9GFF | pdb_00009gff

BCR Fab from the subset 1 chronic lymphocytic leukaemia case P10015

• PDB DOI: https://doi.org/10.2210/pdb9GFF/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2024-08-09 Released: 2025-08-20 
• Deposition Author(s): Minici, C., Degano, M.
• Funding Organization(s): Italian Association for Cancer Research, Worldwide Cancer Research, Italian Ministry of Health

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.235 (Depositor), 0.233 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.207 (DCC) 
• R-Value Observed: 
  0.210 (Depositor) 

Starting Model: experimental

Literature

Defective cell-autonomous signalling and antigenic polyreactivity of B-cell receptors from chronic lymphocytic leukaemia stereotyped subset 1

Cocomazzi, P.G., Iatrou, A., Minici, C., Degano, M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 48.59 kDa 
• Atom Count: 3,428 
• Modeled Residue Count: 439 
• Deposited Residue Count: 440 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BCR P10015 heavy chain	A [auth H]	225	Homo sapiens	Mutation(s): 0
Glycosylation
Glycosylation Sites: 1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
BCR P10015 light chain	B [auth L]	215	Homo sapiens	Mutation(s): 0

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose	C [auth A]	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G21290RB GlyCosmos:  G21290RB GlyGen:  G21290RB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.235 (Depositor), 0.233 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.207 (DCC) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.952	α = 90
b = 99.952	β = 90
c = 123.048	γ = 120

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-08-20 
Deposition Author(s): Minici, C., Degano, M.

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Funding Organization	Location	Grant Number
Italian Association for Cancer Research	Italy	IG25764
Italian Association for Cancer Research	Italy	IG17032
Worldwide Cancer Research	United Kingdom	19-0096
Italian Ministry of Health	Italy	RF-2018-12368231

Revision History  

• Version 1.0: 2025-08-20
  Type: Initial release