8R76

Ficin C crystal form I

• PDB DOI: https://doi.org/10.2210/pdb8R76/pdb
• Entry: 8R76 supersedes: 4YYU

• Classification: HYDROLASE
• Organism(s): Ficus carica
• Mutation(s): Yes 


• Deposited: 2023-11-23 Released: 2024-12-04 
• Deposition Author(s): Loris, R., Baeyens-Volant, D., Azarkan, M., Kerff, F.
• Funding Organization(s): Fonds de la Recherche Scientifique (FNRS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.18 Å
• R-Value Free: 0.141 
• R-Value Work: 0.126 
• R-Value Observed: 0.126 

Starting Model: experimental

Literature

Crystal structure of four variants of the protease Ficin from the common fig

Baldacci-Cresp, F., Rodriguez Buitrago, J.A., M'Rabet, N., Loris, R., Baucher, M., Baeyens-Volant, D., Kerff, F., Azarkan, M.

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: 24.95 kDa 
• Atom Count: 2,189 
• Modelled Residue Count: 221 
• Deposited Residue Count: 221 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ficin 1b	A	221	Ficus carica	Mutation(s): 2
UniProt
Find proteins for A0A2Z6DRT1 (Ficus carica) Explore A0A2Z6DRT1  Go to UniProtKB:  A0A2Z6DRT1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MES	E [auth A], F [auth A]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C6 H13 N O4 S SXGZJKUKBWWHRA-UHFFFAOYSA-N
SO4	B [auth A], C [auth A], D [auth A], H [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	G [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SCH	A	L-PEPTIDE LINKING	C4 H9 N O2 S2		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.18 Å
• R-Value Free: 0.141 
• R-Value Work: 0.126 
• R-Value Observed: 0.126 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.939	α = 90
b = 88.939	β = 90
c = 56.176	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-04 
Deposition Author(s): Loris, R., Baeyens-Volant, D., Azarkan, M., Kerff, F.
• This entry supersedes: 4YYU

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Funding Organization	Location	Grant Number
Fonds de la Recherche Scientifique (FNRS)	Belgium	T012122F

Revision History  

• Version 1.0: 2024-12-04
  Type: Initial release