SMTL ID : 5h8y.2 (1 other biounit)

Crystal structure of the complex between maize sulfite reductase and ferredoxin in the form-2 crystal

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-2-1-mer

Ligands

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

SF4.1: 12 residues within 4Å: Chain A: C.442, A.444, C.448, L.450, A.451, T.486, G.487, C.488, N.490, G.491, C.492 Ligands: SRM.2 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.442, A:C.448, A:C.488, A:C.492 SF4.5: 12 residues within 4Å: Chain B: C.442, A.444, C.448, L.450, A.451, T.486, G.487, C.488, N.490, G.491, C.492 Ligands: SRM.6 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.442, B:C.448, B:C.488, B:C.492

2 x SRM: SIROHEME(Non-covalent)

SRM.2: 31 residues within 4Å: Chain A: Y.54, Q.56, R.72, R.101, T.103, T.104, R.105, T.107, Q.109, H.111, R.223, K.224, K.226, G.266, M.267, G.268, R.316, Q.402, A.441, C.442, P.443, L.447, C.448, P.449, L.450, N.490, G.491, C.492, R.494 Ligands: SF4.1, CL.4 40 PLIP interactions: 40 interactions with chain A, Hydrophobic interactions: A:Y.54, A:R.105, A:M.267, A:P.443, A:L.450, A:N.490, A:R.494 Hydrogen bonds: A:Q.56, A:T.103, A:T.104, A:Q.109, A:M.267, A:G.268, A:L.447 Water bridges: A:K.49, A:R.105, A:K.224, A:T.241, A:R.316, A:R.316, A:K.318, A:C.448 Salt bridges: A:K.49, A:R.72, A:R.101, A:R.105, A:H.111, A:R.223, A:R.223, A:K.224, A:K.224, A:K.226, A:K.226, A:R.316, A:R.316, A:K.318, A:R.494 pi-Cation interactions: A:K.224, A:K.226 Metal complexes: A:C.492 SRM.6: 31 residues within 4Å: Chain B: Y.54, Q.56, R.72, R.101, T.103, T.104, R.105, T.107, Q.109, H.111, R.223, K.224, K.226, G.266, M.267, G.268, R.316, Q.402, A.441, C.442, P.443, L.447, C.448, P.449, L.450, N.490, G.491, C.492, R.494 Ligands: SF4.5, CL.8 37 PLIP interactions: 37 interactions with chain B, Hydrophobic interactions: B:Y.54, B:R.105, B:M.267, B:L.450, B:N.490, B:R.494 Hydrogen bonds: B:Q.56, B:T.104, B:T.107, B:Q.109, B:M.267, B:G.268 Water bridges: B:R.105, B:R.105, B:N.242, B:R.316, B:R.316, B:K.318, B:C.448 Salt bridges: B:K.49, B:R.72, B:R.101, B:R.105, B:H.111, B:R.223, B:R.223, B:K.224, B:K.224, B:K.226, B:K.226, B:R.316, B:R.316, B:K.318, B:R.494 pi-Cation interactions: B:K.224, B:K.226 Metal complexes: B:C.492

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: V.372, N.401, N.403 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:V.372, A:N.401, H2O.2, H2O.2 MG.7: 3 residues within 4Å: Chain B: V.372, N.401, N.403 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:V.372, B:N.401, H2O.6, H2O.6

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

CL.4: 5 residues within 4Å: Chain A: R.72, R.141, K.224, K.226 Ligands: SRM.2 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain B: R.72, R.141, K.224, K.226 Ligands: SRM.6 Ligand excluded by PLIP

1 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.9: 10 residues within 4Å: Chain C: Y.37, S.38, C.39, R.40, G.42, S.43, C.44, S.46, C.47, C.77 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.39, C:C.44, C:C.47, C:C.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, J.Y. et al., Structural and mutational studies of an electron transfer complex of maize sulfite reductase and ferredoxin. J.Biochem. (2016)

Release Date

2016-04-13

Peptides

Sulfite reductase [ferredoxin], chloroplastic: AB
Ferredoxin-1, chloroplastic: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
F

Sulfite reductase [ferredoxin], chloroplastic

Ferredoxin-1, chloroplastic

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