Citrus Sinensis ID: 025285

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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-----
Protein Sequence
MLLFSFSVCNCDSHSFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDNLKQQLGHKESSTSGAEPSSSGARSSCSETKLEGGKGCELSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE
Secondary Structure (PSIPRED)
cccccccccccccHHHHHHHHHccccccccccHHHHHHHHHHHcccEEEEEcccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEEcccccccHEEHHHccccHHHHccccHHHHHHHHHHcccEEEEEEccccEEEEccccccccccEEEEEEcccEEcEEEcccccEEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHccccccccccccccHHHHHHHHccccHHHHHHHHHHHcccHHHHHHHHHHccccccccccccc
Coil and Loop (DISEMBL)
mllfsfsvcncdshsfvVKRFVLTSWMQVYGNNVEIQALCEmynrpihiysyttepinifhgsyntdnppirlsyhhgnhynslvdprrmtvgaglgfsclrgtnvdKDQVKAAIKAQQDQQIDNALLaegrfysdlelTEKEIECMVMEVSRAeylagdnlkqqlghkesstsgaepsssgarsscsetkleggkgcelsdTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLEtgsssrrkgkate
Flexible Loop (DISEMBL)
MLLFSFSvcncdshsFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDNLKQQLGHKesstsgaepsssgarsSCSETKLEGGKGCELSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLletgsssrrkgkate
Low Complexity Region (SEG)
MLLFSFSVCNCDSHSFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNvdkdqvkaaikaqqdqqidNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDNLKQQLGHKesstsgaepsssgaRSSCSETKLEGGKGCELSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE
Disordered region (IsUnstruct)
*LLFSFSVCNCDSHSFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLA********************************************TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE*************
Disordered Region (DISOPRED)
*LL*S*SVCNCDSHSFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNV************************************EIECMVMEV***********************************************************MVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE*************
Disordered Region (DISEMBL)
MLLFSFSVCNCDSHSFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDNLKQ********************************GCELSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETG***********
Disordered Region (DISPRO)
MLLFSFSVCNCDSHSFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDNL****************************************TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETG***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLLFSFSVCNCDSHSFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDNLKQQLGHKESSTSGAEPSSSGARSSCSETKLEGGKGCELSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE
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	255	2.2.26 [Sep-21-2011]
Q2YDU3	566	OTU domain-containing pro	no	no	0.525	0.236	0.407	2e-26
Q3U2S4	566	OTU domain-containing pro	yes	no	0.525	0.236	0.407	2e-26
Q640H3	518	OTU domain-containing pro	N/A	no	0.525	0.258	0.4	4e-26
Q08BW0	560	OTU domain-containing pro	yes	no	0.525	0.239	0.407	9e-26
Q6GL44	518	OTU domain-containing pro	yes	no	0.525	0.258	0.4	1e-25
Q7ZX21	513	OTU domain-containing pro	N/A	no	0.525	0.261	0.4	1e-25
Q96G74	571	OTU domain-containing pro	yes	no	0.525	0.234	0.392	1e-24

>sp|Q2YDU3|OTUD5_RAT OTU domain-containing protein 5 OS=Rattus norvegicus GN=Otud5 PE=2 SV=2

 Score =  119 bits (299), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/135 (40%), Positives = 85/135 (62%), Gaps = 1/135 (0%)

Query: 30  YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
           +GN++E+QA+ EMYNRP+ +Y Y+TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct: 279 HGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNK 338

Query: 90  MTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVM 149
            T+G GLG    +    ++  +K AIK  ++  I+  +L + +  +D E T + IE  V 
Sbjct: 339 ATIGVGLGLPSFKPGFAEQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 398

Query: 150 EVSRAEYLAGDNLKQ 164
             S  ++L  D  KQ
Sbjct: 399 RESYLQWLR-DQEKQ 412

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).
Rattus norvegicus (taxid: 10116)
EC: 3EC: .EC: 4EC: .EC: 1EC: 9EC: .EC: 1EC: 2

>sp|Q3U2S4|OTUD5_MOUSE OTU domain-containing protein 5 OS=Mus musculus GN=Otud5 PE=1 SV=2

 Score =  119 bits (299), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/135 (40%), Positives = 85/135 (62%), Gaps = 1/135 (0%)

Query: 30  YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
           +GN++E+QA+ EMYNRP+ +Y Y+TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct: 279 HGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNK 338

Query: 90  MTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVM 149
            T+G GLG    +    ++  +K AIK  ++  I+  +L + +  +D E T + IE  V 
Sbjct: 339 ATIGVGLGLPSFKPGFAEQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 398

Query: 150 EVSRAEYLAGDNLKQ 164
             S  ++L  D  KQ
Sbjct: 399 RESYLQWLR-DQEKQ 412

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).

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

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

 Score =  118 bits (296), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 85/135 (62%), Gaps = 1/135 (0%)

Query: 30  YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
           +GN++E+QA+ EMYNRP+ +Y Y TEPIN FHG    ++ PIR+SYH   HYNS+V+P +
Sbjct: 237 HGNHIEMQAMAEMYNRPVEVYQYGTEPINTFHGIQQNEDEPIRVSYHRNIHYNSVVNPNK 296

Query: 90  MTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVM 149
            T+G GLG    +  + ++  +K+AI+  ++  I+  +L + +  +D E T + IE  V 
Sbjct: 297 ATIGVGLGLPSFKPGHAEQSLMKSAIRTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 356

Query: 150 EVSRAEYLAGDNLKQ 164
             S  ++L  D  KQ
Sbjct: 357 RESYLQWLR-DQEKQ 370

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|Q08BW0|OTU5A_DANRE OTU domain-containing protein 5-A OS=Danio rerio GN=otud5a PE=2 SV=1

 Score =  117 bits (293), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 55/135 (40%), Positives = 83/135 (61%), Gaps = 1/135 (0%)

Query: 30  YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
           +GN++E+QA+ EMYNRP+ +Y   TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct: 277 HGNHIEMQAMAEMYNRPVEVYQSGTEPINTFHGIHQNNDEPIRVSYHRNIHYNSVVNPNK 336

Query: 90  MTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVM 149
            T+G GLG    +    D+  +K AIK  ++  I+  +L + +  +D E T + IE  V 
Sbjct: 337 ATIGVGLGLPAFKPGFADQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 396

Query: 150 EVSRAEYLAGDNLKQ 164
             S  ++L  D  KQ
Sbjct: 397 RESYLQWLR-DQEKQ 410

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).

Danio rerio (taxid: 7955)

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 =  116 bits (291), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 84/135 (62%), Gaps = 1/135 (0%)

Query: 30  YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
           +GN++E+QA+ EMYNRP+ +Y Y TEPIN FHG    ++ PIR+SYH   HYNS+V+P +
Sbjct: 237 HGNHIEMQAMAEMYNRPVEVYQYGTEPINTFHGIQQNEDEPIRVSYHRNIHYNSVVNPNK 296

Query: 90  MTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVM 149
            T+G GLG    +    ++  +K+AI+  ++  I+  +L + +  +D E T + IE  V 
Sbjct: 297 ATIGVGLGLPSFKPGFAEQSLMKSAIRTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 356

Query: 150 EVSRAEYLAGDNLKQ 164
             S  ++L  D  KQ
Sbjct: 357 RESYLQWLR-DQEKQ 370

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

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

 Score =  116 bits (291), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 84/135 (62%), Gaps = 1/135 (0%)

Query: 30  YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
           +GN++E+QA+ EMYNRP+ +Y Y TEPIN FHG    ++ PIR+SYH   HYNS+V+P +
Sbjct: 232 HGNHIEMQAMAEMYNRPVEVYQYGTEPINTFHGIQKNEDEPIRVSYHRNIHYNSVVNPNK 291

Query: 90  MTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVM 149
            T+G GLG    +    ++  +K+AI+  ++  I+  +L + +  +D E T + IE  V 
Sbjct: 292 ATIGVGLGLPSFKPGYAEQSLMKSAIRTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 351

Query: 150 EVSRAEYLAGDNLKQ 164
             S  ++L  D  KQ
Sbjct: 352 RESYLQWLR-DQEKQ 365

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 =  114 bits (284), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 55/140 (39%), Positives = 85/140 (60%), Gaps = 6/140 (4%)

Query: 30  YGNNVEIQALCEMYNRPIHIYSYTT-----EPINIFHGSYNTDNPPIRLSYHHGNHYNSL 84
           +GN++E+QA+ EMYNRP+ +Y Y+T     EPIN FHG +  ++ PIR+SYH   HYNS+
Sbjct: 279 HGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSYHRNIHYNSV 338

Query: 85  VDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEI 144
           V+P + T+G GLG    +    ++  +K AIK  ++  I+  +L + +  +D E T + I
Sbjct: 339 VNPNKATIGVGLGLPSFKPGFAEQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAI 398

Query: 145 ECMVMEVSRAEYLAGDNLKQ 164
           E  V   S  ++L  D  KQ
Sbjct: 399 EEQVARESYLQWLR-DQEKQ 417

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

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	255
255565701	534	expressed protein, putative [Ricinus com	0.894	0.426	0.907	1e-112
225464886	528	PREDICTED: uncharacterized protein LOC10	0.894	0.431	0.860	1e-110
296084879	502	unnamed protein product [Vitis vinifera]	0.894	0.454	0.860	1e-110
147860016	244	hypothetical protein VITISV_021902 [Viti	0.905	0.946	0.829	1e-108
224104891	534	predicted protein [Populus trichocarpa]	0.894	0.426	0.847	1e-104
356542770	519	PREDICTED: uncharacterized protein LOC10	0.882	0.433	0.820	1e-100
356539236	520	PREDICTED: uncharacterized protein LOC10	0.882	0.432	0.816	1e-100
357453181	253	OTU domain-containing protein [Medicago	0.913	0.920	0.818	3e-99
449443464	539	PREDICTED: uncharacterized protein LOC10	0.886	0.419	0.789	4e-95
224132278	289	predicted protein [Populus trichocarpa]	0.886	0.782	0.806	7e-94

>gi|255565701|ref|XP_002523840.1| expressed protein, putative [Ricinus communis] gi|223536928|gb|EEF38566.1| expressed protein, putative [Ricinus communis]

 Score =  411 bits (1057), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 207/228 (90%), Positives = 212/228 (92%)

Query: 28  QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
           +VYGNNVEIQAL EMYNRPIHIYSYTTEPINIFHGSYNTD PPIRLSYHHGNHYNSLVDP
Sbjct: 307 KVYGNNVEIQALSEMYNRPIHIYSYTTEPINIFHGSYNTDTPPIRLSYHHGNHYNSLVDP 366

Query: 88  RRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECM 147
           RR+TVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIE M
Sbjct: 367 RRLTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIERM 426

Query: 148 VMEVSRAEYLAGDNLKQQLGHKESSTSGAEPSSSGARSSCSETKLEGGKGCELSDTVLSN 207
           VME SRAEYLA D  KQQL HKESSTSGAEPSSSGARSS SETK+EG +   L DTVLS+
Sbjct: 427 VMEASRAEYLANDKFKQQLCHKESSTSGAEPSSSGARSSDSETKVEGTRTNSLQDTVLSS 486

Query: 208 SMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 255
           SMQMVLSMGFSYLQ IEAYSIFGDDVDSMVCYLLET SSSRRKGKATE
Sbjct: 487 SMQMVLSMGFSYLQAIEAYSIFGDDVDSMVCYLLETASSSRRKGKATE 534

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225464886|ref|XP_002273209.1| PREDICTED: uncharacterized protein LOC100246727 [Vitis vinifera]

 Score =  402 bits (1033), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 198/230 (86%), Positives = 208/230 (90%), Gaps = 2/230 (0%)

Query: 28  QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
           +VYGNN EIQAL EMYNRPIHIYSY+TEPINIFHGSY+TD PPIRLSYHHGNHYNSLVDP
Sbjct: 299 KVYGNNAEIQALSEMYNRPIHIYSYSTEPINIFHGSYDTDTPPIRLSYHHGNHYNSLVDP 358

Query: 88  RRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECM 147
           RR+T+GAGLGFS LRG NVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIE M
Sbjct: 359 RRLTIGAGLGFSSLRGVNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIERM 418

Query: 148 VMEVSRAEYLAGDNLKQQLGHKE-SSTSGAEPSSSGARSSCSETKLEGGKGCE-LSDTVL 205
           VME SRAEYLA D  K QLG +E SSTSGAEPSSSGAR S SETKLEGG+    L DTVL
Sbjct: 419 VMEASRAEYLADDKFKSQLGCRESSSTSGAEPSSSGARPSGSETKLEGGREQHGLPDTVL 478

Query: 206 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 255
           S+SMQMVLSMGFSYLQVIEAYSIFGDD +SM CYL+ETGSSSRRKGKATE
Sbjct: 479 SSSMQMVLSMGFSYLQVIEAYSIFGDDAESMACYLVETGSSSRRKGKATE 528

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296084879|emb|CBI28288.3| unnamed protein product [Vitis vinifera]

 Score =  402 bits (1032), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 198/230 (86%), Positives = 208/230 (90%), Gaps = 2/230 (0%)

Query: 28  QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
           +VYGNN EIQAL EMYNRPIHIYSY+TEPINIFHGSY+TD PPIRLSYHHGNHYNSLVDP
Sbjct: 273 KVYGNNAEIQALSEMYNRPIHIYSYSTEPINIFHGSYDTDTPPIRLSYHHGNHYNSLVDP 332

Query: 88  RRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECM 147
           RR+T+GAGLGFS LRG NVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIE M
Sbjct: 333 RRLTIGAGLGFSSLRGVNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIERM 392

Query: 148 VMEVSRAEYLAGDNLKQQLGHKE-SSTSGAEPSSSGARSSCSETKLEGGKGCE-LSDTVL 205
           VME SRAEYLA D  K QLG +E SSTSGAEPSSSGAR S SETKLEGG+    L DTVL
Sbjct: 393 VMEASRAEYLADDKFKSQLGCRESSSTSGAEPSSSGARPSGSETKLEGGREQHGLPDTVL 452

Query: 206 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 255
           S+SMQMVLSMGFSYLQVIEAYSIFGDD +SM CYL+ETGSSSRRKGKATE
Sbjct: 453 SSSMQMVLSMGFSYLQVIEAYSIFGDDAESMACYLVETGSSSRRKGKATE 502

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860016|emb|CAN81048.1| hypothetical protein VITISV_021902 [Vitis vinifera]

 Score =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 200/241 (82%), Positives = 210/241 (87%), Gaps = 10/241 (4%)

Query: 25  SWMQ---VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHY 81
           SW +   VYGNN EIQAL EMYNRPIHIYSY+TEPINIFHGSY+TD PPIRLSYHHGNHY
Sbjct: 4   SWNKNELVYGNNAEIQALSEMYNRPIHIYSYSTEPINIFHGSYDTDTPPIRLSYHHGNHY 63

Query: 82  NSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDN-----ALLAEGRFYSD 136
           NSLVDPRR+T+GAGLGFS LRG NVDKDQVKAAIKAQQDQQIDN     ALLAEGRFYSD
Sbjct: 64  NSLVDPRRLTIGAGLGFSSLRGVNVDKDQVKAAIKAQQDQQIDNASTYIALLAEGRFYSD 123

Query: 137 LELTEKEIECMVMEVSRAEYLAGDNLKQQLGHKE-SSTSGAEPSSSGARSSCSETKLEGG 195
           LELTEKEIE MVME SRAEYLA D  K QLG +E SSTSGAEPSSSGAR S SETKLEGG
Sbjct: 124 LELTEKEIERMVMEASRAEYLADDKFKSQLGCRESSSTSGAEPSSSGARPSGSETKLEGG 183

Query: 196 KGCE-LSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKAT 254
           +    L DTVLS+SMQMVLSMGFSYLQVIEAYSIFGDD +SM CYL+ETGSSSRRKGKAT
Sbjct: 184 REQHGLPDTVLSSSMQMVLSMGFSYLQVIEAYSIFGDDAESMACYLVETGSSSRRKGKAT 243

Query: 255 E 255
           E
Sbjct: 244 E 244

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104891|ref|XP_002313608.1| predicted protein [Populus trichocarpa] gi|222850016|gb|EEE87563.1| predicted protein [Populus trichocarpa]

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 194/229 (84%), Positives = 209/229 (91%), Gaps = 1/229 (0%)

Query: 28  QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
           +VYGNNVEIQAL EMYNRPIHIYSY+TEPINIFHGSYNTD PPIRLSYHHGNHYNSLV+P
Sbjct: 306 KVYGNNVEIQALSEMYNRPIHIYSYSTEPINIFHGSYNTDTPPIRLSYHHGNHYNSLVNP 365

Query: 88  RRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECM 147
           RR T+GAGLGFSCL+G +VD+DQ+KAAIKAQQDQQI+NALLAEGRFYSDLELTEKEIE M
Sbjct: 366 RRSTIGAGLGFSCLQGASVDRDQIKAAIKAQQDQQINNALLAEGRFYSDLELTEKEIERM 425

Query: 148 VMEVSRAEYLAGDNLKQQLGHKESSTSGAEPSSSGARSSCSET-KLEGGKGCELSDTVLS 206
           VME SRAEYLA +  K QLG KESST+GAEPSSS ARSS SET K++G +     DTVLS
Sbjct: 426 VMEASRAEYLADNKFKPQLGRKESSTAGAEPSSSSARSSASETSKVDGVREHGSQDTVLS 485

Query: 207 NSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 255
           +SMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE
Sbjct: 486 SSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 534

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356542770|ref|XP_003539838.1| PREDICTED: uncharacterized protein LOC100809162 [Glycine max]

 Score =  372 bits (954), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 188/229 (82%), Positives = 202/229 (88%), Gaps = 4/229 (1%)

Query: 28  QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
           +VYGNNVEIQA+CEMYNRPIHIYSYTTEPINIFHGSYNTD PPIRLSYHHGNHYNSLVDP
Sbjct: 294 KVYGNNVEIQAMCEMYNRPIHIYSYTTEPINIFHGSYNTDMPPIRLSYHHGNHYNSLVDP 353

Query: 88  RRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECM 147
           RR+T+GAGLGFS LRGTNVDKDQVKAAIKAQQD+QI+NALLAEGRFYSDLELTEKEIE M
Sbjct: 354 RRLTIGAGLGFSSLRGTNVDKDQVKAAIKAQQDKQINNALLAEGRFYSDLELTEKEIERM 413

Query: 148 VMEVSRAEYLAGDNLKQQLGHKESSTSGAEP-SSSGARSSCSETKLEGGKGCELSDTVLS 206
           V+EVSRAEYLA    KQQLG +ESSTS AEP SS    SS ++ K E GK      + LS
Sbjct: 414 VIEVSRAEYLADSTFKQQLGDRESSTSNAEPSSSGATGSSGTDRKTEHGK---EHGSDLS 470

Query: 207 NSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 255
           + MQM+LSMGFSY+Q IEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE
Sbjct: 471 SGMQMLLSMGFSYMQAIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 519

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356539236|ref|XP_003538105.1| PREDICTED: uncharacterized protein LOC100780250 [Glycine max]

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 187/229 (81%), Positives = 203/229 (88%), Gaps = 4/229 (1%)

Query: 28  QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
           +VYGNNVEIQA+CEMYNRPIHIYSYTTEPINIFHGSYNTD PPIRLSYHHGNHYNSLVDP
Sbjct: 295 KVYGNNVEIQAMCEMYNRPIHIYSYTTEPINIFHGSYNTDTPPIRLSYHHGNHYNSLVDP 354

Query: 88  RRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECM 147
           RR+T+GAGLGFS LRGTNVDKD+VKAAIKAQQDQQI+NALLAEGRFYSDLELTEKEIE M
Sbjct: 355 RRLTIGAGLGFSSLRGTNVDKDKVKAAIKAQQDQQINNALLAEGRFYSDLELTEKEIERM 414

Query: 148 VMEVSRAEYLAGDNLKQQLGHKESSTSGAEP-SSSGARSSCSETKLEGGKGCELSDTVLS 206
           V+EVSRAEYLA    KQQLG++ESSTS AEP SS    SS ++ K E G+      + LS
Sbjct: 415 VIEVSRAEYLADSAFKQQLGNRESSTSNAEPSSSGATGSSGTDRKTEHGR---EHGSDLS 471

Query: 207 NSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 255
           + MQM+LSMGFSY+Q IEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE
Sbjct: 472 SGMQMLLSMGFSYMQAIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 520

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357453181|ref|XP_003596867.1| OTU domain-containing protein [Medicago truncatula] gi|355485915|gb|AES67118.1| OTU domain-containing protein [Medicago truncatula]

 Score =  367 bits (942), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 194/237 (81%), Positives = 212/237 (89%), Gaps = 4/237 (1%)

Query: 19  KRFVLTSWMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHG 78
           +++V  SW QVYGNNVEIQA+CEMYNRPIHIYSY+TEPIN FHGSY+TD PP+RLS+HHG
Sbjct: 21  RKYVNPSW-QVYGNNVEIQAMCEMYNRPIHIYSYSTEPINTFHGSYDTDTPPVRLSFHHG 79

Query: 79  NHYNSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLE 138
           NHYNSLVDPRR T+GAGLGFS LRGTNVDKDQVKAAIK+QQDQQIDNALLAEGRFYSDLE
Sbjct: 80  NHYNSLVDPRRPTIGAGLGFSSLRGTNVDKDQVKAAIKSQQDQQIDNALLAEGRFYSDLE 139

Query: 139 LTEKEIECMVMEVSRAEYLAGDNLKQQLGHKESSTSGAEPSSSGARSSCSETKLEGGKGC 198
           LTEKEIE  VME SRAEYLAG   KQQLG++ESSTS AEPSSSGARSS S+ K+E GKG 
Sbjct: 140 LTEKEIELAVMEASRAEYLAGGTFKQQLGNRESSTSTAEPSSSGARSSGSDPKMESGKGN 199

Query: 199 ELSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 255
               + LS+SM M+LSMGFSYLQ IEAYSIFGDDVDSM+CYLLETGSSSRRKGKATE
Sbjct: 200 N---SNLSSSMNMLLSMGFSYLQAIEAYSIFGDDVDSMICYLLETGSSSRRKGKATE 253

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443464|ref|XP_004139497.1| PREDICTED: uncharacterized protein LOC101208627 [Cucumis sativus]

 Score =  353 bits (906), Expect = 4e-95,   Method: Compositional matrix adjust.
 Identities = 180/228 (78%), Positives = 202/228 (88%), Gaps = 2/228 (0%)

Query: 28  QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
           +VYGNN EIQALCEMYNRPIHI+SY TEPINIFHG+Y TD PPIRLSYHHGNHYNSLVDP
Sbjct: 314 KVYGNNAEIQALCEMYNRPIHIFSYGTEPINIFHGNYATDLPPIRLSYHHGNHYNSLVDP 373

Query: 88  RRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECM 147
           RR+ +GAGLGFS LRG NVDKD+VKAA+KAQQDQQ+DNALLA+GR++SDLE+TEKEIE M
Sbjct: 374 RRLAIGAGLGFSSLRGANVDKDKVKAALKAQQDQQLDNALLAQGRYFSDLEVTEKEIEQM 433

Query: 148 VMEVSRAEYLAGDNLKQQLGHKESSTSGAEPSSSGARSSCSETKLEGGKGCELSDTVLSN 207
           VME SRAEYLA  +LKQQL  +++STSGAEPSSSGARSS SE   +   G +  ++VLSN
Sbjct: 434 VMEASRAEYLAKYSLKQQLDRRDNSTSGAEPSSSGARSSGSEGNCKRESGVQ--ESVLSN 491

Query: 208 SMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSSRRKGKATE 255
            M+ VLSMGFSYLQVIEAYSIFG+DVDSMVCYLLETG SSRRKGKATE
Sbjct: 492 GMRTVLSMGFSYLQVIEAYSIFGEDVDSMVCYLLETGDSSRRKGKATE 539

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132278|ref|XP_002328229.1| predicted protein [Populus trichocarpa] gi|222837744|gb|EEE76109.1| predicted protein [Populus trichocarpa]

 Score =  349 bits (895), Expect = 7e-94,   Method: Compositional matrix adjust.
 Identities = 187/232 (80%), Positives = 204/232 (87%), Gaps = 6/232 (2%)

Query: 28  QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
           +VYGNNVEIQAL EMYNRPIHIYSY+TEPINI  GSYNTD PPI+LSYHHGNHYNSLV+P
Sbjct: 60  KVYGNNVEIQALSEMYNRPIHIYSYSTEPINI--GSYNTDTPPIQLSYHHGNHYNSLVNP 117

Query: 88  RRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECM 147
           RR T+GAGLGFSCL+G +VD+DQVKAAIKAQQDQQIDNALLAEG+FYSDLE+TEKEIE M
Sbjct: 118 RRSTIGAGLGFSCLQGASVDRDQVKAAIKAQQDQQIDNALLAEGQFYSDLEVTEKEIERM 177

Query: 148 VMEVSRAEYLAGDNLKQQLGHKESSTSGAEPSSSGARSSCSE--TKLEGGKGCELSDTVL 205
           VME SRAEYLA +  K QLG K SSTSGAEPSSSGARSS +   TK+EG +     DTVL
Sbjct: 178 VMEASRAEYLADNKFKPQLGRKGSSTSGAEPSSSGARSSSASETTKVEGAREHGSQDTVL 237

Query: 206 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET--GSSSRRKGKATE 255
           S+SMQ+VLSMGFSYLQ IEAYSIFGDDVDSMVCYL+ET   SSSRRKGKATE
Sbjct: 238 SSSMQIVLSMGFSYLQAIEAYSIFGDDVDSMVCYLVETSSSSSSRRKGKATE 289

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	255
TAIR|locus:2039642	506	OTLD1 "otubain-like deubiquiti	0.874	0.440	0.629	3.1e-67
DICTYBASE|DDB_G0285907	537	DDB_G0285907 "OTU domain conta	0.501	0.238	0.441	1.2e-22
UNIPROTKB|I3L773	566	OTUD5 "Uncharacterized protein	0.525	0.236	0.370	7.6e-21
MGI|MGI:1859615	566	Otud5 "OTU domain containing 5	0.525	0.236	0.370	7.6e-21
RGD|1563027	566	Otud5 "OTU domain containing 5	0.525	0.236	0.370	7.6e-21
UNIPROTKB|E1BFW9	567	OTUD5 "Uncharacterized protein	0.525	0.236	0.370	7.7e-21
UNIPROTKB|Q640H3	518	otud5-b "OTU domain-containing	0.525	0.258	0.370	7.7e-21
UNIPROTKB|Q7ZX21	513	otud5-a "OTU domain-containing	0.525	0.261	0.370	1.6e-20
UNIPROTKB|Q6GL44	518	otud5 "OTU domain-containing p	0.525	0.258	0.370	2.1e-20
ZFIN|ZDB-GENE-030616-61	560	otud5a "OTU domain containing	0.525	0.239	0.362	1.5e-19

TAIR|locus:2039642 OTLD1 "otubain-like deubiquitinase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 683 (245.5 bits), Expect = 3.1e-67, P = 3.1e-67
 Identities = 146/232 (62%), Positives = 164/232 (70%)

Query:    28 QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
             +VYGNNVEIQAL EMYNRPIHIYSY+TEPINIF G+Y+TD PPIRLSYHHGNHYNSLVDP
Sbjct:   280 KVYGNNVEIQALAEMYNRPIHIYSYSTEPINIFQGNYSTDTPPIRLSYHHGNHYNSLVDP 339

Query:    88 RRMTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECM 147
              R+TVGAGLGFS L G +                   NALLAEGRFYSDLELTEKEIE  
Sbjct:   340 HRLTVGAGLGFSSLSGRHVDKEQVKAAIKAQQEHQIDNALLAEGRFYSDLELTEKEIERS 399

Query:   148 VMEVSRAEYLAGDNLKQQLGHKXXXXXXXXXXXXXXRS-SCSETK-LEGGKGCELSDTVL 205
             VME SRAEYL  +  K ++G K                 S S++K  E  K      TVL
Sbjct:   400 VMEASRAEYLM-EWSKPRIGPKESSTSNAETSSSGATGPSGSDSKPAEAVK----EKTVL 454

Query:   206 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET--GSSSRRKGKATE 255
             S+S++MVLSMGFSY Q +EAYSIFGDDVDSMVCY+LET  G ++RRKGKATE
Sbjct:   455 SSSIEMVLSMGFSYAQAMEAYSIFGDDVDSMVCYVLETSCGGNNRRKGKATE 506

GO:0005634 "nucleus" evidence=ISM

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

GO:0003682 "chromatin binding" evidence=IDA

GO:0016578 "histone deubiquitination" evidence=IDA

GO:0031491 "nucleosome binding" evidence=IDA

GO:0042393 "histone binding" evidence=IDA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEP

GO:0007346 "regulation of mitotic cell cycle" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

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

 Score = 269 (99.8 bits), Expect = 1.2e-22, P = 1.2e-22
 Identities = 57/129 (44%), Positives = 73/129 (56%)

Query:    28 QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP 87
             +V+GNN E+QA+ E++NRPI +YS T +PINIFHGSY   N PIRLSY HGNHY+S+ D 
Sbjct:   285 KVFGNNTEMQAMAELFNRPIEVYSKTIDPINIFHGSYK-GNYPIRLSYLHGNHYDSIYDL 343

Query:    88 RRMTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECM 147
                +VG GLGF+                           +  E    +D + TE EIE  
Sbjct:   344 NNPSVGVGLGFADFHPGAADKSQMETAIKTSEFDLIDQQIYDESLLETDWKETELEIEEA 403

Query:   148 VMEVSRAEY 156
             V+  SRAEY
Sbjct:   404 VLAASRAEY 412

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|I3L773 OTUD5 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 253 (94.1 bits), Expect = 7.6e-21, P = 7.6e-21
 Identities = 50/135 (37%), Positives = 74/135 (54%)

Query:    30 YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
             +GN++E+QA+ EMYNRP+ +Y Y+TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct:   278 HGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNK 337

Query:    90 MTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECMVM 149
              T+G GLG    +                        +L + +  +D E T + IE  V 
Sbjct:   338 ATIGVGLGLPSFKPGFAEQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 397

Query:   150 EVSRAEYLAGDNLKQ 164
               S  ++L  D  KQ
Sbjct:   398 RESYLQWLR-DQEKQ 411

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

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

GO:0032496 "response to lipopolysaccharide" evidence=IEA

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

MGI|MGI:1859615 Otud5 "OTU domain containing 5" [Mus musculus (taxid:10090)]

 Score = 253 (94.1 bits), Expect = 7.6e-21, P = 7.6e-21
 Identities = 50/135 (37%), Positives = 74/135 (54%)

Query:    30 YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
             +GN++E+QA+ EMYNRP+ +Y Y+TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct:   279 HGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNK 338

Query:    90 MTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECMVM 149
              T+G GLG    +                        +L + +  +D E T + IE  V 
Sbjct:   339 ATIGVGLGLPSFKPGFAEQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 398

Query:   150 EVSRAEYLAGDNLKQ 164
               S  ++L  D  KQ
Sbjct:   399 RESYLQWLR-DQEKQ 412

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

GO:0005575 "cellular_component" evidence=ND

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

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

GO:0016787 "hydrolase activity" evidence=IEA

GO:0032496 "response to lipopolysaccharide" evidence=ISO

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

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

RGD|1563027 Otud5 "OTU domain containing 5" [Rattus norvegicus (taxid:10116)]

 Score = 253 (94.1 bits), Expect = 7.6e-21, P = 7.6e-21
 Identities = 50/135 (37%), Positives = 74/135 (54%)

Query:    30 YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
             +GN++E+QA+ EMYNRP+ +Y Y+TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct:   279 HGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNK 338

Query:    90 MTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECMVM 149
              T+G GLG    +                        +L + +  +D E T + IE  V 
Sbjct:   339 ATIGVGLGLPSFKPGFAEQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 398

Query:   150 EVSRAEYLAGDNLKQ 164
               S  ++L  D  KQ
Sbjct:   399 RESYLQWLR-DQEKQ 412

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

GO:0006508 "proteolysis" evidence=IEA

GO:0032496 "response to lipopolysaccharide" evidence=IEA;ISO;ISS

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

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

UNIPROTKB|E1BFW9 OTUD5 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 253 (94.1 bits), Expect = 7.7e-21, P = 7.7e-21
 Identities = 50/135 (37%), Positives = 74/135 (54%)

Query:    30 YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
             +GN++E+QA+ EMYNRP+ +Y Y+TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct:   279 HGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNK 338

Query:    90 MTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECMVM 149
              T+G GLG    +                        +L + +  +D E T + IE  V 
Sbjct:   339 ATIGVGLGLPSFKPGFAEQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 398

Query:   150 EVSRAEYLAGDNLKQ 164
               S  ++L  D  KQ
Sbjct:   399 RESYLQWLR-DQEKQ 412

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

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

GO:0032496 "response to lipopolysaccharide" evidence=IEA

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

UNIPROTKB|Q640H3 otud5-b "OTU domain-containing protein 5-B" [Xenopus laevis (taxid:8355)]

 Score = 252 (93.8 bits), Expect = 7.7e-21, P = 7.7e-21
 Identities = 50/135 (37%), Positives = 73/135 (54%)

Query:    30 YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
             +GN++E+QA+ EMYNRP+ +Y Y TEPIN FHG    ++ PIR+SYH   HYNS+V+P +
Sbjct:   237 HGNHIEMQAMAEMYNRPVEVYQYGTEPINTFHGIQQNEDEPIRVSYHRNIHYNSVVNPNK 296

Query:    90 MTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECMVM 149
              T+G GLG    +  +                     +L + +  +D E T + IE  V 
Sbjct:   297 ATIGVGLGLPSFKPGHAEQSLMKSAIRTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 356

Query:   150 EVSRAEYLAGDNLKQ 164
               S  ++L  D  KQ
Sbjct:   357 RESYLQWLR-DQEKQ 370

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

GO:0032496 "response to lipopolysaccharide" evidence=ISS

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

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

UNIPROTKB|Q7ZX21 otud5-a "OTU domain-containing protein 5-A" [Xenopus laevis (taxid:8355)]

 Score = 249 (92.7 bits), Expect = 1.6e-20, P = 1.6e-20
 Identities = 50/135 (37%), Positives = 72/135 (53%)

Query:    30 YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
             +GN++E+QA+ EMYNRP+ +Y Y TEPIN FHG    ++ PIR+SYH   HYNS+V+P +
Sbjct:   232 HGNHIEMQAMAEMYNRPVEVYQYGTEPINTFHGIQKNEDEPIRVSYHRNIHYNSVVNPNK 291

Query:    90 MTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECMVM 149
              T+G GLG    +                        +L + +  +D E T + IE  V 
Sbjct:   292 ATIGVGLGLPSFKPGYAEQSLMKSAIRTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 351

Query:   150 EVSRAEYLAGDNLKQ 164
               S  ++L  D  KQ
Sbjct:   352 RESYLQWLR-DQEKQ 365

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

GO:0032496 "response to lipopolysaccharide" evidence=ISS

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

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

UNIPROTKB|Q6GL44 otud5 "OTU domain-containing protein 5" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 248 (92.4 bits), Expect = 2.1e-20, P = 2.1e-20
 Identities = 50/135 (37%), Positives = 72/135 (53%)

Query:    30 YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
             +GN++E+QA+ EMYNRP+ +Y Y TEPIN FHG    ++ PIR+SYH   HYNS+V+P +
Sbjct:   237 HGNHIEMQAMAEMYNRPVEVYQYGTEPINTFHGIQQNEDEPIRVSYHRNIHYNSVVNPNK 296

Query:    90 MTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECMVM 149
              T+G GLG    +                        +L + +  +D E T + IE  V 
Sbjct:   297 ATIGVGLGLPSFKPGFAEQSLMKSAIRTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 356

Query:   150 EVSRAEYLAGDNLKQ 164
               S  ++L  D  KQ
Sbjct:   357 RESYLQWLR-DQEKQ 370

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

GO:0032496 "response to lipopolysaccharide" evidence=ISS

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

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

ZFIN|ZDB-GENE-030616-61 otud5a "OTU domain containing 5a" [Danio rerio (taxid:7955)]

 Score = 241 (89.9 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 49/135 (36%), Positives = 72/135 (53%)

Query:    30 YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
             +GN++E+QA+ EMYNRP+ +Y   TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct:   277 HGNHIEMQAMAEMYNRPVEVYQSGTEPINTFHGIHQNNDEPIRVSYHRNIHYNSVVNPNK 336

Query:    90 MTVGAGLGFSCLRGTNXXXXXXXXXXXXXXXXXXXNALLAEGRFYSDLELTEKEIECMVM 149
              T+G GLG    +                        +L + +  +D E T + IE  V 
Sbjct:   337 ATIGVGLGLPAFKPGFADQSLMKNAIKTSEESWIEQQMLEDKKRATDWEATNEAIEEQVA 396

Query:   150 EVSRAEYLAGDNLKQ 164
               S  ++L  D  KQ
Sbjct:   397 RESYLQWLR-DQEKQ 410

GO:0005575 "cellular_component" evidence=ND

GO:0032496 "response to lipopolysaccharide" evidence=ISS

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

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

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

GO:0006508 "proteolysis" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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	255
pfam02338	123	pfam02338, OTU, OTU-like cysteine protease	5e-09

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

 Score = 52.9 bits (127), Expect = 5e-09
 Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 9/62 (14%)

Query: 29  VYGNNVEIQALCEMYNRPIHIYSYTTEPINIF---HGSYNTDN--PPIRLSYHH----GN 79
            +G N+EI AL  +   PI +Y      I ++   +G+Y   N  P IRLSY      GN
Sbjct: 62  AWGGNIEIFALAHILRVPIIVYKLQGGRITVYIKIYGTYLPLNKKPVIRLSYLGLEYTGN 121

Query: 80  HY 81
           HY
Sbjct: 122 HY 123

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	255
KOG2606	302	consensus OTU (ovarian tumor)-like cysteine protea	99.78
PF02338	121	OTU: OTU-like cysteine protease; InterPro: IPR0033	98.92
KOG3288	307	consensus OTU-like cysteine protease [Signal trans	98.5
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	98.05
KOG2605	371	consensus OTU (ovarian tumor)-like cysteine protea	97.71
PF10275	244	Peptidase_C65: Peptidase C65 Otubain; InterPro: IP	97.49
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	97.25
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	97.08
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	96.7
KOG3991	256	consensus Uncharacterized conserved protein [Funct	96.08
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	93.28
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	91.14
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	88.48
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	87.1
PF09288	55	UBA_3: Fungal ubiquitin-associated domain ; InterP	83.84

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

Probab=99.78  E-value=9.1e-20  Score=168.64  Aligned_cols=80  Identities=24%  Similarity=0.420  Sum_probs=67.0

Q ss_pred             ccccCCCCcc-hHHHHHcccCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCceeEecCCCCCCCCCEEEEecC-----CC
Q 025285            7 SVCNCDSHSF-VVKRFVLTSWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHH-----GN   79 (255)
Q Consensus         7 ~~~n~Df~~y-~fdeYc~rird~-~WGG~iELqALSelynrpI~Vyq~~~~pI~if~~e~~~~~~pI~LSYH~-----Ge   79 (255)
                      -.++.|..++ .|++||+.|+++ +|||+|||+|||++|.+||+||+.++++ .+++++|.+ .+||+|+||+     |+
T Consensus       213 ~eet~d~~~~~~f~~Yc~eI~~t~~WGgelEL~AlShvL~~PI~Vy~~~~p~-~~~geey~k-d~pL~lvY~rH~y~LGe  290 (302)
T KOG2606|consen  213 DEETGDSLGPEDFDKYCREIRNTAAWGGELELKALSHVLQVPIEVYQADGPI-LEYGEEYGK-DKPLILVYHRHAYGLGE  290 (302)
T ss_pred             CccccccCCHHHHHHHHHHhhhhccccchHHHHHHHHhhccCeEEeecCCCc-eeechhhCC-CCCeeeehHHhHHHHHh
Confidence            3444444333 399999999998 9999999999999999999999999775 556688875 6899999999     99


Q ss_pred             CcccccCCC
Q 025285           80 HYNSLVDPR   88 (255)
Q Consensus        80 HYNSV~~~~   88 (255)
                      ||||+.++.
T Consensus       291 HYNS~~~~~  299 (302)
T KOG2606|consen  291 HYNSVTPLK  299 (302)
T ss_pred             hhccccccc
Confidence            999998654

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

Probab=98.92  E-value=1.3e-09  Score=85.40  Aligned_cols=56  Identities=41%  Similarity=0.707  Sum_probs=43.2

Q ss_pred             CCCCCCCHHHHHHHHHhhCCCEEEEecCCCceeEe---cC--CCCCCCCCEEEEecC-----CCCc
Q 025285           26 WMQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIF---HG--SYNTDNPPIRLSYHH-----GNHY   81 (255)
Q Consensus        26 rd~~WGG~iELqALSelynrpI~Vyq~~~~pI~if---~~--e~~~~~~pI~LSYH~-----GeHY   81 (255)
                      ++++|||++||+|||++|++||.||+........+   .+  ......++|+|+|+.     ++||
T Consensus        56 ~~~~Wg~~~el~a~a~~~~~~I~v~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~~~~~l~~~~~Hy  121 (121)
T PF02338_consen   56 KPGTWGGEIELQALANVLNRPIIVYSSSDGDNVVFIKFTGKYPPLESPPPICLCYHGHLYYTGNHY  121 (121)
T ss_dssp             STTSHEEHHHHHHHHHHHTSEEEEECETTTBEEEEEEESCEESTTTTTTSEEEEEETEEEEETTEE
T ss_pred             cccccCcHHHHHHHHHHhCCeEEEEEcCCCCccceeeecCccccCCCCCeEEEEEcCCccCCCCCC
Confidence            45599999999999999999999998755432222   11  112357899999999     9998

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=98.50  E-value=2.7e-08  Score=92.02  Aligned_cols=66  Identities=26%  Similarity=0.373  Sum_probs=53.9

Q ss_pred             HHHHHcccCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCceeEecCCCCCCCCCEEEEecCCCCccccc
Q 025285           18 VKRFVLTSWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLV   85 (255)
Q Consensus        18 fdeYc~rird~-~WGG~iELqALSelynrpI~Vyq~~~~pI~if~~e~~~~~~pI~LSYH~GeHYNSV~   85 (255)
                      =.+||.+|++. .|||.|||..||..|++-|.|+..++..|.-|++.-+-++ -+.|. +.|.||+++.
T Consensus       165 n~eYc~WI~k~dsWGGaIElsILS~~ygveI~vvDiqt~rid~fged~~~~~-rv~ll-ydGIHYD~l~  231 (307)
T KOG3288|consen  165 NKEYCAWILKMDSWGGAIELSILSDYYGVEICVVDIQTVRIDRFGEDKNFDN-RVLLL-YDGIHYDPLA  231 (307)
T ss_pred             cHHHHHHHccccccCceEEeeeehhhhceeEEEEecceeeehhcCCCCCCCc-eEEEE-ecccccChhh
Confidence            47999997665 9999999999999999999999999998988865433233 34455 4599999986

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

Probab=98.05  E-value=3.3e-06  Score=79.20  Aligned_cols=65  Identities=22%  Similarity=0.198  Sum_probs=50.8

Q ss_pred             HHHHHcccCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCceeEecCCCCCCCCCEEEEecC-----CCCcccccC
Q 025285           18 VKRFVLTSWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHH-----GNHYNSLVD   86 (255)
Q Consensus        18 fdeYc~rird~-~WGG~iELqALSelynrpI~Vyq~~~~pI~if~~e~~~~~~pI~LSYH~-----GeHYNSV~~   86 (255)
                      |++||++++.. .||+.+|+||||.++++|+.++.-.++.|. ++..-  .+....+.|++     | |||+..+
T Consensus       236 ~dt~~ne~~~~a~~g~~~ei~qLas~lk~~~~~~nT~~~~ik-~n~c~--~~~~~e~~~~~Ha~a~G-H~n~~~d  306 (306)
T COG5539         236 WDTYVNEVLFDASDGITIEIQQLASLLKNPHYYTNTASPSIK-CNICG--TGFVGEKDYYAHALATG-HYNFGED  306 (306)
T ss_pred             HHHHHhhhcccccccchHHHHHHHHHhcCceEEeecCCceEE-eeccc--cccchhhHHHHHHHhhc-CccccCC
Confidence            99999998777 999999999999999999999988776543 32221  23456666766     8 9999853

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

Probab=97.71  E-value=3.2e-05  Score=74.62  Aligned_cols=71  Identities=17%  Similarity=0.173  Sum_probs=53.4

Q ss_pred             hHHHHHcc-cCCCCCCCHHHHHHHH---HhhCCCEEEEecCCCceeEecCCCCCCCCCEEEEecCCCCcccccCC
Q 025285           17 VVKRFVLT-SWMQVYGNNVEIQALC---EMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDP   87 (255)
Q Consensus        17 ~fdeYc~r-ird~~WGG~iELqALS---elynrpI~Vyq~~~~pI~if~~e~~~~~~pI~LSYH~GeHYNSV~~~   87 (255)
                      .|..|.++ .++++||+|+|+||+|   +...+|+.+++..........+........+++.|..-.|||.++..
T Consensus       270 ~~~~y~k~kr~~~~~gnhie~Qa~a~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~n~~~~~h~~~~~~~  344 (371)
T KOG2605|consen  270 DFTSYIKRKRADGEPGNHIEQQAAADIYEEIEKPLNITSFKDTCYIQTPPAIEESVKMEKYNFWVEVHYNTARHS  344 (371)
T ss_pred             chhhcccccccCCCCcchHHHhhhhhhhhhccccceeecccccceeccCcccccchhhhhhcccchhhhhhcccc
Confidence            48899999 5677999999999999   78889999988876543322233333444577777778999999866

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

Probab=97.49  E-value=0.00022  Score=63.56  Aligned_cols=69  Identities=25%  Similarity=0.386  Sum_probs=46.3

Q ss_pred             chHHHHHcc-cCCC-CCCCHHHHHHHHHhhCCCEEEEecCCC----ce--eEecCCCCCCCCCEEEEecCCCCccccc
Q 025285           16 FVVKRFVLT-SWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTE----PI--NIFHGSYNTDNPPIRLSYHHGNHYNSLV   85 (255)
Q Consensus        16 y~fdeYc~r-ird~-~WGG~iELqALSelynrpI~Vyq~~~~----pI--~if~~e~~~~~~pI~LSYH~GeHYNSV~   85 (255)
                      ..+++||++ ++.- .=.+|+.|.|||+++++||.|+-.+..    .+  ..+.+......+.|+|.|--| |||-++
T Consensus       167 ~tve~~C~~~Vep~~~Ead~v~i~ALa~aL~v~i~v~yld~~~~~~~~~~~~~~~~~~~~~~~i~LLyrpg-HYdIly  243 (244)
T PF10275_consen  167 LTVEEFCSQEVEPMGKEADHVQIIALAQALGVPIRVEYLDRSVEGDEVNRHEFPPDNESQEPQITLLYRPG-HYDILY  243 (244)
T ss_dssp             S-HHHHHHHHTSSTT--B-HHHHHHHHHHHT--EEEEESSSSGCSTTSEEEEES-SSTTSS-SEEEEEETB-EEEEEE
T ss_pred             CCHHHHHHhhcccccccchhHHHHHHHHHhCCeEEEEEecCCCCCCccccccCCCccCCCCCEEEEEEcCC-cccccc
Confidence            458999988 6664 788999999999999999999987643    11  222222234678999999888 999765

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.

>cd00194 UBA Ubiquitin Associated domain

Probab=97.25  E-value=0.00048  Score=44.84  Aligned_cols=37  Identities=30%  Similarity=0.470  Sum_probs=34.6

Q ss_pred             chHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHH
Q 025285          206 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       206 ~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      ++.|+.|++|||+..++++|....+-|++.-+.||++
T Consensus         2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~   38 (38)
T cd00194           2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE   38 (38)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence            5689999999999999999999999999999999974

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=97.08  E-value=0.001  Score=43.76  Aligned_cols=35  Identities=31%  Similarity=0.435  Sum_probs=32.1

Q ss_pred             chHHHHHHHhChhHHHHHHHHhhccCChhHHHHHH
Q 025285          206 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYL  240 (255)
Q Consensus       206 ~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~  240 (255)
                      .+.|+.|+.|||+..++.+|....|-|+|.-+.||
T Consensus         3 ~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L   37 (37)
T PF00627_consen    3 EEKVQQLMEMGFSREQAREALRACNGNVERAVDWL   37 (37)
T ss_dssp             HHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence            56799999999999999999999999999999987

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

>smart00165 UBA Ubiquitin associated domain

Probab=96.70  E-value=0.0026  Score=41.18  Aligned_cols=36  Identities=28%  Similarity=0.471  Sum_probs=33.4

Q ss_pred             chHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHH
Q 025285          206 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL  241 (255)
Q Consensus       206 ~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~  241 (255)
                      ++.++.|++|||+..++++|...-|-|++.-+.||+
T Consensus         2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~   37 (37)
T smart00165        2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL   37 (37)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence            467999999999999999999999999999999984

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.

>KOG3991 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.08  E-value=0.0092  Score=55.11  Aligned_cols=76  Identities=25%  Similarity=0.362  Sum_probs=54.4

Q ss_pred             ccCCC-Ccch-----HHHHHcc-cCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCce-eEecCCCC-CCCCCEEEEecCC
Q 025285            9 CNCDS-HSFV-----VKRFVLT-SWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEPI-NIFHGSYN-TDNPPIRLSYHHG   78 (255)
Q Consensus         9 ~n~Df-~~y~-----fdeYc~r-ird~-~WGG~iELqALSelynrpI~Vyq~~~~pI-~if~~e~~-~~~~pI~LSYH~G   78 (255)
                      .|+|| .+|+     .+.||.+ ++.- .=-|||+|-|||+.+++.|.|--.+...- .++|-.+. ...|.|.|.|-.|
T Consensus       169 ~~adfy~pFI~e~~tV~~fC~~eVEPm~kesdhi~I~ALs~Al~i~irVey~dr~~~~~~~hH~fpe~s~P~I~LLYrpG  248 (256)
T KOG3991|consen  169 SNADFYQPFIDEGMTVKAFCTQEVEPMYKESDHIHITALSQALGIRIRVEYVDRGSGDTVNHHDFPEASAPEIYLLYRPG  248 (256)
T ss_pred             hChhhhhccCCCCCcHHHHHHhhcchhhhccCceeHHHHHhhhCceEEEEEecCCCCCCCCCCcCccccCceEEEEecCC
Confidence            56776 6664     8999999 5443 55799999999999999998876543211 22222232 3567899998866


Q ss_pred             CCccccc
Q 025285           79 NHYNSLV   85 (255)
Q Consensus        79 eHYNSV~   85 (255)
                       |||-++
T Consensus       249 -HYdilY  254 (256)
T KOG3991|consen  249 -HYDILY  254 (256)
T ss_pred             -cccccc
Confidence             999887

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

Probab=93.28  E-value=0.012  Score=55.70  Aligned_cols=65  Identities=14%  Similarity=0.212  Sum_probs=48.3

Q ss_pred             HHHHHcccCCC-CCC-CHHHHHHHHHhhCCCEEEEecCCCceeEecCCCCCCCCCEEEEecCCCCccccc
Q 025285           18 VKRFVLTSWMQ-VYG-NNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLV   85 (255)
Q Consensus        18 fdeYc~rird~-~WG-G~iELqALSelynrpI~Vyq~~~~pI~if~~e~~~~~~pI~LSYH~GeHYNSV~   85 (255)
                      --.||.+++.. .|| |++|+-+||..+++.|.|.......+..|++.-  -...+++.|- |.||+...
T Consensus       164 ~i~y~~~i~k~d~~~dG~ieia~iS~~l~v~i~~Vdv~~~~~dr~~~~~--~~q~~~i~f~-g~hfD~~t  230 (306)
T COG5539         164 VIAYATWIVKPDSQGDGCIEIAIISDQLPVRIHVVDVDKDSEDRYNSHP--YVQRISILFT-GIHFDEET  230 (306)
T ss_pred             hHHHHHhhhccccCCCceEEEeEeccccceeeeeeecchhHHhhccCCh--hhhhhhhhhc-ccccchhh
Confidence            55899998776 999 999999999999999999988765544442211  1123555554 88999875

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=91.14  E-value=0.63  Score=45.31  Aligned_cols=42  Identities=21%  Similarity=0.317  Sum_probs=37.9

Q ss_pred             cCCcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHH
Q 025285          200 LSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL  241 (255)
Q Consensus       200 ~~~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~  241 (255)
                      ..++.+..+|+.+++|||.-.+|..|-..==-|||.-|-||+
T Consensus       151 ~~g~~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~  192 (378)
T TIGR00601       151 VVGSERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLL  192 (378)
T ss_pred             ccchHHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHH
Confidence            356788999999999999999999998877789999999998

All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]

Probab=88.48  E-value=1  Score=43.63  Aligned_cols=43  Identities=21%  Similarity=0.301  Sum_probs=37.9

Q ss_pred             ccCCcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHH
Q 025285          199 ELSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL  241 (255)
Q Consensus       199 ~~~~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~  241 (255)
                      ...++.++++|+.++.||+.-.+|+-|---==-+||.-|-|||
T Consensus       129 Lv~G~~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl  171 (340)
T KOG0011|consen  129 LVVGSEYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLL  171 (340)
T ss_pred             hhccchhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHh
Confidence            3456789999999999999999999987776789999999998

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=87.10  E-value=0.81  Score=44.55  Aligned_cols=43  Identities=21%  Similarity=0.319  Sum_probs=39.3

Q ss_pred             CcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHhC
Q 025285          202 DTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETG  244 (255)
Q Consensus       202 ~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~~  244 (255)
                      .+....+|+.|.+|||.-.+|||||---..|-+.-.|||+|-+
T Consensus       334 T~eE~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~~~  376 (378)
T TIGR00601       334 TPEEKEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLSQN  376 (378)
T ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHhhc
Confidence            3557789999999999999999999999999999999999854

All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle

Probab=83.84  E-value=1.1  Score=33.03  Aligned_cols=26  Identities=23%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhcc
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFG  230 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~g  230 (255)
                      ...-|..+++|||+.+.||+|.--.|
T Consensus         9 ~~~lVd~F~~mGF~~dkVvevlrrlg   34 (55)
T PF09288_consen    9 DKDLVDQFENMGFERDKVVEVLRRLG   34 (55)
T ss_dssp             SHHHHHHHHHHT--HHHHHHHHHHS-
T ss_pred             CHHHHHHHHHcCCcHHHHHHHHHHhC
Confidence            35678999999999999999998777

This domain is predominantly found in fungi []. ; PDB: 1TTE_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	255
3tmp_A	184	The Catalytic Domain Of Human Deubiquitinase Duba I		6e-19
3tmo_A	184	The Catalytic Domain Of Human Deubiquitinase Duba L		2e-17
3pfy_A	185	The Catalytic Domain Of Human Otud5 Length = 185		1e-15

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

Iteration: 1
 Score = 90.9 bits (224), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 38/73 (52%), Positives = 54/73 (73%), Gaps = 5/73 (6%)
Query: 30  YGNNVEIQALCEMYNRPIHIYSYTT-----EPINIFHGSYNTDNPPIRLSYHHGNHYNSL 84
           +GN++E+QA+ EMYNRP+ +Y Y+T     EPIN FHG +  ++ PIR+SYH   HYNS+
Sbjct: 112 HGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSYHRNIHYNSV 171
Query: 85  VDPRRMTVGAGLG 97
           V+P + T+G GLG
Sbjct: 172 VNPNKATIGVGLG 184

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

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 37/73 (50%), Positives = 51/73 (69%), Gaps = 5/73 (6%)
Query: 30  YGNNVEIQALCEMYNRPIHIYSYTT-----EPINIFHGSYNTDNPPIRLSYHHGNHYNSL 84
           +GN++E QA  E YNRP+ +Y Y+T     EPIN FHG +  ++ PIR+SYH   HYNS+
Sbjct: 112 HGNHIEXQAXAEXYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSYHRNIHYNSV 171
Query: 85  VDPRRMTVGAGLG 97
           V+P + T+G GLG
Sbjct: 172 VNPNKATIGVGLG 184

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

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 45/60 (75%)
Query: 30  YGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRR 89
           +GN++E QA  E YNRP+ +Y Y+TEPIN FHG +  ++ PIR+SYH   HYNS+V+P +
Sbjct: 125 HGNHIEXQAXAEXYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNK 184

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	255
3pfy_A	185	OTU domain-containing protein 5; structural genomi	2e-20
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	2e-14
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	1e-13
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	6e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
1tff_A	234	Ubiquitin thiolesterase protein OTUB2; hydrolase;	5e-05
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	1e-04
4dhi_B	284	Ubiquitin thioesterase otubain-like; ubiquitin E2	1e-04

>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 = 85.2 bits (210), Expect = 2e-20
 Identities = 33/63 (52%), Positives = 48/63 (76%)

Query: 27  MQVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVD 86
              +GN++E+QA+ EMYNRP+ +Y Y+TEPIN FHG +  ++ PIR+SYH   HYNS+V+
Sbjct: 122 NNCHGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVN 181

Query: 87  PRR 89
           P +
Sbjct: 182 PNK 184

>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 = 68.5 bits (167), Expect = 2e-14
 Identities = 9/65 (13%), Positives = 22/65 (33%), Gaps = 5/65 (7%)

Query: 25  SWMQ---VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNP--PIRLSYHHGN 79
             M     +G+ +E   L +     I I++            +   +    + L +    
Sbjct: 93  KRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDVFTAVNLLHSGQT 152

Query: 80  HYNSL 84
           H+++L
Sbjct: 153 HFDAL 157

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

 Score = 67.5 bits (164), Expect = 1e-13
 Identities = 18/126 (14%), Positives = 39/126 (30%), Gaps = 6/126 (4%)

Query: 25  SWMQ---VYGNNVEIQALCEMYNRPIHIYSYTTEP--INIFHGSYNTDNPPIRLSYHHGN 79
             M     +G+ +E   L +     I I++                     + L +    
Sbjct: 93  KRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDVFTAVNLLHSGQT 152

Query: 80  HYNSLVDPRRMTVGAGLGFSCL-RGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLE 138
           H+++L    +         S + R   VD+    ++ + Q  + +  AL +         
Sbjct: 153 HFDALRILPQFETDTREALSLMDRVIAVDQLTSSSSDELQDYEDLALALTSAEESNRRSS 212

Query: 139 LTEKEI 144
           L E  +
Sbjct: 213 LDEVTL 218

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

 Score = 56.5 bits (136), Expect = 6e-10
 Identities = 15/71 (21%), Positives = 29/71 (40%), Gaps = 6/71 (8%)

Query: 25  SWMQ---VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHY 81
            W+     +G  +EI  + +     I++       I  F+   +  +  I + + +G HY
Sbjct: 78  QWILKMESWGGAIEIGIISDALAVAIYVVDIDAVKIEKFNE--DKFDNYILILF-NGIHY 134

Query: 82  NSLVDPRRMTV 92
           +SL      TV
Sbjct: 135 DSLTMNEFKTV 145

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 48.3 bits (114), Expect = 1e-06
 Identities = 37/246 (15%), Positives = 82/246 (33%), Gaps = 52/246 (21%)

Query: 11  CDSHSFVVKRFVLTSWMQVYGNNVEIQALCEMYNRPIHIY--SYTTEPINIFHGSYNTDN 68
           C S+    K      W+ +  N    + + EM  + ++    ++T+   +  +      +
Sbjct: 171 CLSYKVQCKMDFKIFWLNL-KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 69  PPIRLSY--HHGNHYNSLVDPRRMTVGAGLGFSCLRGTNV-DKDQVKA-AIKAQ-----Q 119
               L        + N L+               L   NV +     A  +  +     +
Sbjct: 230 IQAELRRLLKSKPYENCLLV--------------LL--NVQNAKAWNAFNLSCKILLTTR 273

Query: 120 DQQIDNALLAEGRFYSDLE-----LTEKEIECMVMEVSRAEYLAGDNLKQQLGHKESSTS 174
            +Q+ + L A    +  L+     LT  E++ ++      +YL  D   Q L  +  +T+
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL-----LKYL--DCRPQDLPREVLTTN 326

Query: 175 GAEPSSSGARSSCSETKLEGGKGCELSDTVLSNSMQMVLSMGFSYLQVIE---AY---SI 228
              P      S  +E+  +G    +    V  + +  ++    + L+  E    +   S+
Sbjct: 327 ---PR---RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380

Query: 229 FGDDVD 234
           F     
Sbjct: 381 FPPSAH 386

>1tff_A Ubiquitin thiolesterase protein OTUB2; hydrolase; 2.10A {Homo sapiens} SCOP: d.3.1.11 Length = 234

 Score = 42.3 bits (99), Expect = 5e-05
 Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 2/59 (3%)

Query: 27  MQVYGNNVEIQALCEMYNRPIHI-YSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSL 84
           M    ++++I AL +  +  + + Y    +     H       P + L Y    HYN L
Sbjct: 171 MATECDHIQITALSQALSIALQVEYVDEMDTALNHHVFPEAATPSVYLLYKTS-HYNIL 228

>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 = 40.8 bits (95), Expect = 1e-04
 Identities = 13/60 (21%), Positives = 21/60 (35%), Gaps = 3/60 (5%)

Query: 27  MQVYGNNVEIQALCEMYNRPIHIYSYTTEPIN--IFHGSYNTDNPPIRLSYHHGNHYNSL 84
           M    +++ I AL +  +  I +             H       P + L Y  G HY+ L
Sbjct: 174 MCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIFPEGSEPKVYLLYRPG-HYDIL 232

>4dhi_B Ubiquitin thioesterase otubain-like; ubiquitin E2 enzyme fold, ubiquitination, hydrolase-ligase C; 1.80A {Caenorhabditis elegans} PDB: 4dhj_A 4dhz_A Length = 284

 Score = 41.3 bits (96), Expect = 1e-04
 Identities = 11/64 (17%), Positives = 20/64 (31%), Gaps = 7/64 (10%)

Query: 27  MQVYGNNVEIQALCEMYNRPIHIY------SYTTEPINIFHGSYNTDNPPIRLSYHHGNH 80
           M    +++ I +L +     + I       +                 P I L Y  G H
Sbjct: 209 MWKDADHLAINSLIKAAGTRVRIEYMDRTAAPNGGWHYDIPSDDQQIAPEITLLYRPG-H 267

Query: 81  YNSL 84
           Y+ +
Sbjct: 268 YDVI 271

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	255
3pfy_A	185	OTU domain-containing protein 5; structural genomi	99.85
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	99.79
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	99.73
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	99.67
1tff_A	234	Ubiquitin thiolesterase protein OTUB2; hydrolase;	99.44
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	99.38
4dhi_B	284	Ubiquitin thioesterase otubain-like; ubiquitin E2	99.03
4ddg_A	399	Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI	98.75
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	97.84
2ooa_A	52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	97.27
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	97.24
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	97.18
2jy5_A	52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	97.04
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	97.01
2ekk_A	47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	96.96
2d9s_A	53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	96.95
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	96.91
2oo9_A	46	E3 ubiquitin-protein ligase CBL; alpha-helical dom	96.87
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	96.83
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	96.79
2crn_A	64	Ubash3A protein; compact three-helix bundle, struc	96.76
2cpw_A	64	CBL-interacting protein STS-1 variant; ubiquitin a	96.69
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	96.66
2juj_A	56	E3 ubiquitin-protein ligase CBL; alpha helix, UBA	96.6
1dv0_A	47	DNA repair protein HHR23A; helical bundle, DNA bin	96.58
1wgn_A	63	UBAP1, ubiquitin associated protein; ubiquitin ass	96.54
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	96.51
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	96.42
1whc_A	64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	96.41
2dag_A	74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	96.4
1vej_A	74	Riken cDNA 4931431F19; UBA domain, three helix bun	96.27
2dai_A	83	Ubadc1, ubiquitin associated domain containing 1;	96.21
2dkl_A	85	Trinucleotide repeat containing 6C protein; TNRC6C	96.15
1vek_A	84	UBP14, ubiquitin-specific protease 14, putative; U	96.15
2dah_A	54	Ubiquilin-3; UBA domain, structural genomics, NPPS	95.23
2bwb_A	46	Ubiquitin-like protein DSK2; UBA, signaling protei	94.93
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	94.92
1wr1_B	58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	94.84
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	94.44
2qsf_X	171	RAD23, UV excision repair protein RAD23; alpha-bet	93.37
3zrh_A	454	Ubiquitin thioesterase zranb1; hydrolase, deubiqui	92.25
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	92.08
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	91.34
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	90.68
2dna_A	67	Unnamed protein product; ubiquitin associated doma	90.44
2cwb_A	108	Chimera of immunoglobulin G binding protein G and	90.12
3k9o_A	201	Ubiquitin-conjugating enzyme E2 K; E2-25K, complex	88.44
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	85.24
3dkb_A	390	Tumor necrosis factor, alpha-induced protein 3; OT	84.45

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

Probab=99.85  E-value=3.5e-22  Score=172.42  Aligned_cols=73  Identities=45%  Similarity=0.899  Sum_probs=52.5

Q ss_pred             HHHHHcccCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCceeEecCCCCCCCCCEEEEecCCCCcccccCCCCC
Q 025285           18 VKRFVLTSWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRM   90 (255)
Q Consensus        18 fdeYc~rird~-~WGG~iELqALSelynrpI~Vyq~~~~pI~if~~e~~~~~~pI~LSYH~GeHYNSV~~~~~p   90 (255)
                      |++||++|++. +|||++||+|||++|++||.||+.+++|++++.+...+..+||+|+||+++|||||++|.+|
T Consensus       112 ~e~Y~~~m~~~~~WGg~iEL~AlS~~~~v~I~V~~~~~~~i~i~~g~~~~~~~~I~L~Y~~~~HYnSv~~p~~~  185 (185)
T 3pfy_A          112 FTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNKA  185 (185)
T ss_dssp             --------------CCHHHHHHHHHHHTSCEEEESSCSSCSEEECTTSCCTTSCEEEEEETTTEEEEEECC---
T ss_pred             HHHHHHHhhCCCccchHHHHHHHHHhhCCcEEEEECCCCCeEEecCccCCCCCEEEEEECCCCCcccccCCCCC
Confidence            89999997665 99999999999999999999999998899988665445678999999999999999999875

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

Probab=99.79  E-value=6.1e-20  Score=162.25  Aligned_cols=108  Identities=11%  Similarity=0.104  Sum_probs=72.1

Q ss_pred             hHHHHHcccCC-CCCCCHHHHHHHHHhhCCCEEEEecCCC--c--eeEecCCCCCCCCCEEEEecCCCCcccccCCCCCC
Q 025285           17 VVKRFVLTSWM-QVYGNNVEIQALCEMYNRPIHIYSYTTE--P--INIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMT   91 (255)
Q Consensus        17 ~fdeYc~rird-~~WGG~iELqALSelynrpI~Vyq~~~~--p--I~if~~e~~~~~~pI~LSYH~GeHYNSV~~~~~pt   91 (255)
                      .|++||+++++ ++|||++||+|||++|++||+||+.+.+  +  +..|+++.  ..++|+|+||+|+|||||+.....+
T Consensus        87 ~feeY~~~m~~~g~WGG~iEL~AlS~~~~v~I~V~~~d~~g~~~~i~~fge~~--~~~~I~L~Y~g~~HYdSL~~~~d~~  164 (219)
T 3phu_A           87 SLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGD--VFTAVNLLHSGQTHFDALRILPQFE  164 (219)
T ss_dssp             CHHHHHHHHHSTTCCCCHHHHHHHHHHTTCCEEEEEESSSSBEEEEEEESSCC--TTTSEEEEEETTTEEEEEEECTTTC
T ss_pred             CHHHHHHHhcCCCccCCHHHHHHHHHHhCCCEEEEEecCCCCceeEEEecCCC--CCCeEEEEECCCcCchhheECCCCC
Confidence            48999999655 5999999999999999999999998766  3  44554443  4689999999999999999543322


Q ss_pred             CccCCCCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHhcCccccchHHHHHHHHHHH
Q 025285           92 VGAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMV  148 (255)
Q Consensus        92 iG~gLglp~~~p~~ad~~~~~~Ai~~se~~~ie~~ml~dk~~~tD~e~t~~eie~~v  148 (255)
                      -+          ..            +....+|+.|+.|+...||||.|.++.+-.+
T Consensus       165 ~~----------~~------------~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (219)
T 3phu_A          165 TD----------TR------------EALSLMDRVIAVDQLTSSSSDELQDYEDLAL  199 (219)
T ss_dssp             CS----------CC------------CCCCHHHHHHHHHHHHC--------------
T ss_pred             CC----------CC------------cchhHHHHHHHHHHHHhccHHhhhhHHHHHH
Confidence            11          11            1123488899999999999999987766533

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

Probab=99.73  E-value=2.6e-18  Score=150.18  Aligned_cols=67  Identities=19%  Similarity=0.258  Sum_probs=59.6

Q ss_pred             hHHHHHcccCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCceeEecCCCCCCCCCEEEEecCCCCcccccC
Q 025285           17 VVKRFVLTSWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVD   86 (255)
Q Consensus        17 ~fdeYc~rird~-~WGG~iELqALSelynrpI~Vyq~~~~pI~if~~e~~~~~~pI~LSYH~GeHYNSV~~   86 (255)
                      .|++||++|++. +||||+||+|||++|++||.||+..+.++.+|+++.  ..++|+|+|| |+|||||+.
T Consensus        72 ~~e~Y~~~m~~~~~WGg~iEL~Als~~~~~~I~V~~~~~~~~~~~~~~~--~~~~I~L~Y~-g~HYdsl~~  139 (212)
T 3by4_A           72 PNKDYAQWILKMESWGGAIEIGIISDALAVAIYVVDIDAVKIEKFNEDK--FDNYILILFN-GIHYDSLTM  139 (212)
T ss_dssp             CHHHHHHHTTSTTSCCCHHHHHHHHHHHTCEEEEEETTTTEEEEESTTT--CSEEEEEEEC-SSCEEEEEE
T ss_pred             CHHHHHHHhcCCCEEccHHHHHHHHHHHCCCEEEEECCCCCeEEeCCCC--CCCeEEEEEc-CCcceEEec
Confidence            499999997665 999999999999999999999998877788886655  5679999999 899999995

>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=99.67  E-value=4.8e-17  Score=139.83  Aligned_cols=69  Identities=13%  Similarity=0.148  Sum_probs=56.3

Q ss_pred             hHHHHHcccCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCc----eeEecCCCCCCCCCEEEEecCCCCcccccCC
Q 025285           17 VVKRFVLTSWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEP----INIFHGSYNTDNPPIRLSYHHGNHYNSLVDP   87 (255)
Q Consensus        17 ~fdeYc~rird~-~WGG~iELqALSelynrpI~Vyq~~~~p----I~if~~e~~~~~~pI~LSYH~GeHYNSV~~~   87 (255)
                      .|++||++++++ +|||++||+|||++|+++|+||+.+.+.    +..|+++.  ..++|+|+||+|+|||||+..
T Consensus        87 ~~~~Y~~~m~~~~~WGg~iEL~Als~~~~v~I~V~~~d~~~~~~~i~~f~~~~--~~~~I~L~Y~g~~HYdsl~~~  160 (185)
T 3phx_A           87 SLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGD--VFTAVNLLHSGQTHFDALRIL  160 (185)
T ss_dssp             CHHHHHHHHTSTTCCCBHHHHHHHHHHHCCCEEEEEC--CCBCCEEEEESSCC--TTTSEEEEEETTTEEEEEEEC
T ss_pred             CHHHHHHHhhCCCccCcHHHHHHHHHHHCCcEEEEEecCCCCceEEEEcCCCC--CCCEEEEEECCCcCchhceEC
Confidence            489999997655 9999999999999999999999976543    45564443  368999999988999999843

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

Probab=99.44  E-value=1.1e-13  Score=122.48  Aligned_cols=71  Identities=18%  Similarity=0.281  Sum_probs=53.2

Q ss_pred             chHHHHHcc-cCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCceeEecCCCC-CCCCCEEEEecCCCCcccccCC
Q 025285           16 FVVKRFVLT-SWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSYN-TDNPPIRLSYHHGNHYNSLVDP   87 (255)
Q Consensus        16 y~fdeYc~r-ird~-~WGG~iELqALSelynrpI~Vyq~~~~pI~if~~e~~-~~~~pI~LSYH~GeHYNSV~~~   87 (255)
                      +.|++||++ ++.. +||||+||+|||+++++||+|++.++.+-.+.+..+. .+.+.|+|+|+.| |||++++.
T Consensus       158 ~~~~~yC~~~ve~~~~~~~~iei~ALa~aL~v~I~V~~~d~~~~~~~~~~~~~~~~~~I~LlY~pg-HYdily~~  231 (234)
T 1tff_A          158 MDIKDFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMDTALNHHVFPEAATPSVYLLYKTS-HYNILYAA  231 (234)
T ss_dssp             SCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-------CCCCCCCSSCSEEEEEETT-EEEEEEEC
T ss_pred             CCHHHHHHHHhhhhhcccccHHHHHHHHHhCCCEEEEEcCCCCCccccccCCCCCCCeEEEEECCC-CceecccC
Confidence            369999995 8766 9999999999999999999999987765222212232 3467899999966 99999854

>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=99.38  E-value=4.2e-13  Score=118.53  Aligned_cols=66  Identities=26%  Similarity=0.347  Sum_probs=53.2

Q ss_pred             chHHHHHcc-cCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCc---ee--EecCCCCCCCCCEEEEecCCCCccccc
Q 025285           16 FVVKRFVLT-SWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEP---IN--IFHGSYNTDNPPIRLSYHHGNHYNSLV   85 (255)
Q Consensus        16 y~fdeYc~r-ird~-~WGG~iELqALSelynrpI~Vyq~~~~p---I~--if~~e~~~~~~pI~LSYH~GeHYNSV~   85 (255)
                      ..|++||++ ++.. +||||+||+|||++|++||+|++.++.+   ++  .|.+   ...++|+|+||.| |||+++
T Consensus       161 ~~~e~yc~~~ve~~~~~~~~i~i~ALa~al~v~I~V~~~d~~~~~~v~~~~f~~---~~~p~I~LlY~pg-HYdiLy  233 (234)
T 2zfy_A          161 RTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIFPE---GSEPKVYLLYRPG-HYDILY  233 (234)
T ss_dssp             CCHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-CCSSCCEEEEEST---TCCCSEEEEEETT-EEEEEE
T ss_pred             CCHHHHHHHHhhhHhhcCCHHHHHHHHHHhCCCEEEEEcCCCCCCcccceeCCC---CCCCeEEEEECCC-CcccCC
Confidence            369999986 8765 9999999999999999999999987653   32  2322   2467899999987 999987

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

Probab=99.03  E-value=2.2e-10  Score=105.00  Aligned_cols=74  Identities=16%  Similarity=0.194  Sum_probs=53.8

Q ss_pred             hHHHHHcc-cCCC-CCCCHHHHHHHHHhhCCCEEEEecCCCc---e--eE-ecCCCCCCCCCEEEEecCCCCcccccCCC
Q 025285           17 VVKRFVLT-SWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTEP---I--NI-FHGSYNTDNPPIRLSYHHGNHYNSLVDPR   88 (255)
Q Consensus        17 ~fdeYc~r-ird~-~WGG~iELqALSelynrpI~Vyq~~~~p---I--~i-f~~e~~~~~~pI~LSYH~GeHYNSV~~~~   88 (255)
                      .+++||++ ++.. +||||+||+|||++|++||.|.+.++.+   +  .. |.+......+.|+|.|..| |||-++ |.
T Consensus       197 ~v~~yC~~eVe~~~~e~d~leI~ALa~aL~v~I~V~ylDrs~g~~v~~h~~fp~~~~~~~p~I~LLYrpg-HYDILY-~~  274 (284)
T 4dhi_B          197 TVAQYCEQEIEPMWKDADHLAINSLIKAAGTRVRIEYMDRTAAPNGGWHYDIPSDDQQIAPEITLLYRPG-HYDVIY-KK  274 (284)
T ss_dssp             CHHHHHHHHTSSTTCCCCHHHHHHHHHHTTCCEEEEESSGGGCTTSSSEEEESCCCSCCCCSEEEEEETT-EEEEEE-EC
T ss_pred             CHHHHHHHhceehhhcccHHHHHHHHHHhCCcEEEEEecCCCCCCCcccccCCCCCCCCCCEEEEeecCC-Cccccc-cC
Confidence            48999995 8887 9999999999999999999998875421   1  22 4222112347899999865 999988 55


Q ss_pred             CCCC
Q 025285           89 RMTV   92 (255)
Q Consensus        89 ~pti   92 (255)
                      .|+-
T Consensus       275 ~p~~  278 (284)
T 4dhi_B          275 DSTE  278 (284)
T ss_dssp             C---
T ss_pred             CCCc
Confidence            5543

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

Probab=98.75  E-value=4.1e-09  Score=99.12  Aligned_cols=65  Identities=26%  Similarity=0.375  Sum_probs=51.7

Q ss_pred             hHHHHHcc-cCCC-CCCCHHHHHHHHHhhCCCEEEEecCCC---cee--EecCCCCCCCCCEEEEecCCCCccccc
Q 025285           17 VVKRFVLT-SWMQ-VYGNNVEIQALCEMYNRPIHIYSYTTE---PIN--IFHGSYNTDNPPIRLSYHHGNHYNSLV   85 (255)
Q Consensus        17 ~fdeYc~r-ird~-~WGG~iELqALSelynrpI~Vyq~~~~---pI~--if~~e~~~~~~pI~LSYH~GeHYNSV~   85 (255)
                      .+++||++ ++.. +||||+||+|||+.|+++|.|+..++.   .++  .+ ++  .+.+.|+|.|..| |||.++
T Consensus       327 ~v~~yc~~~ve~~~~e~d~l~I~ALa~al~v~I~V~yld~~~~~~v~~~~~-~~--~~~~~I~LLYrPg-HYDiLY  398 (399)
T 4ddg_A          327 TVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIF-PE--GSEPKVYLLYRPG-HYDILY  398 (399)
T ss_dssp             CHHHHHHHHTSSTTCCBCHHHHHHHHHHHTCCCEEEECSCCSSSCCCEEET-TT--TCCCCCEEEEETB-EEEEEE
T ss_pred             CHHHHHHHhceeHHhhCcHHHHHHHHHHcCCcEEEEEcCCCCCCccceeeC-CC--CCCCEEEEEEcCC-ccccCC
Confidence            49999995 8887 999999999999999999999875542   222  22 22  2568899999777 999886

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=97.84  E-value=3.3e-05  Score=57.98  Aligned_cols=62  Identities=23%  Similarity=0.217  Sum_probs=47.4

Q ss_pred             ccccccCCCCcccCCCccccCCcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          181 SGARSSCSETKLEGGKGCELSDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       181 s~A~~s~s~~~~~~~~~~~~~~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      ++++.+...+.....+. +..++.....|+.|+.|||+-.+|+.|+...+-|+|.-+.||++-
T Consensus         6 ~~~r~~~~~~a~~~~~~-~~~~~~~ee~I~~L~eMGF~r~~a~~AL~~~~~nve~Ave~Ll~~   67 (73)
T 1vg5_A            6 SGSRQAPIANAAVLPQS-QGRVAASEEQIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQ   67 (73)
T ss_dssp             CCCCCCCCSCCCCCSSS-CCCSCCCHHHHHHHHTTTCCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             ccccccccccCCCCCCC-ccCCcccHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            34444444443333222 345677889999999999999999999999999999999999963

>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A

Probab=97.27  E-value=0.00031  Score=50.01  Aligned_cols=39  Identities=18%  Similarity=0.319  Sum_probs=36.7

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      .+..|+.|++|||+-..||+|-.+...|+|---+.|+|-
T Consensus        11 ~~~~Ia~Lm~mGFsr~~ai~AL~~a~nnve~AaniLlef   49 (52)
T 2ooa_A           11 VDAKIAKLMGEGYAFEEVKRALEIAQNNVEVARSILREF   49 (52)
T ss_dssp             CHHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            448999999999999999999999999999999999985

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=97.24  E-value=0.00025  Score=47.04  Aligned_cols=37  Identities=22%  Similarity=0.313  Sum_probs=34.9

Q ss_pred             chHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHH
Q 025285          206 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       206 ~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      .+.|+.|++|||+-.+++.|+...+-|++.-+.||++
T Consensus         5 e~~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~L~~   41 (43)
T 2g3q_A            5 SLAVEELSGMGFTEEEAHNALEKCNWDLEAATNFLLD   41 (43)
T ss_dssp             HHHHHHHHTTTSCHHHHHHHHHHHTSCHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCcCHHHHHHHHHc
Confidence            4789999999999999999999999999999999985

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=97.18  E-value=0.00039  Score=47.83  Aligned_cols=41  Identities=22%  Similarity=0.329  Sum_probs=38.6

Q ss_pred             CcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHH
Q 025285          202 DTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       202 ~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      ++...+.|+.|+.|||+-.+|+.|....|-|+|.-+.||++
T Consensus         5 ~~~~~~~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~e~L~~   45 (49)
T 1ify_A            5 GSEYETMLTEIMSMGYERERVVAALRASYNNPHRAVEYLLT   45 (49)
T ss_dssp             SHHHHHHHHHHHHTTCCHHHHHHHHHTTTSCSHHHHHHHHH
T ss_pred             CccCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            56678899999999999999999999999999999999987

>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus, phosphoprotein, proteasome, signaling protein; NMR {Homo sapiens} PDB: 2jy6_B

Probab=97.04  E-value=0.0009  Score=46.59  Aligned_cols=42  Identities=19%  Similarity=0.358  Sum_probs=38.0

Q ss_pred             CCcccchHHHHHHHhCh-hHHHHHHHHhhccCChhHHHHHHHH
Q 025285          201 SDTVLSNSMQMVLSMGF-SYLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       201 ~~~~~~~~~~~~~~mgf-~~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      +...+.+.|+.|+.||| +-.++++|...-|-|++.-+.||+.
T Consensus         8 p~~~~~~~l~~L~~MGF~~~~~~~~AL~~t~gn~e~A~e~L~~   50 (52)
T 2jy5_A            8 PEVRFQQQLEQLSAMGFLNREANLQALIATGGDINAAIERLLG   50 (52)
T ss_dssp             TTTTTHHHHHHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHTT
T ss_pred             chhHHHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            44567889999999999 9999999999999999999999974

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=97.01  E-value=0.00063  Score=43.80  Aligned_cols=39  Identities=28%  Similarity=0.470  Sum_probs=35.1

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHH
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL  241 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~  241 (255)
                      |...+.|+.|++|||+-.+++.|+.--+-|++.-+.||+
T Consensus         2 ~~~~~~i~~L~~mGf~~~~a~~AL~~~~~n~e~A~~~L~   40 (40)
T 1z96_A            2 PGLNSKIAQLVSMGFDPLEAAQALDAANGDLDVAASFLL   40 (40)
T ss_dssp             -CHHHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHC
T ss_pred             chHHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHC
Confidence            456778999999999999999999999999999999985

>2ekk_A UBA domain from E3 ubiquitin-protein ligase HUWE1; ubiquitin associated domain, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.96  E-value=0.00081  Score=45.49  Aligned_cols=38  Identities=26%  Similarity=0.400  Sum_probs=35.2

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHH
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      +..+.|+.|++|||+-.+++.|+..-| |++.-+.||++
T Consensus         8 ~~~~~v~~L~~MGF~~~~a~~AL~~~~-n~e~A~~~L~~   45 (47)
T 2ekk_A            8 VNQQQLQQLMDMGFTREHAMEALLNTS-TMEQATEYLLT   45 (47)
T ss_dssp             SCHHHHHHHHHHHCCHHHHHHHHHHSC-SHHHHHHHHHT
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHcC-CHHHHHHHHHc
Confidence            467889999999999999999999998 89999999985

>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=96.95  E-value=0.0014  Score=46.74  Aligned_cols=43  Identities=23%  Similarity=0.358  Sum_probs=39.0

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHhCC
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGS  245 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~~~  245 (255)
                      +..+..|+.|++|||+...||+|-.+...|+|---+.|+|-.+
T Consensus         7 ~~~e~~I~~L~~lGF~r~~ai~AL~~a~nnve~Aa~iL~ef~~   49 (53)
T 2d9s_A            7 GQLSSEIERLMSQGYSYQDIQKALVIAHNNIEMAKNILREFSG   49 (53)
T ss_dssp             SCSHHHHHHHHHHTCCHHHHHHHHHHTTTCHHHHHHHHHHHTS
T ss_pred             cchHHHHHHHHHcCCCHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3456779999999999999999999999999999999999864

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=96.91  E-value=0.00092  Score=48.45  Aligned_cols=41  Identities=22%  Similarity=0.315  Sum_probs=37.8

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHhC
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETG  244 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~~  244 (255)
                      +..+.|+.|+.|||+-.+|+.|+...+-|++.-+.||++-.
T Consensus         8 ~~~~~I~~L~~MGF~~~~a~~AL~~~~~nve~A~e~L~~~~   48 (63)
T 1wji_A            8 VDEKALKHITEMGFSKEASRQALMDNGNNLEAALNVLLTSN   48 (63)
T ss_dssp             SCHHHHHHHHTTTCCHHHHHHHHHHTTSCHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHCC
Confidence            45788999999999999999999999999999999999853

>2oo9_A E3 ubiquitin-protein ligase CBL; alpha-helical domain, homodimer; 2.10A {Homo sapiens}

Probab=96.87  E-value=0.0015  Score=45.45  Aligned_cols=43  Identities=23%  Similarity=0.383  Sum_probs=39.5

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHhCC
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGS  245 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~~~  245 (255)
                      +.++..|.+|++|||+...|++|-.|=.-|++---+-|+|-.+
T Consensus         2 ~~~e~~I~~L~s~Gf~~~~~~rAL~ia~Nnie~A~nIL~ef~~   44 (46)
T 2oo9_A            2 SQLSSEIENLMSQGYSYQDIQKALVIAQNNIEMAKNILREFAA   44 (46)
T ss_dssp             CHHHHHHHHHHHTTBCHHHHHHHHHHTTTCHHHHHHHHHHHCC
T ss_pred             cchHHHHHHHHHcCCCHHHHHHHHHHhhccHHHHHHHHHHhcc
Confidence            5688999999999999999999999999999998888888764

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}

Probab=96.83  E-value=0.0011  Score=46.33  Aligned_cols=43  Identities=21%  Similarity=0.352  Sum_probs=38.9

Q ss_pred             CcccchHHHHHHHhCh-hHHHHHHHHhhccCChhHHHHHHHHhC
Q 025285          202 DTVLSNSMQMVLSMGF-SYLQVIEAYSIFGDDVDSMVCYLLETG  244 (255)
Q Consensus       202 ~~~~~~~~~~~~~mgf-~~~~~~~ay~i~gd~~d~~~~~~~e~~  244 (255)
                      ...+.+.|+.|++||| .-.+++.|...-|-|++.-+.||++-+
T Consensus         8 e~~~~~~l~~L~~MGF~~~~~~~~AL~~t~gnve~Ave~L~~~~   51 (53)
T 2knz_A            8 EVRFQQQLEQLNSMGFINREANLQALIATGGDINAAIERLLGSQ   51 (53)
T ss_dssp             HHHHHHHHHHHHTTTCCCHHHHHHHHHHHTSCHHHHHHHHHHCC
T ss_pred             hhHHHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence            3457788999999999 999999999999999999999999855

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.79  E-value=0.0017  Score=46.52  Aligned_cols=40  Identities=20%  Similarity=0.355  Sum_probs=37.1

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      ...+.|+.|+.|||+-.+++.|....+-+++.-+.||++-
T Consensus         8 ~~~~~v~~L~~MGF~~~~a~~AL~~t~~nve~A~e~L~~~   47 (63)
T 2dak_A            8 PPEDCVTTIVSMGFSRDQALKALRATNNSLERAVDWIFSH   47 (63)
T ss_dssp             CCHHHHHHHHHHTCCHHHHHHHHHHTTSCSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            5678899999999999999999999999999999999974

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=96.76  E-value=0.0016  Score=47.32  Aligned_cols=42  Identities=17%  Similarity=0.330  Sum_probs=37.7

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHHhC
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLETG  244 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e~~  244 (255)
                      ......|+.|++|||+-.+++.|...-|. +++.-++||++-.
T Consensus         7 ~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~wL~~h~   49 (64)
T 2crn_A            7 GSSPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHC   49 (64)
T ss_dssp             CCSCSSHHHHHHTSCCHHHHHHHHHHHTSCCHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHhCC
Confidence            34667899999999999999999999887 9999999999864

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=96.69  E-value=0.0031  Score=45.67  Aligned_cols=39  Identities=23%  Similarity=0.416  Sum_probs=35.8

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHHh
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLET  243 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e~  243 (255)
                      ..+.|+.|++|||+-.+++.|+..-|- |++.-+.||++-
T Consensus        19 ~e~~i~~L~~MGF~~~~a~~AL~~t~~~nve~A~ewL~~~   58 (64)
T 2cpw_A           19 HGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFSH   58 (64)
T ss_dssp             CCCHHHHHHHHTCCHHHHHHHHHHTTTSCHHHHHHHHHSC
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHcCCCCHHHHHHHHHhC
Confidence            456899999999999999999999996 999999999974

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=96.66  E-value=0.0047  Score=47.40  Aligned_cols=41  Identities=22%  Similarity=0.330  Sum_probs=38.0

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      ++....|+.|+.|||+-.+|+.|....|.|++.-+.||+.-
T Consensus        27 ~~~ee~I~~Lv~MGF~~~~A~~AL~~t~gdve~A~e~L~sh   67 (83)
T 1veg_A           27 SPSQESINQLVYMGFDTVVAEAALRVFGGNVQLAAQTLAHH   67 (83)
T ss_dssp             CCCHHHHHHHHHHSCCHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            34678999999999999999999999999999999999985

>2juj_A E3 ubiquitin-protein ligase CBL; alpha helix, UBA domain, calcium, cytoplasm, metal- binding, phosphorylation, proto-oncogene, SH2 domain; NMR {Homo sapiens}

Probab=96.60  E-value=0.0026  Score=45.86  Aligned_cols=45  Identities=24%  Similarity=0.327  Sum_probs=40.9

Q ss_pred             CcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHhCCc
Q 025285          202 DTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSS  246 (255)
Q Consensus       202 ~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~~~~  246 (255)
                      .+..+..|++|++|||+...|++|-.|=..|++---+.|+|-.+-
T Consensus         4 ~~p~e~~Ia~L~smGfsr~da~~AL~ia~Ndv~~AtNiLlEf~~~   48 (56)
T 2juj_A            4 SPQLSSEIENLMSQGYSYQDIQKALVIAQNNIEMAKNILREFVSI   48 (56)
T ss_dssp             CHHHHHHHHHHHTTTCCHHHHHHHHHHTTTCSHHHHHHHHHSCCC
T ss_pred             CCCChHHHHHHHHcCCCHHHHHHHHHHhcccHHHHHHHHHHHHcc
Confidence            345678999999999999999999999999999999999998754

>1dv0_A DNA repair protein HHR23A; helical bundle, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 1f4i_A

Probab=96.58  E-value=0.00046  Score=47.29  Aligned_cols=40  Identities=20%  Similarity=0.313  Sum_probs=36.5

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      .-.+.|+.|++|||+-.+||+||.--|-|++.-.+||++-
T Consensus         3 ~e~eaI~rL~~mGF~~~~a~~Al~a~~~n~e~A~~~Lf~~   42 (47)
T 1dv0_A            3 QEKEAIERLKALGFPESLVIQAYFACEKNENLAANFLLSQ   42 (47)
T ss_dssp             CCHHHHTTTTTTTCCHHHHHHHHTTTTSCHHHHHHHTTSC
T ss_pred             chHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            4467899999999999999999999999999999999863

>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=96.54  E-value=0.0018  Score=47.67  Aligned_cols=41  Identities=24%  Similarity=0.506  Sum_probs=37.3

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      +--++.|.+|++|||++.|++.|---=|-|++..+.||.--
T Consensus        17 ~se~e~V~~LvsMGFs~~qA~kALKat~~NvErAaDWLFSH   57 (63)
T 1wgn_A           17 PSERQCVETVVNMGYSYECVLRAMKKKGENIEQILDYLFAH   57 (63)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHCSCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            34567899999999999999999999999999999999865

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=96.51  E-value=0.0031  Score=46.77  Aligned_cols=41  Identities=20%  Similarity=0.334  Sum_probs=37.9

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      .+..+.|+.|+.|||+-.+|+.|+..-|-|++.-+.||++-
T Consensus        27 ~~~~~~v~~L~~MGF~~~~a~~AL~~t~~nve~Ave~L~~~   67 (73)
T 1wiv_A           27 DIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVFNN   67 (73)
T ss_dssp             SSCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHhC
Confidence            35678999999999999999999999999999999999974

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=96.42  E-value=0.0031  Score=50.79  Aligned_cols=39  Identities=26%  Similarity=0.533  Sum_probs=35.7

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      -...|+.|++|||+..+|..|-.-.|.|++.+++||++-
T Consensus         8 e~~~v~~l~~MGFp~~~~~kAl~~~g~~~e~amewL~~h   46 (118)
T 4ae4_A            8 ERQCVETVVNMGYSYECVLRAMKAAGANIEQILDYLFAH   46 (118)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHCcCHHHHHHHHHHh
Confidence            345789999999999999999999999999999999975

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1

Probab=96.41  E-value=0.0038  Score=45.09  Aligned_cols=40  Identities=18%  Similarity=0.396  Sum_probs=36.5

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhcc-CChhHHHHHHHHh
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFG-DDVDSMVCYLLET  243 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~g-d~~d~~~~~~~e~  243 (255)
                      ...+.|+.|++|||+-.+++.|+..-| -+++.-+.||++-
T Consensus         8 ~~~~~v~~L~~MGF~~~~a~~AL~~t~~~nve~A~ewLl~~   48 (64)
T 1whc_A            8 AELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEH   48 (64)
T ss_dssp             CCCCHHHHHHTTTCCHHHHHHHHHHHTSCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHhcCCCHHHHHHHHHhC
Confidence            456789999999999999999999995 7999999999985

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.40  E-value=0.0037  Score=46.49  Aligned_cols=40  Identities=13%  Similarity=0.260  Sum_probs=37.0

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHHh
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLET  243 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e~  243 (255)
                      +..+.|+.|+.|||+-.+++.|+..-|. +++.-++||++-
T Consensus         8 ~~e~~v~~L~~MGF~~~~a~~AL~~t~n~~ve~A~ewL~~~   48 (74)
T 2dag_A            8 LDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSH   48 (74)
T ss_dssp             SCHHHHHHHHHHSCCHHHHHHHHHHHTSCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHhC
Confidence            4678999999999999999999999985 899999999985

>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=96.27  E-value=0.012  Score=44.07  Aligned_cols=41  Identities=15%  Similarity=0.244  Sum_probs=37.0

Q ss_pred             cccchHHHHHHHhCh-hHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          203 TVLSNSMQMVLSMGF-SYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf-~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      ..+.+.|+.|+.||| .-.++++|...-+-|++.-|.||+.-
T Consensus        27 ~~ye~qi~qL~eMGF~dr~~~~~AL~~t~Gnve~Ave~L~~~   68 (74)
T 1vej_A           27 GRYQQELEELKALGFANRDANLQALVATDGDIHAAIEMLLGA   68 (74)
T ss_dssp             TTSHHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHhC
Confidence            467889999999999 57888999999999999999999963

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.21  E-value=0.0062  Score=46.35  Aligned_cols=40  Identities=20%  Similarity=0.273  Sum_probs=37.4

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      +..+.|+.|++|||+-.+++.|+..-+-+++.-++||++-
T Consensus        28 ~~e~~i~~L~~MGF~~~~a~~AL~~t~~nve~A~ewL~~~   67 (83)
T 2dai_A           28 VDEAALRQLTEMGFPENRATKALQLNHMSVPQAMEWLIEH   67 (83)
T ss_dssp             CCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHHG
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            5678899999999999999999999999999999999985

>2dkl_A Trinucleotide repeat containing 6C protein; TNRC6C, KIAA1582 protein, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=96.15  E-value=0.0065  Score=46.49  Aligned_cols=39  Identities=26%  Similarity=0.310  Sum_probs=36.7

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      ..+.|+.|+.|||+-.+|++|+...+-+++.-+.||++-
T Consensus        21 n~~~I~qL~~MGF~~~~a~~AL~~~n~n~e~A~ewL~~h   59 (85)
T 2dkl_A           21 MSRLIKQLTDMGFPREPAEEALKSNNMNLDQAMSALLEK   59 (85)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHTT
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHHC
Confidence            378999999999999999999999999999999999985

>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=96.15  E-value=0.0061  Score=46.37  Aligned_cols=40  Identities=25%  Similarity=0.326  Sum_probs=36.2

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHHh
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLET  243 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e~  243 (255)
                      .....|+.|++|||+-.+++.|...-|+ +++.-++||++-
T Consensus        28 ~~e~~v~~L~~MGF~~~~a~~AL~~t~n~n~e~A~ewL~~h   68 (84)
T 1vek_A           28 ANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSH   68 (84)
T ss_dssp             CCHHHHHHHHHHTCCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            4678999999999999999999888874 999999999985

>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=95.23  E-value=0.036  Score=38.92  Aligned_cols=43  Identities=26%  Similarity=0.310  Sum_probs=37.5

Q ss_pred             ccchHHHHHHHhChhHH-HHHHHHhhccCChhHHHHHHHHhCCc
Q 025285          204 VLSNSMQMVLSMGFSYL-QVIEAYSIFGDDVDSMVCYLLETGSS  246 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~-~~~~ay~i~gd~~d~~~~~~~e~~~~  246 (255)
                      .+.+.|+.|..|||+-. .+++|...-+-|++.-|.||+.-+..
T Consensus         8 ~~~~~l~~L~~MGF~d~~~n~~AL~~~~Gdv~~Ave~L~~~~~~   51 (54)
T 2dah_A            8 HFQVQLEQLRSMGFLNREANLQALIATGGDVDAAVEKLRQSSGP   51 (54)
T ss_dssp             SSHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHHHSCS
T ss_pred             hHHHHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhCCCc
Confidence            46788999999999655 57999999999999999999987643

>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A {Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A

Probab=94.93  E-value=0.032  Score=37.92  Aligned_cols=39  Identities=21%  Similarity=0.297  Sum_probs=34.7

Q ss_pred             ccchHHHHHHHhChh-HHHHHHHHhhccCChhHHHHHHHH
Q 025285          204 VLSNSMQMVLSMGFS-YLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~-~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      .+.+.|+.|++|||+ -.++++|...-+-|++.-|.||+.
T Consensus         6 ~~~~~i~~L~~MGF~d~~~~~~AL~~~~gnv~~Ave~L~~   45 (46)
T 2bwb_A            6 RYEHQLRQLNDMGFFDFDRNVAALRRSGGSVQGALDSLLN   45 (46)
T ss_dssp             HTHHHHHHHHHTTCCCHHHHHHHHHHHTTCHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHc
Confidence            467899999999996 567899999999999999999973

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=94.92  E-value=0.025  Score=45.00  Aligned_cols=40  Identities=18%  Similarity=0.334  Sum_probs=37.0

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      .....|+.|++|||+-.+++.|+...|-|++.-+.||+..
T Consensus        77 ~~e~~v~~L~~MGF~~~~a~~AL~~~~~~~e~A~e~L~~~  116 (126)
T 2lbc_A           77 PPEEIVAIITSMGFQRNQAIQALRATNNNLERALDWIFSH  116 (126)
T ss_dssp             CCHHHHHHHHHHTSCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             cCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            4678899999999999999999999999999999999864

>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=94.84  E-value=0.029  Score=40.07  Aligned_cols=40  Identities=20%  Similarity=0.289  Sum_probs=36.0

Q ss_pred             cccchHHHHHHHhChh-HHHHHHHHhhccCChhHHHHHHHH
Q 025285          203 TVLSNSMQMVLSMGFS-YLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~-~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      ..+.+.|+.|++|||. -.++++|...-+-|++.-|.||+.
T Consensus        15 ~~~~~qi~~L~~MGF~d~~~~~~AL~~~~gnve~Ave~L~~   55 (58)
T 1wr1_B           15 ERYEHQLRQLNDMGFFDFDRNVAALRRSGGSVQGALDSLLN   55 (58)
T ss_dssp             HHTHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            4577899999999995 668899999999999999999985

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A

Probab=94.44  E-value=0.04  Score=51.72  Aligned_cols=42  Identities=21%  Similarity=0.333  Sum_probs=38.4

Q ss_pred             CCcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHH
Q 025285          201 SDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       201 ~~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      .++.....|+.|++|||+-.+|+.|-..=+-|+|.-+.||+.
T Consensus       164 ~g~~~~~~i~~l~~MGf~~~~~~~AL~a~~nn~~~A~e~L~~  205 (368)
T 1oqy_A          164 TGSEYETMLTEIMSMGYERERVVAALRASYNNPHRAVEYLLT  205 (368)
T ss_dssp             CTTTHHHHHHHHHTTTCCSHHHHHHHHHSCSSTTHHHHTTTT
T ss_pred             CCcchHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence            456788999999999999999999999999999999999973

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

Probab=92.25  E-value=0.11  Score=50.39  Aligned_cols=65  Identities=26%  Similarity=0.431  Sum_probs=39.0

Q ss_pred             HHHHHHHHHhhCCCEEEEecCC---------Ccee---EecCCCCC----CCCCEEEEecCCCCcccccCCCC---CCCc
Q 025285           33 NVEIQALCEMYNRPIHIYSYTT---------EPIN---IFHGSYNT----DNPPIRLSYHHGNHYNSLVDPRR---MTVG   93 (255)
Q Consensus        33 ~iELqALSelynrpI~Vyq~~~---------~pI~---if~~e~~~----~~~pI~LSYH~GeHYNSV~~~~~---ptiG   93 (255)
                      ++=+-+||++++|||+||....         .|+.   ||.+-.-+    -..||.|.|++| ||-+++....   +.+|
T Consensus       280 eiHIFvLAhVLRRPIIV~~d~~lrs~~Ge~l~pi~f~GIYLPLlwpp~~C~rsPIvLgY~~g-HFsaLV~~~~~~~~~~~  358 (454)
T 3zrh_A          280 QTHIFVLAHILRRPIIVYGVKYYKSFRGETLGYTRFQGVYLPLLWEQSFCWKSPIALGYTRG-HFSALVAMENDGYGNRG  358 (454)
T ss_dssp             HHHHHHHHHHTTSCEEEEECSSCC-----CCCCCCCCEEECCTTSCGGGSCSCCEEEEEETT-EEEEEEEBCCC------
T ss_pred             HHHHHHHHHHhcCCeEEeccccccccCCCcCCCcccceeeccCcCCHHHhcCCceEEEeccc-ceeeeeecccccccccc
Confidence            6778999999999999998532         1333   22111000    357999999987 9999985543   2345


Q ss_pred             cCCCC
Q 025285           94 AGLGF   98 (255)
Q Consensus        94 ~gLgl   98 (255)
                      .|.++
T Consensus       359 a~~~~  363 (454)
T 3zrh_A          359 AGANL  363 (454)
T ss_dssp             -----
T ss_pred             ccccc
Confidence            55443

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=92.08  E-value=0.11  Score=41.20  Aligned_cols=39  Identities=15%  Similarity=0.239  Sum_probs=35.7

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHHh
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLET  243 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e~  243 (255)
                      ....++.|++|||+-.++-+|-..-|. +++.-++||++-
T Consensus         3 d~~~l~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~wL~~~   42 (126)
T 2lbc_A            3 DESSVMQLAEMGFPLEACRKAVYFTGNMGAEVAFNWIIVH   42 (126)
T ss_dssp             CTHHHHHHHTTSSCCHHHHHHHHHHTSCCHHHHHHHHHHG
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHcCCCCHHHHHHHHHHh
Confidence            457899999999999999999999987 899999999984

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A

Probab=91.34  E-value=0.1  Score=48.98  Aligned_cols=41  Identities=20%  Similarity=0.306  Sum_probs=38.1

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      +.....|..|++|||+-.+|++||...+-|++.-++||++-
T Consensus       323 ~ee~eaI~rL~~mGF~~~~a~~al~a~~~n~e~A~~~L~~~  363 (368)
T 1oqy_A          323 PQEKEAIERLKALGFPESLVIQAYFACEKNENLAANFLLSQ  363 (368)
T ss_dssp             TTTHHHHHHHHHHTCCSHHHHHHTSSSSSCSSHHHHHHHHH
T ss_pred             CcCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHhhC
Confidence            45678999999999999999999999999999999999975

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=90.68  E-value=0.26  Score=39.49  Aligned_cols=39  Identities=21%  Similarity=0.289  Sum_probs=36.0

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHH
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      +.++.|.+|..|||+-.+|.+|--..+-|+|.-+-||+=
T Consensus        75 ~~~~~v~~L~eMGF~~~~a~~AL~~~~nd~erAlewL~~  113 (118)
T 4ae4_A           75 EFLQLMSKFKEMGFELKDIKEVLLLHNNDQDNALEDLMA  113 (118)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             cCHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            356899999999999999999999999999999999973

>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein, proteasome, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=90.44  E-value=0.3  Score=35.98  Aligned_cols=42  Identities=19%  Similarity=0.283  Sum_probs=36.4

Q ss_pred             cccchHHHHHHHhChhHH-HHHHHHhhccCChhHHHHHHHHhC
Q 025285          203 TVLSNSMQMVLSMGFSYL-QVIEAYSIFGDDVDSMVCYLLETG  244 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~-~~~~ay~i~gd~~d~~~~~~~e~~  244 (255)
                      ..+.+.|+.|.+|||.-. ++++|-..-+-|++.-|.||+.-+
T Consensus        17 ~~y~~ql~qL~~MGF~d~~an~~AL~at~Gnve~Ave~L~~~~   59 (67)
T 2dna_A           17 VRFSKEMECLQAMGFVNYNANLQALIATDGDTNAAIYKLKSSQ   59 (67)
T ss_dssp             HHTHHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHcCCCcHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            357789999999999655 559999999999999999999864

>2cwb_A Chimera of immunoglobulin G binding protein G and ubiquitin-like protein SB132; helical bundle, protein binding; NMR {Streptococcus SP} PDB: 2den_A

Probab=90.12  E-value=0.33  Score=38.75  Aligned_cols=42  Identities=17%  Similarity=0.279  Sum_probs=37.3

Q ss_pred             cccchHHHHHHHhChh-HHHHHHHHhhccCChhHHHHHHHHhC
Q 025285          203 TVLSNSMQMVLSMGFS-YLQVIEAYSIFGDDVDSMVCYLLETG  244 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~-~~~~~~ay~i~gd~~d~~~~~~~e~~  244 (255)
                      ..+.+.|+.|..|||. -.++++|...-+-|++.-|.||+.-|
T Consensus        64 ~~~~~qL~qL~eMGF~d~~~ni~AL~~t~Gdve~AVe~L~~~~  106 (108)
T 2cwb_A           64 SQWQPQLQQLRDMGIQDDELSLRALQATGGDIQAALELIFAGG  106 (108)
T ss_dssp             CTTHHHHHHHHTTTCCCHHHHHHHHHHHTSCHHHHHHHHHHTS
T ss_pred             cchHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHhcC
Confidence            3567899999999995 47999999999999999999999754

>3k9o_A Ubiquitin-conjugating enzyme E2 K; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 3k9p_A 1yla_A 2o25_A

Probab=88.44  E-value=0.32  Score=41.34  Aligned_cols=40  Identities=28%  Similarity=0.288  Sum_probs=37.2

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHH
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e  242 (255)
                      +.....|+.|+.|||+-.+|++|.+-.+=|++.-+.||++
T Consensus       161 ~~~eekV~~l~~MGf~~~~a~~AL~~~~wd~~~A~e~L~~  200 (201)
T 3k9o_A          161 PEYTKKIENLCAMGFDRNAVIVALSSKSWDVETATELLLS  200 (201)
T ss_dssp             HHHHHHHHHHHTTTCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            3568899999999999999999999999999999999986

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1

Probab=85.24  E-value=0.72  Score=36.71  Aligned_cols=43  Identities=19%  Similarity=0.269  Sum_probs=39.2

Q ss_pred             CcccchHHHHHHHh-ChhHHHHHHHHhhccCChhHHHHHHHHhC
Q 025285          202 DTVLSNSMQMVLSM-GFSYLQVIEAYSIFGDDVDSMVCYLLETG  244 (255)
Q Consensus       202 ~~~~~~~~~~~~~m-gf~~~~~~~ay~i~gd~~d~~~~~~~e~~  244 (255)
                      ++.....|+.|+.| ||+-.+|+.|.+--+=|++.-|.+|+|-+
T Consensus        36 d~d~eekVk~L~EmtG~seeeAr~AL~~~ngDl~~AI~~Lleg~   79 (104)
T 1wj7_A           36 DADFEEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGN   79 (104)
T ss_dssp             CHHHHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHTCS
T ss_pred             cccHHHHHHHHHHhhCCCHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence            34567899999999 99999999999999999999999999864

>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=84.45  E-value=1.1  Score=42.74  Aligned_cols=54  Identities=30%  Similarity=0.532  Sum_probs=37.6

Q ss_pred             HHHHHHHHHhhCCCEEEEecC-------CC---cee---EecC-----CCCCCCCCEEEEecCCCCcccccCCC
Q 025285           33 NVEIQALCEMYNRPIHIYSYT-------TE---PIN---IFHG-----SYNTDNPPIRLSYHHGNHYNSLVDPR   88 (255)
Q Consensus        33 ~iELqALSelynrpI~Vyq~~-------~~---pI~---if~~-----e~~~~~~pI~LSYH~GeHYNSV~~~~   88 (255)
                      ++=+-+||++++|||+||...       ++   |+.   ||-+     ++ --+.||.|.|.+| ||-+++...
T Consensus       213 eiHIFvLAhVLRRPIIV~~d~~lr~~~~Ge~~~Pi~f~GIYLPLlwpp~~-C~rsPI~LgY~s~-HFsaLV~me  284 (390)
T 3dkb_A          213 EIHIFVLCNILRRPIIVISDKMLRSLESGSNFAPLKVGGIYLPLHWPAQE-CYRYPIVLGYDSH-HFVPLVTLK  284 (390)
T ss_dssp             HHHHHHHHHHTTSCEEEEECCCCTTCCCC----CCCCCEEECCTTSCTTS-SCSSCEEEEECSS-CEEEEEEBC
T ss_pred             HHHHHHHHHHhcCCEEEEechhhccccCCCccCcCccCceecCCcCCHHH-ccCCceEEEeccC-ceeeeeecc
Confidence            788999999999999999622       21   222   2211     11 1356999999985 999999654

---

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	255
d1tffa_	228	d.3.1.11 (A:) Ubiquitin thiolesterase protein OTUB	4e-12
d1vg5a_	73	a.5.2.1 (A:) Rhomboid family protein At3g58460 {Th	0.003

>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 = 61.5 bits (149), Expect = 4e-12
 Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 2/59 (3%)

Query: 27  MQVYGNNVEIQALCEMYNRPIHIYSYTTEPINI-FHGSYNTDNPPIRLSYHHGNHYNSL 84
           M    ++++I AL +  +  + +         +  H       P + L Y    HYN L
Sbjct: 165 MATECDHIQITALSQALSIALQVEYVDEMDTALNHHVFPEAATPSVYLLYKTS-HYNIL 222

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 33.4 bits (76), Expect = 0.003
 Identities = 12/40 (30%), Positives = 19/40 (47%)

Query: 208 SMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSSS 247
            +Q +++MGF   QV  A +   DD+   V  L+     S
Sbjct: 32  QIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQSGPS 71

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	255
d1tffa_	228	Ubiquitin thiolesterase protein OTUB2 (Otubain-2)	99.22
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	97.98
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	97.32
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	97.28
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	97.18
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	96.87
d2cpwa1	51	Cbl-interacting protein p70, STS1 {Human (Homo sap	96.63
d1veka_	84	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	95.6
d1whca_	64	UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [Ta	95.53
d2crna1	51	Suppressor of T-cell receptor signaling 2 (STS-2)	95.51
d1oqya2	44	DNA repair protein Hhr23a {Human (Homo sapiens) [T	95.05
d2g3qa1	43	Endocytic protein Ede1, YBL047C {Saccharomyces cer	94.67
d1vega_	83	NEDD8 ultimate buster-1 (Nub1) {Mouse (Mus musculu	92.86
d1z96a1	38	UBA-domain protein mud1 {Schizosaccharomyces pombe	92.49
d1veja1	61	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	82.27

>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=99.22  E-value=6e-12  Score=107.65  Aligned_cols=70  Identities=19%  Similarity=0.290  Sum_probs=51.6

Q ss_pred             hHHHHHcc-cCC-CCCCCHHHHHHHHHhhCCCEEEEecCCCceeEecCCC-CCCCCCEEEEecCCCCcccccCC
Q 025285           17 VVKRFVLT-SWM-QVYGNNVEIQALCEMYNRPIHIYSYTTEPINIFHGSY-NTDNPPIRLSYHHGNHYNSLVDP   87 (255)
Q Consensus        17 ~fdeYc~r-ird-~~WGG~iELqALSelynrpI~Vyq~~~~pI~if~~e~-~~~~~pI~LSYH~GeHYNSV~~~   87 (255)
                      .+++||.+ ++. ++||||+||+|||++|++||+|+..+..+..+..-.+ ..+.++|+|+|..| |||.+++.
T Consensus       153 ~~~~yc~~~v~~~~~e~d~ieI~aLa~al~v~I~V~~~d~~~~~~~~~~~~~~~~~~I~Lly~pg-HYdiLY~~  225 (228)
T d1tffa_         153 DIKDFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMDTALNHHVFPEAATPSVYLLYKTS-HYNILYAA  225 (228)
T ss_dssp             CHHHHHHHHTSSTTCCCCHHHHHHHHHHHTCCEEEEECC-------CCCCCCCSSCSEEEEEETT-EEEEEEEC
T ss_pred             cHHHHHHHHHccccccCCcHHHHHHHHHhCCCEEEEEecCCCCccccccCCCCCCCEEEEEeCCC-CcccCccC
Confidence            58999997 766 4999999999999999999999987654332221122 23567999999755 99999854

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.98  E-value=6.5e-06  Score=59.79  Aligned_cols=41  Identities=27%  Similarity=0.342  Sum_probs=38.5

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      ....+.|+.|+.|||+..++++|+...+.|++..++||++-
T Consensus        27 ~~~ee~i~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~Ll~~   67 (73)
T d1vg5a_          27 AASEEQIQKLVAMGFDRTQVEVALAAADDDLTVAVEILMSQ   67 (73)
T ss_dssp             CCCHHHHHHHHTTTCCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             CcCHHHHHHHHHhCCCHHHHHHHHHHhCCCHHHHHHHHHhC
Confidence            35688999999999999999999999999999999999986

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.32  E-value=7.8e-05  Score=52.64  Aligned_cols=41  Identities=24%  Similarity=0.506  Sum_probs=38.2

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      +...+.|+.|++|||+..++++|+-.-|-|++.-+.||++-
T Consensus        17 ~~de~~v~~L~~MGF~~~~a~~AL~~~~~n~e~A~~~Lls~   57 (63)
T d1wgna_          17 PSERQCVETVVNMGYSYECVLRAMKKKGENIEQILDYLFAH   57 (63)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHCSCHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHHHHhC
Confidence            45678999999999999999999999999999999999985

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.28  E-value=0.00027  Score=51.00  Aligned_cols=42  Identities=19%  Similarity=0.330  Sum_probs=38.6

Q ss_pred             CcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          202 DTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       202 ~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      .++....|+.|++|||+-.++++|...=|-+++.-+.||++-
T Consensus        26 ~~~d~~~i~~L~~MGF~~~~a~~AL~~~~~n~e~Av~~Lls~   67 (73)
T d1wiva_          26 SDIDQSSVDTLLSFGFAEDVARKALKASGGDIEKATDWVFNN   67 (73)
T ss_dssp             CSSCHHHHHHHHHHTCCHHHHHHHHHHTTSCHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            345678999999999999999999999999999999999984

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.18  E-value=6.2e-05  Score=49.19  Aligned_cols=39  Identities=23%  Similarity=0.346  Sum_probs=36.7

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHH
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL  241 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~  241 (255)
                      +...+.|+.|++|||+-.+|++|-..-+-|+|.-++||+
T Consensus         2 ~~~e~~i~~L~~MGF~~~~a~~AL~~~~~N~e~A~~~Ll   40 (41)
T d1oqya1           2 SEYETMLTEIMSMGYERERVVAALRASYNNPHRAVEYLL   40 (41)
T ss_dssp             TTHHHHHHHHHTTTCCSHHHHHHHHHSCSSTTHHHHTTT
T ss_pred             hhHHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence            567889999999999999999999999999999999986

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=0.00053  Score=47.89  Aligned_cols=41  Identities=22%  Similarity=0.302  Sum_probs=38.3

Q ss_pred             cccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          203 TVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      .+....|+.|+.|||+-.+++.|...-|.+++.-+.||++-
T Consensus         7 ~~d~~~v~~L~~MGF~~~~a~~AL~~~~~~~e~A~~wL~~~   47 (63)
T d1wjia_           7 GVDEKALKHITEMGFSKEASRQALMDNGNNLEAALNVLLTS   47 (63)
T ss_dssp             SSCHHHHHHHHTTTCCHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            35688999999999999999999999999999999999996

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Cbl-interacting protein p70, STS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.63  E-value=0.00087  Score=45.43  Aligned_cols=38  Identities=24%  Similarity=0.430  Sum_probs=34.6

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHH
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLE  242 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e  242 (255)
                      .+++|++|++|||+-.++..|--.-|. +++.-+.||++
T Consensus        12 ~~~~l~~L~~MGF~~~~a~~AL~~t~n~~ve~A~~WLl~   50 (51)
T d2cpwa1          12 HGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFS   50 (51)
T ss_dssp             CCCHHHHHHHHTCCHHHHHHHHHHTTTSCHHHHHHHHHS
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHHCCCCHHHHHHHHHc
Confidence            456799999999999999999999776 89999999986

>d1veka_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=95.60  E-value=0.0097  Score=43.60  Aligned_cols=41  Identities=24%  Similarity=0.290  Sum_probs=36.9

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHHhC
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLETG  244 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e~~  244 (255)
                      .....|+.|+.|||+-.++..|.-.-|. +++.-++||++-.
T Consensus        28 ~d~~~v~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~Wl~~h~   69 (84)
T d1veka_          28 ANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHM   69 (84)
T ss_dssp             CCHHHHHHHHHHTCCHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHHcC
Confidence            3568999999999999999999988876 9999999999863

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA/UBX 33.3 kDa protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.53  E-value=0.0059  Score=42.63  Aligned_cols=40  Identities=18%  Similarity=0.407  Sum_probs=36.1

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHHh
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLET  243 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e~  243 (255)
                      +....|+.|+.|||+-.++.+|--.=|. +++.-+.||++-
T Consensus         8 ~d~~~l~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~Wl~~h   48 (64)
T d1whca_           8 AELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEH   48 (64)
T ss_dssp             CCCCHHHHHHTTTCCHHHHHHHHHHHTSCCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHHC
Confidence            4568999999999999999999888776 899999999985

>d2crna1 a.5.2.1 (A:8-58) Suppressor of T-cell receptor signaling 2 (STS-2) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Suppressor of T-cell receptor signaling 2 (STS-2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.0067  Score=40.68  Aligned_cols=39  Identities=18%  Similarity=0.391  Sum_probs=34.4

Q ss_pred             chHHHHHHHhChhHHHHHHHHhhccC-ChhHHHHHHHHhC
Q 025285          206 SNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLETG  244 (255)
Q Consensus       206 ~~~~~~~~~mgf~~~~~~~ay~i~gd-~~d~~~~~~~e~~  244 (255)
                      ++.|++|++|||+-.++..|--.=|. ++..-+.||++-.
T Consensus         3 p~~v~~L~~MGF~~~~a~~Al~~t~n~~ve~A~~Wl~~h~   42 (51)
T d2crna1           3 PSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHC   42 (51)
T ss_dssp             CSSHHHHHHTSCCHHHHHHHHHHHTSCCHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHCCCCHHHHHHHHHHcC
Confidence            45699999999999999999977776 8999999999863

>d1oqya2 a.5.2.1 (A:317-360) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.05  E-value=0.0059  Score=40.45  Aligned_cols=41  Identities=20%  Similarity=0.309  Sum_probs=37.1

Q ss_pred             ccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHhC
Q 025285          204 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETG  244 (255)
Q Consensus       204 ~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~~  244 (255)
                      .-..+|..|.+|||+-.+|||||---.-|-..-.|||++.|
T Consensus         3 ee~~aIeRL~~LGF~r~~viqay~ACdKNEelAaN~L~~~~   43 (44)
T d1oqya2           3 QEKEAIERLKALGFPESLVIQAYFACEKNENLAANFLLSQN   43 (44)
T ss_dssp             TTHHHHHHHHHHTCCSHHHHHHTSSSSSCSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhCcCHHHHHHHHHHcc
Confidence            34578999999999999999999999999999999999864

>d2g3qa1 a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL047C {Saccharomyces cerevisiae [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Endocytic protein Ede1, YBL047C
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=94.67  E-value=0.015  Score=38.29  Aligned_cols=39  Identities=21%  Similarity=0.292  Sum_probs=35.4

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHh
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLET  243 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~  243 (255)
                      .+-+|+.|+.|||+-.++.+|-.=-.=|.+.-+|||++.
T Consensus         4 k~~ai~eL~~MGF~e~~A~~AL~k~~wnleaAtN~LLd~   42 (43)
T d2g3qa1           4 KSLAVEELSGMGFTEEEAHNALEKCNWDLEAATNFLLDS   42 (43)
T ss_dssp             HHHHHHHHHTTTSCHHHHHHHHHHHTSCHHHHHHHHHTC
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence            346899999999999999999999999999999999973

>d1vega_ a.5.2.1 (A:) NEDD8 ultimate buster-1 (Nub1) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: NEDD8 ultimate buster-1 (Nub1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.86  E-value=0.18  Score=36.87  Aligned_cols=45  Identities=24%  Similarity=0.366  Sum_probs=39.6

Q ss_pred             CcccchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHHHhCCc
Q 025285          202 DTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETGSS  246 (255)
Q Consensus       202 ~~~~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~e~~~~  246 (255)
                      .+.-.++|.-||-|||+-.-+-.|--.||+||-.----|..-|+.
T Consensus        26 ~~~sQesidqLvYMGF~~~~Ae~ALRvfrGnVQlAaQtLahngG~   70 (83)
T d1vega_          26 ASPSQESINQLVYMGFDTVVAEAALRVFGGNVQLAAQTLAHHGGS   70 (83)
T ss_dssp             CCCCHHHHHHHHHHSCCHHHHHHHHHHTTTCHHHHHHHHHHHTSS
T ss_pred             CCCCHHHHHHHHHhcccHHHHHHHHHHhcccHHHHHHHHHHcCCc
Confidence            455678999999999999999999999999999988888877654

>d1z96a1 a.5.2.1 (A:295-332) UBA-domain protein mud1 {Schizosaccharomyces pombe [TaxId: 4896]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA-domain protein mud1
species: Schizosaccharomyces pombe [TaxId: 4896]

Probab=92.49  E-value=0.065  Score=33.65  Aligned_cols=37  Identities=30%  Similarity=0.524  Sum_probs=31.5

Q ss_pred             cchHHHHHHHhChhHHHHHHHHhhccCChhHHHHHHH
Q 025285          205 LSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL  241 (255)
Q Consensus       205 ~~~~~~~~~~mgf~~~~~~~ay~i~gd~~d~~~~~~~  241 (255)
                      +++.|..||+|||.-+.+-||..--.-|.|--..||+
T Consensus         2 lnskiaqlvsmgfdpleaaqaldaangdldvaasfll   38 (38)
T d1z96a1           2 LNSKIAQLVSMGFDPLEAAQALDAANGDLDVAASFLL   38 (38)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHTTTCHHHHHHHHC
T ss_pred             cchHHHHHHHcCCCHHHHHHHHhhhcCcHHHHHHhhC
Confidence            5788999999999999999998887777887777664

>d1veja1 a.5.2.1 (A:8-68) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.27  E-value=1.5  Score=30.05  Aligned_cols=40  Identities=15%  Similarity=0.293  Sum_probs=34.6

Q ss_pred             cccchHHHHHHHhChhHHHH-HHHHhhccCChhHHHHHHHH
Q 025285          203 TVLSNSMQMVLSMGFSYLQV-IEAYSIFGDDVDSMVCYLLE  242 (255)
Q Consensus       203 ~~~~~~~~~~~~mgf~~~~~-~~ay~i~gd~~d~~~~~~~e  242 (255)
                      ..+.+-++.|..|||.=.++ |+|-..=|-||+--|.+|+-
T Consensus        20 ~ry~~QL~qL~eMGF~d~~~Nl~AL~~t~Gdv~~Aie~Ll~   60 (61)
T d1veja1          20 GRYQQELEELKALGFANRDANLQALVATDGDIHAAIEMLLG   60 (61)
T ss_dssp             TTSHHHHHHHHHHTCCCHHHHHHHHHHTTSCHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            35788999999999975555 99999999999999999973