Structural basis for transthiolation intermediates in the ubiquitin pathway
Kochanczyk, T., Hann, Z.S., Lux, M.C., Reyes, A.M.V.D., Ji, C., Tan, D.S., Lima, C.D.(2024) Nature 
Experimental Data Snapshot
wwPDB Validation   3D Report Full Report
(2024) Nature 
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Ubiquitin-activating enzyme E1 1 | 1,001 | Schizosaccharomyces pombe 972h- | Mutation(s): 0  Gene Names: ptr3, SPBC1604.21c, SPBC211.09 EC: 6.2.1.45 | ![]() | |
UniProt | |||||
Find proteins for O94609 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore O94609  Go to UniProtKB:  O94609 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | O94609 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Ubiquitin-conjugating enzyme E2 4 | B [auth C] | 153 | Schizosaccharomyces pombe 972h- | Mutation(s): 2  Gene Names: ubc4, SPBC119.02 EC: 2.3.2.23 | ![]() |
UniProt | |||||
Find proteins for P46595 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore P46595  Go to UniProtKB:  P46595 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P46595 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 3 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Ubiquitin | C [auth D] | 79 | Schizosaccharomyces pombe 972h- | Mutation(s): 0  Gene Names: uep1, ubi2, SPAC1805.12c | ![]() |
UniProt | |||||
Find proteins for P0CH07 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore P0CH07  Go to UniProtKB:  P0CH07 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P0CH07 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 3 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
ATP Query on ATP | F [auth A] | ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N | |||
A1AIV (Subject of Investigation/LOI) Query on A1AIV | G [auth D] | 4-aminobutanenitrile C4 H8 N2 XGYKKVTZDQDYJQ-UHFFFAOYSA-N | |||
MG Query on MG | D [auth A], E [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Task | Software Package | Version |
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MODEL REFINEMENT | PHENIX | 1.20.1_4487: |
RECONSTRUCTION | cryoSPARC |
Funding Organization | Location | Grant Number |
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Howard Hughes Medical Institute (HHMI) | United States | -- |
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | R35GM118080 |