Citrus Sinensis ID: 025530

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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
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKAHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE
Secondary Structure (PSIPRED)
ccEEcccccccccEEEEccccccccccccccccccccccEEEEEEcccccccccccEEEEEcccccccccccccccccccccccccccccccEEEEEccccccEEEEccccccccccccccccccccccccccccccccccccccccccEEEEEEEccccccccccccccccccccccccccccccccEEcccEEEEEEcccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cEEEccccHccHcEEEEcccccccccccEEEEEEccccccEEEEcccccccccEcEEEEEEEccccccccccccccccccccccccccccccHEEEEccccccccEEEEEEEccccEEEEEccccccccEEEccccccccccccccEEEEEEEEEEEcccccccccccccccccccccccccccccccEEEEEEEEEEccccccEHEHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MIVSTSICACAKNVvnlggrfqgqmggnicgvtyrgpsssccfylcsgqskknyagisrtisssslnvlqpfqatcfspgltkprcnlrpltirsfigsrgsqkrHIEISLACRSMKMrllvpsqgvlpklklnagpidwpkgcasagLICGLLVCYSSskahaeaadekedgeedydlsnvkyshgkkvytdysvigipgdgrCLFRAVAHGAclragkpapsvsIQRELADDLRAKVADEFIKRREETE
Flexible Loop (DISEMBL)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCfspgltkprcnlRPLTIrsfigsrgsqkrhIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKAHAEAadekedgeedydlsnvkyshgkkvyTDYSVIGIPGDGRCLFRAVAHGACLragkpapsvsiqrelADDLRAKVADEFIKRREETE
Low Complexity Region (SEG)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKahaeaadekedgeedydLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE
Disordered region (IsUnstruct)
***STSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYS*********************SNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAG********************************
Disordered Region (DISOPRED)
****TS*CACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFY*****************SSSSLN***************************SFIGSRGS*K****************************LNAGPIDWPKGCASAGLICGLLVCYSSS******************************YTDYSVIGIPGDGRCLFRAVAHGA******************DDLRAKVADE**KR*****
Disordered Region (DISEMBL)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSS*****************DLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE
Disordered Region (DISPRO)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKP*CNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSS***************************GKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRR****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSSKAHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE
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	251	2.2.26 [Sep-21-2011]
Q8LBZ4	317	OTU domain-containing pro	yes	no	0.884	0.700	0.371	2e-36

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

 Score =  152 bits (384), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 94/253 (37%), Positives = 141/253 (55%), Gaps = 31/253 (12%)

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

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

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

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

Query: 239 VADEFIKRREETE 251
           VADEFI+RR+ETE
Sbjct: 213 VADEFIQRRQETE 225

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	251
359481937	340	PREDICTED: OTU domain-containing protein	0.984	0.726	0.574	5e-75
255587443	343	cysteine-type peptidase, putative [Ricin	0.996	0.728	0.523	6e-64
224139840	319	predicted protein [Populus trichocarpa]	0.900	0.708	0.539	2e-60
147779061	806	hypothetical protein VITISV_002512 [Viti	0.689	0.214	0.646	3e-59
363806736	339	uncharacterized protein LOC100810338 [Gl	0.972	0.719	0.519	2e-53
449437605	286	PREDICTED: OTU domain-containing protein	0.752	0.660	0.471	2e-44
224120200	223	predicted protein [Populus trichocarpa]	0.541	0.609	0.605	1e-39
297817112	313	hypothetical protein ARALYDRAFT_486235 [	0.860	0.690	0.396	9e-38
30694718	317	Cysteine proteinases-like protein [Arabi	0.884	0.700	0.371	1e-34
51968592	265	unknown protein [Arabidopsis thaliana] g	0.884	0.837	0.371	1e-34

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

 Score =  286 bits (732), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 146/254 (57%), Positives = 180/254 (70%), Gaps = 7/254 (2%)

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

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

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

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

Query: 238 KVADEFIKRREETE 251
           +V DEFI+RR ETE
Sbjct: 237 EVVDEFIRRRSETE 250

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  249 bits (637), Expect = 6e-64,   Method: Compositional matrix adjust.
 Identities = 133/254 (52%), Positives = 169/254 (66%), Gaps = 4/254 (1%)

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

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

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

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

Query: 238 KVADEFIKRREETE 251
           +VADEFI+RR+ETE
Sbjct: 240 RVADEFIRRRQETE 253

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  238 bits (606), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 124/230 (53%), Positives = 161/230 (70%), Gaps = 4/230 (1%)

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

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

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

Query: 202 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE 251
           DGRCLFR+VAHGAC+R+GKPAPS ++QRELADDLR+KVADEFIKRREETE
Sbjct: 180 DGRCLFRSVAHGACIRSGKPAPSENLQRELADDLRSKVADEFIKRREETE 229

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  234 bits (596), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 115/178 (64%), Positives = 140/178 (78%), Gaps = 5/178 (2%)

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

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

Query: 194 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE 251
           YS+ GIPGDGRCLFR+V HGACLR+GKPAPS S QRELAD+LRA+V DEFI+RR ETE
Sbjct: 659 YSITGIPGDGRCLFRSVVHGACLRSGKPAPSASCQRELADELRAEVVDEFIRRRSETE 716

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  214 bits (545), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 133/256 (51%), Positives = 166/256 (64%), Gaps = 12/256 (4%)

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

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

Query: 120 LLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVC-YSSSKAHAEAADEKEDGEED-- 176
           LLVP Q ++ K+K N G + WP+GCAS GLI GLLVC  SS  AHAE+  E E+ ++D  
Sbjct: 115 LLVPKQNMMRKVKCNLGSVSWPRGCASVGLIFGLLVCNLSSEPAHAESHSENENRKDDCN 174

Query: 177 -YDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDL 235
            Y+ SNVK  HGKKVYTDYSVIGIPGDGRCLFR+VA GACLR+GKP P+ SIQRELADDL
Sbjct: 175 EYE-SNVKVLHGKKVYTDYSVIGIPGDGRCLFRSVARGACLRSGKPPPNESIQRELADDL 233

Query: 236 RAKVADEFIKRREETE 251
           RA+VADEFIKR+EETE
Sbjct: 234 RARVADEFIKRKEETE 249

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  185 bits (469), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 117/248 (47%), Positives = 138/248 (55%), Gaps = 59/248 (23%)

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

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

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

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

Query: 244 IKRREETE 251
           IKRREETE
Sbjct: 188 IKRREETE 195

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  169 bits (428), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 83/137 (60%), Positives = 105/137 (76%), Gaps = 1/137 (0%)

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

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

Query: 235 LRAKVADEFIKRREETE 251
           LR+ VADEFIKRRE+TE
Sbjct: 121 LRSNVADEFIKRREDTE 137

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  162 bits (411), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 101/255 (39%), Positives = 143/255 (56%), Gaps = 39/255 (15%)

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

Query: 61  ISS--SSLNVLQPFQATCFSPGLTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKM 118
           +S+  SS +                   + R L  RS +G     K  +E+S      KM
Sbjct: 58  VSNRPSSWH-------------------DKRLLINRSTVGP----KEKLEVSFLSPDAKM 94

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

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

Query: 237 AKVADEFIKRREETE 251
            KVADEFIKRR+ETE
Sbjct: 207 TKVADEFIKRRQETE 221

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  152 bits (384), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 94/253 (37%), Positives = 141/253 (55%), Gaps = 31/253 (12%)

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

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

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

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

Query: 239 VADEFIKRREETE 251
           VADEFI+RR+ETE
Sbjct: 213 VADEFIQRRQETE 225

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|51968592|dbj|BAD42988.1| unknown protein [Arabidopsis thaliana] gi|51971607|dbj|BAD44468.1| unknown protein [Arabidopsis thaliana]

 Score =  152 bits (383), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 94/253 (37%), Positives = 141/253 (55%), Gaps = 31/253 (12%)

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

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

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

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

Query: 239 VADEFIKRREETE 251
           VADEFI+RR+ETE
Sbjct: 213 VADEFIQRRQETE 225

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	251
TAIR|locus:2095748	317	AT3G57810 "AT3G57810" [Arabido	0.426	0.337	0.568	3.9e-35

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

 Score = 309 (113.8 bits), Expect = 3.9e-35, Sum P(2) = 3.9e-35
 Identities = 62/109 (56%), Positives = 76/109 (69%)

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

Query:   203 GRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE 251
             GRCLFR+VAHG CLR+GK AP   +QRELAD+LR +VADEFI+RR+ETE
Sbjct:   177 GRCLFRSVAHGFCLRSGKLAPGEKMQRELADELRTRVADEFIQRRQETE 225

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

Your Input: eugene3.00160441 hypothetical protein (319 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	251
pfam02338	123	pfam02338, OTU, OTU-like cysteine protease	2e-04

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

 Score = 39.4 bits (92), Expect = 2e-04
 Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 9/52 (17%)

Query: 200 PGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE 251
           PGDG CLF AV+              + ++EL D+LR  V +   + RE+ E
Sbjct: 1   PGDGNCLFHAVSDQLGD---------AGRQELHDELREAVVEYLRENREDFE 43

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	251
KOG2606	302	consensus OTU (ovarian tumor)-like cysteine protea	98.99
PF02338	121	OTU: OTU-like cysteine protease; InterPro: IPR0033	98.73
PF10275	244	Peptidase_C65: Peptidase C65 Otubain; InterPro: IP	93.9
KOG2605	371	consensus OTU (ovarian tumor)-like cysteine protea	90.91
KOG3991	256	consensus Uncharacterized conserved protein [Funct	89.32

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

Probab=98.99  E-value=5.4e-13  Score=122.95  Aligned_cols=215  Identities=17%  Similarity=0.086  Sum_probs=152.0

Q ss_pred             CeeeccccccccceEEecccccccccceeeeeeecCCCceeeeeeccCcccccccceeEEeecCCccccccccccccccc
Q 025530            1 MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPG   80 (251)
Q Consensus         1 mi~~~~i~~~~~n~v~l~g~~~~~mgs~i~~~~~~g~s~s~c~~~~~g~s~~~y~~~s~~~s~~s~~~~q~~~~~~~~S~   80 (251)
                      |+++.++..|.+|...|    .+|-+.+-......+..+..|.... ++.++.|.+.-..++.   -+-|++++.+++..
T Consensus         2 ~~~~~~~~~~~~~e~iL----aRHr~E~keLq~ki~~mKk~a~k~~-k~~rK~~~~~~~~le~---el~qkH~kEL~~~~   73 (302)
T KOG2606|consen    2 MTCMDSEQDEESNEEIL----ARHRRERKELQAKITSMKKAAPKGN-KKKRKELTEDIAKLEK---ELSQKHKKELEKLK   73 (302)
T ss_pred             cCCccchhhhhhHHHHH----HHHHHHHHHHHHHHHHHHHhhhhcc-HHHHHHHHHHHHHHHh---HHHHHHHHHHHhhc
Confidence            67888899999998888    8899999999999999999999887 8999999995555554   24579999999999


Q ss_pred             ccCCCCCCCCceeeeeecccCccceeeeeeecccceeeeecccccCccccccCCcccccCCCCCCcceeeeeeeeeccCc
Q 025530           81 LTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSS  160 (251)
Q Consensus        81 l~k~~~~~~~~tvk~~~~s~G~~kr~~~ISl~c~~ln~r~~~p~~~~~ski~~n~~~~~w~~g~~s~gL~fg~~vc~ss~  160 (251)
                      +....      +|        .++....-++..+..||.++---.  -|. ..+.+.-|...+-....-..-..+|+++.
T Consensus        74 ~~~~~------e~--------~~~e~~~~s~l~~~a~~~~~~~ee--~P~-~sKa~k~r~k~r~e~r~~e~~~~~e~~~~  136 (302)
T KOG2606|consen   74 LINES------EV--------TPKENLIESVLSPIANMSLENKEE--TPR-QSKARKRREKKRKEERKREAEKIAEEESL  136 (302)
T ss_pred             ccCcc------cc--------Cccccchhhhhccccccccccccc--CCc-ccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            98766      45        677878888888888876432110  000 12233333333444444333444444333


Q ss_pred             ccccccccccccCCCccccccccCCCCceeEEeeeEeeecCCcchhhHHHHhHHhHHhCCCCCChhhhhhhHHHHHHHHH
Q 025530          161 KAHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVA  240 (251)
Q Consensus       161 ~a~ae~~~~~~~~~~~~~~s~~~~~~g~k~~~~ysV~gI~GDGRCLFRSvAhGa~~~~G~~~p~~~eqrelADeLR~~Va  240 (251)
                      . +-..+...++.  .        -..+=......+..||.||.|||+||.|+++++.+..++-+.++++.||.+|..|.
T Consensus       137 ~-~~~~~k~~E~~--k--------~~~il~~~~l~~~~Ip~DG~ClY~aI~hQL~~~~~~~~~v~kLR~~~a~Ymr~H~~  205 (302)
T KOG2606|consen  137 S-NQADAKSMEKE--K--------LAQILEERGLKMFDIPADGHCLYAAISHQLKLRSGKLLSVQKLREETADYMREHVE  205 (302)
T ss_pred             h-cCCchhhhHHH--H--------HHHHHHhccCccccCCCCchhhHHHHHHHHHhccCCCCcHHHHHHHHHHHHHHHHH
Confidence            1 10000000000  0        00011123467889999999999999999999999999999999999999999999


Q ss_pred             HHHhhcccccC
Q 025530          241 DEFIKRREETE  251 (251)
Q Consensus       241 DeL~kRReEtE  251 (251)
                      |+|.-++.|++
T Consensus       206 df~pf~~~eet  216 (302)
T KOG2606|consen  206 DFLPFLLDEET  216 (302)
T ss_pred             HhhhHhcCccc
Confidence            99998888865

>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=98.73  E-value=5e-09  Score=79.35  Aligned_cols=44  Identities=39%  Similarity=0.640  Sum_probs=35.2

Q ss_pred             cCCcchhhHHHHhHHhHHhCCCCCChhhhhhhHHHHHHHHHHHHh-hccccc
Q 025530          200 PGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFI-KRREET  250 (251)
Q Consensus       200 ~GDGRCLFRSvAhGa~~~~G~~~p~~~eqrelADeLR~~VaDeL~-kRReEt  250 (251)
                      ||||+||||||++++....+   .    ....+.+||.+|++.|. +.+++.
T Consensus         1 pgDGnClF~Avs~~l~~~~~---~----~~~~~~~lR~~~~~~l~~~~~~~~   45 (121)
T PF02338_consen    1 PGDGNCLFRAVSDQLYGDGG---G----SEDNHQELRKAVVDYLRDKNRDKF   45 (121)
T ss_dssp             -SSTTHHHHHHHHHHCTT-S---S----STTTHHHHHHHHHHHHHTHTTTHH
T ss_pred             CCCccHHHHHHHHHHHHhcC---C----CHHHHHHHHHHHHHHHHHhccchh
Confidence            79999999999999997665   1    13479999999999999 877753

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

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

Probab=93.90  E-value=0.041  Score=47.77  Aligned_cols=23  Identities=26%  Similarity=0.611  Sum_probs=17.6

Q ss_pred             eEeeecCCcchhhHHHHhHHhHH
Q 025530          195 SVIGIPGDGRCLFRAVAHGACLR  217 (251)
Q Consensus       195 sV~gI~GDGRCLFRSvAhGa~~~  217 (251)
                      .+.+|+|||+|.|||++-+.--.
T Consensus        42 ~~R~vRGDGNCFYRAf~F~ylE~   64 (244)
T PF10275_consen   42 GIRRVRGDGNCFYRAFGFSYLEQ   64 (244)
T ss_dssp             EEE-B-SSSTHHHHHHHHHHHHH
T ss_pred             heEeecCCccHHHHHHHHHHHHH
Confidence            45689999999999999996653

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

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

Probab=90.91  E-value=0.16  Score=48.78  Aligned_cols=49  Identities=31%  Similarity=0.416  Sum_probs=40.6

Q ss_pred             eeEEeeeEeeecCCcchhhHHHHhHHhHHhCCCCCChhhhhhhHHHHHHHHHHHHhhccc
Q 025530          189 KVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRRE  248 (251)
Q Consensus       189 k~~~~ysV~gI~GDGRCLFRSvAhGa~~~~G~~~p~~~eqrelADeLR~~VaDeL~kRRe  248 (251)
                      ++.-.|-..+|.+||.|+|||++-.+..        .   .|..|..|..++|.+-+.|.
T Consensus       213 ~~~~g~e~~Kv~edGsC~fra~aDQvy~--------d---~e~~~~~~~~~~dq~~~e~~  261 (371)
T KOG2605|consen  213 KKHFGFEYKKVVEDGSCLFRALADQVYG--------D---DEQHDHNRRECVDQLKKERD  261 (371)
T ss_pred             HHHhhhhhhhcccCCchhhhccHHHhhc--------C---HHHHHHHHHHHHHHHhhccc
Confidence            4667788999999999999999998876        2   34678899999999966664

>KOG3991 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.32  E-value=0.18  Score=46.83  Aligned_cols=20  Identities=35%  Similarity=0.552  Sum_probs=17.2

Q ss_pred             eeecCCcchhhHHHHhHHhH
Q 025530          197 IGIPGDGRCLFRAVAHGACL  216 (251)
Q Consensus       197 ~gI~GDGRCLFRSvAhGa~~  216 (251)
                      .++.|||+|+|||++.+..-
T Consensus        67 R~trgDGNCfyra~~~s~lE   86 (256)
T KOG3991|consen   67 RKTRGDGNCFYRAFAYSYLE   86 (256)
T ss_pred             heecCCCceehHHHHHHHHH
Confidence            36789999999999998764

---

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	251
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	4e-09
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	5e-06
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	2e-05
3pfy_A	185	OTU domain-containing protein 5; structural genomi	6e-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 = 53.9 bits (129), Expect = 4e-09
 Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 2/54 (3%)

Query: 194 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRR 247
           + ++  PGDG C + ++A        K   S    + L +    K   E  + R
Sbjct: 31  FEIVRQPGDGNCFYHSIAE--LTMPNKTDHSYHYIKRLTESAARKYYQEEPEAR 82

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

 Score = 45.1 bits (106), Expect = 5e-06
 Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 2/50 (4%)

Query: 194 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEF 243
           + ++  PGDG C + ++A        K   S    + L +    K   E 
Sbjct: 31  FEIVRQPGDGNCFYHSIAE--LTMPNKTDHSYHYIKRLTESAARKYYQEE 78

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

 Score = 43.4 bits (102), Expect = 2e-05
 Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 12/51 (23%)

Query: 199 IPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREE 249
           +  D  CLF A+A+   +           +++   DLR  V+ E +    +
Sbjct: 25  VLDDNSCLFHAIAY--GIF----------KQDSVRDLREMVSKEVLNNPVK 63

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

 Score = 41.7 bits (97), Expect = 6e-05
 Identities = 18/96 (18%), Positives = 33/96 (34%), Gaps = 12/96 (12%)

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

Query: 216 LRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE 251
                    V   +++ + +R    D  +K  +   
Sbjct: 79  ---------VYGDQDMHEVVRKHCMDYLMKNADYFS 105

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	251
3phx_A	185	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	98.89
3phu_A	219	RNA-directed RNA polymerase L; OTU domain, DE-ubiq	98.79
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	98.75
3pfy_A	185	OTU domain-containing protein 5; structural genomi	98.71
1tff_A	234	Ubiquitin thiolesterase protein OTUB2; hydrolase;	96.14
4ddg_A	399	Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI	95.44
2zfy_A	234	Ubiquitin thioesterase OTUB1; otubain, structural	95.2
4dhi_B	284	Ubiquitin thioesterase otubain-like; ubiquitin E2	93.97

>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=98.89  E-value=6.9e-10  Score=93.20  Aligned_cols=59  Identities=12%  Similarity=0.255  Sum_probs=46.0

Q ss_pred             CCceeEEeeeEeeecCCcchhhHHHHhHHhHHhCCCCCChhhhhhhHHHHHHHHHHHHhhcccc
Q 025530          186 HGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREE  249 (251)
Q Consensus       186 ~g~k~~~~ysV~gI~GDGRCLFRSvAhGa~~~~G~~~p~~~eqrelADeLR~~VaDeL~kRReE  249 (251)
                      ++..+.++|.|.+|+|||+||||||++.+...    .++ .+++..+++||.++++.+.+++++
T Consensus        23 p~~~~~~~~~v~rv~gDGnCLFrAva~qL~~~----~~~-~~~~~~~~~LR~~~~~yi~~~~~~   81 (185)
T 3phx_A           23 PRFNISDYFEIVRQPGDGNCFYHSIAELTMPN----KTD-HSYHYIKRLTESAARKYYQEEPEA   81 (185)
T ss_dssp             CCCBHHHHEEEECCCSSTTHHHHHHHHHHSTT----CCT-TTHHHHHHHHHHHHHHHGGGCTTH
T ss_pred             CCcccccCeEEEccCCCCchHHHHHHHHHhCC----Ccc-chhhhHHHHHHHHHHHHHHhChHh
Confidence            44555677999999999999999999976431    222 223567999999999999998875

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

Probab=98.79  E-value=1.8e-09  Score=93.60  Aligned_cols=59  Identities=14%  Similarity=0.276  Sum_probs=45.6

Q ss_pred             CCceeEEeeeEeeecCCcchhhHHHHhHHhHHhCCCCCChhhhhhhHHHHHHHHHHHHhhcccc
Q 025530          186 HGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREE  249 (251)
Q Consensus       186 ~g~k~~~~ysV~gI~GDGRCLFRSvAhGa~~~~G~~~p~~~eqrelADeLR~~VaDeL~kRReE  249 (251)
                      +...+.++|.|.+|+|||+||||||++.+..  ++  ++ ..++..+++||.++++.+.+++++
T Consensus        23 p~~~~~~~~~V~rvpgDGnCLFrAVs~qL~~--~~--~~-~~~~~~h~~LR~~va~yi~~n~d~   81 (219)
T 3phu_A           23 PRFNISDYFEIVRQPGDGNCFYHSIAELTMP--NK--TD-HSYHYIKRLTESAARKYYQEEPEA   81 (219)
T ss_dssp             CCCBHHHHEEEECCCCSSCHHHHHHHHHHCT--TC--CT-TTHHHHHHHHHHHHHHHGGGCHHH
T ss_pred             CCcccccceEEEccCCCCchHHHHHHHHHhC--CC--cc-chhhhHHHHHHHHHHHHHHhChhh
Confidence            4455556799999999999999999997733  11  21 223667999999999999988865

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

Probab=98.75  E-value=5.8e-09  Score=88.92  Aligned_cols=46  Identities=33%  Similarity=0.488  Sum_probs=39.2

Q ss_pred             eeeEeeecCCcchhhHHHHhHHhHHhCCCCCChhhhhhhHHHHHHHHHHHHhhccccc
Q 025530          193 DYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREET  250 (251)
Q Consensus       193 ~ysV~gI~GDGRCLFRSvAhGa~~~~G~~~p~~~eqrelADeLR~~VaDeL~kRReEt  250 (251)
                      .+.+..|||||+||||||++++ .   .        .+.+.+||..|++.|.++|++.
T Consensus        19 ~l~~~~i~~DGnCLFrAva~qL-~---~--------~~~~~~lR~~vv~yi~~n~d~f   64 (212)
T 3by4_A           19 VLSVHPVLDDNSCLFHAIAYGI-F---K--------QDSVRDLREMVSKEVLNNPVKF   64 (212)
T ss_dssp             EEEEECCCCSTTHHHHHHHHHH-H---S--------SCCSHHHHHHHHHHHHHCTTTT
T ss_pred             CeEEEEeCCCCchHHHHHHHHh-C---C--------chHHHHHHHHHHHHHHHCHHHH
Confidence            3678899999999999999999 2   1        1248899999999999999875

>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=98.71  E-value=6.2e-09  Score=87.96  Aligned_cols=50  Identities=24%  Similarity=0.422  Sum_probs=42.8

Q ss_pred             EEeeeEeeecCCcchhhHHHHhHHhHHhCCCCCChhhhhhhHHHHHHHHHHHHhhcccccC
Q 025530          191 YTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETE  251 (251)
Q Consensus       191 ~~~ysV~gI~GDGRCLFRSvAhGa~~~~G~~~p~~~eqrelADeLR~~VaDeL~kRReEtE  251 (251)
                      ...+.+..|+|||+||||||++++..       +    .+.+.+||.+|++.|.++|++.+
T Consensus        56 ~~gL~~~~I~~DGnCLFrAia~qL~g-------~----~~~h~~LR~~vv~yi~~n~d~f~  105 (185)
T 3pfy_A           56 KKGFIIKQMKEDGACLFRAVADQVYG-------D----QDMHEVVRKHCMDYLMKNADYFS  105 (185)
T ss_dssp             HHCCEEECCCCSTTHHHHHHHHHHHS-------C----GGGHHHHHHHHHHHHHHTHHHHT
T ss_pred             HCCcEEEeeCCCCChHHHHHHHHHhC-------C----chHHHHHHHHHHHHHHHHHHHHH
Confidence            46799999999999999999999973       1    23689999999999999998753

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

Probab=96.14  E-value=0.0036  Score=53.99  Aligned_cols=27  Identities=22%  Similarity=0.357  Sum_probs=21.0

Q ss_pred             eEEeeeEeeecCCcchhhHHHHhHHhHHh
Q 025530          190 VYTDYSVIGIPGDGRCLFRAVAHGACLRA  218 (251)
Q Consensus       190 ~~~~ysV~gI~GDGRCLFRSvAhGa~~~~  218 (251)
                      ++..|  .+|+|||+|.|||++-|.--.-
T Consensus        38 ~y~~~--R~vRgDGNCFYRAf~f~ylE~l   64 (234)
T 1tff_A           38 RFTAI--RKTKGDRNCFYRALGYSYLESL   64 (234)
T ss_dssp             HEEEE--ECBCCSSCHHHHHHHHHHHHHH
T ss_pred             hhhhe--eecCCCccHHHHHHHHHHHHHH
Confidence            35444  4999999999999998876543

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

Probab=95.44  E-value=0.012  Score=53.74  Aligned_cols=26  Identities=19%  Similarity=0.268  Sum_probs=21.4

Q ss_pred             eEEeeeEeeecCCcchhhHHHHhHHhHH
Q 025530          190 VYTDYSVIGIPGDGRCLFRAVAHGACLR  217 (251)
Q Consensus       190 ~~~~ysV~gI~GDGRCLFRSvAhGa~~~  217 (251)
                      +|.+||  +|.|||+|.|||++.|.--.
T Consensus       206 ~y~~~R--~vrgDGNCFYRAf~f~ylE~  231 (399)
T 4ddg_A          206 KYSYIR--KTRPDGNSFYRAFGFSHLEA  231 (399)
T ss_dssp             HCSEEE--CBCCSSCHHHHHHHHHHHHH
T ss_pred             hcCeee--eecCCCchHHHHHHHHHHHH
Confidence            456555  89999999999999987663

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

Probab=95.20  E-value=0.011  Score=50.71  Aligned_cols=27  Identities=22%  Similarity=0.384  Sum_probs=21.4

Q ss_pred             eEEeeeEeeecCCcchhhHHHHhHHhHHh
Q 025530          190 VYTDYSVIGIPGDGRCLFRAVAHGACLRA  218 (251)
Q Consensus       190 ~~~~ysV~gI~GDGRCLFRSvAhGa~~~~  218 (251)
                      +|..|+  +|.|||+|.|||++-+.--.-
T Consensus        41 ~y~~~R--~vRgDGNCFyRaf~f~ylE~l   67 (234)
T 2zfy_A           41 KYSYIR--KTRPDGNCFYRAFGFSHLEAL   67 (234)
T ss_dssp             TCCEEE--CBCCSSCHHHHHHHHHHHHHH
T ss_pred             hcccee--eccCCccHHHHHHHHHHHHHH
Confidence            455555  899999999999999886533

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

Probab=93.97  E-value=0.023  Score=51.34  Aligned_cols=26  Identities=38%  Similarity=0.737  Sum_probs=22.5

Q ss_pred             eeEEeeeEeeecCCcchhhHHHHhHHhH
Q 025530          189 KVYTDYSVIGIPGDGRCLFRAVAHGACL  216 (251)
Q Consensus       189 k~~~~ysV~gI~GDGRCLFRSvAhGa~~  216 (251)
                      ++|.+||  ++.|||+|.|||++-|..-
T Consensus        74 ~~Y~~~R--~~RGDGNCFyRAf~F~ylE   99 (284)
T 4dhi_B           74 EVYGEIR--YIRGDGNCFYRAILVGLIE   99 (284)
T ss_dssp             TTEEEEE--CBCCSTTHHHHHHHHHHHH
T ss_pred             Hhcccee--eecCCCchhHHHHHHHHHH
Confidence            4688887  8999999999999999865

---

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	251
d1tffa_	228	Ubiquitin thiolesterase protein OTUB2 (Otubain-2)	95.79

>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=95.79  E-value=0.0031  Score=51.17  Aligned_cols=27  Identities=26%  Similarity=0.458  Sum_probs=21.1

Q ss_pred             eeEEeeeEeeecCCcchhhHHHHhHHhHH
Q 025530          189 KVYTDYSVIGIPGDGRCLFRAVAHGACLR  217 (251)
Q Consensus       189 k~~~~ysV~gI~GDGRCLFRSvAhGa~~~  217 (251)
                      ++|..  +.+|+|||+|.|||++.+.-..
T Consensus        31 ~~y~~--~R~vRgDGNCFYRaf~f~yle~   57 (228)
T d1tffa_          31 KRFTA--IRKTKGDRNCFYRALGYSYLES   57 (228)
T ss_dssp             HHEEE--EECBCCSSCHHHHHHHHHHHHH
T ss_pred             Hhccc--eEeecCCCccHHHHHHHHHHHH
Confidence            34444  5589999999999999997653