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- PDB-1tmz: TMZIP: A CHIMERIC PEPTIDE MODEL OF THE N-TERMINUS OF ALPHA TROPOM... -

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ID or keywords:

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Basic information

Entry
Database: PDB / ID: 1tmz
TitleTMZIP: A CHIMERIC PEPTIDE MODEL OF THE N-TERMINUS OF ALPHA TROPOMYOSIN, NMR, 15 STRUCTURES
ComponentsTMZIP
KeywordsTROPOMYOSIN / ACTIN-BINDING / THIN-FILAMENT-REGULATION / MUSCLE / ALPHA-HELIX COILED-COIL DIMER / GCN4 / CHIMERIC-PEPTIDE-MODEL / DIMERIC TW0-CHAINED COILED-COIL
Function / homology
Function and homology information


protein localization to nuclear periphery / Activation of the AP-1 family of transcription factors / response to amino acid starvation / mediator complex binding / negative regulation of ribosomal protein gene transcription by RNA polymerase II / positive regulation of cellular response to amino acid starvation / nitrogen catabolite activation of transcription from RNA polymerase II promoter / TFIID-class transcription factor complex binding / amino acid biosynthetic process / positive regulation of transcription initiation by RNA polymerase II ...protein localization to nuclear periphery / Activation of the AP-1 family of transcription factors / response to amino acid starvation / mediator complex binding / negative regulation of ribosomal protein gene transcription by RNA polymerase II / positive regulation of cellular response to amino acid starvation / nitrogen catabolite activation of transcription from RNA polymerase II promoter / TFIID-class transcription factor complex binding / amino acid biosynthetic process / positive regulation of transcription initiation by RNA polymerase II / positive regulation of RNA polymerase II transcription preinitiation complex assembly / cellular response to amino acid starvation / RNA polymerase II transcription regulator complex / : / DNA-binding transcription activator activity, RNA polymerase II-specific / transcription regulator complex / RNA polymerase II-specific DNA-binding transcription factor binding / sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / intracellular signal transduction / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / chromatin binding / negative regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / identical protein binding / nucleus
Similarity search - Function
Basic region leucine zipper / Basic-leucine zipper (bZIP) domain signature. / Basic-leucine zipper (bZIP) domain profile. / basic region leucin zipper / Basic-leucine zipper domain superfamily / Basic-leucine zipper domain
Similarity search - Domain/homology
General control transcription factor GCN4
Similarity search - Component
Biological speciesRattus rattus (black rat)
Saccharomyces cerevisiae (brewer's yeast)
MethodSOLUTION NMR / CONSTRAINED MINIMIZATION
AuthorsGreenfield, N.J. / Montelione, G.T. / Hitchcock-Degregori, S.E. / Farid, R.S.
CitationJournal: Biochemistry / Year: 1998
Title: The structure of the N-terminus of striated muscle alpha-tropomyosin in a chimeric peptide: nuclear magnetic resonance structure and circular dichroism studies.
Authors: Greenfield, N.J. / Montelione, G.T. / Farid, R.S. / Hitchcock-DeGregori, S.E.
History
DepositionApr 20, 1998Processing site: BNL
Revision 1.0Jun 17, 1998Provider: repository / Type: Initial release
Revision 1.1Mar 24, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Mar 2, 2022Group: Database references / Derived calculations / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_struct_assembly / pdbx_struct_oper_list / struct_ref_seq_dif
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.process_site / _struct_ref_seq_dif.details

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: TMZIP
B: TMZIP


Theoretical massNumber of molelcules
Total (without water)7,7052
Polymers7,7052
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)15 / 200LOWEST VALUE OF TARGET FUNCTION
Representative

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Components

#1: Protein/peptide TMZIP


Mass: 3852.657 Da / Num. of mol.: 2
Source method: isolated from a genetically manipulated source
Details: SYNTHETIC CHIMERIC PEPTIDE OF THE N-TERMINUS OF RAT ALPHA-TROPOMYOSIN AND THE C-TERMINUS OF THE YEAST TRANSCRIPTION FACTOR GCN4
Source: (gene. exp.) Rattus rattus, Saccharomyces cerevisiae
Genus: Rattus, Saccharomyces / Species: , / Strain: , / References: UniProt: P03069

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
111NOESY
1212QF-COSY
131TOCSY

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Sample preparation

Sample conditionspH: 6.4 / Temperature: 288 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

NMR spectrometerType: Varian UNITY 500 / Manufacturer: Varian / Model: UNITY 500 / Field strength: 500 MHz

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Processing

Software
NameClassification
VNMRmodel building
VNMRphasing
NMR software
NameVersionDeveloperClassification
DIANAGUNTERT,WUTHRICHrefinement
VARIAN VNMRVNMRstructure solution
DIANAstructure solution
RefinementMethod: CONSTRAINED MINIMIZATION / Software ordinal: 1
Details: REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE.
NMR ensembleConformer selection criteria: LOWEST VALUE OF TARGET FUNCTION
Conformers calculated total number: 200 / Conformers submitted total number: 15

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