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
Starting Model: experimental
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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 |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
MOLREP | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
HKL-2000 | data collection |
BALBES | phasing |