SMTL ID : 8qc6.1

Crystal Structure of NAD-dependent glycoside hydrolase from Arthrobacter sp. U41 in complex with NAD+ and sulfoquinovose (SQ)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 26 residues within 4Å: Chain A: G.31, A.32, G.33, H.34, M.35, D.56, P.57, Q.58, S.61, A.94, S.95, P.96, N.97, T.99, H.100, E.119, K.120, A.146, E.148, K.185, V.186, W.189, E.202, H.206, H.334 Ligands: R7R.2 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:A.32, A:A.32, A:H.34, A:M.35, A:S.61, A:S.61, A:H.100, A:K.120, A:E.148, A:V.186, A:E.202 Water bridges: A:G.33, A:A.36, A:H.79, A:R.195 Salt bridges: A:K.185, A:K.185 NAD.3: 27 residues within 4Å: Chain B: G.31, A.32, G.33, H.34, M.35, D.56, P.57, Q.58, S.61, A.94, S.95, P.96, N.97, T.99, H.100, I.103, E.119, K.120, A.146, E.148, K.185, V.186, W.189, E.202, H.206, H.334 Ligands: R7R.4 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:M.35 Hydrogen bonds: B:A.32, B:H.34, B:M.35, B:S.61, B:S.61, B:H.100, B:E.119, B:K.120, B:V.186, B:E.202 Water bridges: B:G.33, B:A.36, B:H.79, B:H.79 Salt bridges: B:K.185, B:K.185

2 x R7R: sulfoquinovose(Non-covalent)

R7R.2: 13 residues within 4Å: Chain A: K.120, Y.149, R.179, F.180, F.182, L.183, K.185, N.190, E.202, K.203, H.206, H.334 Ligands: NAD.1 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:K.120, A:Y.149, A:L.183, A:L.183, A:N.190, A:K.203, A:H.206, A:H.206 Water bridges: A:R.179, A:R.179 Salt bridges: A:R.179, A:R.179, A:K.185, A:K.203, A:H.334 R7R.4: 13 residues within 4Å: Chain B: K.120, Y.149, R.179, F.180, F.182, L.183, K.185, N.190, E.202, K.203, H.206, H.334 Ligands: NAD.3 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:K.120, B:L.183, B:N.190, B:K.203, B:H.206, B:H.206 Water bridges: B:R.179, B:K.185, B:E.202 Salt bridges: B:R.179, B:R.179, B:K.185, B:K.203, B:H.334

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaur, A. et al., Widespread Family of NAD + -Dependent Sulfoquinovosidases at the Gateway to Sulfoquinovose Catabolism. J.Am.Chem.Soc. (2023)

Release Date

2023-12-27

Peptides

Oxidoreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Oxidoreductase

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