6VJ0 | pdb_00006vj0

Crystal structure of a chitin-binding protein from Moringa oleifera seeds (Mo-CBP4)

• PDB DOI: https://doi.org/10.2210/pdb6VJ0/pdb

• Classification: PLANT PROTEIN
• Organism(s): Moringa oleifera
• Mutation(s): No 


• Deposited: 2020-01-14 Released: 2021-01-27 
• Deposition Author(s): Bezerra, E.H.S., Lopes, T.D.P., da Silva, F.M.S., Costa, H.P.S., Freire, V.N., Rocha, B.A.M., Sousa, D.O.B.
• Funding Organization(s): Coordination for the Improvement of Higher Education Personnel

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.227 (Depositor), 0.229 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.203 (DCC) 

Starting Model: experimental

Literature

Structural characterization of a lectin from Moringa oleifera seeds with imflammatory activities

Lopes, T.D.P., Costa, H.P.S., Pereira, M.L., Neto, J.X.S., de Alencar, N.M.N., Vasconcelos, I.M., Oliveira, J.T.A., da Silva, F.M.S., Freire, V.N., Bezerra, E.H.S., Rocha, B.A.M., Sousa, D.O.B.

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: 14.48 kDa 
• Atom Count: 804 
• Modeled Residue Count: 90 
• Deposited Residue Count: 124 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chitin-binding protein Mo-CBP4	A	124	Moringa oleifera	Mutation(s): 0
UniProt
Find proteins for W5S2D2 (Moringa oleifera) Explore W5S2D2  Go to UniProtKB:  W5S2D2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	B [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
CL	C [auth A], D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.227 (Depositor), 0.229 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.203 (DCC) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.052	α = 90
b = 107.052	β = 90
c = 42.958	γ = 90

Software Package:

Software Name	Purpose
PDB_EXTRACT	data extraction
PHENIX	refinement
PHASER	phasing
Aimless	data scaling
XDS	data reduction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2021-01-27 
Deposition Author(s): Bezerra, E.H.S., Lopes, T.D.P., da Silva, F.M.S., Costa, H.P.S., Freire, V.N., Rocha, B.A.M., Sousa, D.O.B.

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Funding Organization	Location	Grant Number
Coordination for the Improvement of Higher Education Personnel	Brazil	--

Revision History  

• Version 1.0: 2021-01-27
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-10-16
  Changes: Structure summary