Structural analysis of PHD domain of Pygopus complexed with trimethylated histone H3 peptide
Nakamura, Y., Umehara, T., Padmanabhan, B., Yokoyama, S.To be published.
Experimental Data Snapshot
Starting Model: experimental
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wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Pygopus homolog 1 | 67 | Mus musculus | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for Q9D0P5 (Mus musculus) Explore Q9D0P5  Go to UniProtKB:  Q9D0P5 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9D0P5 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by: Sequence | 3D Structure
Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
H3K4Me3 peptide | C [auth P] | 8 | N/A | Mutation(s): 0  | |
Sequence AnnotationsExpand | |||||
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Ligands 1 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
ZN Query on ZN | D [auth A], E [auth A], F [auth B], G [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |
Modified Residues 2 Unique | |||||
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ID | Chains | Type | Formula | 2D Diagram | Parent |
MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se | MET | |
M3L Query on M3L | C [auth P] | L-PEPTIDE LINKING | C9 H21 N2 O2 | LYS |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 59.518 | α = 90 |
b = 59.518 | β = 90 |
c = 95.853 | γ = 90 |
Software Name | Purpose |
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CNS | refinement |
ADSC | data collection |
HKL-2000 | data reduction |
SCALEPACK | data scaling |
MOLREP | phasing |