SMTL ID : 3qj5.1

S-nitrosoglutathione reductase (GSNOR) in complex with N6022

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.97, G.98, C.100, C.103, C.111 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.97, A:C.100, A:C.103, A:C.111 ZN.2: 4 residues within 4Å: Chain A: C.45, H.67, C.174 Ligands: 022.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.45, A:H.67, A:C.174 ZN.10: 5 residues within 4Å: Chain B: C.97, G.98, C.100, C.103, C.111 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.97, B:C.100, B:C.103, B:C.111 ZN.11: 5 residues within 4Å: Chain B: C.45, H.67, C.174 Ligands: NAD.13, 022.14 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.45, B:H.67, B:C.174

2 x K: POTASSIUM ION(Non-covalent)

K.3: 4 residues within 4Å: Chain A: A.187, K.188, E.190, Y.264 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:K.188, A:Y.264, H2O.8, H2O.12 K.12: 4 residues within 4Å: Chain B: A.187, K.188, E.190, Y.264 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:A.187, B:K.188, B:Y.264, H2O.10

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

NAD.4: 27 residues within 4Å: Chain A: H.46, Y.93, C.174, T.178, G.199, L.200, G.201, G.202, V.203, V.222, D.223, I.224, N.225, K.228, C.268, I.269, G.270, V.274, V.292, G.293, V.294, T.317, A.318, F.319, R.369 Ligands: 022.5, N2P.8 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:T.178 Hydrogen bonds: A:H.46, A:G.199, A:G.201, A:V.203, A:I.224, A:I.269, A:V.292, A:V.294, A:F.319 Water bridges: A:H.46, A:G.202, A:G.204, A:K.228, A:N.271, A:N.271, A:N.271, A:S.367, A:R.369, A:R.369, A:R.369 Salt bridges: A:R.369 NAD.13: 28 residues within 4Å: Chain B: H.46, Y.93, C.174, T.178, G.199, L.200, G.201, G.202, V.203, V.222, D.223, I.224, N.225, K.228, C.268, I.269, G.270, V.274, V.292, G.293, V.294, T.317, A.318, F.319, R.369 Ligands: ZN.11, 022.14, N2P.16 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:T.178 Hydrogen bonds: B:H.46, B:Y.93, B:T.178, B:L.200, B:G.201, B:V.203, B:I.224, B:I.269, B:V.292, B:V.294, B:F.319 Water bridges: B:H.46, B:G.202, B:G.204, B:K.228, B:N.271, B:N.271, B:N.271, B:S.367, B:R.369, B:R.369, B:R.369, B:R.369 Salt bridges: B:R.369

2 x 022: 3-{1-(4-carbamoyl-2-methylphenyl)-5-[4-(1H-imidazol-1-yl)phenyl]-1H-pyrrol-2-yl}propanoic acid(Non-covalent)

022.5: 18 residues within 4Å: Chain A: C.45, T.47, H.67, Y.93, I.94, L.110, Q.112, R.115, Q.118, M.141, C.174, V.294, A.318 Chain B: K.284, V.309, T.310 Ligands: ZN.2, NAD.4 14 PLIP interactions: 11 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:Y.93, A:Y.93, A:I.94, A:L.110, A:V.294, A:A.318, B:V.309, B:T.310 Hydrogen bonds: A:Q.112, A:Q.118 Water bridges: A:Q.118, A:M.141 Salt bridges: A:R.115, B:K.284 022.14: 18 residues within 4Å: Chain A: K.284, F.306, T.310 Chain B: C.45, T.47, H.67, Y.93, I.94, L.110, Q.112, R.115, Q.118, M.141, C.174, V.294, A.318 Ligands: ZN.11, NAD.13 14 PLIP interactions: 10 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:Y.93, B:Y.93, B:I.94, B:L.110, B:A.318, A:F.306, A:T.310 Hydrogen bonds: B:Q.112, B:Q.118 Water bridges: B:M.141, B:M.141, A:K.284 Salt bridges: B:R.115, A:K.284

3 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.6: 5 residues within 4Å: Chain A: I.6, K.7, C.8, E.148, Y.149 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.148, A:Y.149 1PE.7: 6 residues within 4Å: Chain A: K.82, Q.96, C.97, G.98, V.325, E.326 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.159 1PE.15: 7 residues within 4Å: Chain B: K.82, Q.96, C.97, G.98, E.99, V.325, E.326 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.82, B:K.82

3 x N2P: PENTANE-1,5-DIAMINE(Non-covalent)

N2P.8: 7 residues within 4Å: Chain A: H.46, Y.50, G.270, V.294, A.295, A.296 Ligands: NAD.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.50, A:Y.50, A:A.296 Hydrogen bonds: A:H.46, A:G.270 Water bridges: A:A.296 N2P.16: 7 residues within 4Å: Chain B: H.46, T.47, Y.50, G.270, V.294, A.296 Ligands: NAD.13 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.50, B:Y.50, B:A.296 Hydrogen bonds: B:H.46, B:G.270 Water bridges: B:A.296 N2P.17: 4 residues within 4Å: Chain B: Q.244, D.245, F.246, S.247 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.246

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.9: 2 residues within 4Å: Chain A: K.315 Chain B: K.315 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.315, B:K.315, B:K.315

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, X. et al., Discovery of s-nitrosoglutathione reductase inhibitors: potential agents for the treatment of asthma and other inflammatory diseases. ACS Med Chem Lett (2011)

Release Date

2011-04-06

Peptides

Alcohol dehydrogenase class-3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alcohol dehydrogenase class-3