SMTL ID : 2ynq.1 (4 other biounits)

Crystal Structure of Geobacillus thermodenitrificans EssB extracellular fragment

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

1 x MLI: MALONATE ION(Non-functional Binders)

MLI.1: 5 residues within 4Å: Chain A: Y.45, I.69, T.70, L.71 Ligands: NA.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.45, A:Y.45, A:L.71 Water bridges: A:N.67

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

NA.2: 5 residues within 4Å: Chain A: Y.45, S.66, N.67, I.69 Ligands: MLI.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.45, A:Y.45 Water bridges: A:N.67 NA.3: 2 residues within 4Å: Chain A: Q.136 Chain B: Q.21 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.136 Water bridges: B:N.22 NA.5: 3 residues within 4Å: Chain B: R.62, V.65, N.67 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.63 Water bridges: B:N.67

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: R.113, K.117 Chain B: I.28 Ligand excluded by PLIP

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 7 residues within 4Å: Chain A: W.81, D.103, L.104, Y.107 Chain B: T.58, E.59, E.60 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.103, B:E.59, B:E.60

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zoltner, M. et al., The Architecture of Essb, an Integral Membrane Component of the Type Vii Secretion System. Structure (2013)

Release Date

2012-12-05

Peptides

ESSB: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

ESSB

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