4Z7E | pdb_00004z7e

Soluble binding domain of Lmo1422 ABC-transporter

• PDB DOI: https://doi.org/10.2210/pdb4Z7E/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Listeria monocytogenes EGD-e
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-04-07 Released: 2016-04-13 
• Deposition Author(s): Ruiz, S.J., Guskov, A., Poolman, B.
• Funding Organization(s): NWO

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.198 (Depositor), 0.204 (DCC) 
• R-Value Work: 
  0.153 (Depositor), 0.162 (DCC) 
• R-Value Observed: 
  0.155 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of the Substrate-Binding Domain from Listeria monocytogenes Bile-Resistance Determinant BilE

Ruiz, S.J., Schuurman-Wolters, G.K., Poolman, B.

(2016) Crystals (Basel) 6: 162

• DOI: https://doi.org/10.3390/cryst6120162

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 67.9 kDa 
• Atom Count: 4,949 
• Modeled Residue Count: 540 
• Deposited Residue Count: 586 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lmo1422 protein	A, B	293	Listeria monocytogenes EGD-e	Mutation(s): 0  Gene Names: lmo1422
UniProt
Find proteins for Q8Y775 (Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)) Explore Q8Y775  Go to UniProtKB:  Q8Y775

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1PE	F [auth A], I [auth B]	PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N
PEG	G [auth A], J [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
PPI	C [auth A], D [auth A], E [auth A], H [auth B]	PROPANOIC ACID C3 H6 O2 XBDQKXXYIPTUBI-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.198 (Depositor), 0.204 (DCC) 
• R-Value Work:  0.153 (Depositor), 0.162 (DCC) 
• R-Value Observed: 0.155 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.96	α = 90
b = 62.87	β = 91.71
c = 97.02	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2016-04-13 
Deposition Author(s): Ruiz, S.J., Guskov, A., Poolman, B.

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Funding Organization	Location	Grant Number
NWO	Netherlands	--

Revision History  

• Version 1.0: 2016-04-13
  Type: Initial release
  
• Version 1.1: 2017-01-11
  Changes: Source and taxonomy
• Version 1.2: 2017-05-17
  Changes: Database references
• Version 1.3: 2024-01-10
  Changes: Data collection, Database references, Refinement description