SMTL ID : 3pty.1

Crystal structure of the C-terminal extracellular domain of Mycobacterium tuberculosis EmbC

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x AFO: octyl alpha-D-arabinofuranoside(Non-covalent)

AFO.1: 9 residues within 4Å: Chain A: V.18, G.19, N.22, D.333, R.337 Chain B: W.267, G.270, L.271, P.278 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:W.267, A:V.18, A:D.333 Hydrogen bonds: B:W.267, B:G.270, B:P.274, A:N.22 Water bridges: A:L.23 AFO.4: 9 residues within 4Å: Chain A: W.267, G.270, L.271, P.278 Chain B: V.18, G.19, N.22, D.333, R.337 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:W.267, B:V.18, B:D.333 Hydrogen bonds: A:W.267, A:G.270, A:P.274, B:N.22 Water bridges: B:L.23

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: D.231, D.233, H.238 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.231, A:D.233, A:H.238, H2O.2, H2O.2 CA.5: 3 residues within 4Å: Chain B: D.231, D.233, H.238 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.231, B:D.233, B:H.238, H2O.6, H2O.6

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 5 residues within 4Å: Chain A: P.73, D.75, R.172, P.206, W.239 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.75, A:Q.237 Salt bridges: A:R.172 PO4.6: 5 residues within 4Å: Chain B: P.73, D.75, R.172, P.206, W.239 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.75, B:Q.237 Salt bridges: B:R.172

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alderwick, L.J. et al., The C-Terminal Domain of the Arabinosyltransferase Mycobacterium tuberculosis EmbC Is a Lectin-Like Carbohydrate Binding Module. Plos Pathog. (2011)

Release Date

2010-12-15

Peptides

Arabinosyltransferase C: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Arabinosyltransferase C