4D07 Motor Protein date Apr 24, 2014
title Dynll2 Dynein Light Chain Binds To An Extended, Unstructured Motif Of Myosin 5a Tail
authors A.Bodor, L.Radnai, C.Hetenyi, P.Rapali, A.Lang, K.E.Kover, A.Percz W.Y.Wahlgren, G.Katona, L.Nyitray
compound source
Molecule: Dynein Light Chain 2, Cytoplasmic
Chain: A
Synonym: 8 Kda Dynein Light Chain B, Dlc8b, Dynein Light Ch Lc8-Type 2, Dynll2;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Rosetta
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet15b

Molecule: Myosin Va Variant
Chain: B
Fragment: Residues 856-878
Synonym: Myo5a

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 61 2 2
R_factor 0.19303 R_Free 0.23300
length a length b length c angle alpha angle beta angle gamma
45.160 45.160 204.010 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.85 Å
ligand CO, SO4, TRS enzyme

Primary referenceDYNLL2 dynein light chain binds to an extended linear motif of myosin 5a tail that has structural plasticity., Bodor A, Radnai L, Hetenyi C, Rapali P, Lang A, Kover KE, Perczel A, Wahlgren WY, Katona G, Nyitray L, Biochemistry. 2014 Oct 13. PMID:25312846
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (27 Kb) [Save to disk]
  • Biological Unit Coordinates (4d07.pdb1.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 4D07
  • CSU: Contacts of Structural Units for 4D07
  • Structure Factors (213 Kb)
  • Retrieve 4D07 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4D07 from S2C, [Save to disk]
  • Re-refined 4d07 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4D07 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 4D07
  • 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
  • 3D motif for 4D07, from MSDmotif at EBI
  • Fold representative 4d07 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4d07_B] [4d07_A] [4d07]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4D07: [Dynein_light ] by SMART
  • Other resources with information on 4D07
  • Community annotation for 4D07 at PDBWiki (http://pdbwiki.org)

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