Crystal structure of glycerophosphodiester phosphodiesterase from Thermococcus kodakarensis KOD1
Atsuta, Y., You, D.J., Takano, K., Koga, Y., Kanaya, S.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 |
Glycerophosphoryl diester phosphodiesterase | 248 | Thermococcus kodakarensis KOD1 | Mutation(s): 0  Gene Names: TK1397 EC: 3.1.4.46 | ||
UniProt | |||||
Find proteins for Q5JGZ3 (Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)) Explore Q5JGZ3  Go to UniProtKB:  Q5JGZ3 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q5JGZ3 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 1 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
MG Query on MG | E [auth A], F [auth B], G [auth C], H [auth D] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 43.724 | α = 90 |
b = 132.034 | β = 90 |
c = 171.639 | γ = 90 |
Software Name | Purpose |
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DENZO | data reduction |
SCALEPACK | data scaling |
MOLREP | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
HKL-2000 | data collection |
BALBES | phasing |