3KAS Viral Protein Endocytosis date Oct 19, 2009
title Machupo Virus Gp1 Bound To Human Transferrin Receptor 1
authors J.Abraham, K.D.Corbett, S.C.Harrison
compound source
Molecule: Transferrin Receptor Protein 1
Chain: A
Fragment: Residues 121-760
Synonym: Tfr1, Tfr, Tr, Trfr, T9, P90, Transferrin Receptor 1, Serum Form, Stfr;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029

Molecule: Glycoprotein
Chain: B
Fragment: Residues 83-244
Engineered: Yes

Organism_scientific: Machupo Virus
Organism_taxid: 11628
Strain: Carvallo
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_plasmid: Pfastbac1
symmetry Space Group: C 2 2 21
R_factor 0.189 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
143.951 170.228 98.471 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand BMA, FUC, K, MAN, NAG, PO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis for receptor recognition by New World hemorrhagic fever arenaviruses., Abraham J, Corbett KD, Farzan M, Choe H, Harrison SC, Nat Struct Mol Biol. 2010 Apr;17(4):438-44. Epub 2010 Mar 7. PMID:20208545
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (274 Kb) [Save to disk]
  • Biological Unit Coordinates (3kas.pdb1.gz) 532 Kb
  • LPC: Ligand-Protein Contacts for 3KAS
  • CSU: Contacts of Structural Units for 3KAS
  • Structure Factors (341 Kb)
  • Retrieve 3KAS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KAS from S2C, [Save to disk]
  • Re-refined 3kas structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KAS 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 3KAS
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3KAS, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kas] [3kas_B] [3kas_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3KAS
  • Community annotation for 3KAS at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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