4AWL Transcription Dna date Jun 04, 2012
title The Nf-Y Transcription Factor Is Structurally And Functional Sequence Specific Histone
authors M.Nardini, N.Gnesutta, G.Donati, R.Gatta, C.Forni, A.Fossati, C.Vo D.Moras, C.Romier, R.Mantovani, M.Bolognesi
compound source
Molecule: Nuclear Transcription Factor Y Subunit Alpha
Chain: A
Fragment: Residues 233-303
Synonym: Ccaat Box Dna-Binding Protein Subunit A, Caat Box Binding Protein Subunit A, Nuclear Transcription Factor Y S Nf-Ya;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Nuclear Transcription Factor Y Subunit Beta
Chain: B
Fragment: Residues 51-143
Synonym: Ccaat Box Dna-Binding Protein Subunit B, Caat Box Binding Protein Subunit B, Nuclear Transcription Factor Y S Nf-Yb;
Engineered: Yes
Other_details: Fragment Numbering 49-141 Is The Numbering D The Literature;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Nuclear Transcription Factor Y Subunit Gamma
Chain: C
Fragment: Residues 27-120
Synonym: Caat Box Dna-Binding Protein Subunit C, Caat Box D Protein Subunit C, Nuclear Transcription Factor Y Subunit C Transactivator Hsm-12;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Hsp70 Promoter Fragment
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Hsp70 Promoter Fragment
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.191 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.700 62.560 139.680 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.08 Å
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


Primary referenceSequence-Specific Transcription Factor NF-Y Displays Histone-like DNA Binding and H2B-like Ubiquitination., Nardini M, Gnesutta N, Donati G, Gatta R, Forni C, Fossati A, Vonrhein C, Moras D, Romier C, Bolognesi M, Mantovani R, Cell. 2013 Jan 17;152(1-2):132-43. doi: 10.1016/j.cell.2012.11.047. PMID:23332751
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (127 Kb) [Save to disk]
  • Biological Unit Coordinates (4awl.pdb1.gz) 120 Kb
  • CSU: Contacts of Structural Units for 4AWL
  • Structure Factors (126 Kb)
  • Retrieve 4AWL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4AWL from S2C, [Save to disk]
  • Re-refined 4awl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4AWL 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 4AWL
  • 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 4AWL, from MSDmotif at EBI
  • Fold representative 4awl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4awl] [4awl_A] [4awl_I] [4awl_B] [4awl_C] [4awl_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4AWL: [CBF ] by SMART
  • Other resources with information on 4AWL
  • Community annotation for 4AWL at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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