3D UMAP Classification of  UniRef 100 of "Cytochrome P450"

3D_CLASS 0 P450 (RXC Rich)

2D_Class0

3D_Class0  

Compornents of 2D_Class

CLASS 1 P450 (HXC)

2D_Class2 (HXC)

3D_Class Name

Compornents of 2D_Class

CLASS 2 P450 (Partial Protein and CYP152s)

2D_Class0

3D_Class Name

Compornents of 2D_Class

CLASS 3 P450 (RXC)

2D_Class1 (RXC)

2D_Class Name

Compornents of 2D_Class

CLASS 4 DBSCAN_Out Group

CLASS 6_P450 and Other Proteins (Two Group)

2D_Class4 Partial protein (<350aa)2D_Class7 Partial protein (<350aa)2D_Class1 (RXC)

CLASS 6_Fungal P450

2D_Class5 Fungal P450

CLASS 7_Cytochrome P450 Reductase (CPR)

2D_Class8 CPR2D_Class11 CPR

CLASS 8_Plant P450

2D_Class1 (RXC)

CLASS 9_Arthropod P450

2D_Class1 (RXC)

CLASS 10_Fungal P450-CPR Fusion

2D_Class12 (RXC)2D_Class14 (RXC)

CLASS 11_Bacterial P450

2D_Class10 Streptomyces

CLASS 12_Fish P450

2D_Class1 (RXC)

CLASS 13_CPR-Fusion P450 (Bacterial)

2D_Class15 (RXC)2D_Class14 (RXC)

CLASS 14_Fish P450

2D_Class1 (RXC)

CLASS 15_Plant P450

2D_Class1 (RXC)

CLASS 16_CPR-Fusion P450 (Fungal)

2D_Class9 (RXC)

CLASS 17_Fish P450

2D_Class1 (RXC)

CLASS 18_Plant P450

2D_Class1 (RXC)

CLASS 19_Fungal P450

2D_Class1 (RXC)

CLASS 20_Archaea P450

2D_Class0 (RXC)

Reference

Cytochrome P450 HomepageNelson, DR (2009) The Cytochrome P450 Homepage. Human Genomics 4, 59-65.Comprehensive Bacterial P450shttps://drnelson.uthsc.edu/comprehensive-bacterial-p450s/

UniRepUnified rational protein engineering with sequence-based deep representation learningEthan C. Alley et al, (2019)  Nat Methods 16, 1315–1322
https://doi.org/10.1038/s41592-019-0598-1

UMAP
https://github.com/lmcinnes/umap

DBSCAN
https://github.com/mhahsler/dbscan

D. R. Nelson's Data Base

https://twitter.com/P450nelson/status/1501396401317883904

2D UMAP Classification of  UniRef 100 of "Cytochrome P450"

2D_Class0 P450 (R/H) 2D_Class10 P450 (H)

2D_Class1 P450 (R) 2D_Class11 P450-CPR Fusion

2D_Class2 P450 (H) 2D_Class12 Fungal P450-CPR Fusion (R)

2D_Class3 DBSCAN Out Group 2D_Class13 P450 (R)

2D_Class4 Partial 2D_Class14 Fungal P450-CPR Fusion (R)

2D_Class5 P450 (R) Fungal 2D_Class15 Fungal P450-CPR Fusion (R)

2D_Class6 Partial 2D_Class16 P450 (R)

2D_Class7 Partial 2D_Class17

2D_Class8 CPR 2D_Class18

2D_Class9 P450 (R) 2D_Class19 P450 (H)