Crystal Structure of Putative Phytanoyl-CoA Dioxygenase Family Protein YbiU from Yersinia pestis
Kim, Y., Chhor, G., Endres, M., Babnigg, G., Joachimiak, A.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 |
Uncharacterized protein | 418 | Yersinia pestis | Mutation(s): 0  Gene Names: y1506, YPO2976, YP_2601 | ||
UniProt | |||||
Find proteins for A0A2U2H2N4 (Yersinia pestis) Explore A0A2U2H2N4  Go to UniProtKB:  A0A2U2H2N4 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A2U2H2N4 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 3 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
SO4 Query on SO4 | B [auth A], G [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L | |||
GOL Query on GOL | C [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
EDO Query on EDO | D [auth A], E [auth A], F [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |
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 = 115.75 | α = 90 |
b = 54.659 | β = 124.47 |
c = 93.152 | γ = 90 |
Software Name | Purpose |
---|---|
SBC-Collect | data collection |
HKL-3000 | data collection |
HKL-3000 | phasing |
SHELXCD | phasing |
SHELXE | model building |
MLPHARE | phasing |
DM | model building |
PHENIX | refinement |
HKL-3000 | data reduction |
HKL-3000 | data scaling |
DM | phasing |