YRC Public Data Repository - Protein Structure Prediction

Protein:	top1
Organism:	Schizosaccharomyces pombe
Length:	814 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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
gi\|5119, gi\|68488 - pir\|\|ISZPT1 DNA topoisomerase (EC 5.99.1.2) - fission yeast (Schizosaccharomyces pombe), gi\|5119\|em...	792.0	[0..13]	[814..11]
gi\|70990502, gi\|... - gi\|70990502\|ref\|XP_750100.1\| topoisomerase I [Aspergillus fumigatus Af293], gi\|66847732\|gb\|EAL88062.... gi\|159130581 - gi\|159130581\|gb\|EDP55694.1\| topoisomerase I [Aspergillus fumigatus A1163]	705.0	[0..44]	[814..189]
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]	687.0	[0..42]	[814..4]
gi\|45185680, gi\|... - gi\|45185680\|ref\|NP_983396.1\| ACL008Cp [Ashbya gossypii ATCC 10895], gi\|44981435\|gb\|AAS51220.1\| ACL00... gi\|44981435 - gi\|44981435\|gb\|AAS51220.1\| ACL008Cp [Ashbya gossypii ATCC 10895]	676.0	[0..99]	[814..6]
gi\|67515943, gi\|... - gi\|67515943\|ref\|XP_657857.1\| hypothetical protein AN0253.2 [Aspergillus nidulans FGSC A4], ref\|XP_40...	673.0	[0..1]	[814..1]
gi\|27752875 - gi\|27752875\|gb\|AAO19447.1\| topoisomerase I [Emericella nidulans]	672.0	[0..1]	[814..1]
gi\|3170997 - gi\|3170997\|gb\|AAC18301.1\| DNA topoisomerase I [Pneumocystis carinii]	671.0	[0..126]	[814..73]
gi\|169766616 - gi\|169766616\|ref\|XP_001817779.1\| hypothetical protein [Aspergillus oryzae RIB40] gi\|83765634 - gi\|83765634\|dbj\|BAE55777.1\| unnamed protein product [Aspergillus oryzae]	668.0	[0..12]	[814..67]
gi\|115388445, gi... - gi\|115388445\|ref\|XP_001211728.1\| DNA topoisomerase I [Aspergillus terreus NIH2624], gi\|114195812\|gb\|...	667.0	[0..21]	[814..49]

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Predicted Domain #1

Region A:
Residues: [1-191]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSSDSDSVS LSIRRRQRRG SSKRISMKES DEESDSSENH PLSESLNKKS KSESDEDDIP  60
   61 IRKRRASSKK NMSNSSSKKR AKVMGNGGLK NGKKTAVVKE EEDFNEIAKP SPKHKRVSKA 120
  121 NGSKNGAKSA VKKEESDTDD SVPLRAVSTV SLTPYKSELP SGASTTQNRS PNDEEDEDED 180
  181 YKWWTSENID D

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.34
Match:	2j63A
Description:	No description for 2j63A was found.

Predicted Domain #2

Region A:
Residues: [192-722]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TQKWTTLEHN GVIFAPPYEP LPKNVKLIYD GNPVNLPPEA EEVAGFYAAM LETDHAKNPV  60
   61 FQDNFFRDFL KVCDECNFNH NIKEFSKCDF TQMFHHFEQK REEKKSMPKE QKKAIKQKKD 120
  121 EEEEKYKWCI LDGRKEKVGN FRIEPPGLFR GRGSHPKTGS LKRRVYPEQI TINIGEGVPV 180
  181 PEPLPGHQWA EVKHDNTVTW LATWHENINN NVKYVFLAAG SSLKGQSDLK KYEKSRKLKD 240
  241 YIDDIRKGYR KDLKSELTVE RQRGTAMYLI DVFALRAGNE KGEDEADTVG CCSLRYEHVT 300
  301 LKPPRTVVFD FLGKDSIRYY NEVEVDPQVF KNLKIFKRPP KKEGDLIFDR LSTNSLNKYL 360
  361 TSLMDGLSAK VFRTYNASYT MAEELKKMPK NLTLADKILF YNRANRTVAI LCNHQRSVTK 420
  421 NHDVQMERFA ERIKALQYQR MRLRKMMLNL EPKLAKSKPE LLAKEEGITD SWIVKHHETL 480
  481 YELEKEKIKK KFDRENEKLA AEDPKSVLPE SELEVRLKAA DELKKALDAE L

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	171.0
Match:	1nh3A
Description:	Eukaryotic DNA topoisomerase I, catalytic core; Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [723-814]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KSKKVDPGRS SMEQLEKRLN KLNERINVMR TQMIDKDENK TTALGTSKIN YIDPRLTYSF  60
   61 SKREDVPIEK LFSKTIRDKF NWAADTPPDW KW

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	21.0
Match:	2b9sB
Description:	Crystal Structure of heterodimeric L. donovani topoisomerase I-vanadate-DNA complex
Matching Structure (courtesy of the PDB):

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits