3LP5 | pdb_00003lp5

The crystal structure of the putative cell surface hydrolase from Lactobacillus plantarum WCFS1

• PDB DOI: https://doi.org/10.2210/pdb3LP5/pdb

• Classification: HYDROLASE
• Organism(s): Lactiplantibacillus plantarum
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2010-02-04 Released: 2010-03-16 
• Deposition Author(s): Zhang, R., Li, H., Cobb, G., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.236 (Depositor), 0.241 (DCC) 
• R-Value Work: 
  0.175 (Depositor), 0.181 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

Literature

The crystal structure of the putative cell surface hydrolase from Lactobacillus plantarum WCFS1

Zhang, R., Li, H., Cobb, G., Joachimiak, A.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 28.16 kDa 
• Atom Count: 2,136 
• Modeled Residue Count: 250 
• Deposited Residue Count: 250 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative cell surface hydrolase	A	250	Lactiplantibacillus plantarum	Mutation(s): 0  Gene Names: GI:28270776, lp_1165
UniProt
Find proteins for F9UMW5 (Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)) Explore F9UMW5  Go to UniProtKB:  F9UMW5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	B [auth A], C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.236 (Depositor), 0.241 (DCC) 
• R-Value Work:  0.175 (Depositor), 0.181 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.68	α = 90
b = 122.154	β = 90
c = 38.659	γ = 90

Software Package:

Software Name	Purpose
SBC-Collect	data collection
HKL-3000	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-03-16 
Deposition Author(s): Zhang, R., Li, H., Cobb, G., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2010-03-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations