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Yorodumi- PDB-2n8g: NMR Structure of the homeodomain transcription factor Gbx1[E23R,R... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2n8g | ||||||
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Title | NMR Structure of the homeodomain transcription factor Gbx1[E23R,R58E] from Homo sapiens | ||||||
Components | Homeobox protein GBX-1 | ||||||
Keywords | DNA BINDING PROTEIN / Homeodomain / Mutant / PSI-Biology / Structural Genomics / Joint Center for Structural Genomics / JCSG / Partnership for Stem Cell Biology / STEMCELL | ||||||
Function / homology | Function and homology information regulation of nervous system development / proprioception / sensory neuron axon guidance / spinal cord motor neuron differentiation / neuron fate commitment / adult walking behavior / RNA polymerase II transcription regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / chromatin / regulation of transcription by RNA polymerase II / nucleus Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / molecular dynamics | ||||||
Authors | Proudfoot, A.K. / Serrano, P. / Geralt, M. / Wuthrich, K. / Joint Center for Structural Genomics (JCSG) / Partnership for Stem Cell Biology (STEMCELL) | ||||||
Citation | Journal: To be Published Title: NMR Structure of the homeodomain transcription factor Gbx1[E23R,R58E] from Homo sapiens Authors: Proudfoot, A.K. / Serrano, P. / Geralt, M. / Wuthrich, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2n8g.cif.gz | 533.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2n8g.ent.gz | 454.7 KB | Display | PDB format |
PDBx/mmJSON format | 2n8g.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/n8/2n8g ftp://data.pdbj.org/pub/pdb/validation_reports/n8/2n8g | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 8316.675 Da / Num. of mol.: 1 / Fragment: Homeodomain (UNP residues 256-325) / Mutation: E23R, R58E Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: GBX1 / Plasmid: pET28b / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: Q14549 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1.2 mM [U-99% 13C; U-98% 15N] protein, 20 mM sodium phosphate, 50 mM sodium chloride, 5 mM sodium azide, 95% H2O/5% D2O Solvent system: 95% H2O/5% D2O | ||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0.0798 / pH: 6.0 / Pressure: ambient / Temperature: 308 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 1 | |||||||||
NMR constraints | NOE constraints total: 1126 / NOE intraresidue total count: 346 / NOE long range total count: 155 / NOE medium range total count: 342 / NOE sequential total count: 283 | |||||||||
NMR representative | Selection criteria: lowest energy | |||||||||
NMR ensemble | Conformer selection criteria: target function / Conformers calculated total number: 80 / Conformers submitted total number: 20 |