4M8B Transcription Dna date Aug 13, 2013
title Fungal Protein
authors O.S.Rosenberg, M.L.Lohse, R.M.Stroud, A.D.Johnson
compound source
Molecule: Chain A Of Dsdna Containing The Cis-Regulatory El
Chain: A
Fragment: Unp Residues 6-201
Engineered: Yes
Synthetic: Yes
Other_details: Dna Synthesis Through Standard Methods And A Of Double Stranded Dna.;

Molecule: Chain B Of Dsdna Containing The Cis-Regulatory El
Chain: B
Engineered: Yes

Synthetic: Yes
Other_details: Dna Synthesis Through Standard Methods And A Of Double Stranded Dna.;

Molecule: Yhr177w
Chain: R
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: S288c
Gene: Yhr177w, Yhr177wp
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Pet
Expression_system_plasmid: H3c
symmetry Space Group: P 21 21 21
R_factor 0.198 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
90.293 103.401 73.178 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.61 Å
ligand EDO enzyme
Primary referenceStructure of a new DNA-binding domain which regulates pathogenesis in a wide variety of fungi., Lohse MB, Rosenberg OS, Cox JS, Stroud RM, Finer-Moore JS, Johnson AD, Proc Natl Acad Sci U S A. 2014 Jul 3. pii: 201410110. PMID:24994900
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (4m8b.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 4M8B
  • CSU: Contacts of Structural Units for 4M8B
  • Structure Factors (215 Kb)
  • Retrieve 4M8B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4M8B from S2C, [Save to disk]
  • Re-refined 4m8b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4M8B 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 4M8B
  • 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 4M8B, from MSDmotif at EBI
  • Fold representative 4m8b from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4m8b] [4m8b_R] [4m8b_A] [4m8b_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4M8B
  • Community annotation for 4M8B at PDBWiki (http://pdbwiki.org)

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