1CLZ

IGG FAB (IGG3, KAPPA) FRAGMENT (MBR96) COMPLEXED WITH LEWIS Y NONOATE METHYL ESTER

• PDB DOI: https://doi.org/10.2210/pdb1CLZ/pdb

• Classification: IMMUNOGLOBULIN
• Organism(s): Mus musculus
• Mutation(s): No 


• Deposited: 1995-03-15 Released: 1996-08-01 
• Deposition Author(s): Sheriff, S., Bajorath, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.295 
• R-Value Work: 0.197 
• R-Value Observed: 0.197 

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 48.85 kDa 
• Atom Count: 3,431 
• Modelled Residue Count: 437 
• Deposited Residue Count: 437 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
IGG FAB (IGG3, KAPPA)	A [auth L]	219	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
IGG FAB (IGG3, KAPPA)	B [auth H]	218	Mus musculus	Mutation(s): 0
UniProt
Find proteins for P03987 (Mus musculus) Explore P03987  Go to UniProtKB:  P03987

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-L-fucopyranose-(1-2)-beta-D-galactopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose	C [auth A]	4		N/A
Glycosylation Resources
GlyTouCan:  G00052MO GlyCosmos:  G00052MO GlyGen:  G00052MO

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NON	D [auth H]	METHYL NONANOATE (ESTER) C10 H20 O2 IJXHLVMUNBOGRR-UHFFFAOYSA-N

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 3
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900054	C [auth A]	Lewis Y antigen, beta anomer	Oligosaccharide / Antigen

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.295 
• R-Value Work: 0.197 
• R-Value Observed: 0.197 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.4	α = 90
b = 84.9	β = 90
c = 86.8	γ = 90

Software Package:

Software Name	Purpose
XENGEN	data collection
XENGEN	data reduction
X-PLOR	refinement
XENGEN	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 1996-08-01 
Deposition Author(s): Sheriff, S., Bajorath, J.

Revision History  

• Version 1.0: 1996-08-01
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Database references, Derived calculations, Other, Structure summary