3S5S | pdb_00003s5s

Crystal structure of putative mandelate racemase/muconate lactonizing enzyme (PSI/COM target 200551) from Sorangium cellulosum

• PDB DOI: https://doi.org/10.2210/pdb3S5S/pdb

• Classification: ISOMERASE
• Organism(s): Sorangium cellulosum So ce56
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-05-23 Released: 2011-11-09 
• Deposition Author(s): Ramagopal, U.A., Toro, R., Almo, S.C., New York Structural Genomics Research Consortium (NYSGRC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.263 (Depositor), 0.255 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.196 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of putative mandelate racemase/muconate lactonizing enzyme (PSI/COM target 200551) from Sorangium cellulosum

Ramagopal, U.A., Toro, R., Almo, S.C., New York Structural Genomics Research Consortium (NYSGRC)

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: 80.48 kDa 
• Atom Count: 5,361 
• Modeled Residue Count: 724 
• Deposited Residue Count: 778 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mandelate racemase/muconate lactonizing enzyme family protein	A, B	389	Sorangium cellulosum So ce56	Mutation(s): 0  Gene Names: sce2857 EC: 5.1.1
UniProt
Find proteins for A9GEI3 (Sorangium cellulosum (strain So ce56)) Explore A9GEI3  Go to UniProtKB:  A9GEI3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A], E [auth B], F [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.263 (Depositor), 0.255 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.196 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.365	α = 90
b = 96.365	β = 90
c = 152.354	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
CBASS	data collection
HKL-2000	data reduction
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-11-09 
Deposition Author(s): Ramagopal, U.A., Toro, R., Almo, S.C., New York Structural Genomics Research Consortium (NYSGRC)

Revision History  

• Version 1.0: 2011-11-09
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description