YRC Public Data Repository - Protein Structure Prediction

Protein:	RNA14
Organism:	Saccharomyces cerevisiae
Length:	677 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 RNA14.

Description	E-value	Query Range	Subject Range
RNA14 - Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of m... RNA14_YEAST - mRNA 3'-end-processing protein RNA14 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RNA... gi\|190408292 - gi\|190408292\|gb\|EDV11557.1\| mRNA 3'-end processing protein RNA14 [Saccharomyces cerevisiae RM11-1a] gi\|151946219 - gi\|151946219\|gb\|EDN64450.1\| cleavage and polyadenylation factor CF I component involved in pre-mRNA ...	0.0	[1..677]	[1..677]
gi\|28201783, gi\|... - sp\|Q9BZJ0\|CRN1_HUMAN Crooked neck-like protein 1 (Crooked neck homolog) (hCrn) (CGI-201) (MSTP021), ...	4.0E-65	[7..586]	[204..741]
CRNL1_MOUSE - Crooked neck-like protein 1 OS=Mus musculus GN=Crnkl1 PE=1 SV=1 CRNL1_RAT - Crooked neck-like protein 1 OS=Rattus norvegicus GN=Crnkl1 PE=2 SV=1	3.0E-56	[7..586]	[43..580]
RNA14_SCHPO - mRNA 3'-end-processing protein rna14 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rna14... rna14 - mRNA cleavage and polyadenylation specificity factor complex subunit Rna14	8.0E-55	[2..567]	[29..592]
gi\|9757719, gi\|1... - gi\|9757719\|dbj\|BAB08244.1\| CRN (crooked neck) protein [Arabidopsis thaliana], gi\|15237354\|ref\|NP_199...	3.0E-54	[2..594]	[35..580]

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Predicted Domain #1

Region A:
Residues: [1-126]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSSTTPDLL YPSADKVAEP SDNIHGDELR LRERIKDNPT NILSYFQLIQ YLETQESYAK  60
   61 VREVYEQFHN TFPFYSPAWT LQLKGELARD EFETVEKILA QCLSGKLENN DLSLWSTYLD 120
  121 YIRRKN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2.69897
Match:	1hz4A_
Description:	Transcription factor MalT domain III
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.12690485191789	bayes_pls_golite062009
transcription regulator activity	1.26149030245805	bayes_pls_golite062009
RNA binding	1.1868411700113	bayes_pls_golite062009
DNA binding	0.9531600253493	bayes_pls_golite062009
protein binding	0.931467806305272	bayes_pls_golite062009
nucleic acid binding	0.93037889019021	bayes_pls_golite062009
transcription factor activity	0.374364600772076	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [127-226]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NLITGGQEAR AVIVKAFQLV MQKCAIFEPK SSSFWNEYLN FLEQWKPFNK WEEQQRIDML  60
   61 REFYKKMLCV PFDNLEKMWN RYTQWEQEIN SLTARKFIGE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2.69897
Match:	1hz4A_
Description:	Transcription factor MalT domain III
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [227-363]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSAEYMKARS LYQEWLNVTN GLKRASPINL RTANKKNIPQ PGTSDSNIQQ LQIWLNWIKW  60
   61 ERENKLMLSE DMLSQRISYV YKQGIQYMIF SAEMWYDYSM YISENSDRQN ILYTALLANP 120
  121 DSPSLTFKLS ECYELDN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.39794
Match:	1fchA_
Description:	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [364-463]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DSESVSNCFD KCTQTLLSQY KKIASDVNSG EDNNTEYEQE LLYKQREKLT FVFCVYMNTM  60
   61 KRISGLSAAR TVFGKCRKLK RILTHDVYVE NAYLEFQNQN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.39794
Match:	1fchA_
Description:	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [464-591]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DYKTAFKVLE LGLKYFQNDG VYINKYLDFL IFLNKDSQIK TLFETSVEKV QDLTQLKEIY  60
   61 KKMISYESKF GNLNNVYSLE KRFFERFPQE NLIEVFTSRY QIQNSNLIKK LELTYMYNEE 120
  121 EDSYFSSG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.39794
Match:	1fchA_
Description:	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [592-677]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NGDGHHGSYN MSSSDRKRLM EETGNNGNFS NKKFKRDSEL PTEVLDLLSV IPKRQYFNTN  60
   61 LLDAQKLVNF LNDQVEIPTV ESTKSG

[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.

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: