Crystal Structure of Nucleoside Diphosphate Kinase from Thermus thermophilus HB8
Takeishi, S., Nakagawa, N., Masui, R., Kuramitsu, 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 |
nucleotide diphosphate kinase | 137 | Thermus thermophilus | Mutation(s): 0  Gene Names: ndk EC: 2.7.4.6 | ||
UniProt | |||||
Find proteins for Q5SLV5 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SLV5  Go to UniProtKB:  Q5SLV5 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q5SLV5 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 4 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
ATP Query on ATP | F [auth B] | ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N | |||
ADP Query on ADP | D [auth A] | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N | |||
PHS Query on PHS | C [auth A] | PHOSPHONIC ACID H3 O3 P ABLZXFCXXLZCGV-UHFFFAOYSA-N | |||
MG Query on MG | E [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 122.897 | α = 90 |
b = 122.897 | β = 90 |
c = 105.492 | γ = 120 |
Software Name | Purpose |
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DENZO | data reduction |
SCALEPACK | data scaling |
AMoRE | phasing |
CNS | refinement |