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- PDB-1ftt: THYROID TRANSCRIPTION FACTOR 1 HOMEODOMAIN (RATTUS NORVEGICUS) -

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Entry
Database: PDB / ID: 1ftt
TitleTHYROID TRANSCRIPTION FACTOR 1 HOMEODOMAIN (RATTUS NORVEGICUS)
ComponentsTHYROID TRANSCRIPTION FACTOR 1 HOMEODOMAIN
KeywordsDNA BINDING PROTEIN / HOMEODOMAIN / TRANSCRIPTION FACTOR
Function / homology
Function and homology information


forebrain neuron fate commitment / cerebral cortex GABAergic interneuron differentiation / developmental induction / embryonic lung development / club cell differentiation / forebrain dorsal/ventral pattern formation / development of primary female sexual characteristics / type II pneumocyte differentiation / globus pallidus development / regulation of blood volume by renin-angiotensin ...forebrain neuron fate commitment / cerebral cortex GABAergic interneuron differentiation / developmental induction / embryonic lung development / club cell differentiation / forebrain dorsal/ventral pattern formation / development of primary female sexual characteristics / type II pneumocyte differentiation / globus pallidus development / regulation of blood volume by renin-angiotensin / lung saccule development / forebrain neuron differentiation / anatomical structure formation involved in morphogenesis / telencephalon cell migration / cerebral cortex neuron differentiation / hyperosmotic salinity response / pituitary gland development / intronic transcription regulatory region sequence-specific DNA binding / telencephalon development / neuron fate commitment / Leydig cell differentiation / pattern specification process / endoderm development / negative regulation of epithelial to mesenchymal transition / positive regulation of circadian rhythm / cellular response to leptin stimulus / feeding behavior / epithelial tube branching involved in lung morphogenesis / oligodendrocyte differentiation / cerebral cortex cell migration / thyroid gland development / phospholipid metabolic process / core promoter sequence-specific DNA binding / forebrain development / TBP-class protein binding / response to hormone / negative regulation of cell migration / locomotory behavior / axon guidance / hippocampus development / RNA polymerase II transcription regulatory region sequence-specific DNA binding / animal organ morphogenesis / lung development / negative regulation of transforming growth factor beta receptor signaling pathway / brain development / neuron migration / circadian rhythm / DNA-binding transcription activator activity, RNA polymerase II-specific / response to ethanol / transcription regulator complex / sequence-specific DNA binding / response to lipopolysaccharide / cell differentiation / transcription cis-regulatory region binding / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / negative regulation of DNA-templated transcription / positive regulation of gene expression / regulation of DNA-templated transcription / regulation of transcription by RNA polymerase II / positive regulation of DNA-templated transcription / negative regulation of transcription by RNA polymerase II / enzyme binding / positive regulation of transcription by RNA polymerase II / DNA binding / nucleoplasm / identical protein binding / nucleus
Similarity search - Function
Homeobox domain, metazoa / Homeobox, conserved site / 'Homeobox' domain signature. / Homeodomain / 'Homeobox' domain profile. / Homeodomain / Homeobox domain / Homeodomain-like / Homeobox-like domain superfamily / Arc Repressor Mutant, subunit A ...Homeobox domain, metazoa / Homeobox, conserved site / 'Homeobox' domain signature. / Homeodomain / 'Homeobox' domain profile. / Homeodomain / Homeobox domain / Homeodomain-like / Homeobox-like domain superfamily / Arc Repressor Mutant, subunit A / Orthogonal Bundle / Mainly Alpha
Similarity search - Domain/homology
Homeobox protein Nkx-2.1
Similarity search - Component
Biological speciesRattus norvegicus (Norway rat)
MethodSOLUTION NMR
AuthorsFogolari, F. / Esposito, G. / Damante, G. / Formisano, S. / Di Lauro, R. / Viglino, P.
Citation
Journal: Eur.J.Biochem. / Year: 1996
Title: Analysis of the solution structure of the homeodomain of rat thyroid transcription factor 1 by 1H-NMR spectroscopy and restrained molecular mechanics.
Authors: Esposito, G. / Fogolari, F. / Damante, G. / Formisano, S. / Tell, G. / Leonardi, A. / Di Lauro, R. / Viglino, P.
#1: Journal: FEBS Lett. / Year: 1993
Title: Structural Study of Rat Thyroid Transcription Factor 1 Homeodomain (Ttf-1 Hd) by Nuclear Magnetic Resonance
Authors: Viglino, P. / Fogolari, F. / Formisano, S. / Bortolotti, N. / Damante, G. / Di Lauro, R. / Esposito, G.
History
DepositionOct 3, 1995Processing site: BNL
Revision 1.0Jan 29, 1996Provider: repository / Type: Initial release
Revision 1.1Mar 24, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 23, 2022Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_nmr_software / pdbx_struct_assembly / pdbx_struct_oper_list
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.process_site / _pdbx_nmr_software.name

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Structure viewerMolecule:
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Assembly

Deposited unit
A: THYROID TRANSCRIPTION FACTOR 1 HOMEODOMAIN


Theoretical massNumber of molelcules
Total (without water)8,4641
Polymers8,4641
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
Atom site foot note1: LYS 61 - ASP 62 MODEL 5 OMEGA = 211.85 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)20 / -
Representative

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Components

#1: Protein THYROID TRANSCRIPTION FACTOR 1 HOMEODOMAIN / TTF-1 HD


Mass: 8463.915 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Details: PH = 4.0 - 4.1, T = 287 - 289 K, NAN3 (W/V) = 0.2 - 0.5%
Source: (gene. exp.) Rattus norvegicus (Norway rat) / Gene: RAT TTF-1 / Plasmid: PT7.7 / Species (production host): Escherichia coli / Gene (production host): RAT TTF-1 / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P23441

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR

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Sample preparation

Crystal grow
*PLUS
Method: other

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Processing

SoftwareName: AMBER / Classification: refinement
NMR softwareName: Discover / Developer: BIOSYM TECHNOLOGIES / Classification: refinement
NMR ensembleConformers submitted total number: 20

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