Citrus Sinensis ID: 031037

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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-------
Protein Sequence
MADKPPTEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLVSTC
Secondary Structure (PSIPRED)
cccccccHHHHHHHHcccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccHHcHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHccccccccHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHcccEEEEEEcccccccccccccccccccccccccEEEEEEccccccccHHHHHEEEEEEEEcccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEcccccHHHHHHHHccccccccccHHHHccc
Coil and Loop (DISEMBL)
madkppteGILEQLRLGIAKFElvsspvasisnpnsqtcptafhrdsnhlffarigpplgggspvmKKVERYLVQRVTGDGRCLFRALVKGMALnkginlnsreeredADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRigrsdfwggeSELLVSTC
Flexible Loop (DISEMBL)
MADKPPTEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGmalnkginlnsreeredaddLRMAVKEvicdsgserrqYEEALisitideslKRYCQRIgrsdfwggesellvstc
Low Complexity Region (SEG)
MADKPPTEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLVSTC
Disordered region (IsUnstruct)
**********LEQLRLGIAKFELVS*************CPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINL*************MAVKEVICDSG**RRQYEEALISITIDESLKRYCQRIGRSDFWGGE********
Disordered Region (DISOPRED)
************QLRLGIAKFELVS*******************************************VERYLVQRVTGDGRCLFRALVKGMAL****************DLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLVSTC
Disordered Region (DISEMBL)
MADKPPTEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNS********DLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLVSTC
Disordered Region (DISPRO)
****PPTEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLVSTC
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MADKPPTEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLVSTC
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	167	2.2.26 [Sep-21-2011]
Q8LBZ4	317	OTU domain-containing pro	no	no	0.796	0.419	0.289	2e-06

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

 Score = 52.0 bits (123), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 64/145 (44%), Gaps = 12/145 (8%)

Query: 23  LVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGR 82
           +VS  V   S   S    ++  +D+N++           G  V      Y +  + GDGR
Sbjct: 122 IVSLLVCYSSTSQSAYADSSRDKDANNVHHHSSDGKFHNGKRVYTD---YSIIGIPGDGR 178

Query: 83  CLFRALVKGMALNKG-INLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDE 141
           CLFR++  G  L  G +    + +RE AD+LR  V     D   +RRQ  E  +    D 
Sbjct: 179 CLFRSVAHGFCLRSGKLAPGEKMQRELADELRTRV----ADEFIQRRQETEWFVEGDFDT 234

Query: 142 SLKRYCQRIGRSDFWGGESELLVST 166
               Y ++I     WGGE EL +++
Sbjct: 235 ----YVRQIRDPHVWGGEPELFMAS 255

Arabidopsis thaliana (taxid: 3702)

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	167
255573893	162	conserved hypothetical protein [Ricinus	0.964	0.993	0.702	9e-60
356504295	226	PREDICTED: OTU domain-containing protein	0.982	0.725	0.644	6e-53
225440598	226	PREDICTED: uncharacterized protein LOC10	0.958	0.707	0.680	8e-51
388523101	225	unknown [Lotus japonicus]	0.982	0.728	0.654	3e-50
146454972	138	putative auxin-regulated protein [Sonner	0.820	0.992	0.692	1e-48
297827355	233	hypothetical protein ARALYDRAFT_482809 [	0.922	0.660	0.654	2e-48
146454974	138	putative auxin-regulated protein [Sonner	0.820	0.992	0.685	3e-48
30687357	234	cysteine proteinase-like protein [Arabid	0.922	0.658	0.654	5e-48
146454978	138	putative auxin-regulated protein [Sonner	0.820	0.992	0.678	1e-47
449439930	227	PREDICTED: OTU domain-containing protein	0.982	0.722	0.640	4e-47

>gi|255573893|ref|XP_002527865.1| conserved hypothetical protein [Ricinus communis] gi|223532716|gb|EEF34496.1| conserved hypothetical protein [Ricinus communis]

 Score =  234 bits (597), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 118/168 (70%), Positives = 134/168 (79%), Gaps = 7/168 (4%)

Query: 1   MADKPPTE-GILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPL 59
           MA KP  +  ILEQL+ G+AKFE+VSSP  SIS        T F   ++H FFARIGP L
Sbjct: 1   MAAKPVNDKNILEQLKHGVAKFEIVSSPDPSISTW------TPFFAHTSHRFFARIGPSL 54

Query: 60  GGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEV 119
             GSP  KK+ERY VQ+VTGDGRCLFRALVKGMALNKG++LN REER+DADDLRMAVKEV
Sbjct: 55  SSGSPATKKLERYSVQKVTGDGRCLFRALVKGMALNKGVSLNPREERDDADDLRMAVKEV 114

Query: 120 ICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLVSTC 167
           +C+   ERRQYEEALI+I++DESLKRYCQRIGR DFWGGESELL  TC
Sbjct: 115 LCNGDKERRQYEEALIAISVDESLKRYCQRIGRPDFWGGESELLECTC 162

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356504295|ref|XP_003520932.1| PREDICTED: OTU domain-containing protein At3g57810-like [Glycine max]

 Score =  211 bits (538), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 107/166 (64%), Positives = 127/166 (76%), Gaps = 2/166 (1%)

Query: 1   MADKPP--TEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPP 58
           MA KP    E +LEQLR G AKFE+VSSPV S++ P ++        +S+ + FARIG  
Sbjct: 1   MARKPFKFNEDVLEQLRNGTAKFEVVSSPVPSVAAPPNRNTSLFGIGNSSTVLFARIGSS 60

Query: 59  LGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKE 118
            GG SP MKK+E + VQ+VTGDGRCLFRALVKGMA NKG  LN REERE+AD+LRMAVKE
Sbjct: 61  FGGHSPAMKKLEHFSVQKVTGDGRCLFRALVKGMAYNKGTTLNQREERENADELRMAVKE 120

Query: 119 VICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
            IC++  ER+ YEEALI+IT+DE +KRYCQRI R DFWGGESELLV
Sbjct: 121 AICENEGERKLYEEALIAITVDEPIKRYCQRIVRPDFWGGESELLV 166

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225440598|ref|XP_002277660.1| PREDICTED: uncharacterized protein LOC100244154 isoform 1 [Vitis vinifera] gi|297740254|emb|CBI30436.3| unnamed protein product [Vitis vinifera]

 Score =  204 bits (520), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 113/166 (68%), Positives = 134/166 (80%), Gaps = 6/166 (3%)

Query: 1   MADKP--PTEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPP 58
           MA+K     E +L+QL+ G A+FELVSSPV SIS+P   T  T    ++   FFARIG  
Sbjct: 1   MANKQHFSNEAVLQQLKHGRARFELVSSPVPSISSPKLPTLST----ENGPQFFARIGSS 56

Query: 59  LGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKE 118
           LGG SP MKKV+RY VQ+VTGDGRC+FRALVKGMA NKGI ++SREER+DAD+LRMAVKE
Sbjct: 57  LGGASPAMKKVQRYSVQKVTGDGRCMFRALVKGMAFNKGIAISSREERDDADELRMAVKE 116

Query: 119 VICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
           +IC +G ERRQYEEAL++IT++ESLKRYCQRI R DFWGGESELLV
Sbjct: 117 IICGNGKERRQYEEALVAITVEESLKRYCQRIERPDFWGGESELLV 162

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388523101|gb|AFK49612.1| unknown [Lotus japonicus]

 Score =  202 bits (515), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 108/165 (65%), Positives = 124/165 (75%), Gaps = 1/165 (0%)

Query: 1   MADKPPTEGILEQLRLGIAKFELVS-SPVASISNPNSQTCPTAFHRDSNHLFFARIGPPL 59
           M  K   E ILEQ+R G AKFELVS SPV SI+   ++        +S+ LFFAR+G   
Sbjct: 1   MDHKLFNEDILEQMRNGSAKFELVSDSPVPSIAALPNRNASFFGVGNSSSLFFARVGSLF 60

Query: 60  GGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEV 119
            G SP MKKVER  V +VTGDGRCLFRALVKGMA NKG+ LN REERE AD+LRMAVKEV
Sbjct: 61  SGQSPAMKKVERLSVHKVTGDGRCLFRALVKGMAHNKGVALNQREERESADELRMAVKEV 120

Query: 120 ICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
           IC++  ER+ YEEALI+IT+DE L RYC+RI RSDFWGGESELLV
Sbjct: 121 ICENEGERKLYEEALIAITVDEPLPRYCKRIVRSDFWGGESELLV 165

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|146454972|gb|ABQ42152.1| putative auxin-regulated protein [Sonneratia alba] gi|241865252|gb|ACS68704.1| putative auxin-regulated protein [Sonneratia alba] gi|241865485|gb|ACS68775.1| putative auxin-regulated protein [Sonneratia alba]

 Score =  197 bits (502), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 97/140 (69%), Positives = 114/140 (81%), Gaps = 3/140 (2%)

Query: 10  ILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKV 69
           IL+QL+ G A+FEL+ SP ASIS   S   P  F   ++H FFARIG  +GG SP MKKV
Sbjct: 2   ILQQLKDGTARFELLPSPAASIS---SFKWPRLFSGSNSHRFFARIGSSIGGKSPAMKKV 58

Query: 70  ERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQ 129
           E Y VQ+VTGDGRCLFRALVKGMA NKG++L +REER+DAD+LRMAVKE+ICDSG +RRQ
Sbjct: 59  EHYSVQKVTGDGRCLFRALVKGMAFNKGVSLGAREERDDADELRMAVKEIICDSGEDRRQ 118

Query: 130 YEEALISITIDESLKRYCQR 149
           YEEAL++ITID SLKRYCQR
Sbjct: 119 YEEALVAITIDVSLKRYCQR 138

Source: Sonneratia alba

Species: Sonneratia alba

Genus: Sonneratia

Family: Lythraceae

Order: Myrtales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297827355|ref|XP_002881560.1| hypothetical protein ARALYDRAFT_482809 [Arabidopsis lyrata subsp. lyrata] gi|297327399|gb|EFH57819.1| hypothetical protein ARALYDRAFT_482809 [Arabidopsis lyrata subsp. lyrata]

 Score =  196 bits (499), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 104/159 (65%), Positives = 125/159 (78%), Gaps = 5/159 (3%)

Query: 10  ILEQLRLGIAKFELVSSPVASISNPNSQT-CPTAFH---RDSNHLFFARIGPPLGGGSPV 65
           ILEQLR G A+FELVSSP ASIS+  S    P +F    + ++++FFARIG  +   SP 
Sbjct: 11  ILEQLRNGFARFELVSSPTASISDSISSISLPASFMSATKGNSYVFFARIGSSMNR-SPA 69

Query: 66  MKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGS 125
            KKVE+Y V RV GDGRCLFRALVKGMA NKG+ LN + ER+DAD+LRMAVKEVIC+   
Sbjct: 70  AKKVEQYAVDRVKGDGRCLFRALVKGMAFNKGVTLNPQRERDDADELRMAVKEVICNDPK 129

Query: 126 ERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
           E+ +Y+EAL++IT+DESLKRYCQRIGR DFWGGESELLV
Sbjct: 130 EKEKYKEALVAITVDESLKRYCQRIGRHDFWGGESELLV 168

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|146454974|gb|ABQ42153.1| putative auxin-regulated protein [Sonneratia caseolaris]

 Score =  196 bits (497), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 96/140 (68%), Positives = 114/140 (81%), Gaps = 3/140 (2%)

Query: 10  ILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKV 69
           IL+QL+ G A+FEL+ SP ASIS   S   P  F   ++H FFARIG  +GG SP MKKV
Sbjct: 2   ILQQLKDGTARFELLPSPAASIS---SFKWPRLFSGSNSHRFFARIGSSIGGKSPAMKKV 58

Query: 70  ERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQ 129
           E Y VQ+VTGDGRCLFRALVKGMA NKG++L++ EER+DAD+LRMAVKE+ICDSG +RRQ
Sbjct: 59  EHYSVQKVTGDGRCLFRALVKGMAFNKGVSLSTWEERDDADELRMAVKEIICDSGEDRRQ 118

Query: 130 YEEALISITIDESLKRYCQR 149
           YEEAL++ITID SLKRYCQR
Sbjct: 119 YEEALVAITIDVSLKRYCQR 138

Source: Sonneratia caseolaris

Species: Sonneratia caseolaris

Genus: Sonneratia

Family: Lythraceae

Order: Myrtales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30687357|ref|NP_850290.1| cysteine proteinase-like protein [Arabidopsis thaliana] gi|26449806|dbj|BAC42026.1| putative auxin-regulated protein [Arabidopsis thaliana] gi|28950787|gb|AAO63317.1| At2g38025 [Arabidopsis thaliana] gi|330254387|gb|AEC09481.1| cysteine proteinase-like protein [Arabidopsis thaliana] gi|407078832|gb|AFS88947.1| OTU-containing deubiquitinating enzyme 3 [Arabidopsis thaliana]

 Score =  195 bits (496), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 104/159 (65%), Positives = 125/159 (78%), Gaps = 5/159 (3%)

Query: 10  ILEQLRLGIAKFELVSSPVASISNPNSQT-CPTAF---HRDSNHLFFARIGPPLGGGSPV 65
           ILEQLR G A+FELVSSP AS+S+  S T  P +F    + ++++FFARI   +   SP 
Sbjct: 11  ILEQLRNGFARFELVSSPTASVSDSISSTSLPASFISTTKGNSYVFFARINSSMNR-SPA 69

Query: 66  MKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGS 125
            KKVE+Y V RV GDGRCLFRALVKGMA NKGI LN + ER+DAD+LRMAVKEVIC+   
Sbjct: 70  AKKVEKYAVDRVKGDGRCLFRALVKGMAFNKGITLNPQRERDDADELRMAVKEVICNDPK 129

Query: 126 ERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
           ER +Y+EAL++IT+DESLKR+CQRIGR DFWGGESELLV
Sbjct: 130 EREKYKEALVAITVDESLKRFCQRIGRHDFWGGESELLV 168

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|146454978|gb|ABQ42155.1| putative auxin-regulated protein [Sonneratia apetala]

 Score =  194 bits (493), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 95/140 (67%), Positives = 114/140 (81%), Gaps = 3/140 (2%)

Query: 10  ILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKV 69
           IL+QL+ G A+FEL+ SP ASIS   S   P  F   ++H FFARIG  +GG  P MKKV
Sbjct: 2   ILQQLKDGTARFELLPSPAASIS---SFKWPRLFSGSNSHRFFARIGSSIGGKPPAMKKV 58

Query: 70  ERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQ 129
           E Y VQ+VTGDGRCLFRALVKGMA NKG++L++REER+DAD+LRMAVKE+ICDSG ++RQ
Sbjct: 59  EHYSVQKVTGDGRCLFRALVKGMAFNKGVSLSTREERDDADELRMAVKEIICDSGEDQRQ 118

Query: 130 YEEALISITIDESLKRYCQR 149
           YEEAL++ITID SLKRYCQR
Sbjct: 119 YEEALVAITIDVSLKRYCQR 138

Source: Sonneratia apetala

Species: Sonneratia apetala

Genus: Sonneratia

Family: Lythraceae

Order: Myrtales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439930|ref|XP_004137738.1| PREDICTED: OTU domain-containing protein At3g57810-like [Cucumis sativus] gi|449483441|ref|XP_004156592.1| PREDICTED: OTU domain-containing protein At3g57810-like [Cucumis sativus]

 Score =  192 bits (488), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 105/164 (64%), Positives = 125/164 (76%)

Query: 1   MADKPPTEGILEQLRLGIAKFELVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLG 60
           MA+K     ILEQL+LGIA+FEL SSPV+SIS  NS         + ++  FA+IGP LG
Sbjct: 4   MAEKSQNVSILEQLQLGIARFELSSSPVSSISPSNSVASSFPLSMNPSYPLFAKIGPVLG 63

Query: 61  GGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVI 120
             SP ++K E+Y VQ+VTGDGRCLFRAL KGMA N+GI L   EE+ DADDLRMAVKEVI
Sbjct: 64  IESPALRKAEQYKVQKVTGDGRCLFRALAKGMAFNRGIPLRPFEEKNDADDLRMAVKEVI 123

Query: 121 CDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
           CD+G E+RQYE ALI+IT++E L+RYCQRI   DFWGGESELLV
Sbjct: 124 CDNGKEKRQYEAALIAITVEEPLERYCQRIRTPDFWGGESELLV 167

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	167
TAIR|locus:504955906	234	AT2G38025 "AT2G38025" [Arabido	0.922	0.658	0.654	5.2e-49
TAIR|locus:2095748	317	AT3G57810 "AT3G57810" [Arabido	0.796	0.419	0.289	2.4e-07

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

 Score = 511 (184.9 bits), Expect = 5.2e-49, P = 5.2e-49
 Identities = 104/159 (65%), Positives = 125/159 (78%)

Query:    10 ILEQLRLGIAKFELVSSPVASISNPNSQTC-PTAF---HRDSNHLFFARIGPPLGGGSPV 65
             ILEQLR G A+FELVSSP AS+S+  S T  P +F    + ++++FFARI   +   SP 
Sbjct:    11 ILEQLRNGFARFELVSSPTASVSDSISSTSLPASFISTTKGNSYVFFARINSSMNR-SPA 69

Query:    66 MKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGS 125
              KKVE+Y V RV GDGRCLFRALVKGMA NKGI LN + ER+DAD+LRMAVKEVIC+   
Sbjct:    70 AKKVEKYAVDRVKGDGRCLFRALVKGMAFNKGITLNPQRERDDADELRMAVKEVICNDPK 129

Query:   126 ERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
             ER +Y+EAL++IT+DESLKR+CQRIGR DFWGGESELLV
Sbjct:   130 EREKYKEALVAITVDESLKRFCQRIGRHDFWGGESELLV 168

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 124 (48.7 bits), Expect = 2.4e-07, P = 2.4e-07
 Identities = 42/145 (28%), Positives = 64/145 (44%)

Query:    23 LVSSPVASISNPNSQTCPTAFHRDSNHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGR 82
             +VS  V   S   S    ++  +D+N++           G  V      Y +  + GDGR
Sbjct:   122 IVSLLVCYSSTSQSAYADSSRDKDANNVHHHSSDGKFHNGKRVYTD---YSIIGIPGDGR 178

Query:    83 CLFRALVKGMALNKG-INLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDE 141
             CLFR++  G  L  G +    + +RE AD+LR  V     D   +RRQ  E  +    D 
Sbjct:   179 CLFRSVAHGFCLRSGKLAPGEKMQRELADELRTRV----ADEFIQRRQETEWFVEGDFDT 234

Query:   142 SLKRYCQRIGRSDFWGGESELLVST 166
                 Y ++I     WGGE EL +++
Sbjct:   235 ----YVRQIRDPHVWGGEPELFMAS 255


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.319   0.136   0.400    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      167       167   0.00075  108 3  11 22  0.39    32
                                                     30  0.46    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  595 (63 KB)
  Total size of DFA:  141 KB (2087 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  15.84u 0.09s 15.93t   Elapsed:  00:00:02
  Total cpu time:  15.84u 0.09s 15.93t   Elapsed:  00:00:02
  Start:  Fri May 10 08:45:01 2013   End:  Fri May 10 08:45:03 2013

GO:0008150 "biological_process" evidence=ND

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

GO:0009507 "chloroplast" evidence=IDA

---

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	167
pfam02338	123	pfam02338, OTU, OTU-like cysteine protease	9e-04

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

 Score = 37.1 bits (86), Expect = 9e-04
 Identities = 21/87 (24%), Positives = 32/87 (36%), Gaps = 16/87 (18%)

Query: 78  TGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISI 137
            GDG CLF A+   +             +E  D+LR AV E +        +        
Sbjct: 1   PGDGNCLFHAVSDQLGDAG--------RQELHDELREAVVEYL--------RENREDFEK 44

Query: 138 TIDESLKRYCQRIGRSDFWGGESELLV 164
            ++E    Y + I +   WGG  E+  
Sbjct: 45  FLEEDENEYYKWISKDGAWGGNIEIFA 71

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	167
KOG2606	302	consensus OTU (ovarian tumor)-like cysteine protea	99.89
PF02338	121	OTU: OTU-like cysteine protease; InterPro: IPR0033	99.71
KOG3288	307	consensus OTU-like cysteine protease [Signal trans	99.52
KOG2605	371	consensus OTU (ovarian tumor)-like cysteine protea	99.21
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	98.42
PF10275	244	Peptidase_C65: Peptidase C65 Otubain; InterPro: IP	98.13
COG5539	306	Predicted cysteine protease (OTU family) [Posttran	97.89
KOG3991	256	consensus Uncharacterized conserved protein [Funct	97.48

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

Probab=99.89  E-value=1.8e-23  Score=179.89  Aligned_cols=97  Identities=22%  Similarity=0.418  Sum_probs=79.5

Q ss_pred             CChhhhhhc---cCeEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhc
Q 031037           61 GGSPVMKKV---ERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISI  137 (167)
Q Consensus        61 ~~~~~~kk~---~gl~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~  137 (167)
                      .+...+.++   ++|.++.||+||||||+||+|||..+.+..+       .+..||...++||+   ++.++|.++|..-
T Consensus       145 ~E~~k~~~il~~~~l~~~~Ip~DG~ClY~aI~hQL~~~~~~~~-------~v~kLR~~~a~Ymr---~H~~df~pf~~~e  214 (302)
T KOG2606|consen  145 MEKEKLAQILEERGLKMFDIPADGHCLYAAISHQLKLRSGKLL-------SVQKLREETADYMR---EHVEDFLPFLLDE  214 (302)
T ss_pred             hHHHHHHHHHHhccCccccCCCCchhhHHHHHHHHHhccCCCC-------cHHHHHHHHHHHHH---HHHHHhhhHhcCc
Confidence            455555555   6999999999999999999999998765545       48899999999997   4566777776531


Q ss_pred             -----cccchHHHHHHHhcCCCccccHHHHhhccC
Q 031037          138 -----TIDESLKRYCQRIGRSDFWGGESELLVSTC  167 (167)
Q Consensus       138 -----~~e~~fd~Yc~~m~~~~~WGGeiEL~ALS~  167 (167)
                           ..+++|++||++|++++.|||+|||.|||+
T Consensus       215 et~d~~~~~~f~~Yc~eI~~t~~WGgelEL~AlSh  249 (302)
T KOG2606|consen  215 ETGDSLGPEDFDKYCREIRNTAAWGGELELKALSH  249 (302)
T ss_pred             cccccCCHHHHHHHHHHhhhhccccchHHHHHHHH
Confidence                 123579999999999999999999999985

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

Probab=99.71  E-value=1.1e-17  Score=123.99  Aligned_cols=68  Identities=34%  Similarity=0.648  Sum_probs=51.8

Q ss_pred             cCCCchhhHHHHHhHHhcc-CCCCCcchhhhhHHHHHHHHHHHHH-hhcccchhhHHHhhhccccchHHHHHHHhcCCCc
Q 031037           78 TGDGRCLFRALVKGMALNK-GINLNSREEREDADDLRMAVKEVIC-DSGSERRQYEEALISITIDESLKRYCQRIGRSDF  155 (167)
Q Consensus        78 pgDGnCLFRAIadQL~~~~-g~~~~~~~~~~~a~~LR~~vad~i~-~~~~~~~~~~e~fi~~~~e~~fd~Yc~~m~~~~~  155 (167)
                      |||||||||||++||.... |..       ..+.+||+.++++|. .   +++.|.+++.    + .      +|+++++
T Consensus         1 pgDGnClF~Avs~~l~~~~~~~~-------~~~~~lR~~~~~~l~~~---~~~~~~~~~~----~-~------~~~~~~~   59 (121)
T PF02338_consen    1 PGDGNCLFRAVSDQLYGDGGGSE-------DNHQELRKAVVDYLRDK---NRDKFEEFLE----G-D------KMSKPGT   59 (121)
T ss_dssp             -SSTTHHHHHHHHHHCTT-SSST-------TTHHHHHHHHHHHHHTH---TTTHHHHHHH----H-H------HHTSTTS
T ss_pred             CCCccHHHHHHHHHHHHhcCCCH-------HHHHHHHHHHHHHHHHh---ccchhhhhhh----h-h------hhccccc
Confidence            7999999999999999543 222       358999999999996 2   3344444441    1 1      9999999


Q ss_pred             cccHHHHhhcc
Q 031037          156 WGGESELLVST  166 (167)
Q Consensus       156 WGGeiEL~ALS  166 (167)
                      |||++||+|||
T Consensus        60 Wg~~~el~a~a   70 (121)
T PF02338_consen   60 WGGEIELQALA   70 (121)
T ss_dssp             HEEHHHHHHHH
T ss_pred             cCcHHHHHHHH
Confidence            99999999997

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

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

Probab=99.52  E-value=1.1e-14  Score=124.34  Aligned_cols=79  Identities=27%  Similarity=0.472  Sum_probs=67.5

Q ss_pred             eEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHHHhc
Q 031037           72 YLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIG  151 (167)
Q Consensus        72 l~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~~m~  151 (167)
                      +..+-||.|++|||+||+..+....+.         ...+||..|+.-+.   .+++.|.+++    ++++-.+||+||+
T Consensus       110 l~~~vvp~DNSCLF~ai~yv~~k~~~~---------~~~elR~iiA~~Va---snp~~yn~Ai----LgK~n~eYc~WI~  173 (307)
T KOG3288|consen  110 LSRRVVPDDNSCLFTAIAYVIFKQVSN---------RPYELREIIAQEVA---SNPDKYNDAI----LGKPNKEYCAWIL  173 (307)
T ss_pred             eEEEeccCCcchhhhhhhhhhcCccCC---------CcHHHHHHHHHHHh---cChhhhhHHH----hCCCcHHHHHHHc
Confidence            666778999999999999988753221         13599999999997   5677889998    5899999999999


Q ss_pred             CCCccccHHHHhhcc
Q 031037          152 RSDFWGGESELLVST  166 (167)
Q Consensus       152 ~~~~WGGeiEL~ALS  166 (167)
                      +...|||.|||.+||
T Consensus       174 k~dsWGGaIElsILS  188 (307)
T KOG3288|consen  174 KMDSWGGAIELSILS  188 (307)
T ss_pred             cccccCceEEeeeeh
Confidence            999999999999998

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

Probab=99.21  E-value=5.2e-12  Score=112.66  Aligned_cols=81  Identities=25%  Similarity=0.349  Sum_probs=68.1

Q ss_pred             hccCeEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHH
Q 031037           68 KVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYC  147 (167)
Q Consensus        68 k~~gl~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc  147 (167)
                      +..|+.+.+|.+||+|+|||++||++..          .+.++..|+++++++.    ..+++++-+    +.++|-+|+
T Consensus       214 ~~~g~e~~Kv~edGsC~fra~aDQvy~d----------~e~~~~~~~~~~dq~~----~e~~~~~~~----vt~~~~~y~  275 (371)
T KOG2605|consen  214 KHFGFEYKKVVEDGSCLFRALADQVYGD----------DEQHDHNRRECVDQLK----KERDFYEDY----VTEDFTSYI  275 (371)
T ss_pred             HHhhhhhhhcccCCchhhhccHHHhhcC----------HHHHHHHHHHHHHHHh----hcccccccc----cccchhhcc
Confidence            3468999999999999999999999962          1347889999999983    455555555    478999999


Q ss_pred             HHhcCCCccccHHHHhhcc
Q 031037          148 QRIGRSDFWGGESELLVST  166 (167)
Q Consensus       148 ~~m~~~~~WGGeiEL~ALS  166 (167)
                      +.++.++.||.++|++|++
T Consensus       276 k~kr~~~~~gnhie~Qa~a  294 (371)
T KOG2605|consen  276 KRKRADGEPGNHIEQQAAA  294 (371)
T ss_pred             cccccCCCCcchHHHhhhh
Confidence            9999999999999999986

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

Probab=98.42  E-value=2.9e-08  Score=86.20  Aligned_cols=88  Identities=9%  Similarity=0.035  Sum_probs=55.0

Q ss_pred             CeEEEEecCCCchhhHHHHHhHHhccC-CCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhc-c-ccchHHHHH
Q 031037           71 RYLVQRVTGDGRCLFRALVKGMALNKG-INLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISI-T-IDESLKRYC  147 (167)
Q Consensus        71 gl~i~eIpgDGnCLFRAIadQL~~~~g-~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~-~-~e~~fd~Yc  147 (167)
                      .+.-.+++|||+|+|.+|++||....- ..++      ....+|-.-..|..   .+...|..+..+. + --.+|++||
T Consensus       170 ~i~k~d~~~dG~ieia~iS~~l~v~i~~Vdv~------~~~~dr~~~~~~~q---~~~i~f~g~hfD~~t~~m~~~dt~~  240 (306)
T COG5539         170 WIVKPDSQGDGCIEIAIISDQLPVRIHVVDVD------KDSEDRYNSHPYVQ---RISILFTGIHFDEETLAMVLWDTYV  240 (306)
T ss_pred             hhhccccCCCceEEEeEeccccceeeeeeecc------hhHHhhccCChhhh---hhhhhhcccccchhhhhcchHHHHH
Confidence            445568899999999999999986421 1121      12333322222221   1222333322210 0 124799999


Q ss_pred             HHhcCCCccccHHHHhhccC
Q 031037          148 QRIGRSDFWGGESELLVSTC  167 (167)
Q Consensus       148 ~~m~~~~~WGGeiEL~ALS~  167 (167)
                      +.|+.++.||+.||+++||.
T Consensus       241 ne~~~~a~~g~~~ei~qLas  260 (306)
T COG5539         241 NEVLFDASDGITIEIQQLAS  260 (306)
T ss_pred             hhhcccccccchHHHHHHHH
Confidence            99999999999999999973

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

Probab=98.13  E-value=6.1e-06  Score=68.94  Aligned_cols=52  Identities=12%  Similarity=0.130  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHH-HHhcCCCccccHHHHhhcc
Q 031037          111 DLRMAVKEVICDSGSERRQYEEALISITIDESLKRYC-QRIGRSDFWGGESELLVST  166 (167)
Q Consensus       111 ~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc-~~m~~~~~WGGeiEL~ALS  166 (167)
                      .||..++.||+    .+.+++++|+......++++|| +.+.-.+.=.+|+.+.||+
T Consensus       141 flRLlts~~l~----~~~d~y~~fi~~~~~~tve~~C~~~Vep~~~Ead~v~i~ALa  193 (244)
T PF10275_consen  141 FLRLLTSAYLK----SNSDEYEPFIDGLEYLTVEEFCSQEVEPMGKEADHVQIIALA  193 (244)
T ss_dssp             HHHHHHHHHHH----HTHHHHGGGSSTT--S-HHHHHHHHTSSTT--B-HHHHHHHH
T ss_pred             HHHHHHHHHHH----hhHHHHhhhhcccccCCHHHHHHhhcccccccchhHHHHHHH
Confidence            56666667775    3444445554211127899999 4566677788999999986

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.

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

Probab=97.89  E-value=1.1e-05  Score=70.35  Aligned_cols=74  Identities=22%  Similarity=0.232  Sum_probs=61.2

Q ss_pred             EEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHHHhcCCC
Q 031037           75 QRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSD  154 (167)
Q Consensus        75 ~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~~m~~~~  154 (167)
                      .....|.+|+|+++...+..            ....+||.+|+.-+.   ++++.|.++.    .+.+--.||.||.+..
T Consensus       115 ~p~~~d~srl~q~~~~~l~~------------asv~~lrE~vs~Ev~---snPDl~n~~i----~~~~~i~y~~~i~k~d  175 (306)
T COG5539         115 MPGQDDNSRLFQAERYSLRD------------ASVAKLREVVSLEVL---SNPDLYNPAI----LEIDVIAYATWIVKPD  175 (306)
T ss_pred             CCCCCchHHHHHHHHhhhhh------------hhHHHHHHHHHHHHh---hCccccchhh----cCcchHHHHHhhhccc
Confidence            34458899999999997773            147899999998887   4566777766    4678889999999999


Q ss_pred             ccc-cHHHHhhccC
Q 031037          155 FWG-GESELLVSTC  167 (167)
Q Consensus       155 ~WG-GeiEL~ALS~  167 (167)
                      .|| |.+|+.+||.
T Consensus       176 ~~~dG~ieia~iS~  189 (306)
T COG5539         176 SQGDGCIEIAIISD  189 (306)
T ss_pred             cCCCceEEEeEecc
Confidence            999 9999999984

>KOG3991 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.48  E-value=0.00015  Score=61.66  Aligned_cols=51  Identities=12%  Similarity=0.152  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHHHhcCC-CccccHHHHhhccC
Q 031037          111 DLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRS-DFWGGESELLVSTC  167 (167)
Q Consensus       111 ~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~~m~~~-~~WGGeiEL~ALS~  167 (167)
                      .||-.++-+|+    ++.+++++||.  -+.+.++||.+=-.| ..=-|+|+|.|||.
T Consensus       158 ylRLvtS~~ik----~~adfy~pFI~--e~~tV~~fC~~eVEPm~kesdhi~I~ALs~  209 (256)
T KOG3991|consen  158 YLRLVTSGFIK----SNADFYQPFID--EGMTVKAFCTQEVEPMYKESDHIHITALSQ  209 (256)
T ss_pred             HHHHHHHHHHh----hChhhhhccCC--CCCcHHHHHHhhcchhhhccCceeHHHHHh
Confidence            45666666664    67788888873  347999999987666 23468999999984

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	167
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	9e-13
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	2e-12
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	2e-11
3pfy_A	185	OTU domain-containing protein 5; structural genomi	7e-05

>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 = 62.0 bits (150), Expect = 9e-13
 Identities = 21/117 (17%), Positives = 44/117 (37%), Gaps = 14/117 (11%)

Query: 48  NHLFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREERE 107
             L + ++       +P     + + + R  GDG C + ++ +    NK           
Sbjct: 7   RSLDWTQVIAGQYVSNPRFNISDYFEIVRQPGDGNCFYHSIAELTMPNKT---------- 56

Query: 108 DADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
             D     +K +     + R+ Y+E   +  +  SL+ Y +R+   + WG   E  +
Sbjct: 57  --DHSYHYIKRLTES--AARKYYQEEPEARLVGLSLEDYLKRMLSDNEWGSTLEASM 109

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

 Score = 61.7 bits (149), Expect = 2e-12
 Identities = 18/115 (15%), Positives = 42/115 (36%), Gaps = 14/115 (12%)

Query: 50  LFFARIGPPLGGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDA 109
           L + ++       +P     + + + R  GDG C + ++ +    N        +     
Sbjct: 9   LDWTQVIAGQYVSNPRFNISDYFEIVRQPGDGNCFYHSIAELTMPN--------KTDHSY 60

Query: 110 DDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
             ++   +         R+ Y+E   +  +  SL+ Y +R+   + WG   E  +
Sbjct: 61  HYIKRLTESAA------RKYYQEEPEARLVGLSLEDYLKRMLSDNEWGSTLEASM 109

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

 Score = 58.8 bits (142), Expect = 2e-11
 Identities = 24/96 (25%), Positives = 41/96 (42%), Gaps = 19/96 (19%)

Query: 70  ERYL-VQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERR 128
           E  L V  V  D  CLF A+  G+            +++   DLR  V + +    +   
Sbjct: 17  ENVLSVHPVLDDNSCLFHAIAYGI-----------FKQDSVRDLREMVSKEVL---NNPV 62

Query: 129 QYEEALISITIDESLKRYCQRIGRSDFWGGESELLV 164
           ++ +A     +D+  K Y Q I + + WGG  E+ +
Sbjct: 63  KFNDA----ILDKPNKDYAQWILKMESWGGAIEIGI 94

>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 = 40.5 bits (94), Expect = 7e-05
 Identities = 13/93 (13%), Positives = 34/93 (36%), Gaps = 18/93 (19%)

Query: 72  YLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYE 131
           ++++++  DG CLFRA+   +  ++          +  + +R    + +         + 
Sbjct: 59  FIIKQMKEDGACLFRAVADQVYGDQ----------DMHEVVRKHCMDYLM---KNADYFS 105

Query: 132 EALISITIDESLKRYCQRIGRSDFWGGESELLV 164
                  + E    Y  R  +++  G   E+  
Sbjct: 106 N-----YVTEDFTTYINRKRKNNCHGNHIEMQA 133

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	167
3pfy_A	185	OTU domain-containing protein 5; structural genomi	99.91
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	99.91
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	99.88
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	99.86
1tff_A	234	Ubiquitin thiolesterase protein OTUB2; hydrolase;	99.5
4ddg_A	399	Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI	99.24
4dhi_B	284	Ubiquitin thioesterase otubain-like; ubiquitin E2	99.2
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	99.08
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	96.37
3dkb_A	390	Tumor necrosis factor, alpha-induced protein 3; OT	92.09
3zrh_A	454	Ubiquitin thioesterase zranb1; hydrolase, deubiqui	84.84

>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=99.91  E-value=2e-25  Score=180.45  Aligned_cols=87  Identities=17%  Similarity=0.365  Sum_probs=56.2

Q ss_pred             Chhhhhhc---cCeEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhcc
Q 031037           62 GSPVMKKV---ERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISIT  138 (167)
Q Consensus        62 ~~~~~kk~---~gl~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~~  138 (167)
                      |...++.+   .||.+++||+|||||||||++||+..+          ..+.+||+.+++||+    .+++++++|    
T Consensus        46 e~~~~~~l~~~~gL~~~~I~~DGnCLFrAia~qL~g~~----------~~h~~LR~~vv~yi~----~n~d~f~~F----  107 (185)
T 3pfy_A           46 EHWFEKALRDKKGFIIKQMKEDGACLFRAVADQVYGDQ----------DMHEVVRKHCMDYLM----KNADYFSNY----  107 (185)
T ss_dssp             HHHHHHHHHHHHCCEEECCCCSTTHHHHHHHHHHHSCG----------GGHHHHHHHHHHHHH----HTHHHHTTC----
T ss_pred             HHHHHHHHHHHCCcEEEeeCCCCChHHHHHHHHHhCCc----------hHHHHHHHHHHHHHH----HHHHHHHHH----
Confidence            33344544   699999999999999999999999531          258899999999997    344555666    


Q ss_pred             ccchHHHHHHHhcCCCccccHHHHhhcc
Q 031037          139 IDESLKRYCQRIGRSDFWGGESELLVST  166 (167)
Q Consensus       139 ~e~~fd~Yc~~m~~~~~WGGeiEL~ALS  166 (167)
                      ++++|++||++|+++++|||++||+|||
T Consensus       108 v~~~~e~Y~~~m~~~~~WGg~iEL~AlS  135 (185)
T 3pfy_A          108 VTEDFTTYINRKRKNNCHGNHIEMQAMA  135 (185)
T ss_dssp             C-----------------CCHHHHHHHH
T ss_pred             HhccHHHHHHHhhCCCccchHHHHHHHH
Confidence            3678999999999999999999999998

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

Probab=99.91  E-value=3.1e-25  Score=182.06  Aligned_cols=79  Identities=28%  Similarity=0.546  Sum_probs=68.3

Q ss_pred             cCeEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHHH
Q 031037           70 ERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQR  149 (167)
Q Consensus        70 ~gl~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~~  149 (167)
                      .+|.+++||+|||||||||++|| ...          ..+.+||+.+++||+   .+++.|.++|    .+++|++||++
T Consensus        18 ~~l~~~~i~~DGnCLFrAva~qL-~~~----------~~~~~lR~~vv~yi~---~n~d~f~e~~----~~~~~e~Y~~~   79 (212)
T 3by4_A           18 NVLSVHPVLDDNSCLFHAIAYGI-FKQ----------DSVRDLREMVSKEVL---NNPVKFNDAI----LDKPNKDYAQW   79 (212)
T ss_dssp             SEEEEECCCCSTTHHHHHHHHHH-HSS----------CCSHHHHHHHHHHHH---HCTTTTCHHH----HTSCHHHHHHH
T ss_pred             CCeEEEEeCCCCchHHHHHHHHh-CCc----------hHHHHHHHHHHHHHH---HCHHHHhhhh----cCCCHHHHHHH
Confidence            47999999999999999999999 531          137799999999997   3455555777    47899999999


Q ss_pred             hcCCCccccHHHHhhcc
Q 031037          150 IGRSDFWGGESELLVST  166 (167)
Q Consensus       150 m~~~~~WGGeiEL~ALS  166 (167)
                      |+++++|||+|||+|||
T Consensus        80 m~~~~~WGg~iEL~Als   96 (212)
T 3by4_A           80 ILKMESWGGAIEIGIIS   96 (212)
T ss_dssp             TTSTTSCCCHHHHHHHH
T ss_pred             hcCCCEEccHHHHHHHH
Confidence            99999999999999997

>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=99.88  E-value=3.1e-23  Score=167.27  Aligned_cols=89  Identities=19%  Similarity=0.300  Sum_probs=70.2

Q ss_pred             hhhhhccCeEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhccccchH
Q 031037           64 PVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESL  143 (167)
Q Consensus        64 ~~~kk~~gl~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~f  143 (167)
                      |.+....+|.+++||||||||||||++||....  ..  ..++..+.+||+.+++||++    +++.  ++    .+++|
T Consensus        23 p~~~~~~~~~v~rv~gDGnCLFrAva~qL~~~~--~~--~~~~~~~~~LR~~~~~yi~~----~~~~--~~----~~~~~   88 (185)
T 3phx_A           23 PRFNISDYFEIVRQPGDGNCFYHSIAELTMPNK--TD--HSYHYIKRLTESAARKYYQE----EPEA--RL----VGLSL   88 (185)
T ss_dssp             CCCBHHHHEEEECCCSSTTHHHHHHHHHHSTTC--CT--TTHHHHHHHHHHHHHHHGGG----CTTH--HH----HCCCH
T ss_pred             CCcccccCeEEEccCCCCchHHHHHHHHHhCCC--cc--chhhhHHHHHHHHHHHHHHh----ChHh--hh----cCCCH
Confidence            444445679999999999999999999998531  11  11223489999999999973    3333  33    47899


Q ss_pred             HHHHHHhcCCCccccHHHHhhcc
Q 031037          144 KRYCQRIGRSDFWGGESELLVST  166 (167)
Q Consensus       144 d~Yc~~m~~~~~WGGeiEL~ALS  166 (167)
                      ++||++|+++++|||++||+|||
T Consensus        89 ~~Y~~~m~~~~~WGg~iEL~Als  111 (185)
T 3phx_A           89 EDYLKRMLSDNEWGSTLEASMLA  111 (185)
T ss_dssp             HHHHHHHTSTTCCCBHHHHHHHH
T ss_pred             HHHHHHhhCCCccCcHHHHHHHH
Confidence            99999999999999999999997

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

Probab=99.86  E-value=1e-22  Score=168.56  Aligned_cols=88  Identities=18%  Similarity=0.298  Sum_probs=69.4

Q ss_pred             hhhhccCeEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhccccchHH
Q 031037           65 VMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLK  144 (167)
Q Consensus        65 ~~kk~~gl~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd  144 (167)
                      .+....+|.|++||||||||||||++||....  . + ...+..+.+||+.+++||++    +++.  ++    ++++|+
T Consensus        24 ~~~~~~~~~V~rvpgDGnCLFrAVs~qL~~~~--~-~-~~~~~~h~~LR~~va~yi~~----n~d~--~~----~~~~fe   89 (219)
T 3phu_A           24 RFNISDYFEIVRQPGDGNCFYHSIAELTMPNK--T-D-HSYHYIKRLTESAARKYYQE----EPEA--RL----VGLSLE   89 (219)
T ss_dssp             CCBHHHHEEEECCCCSSCHHHHHHHHHHCTTC--C-T-TTHHHHHHHHHHHHHHHGGG----CHHH--HH----HCCCHH
T ss_pred             CcccccceEEEccCCCCchHHHHHHHHHhCCC--c-c-chhhhHHHHHHHHHHHHHHh----Chhh--hh----cCCCHH
Confidence            34444569999999999999999999998531  1 0 11223489999999999973    3333  33    478999


Q ss_pred             HHHHHhcCCCccccHHHHhhcc
Q 031037          145 RYCQRIGRSDFWGGESELLVST  166 (167)
Q Consensus       145 ~Yc~~m~~~~~WGGeiEL~ALS  166 (167)
                      +||++|+++++|||++||+|||
T Consensus        90 eY~~~m~~~g~WGG~iEL~AlS  111 (219)
T 3phu_A           90 DYLKRMLSDNEWGSTLEASMLA  111 (219)
T ss_dssp             HHHHHHHSTTCCCCHHHHHHHH
T ss_pred             HHHHHhcCCCccCCHHHHHHHH
Confidence            9999999999999999999997

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

Probab=99.50  E-value=2.8e-14  Score=118.48  Aligned_cols=52  Identities=13%  Similarity=0.231  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHH-HhcCCCccccHHHHhhcc
Q 031037          109 ADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQ-RIGRSDFWGGESELLVST  166 (167)
Q Consensus       109 a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~-~m~~~~~WGGeiEL~ALS  166 (167)
                      ...||..++.||+    .+.+++++|+.  .+.+|++||+ .|+.+++||||+||+|||
T Consensus       132 v~~lR~lta~~i~----~~~d~f~pFi~--~~~~~~~yC~~~ve~~~~~~~~iei~ALa  184 (234)
T 1tff_A          132 VQFLRLLTSAFIR----NRADFFRHFID--EEMDIKDFCTHEVEPMATECDHIQITALS  184 (234)
T ss_dssp             HHHHHHHHHHHHH----HTHHHHGGGSC--TTSCHHHHHHHHTSSTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHH----HCHHHHhhhhc--CCCCHHHHHHHHhhhhhcccccHHHHHHH
Confidence            4578999999997    45566666752  2348999999 899999999999999997

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

Probab=99.24  E-value=9.8e-12  Score=109.72  Aligned_cols=52  Identities=13%  Similarity=0.201  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHH-HhcCCCccccHHHHhhcc
Q 031037          109 ADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQ-RIGRSDFWGGESELLVST  166 (167)
Q Consensus       109 a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~-~m~~~~~WGGeiEL~ALS  166 (167)
                      ...||..++.||+    .|.+++++|+.  .+.++++||+ .|...++||||+||.|||
T Consensus       300 v~~lRllts~~i~----~~~d~f~pFi~--~~~~v~~yc~~~ve~~~~e~d~l~I~ALa  352 (399)
T 4ddg_A          300 VVYLRLLTSGYLQ----RESKFFEHFIE--GGRTVKEFCQQEVEPMCKESDHIHIIALA  352 (399)
T ss_dssp             HHHHHHHHHHHHH----HTHHHHGGGSS--SSCCHHHHHHHHTSSTTCCBCHHHHHHHH
T ss_pred             HHHHHHHHHHHHH----HCHHHHhcccC--CCCCHHHHHHHhceeHHhhCcHHHHHHHH
Confidence            4568889999997    45566666652  2358999999 999999999999999997

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

Probab=99.20  E-value=1.6e-11  Score=104.91  Aligned_cols=52  Identities=10%  Similarity=0.057  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHH-HhcCCCccccHHHHhhcc
Q 031037          109 ADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQ-RIGRSDFWGGESELLVST  166 (167)
Q Consensus       109 a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~-~m~~~~~WGGeiEL~ALS  166 (167)
                      ...||..++.||+    .|.+++++|+.  .+.++++||+ +|+.+++||||+||+|||
T Consensus       170 v~~LRllts~yi~----~~~d~f~pFi~--~~~~v~~yC~~eVe~~~~e~d~leI~ALa  222 (284)
T 4dhi_B          170 LMFFRLITSAFLK----QNSEEYAPFID--EGMTVAQYCEQEIEPMWKDADHLAINSLI  222 (284)
T ss_dssp             HHHHHHHHHHHHH----HTHHHHGGGSC--TTCCHHHHHHHHTSSTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHH----HCHHHHHhhcC--CCCCHHHHHHHhceehhhcccHHHHHHHH
Confidence            4578889999997    45556666642  2368999999 899999999999999997

>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=99.08  E-value=6.8e-11  Score=97.89  Aligned_cols=71  Identities=11%  Similarity=0.105  Sum_probs=58.3

Q ss_pred             CCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHH-HhcCCCccc
Q 031037           79 GDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQ-RIGRSDFWG  157 (167)
Q Consensus        79 gDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~-~m~~~~~WG  157 (167)
                      .||+||++++.+|+...           .....||..++.||+    .+++++++|+.  .+.+|++||+ .|..+++||
T Consensus       116 ~~~~~L~~~fndq~~s~-----------~~v~~lR~lta~yi~----~~~d~f~pFi~--~~~~~e~yc~~~ve~~~~~~  178 (234)
T 2zfy_A          116 TSVADLLASFNDQSTSD-----------YLVVYLRLLTSGYLQ----RESKFFEHFIE--GGRTVKEFCQQEVEPMCKES  178 (234)
T ss_dssp             CCHHHHHHHHTSHHHHH-----------HHHHHHHHHHHHHHH----HTHHHHGGGCC--SSCCHHHHHHHHTSSTTCCC
T ss_pred             CCHHHHHHHHHhhccch-----------HHHHHHHHHHHHHHH----HCHHHHhcccC--CCCCHHHHHHHHhhhHhhcC
Confidence            39999999999998632           247799999999997    45566677752  2359999997 699999999


Q ss_pred             cHHHHhhcc
Q 031037          158 GESELLVST  166 (167)
Q Consensus       158 GeiEL~ALS  166 (167)
                      ||+||+|||
T Consensus       179 ~~i~i~ALa  187 (234)
T 2zfy_A          179 DHIHIIALA  187 (234)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            999999997

>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=96.37  E-value=0.0015  Score=53.72  Aligned_cols=22  Identities=23%  Similarity=0.505  Sum_probs=19.6

Q ss_pred             EEEEecCCCchhhHHHHHhHHh
Q 031037           73 LVQRVTGDGRCLFRALVKGMAL   94 (167)
Q Consensus        73 ~i~eIpgDGnCLFRAIadQL~~   94 (167)
                      .+++|.|||||.|||++.++..
T Consensus        44 ~~R~vRgDGNCFyRaf~f~ylE   65 (234)
T 2zfy_A           44 YIRKTRPDGNCFYRAFGFSHLE   65 (234)
T ss_dssp             EEECBCCSSCHHHHHHHHHHHH
T ss_pred             ceeeccCCccHHHHHHHHHHHH
Confidence            5789999999999999998864

>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=92.09  E-value=0.15  Score=44.99  Aligned_cols=41  Identities=24%  Similarity=0.294  Sum_probs=29.1

Q ss_pred             eEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHHh
Q 031037           72 YLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVICD  122 (167)
Q Consensus        72 l~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~~  122 (167)
                      |-.....||||||.+|++-.|++....          .--||+...+.|..
T Consensus       112 L~pL~t~GDGnCLLHAvSqamWGv~Dr----------dlvLRkaL~~~L~~  152 (390)
T 3dkb_A          112 LVALKTNGDGNCLMHATSQYMWGVQDT----------DLVLRKALFSTLKE  152 (390)
T ss_dssp             EEEBCCCCSSCHHHHHHHHHHHSSCST----------TCHHHHHHHHHHHH
T ss_pred             eEEEEecCCCchHHHHHhHHhcCCCCH----------hHHHHHHHHHHHHh
Confidence            334456899999999999999954322          23677777777753

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

Probab=84.84  E-value=0.46  Score=42.71  Aligned_cols=40  Identities=18%  Similarity=0.222  Sum_probs=28.0

Q ss_pred             eEEEEecCCCchhhHHHHHhHHhccCCCCCcchhhhhHHHHHHHHHHHHH
Q 031037           72 YLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEVIC  121 (167)
Q Consensus        72 l~i~eIpgDGnCLFRAIadQL~~~~g~~~~~~~~~~~a~~LR~~vad~i~  121 (167)
                      |--....||||||-+|++-.|++   .+-       ..--||+...+.|.
T Consensus       189 L~pL~t~GDGNCLLHAvSqamWG---V~D-------rdlvLRkaL~~~L~  228 (454)
T 3zrh_A          189 LYALWNRTAGDCLLDSVLQATWG---IYD-------KDSVLRKALHDSLH  228 (454)
T ss_dssp             EEEBCCCCSSCHHHHHHHHTTTS---SCC-------GGGHHHHHHHHHHH
T ss_pred             eeEeeecCCCccHHHHHHHHhhc---ccC-------CcHHHHHHHHHHHH
Confidence            33446689999999999999994   332       12366776666664

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	167
d1tffa_	228	Ubiquitin thiolesterase protein OTUB2 (Otubain-2)	99.36

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

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

Probab=99.36  E-value=4.6e-13  Score=107.84  Aligned_cols=50  Identities=14%  Similarity=0.235  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHhhcccchhhHHHhhhccccchHHHHHHH-hcCCCccccHHHHhhcc
Q 031037          111 DLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQR-IGRSDFWGGESELLVST  166 (167)
Q Consensus       111 ~LR~~vad~i~~~~~~~~~~~e~fi~~~~e~~fd~Yc~~-m~~~~~WGGeiEL~ALS  166 (167)
                      .||..++.||+    .+.+++.+|++  .+.++++||.+ |..+++|||++||.|||
T Consensus       128 ~lR~l~s~~i~----~~~~~y~~Fi~--~~~~~~~yc~~~v~~~~~e~d~ieI~aLa  178 (228)
T d1tffa_         128 FLRLLTSAFIR----NRADFFRHFID--EEMDIKDFCTHEVEPMATECDHIQITALS  178 (228)
T ss_dssp             HHHHHHHHHHH----HTHHHHGGGSC--TTSCHHHHHHHHTSSTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHH----HCHHHHHhHhc--CCccHHHHHHHHHccccccCCcHHHHHHH
Confidence            47999999997    34455555542  35689999986 89999999999999997