YRC Public Data Repository - Protein Structure Prediction

Protein:	PRPF19
Organism:	Homo sapiens
Length:	504 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 PRPF19.

Description	E-value	Query Range	Subject Range
gi\|186464325, gi... - gi\|23128981\|ref\|ZP_00110817.1\| COG2319: FOG: WD40 repeat [Nostoc punctiforme PCC 73102], gi\|18668187...	0.0	[10..504]	[1242..1747]
gi\|75701503, gi\|... - gi\|75907778\|ref\|YP_322074.1\| ribosome assembly protein 4 (RSA4) [Anabaena variabilis ATCC 29413], gi...	0.0	[10..504]	[1072..1575]
gi\|37523925, gi\|... - gi\|37523925\|ref\|NP_927302.1\| WD repeat-containing protein [Gloeobacter violaceus PCC 7421], gi\|35214...	0.0	[10..503]	[638..1143]
YY46_NOSS1 - Uncharacterized WD repeat-containing protein alr3466 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=... gi\|25530855 - pir\|\|AC2239 WD-40 repeat protein [imported] - Nostoc sp. (strain PCC 7120)	0.0	[45..504]	[1023..1481]
gi\|17225208 - gi\|17225208\|gb\|AAL37300.1\|AF323584_1 beta transducin-like protein HET-E2C*40 [Podospora anserina]	0.0	[1..503]	[741..1247]
gi\|116200089, gi... - gi\|88179479\|gb\|EAQ86947.1\| hypothetical protein CHGG_08200 [Chaetomium globosum CBS 148.51], gi\|1162...	0.0	[38..503]	[937..1401]

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Predicted Domain #1

Region A:
Residues: [1-64]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLICSISNE VPEHPCVSPV SNHVYERRLI EKYIAENGTD PINNQPLSEE QLIDIKVAHP  60
   61 IRPK

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	4.28
Match:	1wgmA
Description:	Solution structure of the U-box in human ubiquitin conjugation factor E4A
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ubiquitin-protein ligase activity	9.85513873918659	bayes_pls_golite062009
small conjugating protein ligase activity	9.6498820226444	bayes_pls_golite062009
acid-amino acid ligase activity	8.65014213775678	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	7.41958646938187	bayes_pls_golite062009
	4.72885746116757	bayes_pls_golite062009
ligase activity	3.71574519150582	bayes_pls_golite062009
RNA binding	3.00624142341404	bayes_pls_golite062009
binding	2.70912934275371	bayes_pls_golite062009
transcription regulator activity	2.69310847474187	bayes_pls_golite062009
protein binding	2.53639372327734	bayes_pls_golite062009
nucleic acid binding	2.31493818053907	bayes_pls_golite062009
DNA binding	2.0126776192216	bayes_pls_golite062009
SUMO polymer binding	1.98746860482839	bayes_pls_golite062009
transcription repressor activity	1.91556680192956	bayes_pls_golite062009
SMAD binding	1.71970331089852	bayes_pls_golite062009
transcription factor activity	1.23220438818624	bayes_pls_golite062009
ubiquitin-ubiquitin ligase activity	1.03473176569589	bayes_pls_golite062009
small conjugating protein-specific protease activity	1.02238152139385	bayes_pls_golite062009
transcription factor binding	0.987482369490121	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.937930843160931	bayes_pls_golite062009
ubiquitin-specific protease activity	0.821040441472875	bayes_pls_golite062009
copper ion binding	0.622487660255715	bayes_pls_golite062009
hydrolase activity	0.552260876472222	bayes_pls_golite062009
cysteine-type peptidase activity	0.356312424125648	bayes_pls_golite062009
transcription corepressor activity	0.308921486763847	bayes_pls_golite062009
metal ion binding	0.18132240757103	bayes_pls_golite062009
cation binding	0.18132240757103	bayes_pls_golite062009
ion binding	0.176492524214768	bayes_pls_golite062009
catalytic activity	0.168711389690753	bayes_pls_golite062009
transcription cofactor activity	0.137379573046724	bayes_pls_golite062009
transcription activator activity	0.111490592727037	bayes_pls_golite062009
transition metal ion binding	0.0854849739238891	bayes_pls_golite062009
enzyme binding	0.0252200602272163	bayes_pls_golite062009
ubiquitin thiolesterase activity	0.0136579100966835	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [65-202]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PPSATSIPAI LKALQDEWDA VMLHSFTLRQ QLQTTRQELS HALYQHDAAC RVIARLTKEV  60
   61 TAAREALATL KPQAGLIVPQ AVPSSQPSVV GAGEPMDLGE LVGMTPEIIQ KLQDKATVLT 120
  121 TERKKRGKTV PEELVKPE

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	40.148742
Match:	PF08606.2
Description:	No description for PF08606.2 was found.

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: [203-504]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ELSKYRQVAS HVGLHSASIP GILALDLCPS DTNKILTGGA DKNVVVFDKS SEQILATLKG  60
   61 HTKKVTSVVF HPSQDLVFSA SPDATIRIWS VPNASCVQVV RAHESAVTGL SLHATGDYLL 120
  121 SSSDDQYWAF SDIQTGRVLT KVTDETSGCS LTCAQFHPDG LIFGTGTMDS QIKIWDLKER 180
  181 TNVANFPGHS GPITSIAFSE NGYYLATAAD DSSVKLWDLR KLKNFKTLQL DNNFEVKSLI 240
  241 FDQSGTYLAL GGTDVQIYIC KQWTEILHFT EHSGLTTGVA FGHHAKFIAS TGMDRSLKFY 300
  301 SL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	69.69897
Match:	1vyhC
Description:	PAF-AH Holoenzyme: Lis1/Alfa2
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ubiquitin-protein ligase activity	7.6976390971701	bayes_pls_golite062009
small conjugating protein ligase activity	7.38724968585043	bayes_pls_golite062009
	6.67009948605948	bayes_pls_golite062009
acid-amino acid ligase activity	6.41826641115519	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.36089569430187	bayes_pls_golite062009
actin binding	3.86142918698875	bayes_pls_golite062009
RNA binding	3.77273677738815	bayes_pls_golite062009
GTPase activity	3.23750443966606	bayes_pls_golite062009
cytoskeletal protein binding	3.1056443224755	bayes_pls_golite062009
tubulin binding	2.76945430061825	bayes_pls_golite062009
microtubule binding	2.72684103222924	bayes_pls_golite062009
dynein binding	2.54821997913979	bayes_pls_golite062009
binding	2.42570478946173	bayes_pls_golite062009
transcription regulator activity	2.3610959773142	bayes_pls_golite062009
nucleic acid binding	2.30918780727915	bayes_pls_golite062009
transcription repressor activity	2.29049708962212	bayes_pls_golite062009
snoRNA binding	2.27164613239345	bayes_pls_golite062009
protein binding	2.26925404328312	bayes_pls_golite062009
actin filament binding	2.0735069176589	bayes_pls_golite062009
dynactin binding	1.92897254169098	bayes_pls_golite062009
ligase activity	1.82531515493699	bayes_pls_golite062009
DNA binding	1.71685536470455	bayes_pls_golite062009
structural molecule activity	1.47097979074281	bayes_pls_golite062009
transcription corepressor activity	1.41752877005447	bayes_pls_golite062009
transporter activity	1.21549336905926	bayes_pls_golite062009
receptor activity	1.12819778129653	bayes_pls_golite062009
G-protein-coupled receptor binding	1.11754260203517	bayes_pls_golite062009
transcription factor activity	1.08768505897883	bayes_pls_golite062009
mRNA binding	1.05053985350578	bayes_pls_golite062009
microtubule plus-end binding	1.01166033978052	bayes_pls_golite062009
myosin binding	0.989691178611801	bayes_pls_golite062009
molecular transducer activity	0.974380908248463	bayes_pls_golite062009
signal transducer activity	0.974380908248463	bayes_pls_golite062009
protein transporter activity	0.964340340346761	bayes_pls_golite062009
type 1 angiotensin receptor binding	0.920323565472959	bayes_pls_golite062009
angiotensin receptor binding	0.920323565472959	bayes_pls_golite062009
substrate-specific transporter activity	0.734793983890004	bayes_pls_golite062009
transcription factor binding	0.489473003915035	bayes_pls_golite062009
dynein intermediate chain binding	0.443846546939402	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.426429095658617	bayes_pls_golite062009
kinase activity	0.387572734234845	bayes_pls_golite062009
transcription cofactor activity	0.30761651528651	bayes_pls_golite062009
myosin heavy chain kinase activity	0.231534552000461	bayes_pls_golite062009
protein kinase activity	0.229242350006544	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.226335610368636	bayes_pls_golite062009
hydrolase activity	0.181211933860468	bayes_pls_golite062009
histone binding	0.166694897714113	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.132660456600365	bayes_pls_golite062009
structural constituent of cytoskeleton	0.118975415284669	bayes_pls_golite062009
receptor binding	0.0390635451962911	bayes_pls_golite062009
myosin II binding	0.0145748031956598	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.00585398682921312	bayes_pls_golite062009

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: