2ETD | pdb_00002etd

Crystal structure of a lema protein (tm0961) from thermotoga maritima msb8 at 2.28 A resolution

• PDB DOI: https://doi.org/10.2210/pdb2ETD/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Thermotoga maritima MSB8
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2005-10-27 Released: 2005-11-15 
• Deposition Author(s): Joint Center for Structural Genomics (JCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free: 
  0.270 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.220 (DCC) 

Literature

Crystal structure of LEMA protein (tm0961) from THERMOTOGA MARITIMA at 2.28 A resolution

Joint Center for Structural Genomics (JCSG)

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration, light scattering

Macromolecule Content 

• Total Structure Weight: 19.98 kDa 
• Atom Count: 1,169 
• Modeled Residue Count: 141 
• Deposited Residue Count: 171 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
lemA protein	A	171	Thermotoga maritima MSB8	Mutation(s): 16  Gene Names: tm0961
UniProt
Find proteins for Q9X056 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9X056  Go to UniProtKB:  Q9X056

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MLY	A	L-PEPTIDE LINKING	C8 H18 N2 O2		LYS
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free:  0.270 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.220 (DCC) 

Diffraction Data: https://doi.org/10.18430/M32ETD

Space Group: C 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.454	α = 90
b = 85.259	β = 90
c = 53.397	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PDB_EXTRACT	data extraction
DENZO	data reduction
HKL-2000	data scaling
SHELX	phasing
SHARP	phasing
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-11-15 
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History  

• Version 1.0: 2005-11-15
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance
• Version 1.3: 2017-10-25
  Changes: Author supporting evidence
• Version 1.4: 2023-01-25
  Changes: Database references, Derived calculations