SMTL ID : 3uko.2 (1 other biounit)

Crystal Structure of S-Nitrosoglutathione Reductase from Arabidopsis thaliana, complex with NADH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-tetramer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.98, R.99, C.101, C.104, C.112 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.98, A:C.101, A:C.104, A:C.112 ZN.2: 5 residues within 4Å: Chain A: C.46, H.68, E.69, C.176, R.371 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.46, A:H.68, A:E.69, A:C.176 ZN.11: 5 residues within 4Å: Chain B: C.98, R.99, C.101, C.104, C.112 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.98, B:C.101, B:C.104, B:C.112 ZN.12: 5 residues within 4Å: Chain B: C.46, H.68, E.69, C.176, R.371 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.46, B:H.68, B:E.69, B:C.176 ZN.19: 5 residues within 4Å: Chain C: C.98, R.99, C.101, C.104, C.112 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.98, C:C.101, C:C.104, C:C.112 ZN.20: 5 residues within 4Å: Chain C: C.46, H.68, E.69, C.176, R.371 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.46, C:H.68, C:E.69, C:C.176 ZN.29: 5 residues within 4Å: Chain D: C.98, R.99, C.101, C.104, C.112 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.98, D:C.101, D:C.104, D:C.112 ZN.30: 5 residues within 4Å: Chain D: C.46, H.68, E.69, C.176, R.371 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.46, D:H.68, D:E.69, D:C.176

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

NAD.3: 24 residues within 4Å: Chain A: H.47, Y.94, C.176, T.180, G.201, L.202, G.203, T.204, V.205, I.224, D.225, I.226, K.230, C.270, I.271, G.272, V.276, V.294, G.295, V.296, T.319, A.320, F.321, R.371 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:T.180 Hydrogen bonds: A:Y.94, A:T.180, A:L.202, A:L.202, A:T.204, A:V.205, A:I.226, A:I.271, A:V.294, A:V.296, A:F.321 Water bridges: A:G.203, A:T.204, A:G.206, A:N.273, A:R.371, A:R.371, A:R.371 Salt bridges: A:H.47, A:R.371 NAD.13: 25 residues within 4Å: Chain B: H.47, Y.94, C.176, T.180, G.201, L.202, G.203, T.204, V.205, I.224, D.225, I.226, K.230, C.270, I.271, G.272, N.273, V.276, V.294, G.295, V.296, T.319, A.320, F.321, R.371 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:T.180 Hydrogen bonds: B:T.180, B:L.202, B:L.202, B:G.203, B:T.204, B:V.205, B:I.226, B:I.271, B:N.273, B:V.296, B:T.319, B:F.321 Water bridges: B:G.206, B:D.227, B:K.230, B:R.371, B:R.371, B:R.371, B:R.371, B:R.371 Salt bridges: B:H.47, B:H.47, B:K.230, B:R.371 NAD.21: 24 residues within 4Å: Chain C: H.47, Y.94, C.176, T.180, G.201, L.202, G.203, T.204, V.205, I.224, D.225, I.226, K.230, C.270, I.271, G.272, V.276, V.294, G.295, V.296, T.319, A.320, F.321, R.371 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:T.180 Hydrogen bonds: C:L.202, C:L.202, C:T.204, C:V.205, C:I.226, C:I.271, C:V.294, C:V.296, C:F.321 Water bridges: C:G.203, C:G.206, C:N.273, C:R.371, C:R.371, C:R.371, C:R.371 Salt bridges: C:H.47, C:R.371 NAD.31: 25 residues within 4Å: Chain D: H.47, Y.94, C.176, T.180, G.201, L.202, G.203, T.204, V.205, I.224, D.225, I.226, K.230, C.270, I.271, G.272, N.273, V.276, V.294, G.295, V.296, T.319, A.320, F.321, R.371 26 PLIP interactions: 26 interactions with chain D Hydrophobic interactions: D:T.180 Hydrogen bonds: D:Y.94, D:L.202, D:L.202, D:G.203, D:T.204, D:V.205, D:I.226, D:I.271, D:N.273, D:V.296, D:T.319, D:F.321 Water bridges: D:T.204, D:G.206, D:D.227, D:D.227, D:K.230, D:R.371, D:R.371, D:R.371, D:R.371 Salt bridges: D:H.47, D:H.47, D:K.230, D:R.371

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

SO4.4: 4 residues within 4Å: Chain A: V.315, K.317 Chain B: V.315, K.317 Ligand excluded by PLIP SO4.5: 3 residues within 4Å: Chain A: S.275, R.278, S.304 Ligand excluded by PLIP SO4.6: 3 residues within 4Å: Chain A: H.248, D.249, K.250 Ligand excluded by PLIP SO4.7: 2 residues within 4Å: Chain A: C.101, K.102 Ligand excluded by PLIP SO4.8: 4 residues within 4Å: Chain A: R.306, F.308 Chain B: S.299, G.300 Ligand excluded by PLIP SO4.9: 1 residues within 4Å: Chain A: K.286 Ligand excluded by PLIP SO4.10: 5 residues within 4Å: Chain A: L.111, R.116 Chain B: K.286, F.308, T.312 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain B: H.248, D.249, K.250 Ligand excluded by PLIP SO4.15: 3 residues within 4Å: Chain B: S.275, R.278, S.304 Ligand excluded by PLIP SO4.16: 5 residues within 4Å: Chain B: Y.42, A.166, P.167, L.168, D.169 Ligand excluded by PLIP SO4.17: 2 residues within 4Å: Chain D: N.196, R.220 Ligand excluded by PLIP SO4.18: 2 residues within 4Å: Chain B: C.101, K.102 Ligand excluded by PLIP SO4.22: 4 residues within 4Å: Chain C: V.315, K.317 Chain D: V.315, K.317 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain C: S.275, R.278, S.304 Ligand excluded by PLIP SO4.24: 3 residues within 4Å: Chain C: H.248, D.249, K.250 Ligand excluded by PLIP SO4.25: 2 residues within 4Å: Chain C: C.101, K.102 Ligand excluded by PLIP SO4.26: 4 residues within 4Å: Chain C: R.306, F.308 Chain D: S.299, G.300 Ligand excluded by PLIP SO4.27: 1 residues within 4Å: Chain C: K.286 Ligand excluded by PLIP SO4.28: 5 residues within 4Å: Chain C: L.111, R.116 Chain D: K.286, F.308, T.312 Ligand excluded by PLIP SO4.32: 3 residues within 4Å: Chain D: H.248, D.249, K.250 Ligand excluded by PLIP SO4.33: 3 residues within 4Å: Chain D: S.275, R.278, S.304 Ligand excluded by PLIP SO4.34: 5 residues within 4Å: Chain D: Y.42, A.166, P.167, L.168, D.169 Ligand excluded by PLIP SO4.35: 2 residues within 4Å: Chain B: N.196, R.220 Ligand excluded by PLIP SO4.36: 2 residues within 4Å: Chain D: C.101, K.102 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crotty, J. et al., Crystal structure and kinetic behavior of alcohol dehydrogenase III /S-nitrosoglutathione reductase from arabidopsis thaliana. To be Published

Release Date

2012-11-14

Peptides

Alcohol dehydrogenase class-3: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Alcohol dehydrogenase class-3

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