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Open data
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Basic information
Entry | Database: PDB / ID: 2mj8 | ||||||
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Title | Solution structure of CDYL2 chromodomain | ||||||
![]() | Chromodomain Y-like protein 2 | ||||||
![]() | PROTEIN BINDING / chromodomain / Structural Genomics / Structural Genomics Consortium / SGC | ||||||
Function / homology | ![]() methylated histone binding / transcription corepressor activity / nucleus Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | lowest energy, model1 | ||||||
![]() | Qin, S. / Houliston, S. / Arrowsmith, C.H. / Edwards, A.M. / Wu, H. / Min, J. / Structural Genomics Consortium (SGC) | ||||||
![]() | ![]() Title: Structural Basis for the Binding Selectivity of Human CDY Chromodomains. Authors: Dong, C. / Liu, Y. / Lyu, T.J. / Beldar, S. / Lamb, K.N. / Tempel, W. / Li, Y. / Li, Z. / James, L.I. / Qin, S. / Wang, Y. / Min, J. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 408.9 KB | Display | ![]() |
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PDB format | ![]() | 346.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 534 KB | Display | ![]() |
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Full document | ![]() | 765.4 KB | Display | |
Data in XML | ![]() | 46.4 KB | Display | |
Data in CIF | ![]() | 51.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6v2dC ![]() 6v2hC ![]() 6v2rC ![]() 6v2sC ![]() 6v3nC ![]() 6v41C ![]() 6v8wC C: citing same article ( |
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Similar structure data | |
Other databases |
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: Protein | Mass: 7695.596 Da / Num. of mol.: 1 / Fragment: UNP residues 2-64 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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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: 20 mM TRIS, 150 mM sodium chloride, 2 mM DTT, 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: 7.5 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 800 MHz |
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Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||||||||||||||||||
NMR constraints | NOE constraints total: 1234 / NOE intraresidue total count: 293 / NOE long range total count: 349 / NOE medium range total count: 233 / NOE sequential total count: 359 / Hydrogen bond constraints total count: 64 / Protein phi angle constraints total count: 44 / Protein psi angle constraints total count: 44 | ||||||||||||||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |