7JJC Signaling Protein date Jul 25, 2020
title Crystal Structure Of Neuropilin-1 B1 Domain In Complex With S1 C-End Rule (Cendr) Peptide
authors K.E.Chen, B.M.Collins
compound source
Molecule: Neuropilin-1
Chain: A, B, C, D
Synonym: Vascular Endothelial Cell Growth Factor 165 Recept
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nrp1, Nrp, Vegf165r
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta-Gami 2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a

Molecule: Spike Protein S1
Chain: E, F, G, H
Synonym: S Glycoprotein,E2,Peplomer Protein,Spike Glycoprot
Engineered: Yes

Synthetic: Yes
Organism_scientific: Severe Acute Respiratory Syndrome Coro 2;
Organism_common: 2019-Ncov
Organism_taxid: 2697049
symmetry Space Group: P 21 21 21
R_factor 0.203 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.930 89.890 108.300 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.36 Å
ligand GOL, PEG enzyme
Primary referenceNeuropilin-1 is a host factor for SARS-CoV-2 infection., Daly JL, Simonetti B, Klein K, Chen KE, Williamson MK, Anton-Plagaro C, Shoemark DK, Simon-Gracia L, Bauer M, Hollandi R, Greber UF, Horvath P, Sessions RB, Helenius A, Hiscox JA, Teesalu T, Matthews DA, Davidson AD, Collins BM, Cullen PJ, Yamauchi Y, Science. 2020 Oct 20. pii: science.abd3072. doi: 10.1126/science.abd3072. PMID:33082294
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (116 Kb) [Save to disk]
  • Biological Unit Coordinates (7jjc.pdb1.gz) 28 Kb
  • Biological Unit Coordinates (7jjc.pdb2.gz) 29 Kb
  • Biological Unit Coordinates (7jjc.pdb3.gz) 29 Kb
  • Biological Unit Coordinates (7jjc.pdb4.gz) 30 Kb
  • LPC: Ligand-Protein Contacts for 7JJC
  • CSU: Contacts of Structural Units for 7JJC
  • Structure Factors (971 Kb)
  • Retrieve 7JJC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 7JJC from S2C, [Save to disk]
  • View 7JJC 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 7JJC
  • 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: [7jjc_E] [7jjc_G] [7jjc_H] [7jjc_A] [7jjc_B] [7jjc_D] [7jjc_F] [7jjc_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 7JJC
  • Community annotation for 7JJC at PDBWiki (http://pdbwiki.org)

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