5SZJ Endocytosis date Aug 14, 2016
title Structure Of Human Rab10 In Complex With The Bmerb Domain Of
authors A.Rai, A.Oprisko, J.Campos, Y.Fu, T.Friese, A.Itzen, R.S.Goody, M.P E.M.Gazdag
compound source
Molecule: Ras-Related Protein Rab-10
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rab10
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Mical C-Terminal-Like Protein
Chain: B
Synonym: Erk2-Binding Testicular Protein 1,Ebitein-1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Micalcl
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 2
R_factor 0.224 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
153.680 61.870 55.570 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.66 Å
ligand GNP, MG, PEG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • cadherin binding involved in...


  • B


    Primary referencebMERB domains are bivalent Rab8 family effectors evolved by gene duplication., Rai A, Oprisko A, Campos J, Fu Y, Friese T, Itzen A, Goody RS, Gazdag EM, Muller MP, Elife. 2016 Aug 23;5. pii: e18675. doi: 10.7554/eLife.18675. PMID:27552051
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (118 Kb) [Save to disk]
  • Biological Unit Coordinates (5szj.pdb1.gz) 113 Kb
  • LPC: Ligand-Protein Contacts for 5SZJ
  • CSU: Contacts of Structural Units for 5SZJ
  • Structure Factors (134 Kb)
  • Retrieve 5SZJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5SZJ from S2C, [Save to disk]
  • Re-refined 5szj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5SZJ 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 5SZJ
  • 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 5szj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5szj_A] [5szj] [5szj_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5SZJ: [DUF3585] [RAB ] by SMART
  • Other resources with information on 5SZJ
  • Community annotation for 5SZJ at PDBWiki (http://pdbwiki.org)

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