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Open data
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Basic information
Entry | Database: PDB / ID: 2gyp | ||||||
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Title | Diabetes mellitus due to a frustrated Schellman motif in HNF-1a | ||||||
![]() | Hepatocyte nuclear factor 1-alpha | ||||||
![]() | TRANSCRIPTION REGULATOR / energy landscape / gene regulation / protein engineering / protein stability / protein structure | ||||||
Function / homology | ![]() renal glucose absorption / pancreas development / insulin secretion / glucose import / Regulation of gene expression in beta cells / positive regulation of transcription initiation by RNA polymerase II / liver development / glucose homeostasis / DNA-binding transcription activator activity, RNA polymerase II-specific / protein dimerization activity ...renal glucose absorption / pancreas development / insulin secretion / glucose import / Regulation of gene expression in beta cells / positive regulation of transcription initiation by RNA polymerase II / liver development / glucose homeostasis / DNA-binding transcription activator activity, RNA polymerase II-specific / protein dimerization activity / transcription cis-regulatory region binding / DNA-binding transcription factor activity, RNA polymerase II-specific / protein heterodimerization activity / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / chromatin / regulation of transcription by RNA polymerase II / positive regulation of DNA-templated transcription / protein homodimerization activity / positive regulation of transcription by RNA polymerase II / protein-containing complex / DNA binding / nucleus / cytoplasm Similarity search - Function | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Narayana, N. / Phillips, N.B. / Hua, Q.X. / Jia, W. / Weiss, M.A. | ||||||
![]() | ![]() Title: Diabetes mellitus due to misfolding of a beta-cell transcription factor: stereospecific frustration of a Schellman motif in HNF-1alpha. Authors: Narayana, N. / Phillips, N.B. / Hua, Q.X. / Jia, W. / Weiss, M.A. #1: ![]() Title: The dimerization domain of HNF-1a: structure and plasticity of an intertwined four-helix bundle with application to diabetes mellitus #2: ![]() Title: High-resolution structure of the HNF-1a dimerization domain #3: ![]() Title: Diabetes-associated mutations in a b-cell transcription factor destabilize an anti-parallel "mini-zipper" in a dimerization interface | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 25.2 KB | Display | ![]() |
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PDB format | ![]() | 16.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 425.3 KB | Display | ![]() |
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Full document | ![]() | 428.4 KB | Display | |
Data in XML | ![]() | 6.3 KB | Display | |
Data in CIF | ![]() | 7.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1jb6S S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Components
#1: Protein/peptide | Mass: 3569.149 Da / Num. of mol.: 2 / Fragment: Dimerization domain / Mutation: G20(DAL) / Source method: obtained synthetically Details: The sequence was chemcially synthesized. The source is naturally found in Homo sapiens (human). References: UniProt: P20823 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.86 Å3/Da / Density % sol: 33.86 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 2 mM peptide in 100 mM Bicine buffer. Reservoir solution contained 5 mM Magnesium Formate and 30% PEG400, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Aug 15, 2000 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.948 Å / Relative weight: 1 |
Reflection | Resolution: 1.4→20 Å / Num. all: 10642 / Num. obs: 10079 / % possible obs: 92 % / Observed criterion σ(F): 3 / Observed criterion σ(I): 6 / Redundancy: 10 % / Rsym value: 0.067 / Net I/σ(I): 6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: coordinates from 1JB6 Resolution: 1.4→20 Å / Isotropic thermal model: isotropic / Cross valid method: THROUGHOUT / σ(F): 3 / σ(I): 6 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.4→20 Å
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Refine LS restraints |
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