SMTL ID : 3lvf.1

Crystal Structure of holo Glyceraldehyde-3-phosphate dehydrogenase 1 (GAPDH1) from methicillin resistant Staphylococcus aureus MRSA252 at 1.7 Angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 22 residues within 4Å: Chain A: N.10, G.11, F.12, G.13, R.14, I.15, N.35, D.36, L.37, E.79, P.80, C.98, T.99, G.100, F.101, S.122, A.123, C.153, T.183, N.318, Y.322 Chain D: P.192 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.15, A:Y.322 Hydrogen bonds: A:F.12, A:R.14, A:I.15, A:N.35, A:P.80, A:N.318 Water bridges: A:N.10, A:N.10, A:G.13, A:G.16, A:G.100, A:S.122, A:G.184 NAD.2: 22 residues within 4Å: Chain B: N.10, G.11, F.12, G.13, R.14, I.15, N.35, D.36, L.37, E.79, P.80, C.98, T.99, G.100, F.101, S.122, A.123, C.153, T.183, N.318, Y.322 Chain C: P.192 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:I.15, B:Y.322 Hydrogen bonds: B:F.12, B:R.14, B:I.15, B:N.35, B:P.80, B:N.318 Water bridges: B:N.10, B:G.13, B:G.16, B:G.100, B:Y.102, B:S.122, B:G.184, B:E.319, B:E.319 NAD.3: 23 residues within 4Å: Chain B: P.192 Chain C: N.10, G.11, F.12, G.13, R.14, I.15, N.35, D.36, L.37, E.79, P.80, C.98, T.99, G.100, F.101, S.122, A.123, C.153, T.183, N.318, E.319, Y.322 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:I.15, C:Y.322 Hydrogen bonds: C:F.12, C:R.14, C:I.15, C:N.35, C:P.80, C:N.318 Water bridges: C:N.10, C:N.10, C:G.13, C:G.16, C:G.100, C:S.122, C:G.184, C:G.184, C:G.184, C:E.319 NAD.4: 21 residues within 4Å: Chain A: P.192 Chain D: G.11, F.12, G.13, R.14, I.15, N.35, D.36, L.37, E.79, P.80, C.98, T.99, G.100, F.101, S.122, A.123, C.153, T.183, N.318, Y.322 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:I.15, D:Y.322 Hydrogen bonds: D:F.12, D:R.14, D:I.15, D:N.35, D:P.80, D:N.318 Water bridges: D:G.13, D:G.16, D:G.100, D:Y.102, D:Y.102, D:S.122, D:G.184, D:G.184, D:G.184

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mukherjee, S. et al., Crystal Structure of Glyceraldehyde-3-Phosphate Dehydrogenase 1 from Methicillin-Resistant Staphylococcus aureus MRSA252 Provides Novel Insights into Substrate Binding and Catalytic Mechanism. J.Mol.Biol. (2010)

Release Date

2010-08-18

Peptides

Glyceraldehyde-3-phosphate dehydrogenase 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
P

B
R

C
O

D
Q

Glyceraldehyde-3-phosphate dehydrogenase 1