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View Structure Prediction Details

Protein: TOP1
Organism: Saccharomyces cerevisiae
Length: 769 amino acids
Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076



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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for TOP1.

Description E-value Query
Range
Subject
Range
TOP1 - Topoisomerase I, nuclear enzyme that relieves torsional strain in DNA by cleaving and re-sealing the...
TOP1_YEAST - DNA topoisomerase 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TOP1 PE=1 SV=2
gi|207341303 - gi|207341303|gb|EDZ69397.1| YOL006Cp-like protein [Saccharomyces cerevisiae AWRI1631]
gi|151945624 - gi|151945624|gb|EDN63865.1| topoisomerase I [Saccharomyces cerevisiae YJM789]
0.0 [1..769] [1..769]
top1 - DNA topoisomerase I
TOP1_SCHPO - DNA topoisomerase 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=top1 PE=1 SV=2
0.0 [5..767] [43..812]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
0.0 [5..767] [41..810]
gi|9758163, gi|1... - gi|9758163|dbj|BAB08548.1| DNA topoisomerase I [Arabidopsis thaliana], gi|15240493|ref|NP_200342.1| ...
0.0 [5..769] [220..911]
gi|2245428 - gi|2245428|gb|AAC39319.1| topoisomerase I [Emericella nidulans]
0.0 [1..769] [90..871]
gi|3170997 - gi|3170997|gb|AAC18301.1| DNA topoisomerase I [Pneumocystis carinii]
0.0 [43..769] [42..763]
TOP1_CANAX - DNA topoisomerase 1 OS=Candida albicans GN=TOP1 PE=3 SV=1
0.0 [14..769] [28..778]

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Predicted Domain #1
Region A:
Residues: [1-123]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTIADASKVN HELSSDDDDD VPLSQTLKKR KVASMNSASL QDEAEPYDSD EAISKISKKK  60
   61 TKKIKTEPVQ SSSLPSPPAK KSATSKPKKI KKEDGDVKVK TTKKEEQENE KKKREEEEEE 120
  121 DKK

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2
Region A:
Residues: [124-158]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AKEEEEEYKW WEKENEDDTI KWVTLKHNGV IFPPP

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [253-290]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SQEKKQIRLE REKFEEDYKF CELDGRREQV GNFKVEPP

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [307-366]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RRVNPEDIVL NLSKDAPVPP APEGHKWGEI RHDNTVQWLA MWRENIFNSF KYVRLAANSS  60
   61 

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 1352.0
Match: 1ois__
Description: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
catalytic activity 0.078956976886834 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [159-252]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YQPLPSHIKL YYDGKPVDLP PQAEEVAGFF AALLESDHAK NPVFQKNFFN DFLQVLKESG  60
   61 GPLNGIEIKE FSRCDFTKMF DYFQLQKEQK KQLT

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [291-306]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DLFRGRGAHP KTGKLK

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 1352.0
Match: 1ois__
Description: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [367-480]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LKGQSDYKKF EKARQLKSYI DAIRRDYTRN LKSKVMLERQ KAVAIYLIDV FALRAGGEKS  60
   61 EDEADTVGCC SLRYEHVTLK PPNTVIFDFL GKDSIRFYQE VEVDKQVFKN LTIF

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 57.9794
Match: 1a41__
Description: Eukaryotic DNA topoisomerase I, catalytic core
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [481-534]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KRPPKQPGHQ LFDRLDPSIL NKYLQNYMPG LTAKVFRTYN ASKTMQDQLD LIPN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 3.221849
Match: 2tmaA_
Description: Tropomyosin
Matching Structure (courtesy of the PDB):

Predicted Domain #6
Region A:
Residues: [535-615]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KGSVAEKILK YNAANRTVAI LCNHQRTVTK GHAQTVEKAN NRIQELEWQK IRCKRAILQL  60
   61 DKDLLKKEPK YFEEIDDLTK E

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 3.221849
Match: 2tmaA_
Description: Tropomyosin
Matching Structure (courtesy of the PDB):

Predicted Domain #7
Region A:
Residues: [616-719]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DEATIHKRII DREIEKYQRK FVRENDKRKF EKEELLPESQ LKEWLEKVDE KKQEFEKELK  60
   61 TGEVELKSSW NSVEKIKAQV EKLEQRIQTS SIQLKDKEEN SQVS

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 3.221849
Match: 2tmaA_
Description: Tropomyosin
Matching Structure (courtesy of the PDB):

Predicted Domain #8
Region A:
Residues: [720-769]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LGTSKINYID PRLSVVFCKK YDVPIEKIFT KTLREKFKWA IESVDENWRF 

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 12.79
Match: 1a36A
Description: Eukaryotic DNA topoisomerase I, dispensable insert domain; Eukaryotic DNA topoisomerase I, catalytic core; Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
Matching Structure (courtesy of the PDB):

YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle