SMTL ID : 3kk0.1

Crystal structure of partially folded intermediate state of peptidyl-tRNA hydrolase from Mycobacterium smegmatis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

3 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.1: 2 residues within 4Å: Chain A: P.141, R.143 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.141, A:R.143 IPA.2: 1 residues within 4Å: Chain A: E.152 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.152 IPA.3: 2 residues within 4Å: Chain A: Q.89, I.177 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.177

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 6 residues within 4Å: Chain A: H.94, D.95, E.96, L.97, G.114, H.115 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.94, A:E.112, A:H.115 EDO.5: 2 residues within 4Å: Chain A: G.53 Ligands: EDO.6 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.59 EDO.6: 1 residues within 4Å: Ligands: EDO.5 No protein-ligand interaction detected (PLIP) EDO.7: 2 residues within 4Å: Chain A: K.44, K.45 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.44, A:K.44

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.8: 3 residues within 4Å: Chain A: P.13, G.14, S.68 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.68 Water bridges: A:P.13

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.9: 6 residues within 4Å: Chain A: H.94, E.96, K.107, G.111, R.132, R.134 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, A. et al., Structures of Fully-Folded Native and Partially-Folded Intermediate States of Peptidyl-tRNA Hydrolase from Mycobacterium smegmatis. To be Published

Release Date

2010-11-10

Peptides

Peptidyl-tRNA hydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidyl-tRNA hydrolase

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