+Open data
-Basic information
Entry | Database: PDB / ID: 1lpv | ||||||
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Title | DROSOPHILA MELANOGASTER DOUBLESEX (DSX), NMR, 18 STRUCTURES | ||||||
Components | Doublesex protein | ||||||
Keywords | TRANSCRIPTION / DROSOPHILA MELANOGASTER / DNA BINDING / GENE REGULATION | ||||||
Function / homology | Function and homology information imaginal disc-derived male genitalia development / male analia development / female analia development / female sex differentiation / sex-specific pigmentation / female somatic sex determination / imaginal disc-derived female genitalia development / sex comb development / negative regulation of developmental pigmentation / somatic sex determination ...imaginal disc-derived male genitalia development / male analia development / female analia development / female sex differentiation / sex-specific pigmentation / female somatic sex determination / imaginal disc-derived female genitalia development / sex comb development / negative regulation of developmental pigmentation / somatic sex determination / genital disc development / male sex differentiation / courtship behavior / male courtship behavior, veined wing generated song production / sex determination / male courtship behavior / sex differentiation / axon midline choice point recognition / RNA polymerase II transcription regulatory region sequence-specific DNA binding / DNA-binding transcription repressor activity, RNA polymerase II-specific / DNA-binding transcription activator activity, RNA polymerase II-specific / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / negative regulation of DNA-templated transcription / regulation of transcription by RNA polymerase II / positive regulation of DNA-templated transcription / protein homodimerization activity / positive regulation of transcription by RNA polymerase II / zinc ion binding / nucleus Similarity search - Function | ||||||
Method | SOLUTION NMR / DISTANCE GEOMETRY, SIMULATED ANNEALING | ||||||
Authors | Zhu, L. / Wilken, J. / Phillips, N. / Narendra, U. / Chan, G. / Stratton, S. / Kent, S. / Weiss, M.A. | ||||||
Citation | Journal: Genes Dev. / Year: 2000 Title: Sexual dimorphism in diverse metazoans is regulated by a novel class of intertwined zinc fingers. Authors: Zhu, L. / Wilken, J. / Phillips, N.B. / Narendra, U. / Chan, G. / Stratton, S.M. / Kent, S.B. / Weiss, M.A. #1: Journal: Embo J. / Year: 1993 Title: The Drosophila Doublesex Proteins Share a Novel Zin Finger Related DNA-Binding Domain Authors: Erdman, S.E. / Burtis, K.C. #2: Journal: Nature / Year: 1998 Title: Evidence for Evolutionary Conservation of Sex-Determining Genes Authors: Raymond, C.S. / Shamu, C.E. / Shen, M.M. / Seifert, K.J. / Hirsch, B. / Hodgkin, J. / Zarkower, D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1lpv.cif.gz | 311.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1lpv.ent.gz | 256.4 KB | Display | PDB format |
PDBx/mmJSON format | 1lpv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1lpv_validation.pdf.gz | 344.6 KB | Display | wwPDB validaton report |
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Full document | 1lpv_full_validation.pdf.gz | 480.8 KB | Display | |
Data in XML | 1lpv_validation.xml.gz | 33.3 KB | Display | |
Data in CIF | 1lpv_validation.cif.gz | 50.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lp/1lpv ftp://data.pdbj.org/pub/pdb/validation_reports/lp/1lpv | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 6125.327 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: The sequence naturally occurs in Drosophila melanogaster (Fruit fly). References: UniProt: P23023 |
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#2: Chemical |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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NMR details | Text: NMR EXPERIMENTS WERE CONDUCTED ON VARIAN INOVA 600 MHZ SPECTROMETERS. SOFTWARE VNMR5.1 AND FELIX WERE USED TO PROCESS NMR DATA. STRUCTURE DETERMINATION WAS PERFORMED ON A SILICON GRAPHICS WORK ...Text: NMR EXPERIMENTS WERE CONDUCTED ON VARIAN INOVA 600 MHZ SPECTROMETERS. SOFTWARE VNMR5.1 AND FELIX WERE USED TO PROCESS NMR DATA. STRUCTURE DETERMINATION WAS PERFORMED ON A SILICON GRAPHICS WORK STATION. IN 50 MM DEUTERATED TRIS, 10 MM DEUTERATED DTT. |
-Sample preparation
Sample conditions | pH: 6.5 / Temperature: 298 K |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: DISTANCE GEOMETRY, SIMULATED ANNEALING / Software ordinal: 1 Details: MOLECULAR MODELS WERE OBTAINED BY DGII IMPLEMENTED IN INSIGHT II (BIOSYM INC., SAN DIEGO, CA), FOLLOWED BY REFINEMENT WITH SIMULATED ANNEALING IN X-PLOR (T.F.HAVEL, A.T.BRUNGER). RESIDUE 1 ...Details: MOLECULAR MODELS WERE OBTAINED BY DGII IMPLEMENTED IN INSIGHT II (BIOSYM INC., SAN DIEGO, CA), FOLLOWED BY REFINEMENT WITH SIMULATED ANNEALING IN X-PLOR (T.F.HAVEL, A.T.BRUNGER). RESIDUE 1 IN RESTRAINTS CORRESPONDS TO RESIDUE 35 IN DSX. TWO ZINC BINDING SITES ARE: C44,C47,H59,C63 AND H50,C68 C70, C73 EACH IN A TETRAHEDRAL PATTERN. (i.e., 10,13,25,29 and 16,34,36,39 in the coordinates). RESIDUE 35-40 AND 82-105 IN DEX ARE DISORDERED. Structures are giving for residues 35 to 86, corresponding to 1 to 52 numbered in the coordinates. NO MINOR CONFORMERS WERE DETECTED. | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 40 / Conformers submitted total number: 18 |