SMTL ID : 3peb.1

The Structure of a Creatine_N Superfamily domain of a dipeptidase from Streptococcus thermophilus.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

monomer

Ligands

1 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)

NHE.1: 7 residues within 4Å: Chain A: L.7, R.11, N.52, R.53, E.54, P.55, F.73 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.11 Salt bridges: A:R.11

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

EDO.2: 4 residues within 4Å: Chain A: A.56, P.74, F.76, G.91 No protein-ligand interaction detected (PLIP) EDO.3: 2 residues within 4Å: Chain A: R.53, A.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.53, A:R.53 EDO.4: 3 residues within 4Å: Chain A: D.105, N.106, N.108 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.105 Water bridges: A:N.106, A:N.106 EDO.5: 4 residues within 4Å: Chain A: P.27, V.28, D.37, D.39 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.27 EDO.6: 5 residues within 4Å: Chain A: G.35, F.36, D.37, R.66, V.70 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.35, A:D.37, A:R.66 EDO.7: 4 residues within 4Å: Chain A: K.89, L.92, A.93, T.95 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.92, A:T.95 EDO.8: 3 residues within 4Å: Chain A: L.62, E.63, R.66 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.66, A:R.66 Water bridges: A:R.66 EDO.9: 4 residues within 4Å: Chain A: Q.116, G.121, R.122, F.123 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.116, A:F.123, A:F.123 Water bridges: A:G.121, A:G.121 EDO.10: 3 residues within 4Å: Chain A: E.42, R.43, D.80 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.43, A:D.80 EDO.11: 4 residues within 4Å: Chain A: W.85, Q.86, K.89, T.117 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.117, A:T.117 Water bridges: A:N.83, A:Q.86

2 x NA: SODIUM ION(Non-functional Binders)

NA.12: 3 residues within 4Å: Chain A: Q.116, F.119, E.120 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.119 Water bridges: A:G.121 NA.13: 2 residues within 4Å: Chain A: S.68, L.71 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.68

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cuff, M.E. et al., The Structure of a Creatine_N Superfamily domain of a dipeptidase from Streptococcus thermophilus. TO BE PUBLISHED

Release Date

2010-11-03

Peptides

Dipeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dipeptidase