2BQP | pdb_00002bqp

THE STRUCTURE OF THE PEA LECTIN-D-GLUCOPYRANOSE COMPLEX

• PDB DOI: https://doi.org/10.2210/pdb2BQP/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Lathyrus oleraceus
• Mutation(s): No 


• Deposited: 1998-12-08 Released: 1998-12-16 
• Deposition Author(s): Ruzeinikov, S.N., Mikhailova Yu, I., Tsygannik, I.N., Pangborn, W., Duax, W., Pletnev, V.Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.188 (Depositor) 
• R-Value Work: 
  0.161 (Depositor) 
• R-Value Observed: 
  0.161 (Depositor) 

Starting Model: experimental

Literature

The Structure of Pea Lectin-D-Glucopyranose Complex at a 1.9 A Resolution

Pletnev, V.Z., Ruzheinikov, S.N., Tsygannik, I.N., Mikhailova Yu, I., Duax, W., Ghosh, D., Pangborn, W.

(1997) Russ J Bioorg Chem 23: 469

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 52.27 kDa 
• Atom Count: 3,855 
• Modeled Residue Count: 456 
• Deposited Residue Count: 468 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (PEA LECTIN)	A, B	234	Lathyrus oleraceus	Mutation(s): 0
UniProt
Find proteins for P02867 (Pisum sativum) Explore P02867  Go to UniProtKB:  P02867

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GLC	C [auth A], F [auth B]	alpha-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-DVKNGEFBSA-N
MN	E [auth A], H [auth B]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N
CA	D [auth A], G [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.188 (Depositor) 
• R-Value Work:  0.161 (Depositor) 
• R-Value Observed: 0.161 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.838	α = 90
b = 135.246	β = 90
c = 54.781	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-12-16 
Deposition Author(s): Ruzeinikov, S.N., Mikhailova Yu, I., Tsygannik, I.N., Pangborn, W., Duax, W., Pletnev, V.Z.

Revision History  

• Version 1.0: 1998-12-16
  Type: Initial release
  
• Version 1.1: 2007-10-16
  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: Advisory, Data collection, Derived calculations, Structure summary
• Version 1.4: 2023-08-23
  Changes: Data collection, Database references, Refinement description, Structure summary