SMTL ID : 3b0h.1 (1 other biounit)

Assimilatory nitrite reductase (Nii4) from tobbaco root

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

monomer

Ligands

1 x SRM: SIROHEME(Non-covalent)

SRM.1: 33 residues within 4Å: Chain A: K.117, F.122, R.124, M.133, R.135, T.167, T.168, R.169, N.171, Q.173, R.175, R.249, K.250, N.252, I.267, F.290, F.291, S.292, P.293, Q.332, R.335, Q.428, A.466, C.467, T.468, C.473, K.475, N.510, S.511, C.512, Q.514 Ligands: SF4.2, CL.4 44 PLIP interactions: 43 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:F.122, A:R.169, A:K.250, A:F.291, A:N.510, A:Q.514 Hydrogen bonds: A:T.167, A:T.168, A:T.168, A:N.171, A:Q.173, A:Q.173, A:N.252, A:F.291, A:Q.332, A:Q.428, A:T.468, A:T.468, A:Q.514 Water bridges: A:R.169, A:R.169, A:R.205, A:N.206, A:R.249, A:R.249, A:R.249, A:R.249, A:K.250 Salt bridges: A:K.117, A:R.124, A:R.124, A:R.135, A:R.169, A:R.175, A:R.249, A:R.249, A:K.250, A:R.335, A:R.335, A:K.475, A:K.481 pi-Cation interactions: A:K.250 Metal complexes: A:C.512, H2O.1

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.2: 11 residues within 4Å: Chain A: C.467, T.468, C.473, A.476, T.506, G.507, C.508, N.510, S.511, C.512 Ligands: SRM.1 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.467, A:C.473, A:C.508, A:C.512

1 x K: POTASSIUM ION(Non-covalent)

K.3: 6 residues within 4Å: Chain A: I.397, V.399, E.427, Q.428, N.429, L.464 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:I.397, A:E.427, H2O.2

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 4 residues within 4Å: Chain A: K.117, M.201, R.205 Ligands: SRM.1 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain A: R.125, K.126, G.474 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakano, S. et al., Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures. Protein Sci. (2012)

Release Date

2012-02-22

Peptides

Nitrite reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Nitrite reductase

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