YRC Public Data Repository - Protein Structure Prediction

Protein:	YLR419W
Organism:	Saccharomyces cerevisiae
Length:	1435 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 YLR419W.

Description	E-value	Query Range	Subject Range
YLR419W - Putative helicase with limited sequence similarity to human Rb protein; the authentic, non-tagged pr... YL419_YEAST - Putative ATP-dependent RNA helicase YLR419W OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c)...	0.0	[1..1435]	[1..1435]
gi\|164426163, gi... - gi\|164426163\|ref\|XP_961050.2\| hypothetical protein NCU01143 [Neurospora crassa OR74A], gi\|157071222\|... gi\|18376272 - gi\|18376272\|emb\|CAD21386.1\| conserved hypothetical protein [Neurospora crassa]	0.0	[2..1277]	[26..1320]
ucp12 - ATP-dependent RNA helicase Ucp1 UCP12_SCHPO - Putative ATP-dependent RNA helicase ucp12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=...	0.0	[5..1276]	[3..1256]
gi\|3024898, gi\|3... - gi\|3123906\|gb\|AAC39729.1\| pre-mRNA splicing factor [Homo sapiens], sp\|Q92620\|PR16_HUMAN Pre-mRNA spl... gi\|168274495 - gi\|168274495\|dbj\|BAG09667.1\| pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 [synthetic co...	0.0	[163..1283]	[77..1152]
ESP3_ARATH - Pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH1 OS=Arabidopsis thaliana GN=ESP3 PE=1 SV=1	0.0	[282..1288]	[88..1030]
gi\|14318701, gi\|... - gi\|30794426\|ref\|NP_081263.1\| DEAH (Asp-Glu-Ala-His) box polypeptide 16 [Mus musculus], gi\|223460667\|...	0.0	[228..1287]	[2..1026]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[314..1320]	[31..971]

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Predicted Domain #1

Region A:
Residues: [1-122]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKKTKNNSK SSTPVNDVPT TAGKKKAKGK KGQEPEPEDD KRAKQQSNRA KVTSTASWTG  60
   61 KLPHTILHET CQKRKWNKVE YDMKKIGDKG FIAIAVLSFT DPKTKETLTA RMNDPTYDKA 120
  121 SG

[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 #2

Region A:
Residues: [123-249]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KGLVIPQETP IEARHMASTI ALYRIAYNTN LHMMLPPNHR KTWYALDDFR KDNLKTDEKR  60
   61 INKLFDLDPF KTMVEDRKLK AQREKEQVAQ NNQAQKEQVA RTILSSHGGI SSSGKDRQER 120
  121 KVASHKN

[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 #3

Region A:
Residues: [250-354]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SHNPSLVRFP KKVWENSIFV DLDESSRQLI ETSLKEKIDW QAKKISHKNE TIAENREDLK  60
   61 AKLLTLQFRP KHVEEAMLYK DPLSFLLFNL PEDDLPPFFH KKKGD

[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 functions:

Term	Confidence	Notes
ligase activity	3.21813427394508	bayes_pls_golite062009
small conjugating protein ligase activity	2.90240103975315	bayes_pls_golite062009
ubiquitin-protein ligase activity	2.70136670663165	bayes_pls_golite062009
acid-amino acid ligase activity	2.00108891190944	bayes_pls_golite062009
binding	1.58040548738005	bayes_pls_golite062009
transcription regulator activity	1.12859634143666	bayes_pls_golite062009
nucleic acid binding	1.04712388093172	bayes_pls_golite062009
DNA binding	0.959326949445296	bayes_pls_golite062009
catalytic activity	0.843965854182766	bayes_pls_golite062009
protein binding	0.601985684548872	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	0.280767588028274	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	0.280767588028274	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	0.279296868168006	bayes_pls_golite062009
transferase activity	0.130846769102963	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	0.10678738084258	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.0748111925362236	bayes_pls_golite062009
kinase activity	0.00493573337799813	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [355-411]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TKNKVEITNL PLSTRMIVER LTEIGVSSDE ALLALQQNDM NENEAAGFLT REILPTL

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	5.207608
Match:	PF00627
Description:	UBA/TS-N domain

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 #5

Region A:
Residues: [412-567]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NSNTNEPVSE TESIECWNQE LESLESIYEG CVMDAKEDSH YTLNLIEKLK IKLKVYRTKN  60
   61 YPASLPGIVV STFDKNYKLP DYIKKQILTR LLHYLQEGNL IGDMLVYHIY EWLKENISKI 120
  121 IDNPGPLIPD SDSKGAINKR NISNGKRSIN NSSSRK

[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 #6

Region A:
Residues: [568-818]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FTKTTISEDT LSVLREEYTK RIKSSEYKSM QLVREQLPAW KKQKVIIDII NKNEVVLITG  60
   61 ETGSGKSTQV VQFILDFLQK EKGDFGKTKI VCTQPRRISA IGLAERVSDE RCVTCGEEVG 120
  121 YVIRGVNKTK ASTRIKFMTT GVLVRLLQNA RTMLENTIVV IDEVHERSID TDLIVTLMKN 180
  181 LLHRVRGMKI VLMSATVNVD LFKKFFPGLA TCHIEGRTFP ITDYFLEDIL SDLDFKIKRE 240
  241 KALSYDDDSV D

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	46.154902
Match:	1hv8A_
Description:	Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted Domain #7

Region A:
Residues: [819-999]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ERNNDDQYLK PRADSKFFTS GQINYDLLCQ VVEYVHKRLK AANDNGSIIV FLPGVGEINK  60
   61 CCNLLANKSN EADFMVLPLH SALTPEDQKR VFKKYHGKRK VVVSTNIAET SITIDDCVAT 120
  121 IDTGRAKSMF YNPKDNTTKL IESFISKAEV KQRRGRAGRV REGLSYKLFS KNLYENDMIS 180
  181 M

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	46.154902
Match:	1hv8A_
Description:	Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted Domain #8

Region A:
Residues: [1000-1309]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PIPEIKRIPL ESLYLSVKAM GIKDVKAFLS TALDAPPLPA LQKAERILTT IGLVDESDKS  60
   61 LTQLGQFISL MPVMDSKHGK LLIYGILFGC TDISVLLVSI LGIGVLPFIG GFENREKIKK 120
  121 LLCKYESRGD LFAVLEIVRD YFKIKDSSIK RKYLRDNLLS YNKINEIKSS TAQYYSILKD 180
  181 VGFLPMDYKV GSISDLNRNE RNFDILRAIL TGAFYPHIAR VQLPDVKYLS TSSGAVEKDP 240
  241 EAKMIKYWIR SEEYQDKLEE YKTKISQETQ KVDLEDLPLP ATRAFIHPSS VLFSTNSVNL 300
  301 EDAKLLSEVD

[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 #9

Region A:
Residues: [1310-1435]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GPISRQSKIP TVVKYPFVLF TTSQVTNKLY LRDLTPTTTL SLLLFGGAIS YDIGGTIHSP  60
   61 GIVVDNWLPI RTWCKNGVLI KELRTQLDEA IRKKLESPDY AKKSQIDNSG ADKTLKIVEK 120
  121 IIASEQ

[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.

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: