YRC Public Data Repository - Protein Structure Prediction

Protein:	PRP2_YEAST
Organism:	Saccharomyces cerevisiae S288c
Length:	876 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 PRP2_YEAST.

Description	E-value	Query Range	Subject Range
PRP2_YEAST - Pre-mRNA-splicing factor ATP-dependent RNA helicase-like protein PRP2 OS=Saccharomyces cerevisiae (s... PRP2 - RNA-dependent ATPase in the DEAH-box family, required for activation of the spliceosome before the f...	0.0	[1..876]	[1..876]
gi\|168275648 - gi\|168275648\|dbj\|BAG10544.1\| ATP-dependent RNA helicase DHX8 [synthetic construct] DHX8 - DEAH (Asp-Glu-Ala-His) box polypeptide 8 gi\|114666955 - gi\|114666955\|ref\|XP_001154202.1\| PREDICTED: DEAH (Asp-Glu-Ala-His) box polypeptide 8 isoform 5 [Pan ...	0.0	[5..876]	[380..1194]
mog-5 - RNA helicase status:Confirmed UniProt:Q09530 protein_id:AAC46765.1	0.0	[15..876]	[362..1169]
l(2)37Cb-PA - The gene lethal (2) 37Cb is referred to in FlyBase by the symbol Dmel\l(2)37Cb (CG10689, FBgn0086444...	0.0	[6..875]	[28..882]
gi\|14318701, gi\|... - gi\|30794426\|ref\|NP_081263.1\| DEAH (Asp-Glu-Ala-His) box polypeptide 16 [Mus musculus], gi\|223460667\|...	0.0	[6..875]	[176..1031]
ESP3_ARATH - Pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH1 OS=Arabidopsis thaliana GN=ESP3 PE=1 SV=1	0.0	[5..875]	[163..1034]
PRP22_SCHPO - Pre-mRNA-splicing factor ATP-dependent RNA helicase prp22 OS=Schizosaccharomyces pombe (strain 972 /... prp22 - ATP-dependent RNA helicase Prp22	0.0	[15..876]	[331..1141]

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Predicted Domain #1

Region A:
Residues: [1-165]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSITSETGK RRVKRTYEVT RQNDNAVRIE PSSLGEEEDK EAKDKNSALQ LKRSRYDPNK  60
   61 VFSNTNQGPE KNNLKGEQLG SQKKSSKYDE KITSNNELTT KKGLLGDSEN ETKYASSNSK 120
  121 FNVEVTHKIK NAKEIDKINR QRMWEEQQLR NAMAGQSDHP DDITL

[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 #2

Region A:
Residues: [166-600]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EGSDKYDYVF DTDAMIDYTN EEDDLLPEEK LQYEARLAQA LETEEKRILT IQEARKLLPV  60
   61 HQYKDELLQE IKKNQVLIIM GETGSGKTTQ LPQYLVEDGF TDQGKLQIAI TQPRRVAATS 120
  121 VAARVADEMN VVLGKEVGYQ IRFEDKTTPN KTVLKYMTDG MLLREFLTDS KLSKYSCIMI 180
  181 DEAHERTLAT DILIGLLKDI LPQRPTLKLL ISSATMNAKK FSEFFDNCPI FNVPGRRYPV 240
  241 DIHYTLQPEA NYIHAAITTI FQIHTTQSLP GDILVFLTGQ EEIERTKTKL EEIMSKLGSR 300
  301 TKQMIITPIY ANLPQEQQLK IFQPTPENCR KVVLATNIAE TSLTIDGIRY VIDPGFVKEN 360
  361 SYVPSTGMTQ LLTVPCSRAS VDQRAGRAGR VGPGKCFRIF TKWSYLHELE LMPKPEITRT 420
  421 NLSNTVLLLL SLGVT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	68.09691
Match:	1fuuA_
Description:	Initiation factor 4a
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
	4.704140727858	bayes_pls_golite062009
binding	2.44689197844883	bayes_pls_golite062009
RNA binding	2.29590582680214	bayes_pls_golite062009
structural constituent of ribosome	1.57653963868443	bayes_pls_golite062009
RNA helicase activity	1.42791449104435	bayes_pls_golite062009
nucleic acid binding	1.41477043612798	bayes_pls_golite062009
RNA-dependent ATPase activity	1.39335733374328	bayes_pls_golite062009
ATP-dependent RNA helicase activity	1.36724390116598	bayes_pls_golite062009
DNA binding	1.11699929651302	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
transcription regulator activity	0.989226939888218	bayes_pls_golite062009
mRNA binding	0.76699944561918	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.652333406433794	bayes_pls_golite062009
helicase activity	0.6191010101321	bayes_pls_golite062009
motor activity	0.61636596887462	bayes_pls_golite062009
structural molecule activity	0.596382945962261	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.461763181659193	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.458831409927227	bayes_pls_golite062009
pyrophosphatase activity	0.455976987338331	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.422944846459286	bayes_pls_golite062009
snRNA binding	0.418985924846052	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.29664013896754	bayes_pls_golite062009
ATP-dependent helicase activity	0.29664013896754	bayes_pls_golite062009
translation release factor activity	0.178286731022211	bayes_pls_golite062009
translation termination factor activity	0.151456842619444	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009
protein binding	0.071010918255742	bayes_pls_golite062009
transcription factor activity	0.0434163635422169	bayes_pls_golite062009
cytoskeletal protein binding	0.0272673919333979	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [601-697]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DLIKFPLMDK PSIPTLRKSL ENLYILGALN SKGTITRLGK MMCEFPCEPE FAKVLYTAAT  60
   61 HEQCQGVLEE CLTIVSMLHE TPSLFIGQKR DAAASVL

[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.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.889	0.073	pre-mRNA splicing factor activity	a.118.1	ARM repeat

Predicted Domain #4

Region A:
Residues: [698-876]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SEVESDHILY LEIFNQWRNS KFSRSWCQDH KIQFKTMLRV RNIRNQLFRC SEKVGLVEKN  60
   61 DQARMKIGNI AGYINARITR CFISGFPMNI VQLGPTGYQT MGRSSGGLNV SVHPTSILFV 120
  121 NHKEKAQRPS KYVLYQQLML TSKEFIRDCL VIPKEEWLID MVPQIFKDLI DDKTNRGRR

[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: