Muscovy duck circovirus Rep domain complexed with a single-stranded DNA 10-mer comprising the cleavage site and Mn2+
Tompkins, K.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 |
ATP-dependent helicase Rep | 111 | Muscovy duck circovirus | Mutation(s): 1  | ||
UniProt | |||||
Find proteins for D2JZX8 (Muscovy duck circovirus) Explore D2JZX8  Go to UniProtKB:  D2JZX8 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | D2JZX8 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 2 | |||||
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Molecule | Chains | Length | Organism | Image | |
DNA (5'-D(*TP*AP*TP*TP*AP*TP*TP*AP*CP*C)-3') | B [auth C] | 10 | Muscovy duck circovirus | ||
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 | F [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L | |||
MN Query on MN | C [auth A] | MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N | |||
CA Query on CA | D [auth A], E [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
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a = 55.417 | α = 90 |
b = 66.343 | β = 90 |
c = 71.259 | γ = 90 |
Software Name | Purpose |
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PHENIX | refinement |
PDB_EXTRACT | data extraction |
HKL-3000 | data reduction |
HKL-3000 | data scaling |
PHENIX | phasing |
Coot | model building |
Funding Organization | Location | Grant Number |
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National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | GM119483 |
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | GM118047 |