5MU8 Cytokine date Jan 12, 2017
title Human Tnf-Alpha In Complex With Jnj525
authors J.M.Blevitt, M.D.Hack, K.L.Herman, P.F.Jackson, P.J.Krawczuk, A.D A.X.Liu, T.Mirzadegan, M.I.Nelen, A.P.Patrick, S.Steinbacher, M. K.J.Lumb
compound source
Molecule: Tumor Necrosis Factor
Chain: A, B, C, D, F, G, H, I, J, K, L, M, N, O, P, Q, R, S W, X, Y, Z, A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, T, U, V, W;
Fragment: Unp Residues 77-233
Synonym: Cachectin,Tnf-Alpha,Tumor Necrosis Factor Ligand S Member 2,Tnf-A;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tnf, Tnfa, Tnfsf2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.211 R_Free 0.300
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.888 118.348 186.747 97.57 94.31 98.75
method X-Ray Diffractionresolution 3.00 Å
ligand JNI enzyme
Gene
Ontology
ChainFunctionProcessComponent
S, F, T, N, K, Y, V, Z, Q, M, C, L, A, J, O, W, X, P, B, H, D, I, R, G, U


Primary referenceStructural Basis of Small-Molecule Aggregate Induced Inhibition of a Protein-Protein Interaction., Blevitt JM, Hack MD, Herman KL, Jackson PF, Krawczuk PJ, Lebsack AD, Liu AX, Mirzadegan T, Nelen MI, Patrick AN, Steinbacher S, Milla ME, Lumb KJ, J Med Chem. 2017 Mar 16. PMID:28300404
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2442 Kb) [Save to disk]
  • Biological Unit Coordinates (5mu8.pdb1.gz) 113 Kb
  • Biological Unit Coordinates (5mu8.pdb2.gz) 117 Kb
  • Biological Unit Coordinates (5mu8.pdb3.gz) 114 Kb
  • Biological Unit Coordinates (5mu8.pdb4.gz) 115 Kb
  • Biological Unit Coordinates (5mu8.pdb5.gz) 114 Kb
  • Biological Unit Coordinates (5mu8.pdb6.gz) 115 Kb
  • Biological Unit Coordinates (5mu8.pdb7.gz) 113 Kb
  • Biological Unit Coordinates (5mu8.pdb8.gz) 117 Kb
  • Biological Unit Coordinates (5mu8.pdb9.gz) 113 Kb
  • LPC: Ligand-Protein Contacts for 5MU8
  • CSU: Contacts of Structural Units for 5MU8
  • Structure Factors (3852 Kb)
  • Retrieve 5MU8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MU8 from S2C, [Save to disk]
  • Re-refined 5mu8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5MU8 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 5MU8
  • 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
  • Fold representative 5mu8 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5mu8_b] [5mu8_Z] [5mu8_D] [5mu8_r] [5mu8_X] [5mu8_S] [5mu8_w] [5mu8_T] [5mu8_F] [5mu8_I] [5mu8_U] [5mu8_N] [5mu8_Y] [5mu8_o] [5mu8_c] [5mu8_p] [5mu8_A] [5mu8_W] [5mu8_Q] [5mu8_d] [5mu8_l] [5mu8_s] [5mu8_G] [5mu8_q] [5mu8_e] [5mu8_B] [5mu8_i] [5mu8_H] [5mu8_h] [5mu8_t] [5mu8_a] [5mu8_V] [5mu8_L] [5mu8_J] [5mu8_C] [5mu8_K] [5mu8_P] [5mu8] [5mu8_k] [5mu8_M] [5mu8_n] [5mu8_u] [5mu8_m] [5mu8_f] [5mu8_R] [5mu8_O] [5mu8_g] [5mu8_v] [5mu8_j]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5MU8
  • Community annotation for 5MU8 at PDBWiki (http://pdbwiki.org)

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