4QVS | pdb_00004qvs

2.1 Angstrom resolution crystal structure of S-layer domain-containing protein (residues 221-444) from Clostridium thermocellum ATCC 27405

• PDB DOI: https://doi.org/10.2210/pdb4QVS/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Acetivibrio thermocellus ATCC 27405
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-07-15 Released: 2014-07-30 
• Deposition Author(s): Halavaty, A.S., Wawrzak, Z., Filippova, E.V., Minasov, G., Kiryukhina, O., Shuvalova, L., Jedrzejczak, R., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.249 (Depositor), 0.247 (DCC) 
• R-Value Work: 
  0.208 (Depositor), 0.212 (DCC) 
• R-Value Observed: 
  0.210 (Depositor) 

Literature

2.1 Angstrom resolution crystal structure of S-layer domain-containing protein (residues 221-444) from Clostridium thermocellum ATCC 27405

Halavaty, A.S., Wawrzak, Z., Filippova, E.V., Minasov, G., Kiryukhina, O., Shuvalova, L., Jedrzejczak, R., Joachimiak, A., Anderson, W.F.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 25.02 kDa 
• Atom Count: 1,734 
• Modeled Residue Count: 217 
• Deposited Residue Count: 227 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
S-layer domain-containing protein	A	227	Acetivibrio thermocellus ATCC 27405	Mutation(s): 0  Gene Names: Cthe_2506
UniProt
Find proteins for A3DIC9 (Acetivibrio thermocellus (strain ATCC 27405 / DSM 1237 / JCM 9322 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372)) Explore A3DIC9  Go to UniProtKB:  A3DIC9

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
NA	C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.249 (Depositor), 0.247 (DCC) 
• R-Value Work:  0.208 (Depositor), 0.212 (DCC) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.958	α = 90
b = 74.813	β = 90
c = 98.398	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHENIX	model building
REFMAC	refinement
xia2	data reduction
MOSFLM	data reduction
pointless	data scaling
Aimless	data scaling
xia2	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-07-30 
Deposition Author(s): Halavaty, A.S., Wawrzak, Z., Filippova, E.V., Minasov, G., Kiryukhina, O., Shuvalova, L., Jedrzejczak, R., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2014-07-30
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Refinement description
• Version 1.2: 2024-11-20
  Changes: Data collection, Database references, Derived calculations, Structure summary