SMTL ID : 4h50.1

Crystal Structure of Ferredoxin reductase, BphA4 E175Q/T1776R/Q177G mutant (reduced form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 33 residues within 4Å: Chain A: G.14, A.15, G.16, L.17, A.18, V.38, G.39, D.40, E.41, R.48, P.49, V.80, T.81, A.82, A.108, T.109, G.110, A.111, L.129, R.130, I.156, E.159, L.243, G.272, D.273, E.289, T.290, W.291, A.294, Y.319, W.320, S.321 Ligands: GOL.8 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:R.48, A:I.156, A:I.156 Hydrogen bonds: A:A.15, A:G.16, A:A.18, A:D.40, A:R.48, A:A.82, A:A.82, A:A.111, A:D.273, A:E.289, A:W.291, A:W.320 Water bridges: A:L.17, A:L.17, A:S.19, A:S.19, A:R.48 Salt bridges: A:R.48, A:R.130 pi-Stacking: A:W.320 FAD.9: 33 residues within 4Å: Chain B: G.14, A.15, G.16, L.17, A.18, V.38, G.39, D.40, E.41, R.48, P.49, V.80, T.81, A.82, A.108, T.109, G.110, A.111, L.129, R.130, I.156, E.159, L.243, G.272, D.273, E.289, T.290, W.291, A.294, Y.319, W.320, S.321 Ligands: GOL.16 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:R.48, B:I.156, B:I.156 Hydrogen bonds: B:A.15, B:G.16, B:A.18, B:D.40, B:D.40, B:E.41, B:R.48, B:A.82, B:A.82, B:A.111, B:D.273, B:E.289, B:W.291, B:W.320 Water bridges: B:L.17, B:L.17, B:S.19, B:S.19, B:R.48 Salt bridges: B:R.48, B:R.130 pi-Stacking: B:W.320

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.2: 12 residues within 4Å: Chain A: G.152, G.153, G.154, V.155, I.156, Q.175, R.176, S.182, G.234, I.235, G.236 Ligands: GOL.8 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.153, A:I.156, A:Q.175, A:R.176, A:S.182, A:S.182, A:G.234, A:G.236 Salt bridges: A:R.176 pi-Cation interactions: A:R.176, A:R.176 NAP.10: 12 residues within 4Å: Chain B: G.152, G.153, G.154, V.155, I.156, Q.175, R.176, S.182, G.234, I.235, G.236 Ligands: GOL.16 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:G.153, B:I.156, B:Q.175, B:R.176, B:S.182, B:S.182, B:G.234, B:G.236 Salt bridges: B:R.176 pi-Cation interactions: B:R.176, B:R.176

10 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 6 residues within 4Å: Chain A: D.54, F.55, H.58, G.59, D.60, K.63 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.59, A:D.60 FMT.4: 4 residues within 4Å: Chain A: A.115, L.116, V.126, V.233 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.116 FMT.5: 5 residues within 4Å: Chain A: G.59, D.60, A.61, E.62, R.136 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.61, A:E.62, A:E.62, A:R.136 FMT.6: 2 residues within 4Å: Chain A: E.43, E.133 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.43 Water bridges: A:E.133 FMT.7: 7 residues within 4Å: Chain A: P.9, V.10, V.11, L.34, I.35, T.36, P.101 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.36, A:T.36 FMT.11: 6 residues within 4Å: Chain B: D.54, F.55, H.58, G.59, D.60, K.63 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.59, B:D.60 FMT.12: 4 residues within 4Å: Chain B: A.115, L.116, V.126, V.233 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.116 FMT.13: 5 residues within 4Å: Chain B: G.59, D.60, A.61, E.62, R.136 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.61, B:E.62, B:R.136 FMT.14: 2 residues within 4Å: Chain B: E.43, E.133 1 PLIP interactions: 1 interactions with chain B Water bridges: B:E.133 FMT.15: 7 residues within 4Å: Chain B: P.9, V.10, V.11, L.34, I.35, T.36, P.101 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.36, B:T.36

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 11 residues within 4Å: Chain A: P.113, T.128, L.129, R.130, I.156, V.233, G.234, G.236, V.237 Ligands: FAD.1, NAP.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.129, A:R.130, A:V.233, A:G.236 GOL.16: 11 residues within 4Å: Chain B: P.113, T.128, L.129, R.130, I.156, V.233, G.234, G.236, V.237 Ligands: FAD.9, NAP.10 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.129, B:R.130, B:V.233, B:G.236

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nishizawa, A. et al., Random Mutagenesis with the Project Assessment for Complete Conversion of Co-Factor Specificity of a Ferredoxin Reductase BphA4. To be Published

Release Date

2013-10-09

Peptides

Biphenyl dioxygenase ferredoxin reductase subunit: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Biphenyl dioxygenase ferredoxin reductase subunit

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