1TNF Lymphokine date Aug 25, 1989
title The Structure Of Tumor Necrosis Factor-Alpha At 2.6 Angstroms Resolution. Implications For Receptor Binding
authors M.J.Eck, S.R.Sprang
compound source
Molecule: Tumor Necrosis Factor-Alpha
Chain: A, B, C
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 41 21 2
R_factor 0.230 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
95.000 95.000 117.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
related structures by homologous chain: 5TSW
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceThe structure of tumor necrosis factor-alpha at 2.6 A resolution. Implications for receptor binding., Eck MJ, Sprang SR, J Biol Chem 1989 Oct 15;264(29):17595-605. PMID:2551905
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (1tnf.pdb1.gz) 72 Kb
  • CSU: Contacts of Structural Units for 1TNF
  • Likely Quarternary Molecular Structure file(s) for 1TNF
  • Retrieve 1TNF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1TNF from S2C, [Save to disk]
  • View 1TNF 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 1TNF
  • 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 1TNF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1tnfa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1tnfb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1tnfc_, region C [Jmol] [rasmolscript] [script source]
  • Fold representative 1tnf 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: [1tnf_C] [1tnf_A] [1tnf] [1tnf_B]
  • SWISS-PROT database: [P01375]
  • Domain organization of [TNFA_HUMAN] by SWISSPFAM
  • Domain found in 1TNF: [TNF ] by SMART
  • Alignments of the sequence of 1TNF with the sequences similar proteins can be viewed for 1TNF's classification [TNFA_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [TNFA_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1TNF
  • Community annotation for 1TNF 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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