SMTL ID : 6o15.1

Crystal structure of a putative oxidoreductase YjhC from Escherichia coli in complex with NAD(H)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: G.197, R.354 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.354, A:R.354, A:R.354 Salt bridges: A:R.354 SO4.3: 2 residues within 4Å: Chain B: G.197, R.354 6 PLIP interactions: 6 interactions with chain B Water bridges: B:G.196, B:R.354, B:R.354, B:R.354, B:R.354 Salt bridges: B:R.354 SO4.4: 5 residues within 4Å: Chain B: M.22, H.23, D.24, R.312, L.316 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.312 Salt bridges: B:H.23, B:R.312

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

NAD.2: 28 residues within 4Å: Chain A: V.7, G.8, V.9, G.10, Y.11, F.12, G.13, Y.32, D.33, P.34, E.35, N.36, A.67, T.68, P.69, N.70, L.72, H.73, E.90, K.91, P.92, G.117, I.119, W.160, K.161, H.173, H.176, L.307 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:F.12 Hydrogen bonds: A:G.10, A:Y.11, A:F.12, A:G.13, A:D.33, A:E.35, A:N.36, A:N.70, A:N.70, A:H.73, A:E.90, A:K.91, A:W.160, A:H.173 Water bridges: A:D.33, A:K.161 Salt bridges: A:K.161 pi-Stacking: A:F.12 NAD.5: 28 residues within 4Å: Chain B: V.7, G.8, V.9, G.10, Y.11, F.12, G.13, Y.32, D.33, P.34, E.35, N.36, A.67, T.68, P.69, N.70, L.72, H.73, E.90, K.91, P.92, G.117, I.119, W.160, K.161, H.173, H.176, L.307 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:F.12 Hydrogen bonds: B:V.9, B:G.10, B:Y.11, B:F.12, B:G.13, B:N.36, B:N.70, B:N.70, B:E.90, B:K.91, B:W.160, B:H.173 Water bridges: B:D.33, B:E.35, B:K.161 Salt bridges: B:K.161 pi-Stacking: B:F.12 pi-Cation interactions: B:K.91

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Horne, C.R. et al., On the structure and function of Escherichia coli YjhC: An oxidoreductase involved in bacterial sialic acid metabolism. Proteins (2020)

Release Date

2019-11-27

Peptides

Uncharacterized oxidoreductase YjhC: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Uncharacterized oxidoreductase YjhC