3P8M	Protein Binding	date	Oct 14, 2010
title	Human Dynein Light Chain (Dynll2) In Complex With An In Vitr Peptide Dimerized By Leucine Zipper
authors	P.Rapali, L.Radnai, D.Suveges, C.Hetenyi, V.Harmat, F.Tolgyesi, W.Y.Wahlgren, G.Katona, L.Nyitray, G.Pal
compound		source
Molecule: Dynein Light Chain 2 Chain: A, B Synonym: 8 Kda Dynein Light Chain B, Dlc8b, Dynein Light Ch Type 2; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Dynll2, Dlc2 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Star Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-15b
Molecule: General Control Protein Gcn4 Chain: D, C Synonym: Amino Acid Biosynthesis Regulatory Protein Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast Organism_taxid: 4932 Gene: Gcn4, Aas3, Arg9, Yel009c Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Star Expression_system_vector_type: Plasmid Expression_system_plasmid: Modified Pet
symmetry	Space Group: P 21 21 21	R_factor 0.248 R_Free 0.295
crystal cell	length a length b length c angle alpha angle beta angle gamma 53.839 68.415 101.677 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.90 Å
Gene Ontology	Chain Function Process Component A, B
Primary reference	Directed evolution reveals the binding motif preference of the LC8/DYNLL hub protein and predicts large numbers of novel binders in the human proteome., Rapali P, Radnai L, Suveges D, Harmat V, Tolgyesi F, Wahlgren WY, Katona G, Nyitray L, Pal G, PLoS One. 2011 Apr 18;6(4):e18818. PMID:21533121

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (91 Kb) [Save to disk] Biological Unit Coordinates (3p8m.pdb1.gz) 85 Kb CSU: Contacts of Structural Units for 3P8M Structure Factors (129 Kb) Retrieve 3P8M in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3P8M from S2C, [Save to disk] Re-refined 3p8m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3P8M 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 3P8M

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 3D motif for 3P8M, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3p8m_D] [3p8m] [3p8m_C] [3p8m_B] [3p8m_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3P8M: [Dynein_light ] by SMART

Other resources with information on 3P8M

Community annotation for 3P8M at PDBWiki (http://pdbwiki.org)

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