SMTL ID : 2c3d.1

2.15 Angstrom crystal structure of 2-ketopropyl coenzyme M oxidoreductase carboxylase with a coenzyme M disulfide bound at the active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 31 residues within 4Å: Chain A: G.50, G.52, A.53, A.54, V.72, D.73, R.74, W.75, G.80, S.81, A.86, C.87, H.90, H.91, P.157, A.158, A.181, V.182, G.183, H.202, T.225, Y.229, E.314, G.352, D.353, M.359, E.360, M.361, A.364, F.390 Chain B: F.501 21 PLIP interactions: 19 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:A.86, A:H.202, A:T.225 Hydrogen bonds: A:A.53, A:A.54, A:R.74, A:S.81, A:S.81, A:A.158, A:D.353, A:M.359, A:M.361, B:F.501 Water bridges: A:G.55, A:G.80, A:C.82, A:A.184, A:A.184, A:L.354, A:E.360, B:F.501 FAD.4: 31 residues within 4Å: Chain A: F.501 Chain B: G.50, G.52, A.53, A.54, V.72, D.73, R.74, W.75, G.80, S.81, A.86, C.87, H.90, H.91, P.157, A.158, A.181, V.182, G.183, H.202, T.225, Y.229, E.314, G.352, D.353, M.359, E.360, M.361, A.364, F.390 23 PLIP interactions: 21 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:A.86, B:H.202, B:T.225 Hydrogen bonds: B:A.53, B:A.54, B:R.74, B:S.81, B:S.81, B:A.158, B:D.353, B:M.359, B:E.360, B:M.361, A:F.501 Water bridges: B:G.52, B:G.55, B:G.80, B:A.184, B:A.184, B:L.354, B:E.360, A:F.501 pi-Cation interactions: B:R.74

4 x COM: 1-THIOETHANESULFONIC ACID(Non-covalent)

COM.2: 11 residues within 4Å: Chain A: A.53, R.56, F.57, G.79, C.82, P.83, M.140, M.361, R.365 Chain B: F.501 Ligands: COM.5 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.56, A:R.365 COM.3: 8 residues within 4Å: Chain A: M.419, L.431, F.501, H.506, Q.509 Chain B: M.140, R.365 Ligands: COM.6 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.365 Water bridges: B:R.56 Salt bridges: A:H.506 COM.5: 9 residues within 4Å: Chain A: M.140, R.365 Chain B: M.419, L.431, F.501, H.506, Q.509, L.510 Ligands: COM.2 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Salt bridges: B:H.506 Hydrogen bonds: A:R.365 COM.6: 11 residues within 4Å: Chain A: F.501 Chain B: A.53, R.56, F.57, G.79, C.82, P.83, M.140, M.361, R.365 Ligands: COM.3 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.56 Salt bridges: B:R.56, B:R.365

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pandey, A.S. et al., Mechanistic Implications of the Structure of the Mixed-Disulfide Intermediate of the Disulfide Oxidoreductase, 2-Ketopropyl-Coenzyme M Oxidoreductase/Carboxylase. Biochemistry (2006)

Release Date

2005-11-07

Peptides

2-OXOPROPYL-COM REDUCTASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

2-OXOPROPYL-COM REDUCTASE

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