3L1W | pdb_00003l1w

The crystal structure of a functionally unknown conserved protein from Enterococcus faecalis V583

• PDB DOI: https://doi.org/10.2210/pdb3L1W/pdb

• Classification: Structural Genomics, Unknown function
• Organism(s): Enterococcus faecalis
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2009-12-14 Released: 2010-01-12 
• Deposition Author(s): Tan, K., Rakowski, E., Jedrzejczak, R., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.198 (Depositor), 0.194 (DCC) 
• R-Value Work: 
  0.167 (Depositor), 0.163 (DCC) 
• R-Value Observed: 
  0.168 (Depositor) 

Literature

The crystal structure of a functionally unknown conserved protein from Enterococcus faecalis V583

Tan, K., Rakowski, E., Jedrzejczak, R., Joachimiak, A.

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)

Biological Assembly 2  

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

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

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 181.69 kDa 
• Atom Count: 14,171 
• Modeled Residue Count: 1,512 
• Deposited Residue Count: 1,542 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A, B, C, D, E, F	257	Enterococcus faecalis	Mutation(s): 0  Gene Names: EF_1237
UniProt
Find proteins for Q835Y1 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore Q835Y1  Go to UniProtKB:  Q835Y1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	BA [auth D], CA [auth D], DA [auth D], EA [auth D], G [auth A], H [auth A], I [auth A], IA [auth E], J [auth A], JA [auth E], KA [auth E], LA [auth E], N [auth B], O [auth B], P [auth B], PA [auth F], Q [auth B], QA [auth F], RA [auth F], SA [auth F], U [auth C], V [auth C], W [auth C], X [auth C]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	FA [auth D], K [auth A], MA [auth E], R [auth B], TA [auth F], Y [auth C]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
FMT	AA [auth C], GA [auth D], HA [auth D], L [auth A], M [auth A], NA [auth E], OA [auth E], S [auth B], T [auth B], UA [auth F], VA [auth F], Z [auth C]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.198 (Depositor), 0.194 (DCC) 
• R-Value Work:  0.167 (Depositor), 0.163 (DCC) 
• R-Value Observed: 0.168 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.565	α = 89.88
b = 68.558	β = 89.79
c = 104.245	γ = 60.07

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-01-12 
Deposition Author(s): Tan, K., Rakowski, E., Jedrzejczak, R., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2010-01-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary