5GO8 Protein Binding date Jul 26, 2016
title Linear Tetra-Ubiquitin
authors S.Gao, M.Pan, Y.Zheng
compound source
Molecule: Ubiquitin
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli K-12
Expression_system_taxid: 83333
Expression_system_strain: K-12
Expression_system_vector_type: Plasmid

Molecule: D-Ubiquitin
Chain: B
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.222 R_Free 0.322
crystal
cell
length a length b length c angle alpha angle beta angle gamma
29.395 56.178 38.721 90.00 91.44 90.00
method X-Ray Diffractionresolution 2.21 Å
ligand DAL, DAR, DAS, DGL, DGN, DHI, DIL, DLE, DLY, DNE, DPN, DPR, DSG, DSN, DTH, DTY, DVA enzyme
Primary referenceMonomer/Oligomer Quasi-Racemic Protein Crystallography., Gao S, Pan M, Zheng Y, Huang Y, Zheng Q, Sun D, Lu L, Tan X, Tan X, Lan H, Wang J, Wang T, Wang J, Liu L, J Am Chem Soc. 2016 Oct 21. PMID:27768314
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (5go8.pdb1.gz) 48 Kb
  • Biological Unit Coordinates (5go8.pdb2.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 5GO8
  • CSU: Contacts of Structural Units for 5GO8
  • Structure Factors (91 Kb)
  • Retrieve 5GO8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5GO8 from S2C, [Save to disk]
  • Re-refined 5go8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5GO8 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 5GO8
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5go8_B] [5go8_A] [5go8]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5GO8: [UBQ ] by SMART
  • Other resources with information on 5GO8
  • Community annotation for 5GO8 at PDBWiki (http://pdbwiki.org)

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