5X3M Protein Binding date Feb 06, 2017
title Crystal Structure Of P-Ub-S65-Nh2
authors P.Man, G.Shuai, Q.Qian, L.Lei
compound source
Molecule: Polyubiquitin-B
Chain: A
Engineered: Yes
 Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: D-Ubiquitin
Chain: D
Engineered: Yes
Other_details: D-Ub-S65e-Nh2
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1
R_factor 0.206 R_Free 0.271
crystal
cell
length a length b length c angle alpha angle beta angle gamma
28.914 29.969 39.726 81.91 72.38 62.43
method X-Ray Diffractionresolution 1.82 Å
ligand DAL, DAR, DAS, DGL, DGN, DHI, DIL, DLE, DLY, DNE, DPN, DPR, DSG, DSN, DTH, DTY, DVA, SEP enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (5x3m.pdb1.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 5X3M
  • CSU: Contacts of Structural Units for 5X3M
  • Structure Factors (222 Kb)
  • Retrieve 5X3M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5X3M from S2C, [Save to disk]
  • Re-refined 5x3m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5X3M 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 5X3M
  • 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: [5x3m_D] [5x3m] [5x3m_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5X3M
  • Community annotation for 5X3M at PDBWiki (http://pdbwiki.org)

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