SMTL ID : 3dmg.1

T. Thermophilus 16S rRNA N2 G1207 methyltransferase (RsmC) in complex with AdoHcy

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: R.28, N.53, P.110, A.111, G.112, R.113 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.53, A:G.112, A:R.113 Water bridges: A:R.28, A:A.111, A:G.112 Salt bridges: A:R.28, A:R.113 SO4.2: 4 residues within 4Å: Chain A: T.4, R.5, N.324, K.353 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.5, A:N.324, A:N.324 Water bridges: A:E.6, A:K.353, A:K.353 Salt bridges: A:R.5, A:K.353 SO4.3: 4 residues within 4Å: Chain A: P.183, S.184, L.185, W.186 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.184, A:L.185, A:W.186 Water bridges: A:R.187, A:R.187 SO4.4: 2 residues within 4Å: Chain A: R.192, G.195 3 PLIP interactions: 3 interactions with chain A Water bridges: A:G.195, A:G.195 Salt bridges: A:R.192 SO4.5: 1 residues within 4Å: Chain A: R.164 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.164 Salt bridges: A:R.164 SO4.6: 2 residues within 4Å: Chain A: R.298, R.331 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.296, A:R.298, A:R.298 Salt bridges: A:R.331

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

SAH.7: 17 residues within 4Å: Chain A: Y.8, F.207, S.216, G.241, A.242, G.243, A.246, L.247, E.262, D.263, S.287, D.288, V.289, N.305, P.307, V.318, F.322 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.207 Hydrogen bonds: A:Y.8, A:S.216, A:G.241, A:G.243, A:D.263, A:D.288, A:D.288, A:V.289, A:N.305 Water bridges: A:F.207, A:A.242, A:A.246, A:S.267 pi-Stacking: A:F.322

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Demirci, H. et al., Crystal Structure of the Thermus thermophilus 16 S rRNA Methyltransferase RsmC in Complex with Cofactor and Substrate Guanosine. J.Biol.Chem. (2008)

Release Date

2008-07-29

Peptides

Probable ribosomal RNA small subunit methyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Probable ribosomal RNA small subunit methyltransferase

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