3PM7 | pdb_00003pm7

Crystal Structure of EF_3132 protein from Enterococcus faecalis at the resolution 2A, Northeast Structural Genomics Consortium Target EfR184

• PDB DOI: https://doi.org/10.2210/pdb3PM7/pdb

• Classification: Structural genomics, Unknown function
• Organism(s): Enterococcus faecalis
• Mutation(s): No 


• Deposited: 2010-11-16 Released: 2010-12-15 
• Deposition Author(s): Kuzin, A., Su, M., Seetharaman, J., Sahdev, S., Xiao, R., Ciccosanti, C., Wang, H., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.250 (Depositor), 0.243 (DCC) 
• R-Value Work: 
  0.208 (Depositor), 0.203 (DCC) 
• R-Value Observed: 
  0.210 (Depositor) 

Literature

Northeast Structural Genomics Consortium Target EfR184

Kuzin, A., Su, M., Seetharaman, J., Sahdev, S., Xiao, R., Ciccosanti, C., Wang, H., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

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: 19.66 kDa 
• Atom Count: 1,251 
• Modeled Residue Count: 144 
• Deposited Residue Count: 160 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A, B	80	Enterococcus faecalis	Mutation(s): 0  Gene Names: EF_3132
UniProt
Find proteins for Q82ZD2 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore Q82ZD2  Go to UniProtKB:  Q82ZD2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	E [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.250 (Depositor), 0.243 (DCC) 
• R-Value Work:  0.208 (Depositor), 0.203 (DCC) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.851	α = 90
b = 78.851	β = 90
c = 59.384	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
AutoSol	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-12-15 
Deposition Author(s): Kuzin, A., Su, M., Seetharaman, J., Sahdev, S., Xiao, R., Ciccosanti, C., Wang, H., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2010-12-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-02-22
  Changes: Structure summary
• Version 1.3: 2023-11-29
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-11-06
  Changes: Structure summary