SMTL ID : 3kbo.1 (1 other biounit)

2.14 Angstrom Crystal Structure of Putative Oxidoreductase (ycdW) from Salmonella typhimurium in Complex with NADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.14 Å

Oligo State

homo-dimer

Ligands

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 31 residues within 4Å: Chain A: A.68, G.69, R.92, M.98, M.102, G.146, A.147, G.148, V.149, L.150, W.168, S.169, R.170, S.171, K.173, L.200, L.201, P.202, Q.206, T.207, L.228, A.229, R.230, D.254, V.255, H.278, A.280, A.281, R.313, Y.315 Ligands: CL.3 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:A.68, A:L.150 Hydrogen bonds: A:A.147, A:A.147, A:V.149, A:L.150, A:G.151, A:R.170, A:S.171, A:R.230, A:A.280, A:A.281, A:A.281, A:Y.315, A:Y.315 Water bridges: A:V.70, A:G.148, A:N.203, A:N.203, A:R.313, A:R.313 Salt bridges: A:R.92, A:R.92, A:K.173 NDP.5: 30 residues within 4Å: Chain B: A.68, G.69, R.92, M.98, M.102, G.146, A.147, G.148, V.149, L.150, W.168, S.169, R.170, S.171, K.173, L.200, L.201, P.202, Q.206, T.207, L.228, A.229, R.230, D.254, V.255, H.278, A.280, A.281, Y.315 Ligands: CL.7 27 PLIP interactions: 27 interactions with chain B Hydrophobic interactions: B:A.68, B:L.150 Hydrogen bonds: B:A.147, B:A.147, B:V.149, B:L.150, B:R.170, B:S.171, B:K.173, B:R.230, B:R.230, B:D.254, B:A.280, B:A.281, B:A.281, B:Y.315 Water bridges: B:D.71, B:G.148, B:G.151, B:R.184, B:R.184, B:N.203, B:N.203 Salt bridges: B:R.92, B:R.92, B:K.173 pi-Cation interactions: B:R.170

1 x NDB: N-(2-hydroxyethyl)-N,N-dimethyl-3-sulfopropan-1-aminium(Non-covalent)

NDB.2: 8 residues within 4Å: Chain A: N.39, P.41, E.53, M.54, A.56, G.57, R.58, R.59 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.58, A:R.58, A:R.58, A:R.59 Water bridges: A:A.42, A:A.42 Salt bridges: A:R.59

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

CL.3: 5 residues within 4Å: Chain A: W.48, A.68, G.69, R.230 Ligands: NDP.1 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: F.13, N.14, W.18 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Chain B: W.48, A.68, G.69, R.230 Ligands: NDP.5 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain B: F.13, N.14, W.18 Ligand excluded by PLIP

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.6: 7 residues within 4Å: Chain A: Q.103, A.160, W.161 Chain B: L.100, Q.103, S.157, W.161 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.103 Water bridges: A:Q.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., 2.14 Angstrom Crystal Structure of Putative Oxidoreductase (ycdW) from Salmonella typhimurium in Complex with NADP. To be Published

Release Date

2009-10-27

Peptides

Glyoxylate/hydroxypyruvate reductase A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Glyoxylate/hydroxypyruvate reductase A

Related Entries With Identical Sequence