5JPM Structure of the complex of human complement C4 with MASP-2 rebuilt using iMDFF date
authors Croll, T.I., Andersen, G.R.
compound source
symmetry
R_factor
R_Free 0.2682
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.75
ligand BMA, NAG, TYS enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D


E, B


F, C


I, G


J, H


Primary referenceRe-evaluation of low-resolution crystal structures via interactive molecular-dynamics flexible fitting (iMDFF): a case study in complement C4., Croll TI, Andersen GR, Acta Crystallogr D Struct Biol. 2016 Sep;72(Pt 9):1006-16. doi:, 10.1107/S2059798316012201. Epub 2016 Aug 18. PMID:27599733
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1386 Kb) [Save to disk]
  • Biological Unit Coordinates (5jpm.pdb1.gz) 691 Kb
  • Biological Unit Coordinates (5jpm.pdb2.gz) 692 Kb
  • LPC: Ligand-Protein Contacts for 5JPM
  • CSU: Contacts of Structural Units for 5JPM
  • Structure Factors (447 Kb)
  • Retrieve 5JPM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JPM from S2C, [Save to disk]
  • Re-refined 5jpm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5JPM 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 5JPM
  • 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: [5jpm_G] [5jpm_E] [5jpm_F] [5jpm] [5jpm_H] [5jpm_A] [5jpm_B] [5jpm_C] [5jpm_I] [5jpm_D] [5jpm_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5JPM: [A2M] [A2M_N_2] [A2M_recep] [ANATO] [C345C] [CCP] [Thiol-ester_cl] [Tryp_SPc ] by SMART
    • Other resources with information on 5JPM
  • Community annotation for 5JPM at PDBWiki (http://pdbwiki.org)

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