SMTL ID : 5dt9.1

Crystal structure of a putative D-Erythronate-4-Phosphate Dehydrogenase from Vibrio cholerae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.66 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 25 residues within 4Å: Chain A: N.98, V.102, I.129, G.130, A.131, G.132, Q.133, V.134, N.152, D.153, P.154, P.155, K.156, H.181, T.182, P.183, W.190, T.192, A.213, A.214, R.215, D.239, H.261, A.263, G.264 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.102 Hydrogen bonds: A:A.131, A:A.131, A:G.132, A:Q.133, A:V.134, A:T.182, A:W.190, A:D.239, A:D.239, A:A.263, A:G.264 Water bridges: A:G.96 NAD.14: 25 residues within 4Å: Chain B: N.98, V.102, I.129, G.130, A.131, G.132, Q.133, V.134, N.152, D.153, P.154, P.155, K.156, H.181, T.182, P.183, W.190, T.192, A.213, A.214, R.215, D.239, H.261, A.263, G.264 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:V.102 Hydrogen bonds: B:A.131, B:A.131, B:G.132, B:Q.133, B:V.134, B:T.182, B:W.190, B:D.239, B:A.263, B:G.264 Water bridges: B:G.96

20 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 1 residues within 4Å: Chain A: R.65 Ligand excluded by PLIP SO4.3: 1 residues within 4Å: Chain A: K.67 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: R.50, S.51, T.73, K.270 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: V.79, D.80, Q.81, A.82 Ligand excluded by PLIP SO4.6: 4 residues within 4Å: Chain A: N.152, P.154, E.167, L.168 Ligand excluded by PLIP SO4.7: 4 residues within 4Å: Chain A: I.184, T.185, R.186, G.187 Ligand excluded by PLIP SO4.8: 3 residues within 4Å: Chain A: R.272, N.292, P.293 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain A: D.43, N.64, R.65 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain A: R.215, G.216, E.244 Ligand excluded by PLIP SO4.11: 5 residues within 4Å: Chain A: A.365, H.368, L.369, A.370, P.371 Ligand excluded by PLIP SO4.15: 1 residues within 4Å: Chain B: R.65 Ligand excluded by PLIP SO4.16: 1 residues within 4Å: Chain B: K.67 Ligand excluded by PLIP SO4.17: 4 residues within 4Å: Chain B: R.50, S.51, T.73, K.270 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain B: V.79, D.80, Q.81, A.82 Ligand excluded by PLIP SO4.19: 4 residues within 4Å: Chain B: N.152, P.154, E.167, L.168 Ligand excluded by PLIP SO4.20: 4 residues within 4Å: Chain B: I.184, T.185, R.186, G.187 Ligand excluded by PLIP SO4.21: 3 residues within 4Å: Chain B: R.272, N.292, P.293 Ligand excluded by PLIP SO4.22: 3 residues within 4Å: Chain B: D.43, N.64, R.65 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain B: R.215, G.216, E.244 Ligand excluded by PLIP SO4.24: 5 residues within 4Å: Chain B: A.365, H.368, L.369, A.370, P.371 Ligand excluded by PLIP

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.12: 3 residues within 4Å: Chain A: Y.17, Q.19, A.20 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain A: G.75, D.77, R.215 Ligand excluded by PLIP CL.25: 3 residues within 4Å: Chain B: Y.17, Q.19, A.20 Ligand excluded by PLIP CL.26: 3 residues within 4Å: Chain B: G.75, D.77, R.215 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stogios, P.J., Crystal structure of a putative D-Erythronate-4-Phosphate Dehydrogenase from Vibrio cholerae. To Be Published

Release Date

2015-09-30

Peptides

Erythronate-4-phosphate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Erythronate-4-phosphate dehydrogenase