SMTL ID : 2g76.1

Crystal structure of human 3-phosphoglycerate dehydrogenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x MLT: D-MALATE(Non-covalent)

MLT.1: 12 residues within 4Å: Chain A: R.74, S.75, R.95, G.97, T.98, N.122, R.256, H.303, A.306, Q.312 Chain B: R.155 Ligands: NAD.2 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.75, A:T.98, A:N.122, A:A.306, A:Q.312 Water bridges: A:R.74, B:R.155 Salt bridges: A:R.74, A:R.95, A:R.256, A:H.303, B:R.155 MLT.3: 11 residues within 4Å: Chain A: R.155 Chain B: R.74, S.75, R.95, G.97, T.98, N.122, R.256, H.303, A.306 Ligands: NAD.4 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.75, B:T.98, B:N.122, B:A.306, B:Q.312 Water bridges: B:R.74, B:R.74 Salt bridges: B:R.74, B:R.95, B:R.256, B:H.303, A:R.155

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

NAD.2: 25 residues within 4Å: Chain A: T.98, N.122, A.126, G.172, G.174, R.175, I.176, Y.194, D.195, P.196, I.197, H.226, T.227, P.228, S.232, T.233, C.254, A.255, R.256, D.280, V.281, H.303, G.305, A.306 Ligands: MLT.1 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:T.98, A:N.122, A:A.126, A:I.176 Hydrogen bonds: A:G.174, A:R.175, A:I.176, A:T.227, A:S.232, A:S.232, A:D.280, A:G.305, A:A.306 Water bridges: A:R.175, A:R.175, A:R.175, A:G.177 Salt bridges: A:R.175 NAD.4: 24 residues within 4Å: Chain B: T.98, N.122, A.126, G.172, G.174, R.175, I.176, Y.194, D.195, P.196, I.197, H.226, T.227, P.228, T.233, C.254, A.255, R.256, D.280, V.281, H.303, G.305, A.306 Ligands: MLT.3 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:T.98, B:A.126, B:I.176 Hydrogen bonds: B:T.98, B:G.174, B:R.175, B:I.176, B:T.227, B:D.280, B:D.280, B:A.306 Water bridges: B:R.175, B:R.175, B:G.177, B:S.232, B:R.256 Salt bridges: B:R.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Turnbull, A.P. et al., Crystal structure of human 3-phosphoglycerate dehydrogenase. To be Published

Release Date

2006-03-21

Peptides

D-3-phosphoglycerate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D-3-phosphoglycerate dehydrogenase