SMTL ID : 1wve.1

p-Cresol Methylhydroxylase: Alteration of the Structure of the Flavoprotein Subunit upon its Binding to the Cytochrome Subunit

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

hetero-2-2-mer

Ligands

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

CL.1: 5 residues within 4Å: Chain A: M.47, G.93, Y.94, G.95, S.96 Ligand excluded by PLIP CL.9: 5 residues within 4Å: Chain C: M.47, G.93, Y.94, G.95, S.96 Ligand excluded by PLIP

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Covalent)

FAD.2: 32 residues within 4Å: Chain A: W.84, T.85, I.86, S.87, T.88, G.89, R.90, N.91, F.92, Y.94, L.109, S.152, A.153, P.154, A.158, G.159, G.162, N.163, M.165, G.168, V.169, Y.171, G.228, I.229, C.230, E.379, F.380, Y.383, W.393, R.473, R.511 Ligands: ACY.5 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:F.92, A:A.153, A:P.154, A:F.380, A:F.380, A:Y.383 Hydrogen bonds: A:S.87, A:S.87, A:T.88, A:T.88, A:G.89, A:R.90, A:N.91, A:N.91, A:F.92, A:F.92, A:S.152, A:S.152, A:A.153, A:G.159, A:N.163, A:V.169, A:V.169, A:C.230, A:E.379, A:R.473, A:R.473 Water bridges: A:S.96, A:E.426, A:R.511 pi-Stacking: A:W.393 FAD.11: 33 residues within 4Å: Chain C: W.84, T.85, I.86, S.87, T.88, G.89, R.90, N.91, F.92, Y.94, L.109, S.152, A.153, P.154, A.158, G.159, G.162, N.163, M.165, D.166, G.168, V.169, Y.171, G.228, I.229, C.230, E.379, F.380, Y.383, W.393, R.473, R.511 Ligands: ACY.13 31 PLIP interactions: 31 interactions with chain C Hydrophobic interactions: C:F.92, C:A.153, C:P.154, C:F.380, C:F.380, C:Y.383 Hydrogen bonds: C:S.87, C:S.87, C:T.88, C:T.88, C:G.89, C:R.90, C:N.91, C:N.91, C:F.92, C:F.92, C:S.152, C:S.152, C:A.153, C:G.159, C:N.163, C:N.163, C:V.169, C:V.169, C:Y.171, C:C.230, C:R.473, C:R.473, C:R.511 Water bridges: C:S.96 pi-Stacking: C:W.393

4 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.3: 5 residues within 4Å: Chain A: R.414, E.459, E.463, K.466 Ligands: TRS.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.414, A:E.459, A:E.459, A:K.466, A:K.466 Water bridges: A:E.463, A:E.463 TRS.4: 5 residues within 4Å: Chain A: K.418, Y.419, E.459, D.462 Ligands: TRS.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.418, A:E.459, A:D.462 TRS.10: 4 residues within 4Å: Chain C: Q.101, D.480, G.510 Ligands: TRS.12 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.101, C:D.480 Water bridges: C:D.515, C:D.515 TRS.12: 6 residues within 4Å: Chain C: A.54, H.55, V.100, Q.101, R.477 Ligands: TRS.10 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:V.100, C:R.477, C:R.477 Water bridges: C:R.102

4 x ACY: ACETIC ACID(Non-functional Binders)

ACY.5: 7 residues within 4Å: Chain A: Y.94, W.393, I.428, V.437, Y.472, R.473 Ligands: FAD.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.393, A:V.437 Hydrogen bonds: A:Y.472 Water bridges: A:E.426, A:E.426 Salt bridges: A:R.473 ACY.6: 3 residues within 4Å: Chain A: Q.332, N.336 Chain C: N.336 5 PLIP interactions: 1 interactions with chain C, 4 interactions with chain A Hydrogen bonds: C:N.336, A:Q.332, A:N.336 Hydrophobic interactions: A:Q.332 Water bridges: A:Q.332 ACY.7: 2 residues within 4Å: Chain A: E.51, R.444 2 PLIP interactions: 2 interactions with chain A Water bridges: A:N.52 Salt bridges: A:R.444 ACY.13: 7 residues within 4Å: Chain C: Y.94, W.393, I.428, V.437, Y.472, R.473 Ligands: FAD.11 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:Y.94, C:W.393, C:V.437 Hydrogen bonds: C:Y.94 Salt bridges: C:R.473

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.8: 20 residues within 4Å: Chain A: L.377, F.380, N.384 Chain B: V.14, C.15, C.18, H.19, V.25, G.26, P.27, L.29, Y.38, I.39, I.42, V.43, F.47, R.48, A.49, M.50, P.51 17 PLIP interactions: 2 interactions with chain A, 15 interactions with chain B, Hydrophobic interactions: A:L.377, A:F.380, B:L.29, B:I.39, B:I.42, B:I.42, B:V.43, B:A.49, B:M.50, B:P.51 Hydrogen bonds: B:Y.38, B:F.47, B:A.49 pi-Stacking: B:H.19, B:H.19, B:H.19 Metal complexes: B:H.19 HEM.14: 20 residues within 4Å: Chain C: L.377, F.380, N.384 Chain D: V.14, C.15, C.18, H.19, V.25, G.26, P.27, L.29, Y.38, I.39, I.42, V.43, F.47, R.48, A.49, M.50, P.51 19 PLIP interactions: 17 interactions with chain D, 2 interactions with chain C, Hydrophobic interactions: D:P.27, D:L.29, D:I.39, D:I.42, D:I.42, D:V.43, D:F.47, D:A.49, D:M.50, D:P.51, C:L.377, C:F.380 Hydrogen bonds: D:Y.38, D:Y.38, D:F.47 pi-Stacking: D:H.19, D:H.19, D:H.19 Metal complexes: D:H.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cunane, L.M. et al., p-Cresol Methylhydroxylase: Alteration of the Structure of the Flavoprotein Subunit upon Its Binding to the Cytochrome Subunit. Biochemistry (2005)

Release Date

2005-03-08

Peptides

4-cresol dehydrogenase [hydroxylating] flavoprotein subunit: AC
4-cresol dehydrogenase [hydroxylating] cytochrome c subunit: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

B
C

D
D

4-cresol dehydrogenase [hydroxylating] flavoprotein subunit

4-cresol dehydrogenase [hydroxylating] cytochrome c subunit

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