SMTL ID : 4yvh.1

Crystal Structure of H. influenzae TrmD in complex with sinefungin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x SFG: SINEFUNGIN(Non-covalent)

SFG.1: 24 residues within 4Å: Chain A: Y.106, L.107, S.108, P.109, Q.110, G.133, R.134, Y.135, E.136, G.137, W.151, S.152, I.153, G.154, Y.156, V.157, L.158, T.159, G.160, G.161, P.164 Chain B: D.189, S.190, D.197 14 PLIP interactions: 9 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:Q.110, A:G.133, A:Y.135, A:E.136, A:I.153, A:G.154, A:Y.156, A:L.158, B:D.189, B:S.190, B:D.197, B:D.197 Water bridges: A:Y.106, B:R.174 SFG.2: 24 residues within 4Å: Chain A: D.189, S.190, D.197 Chain B: Y.106, L.107, S.108, P.109, Q.110, G.133, R.134, Y.135, E.136, G.137, W.151, S.152, I.153, G.154, Y.156, V.157, L.158, T.159, G.160, G.161, P.164 13 PLIP interactions: 5 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:D.189, A:D.189, A:S.190, A:D.197, B:Y.106, B:Q.110, B:G.133, B:Y.135, B:I.153, B:G.154, B:Y.156, B:L.158 Water bridges: A:R.174

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ito, T. et al., Structural basis for methyl-donor-dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-07-15

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

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

Related Entries With Identical Sequence