SMTL ID : 4h3z.1

Crystal structure of a symmetric dimer of a tRNA (guanine-(N(1)-)-methyltransferase from Burkholderia phymatum bound to S-adenosyl homocystein in both half-sites

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 20 residues within 4Å: Chain A: M.112, S.113, P.114, G.138, Y.140, E.141, V.156, S.157, L.158, G.159, F.161, V.162, L.163, S.164, G.165, G.166, P.169 Chain B: D.194, S.195, D.202 10 PLIP interactions: 3 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:D.194, B:S.195, B:D.202, A:M.112, A:G.138, A:L.158, A:G.159, A:F.161, A:L.163 Water bridges: A:Y.140 SAH.4: 20 residues within 4Å: Chain A: D.194, S.195, D.202 Chain B: M.112, S.113, P.114, G.138, Y.140, E.141, V.156, S.157, L.158, G.159, F.161, V.162, L.163, S.164, G.165, G.166, P.169 11 PLIP interactions: 8 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.138, B:E.141, B:L.158, B:G.159, B:F.161, B:L.163, A:S.195, A:D.202 Water bridges: B:Q.115, B:Y.140, A:S.195

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

CL.2: 4 residues within 4Å: Chain A: H.121, H.180 Chain B: F.161, V.162 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain A: F.161, V.162 Chain B: H.121, H.180 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baugh, L. et al., Combining functional and structural genomics to sample the essential Burkholderia structome. Plos One (2013)

Release Date

2012-10-03

Peptides

tRNA (guanine-N(1)-)-methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

tRNA (guanine-N(1)-)-methyltransferase

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