SMTL ID : 3vaz.3 (2 other biounits)

Crystal structure of Staphylococcal GAPDH1 in a hexagonal space group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.19 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 21 residues within 4Å: Chain A: N.16, G.17, F.18, G.19, R.20, I.21, N.41, D.42, L.43, E.85, P.86, C.104, T.105, G.106, F.107, S.128, A.129, C.159, N.324, E.325, Y.328 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.21, A:I.21, A:Y.328 Hydrogen bonds: A:F.18, A:R.20, A:I.21, A:N.41, A:P.86 Water bridges: A:N.16, A:G.19, A:G.22, A:G.106, A:Y.108, A:G.190, A:G.190 NAD.3: 21 residues within 4Å: Chain B: G.17, F.18, G.19, R.20, I.21, N.41, D.42, L.43, E.85, P.86, C.104, T.105, G.106, F.107, Y.108, S.128, A.129, C.159, T.189, N.324, Y.328 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:I.21, B:I.21, B:Y.328 Hydrogen bonds: B:F.18, B:R.20, B:I.21, B:N.41, B:L.43, B:P.86 Water bridges: B:G.19, B:E.325

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

PO4.2: 2 residues within 4Å: Chain A: S.84, E.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.84 PO4.4: 5 residues within 4Å: Chain B: A.10, K.12, N.97, D.99, K.123 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:A.10, B:N.97, B:N.97 Salt bridges: B:K.123

1 x DGY: (2R)-2,3-DIHYDROXYPROPANOIC ACID(Non-covalent)

DGY.5: 4 residues within 4Å: Chain B: D.173, D.174, F.175, G.176 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.174, B:F.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Roychowdhury, A. et al., Crystal structure of Staphylococcal GAPDH1 in a hexagonal space group. To be Published

Release Date

2013-01-02

Peptides

Glyceraldehyde-3-phosphate dehydrogenase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Glyceraldehyde-3-phosphate dehydrogenase 1

Related Entries With Identical Sequence