1OB1 Immune System date Jan 22, 2003
title Crystal Structure Of A Fab Complex Whith Plasmodium Falcipar
authors J.C.Pizarro, V.Chitarra, D.Verger, I.Holm, S.Petres, S.Dartville, S.Longacre, G.A.Bentley
compound source
Molecule: Antibody, Heavy Chain
Chain: A, D
Fragment: Fab Fragment
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Strain: Balbc
Cell_line: G17-12 Murine Hybridoma
Cell: B-Lymphocyte

Molecule: Antibody, Light Chain
Chain: B, E
Fragment: Fab Fragment

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Strain: Balbc
Cell_line: G17-12 Murine Hybridoma
Cell: B-Lymphocyte

Molecule: Major Merozoite Surface Protein
Chain: C, F
Fragment: Msp1-19, Residues 8-100
Engineered: Yes

Organism_scientific: Plasmodium Falciparum
Organism_taxid: 5833
Strain: Uganda Palo Alto
Cell: Merozoite Stage
Expression_system: Trichoplusia Ni
Expression_system_taxid: 7111
Expression_system_cell_line: High Five
Expression_system_vector_type: Baculovirus
Other_details: Synthetic Gene
symmetry Space Group: P 1 21 1
R_factor 0.257 R_Free 0.288
length a length b length c angle alpha angle beta angle gamma
51.750 213.460 59.890 90.00 100.95 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand CAC enzyme
note 1OB1 is a representative structure
related structures by homologous chain: 1CEJ, 1CL7, 1FSK
Primary referenceCrystal structure of a Fab complex formed with PfMSP1-19, the C-terminal fragment of merozoite surface protein 1 from Plasmodium falciparum: a malaria vaccine candidate., Pizarro JC, Chitarra V, Verger D, Holm I, Petres S, Dartevelle S, Nato F, Longacre S, Bentley GA, J Mol Biol 2003 May 16;328(5):1091-103. PMID:12729744
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (163 Kb) [Save to disk]
  • Biological Unit Coordinates (1ob1.pdb1.gz) 79 Kb
  • Biological Unit Coordinates (1ob1.pdb2.gz) 80 Kb
  • LPC: Ligand-Protein Contacts for 1OB1
  • CSU: Contacts of Structural Units for 1OB1
  • Likely Quarternary Molecular Structure file(s) for 1OB1
  • Structure Factors (198 Kb)
  • Retrieve 1OB1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OB1 from S2C, [Save to disk]
  • Re-refined 1ob1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1OB1 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 1OB1
  • 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 1OB1, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ob1a1, region A:1-106A [Jmol] [rasmolscript] [script source]
        - Domain d1ob1a2, region A:107-213 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1b1, region B:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1b2, region B:114-212 [Jmol] [rasmolscript] [script source]
        - Domain d1v1ob1, region B:18-108 [Jmol] [rasmolscript] [script source]
        - Domain d1h1ob1, region B:213-293 [Jmol] [rasmolscript] [script source]
        - Domain d1m1ob1, region B:3-268 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1c1, region C:1-45 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1c2, region C:46-96 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1d1, region D:1-106A [Jmol] [rasmolscript] [script source]
        - Domain d1ob1d2, region D:107-213 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1e1, region E:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1e2, region E:114-212 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1f1, region F:1-45 [Jmol] [rasmolscript] [script source]
        - Domain d1ob1f2, region F:46-97 [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: [1ob1_B] [1ob1_E] [1ob1_A] [1ob1] [1ob1_C] [1ob1_F] [1ob1_D]
  • SWISS-PROT database: [P01863] [P01837] [P50495]
  • Domain organization of [GCAA_MOUSE] [IGKC_MOUSE] [MSP1_PLAFP] by SWISSPFAM
  • Domains found in 1OB1: [IG_like] [IGv ] by SMART
  • Other resources with information on 1OB1
  • Community annotation for 1OB1 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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