7KC9 Toxin date Oct 05, 2020
title Ricin Bound To Vhh Antibody V5g1
authors M.J.Rudolph
compound source
Molecule: Ricin Chain A
Chain: A, D
Ec: 3.2.2.22
Other_details: Catalytic Subunit, Glycosidase
 Organism_scientific: Ricinus Communis
Organism_common: Castor Bean
Organism_taxid: 3988

Molecule: Ricin Chain B
Chain: B, E
Ec: 3.2.2.22
Other_details: Lectin
Organism_scientific: Ricinus Communis
Organism_common: Castor Bean
Organism_taxid: 3988

Molecule: Vhh Antibody V5g1
Chain: C, F
Engineered: Yes
Other_details: Vhh Antibody
Organism_scientific: Vicugna Pacos
Organism_taxid: 30538
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.187 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.345 77.438 101.577 89.97 90.18 89.98
method X-Ray Diffractionresolution 2.30 Å
ligand BMA, CL, FUC, NAG, ZN enzyme Hydrolase E.C.3.2.2.22 BRENDA
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (429 Kb) [Save to disk]
  • Biological Unit Coordinates (7kc9.pdb1.gz) 211 Kb
  • Biological Unit Coordinates (7kc9.pdb2.gz) 211 Kb
  • LPC: Ligand-Protein Contacts for 7KC9
  • CSU: Contacts of Structural Units for 7KC9
  • Structure Factors (574 Kb)
  • Retrieve 7KC9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 7KC9 from S2C, [Save to disk]
    • View 7KC9 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 7KC9
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [7kc9_C] [7kc9_D] [7kc9_B] [7kc9_F] [7kc9_E] [7kc9_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 7KC9
  • Community annotation for 7KC9 at PDBWiki (http://pdbwiki.org)

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