+Open data
-Basic information
Entry | Database: PDB / ID: 6t3i | ||||||
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Title | Solution structure of the HRP2 IBD | ||||||
Components | Hepatoma-derived growth factor-related protein 2 | ||||||
Keywords | CELL CYCLE / epigenetic reader | ||||||
Function / homology | Function and homology information H3K27me3 modified histone binding / muscle cell differentiation / H3K9me3 modified histone binding / skeletal muscle tissue regeneration / DNA repair-dependent chromatin remodeling / muscle organ development / positive regulation of double-strand break repair via homologous recombination / methylated histone binding / histone reader activity / positive regulation of cell growth ...H3K27me3 modified histone binding / muscle cell differentiation / H3K9me3 modified histone binding / skeletal muscle tissue regeneration / DNA repair-dependent chromatin remodeling / muscle organ development / positive regulation of double-strand break repair via homologous recombination / methylated histone binding / histone reader activity / positive regulation of cell growth / DNA recombination / chromatin remodeling / DNA repair / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / torsion angle dynamics / simulated annealing | ||||||
Authors | Veverka, V. | ||||||
Citation | Journal: Cells / Year: 2021 Title: Unlike Its Paralog LEDGF/p75, HRP-2 Is Dispensable for MLL-R Leukemogenesis but Important for Leukemic Cell Survival. Authors: Van Belle, S. / El Ashkar, S. / Cermakova, K. / Matthijssens, F. / Goossens, S. / Canella, A. / Hodges, C.H. / Christ, F. / De Rijck, J. / Van Vlierberghe, P. / Veverka, V. / Debyser, Z. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6t3i.cif.gz | 811.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6t3i.ent.gz | 684.2 KB | Display | PDB format |
PDBx/mmJSON format | 6t3i.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/t3/6t3i ftp://data.pdbj.org/pub/pdb/validation_reports/t3/6t3i | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
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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: 9675.237 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: HDGFL2, HDGF2, HDGFRP2, HRP2, UNQ785/PRO1604 / Production host: Escherichia coli (E. coli) / References: UniProt: Q7Z4V5 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 0.5 mM [U-13C; U-15N] HRP2, 25 mM TRIS, 150 mM NaCl, 1 mM TCEP, 95% H2O/5% D2O Label: CN / Solvent system: 95% H2O/5% D2O | ||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 175 mM / Label: cond1 / pH: 7.0 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 850 MHz |
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-Processing
NMR software |
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Refinement |
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NMR representative | Selection criteria: lowest energy | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 100 / Conformers submitted total number: 30 |