YRC Public Data Repository - Protein Structure Prediction

Protein:	cuf1
Organism:	Schizosaccharomyces pombe
Length:	411 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 cuf1.

Description	E-value	Query Range	Subject Range
gi\|7494259 - pir\|\|T18492 hypothetical protein C0805w - malaria parasite (Plasmodium falciparum) gi\|124505021, gi... - gi\|3758846\|emb\|CAB11131.1\| DNA-directed RNA polymerase II, putative [Plasmodium falciparum 3D7], gi\|...	231.0	[0..97]	[389..2159]
gi\|54657094 - gi\|54657094\|gb\|EAL35927.1\| DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain [Cryptosporidiu... gi\|67597591 - gi\|67597591\|ref\|XP_666157.1\| DNA-directed RNA polymerase II largest chain [Cryptosporidium hominis T...	209.0	[0..27]	[335..1557]
gi\|3511287, gi\|7... - pir\|\|T31670 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain - Mastigamoeba invertens (frag...	209.0	[0..46]	[310..1423]
gi\|46228363 - gi\|46228363\|gb\|EAK89262.1\| putative DNA-directed RNA polymerase,possible RNA polymerase A/beta'/A'' ... gi\|66359288 - gi\|66359288\|ref\|XP_626822.1\| DNA-directed RNA polymerase,possible RNA polymerase A/beta'/A'' subunit...	206.0	[0..27]	[335..1564]
gi\|40217297, gi\|... - gi\|4808164\|emb\|CAB42795.1\| largest subunit of the RNA polymerase II complex [Drosophila guanche], gi...	199.0	[0..32]	[348..1498]
gi\|54643878\|gb\|E... - GA13798-PA [Drosophila pseudoobscura], RpII215 [Drosophila pseudoobscura pseudoobscura] gi\|54643878, gi\|... - gi\|54643878\|gb\|EAL32621.1\| RpII215 [Drosophila pseudoobscura pseudoobscura], gi\|125983594\|ref\|XP_001...	199.0	[0..32]	[348..1498]
gi\|4808162 - gi\|4808162\|emb\|CAB42796.1\| largest subunit of the RNA polymerase II complex [Drosophila madeirensis]	194.0	[0..32]	[348..1498]
gi\|9587193, gi\|9... - gi\|9587199\|gb\|AAF89203.1\|AF272653_1 RNA polymerase II largest subunit [Drosophila subobscura], gi\|95...	194.0	[0..32]	[348..1498]
RpII215-PA - The gene RNA polymerase II 215kD subunit is referred to in FlyBase by the symbol Dmel\RpII215 (CG155...	189.0	[0..32]	[348..1498]

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Predicted Domain #1

Region A:
Residues: [1-119]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVVINNVKMA CMKCIRGHRS STCKHNDREL FPIRPKGRPI SQCEKCRIAR ITRHLHVKCT  60
   61 CNSRKKGSKC STSSTTDLDS SSASNSSCSI PSSISEKLLP RDNVKTHCPK RSASCCGKK

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [120-331]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PDVMPLKINL ESQTDFMGMP LQSQRPHSES YRMLPEPEKF KSEYGYPSQF LPIEKLTSNV  60
   61 AYPPNYNNYL KSPYQQPTNF PPEIQYNYSH SPQHSIQEAE EAAVYGPPVY RSGYQILYNN 120
  121 NTDSIAAAAA THDLYPQPDV PLTFAMLADG NYVPLPSSTN TYGPSNSYGY EININESTNH 180
  181 VDSSYLPHPI QLSNYFTLPS SCAQADAACQ CG

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [332-411]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DNCECLGCLT HPNNATTLAA LNHISALEKE TISHTDLHHT FKHEVNSSNN YELTNDELAA  60
   61 SSPLYTSSSV PPSHITTGST

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.612	a.4.1	Homeodomain-like
View	Download	0.658	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View	Download	0.464	a.74.1	Cyclin-like
View	Download	0.677	a.59.1	PAH2 domain
View	Download	0.692	a.64.2	Bacteriocin AS-48

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