SMTL ID : 7cmc.1

CRYSTAL STRUCTURE OF DEOXYHYPUSINE SYNTHASE FROM PYROCOCCUS HORIKOSHII

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 28 residues within 4Å: Chain A: T.74, S.75, N.76, S.79, T.101, A.102, G.103, E.106, E.107, I.136, D.214, G.260, G.261, S.262, I.284, S.285, T.286, A.287, G.319, D.320, A.321 Chain D: S.262, H.266, D.291, S.293, L.294, S.295 Ligands: NAD.2 26 PLIP interactions: 19 interactions with chain A, 7 interactions with chain D Hydrogen bonds: A:T.74, A:S.75, A:S.75, A:N.76, A:S.79, A:T.101, A:T.101, A:A.102, A:G.103, A:E.107, A:G.261, A:S.262, A:T.286, A:T.286, A:A.287, A:D.320, A:D.320, A:A.321, D:S.262, D:S.293, D:L.294, D:S.295, D:S.295, D:S.295, D:S.295 Water bridges: A:N.76 NAD.2: 25 residues within 4Å: Chain A: S.262, L.263, H.266 Chain D: T.74, S.75, N.76, S.79, T.101, A.102, G.103, E.106, E.107, I.136, D.214, G.260, G.261, S.262, S.285, T.286, A.287, S.295, G.319, D.320, A.321 Ligands: NAD.1 19 PLIP interactions: 18 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:S.75, D:S.75, D:N.76, D:S.79, D:T.101, D:T.101, D:A.102, D:G.103, D:G.261, D:S.262, D:T.286, D:S.295, D:S.295, D:D.320, D:D.320, D:A.321, A:S.262 Water bridges: D:T.74, D:N.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, M. et al., Flexible NAD+Binding in Deoxyhypusine Synthase Reflects the Dynamic Hypusine Modification of Translation Factor IF5A. Int J Mol Sci (2020)

Release Date

2020-09-02

Peptides

Probable deoxyhypusine synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Probable deoxyhypusine synthase