+Open data
-Basic information
Entry | Database: PDB / ID: 2l7m | ||||||
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Title | Solution Structure of the Pitx2 Homeodomain R24H mutant | ||||||
Components | Pituitary homeobox 2 | ||||||
Keywords | TRANSCRIPTION / Homeodomain / DNA-binding | ||||||
Function / homology | Function and homology information deltoid tuberosity development / prolactin secreting cell differentiation / somatotropin secreting cell differentiation / TFAP2 (AP-2) family regulates transcription of other transcription factors / embryonic heart tube left/right pattern formation / iris morphogenesis / cardiac neural crest cell migration involved in outflow tract morphogenesis / left/right axis specification / hair cell differentiation / camera-type eye development ...deltoid tuberosity development / prolactin secreting cell differentiation / somatotropin secreting cell differentiation / TFAP2 (AP-2) family regulates transcription of other transcription factors / embryonic heart tube left/right pattern formation / iris morphogenesis / cardiac neural crest cell migration involved in outflow tract morphogenesis / left/right axis specification / hair cell differentiation / camera-type eye development / determination of left/right symmetry / odontogenesis / outflow tract morphogenesis / anatomical structure morphogenesis / ribonucleoprotein complex binding / spleen development / phosphoprotein binding / DNA-binding transcription repressor activity, RNA polymerase II-specific / sequence-specific double-stranded DNA binding / DNA-binding transcription factor binding / RNA polymerase II-specific DNA-binding transcription factor binding / transcription regulator complex / 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 / chromatin / positive regulation of cell population proliferation / regulation of DNA-templated transcription / regulation of transcription by RNA polymerase II / negative regulation of transcription by RNA polymerase II / protein homodimerization activity / positive regulation of transcription by RNA polymerase II / nucleoplasm / identical protein binding / nucleus Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / molecular dynamics | ||||||
Model details | minimized average, model 20 | ||||||
Authors | Doerdelmann, T. / Rance, M. / Kojetin, D.J. / Baird-Titus, J.M. | ||||||
Citation | Journal: To be Published Title: Solution Structure of the Pitx2 Homeodomain R24H mutant Authors: Doerdelmann, T. / Kojetin, D.J. / Baird-Titus, J.M. / Rance, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2l7m.cif.gz | 455.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2l7m.ent.gz | 382.3 KB | Display | PDB format |
PDBx/mmJSON format | 2l7m.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/l7/2l7m ftp://data.pdbj.org/pub/pdb/validation_reports/l7/2l7m | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data | |
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: 8467.477 Da / Num. of mol.: 1 / Fragment: Homeobox domain residues 85-144 / Mutation: R24H Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: PITX2, ARP1, RGS, RIEG, RIEG1 / Production host: Escherichia coli (E. coli) / References: UniProt: Q99697 |
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Sequence details | THE C-TERMINAL 6 AMINO ACIDS (EFIVTD) ARE ADDED FOR PROTEIN STABILITY PURPOSES. |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 10 mM sodium phosphate, 150 mM sodium sulphate, 1 mM EDTA, 2 mM [U-98% 13C; U-98% 15N] Pitx2 R24H, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0.15 / pH: 7 / Pressure: ambient / Temperature: 295 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: 1467 / NOE intraresidue total count: 402 / NOE long range total count: 269 / NOE medium range total count: 420 / NOE sequential total count: 376 | ||||||||||||||||||||
NMR representative | Selection criteria: minimized average | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 20 / Conformers submitted total number: 20 / Maximum upper distance constraint violation: 0.156 Å |