YRC Public Data Repository - Protein Structure Prediction

Protein:	UBQ8_ARATH
Organism:	Arabidopsis thaliana
Length:	631 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 UBQ8_ARATH.

Description	E-value	Query Range	Subject Range
gi\|62204948 - gi\|62204948\|gb\|AAH93445.1\| UBC protein [Homo sapiens]	846.0	[0..1]	[631..21]

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Predicted Domain #1

Region A:
Residues: [1-141]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTIQIYAKTL TEKTITLDVE TSDSIHNVKA KIQNKEGIPL DQQRLIFAGK QLEDGLTLAD  60
   61 YNIQKESTLH LVLRLRGGMQ IFVQTLTGKT ITLEVKSSDT IDNVKAKIQD KEGILPRQQR 120
  121 LIFAGKQLED GRTLADYNIQ K

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.045757
Match:	1z2mA
Description:	Crystal Structure of ISG15, the Interferon-Induced Ubiquitin Cross Reactive Protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
small conjugating protein ligase activity	7.96815122865454	bayes_pls_golite062009
ubiquitin-protein ligase activity	7.5865326390755	bayes_pls_golite062009
acid-amino acid ligase activity	6.96506647680367	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.87890364671564	bayes_pls_golite062009
structural constituent of ribosome	5.80275625219016	bayes_pls_golite062009
structural molecule activity	5.37716040292459	bayes_pls_golite062009
ligase activity	2.98370000660434	bayes_pls_golite062009
protein binding	2.9188688008729	bayes_pls_golite062009
binding	2.786655943372	bayes_pls_golite062009
transcription regulator activity	2.21955949922709	bayes_pls_golite062009
tubulin binding	2.21127283188349	bayes_pls_golite062009
cytoskeletal protein binding	2.20811136250556	bayes_pls_golite062009
protein tag	2.15059229834935	bayes_pls_golite062009
nucleic acid binding	1.9984951714209	bayes_pls_golite062009
microtubule binding	1.92602521631666	bayes_pls_golite062009
DNA binding	1.86539227646379	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.06193722939839	bayes_pls_golite062009
SUMO ligase activity	0.80391127659342	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.62324312069889	bayes_pls_golite062009
hydrolase activity	0.614233748923048	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.536856055841234	bayes_pls_golite062009
kinase activity	0.506057697290914	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.410719674374641	bayes_pls_golite062009
RNA binding	0.359926300264681	bayes_pls_golite062009
protein kinase activity	0.325253662829604	bayes_pls_golite062009
enzyme binding	0.240262781026149	bayes_pls_golite062009
transferase activity	0.236208643697075	bayes_pls_golite062009
structure-specific DNA binding	0.0788219117963673	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [142-244]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ESTLHLVLRL CGGMQIFVST FSGKNFTSDT LTLKVESSDT IENVKAKIQD REGLRPDHQR  60
   61 LIFHGEELFT EDNRTLADYG IRNRSTLCLA LRLRGDMYIF VKN

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.77
Match:	2fazA
Description:	Ubiquitin-Like Domain of Human Nuclear Zinc Finger Protein NP95
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
small conjugating protein ligase activity	7.77976521481104	bayes_pls_golite062009
ubiquitin-protein ligase activity	7.45825282569124	bayes_pls_golite062009
acid-amino acid ligase activity	6.82424077726436	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.78164148882937	bayes_pls_golite062009
structural constituent of ribosome	5.77326793355348	bayes_pls_golite062009
structural molecule activity	5.36311620867914	bayes_pls_golite062009
ligase activity	2.93949076291021	bayes_pls_golite062009
protein binding	2.78014377544701	bayes_pls_golite062009
binding	2.70872150536621	bayes_pls_golite062009
transcription regulator activity	2.23822335492051	bayes_pls_golite062009
cytoskeletal protein binding	2.11984570584255	bayes_pls_golite062009
tubulin binding	2.03607606145909	bayes_pls_golite062009
nucleic acid binding	2.02209816078273	bayes_pls_golite062009
DNA binding	1.8833926783115	bayes_pls_golite062009
microtubule binding	1.75926256048235	bayes_pls_golite062009
protein tag	1.64936739586738	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.04462787665591	bayes_pls_golite062009
hydrolase activity	0.633589926944629	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.624731467637361	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.549761413791307	bayes_pls_golite062009
kinase activity	0.520011006272513	bayes_pls_golite062009
SUMO ligase activity	0.469920108401949	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.426082194130922	bayes_pls_golite062009
RNA binding	0.3655923364304	bayes_pls_golite062009
protein kinase activity	0.336252604607827	bayes_pls_golite062009
transferase activity	0.254827223108985	bayes_pls_golite062009
enzyme binding	0.147520546067615	bayes_pls_golite062009
structure-specific DNA binding	0.0623044995795676	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [245-316]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPYNSFTGEN FILEVESSDT IDNVKAKLQD KERIPMDLHR LIFAGKPLEG GRTLAHYNIQ  60
   61 KGSTLYLVTR FR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	12.69897
Match:	1we7A
Description:	Solution structure of Ubiquitin-like domain in SF3a120
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
small conjugating protein ligase activity	7.96815122865454	bayes_pls_golite062009
ubiquitin-protein ligase activity	7.5865326390755	bayes_pls_golite062009
acid-amino acid ligase activity	6.96506647680367	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.87890364671564	bayes_pls_golite062009
structural constituent of ribosome	5.80275625219016	bayes_pls_golite062009
structural molecule activity	5.37716040292459	bayes_pls_golite062009
ligase activity	2.98370000660434	bayes_pls_golite062009
protein binding	2.9188688008729	bayes_pls_golite062009
binding	2.786655943372	bayes_pls_golite062009
transcription regulator activity	2.21955949922709	bayes_pls_golite062009
tubulin binding	2.21127283188349	bayes_pls_golite062009
cytoskeletal protein binding	2.20811136250556	bayes_pls_golite062009
protein tag	2.15059229834935	bayes_pls_golite062009
nucleic acid binding	1.9984951714209	bayes_pls_golite062009
microtubule binding	1.92602521631666	bayes_pls_golite062009
DNA binding	1.86539227646379	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.06193722939839	bayes_pls_golite062009
SUMO ligase activity	0.80391127659342	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.62324312069889	bayes_pls_golite062009
hydrolase activity	0.614233748923048	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.536856055841234	bayes_pls_golite062009
kinase activity	0.506057697290914	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.410719674374641	bayes_pls_golite062009
RNA binding	0.359926300264681	bayes_pls_golite062009
protein kinase activity	0.325253662829604	bayes_pls_golite062009
enzyme binding	0.240262781026149	bayes_pls_golite062009
transferase activity	0.236208643697075	bayes_pls_golite062009
structure-specific DNA binding	0.0788219117963673	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [317-401]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 CGMQIFVKTL TRKRINLEVE SWDTIENVKA MVQDKEGIQP QPNLQRLIFL GKELKDGCTL  60
   61 ADYSIQKEST LHLVLGMQIF VKLFG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	4.33
Match:	1uelA
Description:	Solution structure of ubiquitin-like domain of hHR23B complexed with ubiquitin-interacting motif of proteasome subunit S5a
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
small conjugating protein ligase activity	7.77976521481104	bayes_pls_golite062009
ubiquitin-protein ligase activity	7.45825282569124	bayes_pls_golite062009
acid-amino acid ligase activity	6.82424077726436	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.78164148882937	bayes_pls_golite062009
structural constituent of ribosome	5.77326793355348	bayes_pls_golite062009
structural molecule activity	5.36311620867914	bayes_pls_golite062009
ligase activity	2.93949076291021	bayes_pls_golite062009
protein binding	2.78014377544701	bayes_pls_golite062009
binding	2.70872150536621	bayes_pls_golite062009
transcription regulator activity	2.23822335492051	bayes_pls_golite062009
cytoskeletal protein binding	2.11984570584255	bayes_pls_golite062009
tubulin binding	2.03607606145909	bayes_pls_golite062009
nucleic acid binding	2.02209816078273	bayes_pls_golite062009
DNA binding	1.8833926783115	bayes_pls_golite062009
microtubule binding	1.75926256048235	bayes_pls_golite062009
protein tag	1.64936739586738	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.04462787665591	bayes_pls_golite062009
hydrolase activity	0.633589926944629	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.624731467637361	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.549761413791307	bayes_pls_golite062009
kinase activity	0.520011006272513	bayes_pls_golite062009
SUMO ligase activity	0.469920108401949	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.426082194130922	bayes_pls_golite062009
RNA binding	0.3655923364304	bayes_pls_golite062009
protein kinase activity	0.336252604607827	bayes_pls_golite062009
transferase activity	0.254827223108985	bayes_pls_golite062009
enzyme binding	0.147520546067615	bayes_pls_golite062009
structure-specific DNA binding	0.0623044995795676	bayes_pls_golite062009

Predicted Domain #5

Region A:
Residues: [402-468]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GKIITLEVLS SDTIKSVKAK IQDKVGSPPD QQILLFRGGQ LQDGRTLGDY NIRNESTLHL  60
   61 FFHIRHG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	6.221849
Match:	1x1mA
Description:	Solution Structure of the N-terminal Ubiquitin-like Domain in Mouse Ubiquitin-like Protein SB132
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
small conjugating protein ligase activity	7.96815122865454	bayes_pls_golite062009
ubiquitin-protein ligase activity	7.5865326390755	bayes_pls_golite062009
acid-amino acid ligase activity	6.96506647680367	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.87890364671564	bayes_pls_golite062009
structural constituent of ribosome	5.80275625219016	bayes_pls_golite062009
structural molecule activity	5.37716040292459	bayes_pls_golite062009
ligase activity	2.98370000660434	bayes_pls_golite062009
protein binding	2.9188688008729	bayes_pls_golite062009
binding	2.786655943372	bayes_pls_golite062009
transcription regulator activity	2.21955949922709	bayes_pls_golite062009
tubulin binding	2.21127283188349	bayes_pls_golite062009
cytoskeletal protein binding	2.20811136250556	bayes_pls_golite062009
protein tag	2.15059229834935	bayes_pls_golite062009
nucleic acid binding	1.9984951714209	bayes_pls_golite062009
microtubule binding	1.92602521631666	bayes_pls_golite062009
DNA binding	1.86539227646379	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.06193722939839	bayes_pls_golite062009
SUMO ligase activity	0.80391127659342	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.62324312069889	bayes_pls_golite062009
hydrolase activity	0.614233748923048	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.536856055841234	bayes_pls_golite062009
kinase activity	0.506057697290914	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.410719674374641	bayes_pls_golite062009
RNA binding	0.359926300264681	bayes_pls_golite062009
protein kinase activity	0.325253662829604	bayes_pls_golite062009
enzyme binding	0.240262781026149	bayes_pls_golite062009
transferase activity	0.236208643697075	bayes_pls_golite062009
structure-specific DNA binding	0.0788219117963673	bayes_pls_golite062009

Predicted Domain #6

Region A:
Residues: [469-538]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQIFVKTFSF SGETPTCKTI TLEVESSDTI DNVKVKIQHK VGIPLDRQRL IFGGRVLVGS  60
   61 RTLLDYNIQK

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	4.84
Match:	2nvuI
Description:	No description for 2nvuI was found.

Predicted functions:

Term	Confidence	Notes
small conjugating protein ligase activity	7.77976521481104	bayes_pls_golite062009
ubiquitin-protein ligase activity	7.45825282569124	bayes_pls_golite062009
acid-amino acid ligase activity	6.82424077726436	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	5.78164148882937	bayes_pls_golite062009
structural constituent of ribosome	5.77326793355348	bayes_pls_golite062009
structural molecule activity	5.36311620867914	bayes_pls_golite062009
ligase activity	2.93949076291021	bayes_pls_golite062009
protein binding	2.78014377544701	bayes_pls_golite062009
binding	2.70872150536621	bayes_pls_golite062009
transcription regulator activity	2.23822335492051	bayes_pls_golite062009
cytoskeletal protein binding	2.11984570584255	bayes_pls_golite062009
tubulin binding	2.03607606145909	bayes_pls_golite062009
nucleic acid binding	2.02209816078273	bayes_pls_golite062009
DNA binding	1.8833926783115	bayes_pls_golite062009
microtubule binding	1.75926256048235	bayes_pls_golite062009
protein tag	1.64936739586738	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.04462787665591	bayes_pls_golite062009
hydrolase activity	0.633589926944629	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.624731467637361	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.549761413791307	bayes_pls_golite062009
kinase activity	0.520011006272513	bayes_pls_golite062009
SUMO ligase activity	0.469920108401949	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.426082194130922	bayes_pls_golite062009
RNA binding	0.3655923364304	bayes_pls_golite062009
protein kinase activity	0.336252604607827	bayes_pls_golite062009
transferase activity	0.254827223108985	bayes_pls_golite062009
enzyme binding	0.147520546067615	bayes_pls_golite062009
structure-specific DNA binding	0.0623044995795676	bayes_pls_golite062009

Predicted Domain #7

Region A:
Residues: [539-631]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GSTIHQLFLQ RGGMQIFIKT LTGKTIILEV ESSDTIANVK EKIQVKEGIK PDQQMLIFFG  60
   61 QQLEDGVTLG DYDIHKKSTL YLVLRLRQRR YDF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	31.0
Match:	2ojrA
Description:	No description for 2ojrA was found.

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:

Predicted functions:

Predicted functions:

Predicted functions: