4GXU Viral Protein Immune System date Sep 04, 2012
title Crystal Structure Of Antibody 1f1 Bound To The 1918 Influenz Hemagglutinin
authors D.C.Ekiert, I.A.Wilson
compound source
Molecule: Hemagglutinin Ha1 Chain
Chain: A, C, E, G, I, K
Fragment: Unp Residues 18-344
Synonym: Hemagglutinin Receptor Binding Subunit
Engineered: Yes
Organism_scientific: Influenza A Virus
Organism_taxid: 88776
Strain: Asouth Carolina11918 H1n1
Gene: Ha
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
Expression_system_strain: High5
Expression_system_vector_type: Baculovirus

Molecule: Hemagglutinin Ha2 Chain
Chain: B, D, F, H, J, L
Fragment: Unp Residues 345-520
Synonym: Hemagglutinin Membrane Fusion Subunit
Engineered: Yes

Organism_scientific: Influenza A Virus
Organism_taxid: 88776
Strain: Asouth Carolina11918 H1n1
Gene: Ha
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
Expression_system_strain: High5
Expression_system_vector_type: Baculovirus

Molecule: Antibody 1f1, Heavy Chain
Chain: M, O, Q, S, U, W
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_strain: 293 Freestyle
Expression_system_vector_type: Plasmid

Molecule: Antibody 1f1, Light Chain
Chain: N, P, R, T, V, X
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_strain: 293 Freestyle
Expression_system_vector_type: Plasmid
symmetry Space Group: P 1 21 1
R_factor 0.219 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
153.711 176.269 168.120 90.00 92.14 90.00
method X-Ray Diffractionresolution 3.29 Å
ligand BMA, NAG, PCA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, K, E, C, I, G


F, J, B, H, D, L


Primary referenceInfluenza Human Monoclonal Antibody 1F1 Interacts with Three Major Antigenic Sites and Residues Mediating Human Receptor Specificity in H1N1 Viruses., Tsibane T, Ekiert DC, Krause JC, Martinez O, Crowe JE Jr, Wilson IA, Basler CF, PLoS Pathog. 2012 Dec;8(12):e1003067. doi: 10.1371/journal.ppat.1003067. Epub, 2012 Dec 6. PMID:23236279
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1686 Kb) [Save to disk]
  • Biological Unit Coordinates (4gxu.pdb1.gz) 900 Kb
  • Biological Unit Coordinates (4gxu.pdb2.gz) 778 Kb
  • LPC: Ligand-Protein Contacts for 4GXU
  • CSU: Contacts of Structural Units for 4GXU
  • Structure Factors (1611 Kb)
  • Retrieve 4GXU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4GXU from S2C, [Save to disk]
  • Re-refined 4gxu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4GXU 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 4GXU
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4GXU, from MSDmotif at EBI
  • Fold representative 4gxu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4gxu_W] [4gxu_O] [4gxu_R] [4gxu_P] [4gxu_K] [4gxu_X] [4gxu_D] [4gxu_G] [4gxu] [4gxu_A] [4gxu_N] [4gxu_B] [4gxu_L] [4gxu_E] [4gxu_M] [4gxu_Q] [4gxu_V] [4gxu_U] [4gxu_T] [4gxu_F] [4gxu_C] [4gxu_J] [4gxu_I] [4gxu_S] [4gxu_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4GXU: [IG_like] [IGv ] by SMART
  • Other resources with information on 4GXU
  • Community annotation for 4GXU at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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