SMTL ID : 5ft6.1

Crystal structure of the cysteine desulfurase CsdA (S-sulfonic acid) from Escherichia coli at 2.050 Angstroem resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: F.42, A.47, T.62, V.276 2 PLIP interactions: 2 interactions with chain A Water bridges: A:T.62, A:E.66 GOL.2: 5 residues within 4Å: Chain A: R.315, P.316, D.393, L.396, E.397 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.394, A:E.397, A:E.397 GOL.3: 4 residues within 4Å: Chain A: R.60, R.64, K.71, E.287 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.60, A:K.71 Water bridges: A:R.64, A:E.70, A:K.71, A:E.287 GOL.4: 3 residues within 4Å: Chain A: E.309, D.310, A.313 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.309, A:E.309 Water bridges: A:S.320, A:S.320 GOL.5: 2 residues within 4Å: Chain A: G.134, K.136 No protein-ligand interaction detected (PLIP) GOL.6: 4 residues within 4Å: Chain A: Y.65, E.66, R.69, W.86 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.69, A:W.86 Water bridges: A:Y.65, A:E.270 GOL.9: 4 residues within 4Å: Chain B: Y.65, R.69, W.86, W.267 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.69, B:W.86, B:W.267 GOL.10: 5 residues within 4Å: Chain B: L.307, A.311, K.382, D.386, V.389 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.382, B:D.386, B:D.386 GOL.11: 5 residues within 4Å: Chain A: A.27, T.28, H.221 Chain B: T.273, V.276 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Water bridges: B:T.273, A:A.27, A:A.27, A:R.353 Hydrogen bonds: A:T.28

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 1 residues within 4Å: Chain A: M.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.1 PEG.12: 5 residues within 4Å: Chain B: T.306, E.309, D.310, R.322, D.325 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.322, B:D.325 Water bridges: B:D.325

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.8: 15 residues within 4Å: Chain A: G.89, T.90, T.91, H.119, A.121, M.169, N.171, D.196, A.198, Q.199, S.219, H.221, K.222 Chain B: G.272, T.273 19 PLIP interactions: 16 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:H.119, A:N.171, A:A.198, A:Q.199, A:K.222 Hydrogen bonds: A:T.90, A:T.91, A:T.91, A:Q.199, A:S.219, A:K.222, B:T.273, B:T.273, B:T.273 Water bridges: A:N.171, A:H.221 Salt bridges: A:H.221, A:K.222 pi-Stacking: A:H.119 PLP.13: 14 residues within 4Å: Chain A: G.272, T.273 Chain B: G.89, T.90, T.91, H.119, A.121, N.171, D.196, A.198, Q.199, S.219, H.221, K.222 16 PLIP interactions: 13 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:H.119, B:A.198, B:Q.199, B:K.222 Hydrogen bonds: B:T.90, B:T.91, B:T.91, B:T.91, B:Q.199, B:S.219, A:T.273, A:T.273 Salt bridges: B:H.221, B:K.222 pi-Stacking: B:H.119 Water bridges: A:T.273

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fernandez, F.J. et al., Mechanism of Sulfur Transfer Across Protein-Protein Interfaces: The Cysteine Desulfurase Model System. Acs Catalysis (2016)

Release Date

2016-11-23

Peptides

CYSTEINE DESULFURASE CSDA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

CYSTEINE DESULFURASE CSDA

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