4S0H Transcription Dna date Dec 31, 2014
title Tbx5 Db, Nkx2.5 Hd, Anf Dna Complex
authors L.Pradhan
compound source
Molecule: T-Box Transcription Factor Tbx5
Chain: A, E
Fragment: Db (Unp Residues 53-238)
Synonym: T-Box Protein 5
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tbx5
Expression_system: Unidentified
Expression_system_taxid: 32644

Molecule: Homeobox Protein Nkx-2.5
Chain: B, F
Fragment: Hd (Unp Residues 142-194)
Synonym: Cardiac-Specific Homeobox, Homeobox Protein Csx, H Protein Nk-2 Homolog E;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nkx2-5, Csx, Nkx2.5, Nkx2e
Expression_system: Unidentified
Expression_system_taxid: 32644

Molecule: 5'-D(Tpcptpcpapcpapcpcptptptpgpapa G)-3';
Chain: C, G
Engineered: Yes
Other_details: Anf Dna Strand 1

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: 5'-D(Cpcpapcptptpcpapapapgpgptpgpt A)-3';
Chain: D, H
Engineered: Yes
Other_details: Anf Dna Strand 2

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 1 21 1
R_factor 0.189 R_Free 0.247
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.217 78.459 78.695 90.00 108.83 90.00
method X-Ray Diffractionresolution 2.82 Å
Gene
Ontology
ChainFunctionProcessComponent
A, E


F, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (4s0h.pdb1.gz) 55 Kb
  • Biological Unit Coordinates (4s0h.pdb2.gz) 56 Kb
  • CSU: Contacts of Structural Units for 4S0H
  • Structure Factors (417 Kb)
  • Retrieve 4S0H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4S0H from S2C, [Save to disk]
  • Re-refined 4s0h structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4S0H 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 4S0H
  • 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 4s0h from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4s0h_A] [4s0h_E] [4s0h_C] [4s0h_F] [4s0h_B] [4s0h] [4s0h_D] [4s0h_G] [4s0h_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4S0H: [HOX] [TBOX ] by SMART
  • Other resources with information on 4S0H
  • Community annotation for 4S0H at PDBWiki (http://pdbwiki.org)

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