4KVG Crystal structure of RIAM RA-PH domains in complex with GTP bound Rap1 date 2013-05-22
authors Zhang, H., Chang, Y.E., Brennan, M.L., Wu, J.
compound source
symmetry
R_factor
R_Free 0.21890
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.65
ligand EDO, GTP, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceThe structure of Rap1 in complex with RIAM reveals specificity determinants and recruitment mechanism., Zhang H, Chang YC, Brennan ML, Wu J, J Mol Cell Biol. 2014 Apr;6(2):128-39. doi: 10.1093/jmcb/mjt044. Epub 2013 Nov, 28. PMID:24287201
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (299 Kb) [Save to disk]
  • Biological Unit Coordinates (4kvg.pdb1.gz) 150 Kb
  • Biological Unit Coordinates (4kvg.pdb2.gz) 146 Kb
  • LPC: Ligand-Protein Contacts for 4KVG
  • CSU: Contacts of Structural Units for 4KVG
  • Structure Factors (2956 Kb)
  • Retrieve 4KVG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4KVG from S2C, [Save to disk]
  • Re-refined 4kvg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4KVG 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 4KVG
  • 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 4KVG, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4kvg_D] [4kvg_A] [4kvg_C] [4kvg_B] [4kvg]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4KVG: [PH] [RA] [RAS ] by SMART
    • Other resources with information on 4KVG
  • Community annotation for 4KVG at PDBWiki (http://pdbwiki.org)

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