1H3V Immune System date Sep 19, 2002
title Crystal Structure Of The Human Igg1 Fc-Fragment,Glycoform (G P212121
authors S.Krapp, Y.Mimura, R.Jefferis, R.Huber, P.Sondermann
compound source
Molecule: Ig Gamma-1 Chain C Region
Chain: A, B
Fragment: Ch2, Ch3, Residues 225-447
Synonym: Ighg1
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.240 R_Free 0.314
crystal
cell
length a length b length c angle alpha angle beta angle gamma
49.470 80.850 141.750 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand BMA, FUL, GAL, MAN, NAG enzyme
Primary referenceStructural analysis of human IgG-Fc glycoforms reveals a correlation between glycosylation and structural integrity., Krapp S, Mimura Y, Jefferis R, Huber R, Sondermann P, J Mol Biol 2003 Jan 31;325(5):979-89. PMID:12527303
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (1h3v.pdb1.gz) 73 Kb
  • LPC: Ligand-Protein Contacts for 1H3V
  • CSU: Contacts of Structural Units for 1H3V
  • Likely Quarternary Molecular Structure file(s) for 1H3V
  • Structure Factors (65 Kb)
  • Retrieve 1H3V in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1H3V from S2C, [Save to disk]
  • Re-refined 1h3v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1H3V 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 1H3V
  • 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 1H3V, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1h3va1, region A:238-341 [Jmol] [rasmolscript] [script source]
        - Domain d1h3va2, region A:342-445 [Jmol] [rasmolscript] [script source]
        - Domain d1h3vb1, region B:238-341 [Jmol] [rasmolscript] [script source]
        - Domain d1h3vb2, region B:342-444 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1h3v_A] [1h3v] [1h3v_B]
  • SWISS-PROT database: [P01857]
  • Domain organization of [IGHG1_HUMAN] by SWISSPFAM
  • Domains found in 1H3V: [IG_like] [IGc1 ] by SMART
    • Other resources with information on 1H3V
  • Community annotation for 1H3V at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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