Crystal Structure of the ubiquitin-like domain of plexin D1
Tong, Y., Nedyalkova, L., Tempel, W., MacKenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Buck, M., Park, H.To be published.
Experimental Data Snapshot
wwPDB Validation 3D Report Full Report
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Plexin-D1 | 127 | Homo sapiens | Mutation(s): 0 Gene Names: PLXND1, KIAA0620 | ![]() | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q9Y4D7 (Homo sapiens) Explore Q9Y4D7 Go to UniProtKB: Q9Y4D7 | |||||
PHAROS: Q9Y4D7 GTEx: ENSG00000004399 | |||||
Entity Groups | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9Y4D7 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 2 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
ARS Query on ARS | B [auth A], C [auth A] | ARSENIC As RBFQJDQYXXHULB-UHFFFAOYSA-N | |||
UNX Query on UNX | D [auth A] | UNKNOWN ATOM OR ION X |
Modified Residues 1 Unique | |||||
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ID | Chains | Type | Formula | 2D Diagram | Parent |
MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se | MET |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 81.777 | α = 90 |
b = 27.051 | β = 114.06 |
c = 52.653 | γ = 90 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
SHELX | phasing |
DM | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |