SMTL ID : 4htb.1

tRNA-guanine transglycosylase Y330C mutant in space group C2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.320, C.322, C.325, H.351 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.320, A:C.322, A:C.325, A:H.351 ZN.7: 4 residues within 4Å: Chain B: C.320, C.322, C.325, H.351 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.320, B:C.322, B:C.325, B:H.351

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: P.58, E.59, R.62, G.96, W.97, D.98, R.99 Chain B: K.327 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.59, A:G.96, A:D.98, A:R.99, B:K.327 Water bridges: A:R.99, A:R.99 GOL.3: 2 residues within 4Å: Chain A: N.306, R.308 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.306, A:R.308 Water bridges: A:N.306 GOL.6: 4 residues within 4Å: Chain A: K.26, D.247, E.275, R.276 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.247, A:D.247 Water bridges: A:K.26 GOL.8: 8 residues within 4Å: Chain A: K.327 Chain B: P.58, E.59, R.62, G.96, W.97, D.98, R.99 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:K.327, B:E.59, B:G.96, B:D.98, B:R.99 Water bridges: B:R.99, B:R.99 GOL.9: 2 residues within 4Å: Chain B: N.306, R.308 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.306, B:R.308 Water bridges: B:N.306 GOL.12: 4 residues within 4Å: Chain B: K.26, D.247, E.275, R.276 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.247 Water bridges: B:K.26

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 5 residues within 4Å: Chain A: F.16, S.17, F.18, D.256, K.257 No protein-ligand interaction detected (PLIP) DMS.5: 2 residues within 4Å: Chain A: R.141, E.144 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.144 DMS.10: 5 residues within 4Å: Chain B: F.16, S.17, F.18, D.256, K.257 No protein-ligand interaction detected (PLIP) DMS.11: 2 residues within 4Å: Chain B: R.141, E.144 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.144

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jakobi, S. et al., What Glues a Homodimer Together: Systematic Analysis of the Stabilizing Effect of an Aromatic Hot Spot in the Protein-Protein Interface of the tRNA-Modifying Enzyme Tgt. Acs Chem.Biol. (2015)

Release Date

2013-11-20

Peptides

tRNA-guanine transglycosylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

tRNA-guanine transglycosylase

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