1JH5 Immune System, Antitumor Protein date Jun 27, 2001
title Crystal Structure Of Stall-1 Of Tnf Family Ligand
authors Y.Liu, L.Xu, N.Opalka, H.B.Shu, G.Zhang
compound source
Molecule: Tumor Necrosis Factor Ligand Superfamily Member 1
Chain: A, B, C, D, E, F, G, H, I, J
Fragment: Stall-1, Soluble Part Of Tall-1
Synonym: Tnf Family Ligand; Tnf-And Apol-Related Leukocyte Ligand 1; Tall-1; B Lymphocyte Stimulator; Blys; B Cell-Act Factor; Tumor Necrosis Factor (Ligand) Superfamily, Member
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 0.236 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
234.242 234.242 212.550 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.00 Å
related structures by homologous chain: 1OSG
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, E, B, H, C, D, I, G


Primary referenceCrystal structure of sTALL-1 reveals a virus-like assembly of TNF family ligands., Liu Y, Xu L, Opalka N, Kappler J, Shu HB, Zhang G, Cell 2002 Feb 8;108(3):383-94. PMID:11853672
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (233 Kb) [Save to disk]
  • Biological Unit Coordinates (1jh5.pdb1.gz) 1347 Kb
  • CSU: Contacts of Structural Units for 1JH5
  • Likely Quarternary Molecular Structure file(s) for 1JH5
  • Structure Factors (474 Kb)
  • Retrieve 1JH5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1JH5 from S2C, [Save to disk]
  • Re-refined 1jh5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1JH5 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 1JH5
  • 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 1JH5, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1jh5a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1jh5b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1jh5c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1jh5d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1jh5e_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1jh5f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1jh5g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1jh5h_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1jh5i_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1jh5j_, region J [Jmol] [rasmolscript] [script source]
  • Fold representative 1jh5 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: [1jh5_I] [1jh5_G] [1jh5_J] [1jh5_B] [1jh5_A] [1jh5_H] [1jh5_C] [1jh5_E] [1jh5] [1jh5_D] [1jh5_F]
  • SWISS-PROT database: [Q9Y275]
  • Domain organization of [TN13B_HUMAN] by SWISSPFAM
  • Domain found in 1JH5: [TNF ] by SMART
  • Other resources with information on 1JH5
  • Community annotation for 1JH5 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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