5C13 Hydrolase date Jun 12, 2015
title Crystal Structure Of Taf3 Phd Finger Bound To Histone H3c4me
authors H.Li, J.Huang
compound source
Molecule: Transcription Initiation Factor Tfiid Subunit 3
Chain: A, C, E, G
Fragment: Phd Finger Domain, Unp Residues 853-915
Synonym: 140 Kda Tata Box-Binding Protein-Associated Factor Associated Factor 3,Transcription Initiation Factor Tfiid 1 Subunit,Tafii140;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Taf3
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28b

Molecule: H3 Peptide
Chain: P, D, F, H
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: Chemically Synthesized H3 Peptide 1-10 With Modification
symmetry Space Group: P 1 21 1
R_factor 0.222 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
30.212 50.105 85.949 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand 4WQ, ZN enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (88 Kb) [Save to disk]
  • Biological Unit Coordinates (5c13.pdb1.gz) 42 Kb
  • Biological Unit Coordinates (5c13.pdb2.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 5C13
  • CSU: Contacts of Structural Units for 5C13
  • Structure Factors (222 Kb)
  • Retrieve 5C13 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5C13 from S2C, [Save to disk]
  • Re-refined 5c13 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5C13 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 5C13
  • 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 5c13 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5c13_D] [5c13_C] [5c13_H] [5c13_A] [5c13_G] [5c13] [5c13_P] [5c13_F] [5c13_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5C13: [PHD ] by SMART
  • Other resources with information on 5C13
  • Community annotation for 5C13 at PDBWiki (http://pdbwiki.org)

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