SMTL ID : 4qnu.1 (7 other biounits)

Crystal structure of CmoB bound with Cx-SAM in P21212

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x GEK: (2S)-4-[{[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl}(carboxylatomethyl)sulfonio] -2-ammoniobutanoate(Non-covalent)

GEK.1: 19 residues within 4Å: Chain A: K.91, W.105, K.110, V.129, G.130, G.132, D.152, P.153, T.154, F.157, G.180, I.181, E.182, M.196, G.197, V.198, Y.200, R.202, R.315 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.130, A:G.132, A:D.152, A:I.181, A:E.182, A:Y.200, A:Y.200 Water bridges: A:K.110, A:M.196, A:R.315 Salt bridges: A:K.91, A:K.91, A:K.110, A:K.110, A:H.136, A:R.315

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 6 residues within 4Å: Chain A: I.181, R.202, S.204, E.207, H.208, Q.211 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.207 Salt bridges: A:R.202, A:H.208 PO4.3: 3 residues within 4Å: Chain A: I.141, G.144, R.173 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.173 Water bridges: A:G.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, J. et al., Determinants of the CmoB carboxymethyl transferase utilized for selective tRNA wobble modification. Nucleic Acids Res. (2015)

Release Date

2014-09-17

Peptides

tRNA (mo5U34)-methyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

tRNA (mo5U34)-methyltransferase

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