YRC Public Data Repository - Protein Structure Prediction

Protein:	UBP12
Organism:	Saccharomyces cerevisiae
Length:	1254 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

[What does the above image mean?]

[Show Ginzu Version Information]

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 UBP12.

Description	E-value	Query Range	Subject Range
UBP12 - Ubiquitin carboxyl-terminal hydrolase, ubiquitin-specific protease present in the nucleus and cytopl... UBP12_YEAST - Ubiquitin carboxyl-terminal hydrolase 12 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN...	0.0	[1..1254]	[1..1254]
UBP12_SCHPO - Probable ubiquitin carboxyl-terminal hydrolase 12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24... ubp12 - ubiquitin C-terminal hydrolase Ubp12	0.0	[87..1112]	[39..979]
gi\|109097590 - gi\|109097590\|ref\|XP_001116737.1\| PREDICTED: ubiquitin specific peptidase 15 isoform 2 [Macaca mulatt... gi\|168267398 - gi\|168267398\|dbj\|BAG09755.1\| ubiquitin carboxyl-terminal hydrolase 15 [synthetic construct] gi\|119617512, gi... - gi\|5814097\|gb\|AAD52099.1\|AF106069_1 deubiquitinating enzyme [Homo sapiens], gi\|20521071\|dbj\|BAA25455...	0.0	[92..839]	[2..712]
UBP15_RAT - Ubiquitin carboxyl-terminal hydrolase 15 OS=Rattus norvegicus GN=Usp15 PE=1 SV=1	0.0	[92..839]	[2..712]
UBP15_MOUSE - Ubiquitin carboxyl-terminal hydrolase 15 OS=Mus musculus GN=Usp15 PE=1 SV=1	0.0	[92..839]	[2..741]
gi\|5669678 - gi\|5669678\|gb\|AAD46422.1\|AF105715_1 ubiquitous nuclear protein [Gallus gallus]	0.0	[92..875]	[2..746]

Back

Predicted Domain #1

Region A:
Residues: [1-90]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGSSDVSSRE CSLVYNEDPD FTDGTTPCDR LGVDLMNVLD DKDEIKQESV PVSDREIEDT  60
   61 ESDASAVSSF ASANELIAEP HAASETNLGT

[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: [91-334]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NGQDGRNVLE QQRDVVARLI EENKETQKEG DKVCIVPKVW YDKFFDPDVT DPEDIGPINT  60
   61 RMICRDFENF VLEDYNRCPY LSIAEPVFNF LSEIYGMTSG SYPVVTNLVI NQTTGELETE 120
  121 YNKWFFRLHY LTEKQDGRKR RHGQDDSIMY LSMSALNLVR DLVEKSMNLF FEKADHLDVN 180
  181 AVDFKIWFVS EGSDIATDSN VSTFLNSSYE ITPLQFLELP IKKLLIPDMF ENRLDKITSN 240
  241 PSDL

[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 functions:

Term	Confidence	Notes
binding	1.65407544330213	bayes_pls_golite062009
protein binding	0.63630897700088	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [335-405]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VIEIKPIEGN HHWPSNYFAY NKLEPASGTT GLVNLGNTCY MNSALQCLVH IPQLRDYFLY  60
   61 DGYEDEINEE N

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	18.958607
Match:	PF00442
Description:	No description for PF00442 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 functions:

Term	Confidence	Notes
binding	1.40860698445222	bayes_pls_golite062009
protein binding	0.38968855779244	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [406-718]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PLGYHGYVAR AFSDLVQKLF QNRMSIMQRN AAFPPSMFKS TIGHFNSMFS GYMQQDSQEF  60
   61 LAFLLDSLHE DLNRIIKKEY TEKPSLSPGD DVNDWNVVKK LADDTWEMHL KRNCSVITDL 120
  121 FVGMYKSTLY CPECQNVSIT FDPYNDVTLP LPVDTVWDKT IKIFPMNSPP LLLEVELSKS 180
  181 STYMDLKNYV GKMSGLDPNT LFGCEIFSNQ IYVNYESTES NAQFLTLQEL IKPADDVIFY 240
  241 ELPVTNDNEV IVPVLNTRIE KGYKNAMLFG VPFFITLKED ELNNPGAIRM KLQNRFVHLS 300
  301 GGYIPFPEPV GNR

[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 #5

Region A:
Residues: [719-911]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TDFADAFPLL VEKYPDVEFE QYKDILQYTS IKVTDKDKSF FSIKILSVEK EQQFASNNRT  60
   61 GPNFWTPISQ LNLDKATDID DKLEDVVKDI YNYSSLVDCA EGVLMQVDDE GDTEGSEAKN 120
  121 FSKPFQSGDD EENKETVTNN ENVNNTNDRD EDMELTDDVE EDASTEPELT DKPEALDKIK 180
  181 DSLTSTPFAI LSM

[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 #6

Region A:
Residues: [912-1035]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NDIIVCEWSE LGSNEAFSDD KIYNWENPAT LPNKELENAK LERSNAKERT ITLDDCLQLF  60
   61 SKPEILGLTD SWYCPTCKEH RQATKQIQLW NTPDILLIHL KRFESQRSFS DKIDATVNFP 120
  121 ITDL

[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 #7

Region A:
Residues: [1036-1171]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DLSRYVVYKD DPRGLIYDLY AVDNHYGGLG GGHYTAYVKN FADNKWYYFD DSRVTETAPE  60
   61 NSIAGSAYLL FYIRRHKDGN GLGSSKLQEI IQKSRHGYDE RIKKIYDEQM KLYEFNKTDE 120
  121 EEDVSDDMIE CNEDVQ

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	25.721246
Match:	PF00443
Description:	Ubiquitin carboxyl-terminal hydrolase

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 #8

Region A:
Residues: [1172-1254]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 APEYSNRSLE VGHIETQDCN DEDDNDDGER TNSGRRKLRL LKKVYKNNSG LGSSSTSEIS  60
   61 EGCPENEVAD LNLKNGVTLE SPE

[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.

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: