4TZD | pdb_00004tzd

Crystal structure of Canavalia maritima lectin (ConM) complexed with interleukin - 1 beta primer

• PDB DOI: https://doi.org/10.2210/pdb4TZD/pdb
• NAKB: 4TZD

• Classification: Carbohydrate binding protein/DNA
• Organism(s): Canavalia lineata, Escherichia coli
• Mutation(s): No 


• Deposited: 2014-07-10 Released: 2015-07-22 
• Deposition Author(s): Vieira, D.B.H.A., Delatorre, P., Rocha, B.A.M., Teixeira, C.S., Silva-Filho, J.C., Lima, E.M., Nobrega, R.B., Cavada, B.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 
  0.315 (Depositor), 0.303 (DCC) 
• R-Value Work: 
  0.247 (Depositor), 0.256 (DCC) 
• R-Value Observed: 
  0.251 (Depositor) 

Literature

Crystal structure of Canavalia maritima lectin (ConM) complexed with interleukin 1 - beta primer

Vieira, D.B.H.A., Delatorre, P., Cavada, B.S., Nobrega, R.B., Teixeira, C.S., Silva-Filho, J.C., Lima, E.M., Rocha, B.A.M.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 52.73 kDa 
• Atom Count: 3,699 
• Modeled Residue Count: 468 
• Deposited Residue Count: 480 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Concanavalin-A	A, B [auth D]	237	Canavalia lineata	Mutation(s): 0
UniProt
Find proteins for P81460 (Canavalia lineata) Explore P81460  Go to UniProtKB:  P81460

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*CP*G)-3')	C [auth G]	2	Escherichia coli

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*TP*C)-3')	D [auth H]	4	Escherichia coli

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free:  0.315 (Depositor), 0.303 (DCC) 
• R-Value Work:  0.247 (Depositor), 0.256 (DCC) 
• R-Value Observed: 0.251 (Depositor) 

Space Group: F 2 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 192.23	α = 90
b = 192.23	β = 90
c = 192.23	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-07-22 
Deposition Author(s): Vieira, D.B.H.A., Delatorre, P., Rocha, B.A.M., Teixeira, C.S., Silva-Filho, J.C., Lima, E.M., Nobrega, R.B., Cavada, B.S.

Revision History  

• Version 1.0: 2015-07-22
  Type: Initial release
  
• Version 1.1: 2015-10-14
  Changes: Data collection
• Version 1.2: 2023-12-27
  Changes: Data collection, Database references, Derived calculations
• Version 1.3: 2024-11-13
  Changes: Structure summary