SMTL ID : 4ny7.1

Bond length analysis of the PqqC Y175F mutant structure shows evidence for bound PQQ in the reduced form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.44 Å

Oligo State

homo-dimer

Ligands

2 x PQQ: PYRROLOQUINOLINE QUINONE(Non-covalent)

PQQ.1: 20 residues within 4Å: Chain A: Y.23, H.24, R.50, Y.53, Q.54, I.57, K.60, H.84, Y.128, S.144, T.146, E.147, I.153, H.154, R.157, F.175, R.179, K.214, L.218 Ligands: CL.4 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:Y.53, A:I.57 Hydrogen bonds: A:Y.23, A:Y.23, A:R.50, A:Y.53, A:Q.54, A:H.84 Water bridges: A:K.60, A:D.61, A:R.179 Salt bridges: A:H.24, A:R.50, A:K.60, A:H.154, A:R.157, A:K.214, A:K.214 PQQ.8: 20 residues within 4Å: Chain B: Y.23, H.24, R.50, Y.53, Q.54, I.57, K.60, H.84, Y.128, S.144, T.146, E.147, I.153, H.154, R.157, F.175, R.179, K.214, L.218 Ligands: CL.11 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:Y.53, B:I.57 Hydrogen bonds: B:Y.23, B:Y.23, B:R.50, B:Y.53, B:Y.53, B:Q.54, B:R.80, B:Y.128, B:T.146, B:K.214 Water bridges: B:K.60, B:D.61, B:R.179 Salt bridges: B:H.24, B:R.50, B:K.60, B:H.154, B:R.157, B:K.214, B:K.214

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: K.76, W.77, R.80, R.185, D.186, H.189 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.80, A:D.186, A:H.189 Water bridges: A:D.83, A:Q.182, A:R.185, A:H.189 GOL.3: 5 residues within 4Å: Chain A: R.233 Chain B: P.28, Y.29, T.226, A.230 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.233, A:R.233 GOL.5: 3 residues within 4Å: Chain A: G.20, F.149, Q.152 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.20 Water bridges: A:D.21, A:Q.152 GOL.6: 3 residues within 4Å: Chain A: R.134, A.135, C.136 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.134 Water bridges: A:R.134, A:W.137, A:R.206, A:R.206 GOL.7: 4 residues within 4Å: Chain A: T.6, L.7, S.8, P.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.6 GOL.9: 7 residues within 4Å: Chain B: K.76, W.77, Q.79, R.80, R.185, D.186, H.189 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.80, B:R.80 Water bridges: B:Q.182, B:D.186 GOL.10: 7 residues within 4Å: Chain A: P.28, Y.29, A.32, T.226, A.230, L.231 Chain B: R.233 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.226, B:R.233, B:R.233 Water bridges: A:Y.29, A:Q.42 GOL.12: 3 residues within 4Å: Chain A: R.133 Chain B: R.133, R.134 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.133, A:R.133, B:R.133 GOL.13: 1 residues within 4Å: Chain B: Q.138 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.138 Water bridges: B:Y.197 GOL.14: 6 residues within 4Å: Chain B: Y.229, P.234, D.241, K.242, A.243, W.245 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.242 Water bridges: B:A.244

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

CL.4: 5 residues within 4Å: Chain A: A.150, H.154, R.179, A.183 Ligands: PQQ.1 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain B: A.150, H.154, R.179, A.183 Ligands: PQQ.8 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fisher, S.J. et al., Bond length analysis of the PqqC Y175F mutant structure shows evidence for bound PQQ in the reduced form. To be Published

Release Date

2015-03-04

Peptides

Pyrroloquinoline-quinone synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pyrroloquinoline-quinone synthase

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