4UBD Crystal structure of a neutralizing human monoclonal antibody with 1968 H3 HA date
authors Shore, D.A., Yang, H., Cho, M., Donis, R.O., Stevens, J.
compound source
symmetry
R_factor
R_Free 0.25755
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.50
ligand BMA, MAN, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E, Q, M, I, U


F, J, N, B, V, R


Primary referenceA potent broad-spectrum protective human monoclonal antibody crosslinking two haemagglutinin monomers of influenza A virus., Wu Y, Cho M, Shore D, Song M, Choi J, Jiang T, Deng YQ, Bourgeois M, Almli L, Yang H, Chen LM, Shi Y, Qi J, Li A, Yi KS, Chang M, Bae JS, Lee H, Shin J, Stevens J, Hong S, Qin CF, Gao GF, Chang SJ, Donis RO, Nat Commun. 2015 Jul 21;6:7708. doi: 10.1038/ncomms8708. PMID:26196962
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1813 Kb) [Save to disk]
  • Biological Unit Coordinates (4ubd.pdb1.gz) 905 Kb
  • Biological Unit Coordinates (4ubd.pdb2.gz) 906 Kb
  • LPC: Ligand-Protein Contacts for 4UBD
  • CSU: Contacts of Structural Units for 4UBD
  • Structure Factors (1902 Kb)
  • Retrieve 4UBD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4UBD from S2C, [Save to disk]
  • Re-refined 4ubd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4UBD 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 4UBD
  • 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: [4ubd_F] [4ubd_T] [4ubd_P] [4ubd_U] [4ubd] [4ubd_C] [4ubd_M] [4ubd_X] [4ubd_B] [4ubd_N] [4ubd_A] [4ubd_H] [4ubd_L] [4ubd_S] [4ubd_G] [4ubd_J] [4ubd_O] [4ubd_Q] [4ubd_Y] [4ubd_D] [4ubd_V] [4ubd_R] [4ubd_K] [4ubd_E] [4ubd_I]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4UBD: [IG_like] [IGv ] by SMART
    • Other resources with information on 4UBD
  • Community annotation for 4UBD at PDBWiki (http://pdbwiki.org)

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