SMTL ID : 3gkr.1

Crystal Structure of Weissella viridescens FemX:UDP-MurNAc-hexapeptide complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x UMA- FGA- LYS- DAL- DAL: UDP-MurNAc-peptide(Non-covalent)

UMA-FGA-LYS-DAL-DAL.1: 18 residues within 4Å: Chain A: W.33, K.37, N.39, W.40, T.65, F.71, Y.104, R.107, I.143, I.209, T.210, R.212, P.213, Y.216, W.254, M.256, Y.257 Ligands: ALA.6 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:W.33, A:F.71, A:I.209, A:R.212, A:W.254 Hydrogen bonds: A:N.39, A:W.40, A:Y.104, A:Y.104, A:R.107, A:T.210, A:T.210, A:T.210, A:R.212, A:R.212, A:Y.257 Water bridges: A:R.107, A:Q.144, A:Q.144 Salt bridges: A:K.37, A:K.37, A:K.37, A:R.212, A:R.212, A:R.212, A:R.212 pi-Stacking: A:F.71

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: T.65, T.67 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.65, A:T.67, H2O.3, H2O.5, H2O.12 MG.3: 2 residues within 4Å: Chain A: L.281, N.284 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:L.281, H2O.4, H2O.7, H2O.11, H2O.14 MG.4: 5 residues within 4Å: Chain A: L.151, Y.166, F.309, V.310, K.311 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:F.309, H2O.7

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 2 residues within 4Å: Chain A: I.214, E.215 No protein-ligand interaction detected (PLIP)

1 x ALA: ALANINE(Non-covalent)

ALA.6: 4 residues within 4Å: Chain A: G.138, M.139 Ligands: UMA-FGA-LYS-DAL-DAL.1, UMA-FGA-LYS-DAL-DAL.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Ligand interactions Water bridges: A:M.139, A:A.141, A.6, A.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Delfosse, V. et al., Structure of Weissella viridescens FemX with the UDP-MurNAc-hexapeptide product of the alanine transfer reaction. To be Published

Release Date

2010-03-23

Peptides

FemX: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

FemX