YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|123999428, gi...
Organism:	synthetic construct
Length:	835 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 gi|123999428, gi....

Description	E-value	Query Range	Subject Range
gi\|4507855, gi\|1... - gi\|4507855\|ref\|NP_003472.1\| Ubiquitin isopeptidase T [Homo sapiens], gi\|1008542\|gb\|AAA78934.1\| ubiqu...	0.0	[1..835]	[1..835]
gi\|60652821, gi\|... - gi\|60652821\|gb\|AAX29105.1\| ubiquitin specific protease 5 [synthetic construct], gi\|30583883\|gb\|AAP36...	0.0	[1..835]	[1..835]
gi\|114643109 - gi\|114643109\|ref\|XP_001163218.1\| PREDICTED: Ubiquitin isopeptidase T isoform 1 [Pan troglodytes]	0.0	[1..835]	[1..835]
gi\|109095362 - gi\|109095362\|ref\|XP_001110679.1\| PREDICTED: ubiquitin specific peptidase 5 (isopeptidase T) isoform ...	0.0	[1..835]	[1..835]
gi\|73997322 - gi\|73997322\|ref\|XP_867393.1\| PREDICTED: similar to Ubiquitin isopeptidase T isoform 2 [Canis familia...	0.0	[1..835]	[1..835]
gi\|109474197 - gi\|109474197\|ref\|XP_001063371.1\| PREDICTED: similar to Ubiquitin carboxyl-terminal hydrolase 5 (Ubiq...	0.0	[1..835]	[1..835]
gi\|74150576 - gi\|74150576\|dbj\|BAE32312.1\| unnamed protein product [Mus musculus]	0.0	[1..835]	[1..835]

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Predicted Domain #1

Region A:
Residues: [1-82]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAELSEEALL SVLPTIRVPK AGDRVHKDEC AFSFDTPESE GGLYICMNTF LGFGKQYVER  60
   61 HFNKTGQRVY LHLRRTRRPK EE

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.01
Match:	2idaA
Description:	No description for 2idaA was found.

Predicted functions:

Term	Confidence	Notes
small conjugating protein ligase activity	4.67600289365776	bayes_pls_golite062009
ubiquitin-protein ligase activity	4.4180348594722	bayes_pls_golite062009
acid-amino acid ligase activity	3.7630891050221	bayes_pls_golite062009
small conjugating protein-specific protease activity	3.26583764896015	bayes_pls_golite062009
ubiquitin-specific protease activity	3.19070920649427	bayes_pls_golite062009
binding	2.70912934275371	bayes_pls_golite062009
cysteine-type peptidase activity	2.63153614400976	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	2.33467249420642	bayes_pls_golite062009
transcription regulator activity	2.16379604127358	bayes_pls_golite062009
ubiquitin thiolesterase activity	2.02075518391878	bayes_pls_golite062009
nucleic acid binding	1.8142438325367	bayes_pls_golite062009
peptidase activity	1.63698757480466	bayes_pls_golite062009
hydrolase activity	1.63137875153947	bayes_pls_golite062009
transcription repressor activity	1.60954084225588	bayes_pls_golite062009
DNA binding	1.58326992587523	bayes_pls_golite062009
protein binding	1.48593945455888	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	1.29640196277559	bayes_pls_golite062009
thiolester hydrolase activity	0.912215968653949	bayes_pls_golite062009
ligase activity	0.905192840625194	bayes_pls_golite062009
transcription factor activity	0.86907979176353	bayes_pls_golite062009
transcription factor binding	0.852951089928981	bayes_pls_golite062009
endopeptidase activity	0.616289233269298	bayes_pls_golite062009
catalytic activity	0.168711389690753	bayes_pls_golite062009
transcription corepressor activity	0.102158909244177	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [83-174]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DPATGTGDPP RKKPTRLAIG VEGGFDLSEE KFELDEDVKI VILPDYLEIA RDGLGGLPDI  60
   61 VRDRVTSAVE ALLSADSASR KQEVQAWDGE VR

[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: [175-302]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QVSKHAFSLK QLDNPARIPP CGWKCSKCDM RENLWLNLTD GSILCGRRYF DGSGGNNHAV  60
   61 EHYRETGYPL AVKLGTITPD GADVYSYDED DMVLDPSLAE HLSHFGIDML KMQKTDKTMT 120
  121 ELEIDMNQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	26.522879
Match:	2g43A
Description:	No description for 2g43A was found.

Predicted functions:

Term	Confidence	Notes
small conjugating protein ligase activity	5.07217966392719	bayes_pls_golite062009
ubiquitin-protein ligase activity	4.8126353299115	bayes_pls_golite062009
acid-amino acid ligase activity	4.10679273350501	bayes_pls_golite062009
small conjugating protein-specific protease activity	3.4560986989594	bayes_pls_golite062009
ubiquitin-specific protease activity	3.40436079043913	bayes_pls_golite062009
binding	2.78710909602478	bayes_pls_golite062009
cysteine-type peptidase activity	2.7771990270637	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	2.61392853882074	bayes_pls_golite062009
ubiquitin thiolesterase activity	2.27286633653932	bayes_pls_golite062009
transcription regulator activity	2.19567497667142	bayes_pls_golite062009
nucleic acid binding	1.8231786231478	bayes_pls_golite062009
transcription repressor activity	1.6760679925861	bayes_pls_golite062009
peptidase activity	1.65048803233595	bayes_pls_golite062009
hydrolase activity	1.60298601235429	bayes_pls_golite062009
protein binding	1.5975811408548	bayes_pls_golite062009
DNA binding	1.57963451746197	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	1.31567868605385	bayes_pls_golite062009
ligase activity	1.1162212378358	bayes_pls_golite062009
thiolester hydrolase activity	1.04342463991885	bayes_pls_golite062009
transcription factor binding	0.98389047120322	bayes_pls_golite062009
transcription factor activity	0.862666257144125	bayes_pls_golite062009
endopeptidase activity	0.622312347613585	bayes_pls_golite062009
transcription corepressor activity	0.178227918600813	bayes_pls_golite062009
catalytic activity	0.14112008370434	bayes_pls_golite062009
transcription cofactor activity	0.0641990129080541	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [303-696]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RIGEWELIQE SGVPLKPLFG PGYTGIRNLG NSCYLNSVVQ VLFSIPDFQR KYVDKLEKIF  60
   61 QNAPTDPTQD FSTQVAKLGH GLLSGEYSKP VPESGDGERV PEQKEVQDGI APRMFKALIG 120
  121 KGHPEFSTNR QQDAQEFFLH LINMVERNCR SSENPNEVFR FLVEEKIKCL ATEKVKYTQR 180
  181 VDYIMQLPVP MDAALNKEEL LEYEEKKRQA EEEKMALPEL VRAQVPFSSC LEAYGAPEQV 240
  241 DDFWSTALQA KSVAVKTTRF ASFPDYLVIQ IKKFTFGLDW VPKKLDVSIE MPEELDISQL 300
  301 RGTGLQPGEE ELPDIAPPLV TPDEPKAPML DESVIIQLVE MGFPMDACRK AVYYTGNSGA 360
  361 EAAMNWVMSH MDDPDFANPL ILPGSSGPGS TSAA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.0
Match:	2ibiA
Description:	No description for 2ibiA was found.

Predicted functions:

Term	Confidence	Notes
cysteine-type peptidase activity	6.54685807643041	bayes_pls_golite062009
small conjugating protein-specific protease activity	6.39247995905454	bayes_pls_golite062009
ubiquitin-specific protease activity	5.91394445088241	bayes_pls_golite062009
peptidase activity	4.81781093386823	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	4.44809261178642	bayes_pls_golite062009
ubiquitin thiolesterase activity	4.1832081096766	bayes_pls_golite062009
hydrolase activity	3.74079711298952	bayes_pls_golite062009
endopeptidase activity	3.37014194828197	bayes_pls_golite062009
thiolester hydrolase activity	2.96735553959103	bayes_pls_golite062009
SUMO-specific protease activity	2.65263825059319	bayes_pls_golite062009
cysteine-type endopeptidase activity	1.95802900199539	bayes_pls_golite062009
binding	1.92046698500094	bayes_pls_golite062009
transcription regulator activity	1.60603067132723	bayes_pls_golite062009
nucleic acid binding	1.55390581517414	bayes_pls_golite062009
DNA binding	1.52072479259657	bayes_pls_golite062009
catalytic activity	1.05972260874031	bayes_pls_golite062009
protein binding	0.874003454509364	bayes_pls_golite062009
transcription factor activity	0.839300529252518	bayes_pls_golite062009
NEDD8-specific protease activity	0.687958315289315	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.467924587720185	bayes_pls_golite062009
kininogen binding	0.41283715939055	bayes_pls_golite062009
calcium-dependent cysteine-type endopeptidase activity	0.196538841514154	bayes_pls_golite062009
transferase activity	0.0852393573521809	bayes_pls_golite062009

Predicted Domain #5

Region A:
Residues: [697-835]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ADPPPEDCVT TIVSMGFSRD QALKALRATN NSLERAVDWI FSHIDDLDAE AAMDISEGRS  60
   61 AADSISESVP VGPKVRDGPG KYQLFAFISH MGTSTMCGHY VCHIKKEGRW VIYNDQKVCA 120
  121 SEKPPKDLGY IYFYQRVAS

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	4.11
Match:	2f1zA
Description:	Crystal structure of HAUSP
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:

Predicted functions: