SMTL ID : 5bp7.4 (3 other biounits)

Crystal structure of SAM-dependent methyltransferase from Geobacter sulfurreducens in complex with S-Adenosyl-L-homocysteine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-trimer

Ligands

3 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 20 residues within 4Å: Chain A: I.26, I.39, H.40, N.41, G.67, S.68, G.69, D.89, M.90, S.91, F.94, G.116, D.117, A.118, S.119, V.133, G.134, A.135, W.137, I.138 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:H.40 Hydrogen bonds: A:H.40, A:N.41, A:G.67, A:G.69, A:S.91, A:D.117, A:A.118 Water bridges: A:S.68, A:S.70, A:E.72, A:V.133 SAH.3: 20 residues within 4Å: Chain B: I.26, I.39, H.40, N.41, G.67, S.68, G.69, D.89, M.90, S.91, F.94, G.116, D.117, A.118, S.119, V.133, G.134, A.135, W.137, I.138 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:H.40 Hydrogen bonds: B:H.40, B:N.41, B:G.67, B:G.69, B:S.91, B:D.117, B:A.118 Water bridges: B:S.68, B:S.70, B:E.72, B:V.133 SAH.4: 20 residues within 4Å: Chain C: I.26, I.39, H.40, N.41, G.67, S.68, G.69, D.89, M.90, S.91, F.94, G.116, D.117, A.118, S.119, V.133, G.134, A.135, W.137, I.138 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:H.40 Hydrogen bonds: C:H.40, C:N.41, C:G.67, C:G.69, C:S.91, C:D.117, C:D.117, C:A.118 Water bridges: C:S.68, C:S.70, C:E.72, C:V.133

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

CL.2: 4 residues within 4Å: Chain A: T.61, R.62, G.128, R.154 Ligand excluded by PLIP CL.5: 7 residues within 4Å: Chain C: P.42, I.43, T.44, K.47, A.210, D.211, G.214 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kutner, J. et al., Crystal structure of SAM-dependent methyltransferase from Geobacter sulfurreducens in complex with S-Adenosyl-L-homocysteine. to be published

Release Date

2015-06-10

Peptides

SAM-dependent methyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

SAM-dependent methyltransferase

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