Citrus Sinensis ID: 028610

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200------
Protein Sequence
MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGVCQIGVIGQKEAVEHAQATGHVNFQEYR
Secondary Structure (PSIPRED)
cccEEEEEEccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccccccccccHHHHHHHHccccccccHHHHHHHHHHHcccEEEEEccccEEEEcccccccEEEEEEcccccEEEEEccccccccccccEEEEccccccccHHHHHHHHHHHHHHHccccccccccEEEccccccccccHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEEccccccHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHcHHHcccccHHHHHHHHccccccHHHHHHHHHHHcccEEEEEEccccEEEEcccccccEEEEEEcccccccEEEcccccccccccEEEEccccHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEEcccccEccHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
MEGIIVRrvipsdnsclFNAVGYvmehdknkapELRQVIAATvasdpvkyseaflgksnQEYCSWiqdpekwggaIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGlhydalaispfegapeefdqtifpvqkgrtigpaEDLALKLVKEQQRkktytdtanftlrcgvcqigviGQKEAVEHAQATghvnfqeyr
Flexible Loop (DISEMBL)
megiivrrvipsdnscLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQrkktytdtanftlRCGVCQIGVIGQKEAVEHAQatghvnfqeyr
Low Complexity Region (SEG)
MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGVCQIGVIGQKEAVEHAQATGHVNFQEYR
Disordered region (IsUnstruct)
***IIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGVCQIGVIGQKEAVEH*************
Disordered Region (DISOPRED)
*EGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGLHYDALAISPF***PEEFDQTIFPVQKGRTIGPAEDL********Q**KTYTDTANFTLRCGVCQIGVIGQKEAVEHAQATGH**FQ***
Disordered Region (DISEMBL)
MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGVCQIGVIGQKEAVEHAQATGHVNFQEYR
Disordered Region (DISPRO)
*EGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGVCQIGVIGQKEAVE********N*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGVCQIGVIGQKEAVEHAQATGHVNFQEYR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	206	2.2.26 [Sep-21-2011]
Q55BI3	325	Ubiquitin thioesterase OT	yes	no	0.966	0.612	0.509	8e-52
Q567B1	301	Ubiquitin thioesterase OT	yes	no	0.941	0.644	0.502	2e-51
Q5F3A6	302	Ubiquitin thioesterase OT	yes	no	0.941	0.642	0.507	2e-50
Q5VVQ6	348	Ubiquitin thioesterase OT	yes	no	0.927	0.548	0.485	1e-47
Q8CB27	343	Ubiquitin thioesterase OT	yes	no	0.927	0.556	0.471	4e-47
Q32Q05	343	Ubiquitin thioesterase OT	no	no	0.927	0.556	0.471	1e-46
Q05B57	348	Ubiquitin thioesterase OT	yes	no	0.927	0.548	0.471	6e-46
Q9VRJ9	347	Ubiquitin thioesterase OT	yes	no	0.946	0.561	0.446	1e-45
Q0IH43	304	Ubiquitin thioesterase OT	N/A	no	0.941	0.638	0.473	8e-45
Q29FC9	358	Ubiquitin thioesterase OT	yes	no	0.946	0.544	0.412	1e-42

>sp|Q55BI3|OTU1_DICDI Ubiquitin thioesterase OTU1 OS=Dictyostelium discoideum GN=yod1 PE=3 SV=1

 Score =  203 bits (516), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 106/208 (50%), Positives = 138/208 (66%), Gaps = 9/208 (4%)

Query: 3   GIIVRRVIPSDNSCLFNAVGYVMEHDKN--KAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           G   RRV   DNSCLF+AV YV+E DKN  K   LR +IA  V SDP +Y+EA LGKSN+
Sbjct: 121 GYATRRVTDDDNSCLFSAVAYVLE-DKNRLKGYSLRALIAQNVKSDPFEYNEAVLGKSNE 179

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ--KYSERVMLIYDGLH 118
            YC+WIQ+P+ WGGAIELSIL+++Y  EIAA+DI T     YG+  KY+ERV LIYDG+H
Sbjct: 180 GYCNWIQNPKNWGGAIELSILSNHYKVEIAAFDISTQLMYCYGEDRKYTERVYLIYDGIH 239

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDAL+I   +  PE+FD T F V    ++   +     L++++ +   +TDTA F+L C 
Sbjct: 240 YDALSICLTKNGPEDFDITRFSVDDKDSLAKMK----VLIEKEFKAGKFTDTAKFSLICL 295

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
            C   + G+KEA  HA  TGH NF EY+
Sbjct: 296 NCNKTLKGEKEAAIHASTTGHGNFTEYK 323

Hydrolase that can remove conjugated ubiquitin from proteins and may therefore play an important regulatory role at the level of protein turnover by preventing degradation.
Dictyostelium discoideum (taxid: 44689)
EC: 3EC: .EC: 4EC: .EC: 1EC: 9EC: .EC: 1EC: 2

>sp|Q567B1|OTU1_DANRE Ubiquitin thioesterase OTU1 OS=Danio rerio GN=yod1 PE=2 SV=1

 Score =  202 bits (513), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 104/207 (50%), Positives = 136/207 (65%), Gaps = 13/207 (6%)

Query: 4   IIVRRVIPSDNSCLFNAVGYVME---HDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           ++ RRV+P+DNSCLF +V YVME   +D   A E+R +IA  VASDP  YSEA LGK+N+
Sbjct: 101 VVERRVVPADNSCLFTSVNYVMEGGVYDPACASEMRGLIAQIVASDPTAYSEAVLGKTNE 160

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC+WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct: 161 EYCTWIRRDDTWGGAIEVSILSKFYQCEICVVDTQTVRVDRFGEDAGYTKRVLLIYDGIH 220

Query: 119 YDAL-AISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRC 177
           YD L  + P    P    QT+F       +      AL+L  E +RK+ +TD   F LRC
Sbjct: 221 YDPLQKVLPGSDVPA---QTVFSTVDDVILAQ----ALELADEARRKRQFTDVNRFALRC 273

Query: 178 GVCQIGVIGQKEAVEHAQATGHVNFQE 204
            VCQ G++GQKEA EHA+ TGH NF E
Sbjct: 274 MVCQTGLVGQKEAREHAKETGHTNFGE 300

Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q5F3A6|OTU1_CHICK Ubiquitin thioesterase OTU1 OS=Gallus gallus GN=YOD1 PE=2 SV=1

 Score =  198 bits (504), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 105/207 (50%), Positives = 133/207 (64%), Gaps = 13/207 (6%)

Query: 4   IIVRRVIPSDNSCLFNAVGYVME---HDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           ++ RRV+P+DNSCLF +V YV+E   +D   APE+R +IA  VASDP  Y EA LGK+N+
Sbjct: 102 VLARRVVPADNSCLFTSVYYVVEGGVYDPGCAPEMRSLIAQIVASDPEAYCEAVLGKTNR 161

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC WI+  E WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct: 162 EYCEWIRREETWGGAIEVSILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 221

Query: 119 YDALAIS-PFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRC 177
           YD L    P    P    QTIF       +      AL+L  E +RK+ +TD   FTLRC
Sbjct: 222 YDPLERKIPDSDVPP---QTIFSTTDDVVLAQ----ALELADEARRKRQFTDVNRFTLRC 274

Query: 178 GVCQIGVIGQKEAVEHAQATGHVNFQE 204
            VCQ G+ GQ EA EHA+ TGH NF E
Sbjct: 275 MVCQKGLTGQVEAREHAKETGHTNFGE 301

Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel.

Gallus gallus (taxid: 9031)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q5VVQ6|OTU1_HUMAN Ubiquitin thioesterase OTU1 OS=Homo sapiens GN=YOD1 PE=1 SV=1

 Score =  189 bits (480), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 102/210 (48%), Positives = 136/210 (64%), Gaps = 19/210 (9%)

Query: 4   IIVRRVIPSDNSCLFNAVGYVMEH---DKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           ++ R V+P+DNSCLF +V YV+E    +   APE+R++IA  VASDP  YSEA LGK+NQ
Sbjct: 148 VLTRTVVPADNSCLFTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQ 207

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct: 208 EYCDWIKRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 267

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDL----ALKLVKEQQRKKTYTDTANFT 174
           YD L  +  +  P+    TIF           +D+    AL+L  E +R++ +TD   FT
Sbjct: 268 YDPLQRNFPD--PDTPPLTIFSSN--------DDIVLVQALELADEARRRRQFTDVNRFT 317

Query: 175 LRCGVCQIGVIGQKEAVEHAQATGHVNFQE 204
           LRC VCQ G+ GQ EA EHA+ TGH NF E
Sbjct: 318 LRCMVCQKGLTGQAEAREHAKETGHTNFGE 347

Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel. Mediates deubiquitination of both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains. Able to cleave both polyubiquitin and di-ubiquitin.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q8CB27|OTU1_MOUSE Ubiquitin thioesterase OTU1 OS=Mus musculus GN=Yod1 PE=1 SV=1

 Score =  187 bits (475), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 99/210 (47%), Positives = 136/210 (64%), Gaps = 19/210 (9%)

Query: 4   IIVRRVIPSDNSCLFNAVGYVMEH---DKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           ++ R  +P+DNSCLF +V YV+E    +   APE+R++IA  VASDPV YSEA LGK+N+
Sbjct: 143 VLTRTAVPADNSCLFTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPVLYSEAILGKTNE 202

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           +YC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct: 203 DYCDWIRRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 262

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDL----ALKLVKEQQRKKTYTDTANFT 174
           YD L  +  +  P+    TIF           +D+    AL+L  E +RK+ +TD   FT
Sbjct: 263 YDPLQRNFPD--PDTPPLTIFSSN--------DDIVLVQALELADEARRKRQFTDVNRFT 312

Query: 175 LRCGVCQIGVIGQKEAVEHAQATGHVNFQE 204
           LRC +CQ G+ GQ EA +HA+ TGH NF E
Sbjct: 313 LRCMICQKGLTGQAEARDHARETGHTNFGE 342

Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel. Mediates deubiquitination of both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains. Able to cleave both polyubiquitin and di-ubiquitin.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q32Q05|OTU1_RAT Ubiquitin thioesterase OTU1 OS=Rattus norvegicus GN=Yod1 PE=2 SV=1

 Score =  185 bits (470), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 99/210 (47%), Positives = 135/210 (64%), Gaps = 19/210 (9%)

Query: 4   IIVRRVIPSDNSCLFNAVGYVMEH---DKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           ++ R  +P+DNSCLF +V YV+E    +   APE+R++IA  VASDP  YSEA LGK+N+
Sbjct: 143 VLTRTAVPADNSCLFTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDLYSEAILGKTNE 202

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct: 203 EYCDWIRRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 262

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDL----ALKLVKEQQRKKTYTDTANFT 174
           YD L  +  +  P+    TIF           +D+    AL+L  E +RK+ +TD   FT
Sbjct: 263 YDPLQRNFPD--PDTPPLTIFSSN--------DDIVLVQALELADEARRKRQFTDVNRFT 312

Query: 175 LRCGVCQIGVIGQKEAVEHAQATGHVNFQE 204
           LRC +CQ G+ GQ EA +HA+ TGH NF E
Sbjct: 313 LRCMLCQKGLTGQAEARDHARETGHTNFGE 342

Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel. Mediates deubiquitination of both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains. Able to cleave both polyubiquitin and di-ubiquitin.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q05B57|OTU1_BOVIN Ubiquitin thioesterase OTU1 OS=Bos taurus GN=YOD1 PE=2 SV=1

 Score =  183 bits (465), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 99/210 (47%), Positives = 134/210 (63%), Gaps = 19/210 (9%)

Query: 4   IIVRRVIPSDNSCLFNAVGYVMEH---DKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           ++ R  +P+DNSCLF +V YV+E    +   APE+R+ IA  VASDP  YSEA LGK+N+
Sbjct: 148 VLARMAVPADNSCLFTSVYYVVEGGVLNPACAPEMRRFIAQIVASDPDFYSEAILGKTNE 207

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct: 208 EYCDWIKRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 267

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDL----ALKLVKEQQRKKTYTDTANFT 174
           YD L +   +  P+    TIF           +D+    AL+L  E ++K+ +TD   FT
Sbjct: 268 YDPLHLVFPD--PDTPPLTIF--------SSYDDIVLVQALELADEARKKRQFTDVNRFT 317

Query: 175 LRCGVCQIGVIGQKEAVEHAQATGHVNFQE 204
           LRC VCQ G+ GQ EA +HA+ TGH NF E
Sbjct: 318 LRCMVCQKGLTGQAEARDHAKETGHTNFGE 347

Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel. Mediates deubiquitination of both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains. Able to cleave both polyubiquitin and di-ubiquitin.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q9VRJ9|OTU1_DROME Ubiquitin thioesterase OTU1 OS=Drosophila melanogaster GN=CG4603 PE=2 SV=1

 Score =  182 bits (462), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 92/206 (44%), Positives = 131/206 (63%), Gaps = 11/206 (5%)

Query: 3   GIIVRRVIPSDNSCLFNAVGYVMEH--DKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           GI++++V+P+DNSCLF ++ +V+    D   +  +R +IA  VA+DP  Y++A LGKSN 
Sbjct: 148 GILLKKVVPADNSCLFTSIRFVLNGKVDNEGSEMMRHIIAQEVAADPQSYNDAVLGKSNA 207

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ--KYSERVMLIYDGLH 118
           EYC+WIQ  + WGGAIE+SIL++YYG EI   DIQ    + +G+   +  RV L++DG+H
Sbjct: 208 EYCAWIQKADSWGGAIEVSILSNYYGIEIDVVDIQNAIINRFGEDKNFGLRVFLLFDGIH 267

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YD L +   E +P     TIFPV++      AE LA     E Q  + YT+   FTLRC 
Sbjct: 268 YDPLYM---ETSPSAAPATIFPVEELGVYQQAEQLA----NEAQSSRQYTNVDKFTLRCM 320

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQE 204
            C + ++GQ +A EHA+ TGH NF E
Sbjct: 321 QCDVRLVGQVQAQEHAKQTGHKNFGE 346

Hydrolase that can remove conjugated ubiquitin from proteins and may therefore play an important regulatory role at the level of protein turnover by preventing degradation.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q0IH43|OTU1_XENLA Ubiquitin thioesterase OTU1 OS=Xenopus laevis GN=yod1 PE=2 SV=1

 Score =  179 bits (455), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 97/205 (47%), Positives = 130/205 (63%), Gaps = 11/205 (5%)

Query: 5   IVRRVIPSDNSCLFNAVGYVME---HDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQE 61
           IVRRV+P+DNSCLF ++ YV+E   +D   A E+R +IA  VASD   Y +A LGKSN+E
Sbjct: 105 IVRRVVPADNSCLFTSIYYVVEGGVYDPACALEMRSLIAEIVASDQSAYCDAVLGKSNEE 164

Query: 62  YCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLHY 119
           YCSWI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+HY
Sbjct: 165 YCSWIRREDTWGGAIEVSILSKFYQCEICVVDTQTVRIDRFGEDSGYTKRVLLIYDGIHY 224

Query: 120 DALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGV 179
           D L    F   P+    T+F      T   A   A++L  + ++K+ +TD   F LRC  
Sbjct: 225 DPLQ-RQFPD-PDMPPMTVFST----TDDEALVQAMELADDARKKRQFTDVNQFALRCMA 278

Query: 180 CQIGVIGQKEAVEHAQATGHVNFQE 204
           CQ G+ GQ  A +HA+ TGH NF E
Sbjct: 279 CQKGLTGQSAARDHAKETGHTNFGE 303

Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel.

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q29FC9|OTU1_DROPS Ubiquitin thioesterase OTU1 OS=Drosophila pseudoobscura pseudoobscura GN=GA18292 PE=3 SV=1

 Score =  172 bits (437), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 85/206 (41%), Positives = 130/206 (63%), Gaps = 11/206 (5%)

Query: 3   GIIVRRVIPSDNSCLFNAVGYVMEH--DKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           GI++++V+P+DNSCLF ++ +V+    D   +  +R +IA  V++D  +Y++A LGKSN 
Sbjct: 159 GILLKKVVPADNSCLFTSIRFVLNGKVDNEGSEMMRHIIAQEVSADTQQYNDAVLGKSNS 218

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ--KYSERVMLIYDGLH 118
           +YC+WIQ  + WGGAIE+SIL++YYG EI   DIQ    + +G+   +  RV L++DG+H
Sbjct: 219 DYCAWIQKADSWGGAIEVSILSNYYGIEIDVVDIQNAIINRFGEDKNFGLRVFLLFDGIH 278

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YD L +   E        TIFPV++      AE +A     E +  + +T+   FTLRC 
Sbjct: 279 YDPLYM---ETQQNSVPATIFPVEEMGVYQQAEQIA----NEAKSSRQFTNVDKFTLRCM 331

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQE 204
            C + ++GQ +A EHA+ TGH NF+E
Sbjct: 332 DCDVMLVGQGQAQEHAKKTGHENFEE 357

Hydrolase that can remove conjugated ubiquitin from proteins and may therefore play an important regulatory role at the level of protein turnover by preventing degradation.

Drosophila pseudoobscura pseudoobscura (taxid: 46245)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	206
255583601	208	cysteine-type peptidase, putative [Ricin	1.0	0.990	0.879	1e-104
224117526	208	predicted protein [Populus trichocarpa]	1.0	0.990	0.879	1e-103
242060618	208	hypothetical protein SORBIDRAFT_04g00442	1.0	0.990	0.855	1e-103
224061427	207	predicted protein [Populus trichocarpa]	0.995	0.990	0.879	1e-102
356501525	208	PREDICTED: ubiquitin thioesterase OTU1-l	1.0	0.990	0.855	1e-101
351725507	208	uncharacterized protein LOC100499809 [Gl	1.0	0.990	0.850	1e-101
226509350	208	uncharacterized protein LOC100279494 [Ze	1.0	0.990	0.826	1e-100
357494501	208	Ubiquitin thioesterase OTU1 [Medicago tr	1.0	0.990	0.831	1e-99
125538215	208	hypothetical protein OsI_05978 [Oryza sa	1.0	0.990	0.822	2e-99
357150141	208	PREDICTED: ubiquitin thioesterase OTU1-l	1.0	0.990	0.826	2e-99

>gi|255583601|ref|XP_002532556.1| cysteine-type peptidase, putative [Ricinus communis] gi|223527711|gb|EEF29817.1| cysteine-type peptidase, putative [Ricinus communis]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 183/208 (87%), Positives = 193/208 (92%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEGIIVRRVIPSDNSCLFNAVGYVM+H+KNKAPELRQVIAA VASDP KY+EAFL K N 
Sbjct: 1   MEGIIVRRVIPSDNSCLFNAVGYVMDHNKNKAPELRQVIAAAVASDPEKYNEAFLAKPNG 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC+WI D EKWGGAIELS+LADYYGREIAAYDIQTTRCDLYGQ   YSERVMLIYDGLH
Sbjct: 61  EYCAWILDSEKWGGAIELSVLADYYGREIAAYDIQTTRCDLYGQDRGYSERVMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDALAISPFEGAPEEFDQTIF VQK RT+G AE LAL LVKEQQRK++YTDT+NFTLRCG
Sbjct: 121 YDALAISPFEGAPEEFDQTIFAVQKDRTVGLAEGLALNLVKEQQRKRSYTDTSNFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGV+GQKEAVEHAQATGHVNFQEYR
Sbjct: 181 VCQIGVVGQKEAVEHAQATGHVNFQEYR 208

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117526|ref|XP_002317598.1| predicted protein [Populus trichocarpa] gi|222860663|gb|EEE98210.1| predicted protein [Populus trichocarpa]

 Score =  379 bits (973), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 183/208 (87%), Positives = 191/208 (91%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEGI+VRRVIPSDNSCLFNAVGYVM+HDKNKA  LRQVIA TVASDP KY+EAFLGK N 
Sbjct: 1   MEGIVVRRVIPSDNSCLFNAVGYVMDHDKNKAYGLRQVIAGTVASDPEKYNEAFLGKPNG 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ--KYSERVMLIYDGLH 118
           EYC+WI+D EKWGGAIELSILADYYGREIAAYDIQT RCDLYGQ  KYSER MLIYDGLH
Sbjct: 61  EYCNWIRDSEKWGGAIELSILADYYGREIAAYDIQTMRCDLYGQDRKYSERAMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDALA+SPFEGAPEEFDQTIF VQK RTIGPAE  AL LVKEQQRK++YTDTANFTLRCG
Sbjct: 121 YDALAMSPFEGAPEEFDQTIFTVQKDRTIGPAEGHALNLVKEQQRKRSYTDTANFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGVIGQKEAVEHAQ TGHVNFQEYR
Sbjct: 181 VCQIGVIGQKEAVEHAQTTGHVNFQEYR 208

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242060618|ref|XP_002451598.1| hypothetical protein SORBIDRAFT_04g004420 [Sorghum bicolor] gi|241931429|gb|EES04574.1| hypothetical protein SORBIDRAFT_04g004420 [Sorghum bicolor]

 Score =  378 bits (971), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 178/208 (85%), Positives = 192/208 (92%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEG++VRRVIPSDNSCLFNAVGYVMEH +NKA ELRQVIAATVASDP KY+EAFLGK N+
Sbjct: 1   MEGVVVRRVIPSDNSCLFNAVGYVMEHSRNKASELRQVIAATVASDPEKYNEAFLGKPNE 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
            YC+WI DPEKWGGAIELSIL++YYGREIAAYDIQTTRCDLYGQ+  YSER MLIYDGLH
Sbjct: 61  AYCAWILDPEKWGGAIELSILSEYYGREIAAYDIQTTRCDLYGQEKNYSERAMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDALA+SP EGAPEEFDQTIFPV   R+IGPAE LAL LVKE QRK++YTDTANFTLRCG
Sbjct: 121 YDALAMSPAEGAPEEFDQTIFPVNHNRSIGPAEGLALNLVKEAQRKRSYTDTANFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGVIGQKEAVEHAQATGHVNFQEY+
Sbjct: 181 VCQIGVIGQKEAVEHAQATGHVNFQEYK 208

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224061427|ref|XP_002300474.1| predicted protein [Populus trichocarpa] gi|222847732|gb|EEE85279.1| predicted protein [Populus trichocarpa]

 Score =  376 bits (966), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 183/208 (87%), Positives = 192/208 (92%), Gaps = 3/208 (1%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEGII+RRVIPSDNSCLFNAVGYVM+HDKNKAPELRQVIAATVASDP KY+EAF GK N 
Sbjct: 1   MEGIILRRVIPSDNSCLFNAVGYVMDHDKNKAPELRQVIAATVASDPEKYNEAF-GKPNG 59

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC+WI DPEKWGGAIELSILADYYGREIAAYDIQT RCDLYGQ+  YSER MLIYDGLH
Sbjct: 60  EYCTWIIDPEKWGGAIELSILADYYGREIAAYDIQTMRCDLYGQERTYSERAMLIYDGLH 119

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDALA+SPFEGAPEEFDQTIF VQ  RTIG AE  AL LVKEQQR+++YTDTANFTLRCG
Sbjct: 120 YDALAMSPFEGAPEEFDQTIFAVQNDRTIGQAEGHALNLVKEQQRRRSYTDTANFTLRCG 179

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGVIGQKEAVEHAQATGHVNFQEYR
Sbjct: 180 VCQIGVIGQKEAVEHAQATGHVNFQEYR 207

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356501525|ref|XP_003519575.1| PREDICTED: ubiquitin thioesterase OTU1-like isoform 1 [Glycine max] gi|356501527|ref|XP_003519576.1| PREDICTED: ubiquitin thioesterase OTU1-like isoform 2 [Glycine max]

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 178/208 (85%), Positives = 190/208 (91%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEG+I+RRVIPSDNSCLFNAVGYVM+HDK KA ELRQVIAATVASDP KY EAFLGK N 
Sbjct: 1   MEGVILRRVIPSDNSCLFNAVGYVMDHDKKKAAELRQVIAATVASDPQKYCEAFLGKPNA 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC+WI D EKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ+  YSERVMLIYDGLH
Sbjct: 61  EYCNWILDSEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQESNYSERVMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDAL +SPFE APEEFDQTIF VQK R+IGP E LAL  VK+QQRK++YTDT+NFTLRCG
Sbjct: 121 YDALVMSPFEEAPEEFDQTIFAVQKNRSIGPVEGLALTFVKDQQRKRSYTDTSNFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGVIG+KEAVEHAQATGHVNFQEYR
Sbjct: 181 VCQIGVIGEKEAVEHAQATGHVNFQEYR 208

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725507|ref|NP_001236327.1| uncharacterized protein LOC100499809 [Glycine max] gi|255626797|gb|ACU13743.1| unknown [Glycine max]

 Score =  372 bits (956), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 177/208 (85%), Positives = 189/208 (90%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEG+I+RRVIPSDNSCLFNAVGYVM+HDK KA ELRQVIAATVASDP KY EAFLGK N 
Sbjct: 1   MEGVILRRVIPSDNSCLFNAVGYVMDHDKKKAAELRQVIAATVASDPQKYCEAFLGKPNT 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
           EYC+WI D EKWGGAIELSILADYYG EIAAYDIQTTRCDLYGQ+  YSERVMLIYDGLH
Sbjct: 61  EYCNWILDSEKWGGAIELSILADYYGHEIAAYDIQTTRCDLYGQERNYSERVMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDAL +SPFE APEEFDQTIF VQK R+IGP E LAL  VK+QQRK++YTDT+NFTLRCG
Sbjct: 121 YDALVMSPFEEAPEEFDQTIFAVQKNRSIGPVEGLALNFVKDQQRKRSYTDTSNFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGV+GQKEAVEHAQATGHVNFQEYR
Sbjct: 181 VCQIGVMGQKEAVEHAQATGHVNFQEYR 208

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226509350|ref|NP_001145967.1| uncharacterized protein LOC100279494 [Zea mays] gi|195647914|gb|ACG43425.1| hypothetical protein [Zea mays] gi|219885153|gb|ACL52951.1| unknown [Zea mays] gi|413926491|gb|AFW66423.1| hypothetical protein ZEAMMB73_214721 [Zea mays]

 Score =  369 bits (947), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 172/208 (82%), Positives = 191/208 (91%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           M+G++VRRVIPSDNSCLFNAVGYVMEH++NKA ELRQVIAATVA DP K++E FLGK N+
Sbjct: 1   MDGVVVRRVIPSDNSCLFNAVGYVMEHNRNKASELRQVIAATVAGDPEKFNEVFLGKPNE 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
            YC+WI DPEKWGGAIELSIL++YYGREIAAYDIQTTRCDLYGQ+  YSER MLIYDGLH
Sbjct: 61  AYCAWILDPEKWGGAIELSILSEYYGREIAAYDIQTTRCDLYGQEKNYSERAMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDALA+SP EGAPEEFDQTIFPV   R+IGPAE LAL LV+E QRK++YTDTANFTLRCG
Sbjct: 121 YDALAMSPAEGAPEEFDQTIFPVNHDRSIGPAEGLALNLVREAQRKRSYTDTANFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGVIGQ+EAVEHAQATGHVNFQEY+
Sbjct: 181 VCQIGVIGQQEAVEHAQATGHVNFQEYK 208

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357494501|ref|XP_003617539.1| Ubiquitin thioesterase OTU1 [Medicago truncatula] gi|217074660|gb|ACJ85690.1| unknown [Medicago truncatula] gi|355518874|gb|AET00498.1| Ubiquitin thioesterase OTU1 [Medicago truncatula] gi|388510632|gb|AFK43382.1| unknown [Medicago truncatula]

 Score =  368 bits (944), Expect = e-99,   Method: Compositional matrix adjust.
 Identities = 173/208 (83%), Positives = 188/208 (90%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEG++VRRVIPSDNSCLFNAVGYVM+ D+ KA ELRQVIAATVASDP KYSEAFLGK N 
Sbjct: 1   MEGVVVRRVIPSDNSCLFNAVGYVMDRDQTKAAELRQVIAATVASDPEKYSEAFLGKPNS 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
            YC+WI DPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ+  YSERVMLIYDGLH
Sbjct: 61  AYCNWILDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQEGNYSERVMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDALA+SP EGAPE+FDQTIF +QK R+IGP E LAL  +K+Q RK+ +TDTANFTLRCG
Sbjct: 121 YDALAVSPVEGAPEDFDQTIFVIQKNRSIGPVEGLALNFIKDQHRKRRFTDTANFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGVIGQKEA EHAQATGHVNFQEY+
Sbjct: 181 VCQIGVIGQKEAAEHAQATGHVNFQEYK 208

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125538215|gb|EAY84610.1| hypothetical protein OsI_05978 [Oryza sativa Indica Group] gi|125580928|gb|EAZ21859.1| hypothetical protein OsJ_05505 [Oryza sativa Japonica Group]

 Score =  367 bits (941), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 171/208 (82%), Positives = 189/208 (90%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEG++VRRVIPSDNSCLFNAVGYVMEH++NKA ELRQVIAA VASDP KYSE FLGK N+
Sbjct: 1   MEGVVVRRVIPSDNSCLFNAVGYVMEHNRNKASELRQVIAAAVASDPAKYSEVFLGKPNE 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
            YC+WI D EKWGGAIELSIL++YYGREIAAYDIQTTRCDLYGQ+  Y+ER MLIYDGLH
Sbjct: 61  AYCAWILDSEKWGGAIELSILSEYYGREIAAYDIQTTRCDLYGQEKNYTERTMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDALA+SPFEGAPEEFDQTIFPV    +IGP E LAL  VK+++RK++YTDTANFTLRCG
Sbjct: 121 YDALAMSPFEGAPEEFDQTIFPVDHKWSIGPVEGLALNFVKDEKRKRSYTDTANFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGVIGQKEAVEHAQATGHVNFQEY+
Sbjct: 181 VCQIGVIGQKEAVEHAQATGHVNFQEYK 208

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357150141|ref|XP_003575356.1| PREDICTED: ubiquitin thioesterase OTU1-like isoform 1 [Brachypodium distachyon] gi|357150144|ref|XP_003575357.1| PREDICTED: ubiquitin thioesterase OTU1-like isoform 2 [Brachypodium distachyon]

 Score =  367 bits (941), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 172/208 (82%), Positives = 188/208 (90%), Gaps = 2/208 (0%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
           MEG +VRRVIPSDNSCLFNAVGYVMEH++NKA ELRQVIAA VASDP KY+EAFLGK N+
Sbjct: 1   MEGTVVRRVIPSDNSCLFNAVGYVMEHNRNKASELRQVIAAAVASDPEKYNEAFLGKPNE 60

Query: 61  EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
            YC+WI DPEKWGGAIELSIL++YYGREIAAYDIQTTRCDLYGQ+  YSER MLIYDGLH
Sbjct: 61  AYCAWILDPEKWGGAIELSILSEYYGREIAAYDIQTTRCDLYGQEKNYSERAMLIYDGLH 120

Query: 119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
           YDALA+SP EGAPEEFDQTI+ V + R+IGP E LAL L KE  RK++YTDTANFTLRCG
Sbjct: 121 YDALAMSPVEGAPEEFDQTIYLVDRNRSIGPVEGLALNLAKEAHRKRSYTDTANFTLRCG 180

Query: 179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           VCQIGVIGQKEAVEHAQATGHVNFQEY+
Sbjct: 181 VCQIGVIGQKEAVEHAQATGHVNFQEYK 208

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	206
TAIR|locus:2007991	208	AT1G50670 "AT1G50670" [Arabido	1.0	0.990	0.831	6.3e-92
ZFIN|ZDB-GENE-050417-217	301	yod1 "YOD1 OTU deubiquinating	0.941	0.644	0.502	3.7e-48
DICTYBASE|DDB_G0271346	325	yod1 "ubiquitin thioesterase O	0.966	0.612	0.524	7.7e-48
UNIPROTKB|F1P2K8	302	YOD1 "Ubiquitin thioesterase O	0.941	0.642	0.507	3.3e-47
UNIPROTKB|Q5F3A6	302	YOD1 "Ubiquitin thioesterase O	0.941	0.642	0.507	3.3e-47
UNIPROTKB|Q5VVQ6	348	YOD1 "Ubiquitin thioesterase O	0.946	0.560	0.5	5.6e-45
UNIPROTKB|E2R1N1	345	YOD1 "Uncharacterized protein"	0.946	0.565	0.5	9.1e-45
UNIPROTKB|J9P3T6	290	YOD1 "Uncharacterized protein"	0.946	0.672	0.5	9.1e-45
MGI|MGI:2442596	343	Yod1 "YOD1 OTU deubiquitinatin	0.946	0.568	0.485	1.2e-44
RGD|1359726	343	Yod1 "YOD1 OTU deubiquinating	0.946	0.568	0.485	5e-44

TAIR|locus:2007991 AT1G50670 "AT1G50670" [Arabidopsis thaliana (taxid:3702)]

 Score = 916 (327.5 bits), Expect = 6.3e-92, P = 6.3e-92
 Identities = 173/208 (83%), Positives = 190/208 (91%)

Query:     1 MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
             MEGIIVRRVIPSDNSCLFNA+GYVM+ DKNKAPELRQVIAA VAS+  KY+EAFLGK N+
Sbjct:     1 MEGIIVRRVIPSDNSCLFNAIGYVMDKDKNKAPELRQVIAAAVASNKEKYNEAFLGKLNE 60

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ--KYSERVMLIYDGLH 118
             EYC+WI +P+KWGGAIELSILADYYGREIAAYDIQT+RCDLYGQ   Y ERVMLIYDGLH
Sbjct:    61 EYCAWILNPDKWGGAIELSILADYYGREIAAYDIQTSRCDLYGQTRNYDERVMLIYDGLH 120

Query:   119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
             YDALA+SPFEGA E+FD TI+PV K R+IG  E LAL LVK+QQRK++YTDTANFTLRCG
Sbjct:   121 YDALALSPFEGAEEDFDMTIYPVGKDRSIGSIEGLALNLVKDQQRKRSYTDTANFTLRCG 180

Query:   179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
             VCQIGVIGQKEAVEHAQATGHVNFQEY+
Sbjct:   181 VCQIGVIGQKEAVEHAQATGHVNFQEYK 208

GO:0008150 "biological_process" evidence=ND

GO:0008234 "cysteine-type peptidase activity" evidence=ISS

GO:0005829 "cytosol" evidence=IDA

ZFIN|ZDB-GENE-050417-217 yod1 "YOD1 OTU deubiquinating enzyme 1 homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 503 (182.1 bits), Expect = 3.7e-48, P = 3.7e-48
 Identities = 104/207 (50%), Positives = 136/207 (65%)

Query:     4 IIVRRVIPSDNSCLFNAVGYVME---HDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
             ++ RRV+P+DNSCLF +V YVME   +D   A E+R +IA  VASDP  YSEA LGK+N+
Sbjct:   101 VVERRVVPADNSCLFTSVNYVMEGGVYDPACASEMRGLIAQIVASDPTAYSEAVLGKTNE 160

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
             EYC+WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct:   161 EYCTWIRRDDTWGGAIEVSILSKFYQCEICVVDTQTVRVDRFGEDAGYTKRVLLIYDGIH 220

Query:   119 YDALA-ISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRC 177
             YD L  + P    P    QT+F       +  A    L+L  E +RK+ +TD   F LRC
Sbjct:   221 YDPLQKVLPGSDVPA---QTVFSTVDDVILAQA----LELADEARRKRQFTDVNRFALRC 273

Query:   178 GVCQIGVIGQKEAVEHAQATGHVNFQE 204
              VCQ G++GQKEA EHA+ TGH NF E
Sbjct:   274 MVCQTGLVGQKEAREHAKETGHTNFGE 300

GO:0004843 "ubiquitin-specific protease activity" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0071108 "protein K48-linked deubiquitination" evidence=ISS

GO:0006520 "cellular amino acid metabolic process" evidence=ISS

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=ISS

GO:0070536 "protein K63-linked deubiquitination" evidence=ISS

GO:0006508 "proteolysis" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0006986 "response to unfolded protein" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

DICTYBASE|DDB_G0271346 yod1 "ubiquitin thioesterase OTU1" [Dictyostelium discoideum (taxid:44689)]

 Score = 500 (181.1 bits), Expect = 7.7e-48, P = 7.7e-48
 Identities = 109/208 (52%), Positives = 138/208 (66%)

Query:     3 GIIVRRVIPSDNSCLFNAVGYVMEHDKN--KAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
             G   RRV   DNSCLF+AV YV+E DKN  K   LR +IA  V SDP +Y+EA LGKSN+
Sbjct:   121 GYATRRVTDDDNSCLFSAVAYVLE-DKNRLKGYSLRALIAQNVKSDPFEYNEAVLGKSNE 179

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ--KYSERVMLIYDGLH 118
              YC+WIQ+P+ WGGAIELSIL+++Y  EIAA+DI T     YG+  KY+ERV LIYDG+H
Sbjct:   180 GYCNWIQNPKNWGGAIELSILSNHYKVEIAAFDISTQLMYCYGEDRKYTERVYLIYDGIH 239

Query:   119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
             YDAL+I   +  PE+FD T F V    ++   + L   + KE +  K +TDTA F+L C 
Sbjct:   240 YDALSICLTKNGPEDFDITRFSVDDKDSLAKMKVL---IEKEFKAGK-FTDTAKFSLICL 295

Query:   179 VCQIGVIGQKEAVEHAQATGHVNFQEYR 206
              C   + G+KEA  HA  TGH NF EY+
Sbjct:   296 NCNKTLKGEKEAAIHASTTGHGNFTEYK 323

GO:0030587 "sorocarp development" evidence=IMP

GO:0005575 "cellular_component" evidence=ND

GO:0016579 "protein deubiquitination" evidence=ISS

GO:0004843 "ubiquitin-specific protease activity" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

UNIPROTKB|F1P2K8 YOD1 "Ubiquitin thioesterase OTU1" [Gallus gallus (taxid:9031)]

 Score = 494 (179.0 bits), Expect = 3.3e-47, P = 3.3e-47
 Identities = 105/207 (50%), Positives = 133/207 (64%)

Query:     4 IIVRRVIPSDNSCLFNAVGYVME---HDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
             ++ RRV+P+DNSCLF +V YV+E   +D   APE+R +IA  VASDP  Y EA LGK+N+
Sbjct:   102 VLARRVVPADNSCLFTSVYYVVEGGVYDPGCAPEMRSLIAQIVASDPEAYCEAVLGKTNR 161

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
             EYC WI+  E WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct:   162 EYCEWIRREETWGGAIEVSILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 221

Query:   119 YDALAIS-PFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRC 177
             YD L    P    P    QTIF       +  A    L+L  E +RK+ +TD   FTLRC
Sbjct:   222 YDPLERKIPDSDVPP---QTIFSTTDDVVLAQA----LELADEARRKRQFTDVNRFTLRC 274

Query:   178 GVCQIGVIGQKEAVEHAQATGHVNFQE 204
              VCQ G+ GQ EA EHA+ TGH NF E
Sbjct:   275 MVCQKGLTGQVEAREHAKETGHTNFGE 301

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0004843 "ubiquitin-specific protease activity" evidence=IEA

GO:0030433 "ER-associated protein catabolic process" evidence=IEA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=IEA

GO:0070536 "protein K63-linked deubiquitination" evidence=IEA

GO:0071108 "protein K48-linked deubiquitination" evidence=IEA

UNIPROTKB|Q5F3A6 YOD1 "Ubiquitin thioesterase OTU1" [Gallus gallus (taxid:9031)]

 Score = 494 (179.0 bits), Expect = 3.3e-47, P = 3.3e-47
 Identities = 105/207 (50%), Positives = 133/207 (64%)

Query:     4 IIVRRVIPSDNSCLFNAVGYVME---HDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQ 60
             ++ RRV+P+DNSCLF +V YV+E   +D   APE+R +IA  VASDP  Y EA LGK+N+
Sbjct:   102 VLARRVVPADNSCLFTSVYYVVEGGVYDPGCAPEMRSLIAQIVASDPEAYCEAVLGKTNR 161

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
             EYC WI+  E WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct:   162 EYCEWIRREETWGGAIEVSILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 221

Query:   119 YDALAIS-PFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRC 177
             YD L    P    P    QTIF       +  A    L+L  E +RK+ +TD   FTLRC
Sbjct:   222 YDPLERKIPDSDVPP---QTIFSTTDDVVLAQA----LELADEARRKRQFTDVNRFTLRC 274

Query:   178 GVCQIGVIGQKEAVEHAQATGHVNFQE 204
              VCQ G+ GQ EA EHA+ TGH NF E
Sbjct:   275 MVCQKGLTGQVEAREHAKETGHTNFGE 301

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006520 "cellular amino acid metabolic process" evidence=ISS

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=ISS

GO:0071108 "protein K48-linked deubiquitination" evidence=ISS

GO:0030433 "ER-associated protein catabolic process" evidence=ISS

GO:0070536 "protein K63-linked deubiquitination" evidence=ISS

GO:0004843 "ubiquitin-specific protease activity" evidence=ISS

UNIPROTKB|Q5VVQ6 YOD1 "Ubiquitin thioesterase OTU1" [Homo sapiens (taxid:9606)]

 Score = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 103/206 (50%), Positives = 134/206 (65%)

Query:     4 IIVRRVIPSDNSCLFNAVGYVMEHDK-NKA--PELRQVIAATVASDPVKYSEAFLGKSNQ 60
             ++ R V+P+DNSCLF +V YV+E    N A  PE+R++IA  VASDP  YSEA LGK+NQ
Sbjct:   148 VLTRTVVPADNSCLFTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQ 207

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
             EYC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct:   208 EYCDWIKRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 267

Query:   119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
             YD L  + F   P+    TIF       +  A    L+L  E +R++ +TD   FTLRC 
Sbjct:   268 YDPLQRN-FPD-PDTPPLTIFSSNDDIVLVQA----LELADEARRRRQFTDVNRFTLRCM 321

Query:   179 VCQIGVIGQKEAVEHAQATGHVNFQE 204
             VCQ G+ GQ EA EHA+ TGH NF E
Sbjct:   322 VCQKGLTGQAEAREHAKETGHTNFGE 347

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006520 "cellular amino acid metabolic process" evidence=ISS

GO:0004843 "ubiquitin-specific protease activity" evidence=IDA

GO:0071108 "protein K48-linked deubiquitination" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=IMP

GO:0030433 "ER-associated protein catabolic process" evidence=IMP

GO:0070536 "protein K63-linked deubiquitination" evidence=IDA

UNIPROTKB|E2R1N1 YOD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 103/206 (50%), Positives = 134/206 (65%)

Query:     4 IIVRRVIPSDNSCLFNAVGYVMEHDK-NKA--PELRQVIAATVASDPVKYSEAFLGKSNQ 60
             ++ R V+P+DNSCLF +V YV+E    N A  PE+R++IA  VASDP  YSEA LGK+NQ
Sbjct:   145 VLSRTVVPADNSCLFTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQ 204

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
             EYC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct:   205 EYCDWIKRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 264

Query:   119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
             YD L  + F   P+    TIF       +  A    L+L  E +RK+ +TD   FTLRC 
Sbjct:   265 YDPLQRN-FPD-PDTPPLTIFSSNDDIVLVQA----LELADEARRKRQFTDVNRFTLRCM 318

Query:   179 VCQIGVIGQKEAVEHAQATGHVNFQE 204
             VCQ G+ GQ EA +HA+ TGH NF E
Sbjct:   319 VCQKGLTGQAEARDHAKETGHTNFGE 344

GO:0071108 "protein K48-linked deubiquitination" evidence=IEA

GO:0070536 "protein K63-linked deubiquitination" evidence=IEA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=IEA

GO:0030433 "ER-associated protein catabolic process" evidence=IEA

GO:0004843 "ubiquitin-specific protease activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

UNIPROTKB|J9P3T6 YOD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 103/206 (50%), Positives = 134/206 (65%)

Query:     4 IIVRRVIPSDNSCLFNAVGYVMEHDK-NKA--PELRQVIAATVASDPVKYSEAFLGKSNQ 60
             ++ R V+P+DNSCLF +V YV+E    N A  PE+R++IA  VASDP  YSEA LGK+NQ
Sbjct:    90 VLSRTVVPADNSCLFTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQ 149

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
             EYC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct:   150 EYCDWIKRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 209

Query:   119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
             YD L  + F   P+    TIF       +  A    L+L  E +RK+ +TD   FTLRC 
Sbjct:   210 YDPLQRN-FPD-PDTPPLTIFSSNDDIVLVQA----LELADEARRKRQFTDVNRFTLRCM 263

Query:   179 VCQIGVIGQKEAVEHAQATGHVNFQE 204
             VCQ G+ GQ EA +HA+ TGH NF E
Sbjct:   264 VCQKGLTGQAEARDHAKETGHTNFGE 289

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

MGI|MGI:2442596 Yod1 "YOD1 OTU deubiquitinating enzyme 1 homologue (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 470 (170.5 bits), Expect = 1.2e-44, P = 1.2e-44
 Identities = 100/206 (48%), Positives = 134/206 (65%)

Query:     4 IIVRRVIPSDNSCLFNAVGYVMEHDK-NKA--PELRQVIAATVASDPVKYSEAFLGKSNQ 60
             ++ R  +P+DNSCLF +V YV+E    N A  PE+R++IA  VASDPV YSEA LGK+N+
Sbjct:   143 VLTRTAVPADNSCLFTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPVLYSEAILGKTNE 202

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
             +YC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct:   203 DYCDWIRRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 262

Query:   119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
             YD L  + F   P+    TIF       +  A    L+L  E +RK+ +TD   FTLRC 
Sbjct:   263 YDPLQRN-FPD-PDTPPLTIFSSNDDIVLVQA----LELADEARRKRQFTDVNRFTLRCM 316

Query:   179 VCQIGVIGQKEAVEHAQATGHVNFQE 204
             +CQ G+ GQ EA +HA+ TGH NF E
Sbjct:   317 ICQKGLTGQAEARDHARETGHTNFGE 342

GO:0004843 "ubiquitin-specific protease activity" evidence=ISO

GO:0005622 "intracellular" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0006986 "response to unfolded protein" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0008234 "cysteine-type peptidase activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0030433 "ER-associated protein catabolic process" evidence=ISO

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0070536 "protein K63-linked deubiquitination" evidence=ISO

GO:0071108 "protein K48-linked deubiquitination" evidence=ISO

RGD|1359726 Yod1 "YOD1 OTU deubiquinating enzyme 1 homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]

 Score = 464 (168.4 bits), Expect = 5.0e-44, P = 5.0e-44
 Identities = 100/206 (48%), Positives = 133/206 (64%)

Query:     4 IIVRRVIPSDNSCLFNAVGYVMEHDK-NKA--PELRQVIAATVASDPVKYSEAFLGKSNQ 60
             ++ R  +P+DNSCLF +V YV+E    N A  PE+R++IA  VASDP  YSEA LGK+N+
Sbjct:   143 VLTRTAVPADNSCLFTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDLYSEAILGKTNE 202

Query:    61 EYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLH 118
             EYC WI+  + WGGAIE+SIL+ +Y  EI   D QT R D +G+   Y++RV+LIYDG+H
Sbjct:   203 EYCDWIRRDDTWGGAIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVLLIYDGIH 262

Query:   119 YDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCG 178
             YD L  + F   P+    TIF       +  A    L+L  E +RK+ +TD   FTLRC 
Sbjct:   263 YDPLQRN-FPD-PDTPPLTIFSSNDDIVLVQA----LELADEARRKRQFTDVNRFTLRCM 316

Query:   179 VCQIGVIGQKEAVEHAQATGHVNFQE 204
             +CQ G+ GQ EA +HA+ TGH NF E
Sbjct:   317 LCQKGLTGQAEARDHARETGHTNFGE 342

GO:0004843 "ubiquitin-specific protease activity" evidence=ISO;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0006520 "cellular amino acid metabolic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0030433 "ER-associated protein catabolic process" evidence=ISO;ISS

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=ISO;ISS

GO:0070536 "protein K63-linked deubiquitination" evidence=ISO;ISS

GO:0071108 "protein K48-linked deubiquitination" evidence=ISO;ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q567B1	OTU1_DANRE	3, ., 4, ., 1, 9, ., 1, 2	0.5024	0.9417	0.6445	yes	no
Q55BI3	OTU1_DICDI	3, ., 4, ., 1, 9, ., 1, 2	0.5096	0.9660	0.6123	yes	no
Q5F3A6	OTU1_CHICK	3, ., 4, ., 1, 9, ., 1, 2	0.5072	0.9417	0.6423	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.19	0.766
3rd Layer	3.4.19.12	0.824

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	eugene3.00111153	hypothetical protein (208 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_fgenesh4_pg.C_LG_IV1246	hypothetical protein (761 aa)					•	•			0.803
	estExt_Genewise1_v1.C_LG_IX1919	hypothetical protein (761 aa)					•	•			0.803

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	206
COG5539	306	COG5539, COG5539, Predicted cysteine protease (OTU	1e-29
pfam02338	123	pfam02338, OTU, OTU-like cysteine protease	2e-22

>gnl|CDD|227826 COG5539, COG5539, Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]

 Score =  111 bits (278), Expect = 1e-29
 Identities = 61/197 (30%), Positives = 98/197 (49%), Gaps = 14/197 (7%)

Query: 13  DNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKW 72
           DNS LF A  Y          +LR+V++  V S+P  Y+ A L      Y +WI  P+  
Sbjct: 120 DNSRLFQAERY--SLRDASVAKLREVVSLEVLSNPDLYNPAILEIDVIAYATWIVKPDSQ 177

Query: 73  G-GAIELSILADYYGREIAAYDIQTTRCDLYG-QKYSERVMLIYDGLHYD--ALAISPFE 128
           G G IE++I++D     I   D+     D Y    Y +R+ +++ G+H+D   LA+  ++
Sbjct: 178 GDGCIEIAIISDQLPVRIHVVDVDKDSEDRYNSHPYVQRISILFTGIHFDEETLAMVLWD 237

Query: 129 GAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGVCQIGVIGQK 188
                 ++ +F    G TI   E   L  + +      YT+TA+ +++C +C  G +G+K
Sbjct: 238 ---TYVNEVLFDASDGITI---EIQQLASLLKNP--HYYTNTASPSIKCNICGTGFVGEK 289

Query: 189 EAVEHAQATGHVNFQEY 205
           +   HA ATGH NF E 
Sbjct: 290 DYYAHALATGHYNFGED 306

Length = 306

>gnl|CDD|216981 pfam02338, OTU, OTU-like cysteine protease

 Score = 87.2 bits (216), Expect = 2e-22
 Identities = 32/124 (25%), Positives = 48/124 (38%), Gaps = 16/124 (12%)

Query: 11  PSDNSCLFNAVGYVM--EHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQD 68
           P D +CLF+AV   +     +    ELR+ +   +  +   + +      N+ Y  WI  
Sbjct: 1   PGDGNCLFHAVSDQLGDAGRQELHDELREAVVEYLRENREDFEKFLEEDENEYYK-WISK 59

Query: 69  PEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ--------KYSERVMLIYDGL--- 117
              WGG IE+  LA      I  Y +Q  R  +Y +             + L Y GL   
Sbjct: 60  DGAWGGNIEIFALAHILRVPIIVYKLQGGRITVYIKIYGTYLPLNKKPVIRLSYLGLEYT 119

Query: 118 --HY 119
             HY
Sbjct: 120 GNHY 123

This family is comprised of a group of predicted cysteine proteases, homologous to the Ovarian Tumour (OTU) gene in Drosophila. Members include proteins from eukaryotes, viruses and pathogenic bacterium. The conserved cysteine and histidine, and possibly the aspartate, represent the catalytic residues in this putative group of proteases. Length = 123

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	206
KOG3288	307	consensus OTU-like cysteine protease [Signal trans	100.0
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	100.0
PF02338	121	OTU: OTU-like cysteine protease; InterPro: IPR0033	99.94
KOG2606	302	consensus OTU (ovarian tumor)-like cysteine protea	99.91
PF10275	244	Peptidase_C65: Peptidase C65 Otubain; InterPro: IP	99.61
KOG3991	256	consensus Uncharacterized conserved protein [Funct	99.55
KOG2605	371	consensus OTU (ovarian tumor)-like cysteine protea	99.46
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	98.94
PF05415	104	Peptidase_C36: Beet necrotic yellow vein furovirus	95.47
PF02148	63	zf-UBP: Zn-finger in ubiquitin-hydrolases and othe	87.52
PF12874	25	zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG	85.94
PF12756	100	zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB:	84.62
PF00096	23	zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR0070	80.26

>KOG3288 consensus OTU-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5.9e-68  Score=448.71  Aligned_cols=199  Identities=57%  Similarity=1.022  Sum_probs=189.8

Q ss_pred             CCCcEEEEEeCCCCchhhHHHHHHHhcCCCC-hHHHHHHHHHHHhhChhhhhhhhcCCCHHHHHHhhCCCCcccchHHHH
Q 028610            1 MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNK-APELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELS   79 (206)
Q Consensus         1 ~~g~L~~~~ip~DGnCLFrAis~~l~g~~~~-~~~lR~~v~~~i~~np~~y~e~~l~~~~~~Y~~~m~~~~~WGg~iEL~   79 (206)
                      |+|.|.+|+||+||||||+||+|.+.+.... ..+||++||+.+.+||+.|+++|||++..|||+||+++.+|||+|||+
T Consensus       106 ~~gvl~~~vvp~DNSCLF~ai~yv~~k~~~~~~~elR~iiA~~Vasnp~~yn~AiLgK~n~eYc~WI~k~dsWGGaIEls  185 (307)
T KOG3288|consen  106 GEGVLSRRVVPDDNSCLFTAIAYVIFKQVSNRPYELREIIAQEVASNPDKYNDAILGKPNKEYCAWILKMDSWGGAIELS  185 (307)
T ss_pred             ccceeEEEeccCCcchhhhhhhhhhcCccCCCcHHHHHHHHHHHhcChhhhhHHHhCCCcHHHHHHHccccccCceEEee
Confidence            5799999999999999999999999987543 469999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCcEEEEECCCCceeEeCCC--CCceEEEEEcCCcceeeeecCCCCCCCCCCeeeeeCCCCCchhHHHHHHHHH
Q 028610           80 ILADYYGREIAAYDIQTTRCDLYGQK--YSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKL  157 (206)
Q Consensus        80 ala~~~~v~I~v~~~~~~~~~~fg~~--~~~~i~LlY~G~HYD~l~~~~~~~~~~~~d~t~f~~~d~~~~~~~~~~a~~l  157 (206)
                      |||++|+++|+|+|+++.++++||++  +..|++|+|+|+|||+|++.+.  .|++.|.|+||.+|    +.++.+|++|
T Consensus       186 ILS~~ygveI~vvDiqt~rid~fged~~~~~rv~llydGIHYD~l~m~~~--~~~~~~~tifp~~d----d~v~~~alqL  259 (307)
T KOG3288|consen  186 ILSDYYGVEICVVDIQTVRIDRFGEDKNFDNRVLLLYDGIHYDPLAMNEF--KPTDVDNTIFPVSD----DTVLTQALQL  259 (307)
T ss_pred             eehhhhceeEEEEecceeeehhcCCCCCCCceEEEEecccccChhhhccC--CccCCccccccccc----chHHHHHHHH
Confidence            99999999999999999999999998  7999999999999999999976  67788999999999    6678999999


Q ss_pred             HHHHhhCCCccccCCceeeccccCCcccCHHHHHHHHHhhCCCccccc
Q 028610          158 VKEQQRKKTYTDTANFTLRCGVCQIGVIGQKEAVEHAQATGHVNFQEY  205 (206)
Q Consensus       158 ~~~~~~~~~~t~t~~~~l~C~~c~~~~~g~~~a~~Ha~~tgH~~F~e~  205 (206)
                      |+++|++||||||++|+|||.+|++.|.||++|++||++|||+||||+
T Consensus       260 a~~~k~~r~ytdt~~ftlRC~~Cq~glvGq~ea~eHA~~TGH~nFge~  307 (307)
T KOG3288|consen  260 ASELKRTRYYTDTAKFTLRCMVCQMGLVGQKEAAEHAKATGHVNFGEY  307 (307)
T ss_pred             HHHHHhcceeccccceEEEeeecccceeeHHHHHHHHHhcCCCccccC
Confidence            999999999999999999999999999999999999999999999996

>COG5539 Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.4e-37  Score=263.83  Aligned_cols=187  Identities=30%  Similarity=0.547  Sum_probs=166.8

Q ss_pred             CCCCchhhHHHHHHHhcCCCChHHHHHHHHHHHhhChhhhhhhhcCCCHHHHHHhhCCCCccc-chHHHHHHHHHhCCcE
Q 028610           11 PSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWG-GAIELSILADYYGREI   89 (206)
Q Consensus        11 p~DGnCLFrAis~~l~g~~~~~~~lR~~v~~~i~~np~~y~e~~l~~~~~~Y~~~m~~~~~WG-g~iEL~ala~~~~v~I   89 (206)
                      -+|++|+|++.++.++..  ...+||..|+..+.+|||.|++++++.|.-.|+.||.++..|| |+||+.++|+.+++.|
T Consensus       118 ~~d~srl~q~~~~~l~~a--sv~~lrE~vs~Ev~snPDl~n~~i~~~~~i~y~~~i~k~d~~~dG~ieia~iS~~l~v~i  195 (306)
T COG5539         118 QDDNSRLFQAERYSLRDA--SVAKLREVVSLEVLSNPDLYNPAILEIDVIAYATWIVKPDSQGDGCIEIAIISDQLPVRI  195 (306)
T ss_pred             CCchHHHHHHHHhhhhhh--hHHHHHHHHHHHHhhCccccchhhcCcchHHHHHhhhccccCCCceEEEeEeccccceee
Confidence            367999999999999864  5789999999999999999999999999999999999999999 9999999999999999


Q ss_pred             EEEECCCCceeEeCCC-CCceEEEEEcCCcceeeeecCCCCCCCCCCeeeeeCCCCCchhHHHHHHHHHHHHHhhCCCcc
Q 028610           90 AAYDIQTTRCDLYGQK-YSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYT  168 (206)
Q Consensus        90 ~v~~~~~~~~~~fg~~-~~~~i~LlY~G~HYD~l~~~~~~~~~~~~d~t~f~~~d~~~~~~~~~~a~~l~~~~~~~~~~t  168 (206)
                      ++++++..+.++|++. +..++.++|+|+|||.....-.+ ..+..+.-.|+.+|-     +.-.+++||+-|+..+|||
T Consensus       196 ~~Vdv~~~~~dr~~~~~~~q~~~i~f~g~hfD~~t~~m~~-~dt~~ne~~~~a~~g-----~~~ei~qLas~lk~~~~~~  269 (306)
T COG5539         196 HVVDVDKDSEDRYNSHPYVQRISILFTGIHFDEETLAMVL-WDTYVNEVLFDASDG-----ITIEIQQLASLLKNPHYYT  269 (306)
T ss_pred             eeeecchhHHhhccCChhhhhhhhhhcccccchhhhhcch-HHHHHhhhccccccc-----chHHHHHHHHHhcCceEEe
Confidence            9999998999999988 77899999999999999865332 223345566766662     4566777888889999999


Q ss_pred             ccCCceeeccccCCcccCHHHHHHHHHhhCCCccccc
Q 028610          169 DTANFTLRCGVCQIGVIGQKEAVEHAQATGHVNFQEY  205 (206)
Q Consensus       169 ~t~~~~l~C~~c~~~~~g~~~a~~Ha~~tgH~~F~e~  205 (206)
                      ||+++++||+.||+.|.|++++.+||..|||+||+|.
T Consensus       270 nT~~~~ik~n~c~~~~~~e~~~~~Ha~a~GH~n~~~d  306 (306)
T COG5539         270 NTASPSIKCNICGTGFVGEKDYYAHALATGHYNFGED  306 (306)
T ss_pred             ecCCceEEeeccccccchhhHHHHHHHhhcCccccCC
Confidence            9999999999999999999999999999999999973

>PF02338 OTU: OTU-like cysteine protease; InterPro: IPR003323 This is a group of proteins found primarily in viruses, eukaryotes and in the pathogenic bacterium Chlamydia pneumoniae

Probab=99.94  E-value=1.8e-26  Score=176.52  Aligned_cols=102  Identities=29%  Similarity=0.519  Sum_probs=85.9

Q ss_pred             CCCCchhhHHHHHHHh----cCCCChHHHHHHHHHHHh-hChhhhhhhhcCCCHHHHHHhhCCCCcccchHHHHHHHHHh
Q 028610           11 PSDNSCLFNAVGYVME----HDKNKAPELRQVIAATVA-SDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADYY   85 (206)
Q Consensus        11 p~DGnCLFrAis~~l~----g~~~~~~~lR~~v~~~i~-~np~~y~e~~l~~~~~~Y~~~m~~~~~WGg~iEL~ala~~~   85 (206)
                      ||||||||||||++|+    |++..|.+||+.|+++|+ .|++.|.+.+.+.       +|+++++|||++||+|+|++|
T Consensus         1 pgDGnClF~Avs~~l~~~~~~~~~~~~~lR~~~~~~l~~~~~~~~~~~~~~~-------~~~~~~~Wg~~~el~a~a~~~   73 (121)
T PF02338_consen    1 PGDGNCLFRAVSDQLYGDGGGSEDNHQELRKAVVDYLRDKNRDKFEEFLEGD-------KMSKPGTWGGEIELQALANVL   73 (121)
T ss_dssp             -SSTTHHHHHHHHHHCTT-SSSTTTHHHHHHHHHHHHHTHTTTHHHHHHHHH-------HHTSTTSHEEHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhccchhhhhhhhh-------hhccccccCcHHHHHHHHHHh
Confidence            8999999999999999    999999999999999999 9999995555443       999999999999999999999


Q ss_pred             CCcEEEEECCCCce---eEeCC----C-CCceEEEEEc------CCcc
Q 028610           86 GREIAAYDIQTTRC---DLYGQ----K-YSERVMLIYD------GLHY  119 (206)
Q Consensus        86 ~v~I~v~~~~~~~~---~~fg~----~-~~~~i~LlY~------G~HY  119 (206)
                      +++|.|++...+..   ..+..    . ..+.+.|.|.      |+||
T Consensus        74 ~~~I~v~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~~~~~l~~~~~Hy  121 (121)
T PF02338_consen   74 NRPIIVYSSSDGDNVVFIKFTGKYPPLESPPPICLCYHGHLYYTGNHY  121 (121)
T ss_dssp             TSEEEEECETTTBEEEEEEESCEESTTTTTTSEEEEEETEEEEETTEE
T ss_pred             CCeEEEEEcCCCCccceeeecCccccCCCCCeEEEEEcCCccCCCCCC
Confidence            99999998766643   23322    2 4677777775      6898

In viruses they are annotated as replicase or RNA-dependent RNA polymerase. The eukaryotic sequences are related to the Ovarian Tumour (OTU) gene in Drosophila, cezanne deubiquitinating peptidase and tumor necrosis factor, alpha-induced protein 3 (MEROPS peptidase family C64) and otubain 1 and otubain 2 (MEROPS peptidase family C65). None of these proteins has a known biochemical function but low sequence similarity with the polyprotein regions of arteriviruses, and conserved cysteine and histidine, and possibly the aspartate, residues suggests that those not yet recognised as peptidases could possess cysteine protease activity [].; PDB: 2VFJ_C 3DKB_F 3PHW_A 3PHU_B 3PHX_A 3BY4_A 3C0R_C 3PRM_C 3PRP_C 3ZRH_A ....

>KOG2606 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]

Probab=99.91  E-value=1.9e-24  Score=187.26  Aligned_cols=122  Identities=24%  Similarity=0.445  Sum_probs=104.9

Q ss_pred             cEEEEEeCCCCchhhHHHHHHHhcC---CCChHHHHHHHHHHHhhChhhhhhhhcCC---------CHHHHHHhhCCCCc
Q 028610            4 IIVRRVIPSDNSCLFNAVGYVMEHD---KNKAPELRQVIAATVASDPVKYSEAFLGK---------SNQEYCSWIQDPEK   71 (206)
Q Consensus         4 ~L~~~~ip~DGnCLFrAis~~l~g~---~~~~~~lR~~v~~~i~~np~~y~e~~l~~---------~~~~Y~~~m~~~~~   71 (206)
                      .|....||+||+|||+||++||.-.   .-..+.||..+|+||++|.+.|..+++..         +|+.||+.|+++..
T Consensus       158 ~l~~~~Ip~DG~ClY~aI~hQL~~~~~~~~~v~kLR~~~a~Ymr~H~~df~pf~~~eet~d~~~~~~f~~Yc~eI~~t~~  237 (302)
T KOG2606|consen  158 GLKMFDIPADGHCLYAAISHQLKLRSGKLLSVQKLREETADYMREHVEDFLPFLLDEETGDSLGPEDFDKYCREIRNTAA  237 (302)
T ss_pred             cCccccCCCCchhhHHHHHHHHHhccCCCCcHHHHHHHHHHHHHHHHHHhhhHhcCccccccCCHHHHHHHHHHhhhhcc
Confidence            4788999999999999999999532   35679999999999999999996666632         49999999999999


Q ss_pred             ccchHHHHHHHHHhCCcEEEEECCCCceeEeCCCC--CceEEEEE------cCCcceeeeecC
Q 028610           72 WGGAIELSILADYYGREIAAYDIQTTRCDLYGQKY--SERVMLIY------DGLHYDALAISP  126 (206)
Q Consensus        72 WGg~iEL~ala~~~~v~I~v~~~~~~~~~~fg~~~--~~~i~LlY------~G~HYD~l~~~~  126 (206)
                      |||+|||.|||..|.+||.||... +.+..||+.+  .+++.|+|      .|.||+++.+..
T Consensus       238 WGgelEL~AlShvL~~PI~Vy~~~-~p~~~~geey~kd~pL~lvY~rH~y~LGeHYNS~~~~~  299 (302)
T KOG2606|consen  238 WGGELELKALSHVLQVPIEVYQAD-GPILEYGEEYGKDKPLILVYHRHAYGLGEHYNSVTPLK  299 (302)
T ss_pred             ccchHHHHHHHHhhccCeEEeecC-CCceeechhhCCCCCeeeehHHhHHHHHhhhccccccc
Confidence            999999999999999999999855 5688999883  37888887      378999987653

>PF10275 Peptidase_C65: Peptidase C65 Otubain; InterPro: IPR019400 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=99.61  E-value=1.4e-14  Score=124.18  Aligned_cols=90  Identities=24%  Similarity=0.365  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHhhChhhhhhhhc-C---CCHHHHHH-hhCCCCcccchHHHHHHHHHhCCcEEEEECCCC---c---eeEe
Q 028610           34 ELRQVIAATVASDPVKYSEAFL-G---KSNQEYCS-WIQDPEKWGGAIELSILADYYGREIAAYDIQTT---R---CDLY  102 (206)
Q Consensus        34 ~lR~~v~~~i~~np~~y~e~~l-~---~~~~~Y~~-~m~~~~~WGg~iEL~ala~~~~v~I~v~~~~~~---~---~~~f  102 (206)
                      .||..++.||+.|++.| ++|+ +   .++++||+ .+..++.=.+++.|.|||+.++++|.|+..+.+   .   ...|
T Consensus       141 flRLlts~~l~~~~d~y-~~fi~~~~~~tve~~C~~~Vep~~~Ead~v~i~ALa~aL~v~i~v~yld~~~~~~~~~~~~~  219 (244)
T PF10275_consen  141 FLRLLTSAYLKSNSDEY-EPFIDGLEYLTVEEFCSQEVEPMGKEADHVQIIALAQALGVPIRVEYLDRSVEGDEVNRHEF  219 (244)
T ss_dssp             HHHHHHHHHHHHTHHHH-GGGSSTT--S-HHHHHHHHTSSTT--B-HHHHHHHHHHHT--EEEEESSSSGCSTTSEEEEE
T ss_pred             HHHHHHHHHHHhhHHHH-hhhhcccccCCHHHHHHhhcccccccchhHHHHHHHHHhCCeEEEEEecCCCCCCccccccC
Confidence            59999999999999999 5555 4   78999997 589999999999999999999999999987632   1   3456


Q ss_pred             CC---CCCceEEEEEcCCcceeeee
Q 028610          103 GQ---KYSERVMLIYDGLHYDALAI  124 (206)
Q Consensus       103 g~---~~~~~i~LlY~G~HYD~l~~  124 (206)
                      .+   +..++|.|+|...|||.+++
T Consensus       220 ~~~~~~~~~~i~LLyrpgHYdIly~  244 (244)
T PF10275_consen  220 PPDNESQEPQITLLYRPGHYDILYP  244 (244)
T ss_dssp             S-SSTTSS-SEEEEEETBEEEEEEE
T ss_pred             CCccCCCCCEEEEEEcCCccccccC
Confidence            42   25788999999889999985

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This family of proteins is a highly specific ubiquitin iso-peptidase that removes ubiquitin from proteins. The modification of cellular proteins by ubiquitin (Ub) is an important event that underlies protein stability and function in eukaryotes, as it is a dynamic and reversible process. Otubain carries several key conserved domains: (i) the OTU (ovarian tumour domain) in which there is an active cysteine protease triad (ii) a nuclear localisation signal, (iii) a Ub interaction motif (UIM)-like motif phi-xx-A-xxxs-xx-Ac (where phi indicates an aromatic amino acid, x indicates any amino acid and Ac indicates an acidic amino acid), (iv) a Ub-associated (UBA)-like domain and (v) the LxxLL motif. ; PDB: 4DDG_C 3VON_O 2ZFY_A 4DHZ_A 4DDI_C 1TFF_A 4DHJ_I 4DHI_B.

>KOG3991 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.55  E-value=1e-14  Score=122.94  Aligned_cols=92  Identities=20%  Similarity=0.293  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHHhhChhhhhhhhc-C-CCHHHHHHh-hCCCCcccchHHHHHHHHHhCCcEEEEECCCCce-----eEeCC
Q 028610           33 PELRQVIAATVASDPVKYSEAFL-G-KSNQEYCSW-IQDPEKWGGAIELSILADYYGREIAAYDIQTTRC-----DLYGQ  104 (206)
Q Consensus        33 ~~lR~~v~~~i~~np~~y~e~~l-~-~~~~~Y~~~-m~~~~~WGg~iEL~ala~~~~v~I~v~~~~~~~~-----~~fg~  104 (206)
                      ..||..++.+|++|++.| ++|+ | ++..+||.. +.....-.|||+|.|||+.+++.|.|..++.+.-     ..|.+
T Consensus       157 ~ylRLvtS~~ik~~adfy-~pFI~e~~tV~~fC~~eVEPm~kesdhi~I~ALs~Al~i~irVey~dr~~~~~~~hH~fpe  235 (256)
T KOG3991|consen  157 MYLRLVTSGFIKSNADFY-QPFIDEGMTVKAFCTQEVEPMYKESDHIHITALSQALGIRIRVEYVDRGSGDTVNHHDFPE  235 (256)
T ss_pred             HHHHHHHHHHHhhChhhh-hccCCCCCcHHHHHHhhcchhhhccCceeHHHHHhhhCceEEEEEecCCCCCCCCCCcCcc
Confidence            469999999999999999 5565 3 689999995 7777788999999999999999999998764322     23434


Q ss_pred             CCCceEEEEEcCCcceeeeec
Q 028610          105 KYSERVMLIYDGLHYDALAIS  125 (206)
Q Consensus       105 ~~~~~i~LlY~G~HYD~l~~~  125 (206)
                      ...++|+|+|...|||+|++.
T Consensus       236 ~s~P~I~LLYrpGHYdilY~~  256 (256)
T KOG3991|consen  236 ASAPEIYLLYRPGHYDILYKK  256 (256)
T ss_pred             ccCceEEEEecCCccccccCC
Confidence            467889999999999999863

>KOG2605 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=2.9e-14  Score=128.94  Aligned_cols=120  Identities=19%  Similarity=0.211  Sum_probs=95.0

Q ss_pred             EEEEEeCCCCchhhHHHHHHHhcCCCChHHHHHHHHHHHhhChhhhhhhhcCCCHHHHHHhhCCCCcccchHHHHHHHH-
Q 028610            5 IVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILAD-   83 (206)
Q Consensus         5 L~~~~ip~DGnCLFrAis~~l~g~~~~~~~lR~~v~~~i~~np~~y~e~~l~~~~~~Y~~~m~~~~~WGg~iEL~ala~-   83 (206)
                      +..++|.+||||+|||+++|++++.+.|..+|+.+++++..+++.| +-++.+++.+|++.++.++.||.+||+||+|. 
T Consensus       218 ~e~~Kv~edGsC~fra~aDQvy~d~e~~~~~~~~~~dq~~~e~~~~-~~~vt~~~~~y~k~kr~~~~~gnhie~Qa~a~~  296 (371)
T KOG2605|consen  218 FEYKKVVEDGSCLFRALADQVYGDDEQHDHNRRECVDQLKKERDFY-EDYVTEDFTSYIKRKRADGEPGNHIEQQAAADI  296 (371)
T ss_pred             hhhhhcccCCchhhhccHHHhhcCHHHHHHHHHHHHHHHhhccccc-ccccccchhhcccccccCCCCcchHHHhhhhhh
Confidence            4567899999999999999999999999999999999999999999 56778889999999999999999999999995 


Q ss_pred             --HhCCcEEEEECCCCceeEeCCCCCceEE-EEE---cCCcceeeeec
Q 028610           84 --YYGREIAAYDIQTTRCDLYGQKYSERVM-LIY---DGLHYDALAIS  125 (206)
Q Consensus        84 --~~~v~I~v~~~~~~~~~~fg~~~~~~i~-LlY---~G~HYD~l~~~  125 (206)
                        ....++.+....+..+....+....++- +.|   .-.||+.++..
T Consensus       297 ~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~n~~~~~h~~~~~~~  344 (371)
T KOG2605|consen  297 YEEIEKPLNITSFKDTCYIQTPPAIEESVKMEKYNFWVEVHYNTARHS  344 (371)
T ss_pred             hhhccccceeecccccceeccCcccccchhhhhhcccchhhhhhcccc
Confidence              4445555555555544444443222222 223   35699998875

>COG5539 Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]

Probab=98.94  E-value=2.7e-10  Score=99.24  Aligned_cols=116  Identities=16%  Similarity=0.031  Sum_probs=85.3

Q ss_pred             EEEEEeCCCCchhhHHHHHHHhc-----CCCChHHHHHHHHHHHhhChhhhhhhhcC------CCHHHHHHhhCCCCccc
Q 028610            5 IVRRVIPSDNSCLFNAVGYVMEH-----DKNKAPELRQVIAATVASDPVKYSEAFLG------KSNQEYCSWIQDPEKWG   73 (206)
Q Consensus         5 L~~~~ip~DGnCLFrAis~~l~g-----~~~~~~~lR~~v~~~i~~np~~y~e~~l~------~~~~~Y~~~m~~~~~WG   73 (206)
                      |+--.++|||+|+|-+||++|.-     +.+..+.+|-.=..|.+.+.+.|+....+      .+|++|++.|+.+..||
T Consensus       171 i~k~d~~~dG~ieia~iS~~l~v~i~~Vdv~~~~~dr~~~~~~~q~~~i~f~g~hfD~~t~~m~~~dt~~ne~~~~a~~g  250 (306)
T COG5539         171 IVKPDSQGDGCIEIAIISDQLPVRIHVVDVDKDSEDRYNSHPYVQRISILFTGIHFDEETLAMVLWDTYVNEVLFDASDG  250 (306)
T ss_pred             hhccccCCCceEEEeEeccccceeeeeeecchhHHhhccCChhhhhhhhhhcccccchhhhhcchHHHHHhhhccccccc
Confidence            44457899999999999999963     22344677777777777777777432222      37999999999999999


Q ss_pred             chHHHHHHHHHhCCcEEEEECCCCceeEeCCCCCceEE-EE-----E-cCCcceee
Q 028610           74 GAIELSILADYYGREIAAYDIQTTRCDLYGQKYSERVM-LI-----Y-DGLHYDAL  122 (206)
Q Consensus        74 g~iEL~ala~~~~v~I~v~~~~~~~~~~fg~~~~~~i~-Ll-----Y-~G~HYD~l  122 (206)
                      +.||+++||..|++++++++..+ .+++|++=...++. +.     | .| ||+.+
T Consensus       251 ~~~ei~qLas~lk~~~~~~nT~~-~~ik~n~c~~~~~~e~~~~~Ha~a~G-H~n~~  304 (306)
T COG5539         251 ITIEIQQLASLLKNPHYYTNTAS-PSIKCNICGTGFVGEKDYYAHALATG-HYNFG  304 (306)
T ss_pred             chHHHHHHHHHhcCceEEeecCC-ceEEeeccccccchhhHHHHHHHhhc-Ccccc
Confidence            99999999999999999997553 36777653122221 11     2 46 99976

>PF05415 Peptidase_C36: Beet necrotic yellow vein furovirus-type papain-like endopeptidase; InterPro: IPR008746 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=95.47  E-value=0.04  Score=40.75  Aligned_cols=77  Identities=13%  Similarity=0.321  Sum_probs=53.1

Q ss_pred             eCCCCchhhHHHHHHHhcCCCChHHHHHHHHHHHhhChhhhhhhhcCCCHHHHHHhhCC--CCcccchHHHHHHHHHhCC
Q 028610           10 IPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQD--PEKWGGAIELSILADYYGR   87 (206)
Q Consensus        10 ip~DGnCLFrAis~~l~g~~~~~~~lR~~v~~~i~~np~~y~e~~l~~~~~~Y~~~m~~--~~~WGg~iEL~ala~~~~v   87 (206)
                      +..|||||--|||.+|.-+-+       .+-.-|+.|..         ..+.|+.|.++  |.+|-+-   ..+|+.+++
T Consensus         3 ~sR~NNCLVVAis~~L~~T~e-------~l~~~M~An~~---------~i~~y~~W~r~~~~STW~DC---~mFA~~LkV   63 (104)
T PF05415_consen    3 ASRPNNCLVVAISECLGVTLE-------KLDNLMQANVS---------TIKKYHTWLRKKRPSTWDDC---RMFADALKV   63 (104)
T ss_pred             ccCCCCeEeehHHHHhcchHH-------HHHHHHHhhHH---------HHHHHHHHHhcCCCCcHHHH---HHHHHhhee
Confidence            467999999999999985432       22234555533         26789999765  7799775   468999999


Q ss_pred             cEEEEECC-CC-ceeEeCCC
Q 028610           88 EIAAYDIQ-TT-RCDLYGQK  105 (206)
Q Consensus        88 ~I~v~~~~-~~-~~~~fg~~  105 (206)
                      .|.+--.. .+ .+.-|+++
T Consensus        64 sm~vkV~~~~~~~l~~~~d~   83 (104)
T PF05415_consen   64 SMQVKVLSDKPYDLLYFVDG   83 (104)
T ss_pred             EEEEEEcCCCCceeeEeecC
Confidence            98875443 33 24456665

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases correspond to MEROPS peptidase family C36 (clan CA). The type example is beet necrotic yellow vein furovirus-type papain-like endopeptidase (beet necrotic yellow vein virus), which is involved in processing the viral polyprotein.

>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=87.52  E-value=0.28  Score=33.38  Aligned_cols=30  Identities=27%  Similarity=0.313  Sum_probs=22.2

Q ss_pred             ceeeccccCCcccCH---HHHHHHHHhhCCCcc
Q 028610          173 FTLRCGVCQIGVIGQ---KEAVEHAQATGHVNF  202 (206)
Q Consensus       173 ~~l~C~~c~~~~~g~---~~a~~Ha~~tgH~~F  202 (206)
                      -...|+.||+.+-|.   .-|.+|+++|||.=|
T Consensus        10 ~lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l~   42 (63)
T PF02148_consen   10 NLWLCLTCGYVGCGRYSNGHALKHYKETGHPLA   42 (63)
T ss_dssp             SEEEETTTS-EEETTTSTSHHHHHHHHHT--EE
T ss_pred             ceEEeCCCCcccccCCcCcHHHHhhcccCCeEE
Confidence            345799999999985   679999999999633

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....

>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A

Probab=85.94  E-value=0.34  Score=26.43  Aligned_cols=25  Identities=16%  Similarity=0.504  Sum_probs=21.3

Q ss_pred             eeccccCCcccCHHHHHHHHHhhCC
Q 028610          175 LRCGVCQIGVIGQKEAVEHAQATGH  199 (206)
Q Consensus       175 l~C~~c~~~~~g~~~a~~Ha~~tgH  199 (206)
                      ..|.+|++.+.++...+.|-+...|
T Consensus         1 ~~C~~C~~~f~s~~~~~~H~~s~~H   25 (25)
T PF12874_consen    1 FYCDICNKSFSSENSLRQHLRSKKH   25 (25)
T ss_dssp             EEETTTTEEESSHHHHHHHHTTHHH
T ss_pred             CCCCCCCCCcCCHHHHHHHHCcCCC
Confidence            3699999999999999999876543

>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A

Probab=84.62  E-value=1  Score=31.99  Aligned_cols=30  Identities=20%  Similarity=0.411  Sum_probs=26.5

Q ss_pred             eeeccccCCcccCHHHHHHHHHhhCCCccc
Q 028610          174 TLRCGVCQIGVIGQKEAVEHAQATGHVNFQ  203 (206)
Q Consensus       174 ~l~C~~c~~~~~g~~~a~~Ha~~tgH~~F~  203 (206)
                      .++|..|++.+......+.|-...+|....
T Consensus        50 ~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~   79 (100)
T PF12756_consen   50 SFRCPYCNKTFRSREALQEHMRSKHHKKRN   79 (100)
T ss_dssp             SEEBSSSS-EESSHHHHHHHHHHTTTTC-S
T ss_pred             CCCCCccCCCCcCHHHHHHHHcCccCCCcc
Confidence            689999999999999999999999998874

>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=80.26  E-value=1.2  Score=23.70  Aligned_cols=21  Identities=14%  Similarity=0.468  Sum_probs=18.9

Q ss_pred             eccccCCcccCHHHHHHHHHh
Q 028610          176 RCGVCQIGVIGQKEAVEHAQA  196 (206)
Q Consensus       176 ~C~~c~~~~~g~~~a~~Ha~~  196 (206)
                      +|.+|++.+.....-..|-+.
T Consensus         2 ~C~~C~~~f~~~~~l~~H~~~   22 (23)
T PF00096_consen    2 KCPICGKSFSSKSNLKRHMRR   22 (23)
T ss_dssp             EETTTTEEESSHHHHHHHHHH
T ss_pred             CCCCCCCccCCHHHHHHHHhH
Confidence            799999999999999999764

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	206
3by4_A	212	Structure Of Ovarian Tumor (Otu) Domain In Complex		4e-29
3c0r_A	212	Structure Of Ovarian Tumor (Otu) Domain In Complex		3e-28

>pdb|3BY4|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With Ubiquitin Length = 212

Iteration: 1
 Score =  124 bits (311), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 62/210 (29%), Positives = 117/210 (55%), Gaps = 19/210 (9%)
Query: 2   EGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQE 61
           E ++    +  DNSCLF+A+ Y +   ++   +LR++++  V ++PVK+++A L K N++
Sbjct: 17  ENVLSVHPVLDDNSCLFHAIAYGI-FKQDSVRDLREMVSKEVLNNPVKFNDAILDKPNKD 75
Query: 62  YCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ-KYSERVMLIYDGLHYD 120
           Y  WI   E WGGAIE+ I++D     I   DI   + + + + K+   ++++++G+HYD
Sbjct: 76  YAQWILKMESWGGAIEIGIISDALAVAIYVVDIDAVKIEKFNEDKFDNYILILFNGIHYD 135
Query: 121 ALAISPFEGAPEEFDQTIFPVQKGRTIGPAED----LALKLVKEQQRKKTYTDTANFTLR 176
           +L ++ F        +T+F   +     P  D     AL+L    ++     +T    ++
Sbjct: 136 SLTMNEF--------KTVFNKNQ-----PESDDVLTAALQLASNLKQTGYSFNTHKAQIK 182
Query: 177 CGVCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           C  CQ+  +G++E   HA++TGHV+F + R
Sbjct: 183 CNTCQMTFVGEREVARHAESTGHVDFGQNR 212

>pdb|3C0R|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With Ubiquitin Length = 212

Iteration: 1
 Score =  121 bits (303), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 62/210 (29%), Positives = 114/210 (54%), Gaps = 19/210 (9%)
Query: 2   EGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQE 61
           E ++    +  DNSCLF+A+ Y +   ++   +LR+ ++  V ++PVK+++A L K N++
Sbjct: 17  ENVLSVHPVLDDNSCLFHAIAYGI-FKQDSVRDLREXVSKEVLNNPVKFNDAILDKPNKD 75
Query: 62  YCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ-KYSERVMLIYDGLHYD 120
           Y  WI   E WGGAIE+ I++D     I   DI   + + + + K+   ++++++G+HYD
Sbjct: 76  YAQWILKXESWGGAIEIGIISDALAVAIYVVDIDAVKIEKFNEDKFDNYILILFNGIHYD 135
Query: 121 ALAISPFEGAPEEFDQTIFPVQKGRTIGPAED----LALKLVKEQQRKKTYTDTANFTLR 176
           +L  + F        +T+F   +     P  D     AL+L    ++     +T    ++
Sbjct: 136 SLTXNEF--------KTVFNKNQ-----PESDDVLTAALQLASNLKQTGYSFNTHKAQIK 182
Query: 177 CGVCQIGVIGQKEAVEHAQATGHVNFQEYR 206
           C  CQ   +G++E   HA++TGHV+F + R
Sbjct: 183 CNTCQXTFVGEREVARHAESTGHVDFGQNR 212

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	206
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	2e-72
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	4e-32
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	6e-31
3pfy_A	185	OTU domain-containing protein 5; structural genomi	2e-20
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	5e-04

>3by4_A OTU1, ubiquitin thioesterase OTU1; ubiquitin hydrolase, deubiquitinase, cell cycle, hydrolase; 1.55A {Saccharomyces cerevisiae} PDB: 3c0r_A Length = 212

 Score =  217 bits (554), Expect = 2e-72
 Identities = 59/206 (28%), Positives = 112/206 (54%), Gaps = 11/206 (5%)

Query: 2   EGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQE 61
           E ++    +  DNSCLF+A+ Y +    +   +LR++++  V ++PVK+++A L K N++
Sbjct: 17  ENVLSVHPVLDDNSCLFHAIAYGIFKQDS-VRDLREMVSKEVLNNPVKFNDAILDKPNKD 75

Query: 62  YCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQ-KYSERVMLIYDGLHYD 120
           Y  WI   E WGGAIE+ I++D     I   DI   + + + + K+   ++++++G+HYD
Sbjct: 76  YAQWILKMESWGGAIEIGIISDALAVAIYVVDIDAVKIEKFNEDKFDNYILILFNGIHYD 135

Query: 121 ALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLRCGVC 180
           +L ++ F+    +       V            AL+L    ++     +T    ++C  C
Sbjct: 136 SLTMNEFKTVFNKNQPESDDVLTA---------ALQLASNLKQTGYSFNTHKAQIKCNTC 186

Query: 181 QIGVIGQKEAVEHAQATGHVNFQEYR 206
           Q+  +G++E   HA++TGHV+F + R
Sbjct: 187 QMTFVGEREVARHAESTGHVDFGQNR 212

>3phx_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Crimean-congo hemorrhagic fever virus} PDB: 3phw_A 3pt2_A 3pse_A 3prp_A 3prm_A Length = 185

 Score =  113 bits (285), Expect = 4e-32
 Identities = 29/150 (19%), Positives = 55/150 (36%), Gaps = 13/150 (8%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSE-----AFL 55
           +         P D +C ++++  +   +K         I     S   KY +       +
Sbjct: 27  ISDYFEIVRQPGDGNCFYHSIAELTMPNKT--DHSYHYIKRLTESAARKYYQEEPEARLV 84

Query: 56  GKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSE-----RV 110
           G S ++Y   +    +WG  +E S+LA   G  I  + +  +     G K+ +      V
Sbjct: 85  GLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDVFTAV 144

Query: 111 MLIY-DGLHYDALAISPFEGAPEEFDQTIF 139
            L++    H+DAL I P          ++ 
Sbjct: 145 NLLHSGQTHFDALRILPQFETDTREALSLM 174

>3phu_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase; 2.20A {Crimean-congo hemorrhagic fever VIRUSIBAR10200} Length = 219

 Score =  111 bits (279), Expect = 6e-31
 Identities = 36/193 (18%), Positives = 67/193 (34%), Gaps = 24/193 (12%)

Query: 1   MEGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKY-----SEAFL 55
           +         P D +C ++++  +   +K         I     S   KY         +
Sbjct: 27  ISDYFEIVRQPGDGNCFYHSIAELTMPNKT--DHSYHYIKRLTESAARKYYQEEPEARLV 84

Query: 56  GKSNQEYCSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYGQKYSE-----RV 110
           G S ++Y   +    +WG  +E S+LA   G  I  + +  +     G K+ +      V
Sbjct: 85  GLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDVFTAV 144

Query: 111 MLIY-DGLHYDALAISPFEGAPEEFDQTI---------FPVQKGRTIGPAEDLALKLVKE 160
            L++    H+DAL I P          ++                 +   EDLAL L   
Sbjct: 145 NLLHSGQTHFDALRILPQFETDTREALSLMDRVIAVDQLTSSSSDELQDYEDLALALTSA 204

Query: 161 QQ--RKKTYTDTA 171
           ++  R+ +  +  
Sbjct: 205 EESNRRSSLDEVT 217

>3pfy_A OTU domain-containing protein 5; structural genomics, structural genomics consortium, SGC, PE C65 otubain, hydrolase; HET: MSE PG4; 1.70A {Homo sapiens} PDB: 3tmp_A* 3tmo_A* Length = 185

 Score = 83.6 bits (206), Expect = 2e-20
 Identities = 19/121 (15%), Positives = 51/121 (42%), Gaps = 5/121 (4%)

Query: 6   VRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSW 65
           + + +  D +CLF AV   +  D++    +R+     +  +   +   ++ +    Y + 
Sbjct: 60  IIKQMKEDGACLFRAVADQVYGDQDMHEVVRKHCMDYLMKNADYF-SNYVTEDFTTYINR 118

Query: 66  IQDPEKWGGAIELSILADYYGREIAAYDIQTTRCDLYG--QKYSERVMLI--YDGLHYDA 121
            +     G  IE+  +A+ Y R +  Y   T   + +    +  +  + +  +  +HY++
Sbjct: 119 KRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNS 178

Query: 122 L 122
           +
Sbjct: 179 V 179

>2zfy_A Ubiquitin thioesterase OTUB1; otubain, structural genomics, structural genomics consortium, SGC, alternative splicing, hydrolase, immune response; 1.69A {Homo sapiens} PDB: 4ddg_B 4ddi_A Length = 234

 Score = 38.9 bits (90), Expect = 5e-04
 Identities = 21/96 (21%), Positives = 38/96 (39%), Gaps = 9/96 (9%)

Query: 35  LRQVIAATVASDPVKYSEAFL--GKSNQEYCS-WIQDPEKWGGAIELSILADYYGREIA- 90
           LR + +  +  +   + E F+  G++ +E+C   ++   K    I +  LA      I  
Sbjct: 138 LRLLTSGYLQRESKFF-EHFIEGGRTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQV 196

Query: 91  AYDIQTTRCDLYGQKYSE----RVMLIYDGLHYDAL 122
            Y  +          + E    +V L+Y   HYD L
Sbjct: 197 EYMDRGEGGTTNPHIFPEGSEPKVYLLYRPGHYDIL 232

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	206
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	100.0
3pfy_A	185	OTU domain-containing protein 5; structural genomi	100.0
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	100.0
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	100.0
1tff_A	234	Ubiquitin thiolesterase protein OTUB2; hydrolase;	99.9
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	99.87
4dhi_B	284	Ubiquitin thioesterase otubain-like; ubiquitin E2	99.86
4ddg_A	399	Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI	99.82
3dkb_A	390	Tumor necrosis factor, alpha-induced protein 3; OT	98.44
3zrh_A	454	Ubiquitin thioesterase zranb1; hydrolase, deubiqui	98.38

>3by4_A OTU1, ubiquitin thioesterase OTU1; ubiquitin hydrolase, deubiquitinase, cell cycle, hydrolase; 1.55A {Saccharomyces cerevisiae} PDB: 3c0r_A

Probab=100.00  E-value=4.1e-67  Score=440.86  Aligned_cols=195  Identities=30%  Similarity=0.661  Sum_probs=148.8

Q ss_pred             CCcEEEEEeCCCCchhhHHHHHHHhcCCCChHHHHHHHHHHHhhChhhhhhhhcCCCHHHHHHhhCCCCcccchHHHHHH
Q 028610            2 EGIIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSIL   81 (206)
Q Consensus         2 ~g~L~~~~ip~DGnCLFrAis~~l~g~~~~~~~lR~~v~~~i~~np~~y~e~~l~~~~~~Y~~~m~~~~~WGg~iEL~al   81 (206)
                      +|.|.+++||+||||||||||+|| +++..|.+||+.||+||++||+.|.++|+++++++||+||+++++|||+|||+||
T Consensus        17 ~~~l~~~~i~~DGnCLFrAva~qL-~~~~~~~~lR~~vv~yi~~n~d~f~e~~~~~~~e~Y~~~m~~~~~WGg~iEL~Al   95 (212)
T 3by4_A           17 ENVLSVHPVLDDNSCLFHAIAYGI-FKQDSVRDLREMVSKEVLNNPVKFNDAILDKPNKDYAQWILKMESWGGAIEIGII   95 (212)
T ss_dssp             CSEEEEECCCCSTTHHHHHHHHHH-HSSCCSHHHHHHHHHHHHHCTTTTCHHHHTSCHHHHHHHTTSTTSCCCHHHHHHH
T ss_pred             CCCeEEEEeCCCCchHHHHHHHHh-CCchHHHHHHHHHHHHHHHCHHHHhhhhcCCCHHHHHHHhcCCCEEccHHHHHHH
Confidence            467999999999999999999999 9999999999999999999999999899999999999999999999999999999


Q ss_pred             HHHhCCcEEEEECCCCceeEeCCC-CCceEEEEEcCCcceeeeecCCCCCCCCCCeeeeeCCCCCchhHHHHHHHHHHHH
Q 028610           82 ADYYGREIAAYDIQTTRCDLYGQK-YSERVMLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKE  160 (206)
Q Consensus        82 a~~~~v~I~v~~~~~~~~~~fg~~-~~~~i~LlY~G~HYD~l~~~~~~~~~~~~d~t~f~~~d~~~~~~~~~~a~~l~~~  160 (206)
                      |++|+++|.|++++++++..||++ ..++|+|+|+|+|||+|++        ++|+|+|+++|+.. +.++++|++||++
T Consensus        96 s~~~~~~I~V~~~~~~~~~~~~~~~~~~~I~L~Y~g~HYdsl~~--------~~d~~~f~~~~~~~-~~~~~~a~~l~~~  166 (212)
T 3by4_A           96 SDALAVAIYVVDIDAVKIEKFNEDKFDNYILILFNGIHYDSLTM--------NEFKTVFNKNQPES-DDVLTAALQLASN  166 (212)
T ss_dssp             HHHHTCEEEEEETTTTEEEEESTTTCSEEEEEEECSSCEEEEEE--------TTTBCCEETTSTTH-HHHHHHHHHHHHH
T ss_pred             HHHHCCCEEEEECCCCCeEEeCCCCCCCeEEEEEcCCcceEEec--------CCCcccCCccccch-HHHHHHHHHHHHH
Confidence            999999999999988889999998 4788999999999999999        56899999999666 7789999999999


Q ss_pred             HhhCCCccccCCceeeccccCCcccCHHHHHHHHHhhCCCcccccC
Q 028610          161 QQRKKTYTDTANFTLRCGVCQIGVIGQKEAVEHAQATGHVNFQEYR  206 (206)
Q Consensus       161 ~~~~~~~t~t~~~~l~C~~c~~~~~g~~~a~~Ha~~tgH~~F~e~~  206 (206)
                      ||++||||||++|+|||++||++++|+++|++||++|||.+|+|++
T Consensus       167 ~~~~~~~t~~~~~~l~C~~C~~~~~g~~~a~~ha~~tgH~~f~e~~  212 (212)
T 3by4_A          167 LKQTGYSFNTHKAQIKCNTCQMTFVGEREVARHAESTGHVDFGQNR  212 (212)
T ss_dssp             HHHTTCCC--------------------------------------
T ss_pred             HHHcCCcccccCeEEEcccCCCcccCHHHHHHHHHHhCCCCCCCCC
Confidence            9999999999999999999999999999999999999999999974

>3pfy_A OTU domain-containing protein 5; structural genomics, structural genomics consortium, SGC, PE C65 otubain, hydrolase; HET: MSE PG4; 1.70A {Homo sapiens} PDB: 3tmp_A* 3tmo_A*

Probab=100.00  E-value=7.7e-37  Score=251.77  Aligned_cols=120  Identities=18%  Similarity=0.385  Sum_probs=92.9

Q ss_pred             EEEEEeCCCCchhhHHHHHHHhcCCCChHHHHHHHHHHHhhChhhhhhhhcCCCHHHHHHhhCCCCcccchHHHHHHHHH
Q 028610            5 IVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIELSILADY   84 (206)
Q Consensus         5 L~~~~ip~DGnCLFrAis~~l~g~~~~~~~lR~~v~~~i~~np~~y~e~~l~~~~~~Y~~~m~~~~~WGg~iEL~ala~~   84 (206)
                      |+++.||+||||||||||+||++++..|.+||+.||+||++||+.| ++|+++++++||++|+++++|||+|||+|||++
T Consensus        59 L~~~~I~~DGnCLFrAia~qL~g~~~~h~~LR~~vv~yi~~n~d~f-~~Fv~~~~e~Y~~~m~~~~~WGg~iEL~AlS~~  137 (185)
T 3pfy_A           59 FIIKQMKEDGACLFRAVADQVYGDQDMHEVVRKHCMDYLMKNADYF-SNYVTEDFTTYINRKRKNNCHGNHIEMQAMAEM  137 (185)
T ss_dssp             CEEECCCCSTTHHHHHHHHHHHSCGGGHHHHHHHHHHHHHHTHHHH-TTCC-----------------CCHHHHHHHHHH
T ss_pred             cEEEeeCCCCChHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHH-HHHHhccHHHHHHHhhCCCccchHHHHHHHHHh
Confidence            7899999999999999999999999999999999999999999999 678889999999999999999999999999999


Q ss_pred             hCCcEEEEECCCCceeEe-CCC--CCceEEEEE-cCCcceeeeec
Q 028610           85 YGREIAAYDIQTTRCDLY-GQK--YSERVMLIY-DGLHYDALAIS  125 (206)
Q Consensus        85 ~~v~I~v~~~~~~~~~~f-g~~--~~~~i~LlY-~G~HYD~l~~~  125 (206)
                      |+++|.|++.++..+..| |.+  ..++|+|.| .+.|||+|+..
T Consensus       138 ~~v~I~V~~~~~~~i~i~~g~~~~~~~~I~L~Y~~~~HYnSv~~p  182 (185)
T 3pfy_A          138 YNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNP  182 (185)
T ss_dssp             HTSCEEEESSCSSCSEEECTTSCCTTSCEEEEEETTTEEEEEECC
T ss_pred             hCCcEEEEECCCCCeEEecCccCCCCCEEEEEECCCCCcccccCC
Confidence            999999999876666655 543  467899999 57899999764

>3phx_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Crimean-congo hemorrhagic fever virus} PDB: 3phw_A 3pt2_A 3pse_A 3prp_A 3prm_A

Probab=100.00  E-value=6.6e-35  Score=240.33  Aligned_cols=122  Identities=20%  Similarity=0.358  Sum_probs=107.8

Q ss_pred             EEEEEeCCCCchhhHHHHHHHhcC-CCC-----hHHHHHHHHHHHhhChhhhhhhhcCCCHHHHHHhhCCCCcccchHHH
Q 028610            5 IVRRVIPSDNSCLFNAVGYVMEHD-KNK-----APELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIEL   78 (206)
Q Consensus         5 L~~~~ip~DGnCLFrAis~~l~g~-~~~-----~~~lR~~v~~~i~~np~~y~e~~l~~~~~~Y~~~m~~~~~WGg~iEL   78 (206)
                      +.+..+|+||||||||||+||+++ +..     |.+||+.|++||++||+.   +++++++++||++|+++++|||++||
T Consensus        31 ~~v~rv~gDGnCLFrAva~qL~~~~~~~~~~~~~~~LR~~~~~yi~~~~~~---~~~~~~~~~Y~~~m~~~~~WGg~iEL  107 (185)
T 3phx_A           31 FEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEA---RLVGLSLEDYLKRMLSDNEWGSTLEA  107 (185)
T ss_dssp             EEEECCCSSTTHHHHHHHHHHSTTCCTTTHHHHHHHHHHHHHHHGGGCTTH---HHHCCCHHHHHHHHTSTTCCCBHHHH
T ss_pred             eEEEccCCCCchHHHHHHHHHhCCCccchhhhHHHHHHHHHHHHHHhChHh---hhcCCCHHHHHHHhhCCCccCcHHHH
Confidence            556667999999999999999998 556     899999999999999997   57899999999999999999999999


Q ss_pred             HHHHHHhCCcEEEEECCCC----ceeEeCCCC-CceEEEEEcC-CcceeeeecCCCC
Q 028610           79 SILADYYGREIAAYDIQTT----RCDLYGQKY-SERVMLIYDG-LHYDALAISPFEG  129 (206)
Q Consensus        79 ~ala~~~~v~I~v~~~~~~----~~~~fg~~~-~~~i~LlY~G-~HYD~l~~~~~~~  129 (206)
                      +|||++|+++|.|++++..    ++.+||++. .++++|+|+| +|||+|++.+...
T Consensus       108 ~Als~~~~v~I~V~~~d~~~~~~~i~~f~~~~~~~~I~L~Y~g~~HYdsl~~~~~~~  164 (185)
T 3phx_A          108 SMLAKEMGITIIIWTVAASDEVEAGIKFGDGDVFTAVNLLHSGQTHFDALRILPQFE  164 (185)
T ss_dssp             HHHHHHHCCCEEEEEC--CCBCCEEEEESSCCTTTSEEEEEETTTEEEEEEECGGGC
T ss_pred             HHHHHHHCCcEEEEEecCCCCceEEEEcCCCCCCCEEEEEECCCcCchhceECCCCC
Confidence            9999999999999987543    478899884 6778999998 8999999986543

>3phu_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase; 2.20A {Crimean-congo hemorrhagic fever VIRUSIBAR10200}

Probab=100.00  E-value=9.6e-35  Score=244.78  Aligned_cols=125  Identities=20%  Similarity=0.348  Sum_probs=110.8

Q ss_pred             cEEEEEeCCCCchhhHHHHHHHhcC-CCC-----hHHHHHHHHHHHhhChhhhhhhhcCCCHHHHHHhhCCCCcccchHH
Q 028610            4 IIVRRVIPSDNSCLFNAVGYVMEHD-KNK-----APELRQVIAATVASDPVKYSEAFLGKSNQEYCSWIQDPEKWGGAIE   77 (206)
Q Consensus         4 ~L~~~~ip~DGnCLFrAis~~l~g~-~~~-----~~~lR~~v~~~i~~np~~y~e~~l~~~~~~Y~~~m~~~~~WGg~iE   77 (206)
                      ++.+..|||||||||||||+||+++ +..     |.+||+.|++||++||+.   +++++++++||++|+++++|||++|
T Consensus        30 ~~~V~rvpgDGnCLFrAVs~qL~~~~~~~~~~~~h~~LR~~va~yi~~n~d~---~~~~~~feeY~~~m~~~g~WGG~iE  106 (219)
T 3phu_A           30 YFEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEA---RLVGLSLEDYLKRMLSDNEWGSTLE  106 (219)
T ss_dssp             HEEEECCCCSSCHHHHHHHHHHCTTCCTTTHHHHHHHHHHHHHHHGGGCHHH---HHHCCCHHHHHHHHHSTTCCCCHHH
T ss_pred             ceEEEccCCCCchHHHHHHHHHhCCCccchhhhHHHHHHHHHHHHHHhChhh---hhcCCCHHHHHHHhcCCCccCCHHH
Confidence            3566778999999999999999998 555     899999999999999997   5789999999999999999999999


Q ss_pred             HHHHHHHhCCcEEEEECCCC----ceeEeCCCC-CceEEEEEcC-CcceeeeecCCCCCC
Q 028610           78 LSILADYYGREIAAYDIQTT----RCDLYGQKY-SERVMLIYDG-LHYDALAISPFEGAP  131 (206)
Q Consensus        78 L~ala~~~~v~I~v~~~~~~----~~~~fg~~~-~~~i~LlY~G-~HYD~l~~~~~~~~~  131 (206)
                      |+|||++|+++|.|+.++..    ++.+||++. .++|+|+|+| +|||+|++.+....+
T Consensus       107 L~AlS~~~~v~I~V~~~d~~g~~~~i~~fge~~~~~~I~L~Y~g~~HYdSL~~~~d~~~~  166 (219)
T 3phu_A          107 ASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDVFTAVNLLHSGQTHFDALRILPQFETD  166 (219)
T ss_dssp             HHHHHHHTTCCEEEEEESSSSBEEEEEEESSCCTTTSEEEEEETTTEEEEEEECTTTCCS
T ss_pred             HHHHHHHhCCCEEEEEecCCCCceeEEEecCCCCCCeEEEEECCCcCchhheECCCCCCC
Confidence            99999999999999987654    578899884 6778899998 899999999775444

>1tff_A Ubiquitin thiolesterase protein OTUB2; hydrolase; 2.10A {Homo sapiens} SCOP: d.3.1.11

Probab=99.90  E-value=3.1e-23  Score=176.24  Aligned_cols=93  Identities=14%  Similarity=0.274  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHHhhChhhhhhhhcCC--CHHHHHH-hhCCCCcccchHHHHHHHHHhCCcEEEEECCCCc--e--eEeCCC
Q 028610           33 PELRQVIAATVASDPVKYSEAFLGK--SNQEYCS-WIQDPEKWGGAIELSILADYYGREIAAYDIQTTR--C--DLYGQK  105 (206)
Q Consensus        33 ~~lR~~v~~~i~~np~~y~e~~l~~--~~~~Y~~-~m~~~~~WGg~iEL~ala~~~~v~I~v~~~~~~~--~--~~fg~~  105 (206)
                      ..||..++.||++|++.| ++|+++  ++++||+ .|..+++|||++||+|||+.|+++|.|+..+.+.  +  ..|+++
T Consensus       133 ~~lR~lta~~i~~~~d~f-~pFi~~~~~~~~yC~~~ve~~~~~~~~iei~ALa~aL~v~I~V~~~d~~~~~~~~~~~~~~  211 (234)
T 1tff_A          133 QFLRLLTSAFIRNRADFF-RHFIDEEMDIKDFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMDTALNHHVFPEA  211 (234)
T ss_dssp             HHHHHHHHHHHHHTHHHH-GGGSCTTSCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-------CCCCCCC
T ss_pred             HHHHHHHHHHHHHCHHHH-hhhhcCCCCHHHHHHHHhhhhhcccccHHHHHHHHHhCCCEEEEEcCCCCCccccccCCCC
Confidence            458999999999999999 667754  8999999 7999999999999999999999999999876442  2  345555


Q ss_pred             CCceEEEEEcCCcceeeeecC
Q 028610          106 YSERVMLIYDGLHYDALAISP  126 (206)
Q Consensus       106 ~~~~i~LlY~G~HYD~l~~~~  126 (206)
                      ..+.|+|+|.+.|||+|++.+
T Consensus       212 ~~~~I~LlY~pgHYdily~~~  232 (234)
T 1tff_A          212 ATPSVYLLYKTSHYNILYAAD  232 (234)
T ss_dssp             SSCSEEEEEETTEEEEEEECC
T ss_pred             CCCeEEEEECCCCceecccCC
Confidence            567799999988999999864

>2zfy_A Ubiquitin thioesterase OTUB1; otubain, structural genomics, structural genomics consortium, SGC, alternative splicing, hydrolase, immune response; 1.69A {Homo sapiens} PDB: 4ddg_B 4ddi_A

Probab=99.87  E-value=5.4e-22  Score=168.50  Aligned_cols=91  Identities=20%  Similarity=0.279  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHHhhChhhhhhhhcCC--CHHHHHH-hhCCCCcccchHHHHHHHHHhCCcEEEEECCCCc-----eeEeCC
Q 028610           33 PELRQVIAATVASDPVKYSEAFLGK--SNQEYCS-WIQDPEKWGGAIELSILADYYGREIAAYDIQTTR-----CDLYGQ  104 (206)
Q Consensus        33 ~~lR~~v~~~i~~np~~y~e~~l~~--~~~~Y~~-~m~~~~~WGg~iEL~ala~~~~v~I~v~~~~~~~-----~~~fg~  104 (206)
                      ..||..++.||++|++.| ++|+++  ++++||+ .+..+++|||++||+|||+.|+++|.|+..+.+.     ...|++
T Consensus       136 ~~lR~lta~yi~~~~d~f-~pFi~~~~~~e~yc~~~ve~~~~~~~~i~i~ALa~al~v~I~V~~~d~~~~~~v~~~~f~~  214 (234)
T 2zfy_A          136 VYLRLLTSGYLQRESKFF-EHFIEGGRTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIFPE  214 (234)
T ss_dssp             HHHHHHHHHHHHHTHHHH-GGGCCSSCCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-CCSSCCEEEEEST
T ss_pred             HHHHHHHHHHHHHCHHHH-hcccCCCCCHHHHHHHHhhhHhhcCCHHHHHHHHHHhCCCEEEEEcCCCCCCcccceeCCC
Confidence            379999999999999999 677753  8999998 5999999999999999999999999999875332     246766


Q ss_pred             CCCceEEEEEcCCcceeeee
Q 028610          105 KYSERVMLIYDGLHYDALAI  124 (206)
Q Consensus       105 ~~~~~i~LlY~G~HYD~l~~  124 (206)
                      +..++|+|+|.+.|||+|++
T Consensus       215 ~~~p~I~LlY~pgHYdiLy~  234 (234)
T 2zfy_A          215 GSEPKVYLLYRPGHYDILYK  234 (234)
T ss_dssp             TCCCSEEEEEETTEEEEEEC
T ss_pred             CCCCeEEEEECCCCcccCCC
Confidence            66678999998889999974

>4dhi_B Ubiquitin thioesterase otubain-like; ubiquitin E2 enzyme fold, ubiquitination, hydrolase-ligase C; 1.80A {Caenorhabditis elegans} PDB: 4dhj_A 4dhz_A

Probab=99.86  E-value=1.3e-21  Score=169.92  Aligned_cols=94  Identities=16%  Similarity=0.230  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHHhhChhhhhhhhc-C-CCHHHHHH-hhCCCCcccchHHHHHHHHHhCCcEEEEECCC--Cc---eeE-eC
Q 028610           33 PELRQVIAATVASDPVKYSEAFL-G-KSNQEYCS-WIQDPEKWGGAIELSILADYYGREIAAYDIQT--TR---CDL-YG  103 (206)
Q Consensus        33 ~~lR~~v~~~i~~np~~y~e~~l-~-~~~~~Y~~-~m~~~~~WGg~iEL~ala~~~~v~I~v~~~~~--~~---~~~-fg  103 (206)
                      ..||..++.||++|++.| ++|+ + .++++||+ +|...+.|||++||.|||+.|+++|.|+..+.  |.   ... |.
T Consensus       171 ~~LRllts~yi~~~~d~f-~pFi~~~~~v~~yC~~eVe~~~~e~d~leI~ALa~aL~v~I~V~ylDrs~g~~v~~h~~fp  249 (284)
T 4dhi_B          171 MFFRLITSAFLKQNSEEY-APFIDEGMTVAQYCEQEIEPMWKDADHLAINSLIKAAGTRVRIEYMDRTAAPNGGWHYDIP  249 (284)
T ss_dssp             HHHHHHHHHHHHHTHHHH-GGGSCTTCCHHHHHHHHTSSTTCCCCHHHHHHHHHHTTCCEEEEESSGGGCTTSSSEEEES
T ss_pred             HHHHHHHHHHHHHCHHHH-HhhcCCCCCHHHHHHHhceehhhcccHHHHHHHHHHhCCcEEEEEecCCCCCCCcccccCC
Confidence            469999999999999999 5555 4 58999999 89999999999999999999999999987652  21   245 74


Q ss_pred             CCC---CceEEEEEcCCcceeeeecCC
Q 028610          104 QKY---SERVMLIYDGLHYDALAISPF  127 (206)
Q Consensus       104 ~~~---~~~i~LlY~G~HYD~l~~~~~  127 (206)
                      ++.   .+.|+|+|.+.|||.|++.+.
T Consensus       250 ~~~~~~~p~I~LLYrpgHYDILY~~~p  276 (284)
T 4dhi_B          250 SDDQQIAPEITLLYRPGHYDVIYKKDS  276 (284)
T ss_dssp             CCCSCCCCSEEEEEETTEEEEEEECC-
T ss_pred             CCCCCCCCEEEEeecCCCccccccCCC
Confidence            332   267999999999999999864

>4ddg_A Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI OTUB1; inhibition, hydrolase-ligase complex; 3.30A {Homo sapiens} PDB: 4ddi_A

Probab=99.82  E-value=8.6e-20  Score=165.53  Aligned_cols=91  Identities=20%  Similarity=0.291  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHHhhChhhhhhhhcC--CCHHHHHH-hhCCCCcccchHHHHHHHHHhCCcEEEEECCCC---c--eeEeCC
Q 028610           33 PELRQVIAATVASDPVKYSEAFLG--KSNQEYCS-WIQDPEKWGGAIELSILADYYGREIAAYDIQTT---R--CDLYGQ  104 (206)
Q Consensus        33 ~~lR~~v~~~i~~np~~y~e~~l~--~~~~~Y~~-~m~~~~~WGg~iEL~ala~~~~v~I~v~~~~~~---~--~~~fg~  104 (206)
                      ..||..++.||++|++.| ++|+.  .++++||+ .|...++|||++||.|||+.|+++|.|+..+.+   .  ...|++
T Consensus       301 ~~lRllts~~i~~~~d~f-~pFi~~~~~v~~yc~~~ve~~~~e~d~l~I~ALa~al~v~I~V~yld~~~~~~v~~~~~~~  379 (399)
T 4ddg_A          301 VYLRLLTSGYLQRESKFF-EHFIEGGRTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIFPE  379 (399)
T ss_dssp             HHHHHHHHHHHHHTHHHH-GGGSSSSCCHHHHHHHHTSSTTCCBCHHHHHHHHHHHTCCCEEEECSCCSSSCCCEEETTT
T ss_pred             HHHHHHHHHHHHHCHHHH-hcccCCCCCHHHHHHHhceeHHhhCcHHHHHHHHHHcCCcEEEEEcCCCCCCccceeeCCC
Confidence            459999999999999999 55664  47999999 899999999999999999999999999975432   2  245655


Q ss_pred             CCCceEEEEEcCCcceeeee
Q 028610          105 KYSERVMLIYDGLHYDALAI  124 (206)
Q Consensus       105 ~~~~~i~LlY~G~HYD~l~~  124 (206)
                      +..+.|+|+|...|||+|++
T Consensus       380 ~~~~~I~LLYrPgHYDiLY~  399 (399)
T 4ddg_A          380 GSEPKVYLLYRPGHYDILYK  399 (399)
T ss_dssp             TCCCCCEEEEETBEEEEEEC
T ss_pred             CCCCEEEEEEcCCccccCCC
Confidence            56778999999999999984

>3dkb_A Tumor necrosis factor, alpha-induced protein 3; OTU domain, DUB domain, apoptosis, cytoplasm, DNA-binding, hydrolase, metal-binding, nucleus; 2.50A {Homo sapiens} PDB: 2vfj_A

Probab=98.44  E-value=1.8e-06  Score=76.78  Aligned_cols=122  Identities=17%  Similarity=0.243  Sum_probs=84.9

Q ss_pred             EEEEEeCCCCchhhHHHHHHHhcCCCChHHHHHHHHHHHhhChh-hhhh----------hhc-----------CCCHHHH
Q 028610            5 IVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPV-KYSE----------AFL-----------GKSNQEY   62 (206)
Q Consensus         5 L~~~~ip~DGnCLFrAis~~l~g~~~~~~~lR~~v~~~i~~np~-~y~e----------~~l-----------~~~~~~Y   62 (206)
                      |+--...||||||.+|+|..+.|-.+...-||+...+.|++... .|..          .+.           .+.|+.-
T Consensus       112 L~pL~t~GDGnCLLHAvSqamWGv~DrdlvLRkaL~~~L~~~~~~~fr~RW~~e~~~~q~~~~~gL~y~e~ew~~EW~~I  191 (390)
T 3dkb_A          112 LVALKTNGDGNCLMHATSQYMWGVQDTDLVLRKALFSTLKETDTRNFKFRWQLESLKSQEFVETGLCYDTRNWNDEWDNL  191 (390)
T ss_dssp             EEEBCCCCSSCHHHHHHHHHHHSSCSTTCHHHHHHHHHHHHSCCHHHHHHHHHHHHCCCSSCC----CCSSCSSHHHHHH
T ss_pred             eEEEEecCCCchHHHHHhHHhcCCCCHhHHHHHHHHHHHHhchHHHHHHHHHHHHHHhhhhHhhcccccHHHHHHHHHHH
Confidence            55666889999999999999999999999999999999998653 2200          010           1123333


Q ss_pred             HHhhCCCCc--------c--cchHHHHHHHHHhCCcEEEEECC------CCc---eeEeC---------CC--CCceEEE
Q 028610           63 CSWIQDPEK--------W--GGAIELSILADYYGREIAAYDIQ------TTR---CDLYG---------QK--YSERVML  112 (206)
Q Consensus        63 ~~~m~~~~~--------W--Gg~iEL~ala~~~~v~I~v~~~~------~~~---~~~fg---------~~--~~~~i~L  112 (206)
                      ++ |..+..        .  =-+|-+.+||.++++||+|+...      +|.   ...||         +.  ...+|.|
T Consensus       192 v~-~Asp~~~~~~~~~~y~sLEeiHIFvLAhVLRRPIIV~~d~~lr~~~~Ge~~~Pi~f~GIYLPLlwpp~~C~rsPI~L  270 (390)
T 3dkb_A          192 IK-MASTDTPMARSGLQYNSLEEIHIFVLCNILRRPIIVISDKMLRSLESGSNFAPLKVGGIYLPLHWPAQECYRYPIVL  270 (390)
T ss_dssp             HH-HTSSCCCSSSSSCSSCCCCHHHHHHHHHHTTSCEEEEECCCCTTCCCC----CCCCCEEECCTTSCTTSSCSSCEEE
T ss_pred             HH-HhCCCCCCCCCcchhhhHHHHHHHHHHHHhcCCEEEEechhhccccCCCccCcCccCceecCCcCCHHHccCCceEE
Confidence            33 333321        1  12788899999999999999632      232   13343         12  4678999


Q ss_pred             EEcCCcceeeeecCC
Q 028610          113 IYDGLHYDALAISPF  127 (206)
Q Consensus       113 lY~G~HYD~l~~~~~  127 (206)
                      .|+..||-+|+....
T Consensus       271 gY~s~HFsaLV~me~  285 (390)
T 3dkb_A          271 GYDSHHFVPLVTLKD  285 (390)
T ss_dssp             EECSSCEEEEEEBCS
T ss_pred             EeccCceeeeeeccc
Confidence            999999999999753

>3zrh_A Ubiquitin thioesterase zranb1; hydrolase, deubiquitinating enzyme, WNT signaling, ovarian T domain; 2.23A {Homo sapiens}

Probab=98.38  E-value=2.9e-06  Score=76.66  Aligned_cols=124  Identities=16%  Similarity=0.169  Sum_probs=89.7

Q ss_pred             cEEEEEeCCCCchhhHHHHHHHhcCCCChHHHHHHHHHHHhhChhhhhh------h-----h-cC---------CCHHHH
Q 028610            4 IIVRRVIPSDNSCLFNAVGYVMEHDKNKAPELRQVIAATVASDPVKYSE------A-----F-LG---------KSNQEY   62 (206)
Q Consensus         4 ~L~~~~ip~DGnCLFrAis~~l~g~~~~~~~lR~~v~~~i~~np~~y~e------~-----~-l~---------~~~~~Y   62 (206)
                      -|+--...||||||-+|+|..+.|-++...-||+...+.|++....|..      .     + |+         +.|+.-
T Consensus       188 rL~pL~t~GDGNCLLHAvSqamWGV~DrdlvLRkaL~~~L~~~~~~f~~RW~~~e~~q~q~~gL~y~lde~ewq~EW~~i  267 (454)
T 3zrh_A          188 RLYALWNRTAGDCLLDSVLQATWGIYDKDSVLRKALHDSLHDCSHWFYTRWKDWESWYSQSFGLHFSLREEQWQEDWAFI  267 (454)
T ss_dssp             CEEEBCCCCSSCHHHHHHHHTTTSSCCGGGHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHHHHHHH
T ss_pred             ceeEeeecCCCccHHHHHHHHhhcccCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHH
Confidence            3555667899999999999999999999999999999999875333211      1     1 11         123344


Q ss_pred             HHhhCCCCcccchHHHHHHHHHhCCcEEEEECCCCc--------eeEeC----C-----C--CCceEEEEEcCCcceeee
Q 028610           63 CSWIQDPEKWGGAIELSILADYYGREIAAYDIQTTR--------CDLYG----Q-----K--YSERVMLIYDGLHYDALA  123 (206)
Q Consensus        63 ~~~m~~~~~WGg~iEL~ala~~~~v~I~v~~~~~~~--------~~~fg----~-----~--~~~~i~LlY~G~HYD~l~  123 (206)
                      ++--+.|+.==-+|-+.+||+++++||+|+.....+        ...||    |     .  ...|+.|.|+..||-+|+
T Consensus       268 v~~As~Pg~sLEeiHIFvLAhVLRRPIIV~~d~~lrs~~Ge~l~pi~f~GIYLPLlwpp~~C~rsPIvLgY~~gHFsaLV  347 (454)
T 3zrh_A          268 LSLASQPGASLEQTHIFVLAHILRRPIIVYGVKYYKSFRGETLGYTRFQGVYLPLLWEQSFCWKSPIALGYTRGHFSALV  347 (454)
T ss_dssp             HHHTTSTTCCCCHHHHHHHHHHTTSCEEEEECSSCC-----CCCCCCCCEEECCTTSCGGGSCSCCEEEEEETTEEEEEE
T ss_pred             HHHhcCCcchHHHHHHHHHHHHhcCCeEEeccccccccCCCcCCCcccceeeccCcCCHHHhcCCceEEEecccceeeee
Confidence            454556765555788899999999999999854321        12343    1     2  468899999999999999


Q ss_pred             ecCC
Q 028610          124 ISPF  127 (206)
Q Consensus       124 ~~~~  127 (206)
                      ....
T Consensus       348 ~~~~  351 (454)
T 3zrh_A          348 AMEN  351 (454)
T ss_dssp             EBCC
T ss_pred             eccc
Confidence            8844

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	206
d1tffa_	228	d.3.1.11 (A:) Ubiquitin thiolesterase protein OTUB	1e-10

>d1tffa_ d.3.1.11 (A:) Ubiquitin thiolesterase protein OTUB2 (Otubain-2) {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin thiolesterase protein OTUB2 (Otubain-2)
domain: Ubiquitin thiolesterase protein OTUB2 (Otubain-2)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.5 bits (136), Expect = 1e-10
 Identities = 14/94 (14%), Positives = 39/94 (41%), Gaps = 6/94 (6%)

Query: 35  LRQVIAATVASDPVKYSEAFLGK-SNQEYCSW-IQDPEKWGGAIELSILADYYGR--EIA 90
           LR + +A + +    +      +   +++C+  ++        I+++ L+       ++ 
Sbjct: 129 LRLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVEPMATECDHIQITALSQALSIALQVE 188

Query: 91  AYDIQTTRCD--LYGQKYSERVMLIYDGLHYDAL 122
             D   T  +  ++ +  +  V L+Y   HY+ L
Sbjct: 189 YVDEMDTALNHHVFPEAATPSVYLLYKTSHYNIL 222

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	206
d1tffa_	228	Ubiquitin thiolesterase protein OTUB2 (Otubain-2)	99.89
d2cota2	38	Zinc finger and SCAN domain-containing protein 16,	87.09
d1x6ea2	26	Zinc finger protein 24 {Human (Homo sapiens) [TaxI	83.78
d1zu1a1	72	dsRNA-binding protein ZFa (ZNF346, JAZ) {African c	83.76
d2eppa1	53	PATZ1 {Human (Homo sapiens) [TaxId: 9606]}	81.85

>d1tffa_ d.3.1.11 (A:) Ubiquitin thiolesterase protein OTUB2 (Otubain-2) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin thiolesterase protein OTUB2 (Otubain-2)
domain: Ubiquitin thiolesterase protein OTUB2 (Otubain-2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=5.4e-23  Score=171.64  Aligned_cols=93  Identities=13%  Similarity=0.222  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHhhChhhhhhhhcC-CCHHHHHHh-hCCCCcccchHHHHHHHHHhCCcEEEEECCCC--ce--eEeCCCCC
Q 028610           34 ELRQVIAATVASDPVKYSEAFLG-KSNQEYCSW-IQDPEKWGGAIELSILADYYGREIAAYDIQTT--RC--DLYGQKYS  107 (206)
Q Consensus        34 ~lR~~v~~~i~~np~~y~e~~l~-~~~~~Y~~~-m~~~~~WGg~iEL~ala~~~~v~I~v~~~~~~--~~--~~fg~~~~  107 (206)
                      .||..++.||+.|++.|.+++.+ .++++||.+ |.++++|||++||.|||++|+++|.|+.++.+  .+  ..++++..
T Consensus       128 ~lR~l~s~~i~~~~~~y~~Fi~~~~~~~~yc~~~v~~~~~e~d~ieI~aLa~al~v~I~V~~~d~~~~~~~~~~~~~~~~  207 (228)
T d1tffa_         128 FLRLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMDTALNHHVFPEAAT  207 (228)
T ss_dssp             HHHHHHHHHHHHTHHHHGGGSCTTSCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-------CCCCCCCSS
T ss_pred             HHHHHHHHHHHHCHHHHHhHhcCCccHHHHHHHHHccccccCCcHHHHHHHHHhCCCEEEEEecCCCCccccccCCCCCC
Confidence            47999999999999999544433 479999986 89999999999999999999999999987532  22  23444467


Q ss_pred             ceEEEEEcCCcceeeeecC
Q 028610          108 ERVMLIYDGLHYDALAISP  126 (206)
Q Consensus       108 ~~i~LlY~G~HYD~l~~~~  126 (206)
                      ++|+|+|.+.|||+|++.+
T Consensus       208 ~~I~Lly~pgHYdiLY~~~  226 (228)
T d1tffa_         208 PSVYLLYKTSHYNILYAAD  226 (228)
T ss_dssp             CSEEEEEETTEEEEEEECC
T ss_pred             CEEEEEeCCCCcccCccCC
Confidence            7899999999999999875

>d2cota2 g.37.1.1 (A:7-44) Zinc finger and SCAN domain-containing protein 16, ZSCAN16 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger and SCAN domain-containing protein 16, ZSCAN16
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.09  E-value=0.22  Score=28.40  Aligned_cols=31  Identities=10%  Similarity=0.323  Sum_probs=26.4

Q ss_pred             CCCccccCCceeeccccCCcccCHHHHHHHH
Q 028610          164 KKTYTDTANFTLRCGVCQIGVIGQKEAVEHA  194 (206)
Q Consensus       164 ~~~~t~t~~~~l~C~~c~~~~~g~~~a~~Ha  194 (206)
                      +++-+-|.....+|.+||+.|.-...-..|-
T Consensus         2 rH~~~Ht~ekpy~C~~CgK~F~~~s~L~~H~   32 (38)
T d2cota2           2 RSEWQQRERRRYKCDECGKSFSHSSDLSKHR   32 (38)
T ss_dssp             CCCSCCCCSCSSBCSSSCCBCSCHHHHHHHH
T ss_pred             ccCcccCCCCCEecCCCCceeeCHHHHHHhC
Confidence            5677788888899999999999888887774

>d1x6ea2 g.37.1.1 (A:41-66) Zinc finger protein 24 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 24
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.78  E-value=0.29  Score=25.85  Aligned_cols=21  Identities=14%  Similarity=0.385  Sum_probs=17.1

Q ss_pred             eeccccCCcccCHHHHHHHHH
Q 028610          175 LRCGVCQIGVIGQKEAVEHAQ  195 (206)
Q Consensus       175 l~C~~c~~~~~g~~~a~~Ha~  195 (206)
                      .+|++||+.|.-...-..|-.
T Consensus         3 y~C~eCgK~F~~~s~L~~Hqr   23 (26)
T d1x6ea2           3 YKCLECGKAFSQNSGLINHQR   23 (26)
T ss_dssp             EECSSSCCEESSHHHHHHHHH
T ss_pred             ccCCCCcCeeccCcccccCcc
Confidence            589999999998877777743

>d1zu1a1 g.37.1.4 (A:2-73) dsRNA-binding protein ZFa (ZNF346, JAZ) {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: HkH motif-containing C2H2 finger
domain: dsRNA-binding protein ZFa (ZNF346, JAZ)
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=83.76  E-value=0.19  Score=32.69  Aligned_cols=34  Identities=26%  Similarity=0.571  Sum_probs=27.6

Q ss_pred             hhCCCccccCCceeeccccCCcccCHHHHHHHHHhhCCC
Q 028610          162 QRKKTYTDTANFTLRCGVCQIGVIGQKEAVEHAQATGHV  200 (206)
Q Consensus       162 ~~~~~~t~t~~~~l~C~~c~~~~~g~~~a~~Ha~~tgH~  200 (206)
                      .....|||+  |   |.+|+..|..+.+...|=++--|.
T Consensus        25 e~~~lFtd~--~---CkvC~a~L~seSQriaHYeskkHa   58 (72)
T d1zu1a1          25 ENSHIFSDT--Q---CKVCSAVLISESQKLAHYQSRKHA   58 (72)
T ss_dssp             HTTTTBCSS--E---ETTTTEECCSHHHHHHHHHCHHHH
T ss_pred             hhhhhcchh--h---HHHhHHHHHHHHHHHHHHHHHHHH
Confidence            556788885  4   999999999999999987766553

>d2eppa1 g.37.1.1 (A:286-338) PATZ1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: PATZ1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.85  E-value=0.6  Score=28.06  Aligned_cols=29  Identities=21%  Similarity=0.454  Sum_probs=25.2

Q ss_pred             eeeccccCCcccCHHHHHHHHHhhCCCcc
Q 028610          174 TLRCGVCQIGVIGQKEAVEHAQATGHVNF  202 (206)
Q Consensus       174 ~l~C~~c~~~~~g~~~a~~Ha~~tgH~~F  202 (206)
                      .+-|..|||.|.....-+.|-.+.|-+..
T Consensus         6 l~pCG~CgK~Ftd~~rLr~HEAQHG~t~l   34 (53)
T d2eppa1           6 ILPCGLCGKVFTDANRLRQHEAQHGVTSL   34 (53)
T ss_dssp             CCCCTTTCCCCSCHHHHHHHHHHHTTTSC
T ss_pred             eeeccccccccCCHHHHhHhHHhcCcceE
Confidence            35799999999999999999999986543