5X9I | pdb_00005x9i

Unique Choloylglycine Hydrolase(CGH) member Mutant (C1S) from Shewanella loihica PV-4

• PDB DOI: https://doi.org/10.2210/pdb5X9I/pdb

• Classification: HYDROLASE
• Organism(s): Shewanella loihica PV-4
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2017-03-07 Released: 2018-03-07 
• Deposition Author(s): Ramasamy, S., Philem, P., Yadav, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.208 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.185 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.186 (Depositor) 

Starting Model: experimental

Literature

Unique Choloylglycine Hydrolase(CGH) member from Shewanella loihica PV-4

Philem, P., Yadav, Y., Prabune, A.A., Ramasamy, S.

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: gel filtration

Macromolecule Content 

• Total Structure Weight: 76.36 kDa 
• Atom Count: 5,512 
• Modeled Residue Count: 666 
• Deposited Residue Count: 678 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Penicillin V acylase-like protein	A, B	339	Shewanella loihica PV-4	Mutation(s): 1  Gene Names: Shew_0681 EC: 3.5.1.24
UniProt
Find proteins for A3QAQ5 (Shewanella loihica (strain ATCC BAA-1088 / PV-4)) Explore A3QAQ5  Go to UniProtKB:  A3QAQ5

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
OOA	C [auth A], E [auth B]	3-OXOOCTANOIC ACID C8 H14 O3 FWNRRWJFOZIGQZ-UHFFFAOYSA-N
GOL	D [auth A], F [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.208 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.185 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.186 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 150.788	α = 90
b = 52.42	β = 115.96
c = 99.205	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-03-07 
Deposition Author(s): Ramasamy, S., Philem, P., Yadav, Y.

Revision History  

• Version 1.0: 2018-03-07
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description