SMTL ID : 1s20.1 (3 other biounits)

A novel NAD binding protein revealed by the crystal structure of E. Coli 2,3-diketogulonate reductase (YiaK) NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET ER82

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.1: 7 residues within 4Å: Chain A: H.44, R.48, H.116, S.179, Y.180, G.181 Ligands: NAD.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.48, A:R.48, A:Y.180, A:G.181 Water bridges: A:S.140 Salt bridges: A:H.44, A:R.48, A:H.116 TLA.3: 7 residues within 4Å: Chain B: H.44, R.48, H.116, S.179, Y.180, G.181 Ligands: NAD.4 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.48, B:Y.180, B:G.181 Water bridges: B:T.156 Salt bridges: B:H.44, B:R.48, B:R.48, B:H.116

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

NAD.2: 20 residues within 4Å: Chain A: H.44, H.116, W.117, S.140, T.156, P.158, M.170, V.171, D.172, M.173, S.174, S.179, R.301, P.303, G.304, E.306 Chain B: W.147, W.224, K.225 Ligands: TLA.1 21 PLIP interactions: 16 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:P.158 Hydrogen bonds: A:G.120, A:T.156, A:T.156, A:D.172, A:D.172, A:D.172, A:S.174, A:G.304, A:E.306, B:W.147, B:W.224 Water bridges: A:R.119, A:D.172, A:S.179, A:S.179 pi-Cation interactions: A:R.301, A:R.301 Salt bridges: B:K.225, B:K.225 pi-Stacking: B:W.224 NAD.4: 18 residues within 4Å: Chain A: W.147, W.224, K.225 Chain B: H.44, H.116, W.117, T.156, P.158, M.170, V.171, D.172, M.173, S.174, R.301, P.303, G.304, E.306 Ligands: TLA.3 25 PLIP interactions: 6 interactions with chain A, 19 interactions with chain B Hydrogen bonds: A:W.147, A:W.224, B:T.156, B:T.156, B:D.172, B:D.172, B:D.172, B:S.174, B:G.304, B:E.306 Water bridges: A:W.224, B:R.119, B:D.172, B:D.172, B:D.172, B:S.179, B:S.179, B:R.301, B:R.301, B:R.301 Salt bridges: A:K.225, A:K.225 pi-Stacking: A:W.224 Hydrophobic interactions: B:P.158 pi-Cation interactions: B:R.301

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Forouhar, F. et al., A Novel NAD-binding Protein Revealed by the Crystal Structure of 2,3-Diketo-L-gulonate Reductase (YiaK). J.Biol.Chem. (2004)

Release Date

2004-01-20

Peptides

Hypothetical oxidoreductase yiaK: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Hypothetical oxidoreductase yiaK

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