1BCJ

MANNOSE-BINDING PROTEIN-A MUTANT (QPDWGHV) COMPLEXED WITH N-ACETYL-D-GALACTOSAMINE

• PDB DOI: https://doi.org/10.2210/pdb1BCJ/pdb

• Classification: LECTIN
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 1998-04-30 Released: 1998-06-17 
• Deposition Author(s): Kolatkar, A.R., Weis, W.I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.261 
• R-Value Work: 0.220 
• R-Value Observed: 0.220 

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content

• Total Structure Weight: 52.32 kDa 
• Atom Count: 3,974 
• Modelled Residue Count: 462 
• Deposited Residue Count: 462 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MANNOSE-BINDING PROTEIN-A	A [auth 1], B [auth 2], C [auth 3]	154	Rattus norvegicus	Mutation(s): 7
UniProt
Find proteins for P19999 (Rattus norvegicus) Explore P19999  Go to UniProtKB:  P19999

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NGA	D [auth 1], I [auth 2], M [auth 3]	2-acetamido-2-deoxy-beta-D-galactopyranose C8 H15 N O6 OVRNDRQMDRJTHS-JAJWTYFOSA-N
CA	E [auth 1], F [auth 1], G [auth 1], J [auth 2], K [auth 2], L [auth 2], N [auth 3], O [auth 3], P [auth 3]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	H [auth 1], Q [auth 3]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Binding Affinity Annotations
ID	Source	Binding Affinity
NGA	Binding MOAD:  1BCJ	Kd: 2.00e+5 (nM) from 1 assay(s)
	PDBBind:  1BCJ	Kd: 2.00e+5 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.261 
• R-Value Work: 0.220 
• R-Value Observed: 0.220 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.92	α = 90
b = 84.53	β = 104.49
c = 97.86	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-06-17 
Deposition Author(s): Kolatkar, A.R., Weis, W.I.

Revision History  

• Version 1.0: 1998-06-17
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations, Structure summary
• Version 1.4: 2021-11-03
  Changes: Database references, Structure summary
• Version 1.5: 2023-08-02
  Changes: Refinement description