4BPD	Transferase	date	May 24, 2013
title	Structure Determination Of An Integral Membrane Kinase
authors	D.Li, C.Boland, M.Caffrey
compound		source
Molecule: Diacylglycerol Kinase Chain: A, B, C, D, E, F Synonym: Diacylglycerol Kinase - Delta 7, Dagk, Diglyceride Dgk; Ec: 2.7.1.107 Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 83333 Strain: K-12 Atcc: 29425 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: A19 Expression_system_vector_type: Plasmid Expression_system_vector: Pet22b Expression_system_plasmid: Pet22b-Dgka-Delta7 Other_details: Escherichia Coli A19
symmetry	Space Group: P 21 21 21	R_factor 0.241 R_Free 0.282
crystal cell	length a length b length c angle alpha angle beta angle gamma 74.870 93.430 144.020 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.30 Å
ligand	78M, ZN	enzyme	Transferase E.C.2.7.1.107 BRENDA
Gene Ontology	Chain Function Process Component F, A, D, C, E, B
Primary reference	Cell-free expression and in meso crystallisation of an integral membrane kinase for structure determination., Boland C, Li D, Shah ST, Haberstock S, Dotsch V, Bernhard F, Caffrey M, Cell Mol Life Sci. 2014 Jul 11. PMID:25012698

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (99 Kb) [Save to disk] Biological Unit Coordinates (4bpd.pdb1.gz) 49 Kb Biological Unit Coordinates (4bpd.pdb2.gz) 45 Kb LPC: Ligand-Protein Contacts for 4BPD CSU: Contacts of Structural Units for 4BPD Structure Factors (198 Kb) Retrieve 4BPD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4BPD from S2C, [Save to disk] Re-refined 4bpd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4BPD 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 4BPD

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 4BPD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4bpd_C] [4bpd_B] [4bpd_F] [4bpd] [4bpd_D] [4bpd_A] [4bpd_E] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 4BPD

Community annotation for 4BPD at PDBWiki (http://pdbwiki.org)

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