SMTL ID : 3ldu.1

The crystal structure of a possible methylase from Clostridium difficile 630.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 21 residues within 4Å: Chain A: A.177, P.178, I.179, P.202, M.203, C.204, G.205, S.206, G.207, T.208, Y.263, D.264, I.265, D.266, G.291, D.292, A.293, N.308, P.309, P.310, L.324 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:A.177, A:I.179, A:S.206, A:G.207, A:T.208, A:T.208, A:T.208, A:T.208, A:Y.263, A:I.265, A:D.292, A:A.293 Water bridges: A:I.209, A:Y.311 Salt bridges: A:D.264

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

FMT.2: 4 residues within 4Å: Chain A: L.64, Y.89, Y.143, T.235 No protein-ligand interaction detected (PLIP) FMT.3: 3 residues within 4Å: Chain A: G.196, F.258, K.259 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.259 Water bridges: A:G.196

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: Y.263, G.291, D.292, A.293, Q.295, F.296, K.297 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.297, A:K.297 GOL.5: 7 residues within 4Å: Chain A: V.198, Y.261, Y.263, F.296, S.298, D.300, W.338 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.263, A:Y.263, A:S.298 GOL.6: 5 residues within 4Å: Chain A: N.27, L.28, W.55, N.219, K.251 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.219 Water bridges: A:N.27 GOL.7: 5 residues within 4Å: Chain A: E.267, I.270, D.271, R.274, V.290 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.271, A:R.274, A:R.274 GOL.8: 5 residues within 4Å: Chain A: E.350, Y.351, G.354, Q.355, K.356 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.351, A:G.354 Water bridges: A:K.356 GOL.9: 5 residues within 4Å: Chain A: D.358, P.376, G.377, P.378, K.379 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.358, A:K.379 GOL.10: 3 residues within 4Å: Chain A: R.23, T.26, I.32 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.26 GOL.11: 4 residues within 4Å: Chain A: E.60, R.61, A.164, R.180 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.61, A:R.61 Water bridges: A:R.61, A:K.100, A:K.100, A:K.100 GOL.12: 4 residues within 4Å: Chain A: E.18, T.35, E.36, D.37 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.35, A:D.37 Water bridges: A:E.18, A:K.19, A:D.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tan, K. et al., The crystal structure of a possible methylase from Clostridium difficile 630. To be Published

Release Date

2010-01-26

Peptides

Putative methylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Putative methylase