1I9R Cytokine Immune System date Mar 20, 2001
title Structure Of Cd40l In Complex With The Fab Fragment Of Human Antibody
authors M.Karpusas, J.Lucci, J.Ferrant, C.Benjamin, Y.M.Hsu
compound source
Molecule: Cd40 Ligand
Chain: A, B, C
Fragment: Residues 116-261
Synonym: Cd40-L
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922

Molecule: Immunoglobulin H
Chain: H, K, X

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Nso Myeloma

Molecule: Immunoglobulin L
Chain: L, M, Y

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Nso Myeloma
symmetry Space Group: C 1 2 1
R_factor 0.233 R_Free 0.285
crystal
cell
length a length b length c angle alpha angle beta angle gamma
224.480 129.910 96.490 90.00 109.60 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceStructure of CD40 ligand in complex with the Fab fragment of a neutralizing humanized antibody., Karpusas M, Lucci J, Ferrant J, Benjamin C, Taylor FR, Strauch K, Garber E, Hsu YM, Structure (Camb) 2001 Apr 4;9(4):321-9. PMID:11525169
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (266 Kb) [Save to disk]
  • Biological Unit Coordinates (1i9r.pdb1.gz) 261 Kb
  • LPC: Ligand-Protein Contacts for 1I9R
  • CSU: Contacts of Structural Units for 1I9R
  • Likely Quarternary Molecular Structure file(s) for 1I9R
  • Structure Factors (514 Kb)
  • Retrieve 1I9R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1I9R from S2C, [Save to disk]
  • Re-refined 1i9r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1I9R 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 1I9R
  • 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 1I9R, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1i9ra_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1i9rb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1i9rc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1i9rh1, region H:1-118 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rh2, region H:119-219 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rk1, region K:1-118 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rk2, region K:119-219 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rl1, region L:1-111 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rl2, region L:112-215 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rm1, region M:1-111 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rm2, region M:112-215 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rx1, region X:1-118 [Jmol] [rasmolscript] [script source]
        - Domain d1i9rx2, region X:119-219 [Jmol] [rasmolscript] [script source]
        - Domain d1i9ry1, region Y:1-111 [Jmol] [rasmolscript] [script source]
        - Domain d1i9ry2, region Y:112-215 [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: [1i9r_L] [1i9r_K] [1i9r_Y] [1i9r_A] [1i9r_X] [1i9r_C] [1i9r_H] [1i9r] [1i9r_B] [1i9r_M]
  • SWISS-PROT database: [P29965]
  • Domain organization of [CD40L_HUMAN] by SWISSPFAM
  • Domains found in 1I9R: [IG_like] [IGv] [TNF ] by SMART
  • Other resources with information on 1I9R
  • Community annotation for 1I9R at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science