SMTL ID : 2o4c.1

Crystal Structure of D-Erythronate-4-phosphate Dehydrogenase Complexed with NAD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 5 residues within 4Å: Chain A: R.44, S.45, T.66, Y.258, R.346 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.66, A:Y.258 Salt bridges: A:R.346

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

NAD.2: 26 residues within 4Å: Chain A: I.67, N.91, V.95, V.122, G.123, A.124, G.125, Q.126, V.127, C.145, D.146, P.147, P.148, H.174, T.175, P.176, H.183, T.185, A.206, S.207, R.208, D.232, V.233, H.254, A.256, G.257 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.67, A:V.95 Hydrogen bonds: A:Q.126, A:V.127, A:R.149, A:T.175, A:H.183, A:D.232, A:G.257 Water bridges: A:G.89, A:G.125, A:G.128 NAD.3: 27 residues within 4Å: Chain B: N.91, V.95, V.122, G.123, A.124, G.125, Q.126, V.127, C.145, D.146, P.147, P.148, R.149, H.174, T.175, P.176, H.183, T.185, A.206, S.207, R.208, D.232, V.233, H.254, A.256, G.257 Ligands: TLA.4 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:V.95 Hydrogen bonds: B:A.124, B:A.124, B:Q.126, B:V.127, B:T.175, B:H.183, B:R.208, B:D.232, B:D.232, B:G.257 Water bridges: B:G.125, B:G.128

1 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.4: 6 residues within 4Å: Chain B: N.91, R.208, H.254, Y.258, R.346 Ligands: NAD.3 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.91, B:R.346 Salt bridges: B:R.208, B:H.254, B:R.346

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain B: A.115, L.138, W.140, P.306, A.307 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ha, J.Y. et al., Crystal Structure of d-Erythronate-4-phosphate Dehydrogenase Complexed with NAD. J.Mol.Biol. (2007)

Release Date

2007-02-20

Peptides

Erythronate-4-phosphate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Erythronate-4-phosphate dehydrogenase