1OQE Immune System date Mar 07, 2003
title Crystal Structure Of Stall-1 With Baff-R
authors G.Zhang
compound source
Molecule: Tumor Necrosis Factor Ligand Superfamily Member 1 Soluble Form;
Chain: A, B, C, D, E, F, G, H, I, J
Fragment: Extracellular Domain
Synonym: Tnf-And Apol- Related Leukocyte Expressed Ligand 1 B Lymphocyte Stimulator, Blys, B Cell-Activating Factor, Ba Dendritic Cell- Derived Tnf-Like Molecule;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Tumor Necrosis Factor Receptor Superfamily Member
Chain: K, L, M, N, O, P, Q, R
Fragment: Extracellular Domain
Synonym: B Cell-Activating Factor Receptor, Baff Receptor, Blys Receptor;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 63 2 2
R_factor 0.244 R_Free 0.259
crystal
cell
length a length b length c angle alpha angle beta angle gamma
233.261 233.261 211.286 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
related structures by homologous chain: 1KXG, 1OQD
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, E, B, H, C, D, I, G


Primary referenceLigand-receptor binding revealed by the TNF family member TALL-1., Liu Y, Hong X, Kappler J, Jiang L, Zhang R, Xu L, Pan CH, Martin WE, Murphy RC, Shu HB, Dai S, Zhang G, Nature 2003 May 1;423(6935):49-56. PMID:12721620
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (273 Kb) [Save to disk]
  • Biological Unit Coordinates (1oqe.pdb1.gz) 1584 Kb
  • CSU: Contacts of Structural Units for 1OQE
  • Likely Quarternary Molecular Structure file(s) for 1OQE
  • Structure Factors (818 Kb)
  • Retrieve 1OQE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OQE from S2C, [Save to disk]
  • Re-refined 1oqe structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1OQE 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 1OQE
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1OQE, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1oqea_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1oqeb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1oqec_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1oqed_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1oqee_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1oqef_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1oqeg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1oqeh_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1oqei_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1oqej_, region J [Jmol] [rasmolscript] [script source]
        - Domain d1oqek_, region K [Jmol] [rasmolscript] [script source]
        - Domain d1oqel_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1oqem_, region M [Jmol] [rasmolscript] [script source]
        - Domain d1oqen_, region N [Jmol] [rasmolscript] [script source]
        - Domain d1oqeo_, region O [Jmol] [rasmolscript] [script source]
        - Domain d1oqep_, region P [Jmol] [rasmolscript] [script source]
        - Domain d1oqeq_, region Q [Jmol] [rasmolscript] [script source]
        - Domain d1oqer_, region R [Jmol] [rasmolscript] [script source]
  • Fold representative 1oqe from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1oqe_B] [1oqe_Q] [1oqe_I] [1oqe_O] [1oqe_H] [1oqe_N] [1oqe_C] [1oqe_A] [1oqe_M] [1oqe] [1oqe_K] [1oqe_R] [1oqe_G] [1oqe_E] [1oqe_F] [1oqe_J] [1oqe_P] [1oqe_D] [1oqe_L]
  • SWISS-PROT database: [Q9Y275] [Q96RJ3]
  • Domain organization of [TN13B_HUMAN] [TR13C_HUMAN] by SWISSPFAM
  • Domain found in 1OQE: [TNF ] by SMART
  • Other resources with information on 1OQE
  • Community annotation for 1OQE 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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