Recognition and Cleavage of Human tRNA Methyltransferase TRMT1 by the SARS-CoV-2 Main Protease.
D'Oliviera, A., Dai, X., Mottaghinia, S., Geissler, E.P., Etienne, L., Zhang, Y., Mugridge, J.S.(2023) Elife 
Experimental Data Snapshot
Starting Model: experimental
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wwPDB Validation   3D Report Full Report
(2023) Elife 
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
3C-like proteinase nsp5 | 308 | Severe acute respiratory syndrome coronavirus 2 | Mutation(s): 1  Gene Names: rep, 1a-1b EC: 3.4.22.69 | ||
UniProt | |||||
Find proteins for P0DTD1 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTD1  Go to UniProtKB:  P0DTD1 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P0DTD1 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by: Sequence | 3D Structure
Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
tRNA (guanine(26)-N(2))-dimethyltransferase | 11 | Homo sapiens | Mutation(s): 0  EC: 2.1.1.216 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q9NXH9 (Homo sapiens) Explore Q9NXH9  Go to UniProtKB:  Q9NXH9 | |||||
PHAROS:  Q9NXH9 GTEx:  ENSG00000104907  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9NXH9 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 3 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
GOL Query on GOL | F [auth A], H [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
CL Query on CL | D [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M | |||
NA Query on NA | E [auth A], G [auth B] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
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a = 67.787 | α = 90 |
b = 100.029 | β = 90 |
c = 103.252 | γ = 90 |
Software Name | Purpose |
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XDS | data reduction |
XDS | data scaling |
PHASER | phasing |
PHENIX | refinement |
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 | GM143000 |