8JCR

Crystal structure of Calotropain FI from Calotropis gigantea (pH 6.0)

• PDB DOI: https://doi.org/10.2210/pdb8JCR/pdb

• Classification: HYDROLASE
• Organism(s): Calotropis gigantea
• Mutation(s): No 


• Deposited: 2023-05-11 Released: 2024-05-22 
• Deposition Author(s): Kumar, A., Jamdar, S.N., Srivastava, G., Makde, R.D.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.175 
• R-Value Work: 0.158 
• R-Value Observed: 0.158 

Starting Model: experimental

Literature

Crystal structure of Calotropain FI from Calotropis gigantea

Kumar, A., Jamdar, S.N., Srivastava, G., Makde, R.D.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 23.88 kDa 
• Atom Count: 1,922 
• Modelled Residue Count: 214 
• Deposited Residue Count: 214 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Procerain, Calotropain FI	A	214	Calotropis gigantea	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
E64 (Subject of Investigation/LOI)	C [auth A]	N-[N-[1-HYDROXYCARBOXYETHYL-CARBONYL]LEUCYLAMINO-BUTYL]-GUANIDINE C15 H30 N5 O5 QPQNJAXBPHVASB-QWRGUYRKSA-O
GOL	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CME	A	L-PEPTIDE LINKING	C5 H11 N O3 S2		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.175 
• R-Value Work: 0.158 
• R-Value Observed: 0.158 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.675	α = 90
b = 120.98	β = 90
c = 61.024	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing
PHENIX	model building
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-22 
Deposition Author(s): Kumar, A., Jamdar, S.N., Srivastava, G., Makde, R.D.

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Funding Organization	Location	Grant Number
Other government	India	--

Revision History  

• Version 1.0: 2024-05-22
  Type: Initial release
  
• Version 2.0: 2024-11-20
  Type: Coordinate replacement
  Reason: Sequence discrepancy
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Refinement description, Structure summary