YRC Public Data Repository - Protein Structure Prediction

Protein:	SPBC1861.04c
Organism:	Schizosaccharomyces pombe
Length:	1014 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 SPBC1861.04c.

Description	E-value	Query Range	Subject Range
gi\|67536962, gi\|... - gi\|67536962\|ref\|XP_662255.1\| hypothetical protein AN4651.2 [Aspergillus nidulans FGSC A4], ref\|XP_40...	416.0	[0..3]	[969..165]
gi\|73994829 - gi\|73994829\|ref\|XP_864466.1\| PREDICTED: similar to squamous cell carcinoma antigen recognized by T c...	398.0	[0..5]	[858..75]
gi\|115398692, gi... - gi\|115398692\|ref\|XP_001214935.1\| conserved hypothetical protein [Aspergillus terreus NIH2624], gi\|11...	388.0	[0..3]	[977..164]
SART3_MOUSE - Squamous cell carcinoma antigen recognized by T-cells 3 OS=Mus musculus GN=Sart3 PE=1 SV=1	387.0	[0..24]	[839..94]
gi\|114646768 - gi\|114646768\|ref\|XP_522523.2\| PREDICTED: hypothetical protein isoform 4 [Pan troglodytes]	386.0	[0..5]	[851..74]
gi\|109098611 - gi\|109098611\|ref\|XP_001102582.1\| PREDICTED: similar to squamous cell carcinoma antigen recognized by...	384.0	[0..5]	[851..74]

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Predicted Domain #1

Region A:
Residues: [1-475]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSQIQDLKDE NVEMDIDPQE QNEKKPLLLD ELTKFTILHP YNYDSHIKLI EELKRLDKKK  60
   61 ELSEARKTFQ SIFPLSEDLW VDYLLDECKN CRTLDDYVRI KTLFDLAVQD YLSIKIWCMY 120
  121 LEFTLNLMDT SSFEQEQSEL NGVITLTDAH SLFERAYQTC KFHFSKSQCV WTLYLEFLQT 180
  181 FGDALFEGEE EQEIVFKNKI YDFHIDRLKL PHEQIEETFT SLSTFVTNNW SPSEYEDVMV 240
  241 KSNKVYETTL KRNAKIFNKE LLLNSANHSL EAYMDLINDE SRRSTAELQY ITTLYERAIV 300
  301 LYPLIPELWL QYTAWLSKVD FSSSQASSVA ERATRNCSWI GRIWSIKLTY MTLSGASTSA 360
  361 VCEEKDRCLN SNLLVNFDEV IDFFSGFLKA CLYLSSNEDK PQEFLKHQIH KVEDYLRKNH 420
  421 KGSKDARMRI ELSKIYLYSE ISDFESVEKC WSDMFHDFQN QALYWISRYI STMKY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	54.045757
Match:	2ooeA
Description:	No description for 2ooeA was found.

Predicted functions:

Term	Confidence	Notes
RNA binding	2.76684454218635	bayes_pls_golite062009
binding	2.57186536498101	bayes_pls_golite062009
protein binding	1.83529176977066	bayes_pls_golite062009
transcription regulator activity	1.26149030245805	bayes_pls_golite062009
DNA binding	0.9531600253493	bayes_pls_golite062009
nucleic acid binding	0.93037889019021	bayes_pls_golite062009
signal sequence binding	0.8574224889202	bayes_pls_golite062009
transcription factor activity	0.374364600772076	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [476-575]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NPELAAETLK KSLYKNVDQP QLLFQFYQSI MDLNNDCFTN TSHLYDVLNA QRISFKRQLD  60
   61 SFAEETKQTV ENTEPLKVPQ ADDTAALSKK RKPGQEGDVF

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [576-852]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKSKPIEQHR NREELTVLVT NLPSDISENE LKIFFKDCGN IIRIFILEDN QKDVKVAQIE  60
   61 FSETSEVLAA KTRDLKSIRG HEISVQIHVD TNLYVTNFPP TYDELDITKL FSAYGNVVDV 120
  121 RFPSLRYNTN RRFCYVQMRK PDEAHNALQL HKKLLEEKYP IQVFISDPLR RTPRSGAVYE 180
  181 GRELYVTNID FKVNEKDVET FFRDYGQVES VRIPKRFNQH KGFGYVVMTT NQDAENALSA 240
  241 AGKQLGNRVL NVVLSKPRES LEKTRVSSND NRTLAKS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.30103
Match:	2ghpA
Description:	No description for 2ghpA was found.

Predicted functions:

Term	Confidence	Notes
RNA binding	6.73097473547076	bayes_pls_golite062009
	6.62953239642182	bayes_pls_golite062009
mRNA binding	5.29759606920196	bayes_pls_golite062009
snRNA binding	4.06596327298973	bayes_pls_golite062009
nucleic acid binding	3.81920018903278	bayes_pls_golite062009
binding	3.49612884560266	bayes_pls_golite062009
poly-pyrimidine tract binding	3.11990160533699	bayes_pls_golite062009
U1 snRNA binding	3.02511982045347	bayes_pls_golite062009
single-stranded RNA binding	2.93798024346416	bayes_pls_golite062009
protein binding	1.32954276279597	bayes_pls_golite062009
structural molecule activity	1.29928829870122	bayes_pls_golite062009
transcription regulator activity	1.07788694919471	bayes_pls_golite062009
DNA binding	0.978604858165557	bayes_pls_golite062009
snoRNA binding	0.642109402325711	bayes_pls_golite062009
mRNA 3'-UTR binding	0.591700155096213	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.425042944899091	bayes_pls_golite062009
transcription factor activity	0.234742017105535	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [853-1014]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FETTESNKMS TPKKSFEQIK SKSLGVTNVD GTVNEARLRS LFESYGKLYR VVLHPEHEGA  60
   61 VVEFLDIHDA GKASLALEGH EIGGRLLHIT TVNEMMHNVP SSMNHSDYNT SATRPRRLGS 120
  121 RTFQGFNSNH SNINSKKDDL DDKEMQIDAP KSNDDFRKMF LK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	37.0
Match:	1l3kA
Description:	Nuclear ribonucleoprotein A1 (RNP A1, UP1)
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

Predicted functions:

Predicted functions: