5AJP Crystal structure of the active form of GalNAc-T2 in complex with UDP and the glycopeptide MUC5AC-13 date
authors Lira-Navarrete, E., delasRivas, M., Companon, I., Pallares, M.C., Kong, Y., Iglesias-Fernandez, J., Bernardes, G.J.L., Peregrina, J.M., Rovira, C., Bernado, P., Bruscolini, P., Clausen, H., Lostao, A., Corzana, F., Hurtado-Guerrero, R.
compound source
symmetry
R_factor
R_Free 0.18558
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.65
ligand A2G, MN, SO4, UDP enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDynamic interplay between catalytic and lectin domains of GalNAc-transferases modulates protein O-glycosylation., Lira-Navarrete E, de Las Rivas M, Companon I, Pallares MC, Kong Y, Iglesias-Fernandez J, Bernardes GJ, Peregrina JM, Rovira C, Bernado P, Bruscolini P, Clausen H, Lostao A, Corzana F, Hurtado-Guerrero R, Nat Commun. 2015 May 5;6:6937. doi: 10.1038/ncomms7937. PMID:25939779
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (181 Kb) [Save to disk]
  • Biological Unit Coordinates (5ajp.pdb1.gz) 174 Kb
  • LPC: Ligand-Protein Contacts for 5AJP
  • CSU: Contacts of Structural Units for 5AJP
  • Structure Factors (4453 Kb)
  • Retrieve 5AJP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5AJP from S2C, [Save to disk]
  • Re-refined 5ajp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5AJP 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 5AJP
  • 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 5AJP, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ajp] [5ajp_A] [5ajp_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5AJP: [RICIN ] by SMART
  • Other resources with information on 5AJP
  • Community annotation for 5AJP at PDBWiki (http://pdbwiki.org)

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