SMTL ID : 3b0m.1

M175K mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x SRM: SIROHEME(Non-covalent)

SRM.1: 30 residues within 4Å: Chain A: K.120, F.125, R.127, M.136, R.138, T.170, T.171, R.172, N.174, Q.176, R.178, R.252, K.253, N.255, I.270, F.293, F.294, S.295, R.338, Q.431, A.468, C.469, T.470, C.475, N.512, T.513, C.514, Q.516 Ligands: SF4.2, CL.4 51 PLIP interactions: 50 interactions with chain A, 1 Ligand-Water interactions, Hydrogen bonds: A:T.170, A:T.170, A:T.171, A:T.171, A:N.174, A:Q.176, A:N.255, A:F.294, A:Q.431, A:T.470, A:T.470, A:T.470, A:Q.516 Salt bridges: A:K.120, A:R.127, A:R.127, A:R.138, A:R.172, A:R.178, A:R.252, A:R.252, A:K.253, A:R.338, A:R.338, A:K.483 pi-Cation interactions: A:K.253 Metal complexes: A:C.514, H2O.2305 Hydrophobic interactions: A:F.125, A:R.172, A:K.253, A:F.294, A:N.512, A:Q.516 Water bridges: A:K.120, A:K.120, A:R.127, A:R.127, A:R.172, A:R.172, A:R.208, A:N.209, A:R.252, A:R.252, A:R.252, A:R.252, A:R.252, A:K.253, A:R.334, A:K.483, A:N.512

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

SF4.2: 12 residues within 4Å: Chain A: C.469, T.470, C.475, Q.477, A.478, T.508, G.509, C.510, N.512, T.513, C.514 Ligands: SRM.1 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.469, A:C.475, A:C.510, A:C.514

1 x K: POTASSIUM ION(Non-covalent)

K.3: 6 residues within 4Å: Chain A: I.400, G.403, E.430, Q.431, N.432, L.466 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:I.400, A:E.430, A:Q.431, H2O.2376, H2O.2376

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

CL.4: 4 residues within 4Å: Chain A: F.125, K.204, R.208 Ligands: SRM.1 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain A: R.128, K.129, G.476 Ligand excluded by PLIP

Links

RCSB   PDBe   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