Citrus Sinensis ID: 019389

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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-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-
Protein Sequence
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKAHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGISKL
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccHHHHHHHHccccccHHHHcccccccccccccccccEEEccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHcHHcccccccccHHHHHHHHccccccccHHHHHHHHHHccccEEEEEccccccccEEEccccccccccccEEEEEccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEccccHccHcEEEEcccccccccccEEEEEEccccccEEEEcccccccccEcEEEEEEcccccccccccccccccccccccccccccccHEEEEccccccccEEEEEEEccccEEEEEccccccccEEEccccccccccccccEEEEEEEEEEccccccccccHHHHHHccccccHHccccccccEEEEEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHcccccccHHHHHHHHHHHcccEEEEEEcccccccEEEEEEcccccccccEEEEEEcccccccccccccccccccc
Coil and Loop (DISEMBL)
MIVSTSICACAKNVvnlggrfqgqmggnicgvtyrgpsssccfylcsgqskknyagisrtisssslnvlqpfqatcfspgltkprcnlrpltirsfigsrgsqkrHIEISLACRSMKMrllvpsqgvlpklklnagpidwpkgcasagLICGLLVCYSSskahaeaadekedgeedydlsnvkyshgkkvytdysvigipgdgrCLFRAVAHGAclragkpapsvsIQRELADDLRAKVADEFIKRReetewfiegdfdlyvsqirkphvwggepellmashvlrmpitvymhdkdaggLISIAEYGqeygkekpirVLYHGfghydalqnlgheggiskl
Flexible Loop (DISEMBL)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCfspgltkprcnlRPLTIrsfigsrgsqkrhIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKAHAEAadekedgeedydlsnvkyshgkkvyTDYSVIGIPGDGRCLFRAVAHGACLragkpapsvsiqreLADDLRAKVADEFIkrreetewfiegdfDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALqnlgheggiskl
Low Complexity Region (SEG)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKahaeaadekedgeedydLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGISKL
Disordered region (IsUnstruct)
***STSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYS*********************SNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNL*********
Disordered Region (DISOPRED)
*******CACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSC****************************************************************************************************************************************************VYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLI**A******GKEKPIRVLYHGFGHYDAL************
Disordered Region (DISEMBL)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSS*****************DLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGISKL
Disordered Region (DISPRO)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTK**CNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSS************************SHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNL*********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKAHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGISKL
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	341	2.2.26 [Sep-21-2011]
Q8LBZ4	317	OTU domain-containing pro	yes	no	0.903	0.971	0.483	8e-81
Q6GM06	294	OTU domain-containing pro	N/A	no	0.498	0.578	0.261	4e-09
Q7L8S5	288	OTU domain-containing pro	yes	no	0.378	0.447	0.324	2e-07
Q5M8L0	294	OTU domain-containing pro	yes	no	0.524	0.608	0.245	5e-06
Q8N6M0	293	OTU domain-containing pro	no	no	0.378	0.440	0.273	1e-05
Q7ZX21	513	OTU domain-containing pro	N/A	no	0.337	0.224	0.253	1e-05
Q96G74	571	OTU domain-containing pro	no	no	0.348	0.208	0.259	1e-05
Q7ZV00	293	OTU domain-containing pro	no	no	0.378	0.440	0.298	2e-05
Q640H3	518	OTU domain-containing pro	N/A	no	0.337	0.222	0.253	3e-05
Q6GL44	518	OTU domain-containing pro	no	no	0.337	0.222	0.253	4e-05

>sp|Q8LBZ4|OTU_ARATH OTU domain-containing protein At3g57810 OS=Arabidopsis thaliana GN=At3g57810 PE=2 SV=1

 Score =  300 bits (769), Expect = 8e-81,   Method: Compositional matrix adjust.
 Identities = 165/341 (48%), Positives = 215/341 (63%), Gaps = 33/341 (9%)

Query: 1   MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRT 60
           MI  + I  C++N +++    +  +G  + GV   G S   C+ L SG S+++Y G   +
Sbjct: 2   MICYSPITTCSRNAISI----KRHLGSRLYGVVAHGSSKFSCYSLLSGLSRRHYTGFRVS 57

Query: 61  ISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRL 120
           +S+      +P  ++    GL       RP           + K  +E+S       M+ 
Sbjct: 58  VSN------RP--SSWHDKGLFGSVLINRPTV---------APKEKLEVSFLSPEANMKC 100

Query: 121 LVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSK--AHAEAADEKEDGEEDYD 178
                    K++ N   +      A  G+I  LLVCYSS+   A+A+++ +K+     + 
Sbjct: 101 --------SKIESNMRNLYCYSRFAYTGVIVSLLVCYSSTSQSAYADSSRDKDANNVHHH 152

Query: 179 LSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAK 238
            S+ K+ +GK+VYTDYS+IGIPGDGRCLFR+VAHG CLR+GK AP   +QRELAD+LR +
Sbjct: 153 SSDGKFHNGKRVYTDYSIIGIPGDGRCLFRSVAHGFCLRSGKLAPGEKMQRELADELRTR 212

Query: 239 VADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAG 298
           VADEFI+RR+ETEWF+EGDFD YV QIR PHVWGGEPEL MASHVL+MPITVYM D  AG
Sbjct: 213 VADEFIQRRQETEWFVEGDFDTYVRQIRDPHVWGGEPELFMASHVLQMPITVYMKDDKAG 272

Query: 299 GLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGIS 339
           GLISIAEYGQEYGK+ PIRVLYHGFGHYDAL  L HE   S
Sbjct: 273 GLISIAEYGQEYGKDDPIRVLYHGFGHYDAL--LLHESKAS 311

Arabidopsis thaliana (taxid: 3702)

>sp|Q6GM06|OTU6B_XENLA OTU domain-containing protein 6B OS=Xenopus laevis GN=otud6b PE=2 SV=1

 Score = 62.8 bits (151), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 51/195 (26%), Positives = 90/195 (46%), Gaps = 25/195 (12%)

Query: 155 VCYSSSKAHAEAADEKEDGE-----EDYDLSNVKYSHGKKVYT-----DYSVIGIPGDGR 204
           V  +  +   +AA EKE  +     E  +LS  ++   +K+       +  +  IP DG 
Sbjct: 101 VSKAQKRREKKAAQEKERDDRIAEAEIANLSGARHLESQKLAQILAERELQIRQIPSDGH 160

Query: 205 CLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVAD--EFIKRREETEWFIEGDFDLYV 262
           C++RA+ H      G      +++ + AD ++ +  D   F+      + + + +F  Y 
Sbjct: 161 CMYRAIEHQLN-EQGNSLTVANLRSQTADYMQKRAEDFLPFLTNSSTGDMYTQEEFQKYC 219

Query: 263 SQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLY-- 320
           + I     WGG+ EL   SH+L+ PI V      A  L  +   G+EY   KPI ++Y  
Sbjct: 220 TDIVNTPAWGGQLELRALSHILKTPIEVIQ----AESLPIV--IGEEYSN-KPITLVYMR 272

Query: 321 HGFG---HYDALQNL 332
           H +G   HY++++ L
Sbjct: 273 HAYGLGEHYNSVEQL 287

Xenopus laevis (taxid: 8355)

>sp|Q7L8S5|OTU6A_HUMAN OTU domain-containing protein 6A OS=Homo sapiens GN=OTUD6A PE=2 SV=1

 Score = 56.6 bits (135), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 70/151 (46%), Gaps = 22/151 (14%)

Query: 198 GIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFI---KRREETEWFI 254
            IP DG C++RA+           + SV + R        K  DEF+      E ++ F 
Sbjct: 145 AIPADGHCMYRAIQDQLVF-----SVSVEMLRCRTASYMKKHVDEFLPFFSNPETSDSFG 199

Query: 255 EGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEK 314
             DF +Y   I +   WGG+ EL   SHVL+ PI V     D+  LI     G+EY K K
Sbjct: 200 YDDFMIYCDNIVRTTAWGGQLELRALSHVLKTPIEVI--QADSPTLI----IGEEYVK-K 252

Query: 315 PIRVLYHGFG-----HYDALQNL--GHEGGI 338
           PI ++Y  +      HY+++  L  G  GG+
Sbjct: 253 PIILVYLRYAYSLGEHYNSVTPLEAGAAGGV 283

Homo sapiens (taxid: 9606)

>sp|Q5M8L0|OTU6B_XENTR OTU domain-containing protein 6B OS=Xenopus tropicalis GN=otud6b PE=2 SV=1

 Score = 52.4 bits (124), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 53/216 (24%), Positives = 92/216 (42%), Gaps = 37/216 (17%)

Query: 134 NAGPIDWPKGCASAGLICGLLVCYSSSKAHAEAADEKEDGE-----EDYDLSNVKYSHGK 188
           N  P+  P+   +              +   +AA EKE  E     E  +LS  ++   +
Sbjct: 92  NEAPVQQPRQSKA------------QKRREKKAAQEKERDERIAEAEIANLSGARHLESQ 139

Query: 189 KV-----YTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVAD-- 241
           K+       +  +  IP DG C++RA+ H    R G      +++ + AD ++    D  
Sbjct: 140 KLARILAERELQIRQIPSDGHCMYRAIEHQLRER-GNDLTVANLRSQTADYMQNHAEDFL 198

Query: 242 EFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLI 301
            F+      + + + +F  Y + I     WGG+ EL   SH+L+  I V   +      I
Sbjct: 199 PFLTNSSTGDMYTQEEFLKYCTDIVNTPAWGGQLELRALSHILKTAIEVIQAE---SSPI 255

Query: 302 SIAEYGQEYGKEKPIRVLY--HGFG---HYDALQNL 332
            I   G+EY   K I ++Y  H +G   HY++++ L
Sbjct: 256 VI---GEEYSS-KAITLVYMRHAYGLGEHYNSVELL 287

Xenopus tropicalis (taxid: 8364)

>sp|Q8N6M0|OTU6B_HUMAN OTU domain-containing protein 6B OS=Homo sapiens GN=OTUD6B PE=1 SV=1

 Score = 51.2 bits (121), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 40/146 (27%), Positives = 73/146 (50%), Gaps = 17/146 (11%)

Query: 195 SVIGIPGDGRCLFRAVAHGACLRAGKPAPSV-SIQRELADDLRAKVAD--EFIKRREETE 251
            +  IP DG C+++A+     L+    A +V +++ + A+ +++ V D   F+      +
Sbjct: 148 EIKQIPSDGHCMYKAIEDQ--LKEKDCALTVVALRSQTAEYMQSHVEDFLPFLTNPNTGD 205

Query: 252 WFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYG 311
            +   +F  Y   I     WGG+ EL   SH+L+ PI +     D+  +I     G+EY 
Sbjct: 206 MYTPEEFQKYCEDIVNTAAWGGQLELRALSHILQTPIEII--QADSPPII----VGEEYS 259

Query: 312 KEKPIRVLY--HGFG---HYDALQNL 332
           K KP+ ++Y  H +G   HY+++  L
Sbjct: 260 K-KPLILVYMRHAYGLGEHYNSVTRL 284

Homo sapiens (taxid: 9606)

>sp|Q7ZX21|OTU5A_XENLA OTU domain-containing protein 5-A OS=Xenopus laevis GN=otud5-a PE=2 SV=1

 Score = 50.8 bits (120), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/130 (25%), Positives = 60/130 (46%), Gaps = 15/130 (11%)

Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
           DG CLFRAVA             V   +++ + +R    D  +K  +    ++  DF  Y
Sbjct: 174 DGACLFRAVAD-----------QVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTY 222

Query: 262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYH 321
           +++ RK +  G   E+   + +   P+ VY +  +         +G +  +++PIRV YH
Sbjct: 223 INRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYGTEPINTF----HGIQKNEDEPIRVSYH 278

Query: 322 GFGHYDALQN 331
              HY+++ N
Sbjct: 279 RNIHYNSVVN 288

Deubiquitinating enzyme that may function as negative regulator of the innate immune system. Has peptidase activity towards 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains. Can also cleave 'Lys-11'-linked ubiquitin chains (in vitro).

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q96G74|OTUD5_HUMAN OTU domain-containing protein 5 OS=Homo sapiens GN=OTUD5 PE=1 SV=1

 Score = 50.8 bits (120), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/131 (25%), Positives = 60/131 (45%), Gaps = 12/131 (9%)

Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
           DG CLFRAVA             V   +++ + +R    D  +K  +    ++  DF  Y
Sbjct: 221 DGACLFRAVAD-----------QVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTY 269

Query: 262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEY-GQEYGKEKPIRVLY 320
           +++ RK +  G   E+   + +   P+ VY +      +  I  + G    +++PIRV Y
Sbjct: 270 INRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSY 329

Query: 321 HGFGHYDALQN 331
           H   HY+++ N
Sbjct: 330 HRNIHYNSVVN 340

Deubiquitinating enzyme that functions as negative regulator of the innate immune system. Acts via TRAF3 deubiquitination and subsequent suppression of type I interferon (IFN) production. Has peptidase activity towards 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains. Can also cleave 'Lys-11'-linked ubiquitin chains (in vitro).

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q7ZV00|OTU6B_DANRE OTU domain-containing protein 6B OS=Danio rerio GN=otud6b PE=2 SV=1

 Score = 50.8 bits (120), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/144 (29%), Positives = 69/144 (47%), Gaps = 15/144 (10%)

Query: 196 VIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVAD--EFIKRREETEWF 253
           +  I  DG C++RAV H    R G       ++ + A  +R+   D   F+      + +
Sbjct: 149 IKEISSDGHCMYRAVEHQLTER-GLALGLKELRDQTAQYMRSHADDFMPFLTNPNTGDMY 207

Query: 254 IEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKE 313
              +F+ Y S +     WGG+ EL   S VL++PI V   D      I+I   G+EY K 
Sbjct: 208 TAEEFEKYCSDVADTAAWGGQLELKALSQVLQLPIEVIQAD---SPCITI---GEEYDKP 261

Query: 314 KPIRVLY--HGFG---HYDALQNL 332
           K I ++Y  H +G   HY++++ L
Sbjct: 262 K-ITLIYMRHAYGLGEHYNSVEPL 284

Danio rerio (taxid: 7955)

>sp|Q640H3|OTU5B_XENLA OTU domain-containing protein 5-B OS=Xenopus laevis GN=otud5-b PE=2 SV=1

 Score = 50.1 bits (118), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/130 (25%), Positives = 60/130 (46%), Gaps = 15/130 (11%)

Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
           DG CLFRAVA             V   +++ + +R    D  +K  +    ++  DF  Y
Sbjct: 179 DGACLFRAVAD-----------QVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTY 227

Query: 262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYH 321
           +++ RK +  G   E+   + +   P+ VY +  +         +G +  +++PIRV YH
Sbjct: 228 INRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYGTEPINTF----HGIQQNEDEPIRVSYH 283

Query: 322 GFGHYDALQN 331
              HY+++ N
Sbjct: 284 RNIHYNSVVN 293

Deubiquitinating enzyme that may function as negative regulator of the innate immune system. Has peptidase activity towards 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains. Can also cleave 'Lys-11'-linked ubiquitin chains (in vitro).

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q6GL44|OTUD5_XENTR OTU domain-containing protein 5 OS=Xenopus tropicalis GN=otud5 PE=2 SV=1

 Score = 49.3 bits (116), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 33/130 (25%), Positives = 60/130 (46%), Gaps = 15/130 (11%)

Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
           DG CLFRAVA             V   +++ + +R    D  +K  +    ++  DF  Y
Sbjct: 179 DGACLFRAVAD-----------QVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTY 227

Query: 262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYH 321
           +++ RK +  G   E+   + +   P+ VY +  +         +G +  +++PIRV YH
Sbjct: 228 INRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYGTEPINTF----HGIQQNEDEPIRVSYH 283

Query: 322 GFGHYDALQN 331
              HY+++ N
Sbjct: 284 RNIHYNSVVN 293

Deubiquitinating enzyme that may function as negative regulator of the innate immune system. Has peptidase activity towards 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains. Can also cleave 'Lys-11'-linked ubiquitin chains (in vitro).

Xenopus tropicalis (taxid: 8364)

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	341
359481937	340	PREDICTED: OTU domain-containing protein	0.988	0.991	0.636	1e-123
255587443	343	cysteine-type peptidase, putative [Ricin	0.997	0.991	0.595	1e-111
224139840	319	predicted protein [Populus trichocarpa]	0.926	0.990	0.618	1e-108
147779061	806	hypothetical protein VITISV_002512 [Viti	0.771	0.326	0.701	1e-107
363806736	339	uncharacterized protein LOC100810338 [Gl	0.950	0.955	0.601	3e-99
449437605	286	PREDICTED: OTU domain-containing protein	0.818	0.975	0.548	4e-90
224120200	223	predicted protein [Populus trichocarpa]	0.630	0.964	0.703	2e-85
297817112	313	hypothetical protein ARALYDRAFT_486235 [	0.885	0.964	0.495	1e-81
30694718	317	Cysteine proteinases-like protein [Arabi	0.903	0.971	0.483	5e-79
297739716	189	unnamed protein product [Vitis vinifera]	0.551	0.994	0.740	1e-77

>gi|359481937|ref|XP_003632695.1| PREDICTED: OTU domain-containing protein At3g57810-like [Vitis vinifera]

 Score =  449 bits (1154), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 219/344 (63%), Positives = 262/344 (76%), Gaps = 7/344 (2%)

Query: 1   MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSK--KNYAGIS 58
           MI    I  CA+N+V L G  Q QM  +IC +  +GPSSS  FY  +G SK    +  +S
Sbjct: 1   MINCYPISTCARNIVRLSGCVQRQMSSHICSLVSQGPSSSFSFYFYTGHSKPKNTFMSVS 60

Query: 59  RTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKM 118
            T S SS+     FQ +CF  GL+K R + R LT++S IGSRG  KR + ISL C++M +
Sbjct: 61  ETFSCSSITAFHTFQGSCFYSGLSKRRGSSRSLTVKSLIGSRGPSKRSLNISLTCQNMNV 120

Query: 119 RLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSK-AHAEAADEKEDGEEDY 177
           RLLVP QGVLPK+K N G + WP+GCASAGL+  LLVCYSSS+  HAE+A +KED + + 
Sbjct: 121 RLLVPKQGVLPKIKCNVGSVSWPQGCASAGLMFALLVCYSSSEPVHAESAQKKEDKKGEC 180

Query: 178 DLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRA 237
             +    SHGKKVYTDYS+ GIPGDGRCLFR+V HGACLR+GKPAPS S QRELAD+LRA
Sbjct: 181 YTN----SHGKKVYTDYSITGIPGDGRCLFRSVVHGACLRSGKPAPSASCQRELADELRA 236

Query: 238 KVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDA 297
           +V DEFI+RR ETEWFIEGDFD YVSQ+RKPHVWGGEPEL MASHVL+MPITVYM+DKD+
Sbjct: 237 EVVDEFIRRRSETEWFIEGDFDTYVSQMRKPHVWGGEPELFMASHVLQMPITVYMYDKDS 296

Query: 298 GGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGISKL 341
           GGLI+IAEYGQEYGKE PIRVLYHGFGHY++LQ  G +G  S+L
Sbjct: 297 GGLIAIAEYGQEYGKENPIRVLYHGFGHYESLQIPGKKGAKSRL 340

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255587443|ref|XP_002534273.1| cysteine-type peptidase, putative [Ricinus communis] gi|223525596|gb|EEF28110.1| cysteine-type peptidase, putative [Ricinus communis]

 Score =  409 bits (1051), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 205/344 (59%), Positives = 250/344 (72%), Gaps = 4/344 (1%)

Query: 1   MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYA--GIS 58
           MIV + I   A+ VV L G  Q  MG  I  +   G S+SCCF  C     K+YA   IS
Sbjct: 1   MIVCSPISTYARKVVYLSGCAQ-HMGSTIFNMVSNGQSTSCCFCSCRAHLSKSYARLSIS 59

Query: 59  RTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKM 118
           +T SS S+   Q         G  K   + + +T++    +RG  K+H  +SLA +++ M
Sbjct: 60  KTFSSPSVGTCQTSNKNFSGSGSAKQSGSWQSITVKGLFNTRGPLKKHFNLSLAYQNLNM 119

Query: 119 RLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSK-AHAEAADEKEDGEEDY 177
           R  +  +G+L K+K N G I W + CAS GLICGLLVCYSSS+   AEAA  ++D E++ 
Sbjct: 120 RFSLSKRGMLSKIKDNVGSISWAQECASTGLICGLLVCYSSSEPTRAEAAAREKDEEDNS 179

Query: 178 DLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRA 237
           DLS VK+SHGK+VYTDYS+ GIPGDGRCLFR+VAHGA LR GKPAPS S+QRELADDLRA
Sbjct: 180 DLSYVKFSHGKRVYTDYSITGIPGDGRCLFRSVAHGASLRTGKPAPSESLQRELADDLRA 239

Query: 238 KVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDA 297
           +VADEFI+RR+ETEWFIEGDFD YV+Q+RKPHVWGGEPEL MASHVL+MPITVYM+D++A
Sbjct: 240 RVADEFIRRRQETEWFIEGDFDTYVAQMRKPHVWGGEPELFMASHVLKMPITVYMYDQNA 299

Query: 298 GGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGISKL 341
            GLISIAEYG+EYGK+ PIRVLYHGFGHYDALQ  G +GG  KL
Sbjct: 300 RGLISIAEYGEEYGKDNPIRVLYHGFGHYDALQIPGRKGGKPKL 343

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139840|ref|XP_002323302.1| predicted protein [Populus trichocarpa] gi|222867932|gb|EEF05063.1| predicted protein [Populus trichocarpa]

 Score =  397 bits (1019), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 198/320 (61%), Positives = 242/320 (75%), Gaps = 4/320 (1%)

Query: 25  MGGNICGVTYRGPSSSCCF--YLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLT 82
           MG  I  V   G ++SCCF  Y    +S  +   +S+T S  S++  Q  Q+ CF   LT
Sbjct: 1   MGSTILNVVSGGQTTSCCFSSYPGLSRSSYSRLSVSKTFSCPSIS-YQTIQSNCFGSVLT 59

Query: 83  KPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPK 142
           K R +L+  +++  + SRG  KR   ISL C+ M +R  V  QGVL K+  N G I W +
Sbjct: 60  KQRADLQSFSVKGVVRSRGPLKRQFNISLPCQIMNLRFSVSKQGVLSKINDNTGSISWSQ 119

Query: 143 GCASAGLICGLLVCYSSSK-AHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPG 201
           G  + G+I GLLVCYSSS+  HAEAA  K + E++ +LS++K+SHGK+VY DYS+IGIPG
Sbjct: 120 GYPTTGIIFGLLVCYSSSEPTHAEAATHKNEEEDNCNLSDIKFSHGKEVYRDYSIIGIPG 179

Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
           DGRCLFR+VAHGAC+R+GKPAPS ++QRELADDLR+KVADEFIKRREETEWFIEG+FD Y
Sbjct: 180 DGRCLFRSVAHGACIRSGKPAPSENLQRELADDLRSKVADEFIKRREETEWFIEGNFDTY 239

Query: 262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYH 321
           VS+IRKPHVWGGEPELLMASHVL+MPITVYM DK++GGLISIAEYGQEYGKE PIR++YH
Sbjct: 240 VSRIRKPHVWGGEPELLMASHVLKMPITVYMDDKNSGGLISIAEYGQEYGKEDPIRIIYH 299

Query: 322 GFGHYDALQNLGHEGGISKL 341
           GFGHYDALQ     GG SKL
Sbjct: 300 GFGHYDALQFPRTRGGKSKL 319

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147779061|emb|CAN60311.1| hypothetical protein VITISV_002512 [Vitis vinifera]

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 188/268 (70%), Positives = 222/268 (82%), Gaps = 5/268 (1%)

Query: 75  TCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLN 134
           +CF  GL+K R + R LT++S IGSRG  KR + ISL C++M +RLLVP QGVLPK+K N
Sbjct: 543 SCFYSGLSKRRGSSRSLTVKSLIGSRGPSKRSLNISLTCQNMNVRLLVPKQGVLPKIKCN 602

Query: 135 AGPIDWPKGCASAGLICGLLVCYSSSK-AHAEAADEKEDGEEDYDLSNVKYSHGKKVYTD 193
            G + WP+GCASAGL+  LLVCYSSS+  HAE+A +KED + +   +    SHGKKVYTD
Sbjct: 603 VGSVSWPQGCASAGLMFALLVCYSSSEPVHAESAQKKEDKKGECYTN----SHGKKVYTD 658

Query: 194 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWF 253
           YS+ GIPGDGRCLFR+V HGACLR+GKPAPS S QRELAD+LRA+V DEFI+RR ETEWF
Sbjct: 659 YSITGIPGDGRCLFRSVVHGACLRSGKPAPSASCQRELADELRAEVVDEFIRRRSETEWF 718

Query: 254 IEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKE 313
           IEGDFD YVSQ+RKPHVWGGEPEL MASHVL+MPITVYM+DKD+GGLI+IAEYGQEYGKE
Sbjct: 719 IEGDFDTYVSQMRKPHVWGGEPELFMASHVLQMPITVYMYDKDSGGLIAIAEYGQEYGKE 778

Query: 314 KPIRVLYHGFGHYDALQNLGHEGGISKL 341
            PIRVLYHGFGHY++LQ  G +G  S+L
Sbjct: 779 NPIRVLYHGFGHYESLQIPGKKGAKSRL 806

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363806736|ref|NP_001242273.1| uncharacterized protein LOC100810338 [Glycine max] gi|255645865|gb|ACU23423.1| unknown [Glycine max]

 Score =  368 bits (944), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 201/334 (60%), Positives = 240/334 (71%), Gaps = 10/334 (2%)

Query: 1   MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRT 60
           M +  S    + N V L GR    M  NI G+  +G S+S    L  G+S+ ++ G+S  
Sbjct: 1   MSICFSTSQSSINAVVLKGRTPLLMSSNIHGLWSQGISTSISSSLSPGKSEISHVGLSVC 60

Query: 61  ISSSSLNVL-QPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMR 119
              S   V+ Q  +        +K R N R      F  S   +KR+ EISLAC+++ MR
Sbjct: 61  TKLSCSTVMGQTIRGGFLGSCCSKQRGNPR------FFSSVVPRKRYHEISLACQTINMR 114

Query: 120 LLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVC-YSSSKAHAEAADEKEDGEEDYD 178
           LLVP Q ++ K+K N G + WP+GCAS GLI GLLVC  SS  AHAE+  E E+ ++D +
Sbjct: 115 LLVPKQNMMRKVKCNLGSVSWPRGCASVGLIFGLLVCNLSSEPAHAESHSENENRKDDCN 174

Query: 179 L--SNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLR 236
              SNVK  HGKKVYTDYSVIGIPGDGRCLFR+VA GACLR+GKP P+ SIQRELADDLR
Sbjct: 175 EYESNVKVLHGKKVYTDYSVIGIPGDGRCLFRSVARGACLRSGKPPPNESIQRELADDLR 234

Query: 237 AKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKD 296
           A+VADEFIKR+EETEWF+EGDFD YVSQIRKPHVWGGE EL +ASHVL+MPITVYM+DKD
Sbjct: 235 ARVADEFIKRKEETEWFVEGDFDTYVSQIRKPHVWGGESELFIASHVLQMPITVYMYDKD 294

Query: 297 AGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQ 330
           AGGLISIAEYGQ+YGKE PIRVLYHGFGHYDAL+
Sbjct: 295 AGGLISIAEYGQKYGKENPIRVLYHGFGHYDALE 328

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437605|ref|XP_004136582.1| PREDICTED: OTU domain-containing protein At3g57810-like [Cucumis sativus] gi|449522883|ref|XP_004168455.1| PREDICTED: OTU domain-containing protein At3g57810-like [Cucumis sativus]

 Score =  337 bits (865), Expect = 4e-90,   Method: Compositional matrix adjust.
 Identities = 186/339 (54%), Positives = 216/339 (63%), Gaps = 60/339 (17%)

Query: 6   SICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGIS-RTISSS 64
           SI  C +N V L    + QMG NIC V  R  S+SCC Y   G S+  YA  S  TISS 
Sbjct: 5   SISICTRNAVPLN--LRTQMGSNICTVLSRRTSTSCCSY---GISRPKYADQSVTTISSC 59

Query: 65  SLNVLQPFQAT-CFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVP 123
           S N  Q FQA  C S   ++   + +  T++  I   GS+ R +EISLAC+         
Sbjct: 60  SPNTSQRFQAGGCLSTCFSRRSIDFQAFTVKDLITDGGSRGRDVEISLACK--------- 110

Query: 124 SQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKAHAEAADEKEDGEEDYDLSNVK 183
                                                      A EK+D EE+ D S+VK
Sbjct: 111 -------------------------------------------AYEKDDNEENSDSSHVK 127

Query: 184 YSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEF 243
            SHGKKVYTDYSVIGIPGDGRCLFR+VAHGACLR+GKPAPS S+QR+LAD+LR+ VADEF
Sbjct: 128 LSHGKKVYTDYSVIGIPGDGRCLFRSVAHGACLRSGKPAPSESLQRDLADELRSNVADEF 187

Query: 244 IKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISI 303
           IKRREETEWF+EGDFD Y+S +R PHVWGGEPEL MASHVL+ PI VYM+DKD+GGLISI
Sbjct: 188 IKRREETEWFVEGDFDTYMSNMRNPHVWGGEPELFMASHVLQAPIIVYMYDKDSGGLISI 247

Query: 304 AEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEG-GISKL 341
           AEYG EYGKE PIRVLYHGFGHYDALQ   ++G G SKL
Sbjct: 248 AEYGDEYGKENPIRVLYHGFGHYDALQIPANQGVGRSKL 286

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224120200|ref|XP_002330989.1| predicted protein [Populus trichocarpa] gi|222872919|gb|EEF10050.1| predicted protein [Populus trichocarpa]

 Score =  322 bits (824), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 152/216 (70%), Positives = 180/216 (83%), Gaps = 1/216 (0%)

Query: 116 MKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSK-AHAEAADEKEDGE 174
           M +R  V  +G+L K+K N G +   +   + G+  GLLVCYSSS+  HAE+A  K   E
Sbjct: 1   MALRFSVSKRGLLAKIKGNVGSVSCSQRHTTTGIFFGLLVCYSSSEPTHAESATRKNKEE 60

Query: 175 EDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADD 234
           +  + S++K+SHGK+VYTDYS+IG+PGDGRCLFR+VAHGACLR GK APS S+QRELADD
Sbjct: 61  DICNSSDIKFSHGKEVYTDYSIIGVPGDGRCLFRSVAHGACLRFGKRAPSESLQRELADD 120

Query: 235 LRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHD 294
           LR+ VADEFIKRRE+TEWFIEG+FD YVSQ+RKPHVWGGEPELLMASHVL+MPITVYMHD
Sbjct: 121 LRSNVADEFIKRREDTEWFIEGNFDTYVSQMRKPHVWGGEPELLMASHVLKMPITVYMHD 180

Query: 295 KDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQ 330
           K+A GLISIAEYGQEYG E PIRV+Y+GFGHYDALQ
Sbjct: 181 KNARGLISIAEYGQEYGVENPIRVIYNGFGHYDALQ 216

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297817112|ref|XP_002876439.1| hypothetical protein ARALYDRAFT_486235 [Arabidopsis lyrata subsp. lyrata] gi|297322277|gb|EFH52698.1| hypothetical protein ARALYDRAFT_486235 [Arabidopsis lyrata subsp. lyrata]

 Score =  309 bits (791), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 170/343 (49%), Positives = 218/343 (63%), Gaps = 41/343 (11%)

Query: 1   MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRT 60
           MI  + I  C++N +N+    +G +G ++ GV  +G     C  L  G S+++Y G   +
Sbjct: 2   MICYSPITTCSRNAINI----KGHLGTHLYGVVAQGSYKFSCHSLLLGLSRRHYTGFRVS 57

Query: 61  ISSSSLNVLQPFQATCFSPGLTKPRC--NLRPLTIRSFIGSRGSQKRHIEISLACRSMKM 118
           +S+                   +P    + R L  RS +G     K  +E+S      KM
Sbjct: 58  VSN-------------------RPSSWHDKRLLINRSTVGP----KEKLEVSFLSPDAKM 94

Query: 119 RLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSK--AHAEAADEKEDGEED 176
           +          K++ N   + W    A  G+I  LLVCYSS+   A+A+A+ +K+     
Sbjct: 95  KC--------SKIESNMRNLYWYSRFAYTGVIVSLLVCYSSTSQSAYADASRDKDANNVH 146

Query: 177 YDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLR 236
              S+ K+ +GK+VYTDYS+IGIPGDGRCLFR+VAHG CLR+GK AP   +QRELAD+LR
Sbjct: 147 NHSSHGKFHNGKRVYTDYSIIGIPGDGRCLFRSVAHGFCLRSGKLAPGEKMQRELADELR 206

Query: 237 AKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKD 296
            KVADEFIKRR+ETEWF+EGDFD YV QIR+PHVWGGEPEL +ASHVL+MPITVYM D+ 
Sbjct: 207 TKVADEFIKRRQETEWFVEGDFDSYVRQIREPHVWGGEPELFIASHVLQMPITVYMKDEK 266

Query: 297 AGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGIS 339
           AGGLISIAEYGQEYGK+ PIRVLYHGFGHYDAL  L HE   S
Sbjct: 267 AGGLISIAEYGQEYGKDDPIRVLYHGFGHYDAL--LIHESKAS 307

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30694718|ref|NP_850716.1| Cysteine proteinases-like protein [Arabidopsis thaliana] gi|145332883|ref|NP_001078307.1| Cysteine proteinases-like protein [Arabidopsis thaliana] gi|75155093|sp|Q8LBZ4.1|OTU_ARATH RecName: Full=OTU domain-containing protein At3g57810 gi|21555880|gb|AAM63953.1| unknown [Arabidopsis thaliana] gi|109946583|gb|ABG48470.1| At3g57810 [Arabidopsis thaliana] gi|332646184|gb|AEE79705.1| Cysteine proteinases-like protein [Arabidopsis thaliana] gi|332646185|gb|AEE79706.1| Cysteine proteinases-like protein [Arabidopsis thaliana] gi|407078834|gb|AFS88948.1| deubiquitinating enzyme OTU4 isoform ia [Arabidopsis thaliana]

 Score =  300 bits (769), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 165/341 (48%), Positives = 215/341 (63%), Gaps = 33/341 (9%)

Query: 1   MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRT 60
           MI  + I  C++N +++    +  +G  + GV   G S   C+ L SG S+++Y G   +
Sbjct: 2   MICYSPITTCSRNAISI----KRHLGSRLYGVVAHGSSKFSCYSLLSGLSRRHYTGFRVS 57

Query: 61  ISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRL 120
           +S+      +P  ++    GL       RP           + K  +E+S       M+ 
Sbjct: 58  VSN------RP--SSWHDKGLFGSVLINRPTV---------APKEKLEVSFLSPEANMKC 100

Query: 121 LVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSK--AHAEAADEKEDGEEDYD 178
                    K++ N   +      A  G+I  LLVCYSS+   A+A+++ +K+     + 
Sbjct: 101 --------SKIESNMRNLYCYSRFAYTGVIVSLLVCYSSTSQSAYADSSRDKDANNVHHH 152

Query: 179 LSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAK 238
            S+ K+ +GK+VYTDYS+IGIPGDGRCLFR+VAHG CLR+GK AP   +QRELAD+LR +
Sbjct: 153 SSDGKFHNGKRVYTDYSIIGIPGDGRCLFRSVAHGFCLRSGKLAPGEKMQRELADELRTR 212

Query: 239 VADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAG 298
           VADEFI+RR+ETEWF+EGDFD YV QIR PHVWGGEPEL MASHVL+MPITVYM D  AG
Sbjct: 213 VADEFIQRRQETEWFVEGDFDTYVRQIRDPHVWGGEPELFMASHVLQMPITVYMKDDKAG 272

Query: 299 GLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGIS 339
           GLISIAEYGQEYGK+ PIRVLYHGFGHYDAL  L HE   S
Sbjct: 273 GLISIAEYGQEYGKDDPIRVLYHGFGHYDAL--LLHESKAS 311

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297739716|emb|CBI29898.3| unnamed protein product [Vitis vinifera]

 Score =  296 bits (757), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 143/193 (74%), Positives = 165/193 (85%), Gaps = 5/193 (2%)

Query: 150 ICGLLVCYSSSK-AHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFR 208
           +  LLVCYSSS+  HAE+A +KED + +   +    SHGKKVYTDYS+ GIPGDGRCLFR
Sbjct: 1   MFALLVCYSSSEPVHAESAQKKEDKKGECYTN----SHGKKVYTDYSITGIPGDGRCLFR 56

Query: 209 AVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKP 268
           +V HGACLR+GKPAPS S QRELAD+LRA+V DEFI+RR ETEWFIEGDFD YVSQ+RKP
Sbjct: 57  SVVHGACLRSGKPAPSASCQRELADELRAEVVDEFIRRRSETEWFIEGDFDTYVSQMRKP 116

Query: 269 HVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDA 328
           HVWGGEPEL MASHVL+MPITVYM+DKD+GGLI+IAEYGQEYGKE PIRVLYHGFGHY++
Sbjct: 117 HVWGGEPELFMASHVLQMPITVYMYDKDSGGLIAIAEYGQEYGKENPIRVLYHGFGHYES 176

Query: 329 LQNLGHEGGISKL 341
           LQ  G +G  S+L
Sbjct: 177 LQIPGKKGAKSRL 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	341
TAIR|locus:2095748	317	AT3G57810 "AT3G57810" [Arabido	0.565	0.608	0.675	1.1e-74
TAIR|locus:504955906	234	AT2G38025 "AT2G38025" [Arabido	0.439	0.641	0.344	6.3e-15
ZFIN|ZDB-GENE-040426-974	293	otud6b "OTU domain containing	0.369	0.430	0.304	2.6e-07
MGI|MGI:1919451	294	Otud6b "OTU domain containing	0.366	0.425	0.288	2.4e-05
CGD|CAL0002605	323	orf19.1959 [Candida albicans (	0.375	0.396	0.283	0.00014
MGI|MGI:3644685	290	Otud6a "OTU domain containing	0.381	0.448	0.298	0.00019
UNIPROTKB|Q96G74	571	OTUD5 "OTU domain-containing p	0.348	0.208	0.259	0.00028
TAIR|locus:2099172	332	AT3G62940 [Arabidopsis thalian	0.378	0.388	0.295	0.00033
DICTYBASE|DDB_G0285907	537	DDB_G0285907 "OTU domain conta	0.340	0.216	0.305	0.00033
DICTYBASE|DDB_G0267906	438	DDB_G0267906 "OTU domain conta	0.351	0.273	0.270	0.00041

TAIR|locus:2095748 AT3G57810 "AT3G57810" [Arabidopsis thaliana (taxid:3702)]

 Score = 685 (246.2 bits), Expect = 1.1e-74, Sum P(2) = 1.1e-74
 Identities = 133/197 (67%), Positives = 150/197 (76%)

Query:   145 ASAGLICGLLVCYSSSKXXXXXXXXXXXXXXXXX--LSNVKYSHGKKVYTDYSVIGIPGD 202
             A  G+I  LLVCYSS+                     S+ K+ +GK+VYTDYS+IGIPGD
Sbjct:   117 AYTGVIVSLLVCYSSTSQSAYADSSRDKDANNVHHHSSDGKFHNGKRVYTDYSIIGIPGD 176

Query:   203 GRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYV 262
             GRCLFR+VAHG CLR+GK AP   +QRELAD+LR +VADEFI+RR+ETEWF+EGDFD YV
Sbjct:   177 GRCLFRSVAHGFCLRSGKLAPGEKMQRELADELRTRVADEFIQRRQETEWFVEGDFDTYV 236

Query:   263 SQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHG 322
              QIR PHVWGGEPEL MASHVL+MPITVYM D  AGGLISIAEYGQEYGK+ PIRVLYHG
Sbjct:   237 RQIRDPHVWGGEPELFMASHVLQMPITVYMKDDKAGGLISIAEYGQEYGKDDPIRVLYHG 296

Query:   323 FGHYDALQNLGHEGGIS 339
             FGHYDAL  L HE   S
Sbjct:   297 FGHYDAL--LLHESKAS 311

GO:0008150 "biological_process" evidence=ND

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

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:504955906 AT2G38025 "AT2G38025" [Arabidopsis thaliana (taxid:3702)]

 Score = 192 (72.6 bits), Expect = 6.3e-15, P = 6.3e-15
 Identities = 60/174 (34%), Positives = 84/174 (48%)

Query:   180 SNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKV 239
             S++  S   K    Y+V  + GDGRCLFRA+  G     G    +   +R+ AD+LR  V
Sbjct:    62 SSMNRSPAAKKVEKYAVDRVKGDGRCLFRALVKGMAFNKGITL-NPQRERDDADELRMAV 120

Query:   240 ADEFIKRREETEWFIEG------DFDL--YVSQIRKPHVWGGEPELLMASHVLRMPITVY 291
              +      +E E + E       D  L  +  +I +   WGGE ELL+ S + + PI VY
Sbjct:   121 KEVICNDPKEREKYKEALVAITVDESLKRFCQRIGRHDFWGGESELLVLSKLCKQPIIVY 180

Query:   292 M----HDKDAG---GLISIAEYGQEY----GKEKP----IRVLYHGFGHYDALQ 330
             +    H +  G   G I I EYG E+    GK K     +R+LY G  HYD L+
Sbjct:   181 IPEHEHGRGGGYGPGFIPIQEYGSEFRGGWGKGKTNKNVVRLLYSGRNHYDLLR 234

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-040426-974 otud6b "OTU domain containing 6B" [Danio rerio (taxid:7955)]

 Score = 142 (55.0 bits), Expect = 2.6e-07, P = 2.6e-07
 Identities = 43/141 (30%), Positives = 68/141 (48%)

Query:   199 IPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVAD--EFIKRREETEWFIEG 256
             I  DG C++RAV H    R G       ++ + A  +R+   D   F+      + +   
Sbjct:   152 ISSDGHCMYRAVEHQLTER-GLALGLKELRDQTAQYMRSHADDFMPFLTNPNTGDMYTAE 210

Query:   257 DFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPI 316
             +F+ Y S +     WGG+ EL   S VL++PI V   D      I+I   G+EY K K I
Sbjct:   211 EFEKYCSDVADTAAWGGQLELKALSQVLQLPIEVIQADSPC---ITI---GEEYDKPK-I 263

Query:   317 RVLY--HGFG---HYDALQNL 332
              ++Y  H +G   HY++++ L
Sbjct:   264 TLIYMRHAYGLGEHYNSVEPL 284

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

MGI|MGI:1919451 Otud6b "OTU domain containing 6B" [Mus musculus (taxid:10090)]

 Score = 125 (49.1 bits), Expect = 2.4e-05, P = 2.4e-05
 Identities = 41/142 (28%), Positives = 69/142 (48%)

Query:   199 IPGDGRCLFRAVAHGACLRAGKPAPSV-SIQRELADDLRAKVAD--EFIKRREETEWFIE 255
             IP DG C++ A+     LR    A +V S++R+ A+ ++    D   F+      + +  
Sbjct:   153 IPSDGHCMYGALEDQ--LREQDCALTVASLRRQTAEYMQTHSDDFLPFLTNPSTGDMYTP 210

Query:   256 GDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKP 315
              +F  Y   I     WGG+ EL   SH+L+ PI +     DA  +I     G+EY +  P
Sbjct:   211 EEFGKYCDDIVNTAAWGGQLELRALSHILQTPIEILQ--ADAPPII----VGEEYPRN-P 263

Query:   316 IRVLY--HGFG---HYDALQNL 332
             + ++Y  H +G   HY+++  L
Sbjct:   264 LVLVYMRHAYGLGEHYNSVTRL 285

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

CGD|CAL0002605 orf19.1959 [Candida albicans (taxid:5476)]

 Score = 119 (46.9 bits), Expect = 0.00014, P = 0.00014
 Identities = 42/148 (28%), Positives = 68/148 (45%)

Query:   199 IPGDGRCLFRAVAHGACLR----------AGKPAPSVSIQRELADDLRAKVADEFIKRRE 248
             I  DG CLF ++     +R            +  PS+   R+LA D      ++FI    
Sbjct:   182 IKPDGHCLFASIQDQLKVRHQDVEHLDHNGPEDVPSIDQLRKLAGDYIKSNQEDFIPFLI 241

Query:   249 ETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGG-LISIAEYG 307
             +       D D Y++++    +WG + E+L  S V   PI++YM    AG   ++I E+G
Sbjct:   242 DENTGELRDLDDYINELTTTAMWGSDMEILALSKVFNCPISIYM----AGASTLTINEHG 297

Query:   308 QEYGKEKPIRVLYHGFG---HYDALQNL 332
             Q    E  +    H FG   HY++L++L
Sbjct:   298 QL--PELKLGYYKHSFGLGEHYNSLRDL 323

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

GO:0005840 "ribosome" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0016579 "protein deubiquitination" evidence=IEA

MGI|MGI:3644685 Otud6a "OTU domain containing 6A" [Mus musculus (taxid:10090)]

 Score = 117 (46.2 bits), Expect = 0.00019, P = 0.00019
 Identities = 45/151 (29%), Positives = 69/151 (45%)

Query:   199 IPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVAD--EFIKRREETEWFIEG 256
             IP DG C++RA+               S++   A  +R  + D   F    E   ++   
Sbjct:   147 IPADGHCMYRAIQDQLVFSV----TIESLRYRTAYYMRKHIDDFLPFFTEPEAGNFYTRE 202

Query:   257 DFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPI 316
             DF  Y   I     WGG+ EL   SHVL+ PI V   +      I I   G+EY + KP+
Sbjct:   203 DFLRYCDDIVHNASWGGQLELRALSHVLQTPIEVVQANSPT---IVI---GEEYTR-KPV 255

Query:   317 RVLY-H---GFG-HYDALQNL---GHEGGIS 339
              ++Y H    FG HY++++ +   G  GG++
Sbjct:   256 TLVYLHYACDFGEHYNSVKPIEVAGAFGGMA 286

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q96G74 OTUD5 "OTU domain-containing protein 5" [Homo sapiens (taxid:9606)]

 Score = 120 (47.3 bits), Expect = 0.00028, P = 0.00028
 Identities = 34/131 (25%), Positives = 60/131 (45%)

Query:   202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
             DG CLFRAVA             V   +++ + +R    D  +K  +    ++  DF  Y
Sbjct:   221 DGACLFRAVAD-----------QVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTY 269

Query:   262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEY-GQEYGKEKPIRVLY 320
             +++ RK +  G   E+   + +   P+ VY +      +  I  + G    +++PIRV Y
Sbjct:   270 INRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSY 329

Query:   321 HGFGHYDALQN 331
             H   HY+++ N
Sbjct:   330 HRNIHYNSVVN 340

GO:0006508 "proteolysis" evidence=IEA

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

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

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

GO:0032496 "response to lipopolysaccharide" evidence=IDA

GO:0005829 "cytosol" evidence=TAS

GO:0032480 "negative regulation of type I interferon production" evidence=TAS

GO:0045087 "innate immune response" evidence=TAS

TAIR|locus:2099172 AT3G62940 [Arabidopsis thaliana (taxid:3702)]

 Score = 116 (45.9 bits), Expect = 0.00033, P = 0.00033
 Identities = 44/149 (29%), Positives = 66/149 (44%)

Query:   195 SVIGIPGDGRCLFRAVAHGACLRAGKPAP-SVSIQRELADDLRAKVADEFIKR-REETEW 252
             +V  I  DG CL+RAV +    R+G  +P +    RE+A     +   +F+     ETE 
Sbjct:   182 TVSEIKPDGHCLYRAVENQLANRSGGASPYTYQNLREMAASYMREHKTDFLPFFLSETEG 241

Query:   253 -----FIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYG 307
                    E  F+ Y  ++     WG + EL   +H LR  I VY       G     E G
Sbjct:   242 DSNSGSAEERFEKYCREVESTAAWGSQLELGALTHCLRKHIKVY------SGSFPDVEMG 295

Query:   308 QEY--GKEKPIRVLYH--GFG---HYDAL 329
             +EY  G +  + + YH   FG   HY+++
Sbjct:   296 KEYRSGDDSSLMLSYHRHAFGLGEHYNSV 324

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

GO:0005829 "cytosol" evidence=IDA

GO:0006606 "protein import into nucleus" evidence=RCA

DICTYBASE|DDB_G0285907 DDB_G0285907 "OTU domain containin protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 119 (46.9 bits), Expect = 0.00033, P = 0.00033
 Identities = 41/134 (30%), Positives = 62/134 (46%)

Query:   202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
             DG CLFR+VA             +   +E+ + +R K  D     R+    FI  DF  Y
Sbjct:   229 DGNCLFRSVAD-----------QIYGDQEMHNTVREKCMDYMEAERDHFSQFITEDFADY 277

Query:   262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLY- 320
             +++ R   V+G   E+   + +   PI VY    D    I+I  +G  Y    PIR+ Y 
Sbjct:   278 IARKRTDKVFGNNTEMQAMAELFNRPIEVYSKTIDP---INIF-HGS-YKGNYPIRLSYL 332

Query:   321 HGFGHYDALQNLGH 334
             HG  HYD++ +L +
Sbjct:   333 HG-NHYDSIYDLNN 345

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

DICTYBASE|DDB_G0267906 DDB_G0267906 "OTU domain containin protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 117 (46.2 bits), Expect = 0.00041, P = 0.00041
 Identities = 36/133 (27%), Positives = 64/133 (48%)

Query:   199 IPGDGRCLFRAVAHGACLRAGKPAPSVSIQ-RELADDLRAKVADEFIKRREETEWFIEGD 257
             + GDG CLFR++A        + AP+   + RE       K  D F    ++ E+     
Sbjct:    69 VAGDGNCLFRSIADQL-----QDAPNEHRKYREAICKYIEKNKDMFAPFIDDEEF---ES 120

Query:   258 FDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIR 317
             F+ Y+ ++R+   WGG  E+  AS    + IT++  D+    +++   +  E  K K I 
Sbjct:   121 FEEYIQEMREDATWGGHVEIQAASLAYNVNITIHQMDQPRWEIVN--HFPPE--KNKTIH 176

Query:   318 VLYHGFGHYDALQ 330
             + YH   HY++++
Sbjct:   177 LSYHNDEHYNSVR 189

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

---

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)
Q8LBZ4	OTU_ARATH	No assigned EC number	0.4838	0.9032	0.9716	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

No EC number assignment, probably not an enzyme!

---

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	341
pfam02338	123	pfam02338, OTU, OTU-like cysteine protease	8e-26
COG5539	306	COG5539, COG5539, Predicted cysteine protease (OTU	2e-05

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

 Score = 99.5 bits (248), Expect = 8e-26
 Identities = 44/132 (33%), Positives = 58/132 (43%), Gaps = 14/132 (10%)

Query: 200 PGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFD 259
           PGDG CLF AV+        +         EL D+LR  V +   + RE+ E F+E D +
Sbjct: 1   PGDGNCLFHAVSDQLGDAGRQ---------ELHDELREAVVEYLRENREDFEKFLEEDEN 51

Query: 260 LYVSQIRKPHVWGGEPELLMASHVLRMPITVYM-HDKDAGGLISIAEYGQEYGKEKPIRV 318
            Y   I K   WGG  E+   +H+LR+PI VY          I I        K+  IR+
Sbjct: 52  EYYKWISKDGAWGGNIEIFALAHILRVPIIVYKLQGGRITVYIKIYGTYLPLNKKPVIRL 111

Query: 319 LYHGF----GHY 326
            Y G      HY
Sbjct: 112 SYLGLEYTGNHY 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

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

 Score = 45.2 bits (107), Expect = 2e-05
 Identities = 23/134 (17%), Positives = 43/134 (32%), Gaps = 4/134 (2%)

Query: 199 IPGDGRCLFRAVAHGACLR-AGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGD 257
             GDG      ++    +R         S  R  +     +++  F     + E      
Sbjct: 176 SQGDGCIEIAIISDQLPVRIHVVDVDKDSEDRYNSHPYVQRISILFTGIHFDEETLAMVL 235

Query: 258 FDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIR 317
           +D YV+++      G   E+   + +L+ P         A   I     G  +  EK   
Sbjct: 236 WDTYVNEVLFDASDGITIEIQQLASLLKNPHYYTN---TASPSIKCNICGTGFVGEKDYY 292

Query: 318 VLYHGFGHYDALQN 331
                 GHY+  ++
Sbjct: 293 AHALATGHYNFGED 306

Length = 306

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	341
KOG2606	302	consensus OTU (ovarian tumor)-like cysteine protea	99.97
PF02338	121	OTU: OTU-like cysteine protease; InterPro: IPR0033	99.9
KOG3288	307	consensus OTU-like cysteine protease [Signal trans	99.76
PF10275	244	Peptidase_C65: Peptidase C65 Otubain; InterPro: IP	99.5
KOG2605	371	consensus OTU (ovarian tumor)-like cysteine protea	99.36
KOG3991	256	consensus Uncharacterized conserved protein [Funct	99.26
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	98.86
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	98.7
PF05415	104	Peptidase_C36: Beet necrotic yellow vein furovirus	90.08

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

Probab=99.97  E-value=7.9e-35  Score=277.41  Aligned_cols=292  Identities=27%  Similarity=0.316  Sum_probs=207.1

Q ss_pred             CeeeccccccccceEEeccccccccccceeeeeecCCCceeeeecccCcccccccceeEEeecCCccccccccccccccc
Q 019389            1 MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPG   80 (341)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (341)
                      |++..++..|.+|...|.    +|-+.+-......+..+..|.+.. ++.|+.|.+....++.   -+-|++++++++..
T Consensus         2 ~~~~~~~~~~~~~e~iLa----RHr~E~keLq~ki~~mKk~a~k~~-k~~rK~~~~~~~~le~---el~qkH~kEL~~~~   73 (302)
T KOG2606|consen    2 MTCMDSEQDEESNEEILA----RHRRERKELQAKITSMKKAAPKGN-KKKRKELTEDIAKLEK---ELSQKHKKELEKLK   73 (302)
T ss_pred             cCCccchhhhhhHHHHHH----HHHHHHHHHHHHHHHHHHhhhhcc-HHHHHHHHHHHHHHHh---HHHHHHHHHHHhhc
Confidence            678888999999999898    999999999999999999998887 8999999985555544   24579999999999


Q ss_pred             cccCCCCCCCcceeeeeecccccccccccccccccceeeeccccCCccccccCCccccccCCCCCcccceeeeeeccCch
Q 019389           81 LTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSS  160 (341)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~l~~k~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (341)
                      +...              +...++....-|+..+..+|.++-  .+.-+.. .|.+.-|-.-+-.-.....-.+++.++.
T Consensus        74 ~~~~--------------~e~~~~e~~~~s~l~~~a~~~~~~--~ee~P~~-sKa~k~r~k~r~e~r~~e~~~~~e~~~~  136 (302)
T KOG2606|consen   74 LINE--------------SEVTPKENLIESVLSPIANMSLEN--KEETPRQ-SKARKRREKKRKEERKREAEKIAEEESL  136 (302)
T ss_pred             ccCc--------------cccCccccchhhhhcccccccccc--cccCCcc-cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9887              356777778889999999977553  1100000 0111111111111122111223332221


Q ss_pred             hhhhhhcccccCCCCCcccccccccccccccCCcEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHH
Q 019389          161 KAHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVA  240 (341)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~gL~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vv  240 (341)
                      .   -.+..+       ..+..+ ....--..||.+++||+||+|||+||+|||..+++...+.+.||...+++||.++.
T Consensus       137 ~---~~~~~k-------~~E~~k-~~~il~~~~l~~~~Ip~DG~ClY~aI~hQL~~~~~~~~~v~kLR~~~a~Ymr~H~~  205 (302)
T KOG2606|consen  137 S---NQADAK-------SMEKEK-LAQILEERGLKMFDIPADGHCLYAAISHQLKLRSGKLLSVQKLREETADYMREHVE  205 (302)
T ss_pred             h---cCCchh-------hhHHHH-HHHHHHhccCccccCCCCchhhHHHHHHHHHhccCCCCcHHHHHHHHHHHHHHHHH
Confidence            0   001110       011111 12222336889999999999999999999999887777777777777777777776


Q ss_pred             HHhhcChhhhcccccc--CHHHHHHHHhCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEE
Q 019389          241 DEFIKRREETEWFIEG--DFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRV  318 (341)
Q Consensus       241 dy~~~n~e~fe~Fie~--dfdeY~~~M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L  318 (341)
                      |++--..+..++++.+  +|++||++|++++.|||++||.|+|++|++||.||+.+    ++  +.+||++|.+++||+|
T Consensus       206 df~pf~~~eet~d~~~~~~f~~Yc~eI~~t~~WGgelEL~AlShvL~~PI~Vy~~~----~p--~~~~geey~kd~pL~l  279 (302)
T KOG2606|consen  206 DFLPFLLDEETGDSLGPEDFDKYCREIRNTAAWGGELELKALSHVLQVPIEVYQAD----GP--ILEYGEEYGKDKPLIL  279 (302)
T ss_pred             HhhhHhcCccccccCCHHHHHHHHHHhhhhccccchHHHHHHHHhhccCeEEeecC----CC--ceeechhhCCCCCeee
Confidence            6544334444555543  79999999999999999999999999999999999975    33  5789999987899999


Q ss_pred             EEc----CCC-cceeeecCCC
Q 019389          319 LYH----GFG-HYDALQNLGH  334 (341)
Q Consensus       319 ~Yh----g~g-HYDSL~~~~~  334 (341)
                      +||    ++| ||||+.+...
T Consensus       280 vY~rH~y~LGeHYNS~~~~~n  300 (302)
T KOG2606|consen  280 VYHRHAYGLGEHYNSVTPLKN  300 (302)
T ss_pred             ehHHhHHHHHhhhcccccccc
Confidence            996    445 9999987654

>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=99.90  E-value=7.3e-24  Score=175.03  Aligned_cols=112  Identities=39%  Similarity=0.689  Sum_probs=88.2

Q ss_pred             CCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhh-cChhhhccccccCHHHHHHHHhCCCCcCCHHHHH
Q 019389          200 PGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFI-KRREETEWFIEGDFDLYVSQIRKPHVWGGEPELL  278 (341)
Q Consensus       200 pGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~-~n~e~fe~Fie~dfdeY~~~M~k~gtWGG~iEL~  278 (341)
                      ||||||||||||+||+...+.       .+..|.+||+++++||. .+++.|++|++++      +|+++++|||++||+
T Consensus         1 pgDGnClF~Avs~~l~~~~~~-------~~~~~~~lR~~~~~~l~~~~~~~~~~~~~~~------~~~~~~~Wg~~~el~   67 (121)
T PF02338_consen    1 PGDGNCLFRAVSDQLYGDGGG-------SEDNHQELRKAVVDYLRDKNRDKFEEFLEGD------KMSKPGTWGGEIELQ   67 (121)
T ss_dssp             -SSTTHHHHHHHHHHCTT-SS-------STTTHHHHHHHHHHHHHTHTTTHHHHHHHHH------HHTSTTSHEEHHHHH
T ss_pred             CCCccHHHHHHHHHHHHhcCC-------CHHHHHHHHHHHHHHHHHhccchhhhhhhhh------hhccccccCcHHHHH
Confidence            799999999999999954311       14578999999999999 9999999998766      899999999999999


Q ss_pred             HHHHhcCCCEEEEeecCCCCCceEEEEcCC---CCCCCCeEEEEEcC-----CCcc
Q 019389          279 MASHVLRMPITVYMHDKDAGGLISIAEYGQ---EYGKEKPIRVLYHG-----FGHY  326 (341)
Q Consensus       279 AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~---e~~~~~pI~L~Yhg-----~gHY  326 (341)
                      |+|++|+++|+||+...  +......++..   .....++|.++|++     .+||
T Consensus        68 a~a~~~~~~I~v~~~~~--~~~~~~~~~~~~~~~~~~~~~i~l~~~~~l~~~~~Hy  121 (121)
T PF02338_consen   68 ALANVLNRPIIVYSSSD--GDNVVFIKFTGKYPPLESPPPICLCYHGHLYYTGNHY  121 (121)
T ss_dssp             HHHHHHTSEEEEECETT--TBEEEEEEESCEESTTTTTTSEEEEEETEEEEETTEE
T ss_pred             HHHHHhCCeEEEEEcCC--CCccceeeecCccccCCCCCeEEEEEcCCccCCCCCC
Confidence            99999999999998632  22222223222   22346899999997     6798

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 ....

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

Probab=99.76  E-value=9e-19  Score=165.27  Aligned_cols=126  Identities=25%  Similarity=0.384  Sum_probs=110.1

Q ss_pred             CcEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhh-ccccccCHHHHHHHHhCCCCc
Q 019389          193 DYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREET-EWFIEGDFDLYVSQIRKPHVW  271 (341)
Q Consensus       193 gL~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~f-e~Fie~dfdeY~~~M~k~gtW  271 (341)
                      -+.++.||.|++|||+||++.+....+.          -..+||+.++..+..|++.| +++++..-.|||+||+++..|
T Consensus       109 vl~~~vvp~DNSCLF~ai~yv~~k~~~~----------~~~elR~iiA~~Vasnp~~yn~AiLgK~n~eYc~WI~k~dsW  178 (307)
T KOG3288|consen  109 VLSRRVVPDDNSCLFTAIAYVIFKQVSN----------RPYELREIIAQEVASNPDKYNDAILGKPNKEYCAWILKMDSW  178 (307)
T ss_pred             eeEEEeccCCcchhhhhhhhhhcCccCC----------CcHHHHHHHHHHHhcChhhhhHHHhCCCcHHHHHHHcccccc
Confidence            4788999999999999999988743221          12689999999999999987 688899999999999999999


Q ss_pred             CCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeeecCCC
Q 019389          272 GGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGH  334 (341)
Q Consensus       272 GG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Yhg~gHYDSL~~~~~  334 (341)
                      ||.+||..||+.|++.|.|++.+  +   ..|..||++.+....+.|+|.|. |||+|.+...
T Consensus       179 GGaIElsILS~~ygveI~vvDiq--t---~rid~fged~~~~~rv~llydGI-HYD~l~m~~~  235 (307)
T KOG3288|consen  179 GGAIELSILSDYYGVEICVVDIQ--T---VRIDRFGEDKNFDNRVLLLYDGI-HYDPLAMNEF  235 (307)
T ss_pred             CceEEeeeehhhhceeEEEEecc--e---eeehhcCCCCCCCceEEEEeccc-ccChhhhccC
Confidence            99999999999999999999764  2   35889998876788999999998 9999988765

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

Probab=99.50  E-value=2.4e-13  Score=126.81  Aligned_cols=99  Identities=23%  Similarity=0.347  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHHHhhcChhhhccccc----cCHHHHHH-HHhCCCCcCCHHHHHHHHHhcCCCEEEEeecCC-CCCceEEE
Q 019389          231 LADDLRAKVADEFIKRREETEWFIE----GDFDLYVS-QIRKPHVWGGEPELLMASHVLRMPITVYMHDKD-AGGLISIA  304 (341)
Q Consensus       231 ~h~eLR~~vvdy~~~n~e~fe~Fie----~dfdeY~~-~M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~-s~G~i~I~  304 (341)
                      ....+|-.+..||..|.++|++|++    .++++||+ .+...+.-++++.+.|||++|+++|.|+..|++ ++..+...
T Consensus       138 iV~flRLlts~~l~~~~d~y~~fi~~~~~~tve~~C~~~Vep~~~Ead~v~i~ALa~aL~v~i~v~yld~~~~~~~~~~~  217 (244)
T PF10275_consen  138 IVIFLRLLTSAYLKSNSDEYEPFIDGLEYLTVEEFCSQEVEPMGKEADHVQIIALAQALGVPIRVEYLDRSVEGDEVNRH  217 (244)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHGGGSSTT--S-HHHHHHHHTSSTT--B-HHHHHHHHHHHT--EEEEESSSSGCSTTSEEE
T ss_pred             HHHHHHHHHHHHHHhhHHHHhhhhcccccCCHHHHHHhhcccccccchhHHHHHHHHHhCCeEEEEEecCCCCCCccccc
Confidence            4457888888899999999999997    56999995 688889999999999999999999999999975 44444455


Q ss_pred             EcCCCC-CCCCeEEEEEcCCCcceeee
Q 019389          305 EYGQEY-GKEKPIRVLYHGFGHYDALQ  330 (341)
Q Consensus       305 ~yG~e~-~~~~pI~L~Yhg~gHYDSL~  330 (341)
                      .+.++. ...+.|.|+|.. ||||.|+
T Consensus       218 ~~~~~~~~~~~~i~LLyrp-gHYdIly  243 (244)
T PF10275_consen  218 EFPPDNESQEPQITLLYRP-GHYDILY  243 (244)
T ss_dssp             EES-SSTTSS-SEEEEEET-BEEEEEE
T ss_pred             cCCCccCCCCCEEEEEEcC-Ccccccc
Confidence            564321 245789999997 5999986

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.

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

Probab=99.36  E-value=3.3e-13  Score=134.21  Aligned_cols=94  Identities=24%  Similarity=0.338  Sum_probs=84.1

Q ss_pred             ccCCcEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhccccccCHHHHHHHHhCCC
Q 019389          190 VYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPH  269 (341)
Q Consensus       190 ~~~gL~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe~Fie~dfdeY~~~M~k~g  269 (341)
                      ...|+.++.|.+||||+|||+|+|+|.+           ++.|+..|++++|++..+++.|+-|+.++|.+|+..+++++
T Consensus       214 ~~~g~e~~Kv~edGsC~fra~aDQvy~d-----------~e~~~~~~~~~~dq~~~e~~~~~~~vt~~~~~y~k~kr~~~  282 (371)
T KOG2605|consen  214 KHFGFEYKKVVEDGSCLFRALADQVYGD-----------DEQHDHNRRECVDQLKKERDFYEDYVTEDFTSYIKRKRADG  282 (371)
T ss_pred             HHhhhhhhhcccCCchhhhccHHHhhcC-----------HHHHHHHHHHHHHHHhhcccccccccccchhhcccccccCC
Confidence            4468999999999999999999999953           57899999999999999999999999999999999999999


Q ss_pred             CcCCHHHHHHHHH---hcCCCEEEEeec
Q 019389          270 VWGGEPELLMASH---VLRMPITVYMHD  294 (341)
Q Consensus       270 tWGG~iEL~AlS~---ll~~~I~Vy~~d  294 (341)
                      .||+++|+||+|.   ....++.+.+..
T Consensus       283 ~~gnhie~Qa~a~~~~~~~~~~~~~~~~  310 (371)
T KOG2605|consen  283 EPGNHIEQQAAADIYEEIEKPLNITSFK  310 (371)
T ss_pred             CCcchHHHhhhhhhhhhccccceeeccc
Confidence            9999999999995   556666666653

>KOG3991 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.26  E-value=2.2e-11  Score=114.07  Aligned_cols=99  Identities=19%  Similarity=0.261  Sum_probs=76.7

Q ss_pred             HHHHHHHHHHHHHhhcChhhhcccccc--CHHHHHHH-HhCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEc
Q 019389          230 ELADDLRAKVADEFIKRREETEWFIEG--DFDLYVSQ-IRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEY  306 (341)
Q Consensus       230 ~~h~eLR~~vvdy~~~n~e~fe~Fie~--dfdeY~~~-M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~y  306 (341)
                      ..+.++|--+..++..|++.|++|+++  +.++||.+ +.-..+=.|+++|.||++.+++.|.|...|+.+++...-..|
T Consensus       154 yiV~ylRLvtS~~ik~~adfy~pFI~e~~tV~~fC~~eVEPm~kesdhi~I~ALs~Al~i~irVey~dr~~~~~~~hH~f  233 (256)
T KOG3991|consen  154 YIVMYLRLVTSGFIKSNADFYQPFIDEGMTVKAFCTQEVEPMYKESDHIHITALSQALGIRIRVEYVDRGSGDTVNHHDF  233 (256)
T ss_pred             HHHHHHHHHHHHHHhhChhhhhccCCCCCcHHHHHHhhcchhhhccCceeHHHHHhhhCceEEEEEecCCCCCCCCCCcC
Confidence            345678888888888999999999976  69999985 444567799999999999999999998888776543211222


Q ss_pred             CCCCCCCCeEEEEEcCCCcceeeec
Q 019389          307 GQEYGKEKPIRVLYHGFGHYDALQN  331 (341)
Q Consensus       307 G~e~~~~~pI~L~Yhg~gHYDSL~~  331 (341)
                      -+  +..+.|.|+|.. ||||.|+.
T Consensus       234 pe--~s~P~I~LLYrp-GHYdilY~  255 (256)
T KOG3991|consen  234 PE--ASAPEIYLLYRP-GHYDILYK  255 (256)
T ss_pred             cc--ccCceEEEEecC-CccccccC
Confidence            21  346789999986 59999874

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

Probab=98.86  E-value=4.4e-10  Score=108.32  Aligned_cols=125  Identities=16%  Similarity=0.043  Sum_probs=85.1

Q ss_pred             CcEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhcccc--c-----cCHHHHHHHH
Q 019389          193 DYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFI--E-----GDFDLYVSQI  265 (341)
Q Consensus       193 gL~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe~Fi--e-----~dfdeY~~~M  265 (341)
                      .+.-.+++|||+|+|.+|++||..+.-    .-++.  ....+|-+-..|...+...|..+.  +     -.|++|+..|
T Consensus       170 ~i~k~d~~~dG~ieia~iS~~l~v~i~----~Vdv~--~~~~dr~~~~~~~q~~~i~f~g~hfD~~t~~m~~~dt~~ne~  243 (306)
T COG5539         170 WIVKPDSQGDGCIEIAIISDQLPVRIH----VVDVD--KDSEDRYNSHPYVQRISILFTGIHFDEETLAMVLWDTYVNEV  243 (306)
T ss_pred             hhhccccCCCceEEEeEeccccceeee----eeecc--hhHHhhccCChhhhhhhhhhcccccchhhhhcchHHHHHhhh
Confidence            455578999999999999999975421    11111  123445444455544556666553  1     2699999999


Q ss_pred             hCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEE--c--CCCcceeee
Q 019389          266 RKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLY--H--GFGHYDALQ  330 (341)
Q Consensus       266 ~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Y--h--g~gHYDSL~  330 (341)
                      +-+..||+.+|++|||++|++|+++++..    ++  ++.|+.= +.+-..-+.|  |  +.||||++.
T Consensus       244 ~~~a~~g~~~ei~qLas~lk~~~~~~nT~----~~--~ik~n~c-~~~~~~e~~~~~Ha~a~GH~n~~~  305 (306)
T COG5539         244 LFDASDGITIEIQQLASLLKNPHYYTNTA----SP--SIKCNIC-GTGFVGEKDYYAHALATGHYNFGE  305 (306)
T ss_pred             cccccccchHHHHHHHHHhcCceEEeecC----Cc--eEEeecc-ccccchhhHHHHHHHhhcCccccC
Confidence            99999999999999999999999999853    33  2344321 1222344455  4  567999874

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

Probab=98.70  E-value=5.2e-09  Score=100.98  Aligned_cols=114  Identities=28%  Similarity=0.266  Sum_probs=94.9

Q ss_pred             eeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhcccc-ccCHHHHHHHHhCCCCcC-CHH
Q 019389          198 GIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFI-EGDFDLYVSQIRKPHVWG-GEP  275 (341)
Q Consensus       198 ~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe~Fi-e~dfdeY~~~M~k~gtWG-G~i  275 (341)
                      +.-.|.+|+|+|.+..++.             ....+||+.+.-...+|++.|.+.+ +-+.-+|+.|+.++..|| |.+
T Consensus       116 p~~~d~srl~q~~~~~l~~-------------asv~~lrE~vs~Ev~snPDl~n~~i~~~~~i~y~~~i~k~d~~~dG~i  182 (306)
T COG5539         116 PGQDDNSRLFQAERYSLRD-------------ASVAKLREVVSLEVLSNPDLYNPAILEIDVIAYATWIVKPDSQGDGCI  182 (306)
T ss_pred             CCCCchHHHHHHHHhhhhh-------------hhHHHHHHHHHHHHhhCccccchhhcCcchHHHHHhhhccccCCCceE
Confidence            4446899999999988762             2578999999999999999998766 458999999999999999 999


Q ss_pred             HHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeeec
Q 019389          276 ELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQN  331 (341)
Q Consensus       276 EL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Yhg~gHYDSL~~  331 (341)
                      |+.++++.|++.|+|...+.+     ....|++.. ....+.+.|.|. |||....
T Consensus       183 eia~iS~~l~v~i~~Vdv~~~-----~~dr~~~~~-~~q~~~i~f~g~-hfD~~t~  231 (306)
T COG5539         183 EIAIISDQLPVRIHVVDVDKD-----SEDRYNSHP-YVQRISILFTGI-HFDEETL  231 (306)
T ss_pred             EEeEeccccceeeeeeecchh-----HHhhccCCh-hhhhhhhhhccc-ccchhhh
Confidence            999999999999999998743     245677653 336788999987 9998763

>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=90.08  E-value=1.1  Score=37.36  Aligned_cols=95  Identities=17%  Similarity=0.275  Sum_probs=55.5

Q ss_pred             eCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhccccccCHHHHHHHHhC--CCCcCCHHH
Q 019389          199 IPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRK--PHVWGGEPE  276 (341)
Q Consensus       199 IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe~Fie~dfdeY~~~M~k--~gtWGG~iE  276 (341)
                      +..|+|||--||+.+|.-.              -+.|...    |..+.        -..+.|+.|+++  |.+|-|   
T Consensus         3 ~sR~NNCLVVAis~~L~~T--------------~e~l~~~----M~An~--------~~i~~y~~W~r~~~~STW~D---   53 (104)
T PF05415_consen    3 ASRPNNCLVVAISECLGVT--------------LEKLDNL----MQANV--------STIKKYHTWLRKKRPSTWDD---   53 (104)
T ss_pred             ccCCCCeEeehHHHHhcch--------------HHHHHHH----HHhhH--------HHHHHHHHHHhcCCCCcHHH---
Confidence            5679999999999987521              1111111    11121        146778887765  678954   


Q ss_pred             HHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEE----cCCCccee
Q 019389          277 LLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLY----HGFGHYDA  328 (341)
Q Consensus       277 L~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Y----hg~gHYDS  328 (341)
                      ..++|+.+++.|+|--....  + ..+..+++..   ....++|    .+.|||-+
T Consensus        54 C~mFA~~LkVsm~vkV~~~~--~-~~l~~~~d~~---~s~v~~~~~~Ke~dGHF~a  103 (104)
T PF05415_consen   54 CRMFADALKVSMQVKVLSDK--P-YDLLYFVDGA---VSVVTLHLEGKESDGHFIA  103 (104)
T ss_pred             HHHHHHhheeEEEEEEcCCC--C-ceeeEeecCc---cceehhhhhccccCCceec
Confidence            56899999999888543322  2 2234445432   2334444    26789854

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	341
3tmp_A	184	The Catalytic Domain Of Human Deubiquitinase Duba I		9e-07
3tmo_A	184	The Catalytic Domain Of Human Deubiquitinase Duba L		1e-05
3pfy_A	185	The Catalytic Domain Of Human Otud5 Length = 185		6e-05

>pdb|3TMP|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba In Complex With Ubiquitin Aldehyde Length = 184

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 34/131 (25%), Positives = 60/131 (45%), Gaps = 12/131 (9%)
Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
           DG CLFRAVA             V   +++ + +R    D  +K  +    ++  DF  Y
Sbjct: 54  DGACLFRAVA-----------DQVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTY 102
Query: 262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEY-GQEYGKEKPIRVLY 320
           +++ RK +  G   E+   + +   P+ VY +      +  I  + G    +++PIRV Y
Sbjct: 103 INRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSY 162
Query: 321 HGFGHYDALQN 331
           H   HY+++ N
Sbjct: 163 HRNIHYNSVVN 173

>pdb|3TMO|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba Length = 184

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/131 (25%), Positives = 56/131 (42%), Gaps = 12/131 (9%)
Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
           DG CLFRAVA             V   ++  + +R    D   K  +    ++  DF  Y
Sbjct: 54  DGACLFRAVA-----------DQVYGDQDXHEVVRKHCXDYLXKNADYFSNYVTEDFTTY 102
Query: 262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEY-GQEYGKEKPIRVLY 320
           +++ RK +  G   E    +     P+ VY +      +  I  + G    +++PIRV Y
Sbjct: 103 INRKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSY 162
Query: 321 HGFGHYDALQN 331
           H   HY+++ N
Sbjct: 163 HRNIHYNSVVN 173

>pdb|3PFY|A Chain A, The Catalytic Domain Of Human Otud5 Length = 185

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 35/130 (26%), Positives = 55/130 (42%), Gaps = 15/130 (11%)
Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 261
           DG CLFRAVA     +         + R+   D   K AD F         ++  DF  Y
Sbjct: 67  DGACLFRAVAD----QVYGDQDXHEVVRKHCXDYLXKNADYFSN-------YVTEDFTTY 115
Query: 262 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYH 321
           +++ RK +  G   E    +     P+ VY +  +         +G    +++PIRV YH
Sbjct: 116 INRKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTEPINTF----HGIHQNEDEPIRVSYH 171
Query: 322 GFGHYDALQN 331
              HY+++ N
Sbjct: 172 RNIHYNSVVN 181

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	341
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	6e-38
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	4e-34
3pfy_A	185	OTU domain-containing protein 5; structural genomi	7e-31
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	6e-27
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	2e-08
3zrh_A	454	Ubiquitin thioesterase zranb1; hydrolase, deubiqui	1e-04

>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 =  132 bits (334), Expect = 6e-38
 Identities = 26/147 (17%), Positives = 56/147 (38%), Gaps = 9/147 (6%)

Query: 194 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWF 253
           + ++  PGDG C + ++A        K   S    + L +    K   E     E     
Sbjct: 31  FEIVRQPGDGNCFYHSIAE--LTMPNKTDHSYHYIKRLTESAARKYYQE-----EPEARL 83

Query: 254 IEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKE 313
           +    + Y+ ++   + WG   E  M +  + + I ++        + +  ++G      
Sbjct: 84  VGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAAS-DEVEAGIKFGDGDVF- 141

Query: 314 KPIRVLYHGFGHYDALQNLGHEGGISK 340
             + +L+ G  H+DAL+ L      ++
Sbjct: 142 TAVNLLHSGQTHFDALRILPQFETDTR 168

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

 Score =  124 bits (311), Expect = 4e-34
 Identities = 25/147 (17%), Positives = 55/147 (37%), Gaps = 9/147 (6%)

Query: 194 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWF 253
           + ++  PGDG C + ++A        K   S    + L        A ++ +  E     
Sbjct: 31  FEIVRQPGDGNCFYHSIAE--LTMPNKTDHSYHYIKRL----TESAARKYYQE-EPEARL 83

Query: 254 IEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKE 313
           +    + Y+ ++   + WG   E  M +  + + I ++     A   +       +    
Sbjct: 84  VGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIW--TVAASDEVEAGIKFGDGDVF 141

Query: 314 KPIRVLYHGFGHYDALQNLGHEGGISK 340
             + +L+ G  H+DAL+ L      ++
Sbjct: 142 TAVNLLHSGQTHFDALRILPQFETDTR 168

>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 =  114 bits (286), Expect = 7e-31
 Identities = 38/179 (21%), Positives = 72/179 (40%), Gaps = 16/179 (8%)

Query: 157 YSSSKAHAEAADEKE-DGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGAC 215
           Y+S   +  AA   E       +     +    +    + +  +  DG CLFRAVA    
Sbjct: 21  YNSEDEYEAAAARIEAMDPATVEQQEHWFEKALRDKKGFIIKQMKEDGACLFRAVADQ-- 78

Query: 216 LRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEP 275
                    V   +++ + +R    D  +K  +    ++  DF  Y+++ RK +  G   
Sbjct: 79  ---------VYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTYINRKRKNNCHGNHI 129

Query: 276 ELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGH 334
           E+   + +   P+ VY +  +         +G    +++PIRV YH   HY+++ N   
Sbjct: 130 EMQAMAEMYNRPVEVYQYSTEPINTF----HGIHQNEDEPIRVSYHRNIHYNSVVNPNK 184

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

 Score =  104 bits (261), Expect = 6e-27
 Identities = 31/133 (23%), Positives = 56/133 (42%), Gaps = 20/133 (15%)

Query: 199 IPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREE-TEWFIEGD 257
           +  D  CLF A+A+   +           +++   DLR  V+ E +    +  +  ++  
Sbjct: 25  VLDDNSCLFHAIAY--GIF----------KQDSVRDLREMVSKEVLNNPVKFNDAILDKP 72

Query: 258 FDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIR 317
              Y   I K   WGG  E+ + S  L + I V   D      + I ++ ++      I 
Sbjct: 73  NKDYAQWILKMESWGGAIEIGIISDALAVAIYVVDIDA-----VKIEKFNEDKFD-NYIL 126

Query: 318 VLYHGFGHYDALQ 330
           +L++G  HYD+L 
Sbjct: 127 ILFNG-IHYDSLT 138

>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 = 53.5 bits (128), Expect = 2e-08
 Identities = 23/98 (23%), Positives = 38/98 (38%), Gaps = 6/98 (6%)

Query: 235 LRAKVADEFIKRREETEWFIEGD--FDLYVSQ-IRKPHVWGGEPELLMASHVLRMPITVY 291
           LR   +    +  +  E FIEG      +  Q +           ++  +  L + I V 
Sbjct: 138 LRLLTSGYLQRESKFFEHFIEGGRTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVE 197

Query: 292 MHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDAL 329
             D+  GG  +   + +  G E  + +LY   GHYD L
Sbjct: 198 YMDRGEGGTTNPHIFPE--GSEPKVYLLYRP-GHYDIL 232

>3zrh_A Ubiquitin thioesterase zranb1; hydrolase, deubiquitinating enzyme, WNT signaling, ovarian T domain; 2.23A {Homo sapiens} Length = 454

 Score = 42.4 bits (99), Expect = 1e-04
 Identities = 29/160 (18%), Positives = 50/160 (31%), Gaps = 40/160 (25%)

Query: 201 GDGRCLFRAVAHGACLRA-GKPAPSVSIQRELADDLRAKVADEFIKRR------------ 247
             G CL             G       +++ L D L       +   R            
Sbjct: 196 TAGDCLL----DSVLQATWGIYDKDSVLRKALHDSLHD--CSHWFYTRWKDWESWYSQSF 249

Query: 248 ------EETEWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVY---MHDKDAG 298
                  E +W  + D+   +S   +P     +  + + +H+LR PI VY    +    G
Sbjct: 250 GLHFSLREEQW--QEDWAFILSLASQPGASLEQTHIFVLAHILRRPIIVYGVKYYKSFRG 307

Query: 299 GLISIAEYG---------QEYGKEKPIRVLYHGFGHYDAL 329
             +    +          Q +  + PI + Y   GH+ AL
Sbjct: 308 ETLGYTRFQGVYLPLLWEQSFCWKSPIALGYTR-GHFSAL 346

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	341
3pfy_A	185	OTU domain-containing protein 5; structural genomi	100.0
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	99.98
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	99.97
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	99.97
1tff_A	234	Ubiquitin thiolesterase protein OTUB2; hydrolase;	99.87
4dhi_B	284	Ubiquitin thioesterase otubain-like; ubiquitin E2	99.79
4ddg_A	399	Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI	99.77
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	99.76
3dkb_A	390	Tumor necrosis factor, alpha-induced protein 3; OT	98.62
3zrh_A	454	Ubiquitin thioesterase zranb1; hydrolase, deubiqui	98.24
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	95.68

>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=1.5e-35  Score=267.18  Aligned_cols=139  Identities=24%  Similarity=0.415  Sum_probs=102.0

Q ss_pred             cccccccccccCCcEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhccccccCHHH
Q 019389          181 NVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDL  260 (341)
Q Consensus       181 ~~~~~~g~~~~~gL~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe~Fie~dfde  260 (341)
                      +..|...+....||.+++||+|||||||||++||+.   .        ++.|.+||+.+++||.+|+++|++|++++|++
T Consensus        46 e~~~~~~l~~~~gL~~~~I~~DGnCLFrAia~qL~g---~--------~~~h~~LR~~vv~yi~~n~d~f~~Fv~~~~e~  114 (185)
T 3pfy_A           46 EHWFEKALRDKKGFIIKQMKEDGACLFRAVADQVYG---D--------QDMHEVVRKHCMDYLMKNADYFSNYVTEDFTT  114 (185)
T ss_dssp             HHHHHHHHHHHHCCEEECCCCSTTHHHHHHHHHHHS---C--------GGGHHHHHHHHHHHHHHTHHHHTTCC------
T ss_pred             HHHHHHHHHHHCCcEEEeeCCCCChHHHHHHHHHhC---C--------chHHHHHHHHHHHHHHHHHHHHHHHHhccHHH
Confidence            446777776678999999999999999999999994   2        35689999999999999999999999999999


Q ss_pred             HHHHHhCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeeecCCC
Q 019389          261 YVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGH  334 (341)
Q Consensus       261 Y~~~M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Yhg~gHYDSL~~~~~  334 (341)
                      ||++|+++++|||++||+|||++|+++|.||+.+.   .++.+. .|.+....++|+|+||+.+|||||++|.+
T Consensus       115 Y~~~m~~~~~WGg~iEL~AlS~~~~v~I~V~~~~~---~~i~i~-~g~~~~~~~~I~L~Y~~~~HYnSv~~p~~  184 (185)
T 3pfy_A          115 YINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYST---EPINTF-HGIHQNEDEPIRVSYHRNIHYNSVVNPNK  184 (185)
T ss_dssp             -----------CCHHHHHHHHHHHTSCEEEESSCS---SCSEEE-CTTSCCTTSCEEEEEETTTEEEEEECC--
T ss_pred             HHHHhhCCCccchHHHHHHHHHhhCCcEEEEECCC---CCeEEe-cCccCCCCCEEEEEECCCCCcccccCCCC
Confidence            99999999999999999999999999999999753   233332 25444457899999998889999998764

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

Probab=99.98  E-value=1e-32  Score=252.65  Aligned_cols=121  Identities=28%  Similarity=0.431  Sum_probs=107.0

Q ss_pred             CCcEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhh-ccccccCHHHHHHHHhCCCC
Q 019389          192 TDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREET-EWFIEGDFDLYVSQIRKPHV  270 (341)
Q Consensus       192 ~gL~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~f-e~Fie~dfdeY~~~M~k~gt  270 (341)
                      .||.+++||+||||||||||+|| ..           +..|.+||+.+++||.+|+++| +.|++++|++||++|+++++
T Consensus        18 ~~l~~~~i~~DGnCLFrAva~qL-~~-----------~~~~~~lR~~vv~yi~~n~d~f~e~~~~~~~e~Y~~~m~~~~~   85 (212)
T 3by4_A           18 NVLSVHPVLDDNSCLFHAIAYGI-FK-----------QDSVRDLREMVSKEVLNNPVKFNDAILDKPNKDYAQWILKMES   85 (212)
T ss_dssp             SEEEEECCCCSTTHHHHHHHHHH-HS-----------SCCSHHHHHHHHHHHHHCTTTTCHHHHTSCHHHHHHHTTSTTS
T ss_pred             CCeEEEEeCCCCchHHHHHHHHh-CC-----------chHHHHHHHHHHHHHHHCHHHHhhhhcCCCHHHHHHHhcCCCE
Confidence            46899999999999999999999 42           1347899999999999999999 47788999999999999999


Q ss_pred             cCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeeec
Q 019389          271 WGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQN  331 (341)
Q Consensus       271 WGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Yhg~gHYDSL~~  331 (341)
                      |||++||+|||++|+++|.||+.+   .++  +..||++. ..++|+|+|+| +|||||+.
T Consensus        86 WGg~iEL~Als~~~~~~I~V~~~~---~~~--~~~~~~~~-~~~~I~L~Y~g-~HYdsl~~  139 (212)
T 3by4_A           86 WGGAIEIGIISDALAVAIYVVDID---AVK--IEKFNEDK-FDNYILILFNG-IHYDSLTM  139 (212)
T ss_dssp             CCCHHHHHHHHHHHTCEEEEEETT---TTE--EEEESTTT-CSEEEEEEECS-SCEEEEEE
T ss_pred             EccHHHHHHHHHHHCCCEEEEECC---CCC--eEEeCCCC-CCCeEEEEEcC-CcceEEec
Confidence            999999999999999999999974   233  56788875 56899999996 59999998

>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=99.97  E-value=1.9e-31  Score=239.91  Aligned_cols=140  Identities=16%  Similarity=0.301  Sum_probs=113.1

Q ss_pred             CCcEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhccccccCHHHHHHHHhCCCCc
Q 019389          192 TDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVW  271 (341)
Q Consensus       192 ~gL~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe~Fie~dfdeY~~~M~k~gtW  271 (341)
                      .+|.+..||||||||||||++||+..  .+.+.   .+..|.+||+.+++||.+|+++  .+++++|++||++|+++++|
T Consensus        29 ~~~~v~rv~gDGnCLFrAva~qL~~~--~~~~~---~~~~~~~LR~~~~~yi~~~~~~--~~~~~~~~~Y~~~m~~~~~W  101 (185)
T 3phx_A           29 DYFEIVRQPGDGNCFYHSIAELTMPN--KTDHS---YHYIKRLTESAARKYYQEEPEA--RLVGLSLEDYLKRMLSDNEW  101 (185)
T ss_dssp             HHEEEECCCSSTTHHHHHHHHHHSTT--CCTTT---HHHHHHHHHHHHHHHGGGCTTH--HHHCCCHHHHHHHHTSTTCC
T ss_pred             cCeEEEccCCCCchHHHHHHHHHhCC--Cccch---hhhHHHHHHHHHHHHHHhChHh--hhcCCCHHHHHHHhhCCCcc
Confidence            35888999999999999999999842  12211   1345999999999999999998  45789999999999999999


Q ss_pred             CCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeeecCCCCCCCCC
Q 019389          272 GGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGISK  340 (341)
Q Consensus       272 GG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Yhg~gHYDSL~~~~~~~p~~~  340 (341)
                      ||++||+|+|++|+++|+||+.+.+. .++.+..||++. ..++|+|+|++.+|||+|+......++.+
T Consensus       102 Gg~iEL~Als~~~~v~I~V~~~d~~~-~~~~i~~f~~~~-~~~~I~L~Y~g~~HYdsl~~~~~~~~~~~  168 (185)
T 3phx_A          102 GSTLEASMLAKEMGITIIIWTVAASD-EVEAGIKFGDGD-VFTAVNLLHSGQTHFDALRILPQFETDTR  168 (185)
T ss_dssp             CBHHHHHHHHHHHCCCEEEEEC--CC-BCCEEEEESSCC-TTTSEEEEEETTTEEEEEEECGGGC----
T ss_pred             CcHHHHHHHHHHHCCcEEEEEecCCC-CceEEEEcCCCC-CCCEEEEEECCCcCchhceECCCCCCCCc
Confidence            99999999999999999999987542 234567888765 36899999999779999998877666543

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

Probab=99.97  E-value=1.2e-30  Score=240.63  Aligned_cols=140  Identities=16%  Similarity=0.298  Sum_probs=116.8

Q ss_pred             CCcEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhccccccCHHHHHHHHhCCCCc
Q 019389          192 TDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVW  271 (341)
Q Consensus       192 ~gL~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe~Fie~dfdeY~~~M~k~gtW  271 (341)
                      .+|.++.||||||||||||++||+..  .+.+.   .+..|.+||+.+++||.+|+++  .+++++|++||++|+++++|
T Consensus        29 ~~~~V~rvpgDGnCLFrAVs~qL~~~--~~~~~---~~~~h~~LR~~va~yi~~n~d~--~~~~~~feeY~~~m~~~g~W  101 (219)
T 3phu_A           29 DYFEIVRQPGDGNCFYHSIAELTMPN--KTDHS---YHYIKRLTESAARKYYQEEPEA--RLVGLSLEDYLKRMLSDNEW  101 (219)
T ss_dssp             HHEEEECCCCSSCHHHHHHHHHHCTT--CCTTT---HHHHHHHHHHHHHHHGGGCHHH--HHHCCCHHHHHHHHHSTTCC
T ss_pred             cceEEEccCCCCchHHHHHHHHHhCC--Cccch---hhhHHHHHHHHHHHHHHhChhh--hhcCCCHHHHHHHhcCCCcc
Confidence            45889999999999999999999842  12111   1345999999999999999998  45788999999999999999


Q ss_pred             CCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeeecCCCCCCCCC
Q 019389          272 GGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGHEGGISK  340 (341)
Q Consensus       272 GG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Yhg~gHYDSL~~~~~~~p~~~  340 (341)
                      ||++||+|+|++|+++|+||+.+.+ +..+.+..||++.. .++|+|+|++.+|||+|+......+...
T Consensus       102 GG~iEL~AlS~~~~v~I~V~~~d~~-g~~~~i~~fge~~~-~~~I~L~Y~g~~HYdSL~~~~d~~~~~~  168 (219)
T 3phu_A          102 GSTLEASMLAKEMGITIIIWTVAAS-DEVEAGIKFGDGDV-FTAVNLLHSGQTHFDALRILPQFETDTR  168 (219)
T ss_dssp             CCHHHHHHHHHHTTCCEEEEEESSS-SBEEEEEEESSCCT-TTSEEEEEETTTEEEEEEECTTTCCSCC
T ss_pred             CCHHHHHHHHHHhCCCEEEEEecCC-CCceeEEEecCCCC-CCeEEEEECCCcCchhheECCCCCCCCC
Confidence            9999999999999999999998743 22455778987753 6899999999779999999887766543

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

Probab=99.87  E-value=9.1e-22  Score=182.52  Aligned_cols=99  Identities=15%  Similarity=0.216  Sum_probs=80.0

Q ss_pred             HHHHHHHHHHHHhhcChhhhcccccc--CHHHHHH-HHhCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcC
Q 019389          231 LADDLRAKVADEFIKRREETEWFIEG--DFDLYVS-QIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYG  307 (341)
Q Consensus       231 ~h~eLR~~vvdy~~~n~e~fe~Fie~--dfdeY~~-~M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG  307 (341)
                      ....||..++.||..|+++|++|+++  +|++||+ .++.+++|||++||+|||++|+++|.|++.|+.. +.+....|.
T Consensus       131 iv~~lR~lta~~i~~~~d~f~pFi~~~~~~~~yC~~~ve~~~~~~~~iei~ALa~aL~v~I~V~~~d~~~-~~~~~~~~~  209 (234)
T 1tff_A          131 IVQFLRLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMD-TALNHHVFP  209 (234)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHGGGSCTTSCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC--------CCCCC
T ss_pred             HHHHHHHHHHHHHHHCHHHHhhhhcCCCCHHHHHHHHhhhhhcccccHHHHHHHHHhCCCEEEEEcCCCC-CccccccCC
Confidence            45679999999999999999999976  7999999 8999999999999999999999999999988653 222233444


Q ss_pred             CCCCCCCeEEEEEcCCCcceeeecCC
Q 019389          308 QEYGKEKPIRVLYHGFGHYDALQNLG  333 (341)
Q Consensus       308 ~e~~~~~pI~L~Yhg~gHYDSL~~~~  333 (341)
                      +  +..+.|+|+|++ ||||+|+.++
T Consensus       210 ~--~~~~~I~LlY~p-gHYdily~~~  232 (234)
T 1tff_A          210 E--AATPSVYLLYKT-SHYNILYAAD  232 (234)
T ss_dssp             C--CSSCSEEEEEET-TEEEEEEECC
T ss_pred             C--CCCCeEEEEECC-CCceecccCC
Confidence            3  235679999997 5999998654

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

Probab=99.79  E-value=8.5e-19  Score=167.19  Aligned_cols=103  Identities=16%  Similarity=0.107  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHHHHhhcChhhhcccccc--CHHHHHH-HHhCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEE-
Q 019389          230 ELADDLRAKVADEFIKRREETEWFIEG--DFDLYVS-QIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAE-  305 (341)
Q Consensus       230 ~~h~eLR~~vvdy~~~n~e~fe~Fie~--dfdeY~~-~M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~-  305 (341)
                      .....||..++.||..|+++|++|+.+  ++++||+ +|+.+++|||++||+|||++|+++|.|...|+..+..+.... 
T Consensus       168 ~iv~~LRllts~yi~~~~d~f~pFi~~~~~v~~yC~~eVe~~~~e~d~leI~ALa~aL~v~I~V~ylDrs~g~~v~~h~~  247 (284)
T 4dhi_B          168 YILMFFRLITSAFLKQNSEEYAPFIDEGMTVAQYCEQEIEPMWKDADHLAINSLIKAAGTRVRIEYMDRTAAPNGGWHYD  247 (284)
T ss_dssp             HHHHHHHHHHHHHHHHTHHHHGGGSCTTCCHHHHHHHHTSSTTCCCCHHHHHHHHHHTTCCEEEEESSGGGCTTSSSEEE
T ss_pred             HHHHHHHHHHHHHHHHCHHHHHhhcCCCCCHHHHHHHhceehhhcccHHHHHHHHHHhCCcEEEEEecCCCCCCCccccc
Confidence            355689999999999999999999975  7999999 899999999999999999999999999998876444332233 


Q ss_pred             cCCCC-CCCCeEEEEEcCCCcceeeecCC
Q 019389          306 YGQEY-GKEKPIRVLYHGFGHYDALQNLG  333 (341)
Q Consensus       306 yG~e~-~~~~pI~L~Yhg~gHYDSL~~~~  333 (341)
                      |.++. ...+.|+|+|.+ ||||.|+.++
T Consensus       248 fp~~~~~~~p~I~LLYrp-gHYDILY~~~  275 (284)
T 4dhi_B          248 IPSDDQQIAPEITLLYRP-GHYDVIYKKD  275 (284)
T ss_dssp             ESCCCSCCCCSEEEEEET-TEEEEEEECC
T ss_pred             CCCCCCCCCCEEEEeecC-CCccccccCC
Confidence            52221 123579999998 6999998664

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

Probab=99.77  E-value=1.8e-18  Score=170.88  Aligned_cols=97  Identities=23%  Similarity=0.335  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHHHhhcChhhhcccccc--CHHHHHH-HHhCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcC
Q 019389          231 LADDLRAKVADEFIKRREETEWFIEG--DFDLYVS-QIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYG  307 (341)
Q Consensus       231 ~h~eLR~~vvdy~~~n~e~fe~Fie~--dfdeY~~-~M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG  307 (341)
                      ....||..+..||..|+++|++|+++  ++++||+ .|+..++|||++||+|||+.|+++|.|+..|+..++.+....|.
T Consensus       299 iv~~lRllts~~i~~~~d~f~pFi~~~~~v~~yc~~~ve~~~~e~d~l~I~ALa~al~v~I~V~yld~~~~~~v~~~~~~  378 (399)
T 4ddg_A          299 LVVYLRLLTSGYLQRESKFFEHFIEGGRTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIFP  378 (399)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHGGGSSSSCCHHHHHHHHTSSTTCCBCHHHHHHHHHHHTCCCEEEECSCCSSSCCCEEETT
T ss_pred             HHHHHHHHHHHHHHHCHHHHhcccCCCCCHHHHHHHhceeHHhhCcHHHHHHHHHHcCCcEEEEEcCCCCCCccceeeCC
Confidence            45679999999999999999999976  6999999 99999999999999999999999999998887544444445564


Q ss_pred             CCCCCCCeEEEEEcCCCcceeee
Q 019389          308 QEYGKEKPIRVLYHGFGHYDALQ  330 (341)
Q Consensus       308 ~e~~~~~pI~L~Yhg~gHYDSL~  330 (341)
                      ++  ..+.|+|+|.. ||||.|+
T Consensus       379 ~~--~~~~I~LLYrP-gHYDiLY  398 (399)
T 4ddg_A          379 EG--SEPKVYLLYRP-GHYDILY  398 (399)
T ss_dssp             TT--CCCCCEEEEET-BEEEEEE
T ss_pred             CC--CCCEEEEEEcC-CccccCC
Confidence            32  45789999986 5999986

>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=99.76  E-value=2.3e-18  Score=159.42  Aligned_cols=114  Identities=20%  Similarity=0.270  Sum_probs=97.7

Q ss_pred             CCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhcccccc--CHHHHHH-HHhCCCCcCCHHHHH
Q 019389          202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEG--DFDLYVS-QIRKPHVWGGEPELL  278 (341)
Q Consensus       202 DGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe~Fie~--dfdeY~~-~M~k~gtWGG~iEL~  278 (341)
                      ||+||++++.+|...            ......||..++.||..|+++|++|+++  +|++||+ .++.+++|||++||+
T Consensus       117 ~~~~L~~~fndq~~s------------~~~v~~lR~lta~yi~~~~d~f~pFi~~~~~~e~yc~~~ve~~~~~~~~i~i~  184 (234)
T 2zfy_A          117 SVADLLASFNDQSTS------------DYLVVYLRLLTSGYLQRESKFFEHFIEGGRTVKEFCQQEVEPMCKESDHIHII  184 (234)
T ss_dssp             CHHHHHHHHTSHHHH------------HHHHHHHHHHHHHHHHHTHHHHGGGCCSSCCHHHHHHHHTSSTTCCCCHHHHH
T ss_pred             CHHHHHHHHHhhccc------------hHHHHHHHHHHHHHHHHCHHHHhcccCCCCCHHHHHHHHhhhHhhcCCHHHHH
Confidence            999999999999752            2467899999999999999999999976  7999997 699999999999999


Q ss_pred             HHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeee
Q 019389          279 MASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQ  330 (341)
Q Consensus       279 AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~e~~~~~pI~L~Yhg~gHYDSL~  330 (341)
                      |||++|+++|.|++.|+..++.+....|+++  ..++|+|+|+. ||||+|+
T Consensus       185 ALa~al~v~I~V~~~d~~~~~~v~~~~f~~~--~~p~I~LlY~p-gHYdiLy  233 (234)
T 2zfy_A          185 ALAQALSVSIQVEYMDRGEGGTTNPHIFPEG--SEPKVYLLYRP-GHYDILY  233 (234)
T ss_dssp             HHHHHHTCCEEEEECC-CCSSCCEEEEESTT--CCCSEEEEEET-TEEEEEE
T ss_pred             HHHHHhCCCEEEEEcCCCCCCcccceeCCCC--CCCeEEEEECC-CCcccCC
Confidence            9999999999999998765434445667653  35789999996 6999996

>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=98.62  E-value=1.7e-07  Score=91.98  Aligned_cols=139  Identities=20%  Similarity=0.345  Sum_probs=88.7

Q ss_pred             cEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhh----hccc-------c----ccCH
Q 019389          194 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREE----TEWF-------I----EGDF  258 (341)
Q Consensus       194 L~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~----fe~F-------i----e~df  258 (341)
                      |......||||||.+|++..++   |-+..+..+|+.++.-||+.....|..+...    ++.|       .    .++|
T Consensus       112 L~pL~t~GDGnCLLHAvSqamW---Gv~DrdlvLRkaL~~~L~~~~~~~fr~RW~~e~~~~q~~~~~gL~y~e~ew~~EW  188 (390)
T 3dkb_A          112 LVALKTNGDGNCLMHATSQYMW---GVQDTDLVLRKALFSTLKETDTRNFKFRWQLESLKSQEFVETGLCYDTRNWNDEW  188 (390)
T ss_dssp             EEEBCCCCSSCHHHHHHHHHHH---SSCSTTCHHHHHHHHHHHHSCCHHHHHHHHHHHHCCCSSCC----CCSSCSSHHH
T ss_pred             eEEEEecCCCchHHHHHhHHhc---CCCCHhHHHHHHHHHHHHhchHHHHHHHHHHHHHHhhhhHhhcccccHHHHHHHH
Confidence            5567889999999999999999   6666777888888888887543333322110    1111       1    2457


Q ss_pred             HHHHHHHhCCCC--------c--CCHHHHHHHHHhcCCCEEEEeec--C--CCCCceEEEEcCC---------CCCCCCe
Q 019389          259 DLYVSQIRKPHV--------W--GGEPELLMASHVLRMPITVYMHD--K--DAGGLISIAEYGQ---------EYGKEKP  315 (341)
Q Consensus       259 deY~~~M~k~gt--------W--GG~iEL~AlS~ll~~~I~Vy~~d--~--~s~G~i~I~~yG~---------e~~~~~p  315 (341)
                      ++-+.. ..+..        +  =-++-+.+||++++|||+||...  +  ..++.+..+.|+.         +.-...|
T Consensus       189 ~~Iv~~-Asp~~~~~~~~~~y~sLEeiHIFvLAhVLRRPIIV~~d~~lr~~~~Ge~~~Pi~f~GIYLPLlwpp~~C~rsP  267 (390)
T 3dkb_A          189 DNLIKM-ASTDTPMARSGLQYNSLEEIHIFVLCNILRRPIIVISDKMLRSLESGSNFAPLKVGGIYLPLHWPAQECYRYP  267 (390)
T ss_dssp             HHHHHH-TSSCCCSSSSSCSSCCCCHHHHHHHHHHTTSCEEEEECCCCTTCCCC----CCCCCEEECCTTSCTTSSCSSC
T ss_pred             HHHHHH-hCCCCCCCCCcchhhhHHHHHHHHHHHHhcCCEEEEechhhccccCCCccCcCccCceecCCcCCHHHccCCc
Confidence            666654 44331        1  23777999999999999999522  1  1121221122222         2234679


Q ss_pred             EEEEEcCCCcceeeecCCCCCC
Q 019389          316 IRVLYHGFGHYDALQNLGHEGG  337 (341)
Q Consensus       316 I~L~Yhg~gHYDSL~~~~~~~p  337 (341)
                      |.|+|+. |||.+|+.-...+|
T Consensus       268 I~LgY~s-~HFsaLV~me~~~~  288 (390)
T 3dkb_A          268 IVLGYDS-HHFVPLVTLKDSGP  288 (390)
T ss_dssp             EEEEECS-SCEEEEEEBCSSSS
T ss_pred             eEEEecc-CceeeeeecccCCC
Confidence            9999998 59999998665554

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

Probab=98.24  E-value=3.5e-06  Score=84.11  Aligned_cols=137  Identities=23%  Similarity=0.371  Sum_probs=92.9

Q ss_pred             cEEEeeCCCCchhhHHHHHhhhhcCCCCCCchhHHHHHHHHHHHHHHHHhhcChhhhc---------ccc--c----cCH
Q 019389          194 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE---------WFI--E----GDF  258 (341)
Q Consensus       194 L~I~~IpGDGNCLFRAVA~QL~~~~G~~~~~~~lrq~~h~eLR~~vvdy~~~n~e~fe---------~Fi--e----~df  258 (341)
                      |......||||||-+|++..++   |-+..+..||+.+++.|++.- .-|..+...+|         .|.  +    ++|
T Consensus       189 L~pL~t~GDGNCLLHAvSqamW---GV~DrdlvLRkaL~~~L~~~~-~~f~~RW~~~e~~q~q~~gL~y~lde~ewq~EW  264 (454)
T 3zrh_A          189 LYALWNRTAGDCLLDSVLQATW---GIYDKDSVLRKALHDSLHDCS-HWFYTRWKDWESWYSQSFGLHFSLREEQWQEDW  264 (454)
T ss_dssp             EEEBCCCCSSCHHHHHHHHTTT---SSCCGGGHHHHHHHHHHHHTH-HHHHHHHHHHHHHHHHHTTCCCCCCHHHHHHHH
T ss_pred             eeEeeecCCCccHHHHHHHHhh---cccCCcHHHHHHHHHHHHhhh-HHHHHHHHHHHHHHHhhcCCcccccHHHHHHHH
Confidence            5557889999999999999999   767777888888888888642 23443332211         232  2    357


Q ss_pred             HHHHHHHhCCCCcCCHHHHHHHHHhcCCCEEEEeecCC--CCC-ceEEEEcCC---------CCCCCCeEEEEEcCCCcc
Q 019389          259 DLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKD--AGG-LISIAEYGQ---------EYGKEKPIRVLYHGFGHY  326 (341)
Q Consensus       259 deY~~~M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~--s~G-~i~I~~yG~---------e~~~~~pI~L~Yhg~gHY  326 (341)
                      +.-+..-..|+.==-++-+.+||++++|||+||....-  ..| .+....||.         +.-...||.|.|+. |||
T Consensus       265 ~~iv~~As~Pg~sLEeiHIFvLAhVLRRPIIV~~d~~lrs~~Ge~l~pi~f~GIYLPLlwpp~~C~rsPIvLgY~~-gHF  343 (454)
T 3zrh_A          265 AFILSLASQPGASLEQTHIFVLAHILRRPIIVYGVKYYKSFRGETLGYTRFQGVYLPLLWEQSFCWKSPIALGYTR-GHF  343 (454)
T ss_dssp             HHHHHHTTSTTCCCCHHHHHHHHHHTTSCEEEEECSSCC-----CCCCCCCCEEECCTTSCGGGSCSCCEEEEEET-TEE
T ss_pred             HHHHHHhcCCcchHHHHHHHHHHHHhcCCeEEeccccccccCCCcCCCcccceeeccCcCCHHHhcCCceEEEecc-cce
Confidence            77777667787766778899999999999999974210  001 111112221         11236899999997 599


Q ss_pred             eeeecCCCC
Q 019389          327 DALQNLGHE  335 (341)
Q Consensus       327 DSL~~~~~~  335 (341)
                      .+|+.-...
T Consensus       344 saLV~~~~~  352 (454)
T 3zrh_A          344 SALVAMEND  352 (454)
T ss_dssp             EEEEEBCCC
T ss_pred             eeeeecccc
Confidence            999887654

>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=95.68  E-value=0.0048  Score=56.81  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=19.4

Q ss_pred             EEEeeCCCCchhhHHHHHhhhh
Q 019389          195 SVIGIPGDGRCLFRAVAHGACL  216 (341)
Q Consensus       195 ~I~~IpGDGNCLFRAVA~QL~~  216 (341)
                      .++.|.|||||+|||++.+...
T Consensus        44 ~~R~vRgDGNCFyRaf~f~ylE   65 (234)
T 2zfy_A           44 YIRKTRPDGNCFYRAFGFSHLE   65 (234)
T ss_dssp             EEECBCCSSCHHHHHHHHHHHH
T ss_pred             ceeeccCCccHHHHHHHHHHHH
Confidence            5689999999999999998764

---

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	341
d1tffa_	228	d.3.1.11 (A:) Ubiquitin thiolesterase protein OTUB	2e-13

>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 = 66.6 bits (162), Expect = 2e-13
 Identities = 15/98 (15%), Positives = 32/98 (32%), Gaps = 7/98 (7%)

Query: 235 LRAKVADEFIKRREETEWFIEGDFDL---YVSQIRKPHVWGGEPELLMASHVLRMPITVY 291
           LR   +     R +    FI+ + D+      ++          ++   S  L + + V 
Sbjct: 129 LRLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVEPMATECDHIQITALSQALSIALQVE 188

Query: 292 MHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDAL 329
             D+       +  +         + +LY    HY+ L
Sbjct: 189 YVDEMDTA---LNHHVFPEAATPSVYLLYKT-SHYNIL 222

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	341
d1tffa_	228	Ubiquitin thiolesterase protein OTUB2 (Otubain-2)	99.82

>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=99.82  E-value=4.2e-20  Score=167.33  Aligned_cols=98  Identities=15%  Similarity=0.206  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHhhcChhhhcccccc--CHHHHHHH-HhCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCC
Q 019389          232 ADDLRAKVADEFIKRREETEWFIEG--DFDLYVSQ-IRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQ  308 (341)
Q Consensus       232 h~eLR~~vvdy~~~n~e~fe~Fie~--dfdeY~~~-M~k~gtWGG~iEL~AlS~ll~~~I~Vy~~d~~s~G~i~I~~yG~  308 (341)
                      ...+|..++.||..|+++|++|+++  ++++||.+ |.++++|||++||.|+|++|+++|+|+..|.+. +.+....+++
T Consensus       126 v~~lR~l~s~~i~~~~~~y~~Fi~~~~~~~~yc~~~v~~~~~e~d~ieI~aLa~al~v~I~V~~~d~~~-~~~~~~~~~~  204 (228)
T d1tffa_         126 VQFLRLLTSAFIRNRADFFRHFIDEEMDIKDFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMD-TALNHHVFPE  204 (228)
T ss_dssp             HHHHHHHHHHHHHHTHHHHGGGSCTTSCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC--------CCCCCC
T ss_pred             HHHHHHHHHHHHHHCHHHHHhHhcCCccHHHHHHHHHccccccCCcHHHHHHHHHhCCCEEEEEecCCC-CccccccCCC
Confidence            3468999999999999999999964  69999975 899999999999999999999999999988653 2332334433


Q ss_pred             CCCCCCeEEEEEcCCCcceeeecCC
Q 019389          309 EYGKEKPIRVLYHGFGHYDALQNLG  333 (341)
Q Consensus       309 e~~~~~pI~L~Yhg~gHYDSL~~~~  333 (341)
                      +  ..++|+|+|.+ ||||.|+.++
T Consensus       205 ~--~~~~I~Lly~p-gHYdiLY~~~  226 (228)
T d1tffa_         205 A--ATPSVYLLYKT-SHYNILYAAD  226 (228)
T ss_dssp             C--SSCSEEEEEET-TEEEEEEECC
T ss_pred             C--CCCEEEEEeCC-CCcccCccCC
Confidence            2  45789999987 6999998765