SMTL ID : 2bii.1 (1 other biounit)

crystal structure of nitrate-reducing fragment of assimilatory nitrate reductase from Pichia angusta

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: K.85, N.97, N.393 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.97, A:N.393 Salt bridges: A:K.85 SO4.2: 6 residues within 4Å: Chain A: P.4, N.6, R.29, R.84, G.95, F.96 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.6, A:R.84, A:F.96 Water bridges: A:R.29, A:R.84 Salt bridges: A:R.29 SO4.8: 3 residues within 4Å: Chain B: K.85, N.97, N.393 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.97, B:N.393 Salt bridges: B:K.85 SO4.9: 6 residues within 4Å: Chain B: P.4, N.6, R.29, R.84, G.95, F.96 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.6, B:R.84, B:F.96 Water bridges: B:R.29, B:R.84 Salt bridges: B:R.29

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 6 residues within 4Å: Chain A: G.278, R.279, M.349, D.350, M.353 Chain B: R.235 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.278, A:R.279, A:R.279 NA.10: 6 residues within 4Å: Chain A: R.235 Chain B: G.278, R.279, M.349, D.350, M.353 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.278, B:R.279, B:R.279

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: K.342, R.374, A.376, I.377, I.378, R.401, E.416 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.374 Water bridges: A:R.401, A:R.401, A:V.417 GOL.5: 8 residues within 4Å: Chain A: E.8, L.11, G.99, A.100, N.252, V.390, V.391, A.392 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:A.100, A:A.392 Water bridges: A:L.11, A:L.11, A:N.252, A:N.252, A:Y.373 GOL.6: 7 residues within 4Å: Chain A: S.7, E.8, P.9, S.24, L.25, H.26, F.27 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.7, A:S.7 Water bridges: A:S.24 GOL.11: 7 residues within 4Å: Chain B: K.342, R.374, A.376, I.377, I.378, R.401, E.416 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.374 Water bridges: B:R.401, B:R.401, B:V.417 GOL.12: 8 residues within 4Å: Chain B: E.8, L.11, G.99, A.100, N.252, V.390, V.391, A.392 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:A.100, B:A.392 Water bridges: B:L.11, B:L.11, B:T.12, B:N.252, B:N.252 GOL.13: 7 residues within 4Å: Chain B: S.7, E.8, P.9, S.24, L.25, H.26, F.27 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.7, B:S.7 Water bridges: B:S.24

2 x MTV: (MOLYBDOPTERIN-S,S)-DIOXO-THIO-MOLYBDENUM(IV)(Non-covalent)

MTV.7: 23 residues within 4Å: Chain A: H.26, F.27, V.28, R.29, N.30, H.31, M.77, C.79, A.80, G.133, D.135, Y.142, D.172, H.173, R.178, I.185, G.186, G.187, S.189, V.190, K.191, W.192, N.212 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:R.29, A:R.29, A:R.29, A:H.31, A:H.31, A:A.80, A:G.187, A:K.191, A:K.191, A:N.212 Water bridges: A:R.29, A:G.32, A:G.81, A:N.212 Salt bridges: A:H.26, A:D.135, A:H.173, A:R.178, A:K.191 pi-Stacking: A:Y.142 pi-Cation interactions: A:K.191 MTV.14: 23 residues within 4Å: Chain B: H.26, F.27, V.28, R.29, N.30, H.31, M.77, C.79, A.80, G.133, D.135, Y.142, D.172, H.173, R.178, I.185, G.186, G.187, S.189, V.190, K.191, W.192, N.212 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:R.29, B:R.29, B:R.29, B:H.31, B:A.80, B:G.187, B:K.191, B:K.191, B:N.212 Water bridges: B:R.29, B:G.32, B:G.81, B:N.212 Salt bridges: B:H.26, B:D.135, B:H.173, B:R.178, B:K.191 pi-Stacking: B:Y.142 pi-Cation interactions: B:K.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fischer, K. et al., Structural Basis of Eukaryotic Nitrate Reduction: Crystal Structures of the Nitrate Reductase Active Site. Plant Cell (2005)

Release Date

2005-03-30

Peptides

NITRATE REDUCTASE [NADPH]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

NITRATE REDUCTASE [NADPH]

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