2PJQ | pdb_00002pjq

Crystal structure of Q88U62_LACPL from Lactobacillus plantarum. Northeast Structural Genomics target LpR71

• PDB DOI: https://doi.org/10.2210/pdb2PJQ/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Lactiplantibacillus plantarum WCFS1
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2007-04-16 Released: 2007-05-01 
• Deposition Author(s): Benach, J., Su, M., Seetharaman, J., Forouhar, F., Chen, C.X., Cunningham, K., Ma, L.-C., Owens, L., Baran, M., Acton, T.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: 2.80 Å
• R-Value Free: 
  0.307 (Depositor), 0.312 (DCC) 
• R-Value Work: 
  0.236 (Depositor), 0.242 (DCC) 
• R-Value Observed: 
  0.236 (Depositor) 

Literature

Crystal structure of Q88U62_LACPL from Lactobacillus plantarum.

Benach, J., Su, M., Seetharaman, J., Forouhar, F., Chen, C.X., Cunningham, K., Ma, L.-C., Owens, L., Baran, M., Acton, T.B., Montelione, G.T., Tong, L., Hunt, J.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)

Biological Assembly Evidence: light scattering

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly Evidence: light scattering

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly Evidence: light scattering

Macromolecule Content

• Total Structure Weight: 104.95 kDa 
• Atom Count: 6,575 
• Modelled Residue Count: 833 
• Deposited Residue Count: 924 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein lp_2664	A, B, C, D	231	Lactiplantibacillus plantarum WCFS1	Mutation(s): 6  Gene Names: lp_2664
UniProt
Find proteins for F9URF4 (Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)) Explore F9URF4  Go to UniProtKB:  F9URF4

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.307 (Depositor), 0.312 (DCC) 
• R-Value Work:  0.236 (Depositor), 0.242 (DCC) 
• R-Value Observed: 0.236 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.928	α = 90
b = 167.442	β = 90
c = 63.769	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SnB	phasing
RESOLVE	phasing
CNS	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-05-01 
Deposition Author(s): Benach, J., Su, M., Seetharaman, J., Forouhar, F., Chen, C.X., Cunningham, K., Ma, L.-C., Owens, L., Baran, M., Acton, T.B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2007-05-01
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description
• Version 1.4: 2017-10-25
  Changes: Author supporting evidence
• Version 1.5: 2018-01-24
  Changes: Database references, Structure summary
• Version 1.6: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary