SMTL ID : 3uko.1 (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-dimer

Ligands

4 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

2 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

12 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 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Water bridges: B:T.290, B:K.317, A:K.317 Salt bridges: B:K.317, A:K.317 SO4.5: 3 residues within 4Å: Chain A: S.275, R.278, S.304 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.275 Water bridges: A:S.304 Salt bridges: A:R.278 SO4.6: 3 residues within 4Å: Chain A: H.248, D.249, K.250 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.249, A:K.250 Salt bridges: A:H.248, A:K.250 SO4.7: 2 residues within 4Å: Chain A: C.101, K.102 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.102 SO4.8: 4 residues within 4Å: Chain A: R.306, F.308 Chain B: S.299, G.300 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Water bridges: A:R.306, A:R.306 Salt bridges: A:R.306 Hydrogen bonds: B:G.300 SO4.9: 1 residues within 4Å: Chain A: K.286 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.286 SO4.10: 5 residues within 4Å: Chain A: L.111, R.116 Chain B: K.286, F.308, T.312 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Salt bridges: B:K.286, A:R.116 Water bridges: A:Q.95, A:R.116 SO4.14: 3 residues within 4Å: Chain B: H.248, D.249, K.250 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.249, B:K.250 Salt bridges: B:H.248 SO4.15: 3 residues within 4Å: Chain B: S.275, R.278, S.304 2 PLIP interactions: 2 interactions with chain B Water bridges: B:S.304 Salt bridges: B:R.278 SO4.16: 5 residues within 4Å: Chain B: Y.42, A.166, P.167, L.168, D.169 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.168, B:D.169 Water bridges: B:A.166 SO4.17: 0 residues within 4Å: (No contacts) 3 PLIP interactions: 3 interactions with chain B Water bridges: B:K.336, B:K.336, B:K.336 SO4.18: 2 residues within 4Å: Chain B: C.101, K.102 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.102 Salt bridges: B:K.102

Links

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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: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alcohol dehydrogenase class-3

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