P11387_TOP1 | DNA topoisomerase 1
ProteinAtlas
Cosmic
Proviz
Swissmodel
- Cosmic Cancer Gene Census (CGC)
| # | candidates | uniprotID | start# | sequence | secondary | class | loc_DISO | loc_CDD | beta | Ebind | Score(NES) | Cosmic | Score(Cosmic) | TOTALscore(Ebind|Stars) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | nes_diso | P11387 | 416 | WTENIQGSIKYIMLNP | EEECCCCCEEEEEECC | c1a-4 | boundary | boundary|Topoisomer_IB_N_htopoI_like; middle|TOPEUc; | 0.43 | Bad: -26.02 |  |
| ||
| 2 | nes_diso | P11387 | 473 | RQRAVALYFIDKLALRA | HHHHHHHHHHHHHHHCC | c1c-4 | boundary | middle|TOPEUc; | 0.0 | Strong: -40.728  | |
cosmic_spacer |  | Strong| |
| 3 | nes_beta_diso | P11387 | 503 | GCCSLRVEHINLHP | EEEEEEEEEEEEEC | c2-4 | boundary | middle|TOPEUc; | 1.0 | NA | |
cosmic_spacer | | |
| 4 | nes_diso | P11387 | 539 | NKVPVEKRVFKNLQLFM | EEEECCHHHHHHHHHHH | c1c-4 | boundary | middle|TOPEUc; | 0.0 | Bad: -17.943 | |
| ||
| 5 | nes_diso | P11387 | 690 | AVQRLEEQLMKLEVQA | HHHHHHHHHHHHHHHH | c1a-5 | DISO | middle|TOPEUc; | 0.0 | Medium: -39.977 | |
cosmic_spacer | | Medium| |
- candidates: if the segment is located in the disordered or boundary region, flagged with "_diso"; if the segment is located in the ordered region, flagged with "_ord"; if the segment's beta-strand content is over 0.5, flagged with "_beta"; if the segment is annotated as NES in the NESdb or validNES, flagged with "ExpNES_" instead of "nes_".
- sequence: Hydrophobic positions are colored in red.
- class: NES classes 1a, 1b, 1c, 1d, 1aR (reverse class of 1a), 1cR, 2, 2-rev (Rev type class 2), 3, and 4. The first letter "c" is for "class", and the number after hyphen ("-") is for the number of key hydrophobic positions. For example, c1a-4 means class 1a with the non-hydrophobic phi0 position. c1a-5 is for class 1a which have all hydrophobic residues in their phi0-4 positions.
- loc_DISO: location of the segment with respect to the ordered/disordered regions
- loc_CDD: location of the segment with respect to the conserved region annotated in the Conserved Domain Database (CDD)
- beta: beta-strand content in the middle of the segment
- Ebind: binding energy; Strong (less than -40.0), Medium (-40.0~-33.0), Weak (-33.0~-30.0), or Bad (higher than -30.0); Generated models can be downloaded via icon.
- Score(NES): how many passes for the criteria: i) not located in the ordered region, ii) do not have beta strand in the middle, and iii) Strong, Medium, or Weak Ebind scores
- Cosmic: if the key hydrophobic residues are mapped to the COSMIC mutation position, flagged with "cosmic_phi"; when the changed amino acid of the mutation position is L, I, V, M, or F, flagged with "cosmic_phi_to_LIVMF"; if the spacer residues are mapped to the mutation position, flagged with "cosmic_spacer"
- Score(Cosmic): 2 stars with "cosmic_phi" and the changed amino acid is not L, I, V, M, or F; 1 star for "cosmic_phi_to_LIVMF" or "cosmic_spacer" (Score(Cosmic) is present for only segments with the 3 stars of Score(NES))
- TOTALscore: Score(NES)+Score(Cosmic); The Ebind category (Strong, Medium, or Weak) is annotated together.