Citrus Sinensis ID: 029403

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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----
Protein Sequence
MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFVHEILASSALLNVPFSSVLISRKRSILKELCSSMTSFIMML
Secondary Structure (PSIPRED)
cEEEccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHHccccccHHHccccHHHHHHHccccccccHHHHHHHHHHHHccEEEEEEccccEEEEcccccccEEEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cEEEccccccHHHcccccccccccccEEEEccccHHHHHHHHHHHHHHHHHHHccccccccccEEEEEEEccccccHHHHHHHHHHcHHHHHHHHccccHHHHHHHHHccccccHHHHHHHHHHHcccEEEEEEEccEEEEEccccccccEEEEEccccccHEEEcccccccccccHHHHHHHHHccccEEHcc
Coil and Loop (DISEMBL)
mliydglhydalaispfegapeefdqtifpvqkgrtigpaEDLALKLVKEQQRkktytdtanfTLCYGVCQIGVIGQKAIAATVasdtvkhseafigksnqdycswiqdpekwggaIELSILADYygseiaaydiqttrcdlygqVSSFLESFVHEILASsallnvpfssvLISRKRSILKELCSSMTSFIMML
Flexible Loop (DISEMBL)
MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEafigksnqdyCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFVHEILASSALLNVPFSSVLISRKRSILKELCssmtsfimml
Low Complexity Region (SEG)
MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFVHEILASSALLNVPFSSVLISRKRSILKELCSSMTSFIMML
Disordered region (IsUnstruct)
*LIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFVHEILASSALLNVPFSSVLISRKRSILKELCSSMTSF****
Disordered Region (DISOPRED)
MLIYDGLHYDALA***********************************KEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFVHEILASSALLNVPFSSVLISRKRSILKELCSSMTSFIMML
Disordered Region (DISEMBL)
MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFVHEILASSALLNVPFSSVLISRKRSILKELCSSMTSFIMML
Disordered Region (DISPRO)
MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFVHEILASSALLNVPFSSVLISRKRSILKELCSSMTSFI**L
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFVHEILASSALLNVPFSSVLISRKRSILKELCSSMTSFIMML
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	194	2.2.26 [Sep-21-2011]
Q55BI3	325	Ubiquitin thioesterase OT	yes	no	0.340	0.203	0.527	2e-16
Q8CB27	343	Ubiquitin thioesterase OT	yes	no	0.474	0.268	0.424	5e-16
Q29FC9	358	Ubiquitin thioesterase OT	yes	no	0.324	0.175	0.5	2e-15
Q5VVQ6	348	Ubiquitin thioesterase OT	yes	no	0.448	0.25	0.436	5e-15
Q567B1	301	Ubiquitin thioesterase OT	yes	no	0.644	0.415	0.355	7e-15
Q32Q05	343	Ubiquitin thioesterase OT	no	no	0.474	0.268	0.404	1e-14
Q05B57	348	Ubiquitin thioesterase OT	yes	no	0.448	0.25	0.425	2e-14
Q0IH43	304	Ubiquitin thioesterase OT	N/A	no	0.448	0.286	0.436	3e-14
Q9VRJ9	347	Ubiquitin thioesterase OT	yes	no	0.324	0.181	0.485	3e-14
Q5F3A6	302	Ubiquitin thioesterase OT	yes	no	0.448	0.288	0.425	4e-14

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

 Score = 85.5 bits (210), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 38/72 (52%), Positives = 52/72 (72%)

Query: 80  IAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTR 139
           IA  V SD  +++EA +GKSN+ YC+WIQ+P+ WGGAIELSIL+++Y  EIAA+DI T  
Sbjct: 158 IAQNVKSDPFEYNEAVLGKSNEGYCNWIQNPKNWGGAIELSILSNHYKVEIAAFDISTQL 217

Query: 140 CDLYGQVSSFLE 151
              YG+   + E
Sbjct: 218 MYCYGEDRKYTE 229

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

 Score = 84.3 bits (207), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 42/99 (42%), Positives = 61/99 (61%), Gaps = 7/99 (7%)

Query: 63  FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
           FT  Y V + GV+        ++ IA  VASD V +SEA +GK+N+DYC WI+  + WGG
Sbjct: 157 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPVLYSEAILGKTNEDYCDWIRRDDTWGG 216

Query: 116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFV 154
           AIE+SIL+ +Y  EI   D QT R D +G+ + + +  +
Sbjct: 217 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVL 255

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

 Score = 82.4 bits (202), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 35/70 (50%), Positives = 51/70 (72%)

Query: 80  IAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTR 139
           IA  V++DT ++++A +GKSN DYC+WIQ  + WGGAIE+SIL++YYG EI   DIQ   
Sbjct: 197 IAQEVSADTQQYNDAVLGKSNSDYCAWIQKADSWGGAIEVSILSNYYGIEIDVVDIQNAI 256

Query: 140 CDLYGQVSSF 149
            + +G+  +F
Sbjct: 257 INRFGEDKNF 266

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

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

 Score = 80.9 bits (198), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 41/94 (43%), Positives = 58/94 (61%), Gaps = 7/94 (7%)

Query: 63  FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
           FT  Y V + GV+        ++ IA  VASD   +SEA +GK+NQ+YC WI+  + WGG
Sbjct: 162 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQEYCDWIKRDDTWGG 221

Query: 116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
           AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct: 222 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGY 255

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

 Score = 80.5 bits (197), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 48/135 (35%), Positives = 75/135 (55%), Gaps = 10/135 (7%)

Query: 22  EEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIG----- 76
           EE ++   PVQ   T GP+ ++   +   ++R     ++  FT    V + GV       
Sbjct: 77  EEKNKPKPPVQPTVTKGPSFEVTPVV---ERRVVPADNSCLFTSVNYVMEGGVYDPACAS 133

Query: 77  --QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYD 134
             +  IA  VASD   +SEA +GK+N++YC+WI+  + WGGAIE+SIL+ +Y  EI   D
Sbjct: 134 EMRGLIAQIVASDPTAYSEAVLGKTNEEYCTWIRRDDTWGGAIEVSILSKFYQCEICVVD 193

Query: 135 IQTTRCDLYGQVSSF 149
            QT R D +G+ + +
Sbjct: 194 TQTVRVDRFGEDAGY 208

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

 Score = 79.7 bits (195), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 40/99 (40%), Positives = 60/99 (60%), Gaps = 7/99 (7%)

Query: 63  FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
           FT  Y V + GV+        ++ IA  VASD   +SEA +GK+N++YC WI+  + WGG
Sbjct: 157 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDLYSEAILGKTNEEYCDWIRRDDTWGG 216

Query: 116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFV 154
           AIE+SIL+ +Y  EI   D QT R D +G+ + + +  +
Sbjct: 217 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGYTKRVL 255

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 = 78.6 bits (192), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 40/94 (42%), Positives = 58/94 (61%), Gaps = 7/94 (7%)

Query: 63  FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
           FT  Y V + GV+        ++ IA  VASD   +SEA +GK+N++YC WI+  + WGG
Sbjct: 162 FTSVYYVVEGGVLNPACAPEMRRFIAQIVASDPDFYSEAILGKTNEEYCDWIKRDDTWGG 221

Query: 116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
           AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct: 222 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGY 255

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

 Score = 78.6 bits (192), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 41/94 (43%), Positives = 56/94 (59%), Gaps = 7/94 (7%)

Query: 63  FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
           FT  Y V + GV         +  IA  VASD   + +A +GKSN++YCSWI+  + WGG
Sbjct: 118 FTSIYYVVEGGVYDPACALEMRSLIAEIVASDQSAYCDAVLGKSNEEYCSWIRREDTWGG 177

Query: 116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
           AIE+SIL+ +Y  EI   D QT R D +G+ S +
Sbjct: 178 AIEVSILSKFYQCEICVVDTQTVRIDRFGEDSGY 211

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

 Score = 78.2 bits (191), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 34/70 (48%), Positives = 49/70 (70%)

Query: 80  IAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTR 139
           IA  VA+D   +++A +GKSN +YC+WIQ  + WGGAIE+SIL++YYG EI   DIQ   
Sbjct: 186 IAQEVAADPQSYNDAVLGKSNAEYCAWIQKADSWGGAIEVSILSNYYGIEIDVVDIQNAI 245

Query: 140 CDLYGQVSSF 149
            + +G+  +F
Sbjct: 246 INRFGEDKNF 255

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

 Score = 77.8 bits (190), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 40/94 (42%), Positives = 55/94 (58%), Gaps = 7/94 (7%)

Query: 63  FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
           FT  Y V + GV         +  IA  VASD   + EA +GK+N++YC WI+  E WGG
Sbjct: 116 FTSVYYVVEGGVYDPGCAPEMRSLIAQIVASDPEAYCEAVLGKTNREYCEWIRREETWGG 175

Query: 116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
           AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct: 176 AIEVSILSKFYQCEICVVDTQTVRIDRFGEDAGY 209

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

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	194
224117526	208	predicted protein [Populus trichocarpa]	0.391	0.365	0.871	5e-32
255583601	208	cysteine-type peptidase, putative [Ricin	0.489	0.456	0.689	1e-31
242060618	208	hypothetical protein SORBIDRAFT_04g00442	0.489	0.456	0.679	2e-31
224061427	207	predicted protein [Populus trichocarpa]	0.489	0.458	0.679	2e-30
226509350	208	uncharacterized protein LOC100279494 [Ze	0.489	0.456	0.660	2e-30
225460981	219	PREDICTED: ubiquitin thioesterase OTU1 i	0.391	0.347	0.794	2e-29
225460979	208	PREDICTED: ubiquitin thioesterase OTU1 i	0.391	0.365	0.794	2e-29
351725507	208	uncharacterized protein LOC100499809 [Gl	0.489	0.456	0.640	2e-29
125538215	208	hypothetical protein OsI_05978 [Oryza sa	0.489	0.456	0.640	2e-29
356501525	208	PREDICTED: ubiquitin thioesterase OTU1-l	0.489	0.456	0.640	3e-29

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

 Score =  142 bits (359), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 68/78 (87%), Positives = 71/78 (91%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDALA+SPFEGAPEEFDQTIF VQK RTIGPAE  AL LVKEQQRK++YTDT
Sbjct: 113 MLIYDGLHYDALAMSPFEGAPEEFDQTIFTVQKDRTIGPAEGHALNLVKEQQRKRSYTDT 172

Query: 61  ANFTLCYGVCQIGVIGQK 78
           ANFTL  GVCQIGVIGQK
Sbjct: 173 ANFTLRCGVCQIGVIGQK 190

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  141 bits (356), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 71/103 (68%), Positives = 82/103 (79%), Gaps = 8/103 (7%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDALAISPFEGAPEEFDQTIF VQK RT+G AE LAL LVKEQQRK++YTDT
Sbjct: 113 MLIYDGLHYDALAISPFEGAPEEFDQTIFAVQKDRTVGLAEGLALNLVKEQQRKRSYTDT 172

Query: 61  ANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDY 103
           +NFTL  GVCQIGV+GQK        + V+H++A    + Q+Y
Sbjct: 173 SNFTLRCGVCQIGVVGQK--------EAVEHAQATGHVNFQEY 207

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

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 =  140 bits (353), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 70/103 (67%), Positives = 80/103 (77%), Gaps = 8/103 (7%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDALA+SP EGAPEEFDQTIFPV   R+IGPAE LAL LVKE QRK++YTDT
Sbjct: 113 MLIYDGLHYDALAMSPAEGAPEEFDQTIFPVNHNRSIGPAEGLALNLVKEAQRKRSYTDT 172

Query: 61  ANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDY 103
           ANFTL  GVCQIGVIGQK        + V+H++A    + Q+Y
Sbjct: 173 ANFTLRCGVCQIGVIGQK--------EAVEHAQATGHVNFQEY 207

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 =  137 bits (346), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 70/103 (67%), Positives = 80/103 (77%), Gaps = 8/103 (7%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDALA+SPFEGAPEEFDQTIF VQ  RTIG AE  AL LVKEQQR+++YTDT
Sbjct: 112 MLIYDGLHYDALAMSPFEGAPEEFDQTIFAVQNDRTIGQAEGHALNLVKEQQRRRSYTDT 171

Query: 61  ANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDY 103
           ANFTL  GVCQIGVIGQK        + V+H++A    + Q+Y
Sbjct: 172 ANFTLRCGVCQIGVIGQK--------EAVEHAQATGHVNFQEY 206

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  137 bits (345), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 68/103 (66%), Positives = 80/103 (77%), Gaps = 8/103 (7%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDALA+SP EGAPEEFDQTIFPV   R+IGPAE LAL LV+E QRK++YTDT
Sbjct: 113 MLIYDGLHYDALAMSPAEGAPEEFDQTIFPVNHDRSIGPAEGLALNLVREAQRKRSYTDT 172

Query: 61  ANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDY 103
           ANFTL  GVCQIGVIGQ+        + V+H++A    + Q+Y
Sbjct: 173 ANFTLRCGVCQIGVIGQQ--------EAVEHAQATGHVNFQEY 207

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460981|ref|XP_002280308.1| PREDICTED: ubiquitin thioesterase OTU1 isoform 3 [Vitis vinifera]

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 62/78 (79%), Positives = 68/78 (87%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDALA+SPF+GAPEEFDQT+F VQ  R IGP E+LAL LVKEQQRK+ +TDT
Sbjct: 124 MLIYDGLHYDALAMSPFDGAPEEFDQTVFTVQTDRAIGPIEELALNLVKEQQRKRRFTDT 183

Query: 61  ANFTLCYGVCQIGVIGQK 78
            NFTL  GVCQIGVIGQK
Sbjct: 184 TNFTLRCGVCQIGVIGQK 201

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460979|ref|XP_002280290.1| PREDICTED: ubiquitin thioesterase OTU1 isoform 2 [Vitis vinifera] gi|225460983|ref|XP_002280279.1| PREDICTED: ubiquitin thioesterase OTU1 isoform 1 [Vitis vinifera] gi|359494036|ref|XP_003634713.1| PREDICTED: ubiquitin thioesterase OTU1 [Vitis vinifera] gi|147783787|emb|CAN74697.1| hypothetical protein VITISV_019064 [Vitis vinifera] gi|297737433|emb|CBI26634.3| unnamed protein product [Vitis vinifera]

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 62/78 (79%), Positives = 68/78 (87%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDALA+SPF+GAPEEFDQT+F VQ  R IGP E+LAL LVKEQQRK+ +TDT
Sbjct: 113 MLIYDGLHYDALAMSPFDGAPEEFDQTVFTVQTDRAIGPIEELALNLVKEQQRKRRFTDT 172

Query: 61  ANFTLCYGVCQIGVIGQK 78
            NFTL  GVCQIGVIGQK
Sbjct: 173 TNFTLRCGVCQIGVIGQK 190

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  134 bits (337), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 66/103 (64%), Positives = 79/103 (76%), Gaps = 8/103 (7%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDAL +SPFE APEEFDQTIF VQK R+IGP E LAL  VK+QQRK++YTDT
Sbjct: 113 MLIYDGLHYDALVMSPFEEAPEEFDQTIFAVQKNRSIGPVEGLALNFVKDQQRKRSYTDT 172

Query: 61  ANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDY 103
           +NFTL  GVCQIGV+GQK        + V+H++A    + Q+Y
Sbjct: 173 SNFTLRCGVCQIGVMGQK--------EAVEHAQATGHVNFQEY 207

Source: Glycine max

Species: Glycine max

Genus: Glycine

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 =  134 bits (337), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 66/103 (64%), Positives = 79/103 (76%), Gaps = 8/103 (7%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDALA+SPFEGAPEEFDQTIFPV    +IGP E LAL  VK+++RK++YTDT
Sbjct: 113 MLIYDGLHYDALAMSPFEGAPEEFDQTIFPVDHKWSIGPVEGLALNFVKDEKRKRSYTDT 172

Query: 61  ANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDY 103
           ANFTL  GVCQIGVIGQK        + V+H++A    + Q+Y
Sbjct: 173 ANFTLRCGVCQIGVIGQK--------EAVEHAQATGHVNFQEY 207

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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 =  134 bits (336), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 66/103 (64%), Positives = 79/103 (76%), Gaps = 8/103 (7%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           MLIYDGLHYDAL +SPFE APEEFDQTIF VQK R+IGP E LAL  VK+QQRK++YTDT
Sbjct: 113 MLIYDGLHYDALVMSPFEEAPEEFDQTIFAVQKNRSIGPVEGLALTFVKDQQRKRSYTDT 172

Query: 61  ANFTLCYGVCQIGVIGQKAIAATVASDTVKHSEAFIGKSNQDY 103
           +NFTL  GVCQIGVIG+K        + V+H++A    + Q+Y
Sbjct: 173 SNFTLRCGVCQIGVIGEK--------EAVEHAQATGHVNFQEY 207

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	194
TAIR|locus:2007991	208	AT1G50670 "AT1G50670" [Arabido	0.479	0.447	0.691	1.5e-28
DICTYBASE|DDB_G0271346	325	yod1 "ubiquitin thioesterase O	0.371	0.221	0.527	2.6e-16
MGI|MGI:2442596	343	Yod1 "YOD1 OTU deubiquitinatin	0.448	0.253	0.446	3.5e-16
UNIPROTKB|Q29FC9	358	GA18292 "Ubiquitin thioesteras	0.649	0.351	0.364	1.6e-15
UNIPROTKB|J9P3T6	290	YOD1 "Uncharacterized protein"	0.448	0.3	0.436	1.6e-15
ZFIN|ZDB-GENE-050417-217	301	yod1 "YOD1 OTU deubiquinating	0.654	0.421	0.353	3e-15
UNIPROTKB|E2R1N1	345	YOD1 "Uncharacterized protein"	0.448	0.252	0.436	3.8e-15
UNIPROTKB|Q5VVQ6	348	YOD1 "Ubiquitin thioesterase O	0.448	0.25	0.436	4e-15
UNIPROTKB|F1RTR7	348	YOD1 "Uncharacterized protein"	0.448	0.25	0.436	4e-15
RGD|1359726	343	Yod1 "YOD1 OTU deubiquinating	0.448	0.253	0.425	6.3e-15

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

 Score = 318 (117.0 bits), Expect = 1.5e-28, P = 1.5e-28
 Identities = 65/94 (69%), Positives = 74/94 (78%)

Query:     1 MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
             MLIYDGLHYDALA+SPFEGA E+FD TI+PV K R+IG  E LAL LVK+QQRK++YTDT
Sbjct:   113 MLIYDGLHYDALALSPFEGAEEDFDMTIYPVGKDRSIGSIEGLALNLVKDQQRKRSYTDT 172

Query:    61 ANFTLCYGVCQIGVIGQK-AIAATVASDTVKHSE 93
             ANFTL  GVCQIGVIGQK A+    A+  V   E
Sbjct:   173 ANFTLRCGVCQIGVIGQKEAVEHAQATGHVNFQE 206

GO:0008150 "biological_process" evidence=ND

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

GO:0005829 "cytosol" evidence=IDA

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

 Score = 204 (76.9 bits), Expect = 2.6e-16, P = 2.6e-16
 Identities = 38/72 (52%), Positives = 52/72 (72%)

Query:    80 IAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTR 139
             IA  V SD  +++EA +GKSN+ YC+WIQ+P+ WGGAIELSIL+++Y  EIAA+DI T  
Sbjct:   158 IAQNVKSDPFEYNEAVLGKSNEGYCNWIQNPKNWGGAIELSILSNHYKVEIAAFDISTQL 217

Query:   140 CDLYGQVSSFLE 151
                YG+   + E
Sbjct:   218 MYCYGEDRKYTE 229

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

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

 Score = 204 (76.9 bits), Expect = 3.5e-16, P = 3.5e-16
 Identities = 42/94 (44%), Positives = 59/94 (62%)

Query:    63 FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
             FT  Y V + GV+        ++ IA  VASD V +SEA +GK+N+DYC WI+  + WGG
Sbjct:   157 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPVLYSEAILGKTNEDYCDWIRRDDTWGG 216

Query:   116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
             AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct:   217 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGY 250

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

UNIPROTKB|Q29FC9 GA18292 "Ubiquitin thioesterase OTU1" [Drosophila pseudoobscura pseudoobscura (taxid:46245)]

 Score = 199 (75.1 bits), Expect = 1.6e-15, P = 1.6e-15
 Identities = 47/129 (36%), Positives = 71/129 (55%)

Query:    22 EEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGV-IGQKAI 80
             +  +  I P + G   G    + LK V        +T +  F L   V   G  + +  I
Sbjct:   140 QSLEPVISPEESGPN-GNFNGILLKKVVPADNSCLFT-SIRFVLNGKVDNEGSEMMRHII 197

Query:    81 AATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRC 140
             A  V++DT ++++A +GKSN DYC+WIQ  + WGGAIE+SIL++YYG EI   DIQ    
Sbjct:   198 AQEVSADTQQYNDAVLGKSNSDYCAWIQKADSWGGAIEVSILSNYYGIEIDVVDIQNAII 257

Query:   141 DLYGQVSSF 149
             + +G+  +F
Sbjct:   258 NRFGEDKNF 266

GO:0005575 "cellular_component" evidence=ND

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

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

 Score = 195 (73.7 bits), Expect = 1.6e-15, P = 1.6e-15
 Identities = 41/94 (43%), Positives = 58/94 (61%)

Query:    63 FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
             FT  Y V + GV+        ++ IA  VASD   +SEA +GK+NQ+YC WI+  + WGG
Sbjct:   104 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQEYCDWIKRDDTWGG 163

Query:   116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
             AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct:   164 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGY 197

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

 Score = 193 (73.0 bits), Expect = 3.0e-15, P = 3.0e-15
 Identities = 47/133 (35%), Positives = 73/133 (54%)

Query:    22 EEFDQTIFPVQKGRTIGPAEDLAL---KLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQK 78
             EE ++   PVQ   T GP+ ++     + V        +T + N+ +  GV       + 
Sbjct:    77 EEKNKPKPPVQPTVTKGPSFEVTPVVERRVVPADNSCLFT-SVNYVMEGGVYDPACASEM 135

Query:    79 A--IAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQ 136
                IA  VASD   +SEA +GK+N++YC+WI+  + WGGAIE+SIL+ +Y  EI   D Q
Sbjct:   136 RGLIAQIVASDPTAYSEAVLGKTNEEYCTWIRRDDTWGGAIEVSILSKFYQCEICVVDTQ 195

Query:   137 TTRCDLYGQVSSF 149
             T R D +G+ + +
Sbjct:   196 TVRVDRFGEDAGY 208

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

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

 Score = 195 (73.7 bits), Expect = 3.8e-15, P = 3.8e-15
 Identities = 41/94 (43%), Positives = 58/94 (61%)

Query:    63 FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
             FT  Y V + GV+        ++ IA  VASD   +SEA +GK+NQ+YC WI+  + WGG
Sbjct:   159 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQEYCDWIKRDDTWGG 218

Query:   116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
             AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct:   219 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGY 252

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

 Score = 195 (73.7 bits), Expect = 4.0e-15, P = 4.0e-15
 Identities = 41/94 (43%), Positives = 58/94 (61%)

Query:    63 FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
             FT  Y V + GV+        ++ IA  VASD   +SEA +GK+NQ+YC WI+  + WGG
Sbjct:   162 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQEYCDWIKRDDTWGG 221

Query:   116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
             AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct:   222 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGY 255

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|F1RTR7 YOD1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 195 (73.7 bits), Expect = 4.0e-15, P = 4.0e-15
 Identities = 41/94 (43%), Positives = 58/94 (61%)

Query:    63 FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
             FT  Y V + GV+        ++ IA  VASD   +SEA +GK+NQ+YC WI+  + WGG
Sbjct:   162 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDFYSEAILGKTNQEYCDWIKRDDTWGG 221

Query:   116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
             AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct:   222 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGY 255

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

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

 Score = 193 (73.0 bits), Expect = 6.3e-15, P = 6.3e-15
 Identities = 40/94 (42%), Positives = 58/94 (61%)

Query:    63 FTLCYGVCQIGVIG-------QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGG 115
             FT  Y V + GV+        ++ IA  VASD   +SEA +GK+N++YC WI+  + WGG
Sbjct:   157 FTSVYYVVEGGVLNPACAPEMRRLIAQIVASDPDLYSEAILGKTNEEYCDWIRRDDTWGG 216

Query:   116 AIELSILADYYGSEIAAYDIQTTRCDLYGQVSSF 149
             AIE+SIL+ +Y  EI   D QT R D +G+ + +
Sbjct:   217 AIEISILSKFYQCEICVVDTQTVRIDRFGEDAGY 250

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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	LOW CONFIDENCE prediction!
3rd Layer	3.4.19.12	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

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	194
pfam02338	123	pfam02338, OTU, OTU-like cysteine protease	1e-07
COG5539	306	COG5539, COG5539, Predicted cysteine protease (OTU	2e-07

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

 Score = 47.9 bits (114), Expect = 1e-07
 Identities = 20/84 (23%), Positives = 34/84 (40%), Gaps = 9/84 (10%)

Query: 71  QIGVIGQKAIAATVASDTVKH--------SEAFIGKSNQDYCSWIQDPEKWGGAIELSIL 122
           Q+G  G++ +   +    V++         +      N+ Y  WI     WGG IE+  L
Sbjct: 14  QLGDAGRQELHDELREAVVEYLRENREDFEKFLEEDENEYYK-WISKDGAWGGNIEIFAL 72

Query: 123 ADYYGSEIAAYDIQTTRCDLYGQV 146
           A      I  Y +Q  R  +Y ++
Sbjct: 73  AHILRVPIIVYKLQGGRITVYIKI 96

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

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

 Score = 49.5 bits (118), Expect = 2e-07
 Identities = 21/99 (21%), Positives = 37/99 (37%), Gaps = 5/99 (5%)

Query: 78  KAIAAT-VASDTVKHSEAFIGKSNQDYCSWIQDPEKWG-GAIELSILADYYGSEIAAYDI 135
           + + +  V S+   ++ A +      Y +WI  P+  G G IE++I++D     I   D+
Sbjct: 141 REVVSLEVLSNPDLYNPAILEIDVIAYATWIVKPDSQGDGCIEIAIISDQLPVRIHVVDV 200

Query: 136 QTTRCDLYG---QVSSFLESFVHEILASSALLNVPFSSV 171
                D Y     V      F         L  V + + 
Sbjct: 201 DKDSEDRYNSHPYVQRISILFTGIHFDEETLAMVLWDTY 239

Length = 306

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	194
KOG3288	307	consensus OTU-like cysteine protease [Signal trans	100.0
KOG3288	307	consensus OTU-like cysteine protease [Signal trans	99.94
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	99.47
KOG2606	302	consensus OTU (ovarian tumor)-like cysteine protea	99.32
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	99.25
PF02338	121	OTU: OTU-like cysteine protease; InterPro: IPR0033	98.76
PF10275	244	Peptidase_C65: Peptidase C65 Otubain; InterPro: IP	96.62
KOG3991	256	consensus Uncharacterized conserved protein [Funct	91.86
PHA00616	44	hypothetical protein	84.23

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

Probab=100.00  E-value=6.7e-34  Score=245.87  Aligned_cols=113  Identities=38%  Similarity=0.635  Sum_probs=102.2

Q ss_pred             HHHHHHHHHhCcccccccccCCChhhhhhhhcCCCCcchhHHHHHHHhHhCceEEEEEcCCCceeeecCCCCccceEE--
Q 029403           77 QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFV--  154 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg~~~~eY~~~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~~~~~fge~~~~~~r~~--  154 (194)
                      |+.+|+.|+++|+.||+|+||||+.|||.||+++++|||+|||+|||++|+++|+|+|+|++|+++|||+++|.+|++  
T Consensus       142 R~iiA~~Vasnp~~yn~AiLgK~n~eYc~WI~k~dsWGGaIElsILS~~ygveI~vvDiqt~rid~fged~~~~~rv~ll  221 (307)
T KOG3288|consen  142 REIIAQEVASNPDKYNDAILGKPNKEYCAWILKMDSWGGAIELSILSDYYGVEICVVDIQTVRIDRFGEDKNFDNRVLLL  221 (307)
T ss_pred             HHHHHHHHhcChhhhhHHHhCCCcHHHHHHHccccccCceEEeeeehhhhceeEEEEecceeeehhcCCCCCCCceEEEE
Confidence            789999999999999999999999999999999999999999999999999999999999999999999999999997  


Q ss_pred             -----EEeeecccCC-CC-CCceeeCCchHHH--HHHHHHHHhh
Q 029403          155 -----HEILASSALL-NV-PFSSVLISRKRSI--LKELCSSMTS  189 (194)
Q Consensus       155 -----YD~l~~~~~~-~~-p~t~f~~~d~~~~--~~~l~~~l~~  189 (194)
                           ||+|++++.. .. |.|+||.+|+..+  +-+|++.|.+
T Consensus       222 ydGIHYD~l~m~~~~~~~~~~tifp~~dd~v~~~alqLa~~~k~  265 (307)
T KOG3288|consen  222 YDGIHYDPLAMNEFKPTDVDNTIFPVSDDTVLTQALQLASELKR  265 (307)
T ss_pred             ecccccChhhhccCCccCCcccccccccchHHHHHHHHHHHHHh
Confidence                 9999999753 22 3399999987554  3677777654

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

Probab=99.94  E-value=5.6e-28  Score=209.18  Aligned_cols=87  Identities=46%  Similarity=0.792  Sum_probs=83.1

Q ss_pred             CeeecCcccceeeecCCCCCCCCCCeeeeeCCCCCCchHHHHHHHHHHHHHhhcccccccccceeeecccccccchHHHH
Q 029403            1 MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAI   80 (194)
Q Consensus         1 ~liYsGIHYD~l~l~~~~~~~~~~d~tiF~~~d~~~~~~vl~~A~~La~~lk~~~~~Tdt~~F~lrC~~C~~~l~Grk~a   80 (194)
                      +|+|||||||+|+++++  .|.+.|.|+||.+|    +.|+..|++||+++|++||||||++|+|||++|+++|+||++|
T Consensus       219 ~llydGIHYD~l~m~~~--~~~~~~~tifp~~d----d~v~~~alqLa~~~k~~r~ytdt~~ftlRC~~Cq~glvGq~ea  292 (307)
T KOG3288|consen  219 LLLYDGIHYDPLAMNEF--KPTDVDNTIFPVSD----DTVLTQALQLASELKRTRYYTDTAKFTLRCMVCQMGLVGQKEA  292 (307)
T ss_pred             EEEecccccChhhhccC--CccCCccccccccc----chHHHHHHHHHHHHHhcceeccccceEEEeeecccceeeHHHH
Confidence            58999999999999976  57788999999999    8899999999999999999999999999999999999999999


Q ss_pred             HHHHH-hCcccccc
Q 029403           81 AATVA-SDTVKHSE   93 (194)
Q Consensus        81 A~~I~-s~p~~F~E   93 (194)
                      ++|.+ ++|..|.|
T Consensus       293 ~eHA~~TGH~nFge  306 (307)
T KOG3288|consen  293 AEHAKATGHVNFGE  306 (307)
T ss_pred             HHHHHhcCCCcccc
Confidence            99999 99999987

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

Probab=99.47  E-value=8.8e-15  Score=128.96  Aligned_cols=111  Identities=19%  Similarity=0.286  Sum_probs=88.4

Q ss_pred             HHHHHHHHHhCcccccccccCCChhhhhhhhcCCCCcc-hhHHHHHHHhHhCceEEEEEcCCCceeeecCCCCccceEE-
Q 029403           77 QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWG-GAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFV-  154 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg~~~~eY~~~I~~~~~WG-G~IEL~iLS~~~~v~I~v~d~~~~~~~~fge~~~~~~r~~-  154 (194)
                      |.+|+.-+.++|+.|+++++++|.-+||+||+++++|| |.||++|||..++++|+|+|+..+++++||+.. |..|+. 
T Consensus       141 rE~vs~Ev~snPDl~n~~i~~~~~i~y~~~i~k~d~~~dG~ieia~iS~~l~v~i~~Vdv~~~~~dr~~~~~-~~q~~~i  219 (306)
T COG5539         141 REVVSLEVLSNPDLYNPAILEIDVIAYATWIVKPDSQGDGCIEIAIISDQLPVRIHVVDVDKDSEDRYNSHP-YVQRISI  219 (306)
T ss_pred             HHHHHHHHhhCccccchhhcCcchHHHHHhhhccccCCCceEEEeEeccccceeeeeeecchhHHhhccCCh-hhhhhhh
Confidence            67888899999999999999999999999999999999 999999999999999999999989999999876 666653 


Q ss_pred             ------EEeeeccc--CCCC-CCceeeCCchHHH-HHHHHHHHh
Q 029403          155 ------HEILASSA--LLNV-PFSSVLISRKRSI-LKELCSSMT  188 (194)
Q Consensus       155 ------YD~l~~~~--~~~~-p~t~f~~~d~~~~-~~~l~~~l~  188 (194)
                            ||..++.-  .... .+..|..+|-..+ +..|+..|.
T Consensus       220 ~f~g~hfD~~t~~m~~~dt~~ne~~~~a~~g~~~ei~qLas~lk  263 (306)
T COG5539         220 LFTGIHFDEETLAMVLWDTYVNEVLFDASDGITIEIQQLASLLK  263 (306)
T ss_pred             hhcccccchhhhhcchHHHHHhhhcccccccchHHHHHHHHHhc
Confidence                  88887543  2211 1245554442222 467776664

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

Probab=99.32  E-value=1.3e-12  Score=115.60  Aligned_cols=71  Identities=20%  Similarity=0.369  Sum_probs=63.4

Q ss_pred             HHHHHHHHHhCcccccccccCC---------ChhhhhhhhcCCCCcchhHHHHHHHhHhCceEEEEEcCCCceeeecCCC
Q 029403           77 QKAIAATVASDTVKHSEAFIGK---------SNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVS  147 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg~---------~~~eY~~~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~~~~~fge~~  147 (194)
                      |.+.|+|+++|-++|-+.++..         .++.||+.|++|+.|||+|||.+||+.|++||.|++. .+.+..|||+.
T Consensus       193 R~~~a~Ymr~H~~df~pf~~~eet~d~~~~~~f~~Yc~eI~~t~~WGgelEL~AlShvL~~PI~Vy~~-~~p~~~~geey  271 (302)
T KOG2606|consen  193 REETADYMREHVEDFLPFLLDEETGDSLGPEDFDKYCREIRNTAAWGGELELKALSHVLQVPIEVYQA-DGPILEYGEEY  271 (302)
T ss_pred             HHHHHHHHHHHHHHhhhHhcCccccccCCHHHHHHHHHHhhhhccccchHHHHHHHHhhccCeEEeec-CCCceeechhh
Confidence            6799999999999998766521         2899999999999999999999999999999999995 69999999875


Q ss_pred             C
Q 029403          148 S  148 (194)
Q Consensus       148 ~  148 (194)
                      +
T Consensus       272 ~  272 (302)
T KOG2606|consen  272 G  272 (302)
T ss_pred             C
Confidence            3

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

Probab=99.25  E-value=2.6e-12  Score=113.47  Aligned_cols=85  Identities=16%  Similarity=0.309  Sum_probs=67.3

Q ss_pred             eeecCcccceeeecCCCCCCCCCCeeeeeCCCCCCchHHHHHHHHHHHHHhhcccccccccceeeecccccccchHHHHH
Q 029403            2 LIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAIA   81 (194)
Q Consensus         2 liYsGIHYD~l~l~~~~~~~~~~d~tiF~~~d~~~~~~vl~~A~~La~~lk~~~~~Tdt~~F~lrC~~C~~~l~Grk~aA   81 (194)
                      ++|+|||||..++.-.+ -...++.-.|+.+|     -+...+++||.-|+..+|||||+++.+||+.||++++|++++.
T Consensus       219 i~f~g~hfD~~t~~m~~-~dt~~ne~~~~a~~-----g~~~ei~qLas~lk~~~~~~nT~~~~ik~n~c~~~~~~e~~~~  292 (306)
T COG5539         219 ILFTGIHFDEETLAMVL-WDTYVNEVLFDASD-----GITIEIQQLASLLKNPHYYTNTASPSIKCNICGTGFVGEKDYY  292 (306)
T ss_pred             hhhcccccchhhhhcch-HHHHHhhhcccccc-----cchHHHHHHHHHhcCceEEeecCCceEEeeccccccchhhHHH
Confidence            47999999999865221 01123344555554     3688999999999999999999999999999999999999999


Q ss_pred             HHHH-hCccccc
Q 029403           82 ATVA-SDTVKHS   92 (194)
Q Consensus        82 ~~I~-s~p~~F~   92 (194)
                      +|.. .+|..|.
T Consensus       293 ~Ha~a~GH~n~~  304 (306)
T COG5539         293 AHALATGHYNFG  304 (306)
T ss_pred             HHHHhhcCcccc
Confidence            9988 7766654

>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=98.76  E-value=7.5e-09  Score=78.52  Aligned_cols=58  Identities=28%  Similarity=0.436  Sum_probs=52.0

Q ss_pred             HHHHHHHHH-hCcccccccccCCChhhhhhhhcCCCCcchhHHHHHHHhHhCceEEEEEcCCCcee
Q 029403           77 QKAIAATVA-SDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCD  141 (194)
Q Consensus        77 rk~aA~~I~-s~p~~F~Ea~Lg~~~~eY~~~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~~~~  141 (194)
                      |+.++++++ .+++.|.+.+.+.       +|+++..|||.+||.++|+.|+++|.|++...++..
T Consensus        30 R~~~~~~l~~~~~~~~~~~~~~~-------~~~~~~~Wg~~~el~a~a~~~~~~I~v~~~~~~~~~   88 (121)
T PF02338_consen   30 RKAVVDYLRDKNRDKFEEFLEGD-------KMSKPGTWGGEIELQALANVLNRPIIVYSSSDGDNV   88 (121)
T ss_dssp             HHHHHHHHHTHTTTHHHHHHHHH-------HHTSTTSHEEHHHHHHHHHHHTSEEEEECETTTBEE
T ss_pred             HHHHHHHHHHhccchhhhhhhhh-------hhccccccCcHHHHHHHHHHhCCeEEEEEcCCCCcc
Confidence            788999999 9999999976555       999999999999999999999999999987666643

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 ....

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

Probab=96.62  E-value=0.01  Score=50.86  Aligned_cols=60  Identities=15%  Similarity=0.193  Sum_probs=46.4

Q ss_pred             HHHHHHHHHhCcccccccccC---CChhhhh-hhhcCCCCcchhHHHHHHHhHhCceEEEEEcC
Q 029403           77 QKAIAATVASDTVKHSEAFIG---KSNQDYC-SWIQDPEKWGGAIELSILADYYGSEIAAYDIQ  136 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg---~~~~eY~-~~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~  136 (194)
                      |-.++.|+++|++.|.+.+.|   .+.++|| +.+.....=.+.|.+.|||++++++|.|+-..
T Consensus       143 RLlts~~l~~~~d~y~~fi~~~~~~tve~~C~~~Vep~~~Ead~v~i~ALa~aL~v~i~v~yld  206 (244)
T PF10275_consen  143 RLLTSAYLKSNSDEYEPFIDGLEYLTVEEFCSQEVEPMGKEADHVQIIALAQALGVPIRVEYLD  206 (244)
T ss_dssp             HHHHHHHHHHTHHHHGGGSSTT--S-HHHHHHHHTSSTT--B-HHHHHHHHHHHT--EEEEESS
T ss_pred             HHHHHHHHHhhHHHHhhhhcccccCCHHHHHHhhcccccccchhHHHHHHHHHhCCeEEEEEec
Confidence            558889999999999986655   7899999 66777777789999999999999999998654

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=91.86  E-value=0.32  Score=42.64  Aligned_cols=68  Identities=15%  Similarity=0.166  Sum_probs=52.0

Q ss_pred             HHHHHHHHHhCccccccccc-CCChhhhhhhhcCC-CCcchhHHHHHHHhHhCceEEEEEcCCCceeeec
Q 029403           77 QKAIAATVASDTVKHSEAFI-GKSNQDYCSWIQDP-EKWGGAIELSILADYYGSEIAAYDIQTTRCDLYG  144 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~L-g~~~~eY~~~I~~~-~~WGG~IEL~iLS~~~~v~I~v~d~~~~~~~~fg  144 (194)
                      |-..+..++++++.|.+.+= |+.+.+||..=-.| ..=-+.|+|-+||+++++.|.|.++.-+.....|
T Consensus       160 RLvtS~~ik~~adfy~pFI~e~~tV~~fC~~eVEPm~kesdhi~I~ALs~Al~i~irVey~dr~~~~~~~  229 (256)
T KOG3991|consen  160 RLVTSGFIKSNADFYQPFIDEGMTVKAFCTQEVEPMYKESDHIHITALSQALGIRIRVEYVDRGSGDTVN  229 (256)
T ss_pred             HHHHHHHHhhChhhhhccCCCCCcHHHHHHhhcchhhhccCceeHHHHHhhhCceEEEEEecCCCCCCCC
Confidence            44667788899999998555 48999999865554 3346899999999999999999977544444443

>PHA00616 hypothetical protein

Probab=84.23  E-value=0.63  Score=30.73  Aligned_cols=25  Identities=12%  Similarity=-0.065  Sum_probs=22.8

Q ss_pred             eecccccccchHHHHHHHHHhCccc
Q 029403           66 CYGVCQIGVIGQKAIAATVASDTVK   90 (194)
Q Consensus        66 rC~~C~~~l~Grk~aA~~I~s~p~~   90 (194)
                      +|+-||.++.-.+....|+++++.+
T Consensus         3 qC~~CG~~F~~~s~l~~H~r~~hg~   27 (44)
T PHA00616          3 QCLRCGGIFRKKKEVIEHLLSVHKQ   27 (44)
T ss_pred             ccchhhHHHhhHHHHHHHHHHhcCC
Confidence            7999999999999999999977765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	194
3by4_A	212	Structure Of Ovarian Tumor (Otu) Domain In Complex		2e-07
3c0r_A	212	Structure Of Ovarian Tumor (Otu) Domain In Complex		2e-07

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 39/69 (56%)
Query: 77  QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQ 136
           ++ ++  V ++ VK ++A + K N+DY  WI   E WGGAIE+ I++D     I   DI 
Sbjct: 50  REMVSKEVLNNPVKFNDAILDKPNKDYAQWILKMESWGGAIEIGIISDALAVAIYVVDID 109
Query: 137 TTRCDLYGQ 145
             + + + +
Sbjct: 110 AVKIEKFNE 118

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 39/69 (56%)
Query: 77  QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQ 136
           ++ ++  V ++ VK ++A + K N+DY  WI   E WGGAIE+ I++D     I   DI 
Sbjct: 50  REXVSKEVLNNPVKFNDAILDKPNKDYAQWILKXESWGGAIEIGIISDALAVAIYVVDID 109
Query: 137 TTRCDLYGQ 145
             + + + +
Sbjct: 110 AVKIEKFNE 118

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	194
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	9e-18
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	6e-10
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	4e-10
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	7e-10
3pfy_A	185	OTU domain-containing protein 5; structural genomi	4e-05

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

 Score = 76.9 bits (189), Expect = 9e-18
 Identities = 22/68 (32%), Positives = 38/68 (55%)

Query: 78  KAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQT 137
           + ++  V ++ VK ++A + K N+DY  WI   E WGGAIE+ I++D     I   DI  
Sbjct: 51  EMVSKEVLNNPVKFNDAILDKPNKDYAQWILKMESWGGAIEIGIISDALAVAIYVVDIDA 110

Query: 138 TRCDLYGQ 145
            + + + +
Sbjct: 111 VKIEKFNE 118

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

 Score = 55.7 bits (134), Expect = 6e-10
 Identities = 15/82 (18%), Positives = 36/82 (43%), Gaps = 9/82 (10%)

Query: 1   MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDT 60
           +++++G+HYD+L ++ F+    +       V            AL+L    ++     +T
Sbjct: 126 LILFNGIHYDSLTMNEFKTVFNKNQPESDDVLTA---------ALQLASNLKQTGYSFNT 176

Query: 61  ANFTLCYGVCQIGVIGQKAIAA 82
               +    CQ+  +G++ +A 
Sbjct: 177 HKAQIKCNTCQMTFVGEREVAR 198

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

 Score = 55.9 bits (134), Expect = 4e-10
 Identities = 13/53 (24%), Positives = 22/53 (41%)

Query: 93  EAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQ 145
              +G S +DY   +    +WG  +E S+LA   G  I  + +  +     G 
Sbjct: 81  ARLVGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGI 133

>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 = 55.0 bits (132), Expect = 7e-10
 Identities = 13/53 (24%), Positives = 22/53 (41%)

Query: 93  EAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQ 145
              +G S +DY   +    +WG  +E S+LA   G  I  + +  +     G 
Sbjct: 81  ARLVGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGI 133

>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 = 41.7 bits (97), Expect = 4e-05
 Identities = 8/52 (15%), Positives = 19/52 (36%)

Query: 93  EAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYG 144
             ++ +    Y +  +     G  IE+  +A+ Y   +  Y   T   + + 
Sbjct: 105 SNYVTEDFTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTEPINTFH 156

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	194
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	99.9
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	99.89
3pfy_A	185	OTU domain-containing protein 5; structural genomi	99.62
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	99.62
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	99.59
4dhi_B	284	Ubiquitin thioesterase otubain-like; ubiquitin E2	99.12
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	99.06
1tff_A	234	Ubiquitin thiolesterase protein OTUB2; hydrolase;	99.03
4ddg_A	399	Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI	98.78
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	85.68
1znf_A	27	31ST zinc finger from XFIN; zinc finger DNA bindin	81.58

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

Probab=99.90  E-value=3.4e-23  Score=174.17  Aligned_cols=109  Identities=25%  Similarity=0.436  Sum_probs=97.2

Q ss_pred             hHHHHHHHHHhCcccccccccCCChhhhhhhhcCCCCcchhHHHHHHHhHhCceEEEEEcCCCceeeecCCCCccceEE-
Q 029403           76 GQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLYGQVSSFLESFV-  154 (194)
Q Consensus        76 Grk~aA~~I~s~p~~F~Ea~Lg~~~~eY~~~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~~~~~fge~~~~~~r~~-  154 (194)
                      =|+.+++|+++||+.|.|+++++++++||+||+++..|||+|||+|||++|+++|.|++.+++++.+||++. ...+++ 
T Consensus        49 lR~~vv~yi~~n~d~f~e~~~~~~~e~Y~~~m~~~~~WGg~iEL~Als~~~~~~I~V~~~~~~~~~~~~~~~-~~~~I~L  127 (212)
T 3by4_A           49 LREMVSKEVLNNPVKFNDAILDKPNKDYAQWILKMESWGGAIEIGIISDALAVAIYVVDIDAVKIEKFNEDK-FDNYILI  127 (212)
T ss_dssp             HHHHHHHHHHHCTTTTCHHHHTSCHHHHHHHTTSTTSCCCHHHHHHHHHHHTCEEEEEETTTTEEEEESTTT-CSEEEEE
T ss_pred             HHHHHHHHHHHCHHHHhhhhcCCCHHHHHHHhcCCCEEccHHHHHHHHHHHCCCEEEEECCCCCeEEeCCCC-CCCeEEE
Confidence            489999999999999999999999999999999999999999999999999999999999888999999976 455665 


Q ss_pred             ------EEeeecccCCCCCCceeeCCc---hHHH--HHHHHHHHhh
Q 029403          155 ------HEILASSALLNVPFSSVLISR---KRSI--LKELCSSMTS  189 (194)
Q Consensus       155 ------YD~l~~~~~~~~p~t~f~~~d---~~~~--~~~l~~~l~~  189 (194)
                            ||+|.+    ..+.|+||++|   +.++  +++||++|++
T Consensus       128 ~Y~g~HYdsl~~----~~d~~~f~~~~~~~~~~~~~a~~l~~~~~~  169 (212)
T 3by4_A          128 LFNGIHYDSLTM----NEFKTVFNKNQPESDDVLTAALQLASNLKQ  169 (212)
T ss_dssp             EECSSCEEEEEE----TTTBCCEETTSTTHHHHHHHHHHHHHHHHH
T ss_pred             EEcCCcceEEec----CCCcccCCccccchHHHHHHHHHHHHHHHH
Confidence                  999988    23459999998   5655  3799999986

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

Probab=99.89  E-value=5.2e-24  Score=179.17  Aligned_cols=84  Identities=19%  Similarity=0.419  Sum_probs=45.8

Q ss_pred             CeeecCcccceeeecCCCCCCCCCCeeeeeCCCCCCchHHHHHHHHHHHHHhhcccccccccceeeecccccccchHHHH
Q 029403            1 MLIYDGLHYDALAISPFEGAPEEFDQTIFPVQKGRTIGPAEDLALKLVKEQQRKKTYTDTANFTLCYGVCQIGVIGQKAI   80 (194)
Q Consensus         1 ~liYsGIHYD~l~l~~~~~~~~~~d~tiF~~~d~~~~~~vl~~A~~La~~lk~~~~~Tdt~~F~lrC~~C~~~l~Grk~a   80 (194)
                      +|+|+|.|||+|.+        ++|+|+||++|.+. +.++++|++||++||++||||||++|+|||++|+++++|+++|
T Consensus       126 ~L~Y~g~HYdsl~~--------~~d~~~f~~~~~~~-~~~~~~a~~l~~~~~~~~~~t~~~~~~l~C~~C~~~~~g~~~a  196 (212)
T 3by4_A          126 LILFNGIHYDSLTM--------NEFKTVFNKNQPES-DDVLTAALQLASNLKQTGYSFNTHKAQIKCNTCQMTFVGEREV  196 (212)
T ss_dssp             EEEECSSCEEEEEE--------TTTBCCEETTSTTH-HHHHHHHHHHHHHHHHTTCCC----------------------
T ss_pred             EEEEcCCcceEEec--------CCCcccCCccccch-HHHHHHHHHHHHHHHHcCCcccccCeEEEcccCCCcccCHHHH
Confidence            47899999999988        58999999999777 8999999999999999999999999999999999999999999


Q ss_pred             HHHHH-hCcccccc
Q 029403           81 AATVA-SDTVKHSE   93 (194)
Q Consensus        81 A~~I~-s~p~~F~E   93 (194)
                      +.|.+ ++|..|+|
T Consensus       197 ~~ha~~tgH~~f~e  210 (212)
T 3by4_A          197 ARHAESTGHVDFGQ  210 (212)
T ss_dssp             --------------
T ss_pred             HHHHHHhCCCCCCC
Confidence            99998 99999998

>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=99.62  E-value=3.2e-16  Score=129.62  Aligned_cols=82  Identities=15%  Similarity=0.232  Sum_probs=53.3

Q ss_pred             HHHHHHHHHhCcccccccccCCChhhhhhhhcCCCCcchhHHHHHHHhHhCceEEEEEcCCCceeee-cCCCCccceEE-
Q 029403           77 QKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTTRCDLY-GQVSSFLESFV-  154 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg~~~~eY~~~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~~~~~f-ge~~~~~~r~~-  154 (194)
                      |+.++++++++++.|.+ |++.++++||+||+++..|||+|||.|||+.|+++|.|++..+.++..| |++.++.+.++ 
T Consensus        90 R~~vv~yi~~n~d~f~~-Fv~~~~e~Y~~~m~~~~~WGg~iEL~AlS~~~~v~I~V~~~~~~~i~i~~g~~~~~~~~I~L  168 (185)
T 3pfy_A           90 RKHCMDYLMKNADYFSN-YVTEDFTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRV  168 (185)
T ss_dssp             HHHHHHHHHHTHHHHTT-CC-----------------CCHHHHHHHHHHHTSCEEEESSCSSCSEEECTTSCCTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHH-HHhccHHHHHHHhhCCCccchHHHHHHHHHhhCCcEEEEECCCCCeEEecCccCCCCCEEEE
Confidence            78999999999999998 6678999999999999999999999999999999999999765566666 55544445553 


Q ss_pred             -------EEeee
Q 029403          155 -------HEILA  159 (194)
Q Consensus       155 -------YD~l~  159 (194)
                             ||+|.
T Consensus       169 ~Y~~~~HYnSv~  180 (185)
T 3pfy_A          169 SYHRNIHYNSVV  180 (185)
T ss_dssp             EEETTTEEEEEE
T ss_pred             EECCCCCccccc
Confidence                   88873

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

Probab=99.62  E-value=4.6e-16  Score=131.77  Aligned_cols=85  Identities=18%  Similarity=0.300  Sum_probs=73.0

Q ss_pred             hHHHHHHHHHhCcccccccccCCChhhhhhhhcCCCCcchhHHHHHHHhHhCceEEEEEcCCC----ceeeecCCCCccc
Q 029403           76 GQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTT----RCDLYGQVSSFLE  151 (194)
Q Consensus        76 Grk~aA~~I~s~p~~F~Ea~Lg~~~~eY~~~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~----~~~~fge~~~~~~  151 (194)
                      =|+.+++|+++|++.   +++++++++||+||+++..|||++||.|||++|+++|.|+...+.    ++.+||++++ .+
T Consensus        67 LR~~va~yi~~n~d~---~~~~~~feeY~~~m~~~g~WGG~iEL~AlS~~~~v~I~V~~~d~~g~~~~i~~fge~~~-~~  142 (219)
T 3phu_A           67 TESAARKYYQEEPEA---RLVGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDV-FT  142 (219)
T ss_dssp             HHHHHHHHGGGCHHH---HHHCCCHHHHHHHHHSTTCCCCHHHHHHHHHHTTCCEEEEEESSSSBEEEEEEESSCCT-TT
T ss_pred             HHHHHHHHHHhChhh---hhcCCCHHHHHHHhcCCCccCCHHHHHHHHHHhCCCEEEEEecCCCCceeEEEecCCCC-CC
Confidence            389999999999999   578999999999999999999999999999999999999965544    5899998763 34


Q ss_pred             eEE--------EEeeecccCC
Q 029403          152 SFV--------HEILASSALL  164 (194)
Q Consensus       152 r~~--------YD~l~~~~~~  164 (194)
                      ++.        ||+|...+..
T Consensus       143 ~I~L~Y~g~~HYdSL~~~~d~  163 (219)
T 3phu_A          143 AVNLLHSGQTHFDALRILPQF  163 (219)
T ss_dssp             SEEEEEETTTEEEEEEECTTT
T ss_pred             eEEEEECCCcCchhheECCCC
Confidence            443        9999887654

>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=99.59  E-value=2.4e-15  Score=124.09  Aligned_cols=84  Identities=18%  Similarity=0.296  Sum_probs=70.9

Q ss_pred             hHHHHHHHHHhCcccccccccCCChhhhhhhhcCCCCcchhHHHHHHHhHhCceEEEEEcCCC----ceeeecCCCCccc
Q 029403           76 GQKAIAATVASDTVKHSEAFIGKSNQDYCSWIQDPEKWGGAIELSILADYYGSEIAAYDIQTT----RCDLYGQVSSFLE  151 (194)
Q Consensus        76 Grk~aA~~I~s~p~~F~Ea~Lg~~~~eY~~~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~----~~~~fge~~~~~~  151 (194)
                      =|+.+++++++|++.   +++++++++||+||+++..|||++||.|||++|+++|.|+...+.    ++.+||++++ .+
T Consensus        67 LR~~~~~yi~~~~~~---~~~~~~~~~Y~~~m~~~~~WGg~iEL~Als~~~~v~I~V~~~d~~~~~~~i~~f~~~~~-~~  142 (185)
T 3phx_A           67 TESAARKYYQEEPEA---RLVGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDV-FT  142 (185)
T ss_dssp             HHHHHHHHGGGCTTH---HHHCCCHHHHHHHHTSTTCCCBHHHHHHHHHHHCCCEEEEEC--CCBCCEEEEESSCCT-TT
T ss_pred             HHHHHHHHHHhChHh---hhcCCCHHHHHHHhhCCCccCcHHHHHHHHHHHCCcEEEEEecCCCCceEEEEcCCCCC-CC
Confidence            389999999999999   578999999999999999999999999999999999999965433    4789998763 34


Q ss_pred             eEE--------EEeeecccC
Q 029403          152 SFV--------HEILASSAL  163 (194)
Q Consensus       152 r~~--------YD~l~~~~~  163 (194)
                      ++.        ||+|...+.
T Consensus       143 ~I~L~Y~g~~HYdsl~~~~~  162 (185)
T 3phx_A          143 AVNLLHSGQTHFDALRILPQ  162 (185)
T ss_dssp             SEEEEEETTTEEEEEEECGG
T ss_pred             EEEEEECCCcCchhceECCC
Confidence            442        999988654

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

Probab=99.12  E-value=1.3e-10  Score=101.79  Aligned_cols=86  Identities=8%  Similarity=0.071  Sum_probs=68.0

Q ss_pred             HHHHHHHHHhCcccccccccC-CChhhhhh-hhcCCCCcchhHHHHHHHhHhCceEEEEEcCC--Cc---eee-ecCCCC
Q 029403           77 QKAIAATVASDTVKHSEAFIG-KSNQDYCS-WIQDPEKWGGAIELSILADYYGSEIAAYDIQT--TR---CDL-YGQVSS  148 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg-~~~~eY~~-~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~--~~---~~~-fge~~~  148 (194)
                      |..++.|+++|+++|.+.+.| +++++||+ +|+.++.|||+|||.|||++++++|.|+....  |.   .+. |-++..
T Consensus       174 Rllts~yi~~~~d~f~pFi~~~~~v~~yC~~eVe~~~~e~d~leI~ALa~aL~v~I~V~ylDrs~g~~v~~h~~fp~~~~  253 (284)
T 4dhi_B          174 RLITSAFLKQNSEEYAPFIDEGMTVAQYCEQEIEPMWKDADHLAINSLIKAAGTRVRIEYMDRTAAPNGGWHYDIPSDDQ  253 (284)
T ss_dssp             HHHHHHHHHHTHHHHGGGSCTTCCHHHHHHHHTSSTTCCCCHHHHHHHHHHTTCCEEEEESSGGGCTTSSSEEEESCCCS
T ss_pred             HHHHHHHHHHCHHHHHhhcCCCCCHHHHHHHhceehhhcccHHHHHHHHHHhCCcEEEEEecCCCCCCCcccccCCCCCC
Confidence            779999999999999997765 79999999 99999999999999999999999999986532  22   245 733321


Q ss_pred             -ccceEE-------EEeeeccc
Q 029403          149 -FLESFV-------HEILASSA  162 (194)
Q Consensus       149 -~~~r~~-------YD~l~~~~  162 (194)
                       -..++.       ||.|.-.+
T Consensus       254 ~~~p~I~LLYrpgHYDILY~~~  275 (284)
T 4dhi_B          254 QIAPEITLLYRPGHYDVIYKKD  275 (284)
T ss_dssp             CCCCSEEEEEETTEEEEEEECC
T ss_pred             CCCCEEEEeecCCCccccccCC
Confidence             113442       99998764

>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=99.06  E-value=4.1e-10  Score=95.55  Aligned_cols=81  Identities=12%  Similarity=0.146  Sum_probs=64.6

Q ss_pred             HHHHHHHHHhCcccccccccC-CChhhhhhh-hcCCCCcchhHHHHHHHhHhCceEEEEEcCCCc-----eeeecCCCCc
Q 029403           77 QKAIAATVASDTVKHSEAFIG-KSNQDYCSW-IQDPEKWGGAIELSILADYYGSEIAAYDIQTTR-----CDLYGQVSSF  149 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg-~~~~eY~~~-I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~~-----~~~fge~~~~  149 (194)
                      |..++.++++|+++|.+.+-| .+.++||+| |..+..|||+|||.|||+.++++|.|+....+.     ...|+++.  
T Consensus       139 R~lta~yi~~~~d~f~pFi~~~~~~e~yc~~~ve~~~~~~~~i~i~ALa~al~v~I~V~~~d~~~~~~v~~~~f~~~~--  216 (234)
T 2zfy_A          139 RLLTSGYLQRESKFFEHFIEGGRTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIFPEGS--  216 (234)
T ss_dssp             HHHHHHHHHHTHHHHGGGCCSSCCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-CCSSCCEEEEESTTC--
T ss_pred             HHHHHHHHHHCHHHHhcccCCCCCHHHHHHHHhhhHhhcCCHHHHHHHHHHhCCCEEEEEcCCCCCCcccceeCCCCC--
Confidence            788889999999999985443 599999985 999999999999999999999999999864332     25677654  


Q ss_pred             cceEE-------EEeee
Q 029403          150 LESFV-------HEILA  159 (194)
Q Consensus       150 ~~r~~-------YD~l~  159 (194)
                      ..++.       ||.|.
T Consensus       217 ~p~I~LlY~pgHYdiLy  233 (234)
T 2zfy_A          217 EPKVYLLYRPGHYDILY  233 (234)
T ss_dssp             CCSEEEEEETTEEEEEE
T ss_pred             CCeEEEEECCCCcccCC
Confidence            33443       88763

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

Probab=99.03  E-value=4.6e-10  Score=95.39  Aligned_cols=83  Identities=10%  Similarity=0.109  Sum_probs=65.1

Q ss_pred             HHHHHHHHHhCccccccccc-CCChhhhhh-hhcCCCCcchhHHHHHHHhHhCceEEEEEcCCCc--e--eeecCCCCcc
Q 029403           77 QKAIAATVASDTVKHSEAFI-GKSNQDYCS-WIQDPEKWGGAIELSILADYYGSEIAAYDIQTTR--C--DLYGQVSSFL  150 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~L-g~~~~eY~~-~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~~--~--~~fge~~~~~  150 (194)
                      |..+|.|+++|+++|.+.+- |.+.++||+ .|..+..|||+|||.|||+.++++|.|+....+.  +  ..|+++.  .
T Consensus       136 R~lta~~i~~~~d~f~pFi~~~~~~~~yC~~~ve~~~~~~~~iei~ALa~aL~v~I~V~~~d~~~~~~~~~~~~~~~--~  213 (234)
T 1tff_A          136 RLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMDTALNHHVFPEAA--T  213 (234)
T ss_dssp             HHHHHHHHHHTHHHHGGGSCTTSCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-------CCCCCCCS--S
T ss_pred             HHHHHHHHHHCHHHHhhhhcCCCCHHHHHHHHhhhhhcccccHHHHHHHHHhCCCEEEEEcCCCCCccccccCCCCC--C
Confidence            78899999999999999443 359999999 8999999999999999999999999999864332  2  3555543  3


Q ss_pred             ceEE-------EEeeecc
Q 029403          151 ESFV-------HEILASS  161 (194)
Q Consensus       151 ~r~~-------YD~l~~~  161 (194)
                      .++.       ||.|.-.
T Consensus       214 ~~I~LlY~pgHYdily~~  231 (234)
T 1tff_A          214 PSVYLLYKTSHYNILYAA  231 (234)
T ss_dssp             CSEEEEEETTEEEEEEEC
T ss_pred             CeEEEEECCCCceecccC
Confidence            3443       9988643

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

Probab=98.78  E-value=1.5e-08  Score=91.72  Aligned_cols=81  Identities=12%  Similarity=0.148  Sum_probs=65.1

Q ss_pred             HHHHHHHHHhCcccccccccC-CChhhhhh-hhcCCCCcchhHHHHHHHhHhCceEEEEEcCCC---ce--eeecCCCCc
Q 029403           77 QKAIAATVASDTVKHSEAFIG-KSNQDYCS-WIQDPEKWGGAIELSILADYYGSEIAAYDIQTT---RC--DLYGQVSSF  149 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg-~~~~eY~~-~I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~---~~--~~fge~~~~  149 (194)
                      |..++.|+++|+++|.+.+-| .++++||+ +|..+..|||+|||.|||+.++++|.|+....+   .+  ..|+++.  
T Consensus       304 Rllts~~i~~~~d~f~pFi~~~~~v~~yc~~~ve~~~~e~d~l~I~ALa~al~v~I~V~yld~~~~~~v~~~~~~~~~--  381 (399)
T 4ddg_A          304 RLLTSGYLQRESKFFEHFIEGGRTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIFPEGS--  381 (399)
T ss_dssp             HHHHHHHHHHTHHHHGGGSSSSCCHHHHHHHHTSSTTCCBCHHHHHHHHHHHTCCCEEEECSCCSSSCCCEEETTTTC--
T ss_pred             HHHHHHHHHHCHHHHhcccCCCCCHHHHHHHhceeHHhhCcHHHHHHHHHHcCCcEEEEEcCCCCCCccceeeCCCCC--
Confidence            789999999999999985544 58999999 999999999999999999999999999954332   22  4565544  


Q ss_pred             cceEE-------EEeee
Q 029403          150 LESFV-------HEILA  159 (194)
Q Consensus       150 ~~r~~-------YD~l~  159 (194)
                      ...+.       ||.|.
T Consensus       382 ~~~I~LLYrPgHYDiLY  398 (399)
T 4ddg_A          382 EPKVYLLYRPGHYDILY  398 (399)
T ss_dssp             CCCCEEEEETBEEEEEE
T ss_pred             CCEEEEEEcCCccccCC
Confidence            23332       99874

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

Probab=85.68  E-value=0.32  Score=40.65  Aligned_cols=21  Identities=38%  Similarity=0.507  Sum_probs=16.1

Q ss_pred             CeeecC-cccceeeecCCCCCC
Q 029403            1 MLIYDG-LHYDALAISPFEGAP   21 (194)
Q Consensus         1 ~liYsG-IHYD~l~l~~~~~~~   21 (194)
                      +|+|+| +|||+|...+....+
T Consensus       145 ~L~Y~g~~HYdSL~~~~d~~~~  166 (219)
T 3phu_A          145 NLLHSGQTHFDALRILPQFETD  166 (219)
T ss_dssp             EEEEETTTEEEEEEECTTTCCS
T ss_pred             EEEECCCcCchhheECCCCCCC
Confidence            378999 999999887654333

>1znf_A 31ST zinc finger from XFIN; zinc finger DNA binding domain; NMR {Xenopus laevis} SCOP: g.37.1.1

Probab=81.58  E-value=0.91  Score=23.00  Aligned_cols=24  Identities=13%  Similarity=0.292  Sum_probs=20.2

Q ss_pred             eecccccccchHHHHHHHHHhCcc
Q 029403           66 CYGVCQIGVIGQKAIAATVASDTV   89 (194)
Q Consensus        66 rC~~C~~~l~Grk~aA~~I~s~p~   89 (194)
                      +|..|++.+.-......|++.++.
T Consensus         3 ~C~~C~k~f~~~~~l~~H~~~h~~   26 (27)
T 1znf_A            3 KCGLCERSFVEKSALSRHQRVHKN   26 (27)
T ss_dssp             BCSSSCCBCSSHHHHHHHGGGTCC
T ss_pred             cCCCCCCcCCCHHHHHHHHHHcCC
Confidence            799999999988888888776653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	194
d1tffa_	228	Ubiquitin thiolesterase protein OTUB2 (Otubain-2)	98.97
d2adra1	29	ADR1 {Synthetic, based on Saccharomyces cerevisiae	80.36

>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=98.97  E-value=4.9e-10  Score=92.11  Aligned_cols=82  Identities=10%  Similarity=0.127  Sum_probs=62.8

Q ss_pred             HHHHHHHHHhCcccccccccC-CChhhhhhh-hcCCCCcchhHHHHHHHhHhCceEEEEEcCCC--cee--eecCCCCcc
Q 029403           77 QKAIAATVASDTVKHSEAFIG-KSNQDYCSW-IQDPEKWGGAIELSILADYYGSEIAAYDIQTT--RCD--LYGQVSSFL  150 (194)
Q Consensus        77 rk~aA~~I~s~p~~F~Ea~Lg-~~~~eY~~~-I~~~~~WGG~IEL~iLS~~~~v~I~v~d~~~~--~~~--~fge~~~~~  150 (194)
                      |..++.+++.|++.|.+.+.+ .+.++||+| |..+..|||.+||.|||++|+++|.|+.+..+  .+.  .++++.  .
T Consensus       130 R~l~s~~i~~~~~~y~~Fi~~~~~~~~yc~~~v~~~~~e~d~ieI~aLa~al~v~I~V~~~d~~~~~~~~~~~~~~~--~  207 (228)
T d1tffa_         130 RLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMDTALNHHVFPEAA--T  207 (228)
T ss_dssp             HHHHHHHHHHTHHHHGGGSCTTSCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-------CCCCCCCS--S
T ss_pred             HHHHHHHHHHCHHHHHhHhcCCccHHHHHHHHHccccccCCcHHHHHHHHHhCCCEEEEEecCCCCccccccCCCCC--C
Confidence            889999999999999986554 578999987 99999999999999999999999999865432  232  333333  4


Q ss_pred             ceEE-------EEeeec
Q 029403          151 ESFV-------HEILAS  160 (194)
Q Consensus       151 ~r~~-------YD~l~~  160 (194)
                      .+|.       ||.|.-
T Consensus       208 ~~I~Lly~pgHYdiLY~  224 (228)
T d1tffa_         208 PSVYLLYKTSHYNILYA  224 (228)
T ss_dssp             CSEEEEEETTEEEEEEE
T ss_pred             CEEEEEeCCCCcccCcc
Confidence            4553       888753

>d2adra1 g.37.1.1 (A:102-130) ADR1 {Synthetic, based on Saccharomyces cerevisiae sequence}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ADR1
species: Synthetic, based on Saccharomyces cerevisiae sequence

Probab=80.36  E-value=0.58  Score=25.67  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=21.7

Q ss_pred             eecccccccchHHHHHHHHHhCcc
Q 029403           66 CYGVCQIGVIGQKAIAATVASDTV   89 (194)
Q Consensus        66 rC~~C~~~l~Grk~aA~~I~s~p~   89 (194)
                      +|.+|++.+.-......|++.|++
T Consensus         4 ~C~~C~k~F~~~~~L~~H~r~HTg   27 (29)
T d2adra1           4 VCEVCTRAFARQEHLKRHYRSHTN   27 (29)
T ss_dssp             CCTTTCCCBSCHHHHHHHHHTTTS
T ss_pred             CCCCCCCCCCCchHcccccCcccC
Confidence            699999999999999999998865