4GXT | pdb_00004gxt

The crystal structure of a conserved functionally unknown protein from Anaerococcus prevotii DSM 20548

• PDB DOI: https://doi.org/10.2210/pdb4GXT/pdb

• Classification: Structural Genomics, Unknown Function
• Organism(s): Anaerococcus prevotii DSM 20548
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-09-04 Released: 2012-10-03 
• Deposition Author(s): Tan, K., Li, H., Bearden, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.82 Å
• R-Value Free: 
  0.223 (Depositor), 0.211 (DCC) 
• R-Value Work: 
  0.173 (Depositor), 0.166 (DCC) 
• R-Value Observed: 
  0.176 (Depositor) 

Literature

The crystal structure of a conserved functionally unknown protein from Anaerococcus prevotii DSM 20548

Tan, K., Li, H., Bearden, J., Joachimiak, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 46.19 kDa 
• Atom Count: 3,431 
• Modeled Residue Count: 382 
• Deposited Residue Count: 385 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
a conserved functionally unknown protein	A	385	Anaerococcus prevotii DSM 20548	Mutation(s): 0  Gene Names: Apre_0094 EC: 3.1.3.3
UniProt
Find proteins for C7RF86 (Anaerococcus prevotii (strain ATCC 9321 / DSM 20548 / JCM 6508 / NCTC 11806 / PC1)) Explore C7RF86  Go to UniProtKB:  C7RF86

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A], C [auth A], D [auth A], E [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	F [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-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: 1.82 Å
• R-Value Free:  0.223 (Depositor), 0.211 (DCC) 
• R-Value Work:  0.173 (Depositor), 0.166 (DCC) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.13	α = 90
b = 53.226	β = 95.03
c = 75.849	γ = 90

Software Package:

Software Name	Purpose
SBC-Collect	data collection
SHELXD	phasing
MLPHARE	phasing
DM	model building
RESOLVE	model building
HKL-3000	phasing
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
DM	phasing
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-10-03 
Deposition Author(s): Tan, K., Li, H., Bearden, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2012-10-03
  Type: Initial release
  
• Version 1.1: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary