5FOB Lipid Binding Protein date Nov 18, 2015
title Crystal Structure Of Human Complement C3b In Complex With Sm Inhibitor Of Complement (Spice)
authors F.Forneris, J.Wu, X.Xue, P.Gros
compound source
Molecule: Complement C3 Beta Chain
Chain: A
Fragment: Residues 23-667
Synonym: C3 And Pzp-Like Alpha-2-Macroglobulin Domain-Conta Protein 1;
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Purified From Human Plasma

Molecule: Complement C3b Alpha' Chain
Chain: B
Fragment: Ccp Domains, Residues 749-1663
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Purified From Human Plasma

Molecule: Smallpox Inhibitor Of Complement Spice, D15l
Chain: C
Fragment: Residues 19-263
Engineered: Yes
Organism_scientific: Variola Major Virus
Organism_taxid: 12870
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.198 R_Free 0.230
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.891 83.311 127.377 75.03 76.20 68.50
method X-Ray Diffractionresolution 2.60 Å
ligand BMA, CL, FUC, GOL, IOD, NA, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


Primary referenceRegulators of complement activity mediate inhibitory mechanisms through a common C3b-binding mode., Forneris F, Wu J, Xue X, Ricklin D, Lin Z, Sfyroera G, Tzekou A, Volokhina E, Granneman JC, Hauhart R, Bertram P, Liszewski MK, Atkinson JP, Lambris JD, Gros P, EMBO J. 2016 Mar 24. pii: e201593673. PMID:27013439
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (601 Kb) [Save to disk]
  • Biological Unit Coordinates (5fob.pdb1.gz) 590 Kb
  • LPC: Ligand-Protein Contacts for 5FOB
  • CSU: Contacts of Structural Units for 5FOB
  • Structure Factors (1300 Kb)
  • Retrieve 5FOB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5FOB from S2C, [Save to disk]
  • Re-refined 5fob structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5FOB 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 5FOB
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5fob_C] [5fob_B] [5fob_A] [5fob]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5FOB: [A2M] [A2M_N_2] [A2M_recep] [C345C] [CCP] [Thiol-ester_cl ] by SMART
    • Other resources with information on 5FOB
  • Community annotation for 5FOB at PDBWiki (http://pdbwiki.org)

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