:I.182, B:Y.187, B:S.190, B:D.238, B:D.238, C:R.172, C:R.172, C:A.209 Water bridges: B:G.79 Salt bridges: B:R.83, B:R.83, C:K.155 pi-Stacking: B:Y.187 NAD.3: 23 residues within 4Å: Chain B: A.154, K.155, M.156, R.172, D.174, A.209, F.211 Chain C: D.78, L.82, R.83, R.101, L.104, N.144, E.145, I.182, G.183, T.185, G.186, Y.187, S.190, D.238, G.239, Q.240 17 PLIP interactions: 5 interactions with chain B, 12 interactions with chain C Hydrogen bonds: B:R.172, B:R.172, B:D.174, B:A.209, C:D.78, C:R.83, C:R.101, C:R.101, C:N.144, C:E.145, C:I.182, C:Y.187, C:S.190, C:D.238, C:Q.240 Salt bridges: B:K.155 pi-Stacking: C:Y.187 NAD.4: 22 residues within 4Å: Chain A: A.154, K.155, M.156, R.172, D.174, A.209, F.211 Chain D: D.78, G.79, L.82, L.104, L.105, N.144, E.145, I.182, T.185, G.186, Y.187, S.190, D.238, G.239, Q.240 15 PLIP interactions: 10 interactions with chain D, 5 interactions with chain A Hydrogen bonds: D:G.79, D:N.144, D:E.145, D:I.182, D:T.185, D:Y.187, D:S.190, D:D.238, D:Q.240, A:R.172, A:R.172, A:D.174, A:A.209 pi-Stacking: D:Y.187 Salt bridges: A:K.155

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, J. et al., Crystal Structures of an NAD Kinase from Archaeoglobus fulgidus in Complex with ATP, NAD, or NADP. J.Mol.Biol. (2005)

Release Date

2005-04-26

Peptides

Probable inorganic polyphosphate/ATP-NAD kinase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Probable inorganic polyphosphate/ATP-NAD kinase

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