Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B 

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

Macromolecule Content

• Total Structure Weight: 48.35 kDa 
• Atom Count: 3904 
• Residue Count: 434 
• Unique protein chains: 2

3HNS

CS-35 Fab Complex with Oligoarabinofuranosyl Hexasaccharide

• DOI: 10.2210/pdb3HNS/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus
• Mutation(s): No 


• Deposited: 2009-06-01 Released: 2009-07-21 
• Deposition Author(s): Murase, T., Zheng, R.B., Joe, M., Bai, Y., Marcus, S.L., Lowary, T.L., Ng, K.K.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.217 
• R-Value Work: 0.170 
• R-Value Observed: 0.172 

Literature

Structural insights into antibody recognition of mycobacterial polysaccharides.

Murase, T., Zheng, R.B., Joe, M., Bai, Y., Marcus, S.L., Lowary, T.L., Ng, K.K.

(2009) J Mol Biol 392: 381-392

• PubMed: 19577573 
• DOI: 10.1016/j.jmb.2009.06.074
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Mycobacteria are major human pathogens responsible for such serious and widespread diseases as tuberculosis and leprosy. Among the evolutionary adaptations essential for pathogenicity in mycobacteria is a complex carbohydrate-rich cell-wall structure that contains as a major immunomodulatory molecule the polysaccharide lipoarabinomannan (LAM). We report here crystal structures of three fragments from the non-reducing termini of LAM in complex with a murine antibody Fab fragment (CS-35Fab). These structures reveal for the first time the three-dimensional structures of key components of LAM and the molecular basis of LAM recognition at between 1.8- and 2.0-A resolution. The antigen-binding site of CS-35Fab forms three binding pockets that show a high degree of complementarity to the reducing end, the branch point and one of the non-reducing ends of the Y-shaped hexasaccharide moiety found at most of the non-reducing termini of LAM. Structures of CS-35Fab bound to two additional tetrasaccharides confirm the general mode of binding seen in the hexasaccharide and indicate how different parts of LAM are recognized. Altogether, these structures provide a rational basis for understanding the overall architecture of LAM and identify the key elements of an epitope that may be exploited for the development of novel and more effective anti-mycobacterial vaccines. Moreover, this study represents the first high-resolution X-ray crystallographic investigation of oligofuranoside-protein recognition.

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Organizational Affiliation: 

Alberta Ingenuity Centre for Carbohydrate Science, University of Calgary, Calgary, Alberta, Canada.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
CS-35 Fab Heavy Chain	H	220	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
CS-35 Fab Light Chain	L	214	Mus musculus	Mutation(s): 0

Oligosaccharides

Entity ID: 3
Molecule	Chains	Chain Length	2D Diagram
beta-D-arabinofuranose-(1-2)-alpha-D-arabinofuranose-(1-3)-[beta-D-arabinofuranose-(1-2)-alpha-D-arabinofuranose-(1-5)]alpha-D-arabinofuranose-(1-5)-methyl alpha-D-arabinofuranoside	A	6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.217 
• R-Value Work: 0.170 
• R-Value Observed: 0.172 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 146.725	α = 90
b = 96.234	β = 102.35
c = 36.065	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHASER	phasing
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-06-01 
• Released Date: 2009-07-21 
Deposition Author(s): Murase, T., Zheng, R.B., Joe, M., Bai, Y., Marcus, S.L., Lowary, T.L., Ng, K.K.S.

Revision History 

• Version 1.0: 2009-07-21
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary