Citrus Sinensis ID: 016269

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390--
Protein Sequence
MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccHHHHHccccccccccccccccEEEcccEEccccccccccccccccHHHHHHHccccEEEEEccccccccccccccccccccccccHHHHHHHHHHHHHccccccccccccccHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHccccccccccEEEEEEcccccccccccEEEEccccccccccccccccccEEEEEEEcccccccccccHHHHHHHHHccccccEEEcccccEEEEEEEEccccEEEEcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHEEEccccccccccccccccccccccccccccccccccEEcccccccccHHcccccccccccccccccccHHHHHHHHHHHccHHHHHHHHHccccccccccccccEEEEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHccccccccHHHHHHHHcccccccccccccHHHHHHHHHHHHHHcccccccccccccEEEEEEEcccEEccccccEEccccHHHHccccccccccccEEEEEEEEEccHccccHHHHHHHHHHHccccEEEEEccccccEEEEEEEEccEEEEEccccccccEccccccccccccccccc
Coil and Loop (DISEMBL)
mkgfrekagaskcfskstpdtpnrslasvgselgssesksskgsLLSSLFNSAFSVFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSmrrihervlgpsrtgissstsdIWLLGVCHKIaqdealgdaagnnglaefnqdFSSRILISYrkgfdpigdskitsdvgwgcmlRSSQMLVAQALLFHrlgrpwrkplqkpfdREYVEILHlfgdsetspfsIHNLLQAGKAyglaagswvgpyaMCRSWEALARCQraetglgcqslpMAIYVVsgdedgerggapvvciddasrhcsvfskgqadwtpiLLLVPLVlglekvnpryiptlrltftfpqslgivggkpgastYIVGVQeesaiyldphdvqpvinigkddleadtstyhse
Flexible Loop (DISEMBL)
mkgfrekagaskcfskstpdtpnrsLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETYSESSasekkavhnksngwtaAVKRLVtagsmrrihervlgpsrtgisssTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAEtglgcqslPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE
Low Complexity Region (SEG)
MKGFREKAGASKCFSKSTPDTPNRslasvgselgssesksskgsllsslfnsafsvfETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQdealgdaagnnglaeFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPIlllvplvlglEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE
Disordered region (IsUnstruct)
*****************************************************FSVF*******************GWTAAVKRLVTAGSMRRIHERVLG*****I**STSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIG**************
Disordered Region (DISOPRED)
************************************************************************************LVTAGSMRRIHERV**********STSDIWLLGVCHKIAQ************LAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQK****EYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRH*SV****QADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHS*
Disordered Region (DISEMBL)
*********************************************LSSLFNSAFSVFE*****************NGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEA********
Disordered Region (DISPRO)
**GFREKAGASK************************************LFNSAFSVFETYS**************NGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQD*******GNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDL*ADTSTY*S*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE
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	392	2.2.26 [Sep-21-2011]
A2Q1V6	487	Cysteine protease ATG4 OS	N/A	no	0.994	0.800	0.664	1e-139
Q8S929	467	Cysteine protease ATG4a O	yes	no	0.984	0.826	0.588	1e-130
Q7XPW8	478	Cysteine protease ATG4B O	yes	no	0.880	0.721	0.607	1e-118
Q2XPP4	478	Cysteine protease ATG4B O	N/A	no	0.880	0.721	0.604	1e-117
A2XHJ5	473	Cysteine protease ATG4A O	N/A	no	0.880	0.729	0.610	1e-116
Q9M1Y0	477	Cysteine protease ATG4b O	no	no	0.931	0.765	0.594	1e-116
Q75KP8	474	Cysteine protease ATG4A O	no	no	0.880	0.727	0.601	1e-113
Q8C9S8	396	Cysteine protease ATG4A O	yes	no	0.635	0.628	0.327	2e-41
Q8BGE6	393	Cysteine protease ATG4B O	no	no	0.668	0.666	0.339	3e-40
Q9Y4P1	393	Cysteine protease ATG4B O	yes	no	0.630	0.628	0.351	6e-40

>sp|A2Q1V6|ATG4_MEDTR Cysteine protease ATG4 OS=Medicago truncatula GN=ATG4 PE=3 SV=1

 Score =  494 bits (1272), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 259/390 (66%), Positives = 305/390 (78%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           +K   ++  A+KC SKS+ +  + +     S+ GSS+SK  K SL S+ F S FSV ETY
Sbjct: 3   LKDLCDRIVAAKCSSKSSTEIVDNTQVPASSKAGSSDSKFPKASLWSTFFTSGFSVDETY 62

Query: 61  SESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCH 120
           SESS+SEKK VH++++GW AAV+++V+ GSMRR  ERVLG  RT +SSS  DIWLLGVCH
Sbjct: 63  SESSSSEKKTVHSRNSGWAAAVRKVVSGGSMRRFQERVLGSCRTDVSSSDGDIWLLGVCH 122

Query: 121 KIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQML 180
           KI+Q E+ GD    N  A F QDF SRILI+YRKGFD I DSK TSDV WGCMLRSSQML
Sbjct: 123 KISQHESTGDVDIRNVFAAFEQDFFSRILITYRKGFDAIEDSKYTSDVNWGCMLRSSQML 182

Query: 181 VAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSW 240
           VAQALLFH+LGR WRK + KP D+EY++IL LFGDSE + FSIHNLLQAGK YGLA GSW
Sbjct: 183 VAQALLFHKLGRSWRKTVDKPVDKEYIDILQLFGDSEAAAFSIHNLLQAGKGYGLAVGSW 242

Query: 241 VGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSV 300
           VGPYAMCR+WE LAR QR +   G Q LPMAIYVVSGDEDGERGGAPVVCI+DA + C  
Sbjct: 243 VGPYAMCRTWEVLARNQREKNEQGEQLLPMAIYVVSGDEDGERGGAPVVCIEDACKRCLE 302

Query: 301 FSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQE 360
           FS+G   WTP+LLLVPLVLGL+KVN RYIP L+ TF FPQSLGI+GGKPGASTYI+GVQ 
Sbjct: 303 FSRGLVPWTPLLLLVPLVLGLDKVNLRYIPLLQSTFKFPQSLGILGGKPGASTYIIGVQN 362

Query: 361 ESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           + A YLDPH+V+PV+NI  D  E +TS+YH
Sbjct: 363 DKAFYLDPHEVKPVVNITGDTQEPNTSSYH 392

Cysteine protease required for autophagy, which is able to cleave the C-terminal part of ATG8 that may be subsequently converted to a smaller form, with a revealed C-terminal glycine. The C-terminal glycine of ATG8 is conjugated to phosphatidylethanolamine by an amide bond. This conjugated form has the capacity for the binding to autophagosomes.
Medicago truncatula (taxid: 3880)
EC: 3EC: .EC: 4EC: .EC: 2EC: 2EC: .EC: -

>sp|Q8S929|ATG4A_ARATH Cysteine protease ATG4a OS=Arabidopsis thaliana GN=ATG4A PE=2 SV=1

 Score =  466 bits (1200), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 230/391 (58%), Positives = 296/391 (75%), Gaps = 5/391 (1%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           MK   ++    +C S S  DT ++S   + S+ G S++KS K +L S++F S+ SV + Y
Sbjct: 1   MKALCDRFVPQQCSSSSKSDTHDKS--PLVSDSGPSDNKS-KFTLWSNVFTSSSSVSQPY 57

Query: 61  SESSASEKKAVHNKSNGWTAAVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVC 119
            ESS S  K V    NGWTA VKR+ + +G++RR  ERVLGP+RTG+ S+TSD+WLLGVC
Sbjct: 58  RESSTSGHKQVCTTRNGWTAFVKRVSMASGAIRRFQERVLGPNRTGLPSTTSDVWLLGVC 117

Query: 120 HKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQM 179
           +KI+ DE  G+      LA    DFSS+IL++YRKGF+P  D+  TSDV WGCM+RSSQM
Sbjct: 118 YKISADENSGETDTGTVLAALQLDFSSKILMTYRKGFEPFRDTTYTSDVNWGCMIRSSQM 177

Query: 180 LVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGS 239
           L AQALLFHRLGR W K  + P ++EY+E L  FGDSE S FSIHNL+ AG +YGLAAGS
Sbjct: 178 LFAQALLFHRLGRAWTKKSELP-EQEYLETLEPFGDSEPSAFSIHNLIIAGASYGLAAGS 236

Query: 240 WVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCS 299
           WVGPYA+CR+WE+LA  +R +T    Q+LPMA+++VSG EDGERGGAP++CI+DA++ C 
Sbjct: 237 WVGPYAICRAWESLACKKRKQTDSKNQTLPMAVHIVSGSEDGERGGAPILCIEDATKSCL 296

Query: 300 VFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQ 359
            FSKGQ++WTPI+LLVPLVLGL+ VNPRYIP+L  TFTFPQS+GI+GGKPGASTYIVGVQ
Sbjct: 297 EFSKGQSEWTPIILLVPLVLGLDSVNPRYIPSLVATFTFPQSVGILGGKPGASTYIVGVQ 356

Query: 360 EESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           E+   YLDPH+VQ V+ + K+  + DTS+YH
Sbjct: 357 EDKGFYLDPHEVQQVVTVNKETPDVDTSSYH 387

Cysteine protease required for autophagy, which is able to cleave the C-terminal part of ATG8 that may be subsequently converted to a smaller form, with a revealed C-terminal glycine. ATG8 is then activated by ATG7 and is subsequently attached to ATG3, another E2-like enzyme, after which the C-terminal glycine of ATG8 is conjugated to phosphatidylethanolamine by an amide bond. This conjugated form has the capacity for the binding to autophagosomes.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|Q7XPW8|ATG4B_ORYSJ Cysteine protease ATG4B OS=Oryza sativa subsp. japonica GN=ATG4B PE=2 SV=1

 Score =  424 bits (1091), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 215/354 (60%), Positives = 276/354 (77%), Gaps = 9/354 (2%)

Query: 39  KSSKGSLLSSLFNSAFSVFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERV 98
           K SK S+LS +FNS F++FE + +SSA++     + S  W+  ++R+V +GSM R     
Sbjct: 38  KQSKTSILSCVFNSPFNIFEAHQDSSANKSPKSSSGSYDWSRVLRRIVCSGSMWRF---- 93

Query: 99  LGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDP 158
           LG S+     ++SD+W LG C+K++ +E+  D+   +G A F +DFSSRI I+YR+GFD 
Sbjct: 94  LGTSKV---LTSSDVWFLGKCYKLSSEESSSDSDSESGHATFLEDFSSRIWITYRRGFDA 150

Query: 159 IGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSET 218
           I DSK TSDV WGCM+RSSQMLVAQAL+FH LGR WR+PL+KP++ EY+ ILH+FGDSE 
Sbjct: 151 ISDSKYTSDVNWGCMVRSSQMLVAQALIFHHLGRSWRRPLEKPYNPEYIGILHMFGDSEA 210

Query: 219 SPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGL--GCQSLPMAIYVVS 276
             FSIHNLLQAG +YGLAAGSWVGPYAMCR+W+ L R  R +  +  G +S PMA+YVVS
Sbjct: 211 CAFSIHNLLQAGNSYGLAAGSWVGPYAMCRAWQTLVRTNREQHEVVDGNESFPMALYVVS 270

Query: 277 GDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTF 336
           GDEDGERGGAPVVCID A++ C  F+KGQ+ W+PILLLVPLVLGL+K+NPRYIP L+ TF
Sbjct: 271 GDEDGERGGAPVVCIDVAAQLCCDFNKGQSTWSPILLLVPLVLGLDKINPRYIPLLKETF 330

Query: 337 TFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           TFPQSLGI+GGKPG STYI GVQ++ A+YLDPH+VQ  ++I  D++EADTS+YH
Sbjct: 331 TFPQSLGILGGKPGTSTYIAGVQDDRALYLDPHEVQMAVDIAADNIEADTSSYH 384

Cysteine protease required for autophagy, which is able to cleave the C-terminal part of ATG8 that may be subsequently converted to a smaller form, with a revealed C-terminal glycine. The C-terminal glycine of ATG8 is conjugated to phosphatidylethanolamine by an amide bond. This conjugated form has the capacity for the binding to autophagosomes.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|Q2XPP4|ATG4B_ORYSI Cysteine protease ATG4B OS=Oryza sativa subsp. indica GN=ATG4B PE=1 SV=2

 Score =  421 bits (1082), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 214/354 (60%), Positives = 274/354 (77%), Gaps = 9/354 (2%)

Query: 39  KSSKGSLLSSLFNSAFSVFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERV 98
           K SK S+LS +FNS F++FE + +SSA++     + S  W   ++R+V +GSM R     
Sbjct: 38  KQSKTSILSCVFNSPFNIFEAHQDSSANKSPKSSSGSYDWLRVLRRIVCSGSMWRF---- 93

Query: 99  LGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDP 158
           LG S+     ++SD+W LG C+K++ +E+  D+   +G A F +DFSSRI I+YR+GFD 
Sbjct: 94  LGTSKV---LTSSDVWFLGKCYKLSSEESSSDSDSESGHATFLEDFSSRIWITYRRGFDA 150

Query: 159 IGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSET 218
           I DSK TSDV WGCM+RSSQMLVAQAL+FH LGR WR+P +KP++ EY+ ILH+FGDSE 
Sbjct: 151 ISDSKYTSDVNWGCMVRSSQMLVAQALIFHHLGRSWRRPSEKPYNPEYIGILHMFGDSEA 210

Query: 219 SPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGL--GCQSLPMAIYVVS 276
             FSIHNLLQAG +YGLAAGSWVGPYAMCR+W+ L R  R +  +  G +S PMA+YVVS
Sbjct: 211 CAFSIHNLLQAGNSYGLAAGSWVGPYAMCRAWQTLVRTNREQHEVVDGNESFPMALYVVS 270

Query: 277 GDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTF 336
           GDEDGERGGAPVVCID A++ C  F+KGQ+ W+PILLLVPLVLGL+K+NPRYIP L+ TF
Sbjct: 271 GDEDGERGGAPVVCIDVAAQLCCDFNKGQSTWSPILLLVPLVLGLDKINPRYIPLLKETF 330

Query: 337 TFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           TFPQSLGI+GGKPG STYI GVQ++ A+YLDPH+VQ  ++I  D++EADTS+YH
Sbjct: 331 TFPQSLGILGGKPGTSTYIAGVQDDRALYLDPHEVQMAVDIAADNIEADTSSYH 384

Cysteine protease required for autophagy, which is able to cleave the C-terminal part of ATG8 that may be subsequently converted to a smaller form, with a revealed C-terminal glycine. The C-terminal glycine of ATG8 is conjugated to phosphatidylethanolamine by an amide bond. This conjugated form has the capacity for the binding to autophagosomes.

Oryza sativa subsp. indica (taxid: 39946)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|A2XHJ5|ATG4A_ORYSI Cysteine protease ATG4A OS=Oryza sativa subsp. indica GN=ATG4A PE=3 SV=1

 Score =  418 bits (1075), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 216/354 (61%), Positives = 268/354 (75%), Gaps = 9/354 (2%)

Query: 39  KSSKGSLLSSLFNSAFSVFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERV 98
           K SK S+LS +F+S FS+FE + +SSA      H+ S  W+  ++R+   GSM R     
Sbjct: 34  KQSKNSILSCVFSSPFSIFEAHQDSSAHRPLKPHSGSYAWSRFLRRIACTGSMWRF---- 89

Query: 99  LGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDP 158
           LG S+   + ++SD+W LG C+K++ +E    +   +G A F +DFSSRI I+YRKGFD 
Sbjct: 90  LGASK---ALTSSDVWFLGKCYKLSSEELSNSSDCESGNAAFLEDFSSRIWITYRKGFDA 146

Query: 159 IGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSET 218
           I DSK TSDV WGCM+RSSQMLVAQAL+FH LGR WRKP QKP+  EY+ ILH+FGDSE 
Sbjct: 147 ISDSKYTSDVNWGCMVRSSQMLVAQALIFHHLGRSWRKPSQKPYSPEYIGILHMFGDSEA 206

Query: 219 SPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRA--ETGLGCQSLPMAIYVVS 276
             FSIHNLLQAGK+YGLAAGSWVGPYAMCR+W+ L R  R   E   G  + PMA+YVVS
Sbjct: 207 CAFSIHNLLQAGKSYGLAAGSWVGPYAMCRAWQTLVRTNREHHEAVDGNGNFPMALYVVS 266

Query: 277 GDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTF 336
           GDEDGERGGAPVVCID A++ C  F+KGQ+ W+PILLLVPLVLGL+K+NPRYIP L+ TF
Sbjct: 267 GDEDGERGGAPVVCIDVAAQLCCDFNKGQSTWSPILLLVPLVLGLDKLNPRYIPLLKETF 326

Query: 337 TFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           TFPQSLGI+GGKPG STY+ GVQ++  +YLDPH+VQ  ++I  D+LEADTS+YH
Sbjct: 327 TFPQSLGILGGKPGTSTYVAGVQDDRVLYLDPHEVQLAVDIAADNLEADTSSYH 380

Cysteine protease required for autophagy, which is able to cleave the C-terminal part of ATG8 that may be subsequently converted to a smaller form, with a revealed C-terminal glycine. The C-terminal glycine of ATG8 is conjugated to phosphatidylethanolamine by an amide bond. This conjugated form has the capacity for the binding to autophagosomes.

Oryza sativa subsp. indica (taxid: 39946)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|Q9M1Y0|ATG4B_ARATH Cysteine protease ATG4b OS=Arabidopsis thaliana GN=ATG4B PE=1 SV=1

 Score =  417 bits (1073), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 218/367 (59%), Positives = 279/367 (76%), Gaps = 2/367 (0%)

Query: 25  SLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETYSESSASEKKAVHNKSNGWTAAVKR 84
           S  S+ S+  SS++KS+  +L S +  S+  V +   E+S S    V    + WT  +K 
Sbjct: 26  SPTSLVSDSASSDNKSNL-TLCSDVVASSSPVSQLCREASTSGHNPVCTTHSSWTVILKT 84

Query: 85  L-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQD 143
             + +G++RR  +RVLGPSRTGISSSTS+IWLLGVC+KI++ E+  +A     LA F QD
Sbjct: 85  ASMASGAIRRFQDRVLGPSRTGISSSTSEIWLLGVCYKISEGESSEEADAGRVLAAFRQD 144

Query: 144 FSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFD 203
           FSS IL++YR+GF+PIGD+  TSDV WGCMLRS QML AQALLF RLGR WRK   +P D
Sbjct: 145 FSSLILMTYRRGFEPIGDTTYTSDVNWGCMLRSGQMLFAQALLFQRLGRSWRKKDSEPAD 204

Query: 204 REYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGL 263
            +Y+EIL LFGD+E S FSIHNL+ AG++YGLAAGSWVGPYA+CRSWE+LAR  + ET  
Sbjct: 205 EKYLEILELFGDTEASAFSIHNLILAGESYGLAAGSWVGPYAVCRSWESLARKNKEETDD 264

Query: 264 GCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEK 323
             +S  MA+++VSG EDGERGGAP++CI+D ++ C  FS+G+ +W PILLLVPLVLGL++
Sbjct: 265 KHKSFSMAVHIVSGSEDGERGGAPILCIEDVTKTCLEFSEGETEWPPILLLVPLVLGLDR 324

Query: 324 VNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLE 383
           VNPRYIP+L  TFTFPQSLGI+GGKPGASTYIVGVQE+   YLDPHDVQ V+ + K++ +
Sbjct: 325 VNPRYIPSLIATFTFPQSLGILGGKPGASTYIVGVQEDKGFYLDPHDVQQVVTVKKENQD 384

Query: 384 ADTSTYH 390
            DTS+YH
Sbjct: 385 VDTSSYH 391

Cysteine protease required for autophagy, which is able to cleave the C-terminal part of ATG8 that may be subsequently converted to a smaller form, with a revealed C-terminal glycine. ATG8 is then activated by ATG7 and is subsequently attached to ATG3, another E2-like enzyme, after which the C-terminal glycine of ATG8 is conjugated to phosphatidylethanolamine by an amide bond. This conjugated form has the capacity for the binding to autophagosomes.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|Q75KP8|ATG4A_ORYSJ Cysteine protease ATG4A OS=Oryza sativa subsp. japonica GN=ATG4A PE=3 SV=1

 Score =  407 bits (1047), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 213/354 (60%), Positives = 265/354 (74%), Gaps = 9/354 (2%)

Query: 39  KSSKGSLLSSLFNSAFSVFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERV 98
           K  K S+LS +F+S FS+FE + +SSA+     H+ S  W+  ++R+   GSM R     
Sbjct: 35  KQLKNSILSCVFSSPFSIFEAHQDSSANRSLKPHSGSYAWSRFLRRIACTGSMWRF---- 90

Query: 99  LGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDP 158
           LG S+   + ++SD+W LG C+K++ +E    +   +G A F +DFSSRI I+YRKGFD 
Sbjct: 91  LGASK---ALTSSDVWFLGKCYKLSSEELSNSSDCESGNAAFLEDFSSRIWITYRKGFDA 147

Query: 159 IGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSET 218
           I DSK TSDV WGCM+RSSQMLVAQAL+FH LGR WRKP QKP+  EY+ ILH+FGDSE 
Sbjct: 148 ISDSKYTSDVNWGCMVRSSQMLVAQALIFHHLGRSWRKPSQKPYSPEYIGILHMFGDSEA 207

Query: 219 SPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRA--ETGLGCQSLPMAIYVVS 276
             FSIHNLLQAGK+YGLAAGSWVGPYAMCR+W+ L    R   E   G  + PMA+YVVS
Sbjct: 208 CAFSIHNLLQAGKSYGLAAGSWVGPYAMCRAWQTLVCTNREHHEAVDGNGNFPMALYVVS 267

Query: 277 GDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTF 336
           GDEDGERGGAPVVCID A++ C  F+K Q+ W+PILLLVPLVLGL+K+NPRYIP L+ T 
Sbjct: 268 GDEDGERGGAPVVCIDVAAQLCCDFNKNQSTWSPILLLVPLVLGLDKLNPRYIPLLKETL 327

Query: 337 TFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           TFPQSLGI+GGKPG STYI GVQ++ A+YLDPH+VQ  ++I  D+LEA TS+YH
Sbjct: 328 TFPQSLGILGGKPGTSTYIAGVQDDRALYLDPHEVQLAVDIAADNLEAGTSSYH 381

Cysteine protease required for autophagy, which is able to cleave the C-terminal part of ATG8 that may be subsequently converted to a smaller form, with a revealed C-terminal glycine. The C-terminal glycine of ATG8 is conjugated to phosphatidylethanolamine by an amide bond. This conjugated form has the capacity for the binding to autophagosomes.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|Q8C9S8|ATG4A_MOUSE Cysteine protease ATG4A OS=Mus musculus GN=Atg4a PE=2 SV=2

 Score =  170 bits (430), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 98/299 (32%), Positives = 144/299 (48%), Gaps = 50/299 (16%)

Query: 113 IWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGC 172
           +W+LG  H +  +++           +   D S+R+  +YR+ F PIG +  +SD GWGC
Sbjct: 29  VWILGKQHPLKTEKS-----------KLLSDISARLWFTYRRKFSPIGGTGPSSDAGWGC 77

Query: 173 MLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKA 232
           MLR  QM++AQAL+   LGR W    QK   +EY  IL  F D +   +SIH + Q G  
Sbjct: 78  MLRCGQMMLAQALICRHLGRDWNWERQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMGVG 137

Query: 233 YGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCID 292
            G + G W GP  + +  + LA      +        +A+YV   +          V I+
Sbjct: 138 EGKSIGEWFGPNTVAQVIKKLALFDEWNS--------LAVYVSMDN---------TVVIE 180

Query: 293 DASRHCSVFSKGQAD---------------------WTPILLLVPLVLGLEKVNPRYIPT 331
           D  + C V   G AD                     W P+LL+VPL LG+ ++NP Y+  
Sbjct: 181 DIKKMCCVLPVGAADPAGDFLTASNQSRDTSVPCSAWKPLLLIVPLRLGINQINPVYVEA 240

Query: 332 LRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
            +  F  PQSLG +GGKP  + Y +G   +  I+LDPH  Q  ++I +  L  D  T+H
Sbjct: 241 FKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDIEESGL-VDDQTFH 298

Cysteine protease required for autophagy, which cleaves the C-terminal part of either MAP1LC3, GABARAPL2 or GABARAP, allowing the liberation of form I. A subpopulation of form I is subsequently converted to a smaller form (form II). Form II, with a revealed C-terminal glycine, is considered to be the phosphatidylethanolamine (PE)-conjugated form, and has the capacity for the binding to autophagosomes. Preferred substrate is GABARAPL2 followed by MAP1LC3A and GABARAP.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|Q8BGE6|ATG4B_MOUSE Cysteine protease ATG4B OS=Mus musculus GN=Atg4b PE=1 SV=2

 Score =  166 bits (420), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 103/303 (33%), Positives = 150/303 (49%), Gaps = 41/303 (13%)

Query: 109 STSDIWLLGVCHKI--AQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITS 166
           ++  +W+LG  + I   +DE L D A             SR+  +YR+ F  IG +  TS
Sbjct: 22  TSEPVWILGRKYSIFTEKDEILSDVA-------------SRLWFTYRRNFPAIGGTGPTS 68

Query: 167 DVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNL 226
           D GWGCMLR  QM+ AQAL+   LGR WR   +K     Y  +L+ F D + S +SIH +
Sbjct: 69  DTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQPDSYFNVLNAFLDRKDSYYSIHQI 128

Query: 227 LQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYV-----VSGDEDG 281
            Q G   G + G W GP  + +  + LA      +        +A+++     V  +E  
Sbjct: 129 AQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS--------LAVHIAMDNTVVMEEIR 180

Query: 282 ERGGAPVVCI------DDASRHCSVFSKGQ------ADWTPILLLVPLVLGLEKVNPRYI 329
               A + C        D+ RHC+ F  G       + W P++LL+PL LGL  +N  Y+
Sbjct: 181 RLCRANLPCAGAAALPTDSERHCNGFPAGAEVTNRPSAWRPLVLLIPLRLGLTDINEAYV 240

Query: 330 PTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTY 389
            TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH  QP + +       D S +
Sbjct: 241 ETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTTQPAVELTDSCFIPDES-F 299

Query: 390 HSE 392
           H +
Sbjct: 300 HCQ 302

Cysteine protease required for autophagy, which cleaves the C-terminal part of either MAP1LC3, GABARAPL2 or GABARAP, allowing the liberation of form I. A subpopulation of form I is subsequently converted to a smaller form (form II). Form II, with a revealed C-terminal glycine, is considered to be the phosphatidylethanolamine (PE)-conjugated form, and has the capacity for the binding to autophagosomes.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|Q9Y4P1|ATG4B_HUMAN Cysteine protease ATG4B OS=Homo sapiens GN=ATG4B PE=1 SV=2

 Score =  165 bits (417), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 101/287 (35%), Positives = 143/287 (49%), Gaps = 40/287 (13%)

Query: 109 STSDIWLLGVCHKI--AQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITS 166
           ++  +W+LG  + I   +DE L D A             SR+  +YRK F  IG +  TS
Sbjct: 22  TSEPVWILGRKYSIFTEKDEILSDVA-------------SRLWFTYRKNFPAIGGTGPTS 68

Query: 167 DVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNL 226
           D GWGCMLR  QM+ AQAL+   LGR WR   +K     Y  +L+ F D + S +SIH +
Sbjct: 69  DTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQI 128

Query: 227 LQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYV-----VSGDEDG 281
            Q G   G + G W GP  + +  + LA      +        +A+++     V  +E  
Sbjct: 129 AQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS--------LAVHIAMDNTVVMEEIR 180

Query: 282 ERGGAPVVCID------DASRHCSVFSKGQ------ADWTPILLLVPLVLGLEKVNPRYI 329
                 V C        D+ RHC+ F  G       + W P++LL+PL LGL  +N  Y+
Sbjct: 181 RLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRPLVLLIPLRLGLTDINEAYV 240

Query: 330 PTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVIN 376
            TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH  QP + 
Sbjct: 241 ETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTTQPAVE 287

Cysteine protease required for autophagy, which cleaves the C-terminal part of either MAP1LC3, GABARAPL2 or GABARAP, allowing the liberation of form I. A subpopulation of form I is subsequently converted to a smaller form (form II). Form II, with a revealed C-terminal glycine, is considered to be the phosphatidylethanolamine (PE)-conjugated form, and has the capacity for the binding to autophagosomes.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

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	392
255576671	489	Cysteine protease ATG4B, putative [Ricin	0.989	0.793	0.755	1e-164
224117658	482	predicted protein [Populus trichocarpa]	0.994	0.809	0.729	1e-156
147862867	489	hypothetical protein VITISV_021940 [Viti	0.977	0.783	0.730	1e-156
359495820	486	PREDICTED: cysteine protease ATG4-like [	0.977	0.788	0.730	1e-156
224092798	481	predicted protein [Populus trichocarpa]	0.997	0.812	0.708	1e-154
449442361	483	PREDICTED: cysteine protease ATG4-like [	0.982	0.797	0.702	1e-148
356568569	485	PREDICTED: cysteine protease ATG4-like [	0.987	0.797	0.700	1e-143
356531828	486	PREDICTED: cysteine protease ATG4-like [	0.987	0.796	0.698	1e-142
357507987	487	Cysteine protease ATG4 [Medicago truncat	0.994	0.800	0.664	1e-137
30689628	467	cysteine protease ATG4a [Arabidopsis tha	0.984	0.826	0.588	1e-129

>gi|255576671|ref|XP_002529225.1| Cysteine protease ATG4B, putative [Ricinus communis] gi|223531343|gb|EEF33181.1| Cysteine protease ATG4B, putative [Ricinus communis]

 Score =  583 bits (1502), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 297/393 (75%), Positives = 339/393 (86%), Gaps = 5/393 (1%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           MKGFRE+  AS+C SK   DTPNRSL S   E GS+   S+KGSL SS F SAFSVFETY
Sbjct: 1   MKGFRERV-ASRCSSKCPVDTPNRSLTSDCLESGSN--FSTKGSLWSSFFASAFSVFETY 57

Query: 61  SESS-ASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVC 119
            ES  ASEKK  H++ NGWT+AVK++V+ GSMRRIHERVLGPSRTGISS+TSDIWLLGVC
Sbjct: 58  RESPPASEKKGSHSRHNGWTSAVKKIVSGGSMRRIHERVLGPSRTGISSTTSDIWLLGVC 117

Query: 120 HKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQM 179
           +KI++DE+ G+A   N LAEF  D+SSRIL++YR+GFD IGDSK  SDVGWGCMLRSSQM
Sbjct: 118 YKISEDES-GNADTGNALAEFTHDYSSRILMTYRRGFDAIGDSKYISDVGWGCMLRSSQM 176

Query: 180 LVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGS 239
           LVAQALLFH+LGR W KP QKP D+ YVEILHLFGDSE +PFSIHNL+QAGKAY LAAGS
Sbjct: 177 LVAQALLFHKLGRAWTKPFQKPMDQAYVEILHLFGDSEAAPFSIHNLIQAGKAYSLAAGS 236

Query: 240 WVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCS 299
           WVGPYAMCRSWE+LAR +R E  L  QSLPMA+YVVSGDEDGERGGAPVV I+DASRHC 
Sbjct: 237 WVGPYAMCRSWESLARSKREENSLEYQSLPMAVYVVSGDEDGERGGAPVVYIEDASRHCL 296

Query: 300 VFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQ 359
            FS+GQADWTPILLLVPLVLGL+KVNPRYIP+L+ TFTF QSLGI+GGKPGASTYIVGVQ
Sbjct: 297 EFSRGQADWTPILLLVPLVLGLDKVNPRYIPSLQATFTFSQSLGIMGGKPGASTYIVGVQ 356

Query: 360 EESAIYLDPHDVQPVINIGKDDLEADTSTYHSE 392
           +++A YLDPH+VQ V+NIG+DD+EADTS+YHS+
Sbjct: 357 DDNAFYLDPHEVQSVVNIGRDDIEADTSSYHSD 389

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117658|ref|XP_002331599.1| predicted protein [Populus trichocarpa] gi|222873995|gb|EEF11126.1| predicted protein [Populus trichocarpa]

 Score =  557 bits (1436), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 286/392 (72%), Positives = 334/392 (85%), Gaps = 2/392 (0%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           MKGFRE+   +   S ST ++PNRS  S  SELGS+++K SK SL S+ F SAFSVF+T+
Sbjct: 1   MKGFRERGFVASSKSSSTAESPNRSFTSDSSELGSADTKFSKPSLWSTFFASAFSVFDTH 60

Query: 61  SESSA-SEKKAVHNKS-NGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGV 118
            +SS+ SEKKA H +  NGWT+AVK++V  GSMRRI E VLG S+TGIS++T DIWLLG 
Sbjct: 61  CDSSSTSEKKAPHIRHGNGWTSAVKKIVAGGSMRRIQECVLGTSKTGISNTTGDIWLLGA 120

Query: 119 CHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQ 178
           C+KI+QD + GDAA  N LA FN DFSSRILI+YRKGFD I DSK+TSDV WGCMLRSSQ
Sbjct: 121 CYKISQDNSSGDAAATNALAAFNHDFSSRILITYRKGFDAIEDSKLTSDVSWGCMLRSSQ 180

Query: 179 MLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAG 238
           MLVAQALLFHRLGR WRKPL KP DREYVEILHLFGDSE+S FSIHNLL+AGKAYGLAAG
Sbjct: 181 MLVAQALLFHRLGRSWRKPLDKPLDREYVEILHLFGDSESSAFSIHNLLRAGKAYGLAAG 240

Query: 239 SWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHC 298
           SWVGPYA+C SWE+L R +R ET L  QSL MA+YVVSG EDGERGGAPV+CI++A+RHC
Sbjct: 241 SWVGPYAVCHSWESLVRSRREETNLEYQSLSMAVYVVSGSEDGERGGAPVLCIEEAARHC 300

Query: 299 SVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGV 358
           S FSKGQ DWTPILLLVPLVLGL+K+NPRYIP+L+ TFTFPQSLGI+GGKPGASTYIVGV
Sbjct: 301 SEFSKGQEDWTPILLLVPLVLGLDKINPRYIPSLQATFTFPQSLGILGGKPGASTYIVGV 360

Query: 359 QEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           Q+E+A YLDPH+VQPV+N+ +DD+EA+TS+YH
Sbjct: 361 QDENAFYLDPHEVQPVVNVSRDDVEANTSSYH 392

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147862867|emb|CAN81102.1| hypothetical protein VITISV_021940 [Vitis vinifera]

 Score =  556 bits (1434), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 287/393 (73%), Positives = 330/393 (83%), Gaps = 10/393 (2%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           MKGF EKA ASK   K+  D+ N       SE  SS++K SK SL SS+F SAFSVFET 
Sbjct: 1   MKGFCEKAVASKFSCKTKSDSSN-------SEPQSSDTKLSKVSLWSSVFASAFSVFETN 53

Query: 61  SESS--ASEKKAVHN-KSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLG 117
           SESS  ASEKKA+ N ++NGWT AV+++VT  SMRRI ERVLG S+TGISSSTSDIWLLG
Sbjct: 54  SESSPSASEKKAIDNGRNNGWTTAVRKVVTGVSMRRIQERVLGTSKTGISSSTSDIWLLG 113

Query: 118 VCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSS 177
           +C+KI+Q+E+   A+ +NGLAEF QDFSSRIL++YRKGF+ IGDSK+TSDV WGCMLRSS
Sbjct: 114 LCYKISQEESSNHASSSNGLAEFEQDFSSRILMTYRKGFEAIGDSKLTSDVNWGCMLRSS 173

Query: 178 QMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAA 237
           QMLVAQALL HR+GR WRK   KP D++Y+EILH FGDS+ S FSIHN+LQAGKAYGLAA
Sbjct: 174 QMLVAQALLLHRMGRSWRKTSHKPMDQDYIEILHHFGDSKASAFSIHNILQAGKAYGLAA 233

Query: 238 GSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRH 297
           GSWVGPYAMCRSWE LAR +R ET L CQSLPMAIY+VSGDEDGERGGAPVV I++ASRH
Sbjct: 234 GSWVGPYAMCRSWETLARSKREETDLECQSLPMAIYIVSGDEDGERGGAPVVYIEEASRH 293

Query: 298 CSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVG 357
           C  FSKGQ DWTPILLLVPLVLGLEKVNPRYIP+L  TFTFPQSLGI+GGKPGASTYIVG
Sbjct: 294 CLEFSKGQVDWTPILLLVPLVLGLEKVNPRYIPSLAATFTFPQSLGILGGKPGASTYIVG 353

Query: 358 VQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           VQ+E A YLDPH+ Q V++I +++LEADTS+YH
Sbjct: 354 VQDEKAFYLDPHEAQSVVDIRRENLEADTSSYH 386

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495820|ref|XP_003635099.1| PREDICTED: cysteine protease ATG4-like [Vitis vinifera] gi|296086874|emb|CBI33041.3| unnamed protein product [Vitis vinifera]

 Score =  556 bits (1433), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 287/393 (73%), Positives = 330/393 (83%), Gaps = 10/393 (2%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           MKGF EKA ASK   K+  D+ N       SE  SS++K SK SL SS+F SAFSVFET 
Sbjct: 1   MKGFCEKAVASKFSCKTKSDSSN-------SEPQSSDTKLSKVSLWSSVFASAFSVFETN 53

Query: 61  SESS--ASEKKAVHN-KSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLG 117
           SESS  ASEKKA+ N ++NGWT AV+++VT  SMRRI ERVLG S+TGISSSTSDIWLLG
Sbjct: 54  SESSPSASEKKAIDNGRNNGWTTAVRKVVTGVSMRRIQERVLGTSKTGISSSTSDIWLLG 113

Query: 118 VCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSS 177
           +C+KI+Q+E+   A+ +NGLAEF QDFSSRIL++YRKGF+ IGDSK+TSDV WGCMLRSS
Sbjct: 114 LCYKISQEESSNHASSSNGLAEFEQDFSSRILMTYRKGFEAIGDSKLTSDVNWGCMLRSS 173

Query: 178 QMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAA 237
           QMLVAQALL HR+GR WRK   KP D++Y+EILH FGDS+ S FSIHN+LQAGKAYGLAA
Sbjct: 174 QMLVAQALLLHRMGRSWRKTSHKPMDQDYIEILHHFGDSKASAFSIHNILQAGKAYGLAA 233

Query: 238 GSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRH 297
           GSWVGPYAMCRSWE LAR +R ET L CQSLPMAIY+VSGDEDGERGGAPVV I++ASRH
Sbjct: 234 GSWVGPYAMCRSWETLARSKREETDLECQSLPMAIYIVSGDEDGERGGAPVVYIEEASRH 293

Query: 298 CSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVG 357
           C  FSKGQ DWTPILLLVPLVLGLEKVNPRYIP+L  TFTFPQSLGI+GGKPGASTYIVG
Sbjct: 294 CLEFSKGQVDWTPILLLVPLVLGLEKVNPRYIPSLAATFTFPQSLGILGGKPGASTYIVG 353

Query: 358 VQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           VQ+E A YLDPH+ Q V++I +++LEADTS+YH
Sbjct: 354 VQDEKAFYLDPHEAQSVVDIRRENLEADTSSYH 386

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224092798|ref|XP_002309707.1| predicted protein [Populus trichocarpa] gi|222852610|gb|EEE90157.1| predicted protein [Populus trichocarpa]

 Score =  551 bits (1421), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 279/394 (70%), Positives = 331/394 (84%), Gaps = 3/394 (0%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           MK FR++ GA      +T DTP  S  S  SE GS+++K SK SL SS F SAFSVF+ Y
Sbjct: 1   MKVFRDR-GAVSPSKTTTTDTPKSSFISDSSEPGSTDTKVSKPSLWSSFFASAFSVFDIY 59

Query: 61  SESSA-SEKKAVHNK-SNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGV 118
            +SS+ S  +A H + SNGWT++VK++V  G+MRRI ERVLG S+TGIS++TSDIWLLG 
Sbjct: 60  RDSSSTSHNEAPHIRHSNGWTSSVKKIVAGGTMRRIQERVLGTSKTGISNTTSDIWLLGA 119

Query: 119 CHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQ 178
            +KI+QD++ G+A   N LA F++DFSSRILI+YRKGFD I DSK+TSDV WGCMLRSSQ
Sbjct: 120 RYKISQDDSSGNADATNALAAFHRDFSSRILITYRKGFDMIEDSKLTSDVNWGCMLRSSQ 179

Query: 179 MLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAG 238
           MLVAQALLFHRLGR WRKP+ KP DR+YVEILHLFGDSE S FSIHNLLQAGKAYGLAAG
Sbjct: 180 MLVAQALLFHRLGRSWRKPVDKPLDRDYVEILHLFGDSEASAFSIHNLLQAGKAYGLAAG 239

Query: 239 SWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHC 298
           SWVGPYAMCRSWE+LAR +R ET L  Q+LPMA+YVVSG EDGERGGAPV+ I+DA+RHC
Sbjct: 240 SWVGPYAMCRSWESLARSKREETNLEYQTLPMAVYVVSGCEDGERGGAPVLSIEDAARHC 299

Query: 299 SVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGV 358
           S FSKG+ DWTPILLLVPLVLGL+K+NPRYIP+L+ TFTFPQSLGI+GGKPGASTYIVGV
Sbjct: 300 SEFSKGREDWTPILLLVPLVLGLDKINPRYIPSLQATFTFPQSLGILGGKPGASTYIVGV 359

Query: 359 QEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE 392
           Q+E+A YLDPH+VQPV+N  +DD+EA+TS+YH +
Sbjct: 360 QDENAFYLDPHEVQPVVNFSRDDVEANTSSYHCD 393

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442361|ref|XP_004138950.1| PREDICTED: cysteine protease ATG4-like [Cucumis sativus] gi|449512710|ref|XP_004164121.1| PREDICTED: cysteine protease ATG4-like [Cucumis sativus]

 Score =  530 bits (1364), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 271/386 (70%), Positives = 308/386 (79%), Gaps = 1/386 (0%)

Query: 5   REKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETYSESS 64
           R K   S C  +   D  +R+  SV  ELGS    SSK S  S  F+S FS+FE + +SS
Sbjct: 3   RGKDLKSTCSPEPAADAIDRTHRSVYPELGSKNHISSKASSWSGFFSSNFSIFEHHKDSS 62

Query: 65  ASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQ 124
            +EKK  H + N W A V++++T+GSMRRI ER+LG  R+G+ SS  DIWLLGVCHKI+Q
Sbjct: 63  VTEKKVFHPRHNVW-ATVRKVMTSGSMRRIQERLLGSRRSGVYSSGGDIWLLGVCHKISQ 121

Query: 125 DEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQA 184
           D    DAA + G+A + QDFSSRIL++YRKGF  I DSK TSDV WGCMLRSSQMLVAQA
Sbjct: 122 DHPPDDAASSPGVAGYEQDFSSRILMTYRKGFHVIQDSKYTSDVNWGCMLRSSQMLVAQA 181

Query: 185 LLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPY 244
           LLFHRLGR WRKP QKP D+EYVEILHLFGDSETS FSIHNLLQAG+AY LAAGSWVGPY
Sbjct: 182 LLFHRLGRSWRKPSQKPLDKEYVEILHLFGDSETSAFSIHNLLQAGRAYDLAAGSWVGPY 241

Query: 245 AMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKG 304
           AMCRSWE L R +R    L  Q LPMAIY+VSGDEDGERGGAPV+ IDDASRHC  FSKG
Sbjct: 242 AMCRSWETLVRSKRETPILQDQQLPMAIYIVSGDEDGERGGAPVLYIDDASRHCFEFSKG 301

Query: 305 QADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAI 364
           Q DW+PILLLVPLVLGLEK+NPRYIP+LR TFTFPQSLGI+GGKPGASTYIVGVQ+E+A 
Sbjct: 302 QHDWSPILLLVPLVLGLEKINPRYIPSLRTTFTFPQSLGILGGKPGASTYIVGVQDENAF 361

Query: 365 YLDPHDVQPVINIGKDDLEADTSTYH 390
           YLDPH+VQ V+NI KDDLEADTS+YH
Sbjct: 362 YLDPHEVQQVVNIDKDDLEADTSSYH 387

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356568569|ref|XP_003552483.1| PREDICTED: cysteine protease ATG4-like [Glycine max]

 Score =  514 bits (1324), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 274/391 (70%), Positives = 313/391 (80%), Gaps = 4/391 (1%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           +KG  E+  +SKC SKS+ +T + +   V S+ GSS+ K  K SL SS+F S FSV ETY
Sbjct: 3   LKGLCERIVSSKCSSKSSTETVDNTQVPVYSKAGSSDCKFPKASLWSSIFTSGFSVVETY 62

Query: 61  SESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCH 120
           SESSASEKKAV ++S+GW AAV+++VT GSMRR  ERVLG SRT ISSS  DIWLLGVCH
Sbjct: 63  SESSASEKKAVPSRSSGWAAAVRKVVTGGSMRRFQERVLGSSRTDISSSDGDIWLLGVCH 122

Query: 121 KIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQML 180
           KI+Q E+ G    +NGLA F QDFSS+IL++YRKGFD IGD+K TSDV WGCMLRSSQML
Sbjct: 123 KISQQESTGGVDTSNGLASFEQDFSSKILVTYRKGFDAIGDTKYTSDVNWGCMLRSSQML 182

Query: 181 VAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSW 240
           VAQALLFH+LGR WRKP+ KP D+EY+++L LFGDSE S FSIHNLLQAGK YGLA GSW
Sbjct: 183 VAQALLFHKLGRSWRKPIDKPLDKEYIDVLQLFGDSEASAFSIHNLLQAGKGYGLAVGSW 242

Query: 241 VGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSV 300
           VGPYAMCR+WE LA   R +  LG   LPMAIYVVSGDEDGERGGAPVVCI+DAS+ CS 
Sbjct: 243 VGPYAMCRTWEVLA---RKKNDLGEPPLPMAIYVVSGDEDGERGGAPVVCIEDASKRCSE 299

Query: 301 FSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQE 360
           FS G A WTP+LLLVPLVLGL+KVNPRYIP LR TF FPQSLGI+GGKPGASTYI+GVQ 
Sbjct: 300 FSSGLAVWTPLLLLVPLVLGLDKVNPRYIPLLRSTFKFPQSLGIMGGKPGASTYIIGVQN 359

Query: 361 ESAIYLDPHDVQPVINIGKDDLE-ADTSTYH 390
           E A YLDPHDVQ V+NI  D  E   TS+YH
Sbjct: 360 EKAFYLDPHDVQQVVNISGDTQEPTGTSSYH 390

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356531828|ref|XP_003534478.1| PREDICTED: cysteine protease ATG4-like [Glycine max]

 Score =  512 bits (1319), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 273/391 (69%), Positives = 312/391 (79%), Gaps = 4/391 (1%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           +KG  E+  +SKC SKS+ +T + +   V S+ GSS SK  K SL S++F S FSV ETY
Sbjct: 3   LKGLCERIVSSKCSSKSSTETVDNTQVPVYSKAGSSNSKFPKASLWSNIFTSGFSVVETY 62

Query: 61  SESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCH 120
           SESSASEKKAVH++S+GW AAV+++VT GSMRR  ERVLG SRT ISSS  DIWLLGVCH
Sbjct: 63  SESSASEKKAVHSRSSGWAAAVRKVVTGGSMRRFQERVLGSSRTDISSSDGDIWLLGVCH 122

Query: 121 KIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQML 180
           KI+Q E+ G    +NGLA F QDFSS+IL++YRKGFD IGD+K TSDV WGCMLRSSQML
Sbjct: 123 KISQQESSGGVDNSNGLASFEQDFSSKILVTYRKGFDAIGDTKYTSDVHWGCMLRSSQML 182

Query: 181 VAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSW 240
           VAQALLFH+LGR WRKP+ KP D+EY+++L LFGDSE S FSIHNLLQAGK YGLA GSW
Sbjct: 183 VAQALLFHKLGRSWRKPIDKPPDKEYIDVLQLFGDSEASAFSIHNLLQAGKGYGLAVGSW 242

Query: 241 VGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSV 300
           VGPYAMCR+WE LA   R +  LG   LPMAIYVVSGDEDGERGGAPVVCI+DAS+ C  
Sbjct: 243 VGPYAMCRTWEVLA---RKKNDLGELPLPMAIYVVSGDEDGERGGAPVVCIEDASKRCFE 299

Query: 301 FSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQE 360
           FS G A WTP+LLLVPLVLGL+KVNPRYIP LR TF FPQSLGI+GGKPGASTYI+G Q 
Sbjct: 300 FSSGLAAWTPLLLLVPLVLGLDKVNPRYIPLLRSTFKFPQSLGIMGGKPGASTYIIGAQN 359

Query: 361 ESAIYLDPHDVQPVINIGKDDLE-ADTSTYH 390
           E A YLDPHDVQ V+NI  D  E   TS+YH
Sbjct: 360 EKAFYLDPHDVQQVVNISGDTQEPTSTSSYH 390

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357507987|ref|XP_003624282.1| Cysteine protease ATG4 [Medicago truncatula] gi|147742964|sp|A2Q1V6.1|ATG4_MEDTR RecName: Full=Cysteine protease ATG4; AltName: Full=Autophagy-related protein 4 gi|124359485|gb|ABN05923.1| Peptidase C54 [Medicago truncatula] gi|355499297|gb|AES80500.1| Cysteine protease ATG4 [Medicago truncatula]

 Score =  494 bits (1272), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 259/390 (66%), Positives = 305/390 (78%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           +K   ++  A+KC SKS+ +  + +     S+ GSS+SK  K SL S+ F S FSV ETY
Sbjct: 3   LKDLCDRIVAAKCSSKSSTEIVDNTQVPASSKAGSSDSKFPKASLWSTFFTSGFSVDETY 62

Query: 61  SESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCH 120
           SESS+SEKK VH++++GW AAV+++V+ GSMRR  ERVLG  RT +SSS  DIWLLGVCH
Sbjct: 63  SESSSSEKKTVHSRNSGWAAAVRKVVSGGSMRRFQERVLGSCRTDVSSSDGDIWLLGVCH 122

Query: 121 KIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQML 180
           KI+Q E+ GD    N  A F QDF SRILI+YRKGFD I DSK TSDV WGCMLRSSQML
Sbjct: 123 KISQHESTGDVDIRNVFAAFEQDFFSRILITYRKGFDAIEDSKYTSDVNWGCMLRSSQML 182

Query: 181 VAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSW 240
           VAQALLFH+LGR WRK + KP D+EY++IL LFGDSE + FSIHNLLQAGK YGLA GSW
Sbjct: 183 VAQALLFHKLGRSWRKTVDKPVDKEYIDILQLFGDSEAAAFSIHNLLQAGKGYGLAVGSW 242

Query: 241 VGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSV 300
           VGPYAMCR+WE LAR QR +   G Q LPMAIYVVSGDEDGERGGAPVVCI+DA + C  
Sbjct: 243 VGPYAMCRTWEVLARNQREKNEQGEQLLPMAIYVVSGDEDGERGGAPVVCIEDACKRCLE 302

Query: 301 FSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQE 360
           FS+G   WTP+LLLVPLVLGL+KVN RYIP L+ TF FPQSLGI+GGKPGASTYI+GVQ 
Sbjct: 303 FSRGLVPWTPLLLLVPLVLGLDKVNLRYIPLLQSTFKFPQSLGILGGKPGASTYIIGVQN 362

Query: 361 ESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           + A YLDPH+V+PV+NI  D  E +TS+YH
Sbjct: 363 DKAFYLDPHEVKPVVNITGDTQEPNTSSYH 392

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30689628|ref|NP_850412.1| cysteine protease ATG4a [Arabidopsis thaliana] gi|75160546|sp|Q8S929.1|ATG4A_ARATH RecName: Full=Cysteine protease ATG4a; AltName: Full=Autophagy-related protein 4 homolog a; Short=AtAPG4a; Short=Protein autophagy 4a gi|19912143|dbj|BAB88383.1| autophagy 4a [Arabidopsis thaliana] gi|110742303|dbj|BAE99076.1| hypothetical protein [Arabidopsis thaliana] gi|330255286|gb|AEC10380.1| cysteine protease ATG4a [Arabidopsis thaliana]

 Score =  466 bits (1200), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 230/391 (58%), Positives = 296/391 (75%), Gaps = 5/391 (1%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSESKSSKGSLLSSLFNSAFSVFETY 60
           MK   ++    +C S S  DT ++S   + S+ G S++KS K +L S++F S+ SV + Y
Sbjct: 1   MKALCDRFVPQQCSSSSKSDTHDKS--PLVSDSGPSDNKS-KFTLWSNVFTSSSSVSQPY 57

Query: 61  SESSASEKKAVHNKSNGWTAAVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVC 119
            ESS S  K V    NGWTA VKR+ + +G++RR  ERVLGP+RTG+ S+TSD+WLLGVC
Sbjct: 58  RESSTSGHKQVCTTRNGWTAFVKRVSMASGAIRRFQERVLGPNRTGLPSTTSDVWLLGVC 117

Query: 120 HKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQM 179
           +KI+ DE  G+      LA    DFSS+IL++YRKGF+P  D+  TSDV WGCM+RSSQM
Sbjct: 118 YKISADENSGETDTGTVLAALQLDFSSKILMTYRKGFEPFRDTTYTSDVNWGCMIRSSQM 177

Query: 180 LVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGS 239
           L AQALLFHRLGR W K  + P ++EY+E L  FGDSE S FSIHNL+ AG +YGLAAGS
Sbjct: 178 LFAQALLFHRLGRAWTKKSELP-EQEYLETLEPFGDSEPSAFSIHNLIIAGASYGLAAGS 236

Query: 240 WVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCS 299
           WVGPYA+CR+WE+LA  +R +T    Q+LPMA+++VSG EDGERGGAP++CI+DA++ C 
Sbjct: 237 WVGPYAICRAWESLACKKRKQTDSKNQTLPMAVHIVSGSEDGERGGAPILCIEDATKSCL 296

Query: 300 VFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQ 359
            FSKGQ++WTPI+LLVPLVLGL+ VNPRYIP+L  TFTFPQS+GI+GGKPGASTYIVGVQ
Sbjct: 297 EFSKGQSEWTPIILLVPLVLGLDSVNPRYIPSLVATFTFPQSVGILGGKPGASTYIVGVQ 356

Query: 360 EESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
           E+   YLDPH+VQ V+ + K+  + DTS+YH
Sbjct: 357 EDKGFYLDPHEVQQVVTVNKETPDVDTSSYH 387

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	392
TAIR|locus:2051754	467	AT2G44140 "AT2G44140" [Arabido	0.846	0.710	0.586	5.1e-106
TAIR|locus:2080447	477	AT3G59950 [Arabidopsis thalian	0.994	0.817	0.514	1.1e-105
UNIPROTKB|Q2XPP4	478	ATG4B "Cysteine protease ATG4B	0.831	0.682	0.564	2.3e-101
UNIPROTKB|F1MJZ9	393	ATG4B "Cysteine protease ATG4B	0.630	0.628	0.352	4.6e-34
UNIPROTKB|Q6PZ03	393	ATG4B "Cysteine protease ATG4B	0.630	0.628	0.352	4.6e-34
ZFIN|ZDB-GENE-040917-3	394	atg4b "ATG4 autophagy related	0.625	0.621	0.339	5.8e-34
ZFIN|ZDB-GENE-050522-430	375	atg4a "ATG4 autophagy related	0.591	0.618	0.341	1.2e-33
UNIPROTKB|Q9Y4P1	393	ATG4B "Cysteine protease ATG4B	0.586	0.585	0.359	1.2e-33
MGI|MGI:1913865	393	Atg4b "autophagy related 4B, c	0.627	0.625	0.343	1.2e-33
UNIPROTKB|F1LRG2	394	Atg4b "Protein Atg4b" [Rattus	0.627	0.624	0.339	1.8e-32

TAIR|locus:2051754 AT2G44140 "AT2G44140" [Arabidopsis thaliana (taxid:3702)]

 Score = 1049 (374.3 bits), Expect = 5.1e-106, P = 5.1e-106
 Identities = 196/334 (58%), Positives = 247/334 (73%)

Query:    58 ETYSESSASEKKAVHNKSNGWTAAVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLL 116
             + Y ESS S  K V    NGWTA VKR+ + +G++RR  ERVLGP+RTG+ S+TSD+WLL
Sbjct:    55 QPYRESSTSGHKQVCTTRNGWTAFVKRVSMASGAIRRFQERVLGPNRTGLPSTTSDVWLL 114

Query:   117 GVCHKIAQXXXXXXXXXXXXXXXFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRS 176
             GVC+KI+                   DFSS+IL++YRKGF+P  D+  TSDV WGCM+RS
Sbjct:   115 GVCYKISADENSGETDTGTVLAALQLDFSSKILMTYRKGFEPFRDTTYTSDVNWGCMIRS 174

Query:   177 SQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLA 236
             SQML AQALLFHRLGR W K  + P ++EY+E L  FGDSE S FSIHNL+ AG +YGLA
Sbjct:   175 SQMLFAQALLFHRLGRAWTKKSELP-EQEYLETLEPFGDSEPSAFSIHNLIIAGASYGLA 233

Query:   237 AGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASR 296
             AGSWVGPYA+CR+WE+LA  +R +T    Q+LPMA+++VSG EDGERGGAP++CI+DA++
Sbjct:   234 AGSWVGPYAICRAWESLACKKRKQTDSKNQTLPMAVHIVSGSEDGERGGAPILCIEDATK 293

Query:   297 HCSVFSKGQADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIV 356
              C  FSKGQ++WTPI          + VNPRYIP+L  TFTFPQS+GI+GGKPGASTYIV
Sbjct:   294 SCLEFSKGQSEWTPIILLVPLVLGLDSVNPRYIPSLVATFTFPQSVGILGGKPGASTYIV 353

Query:   357 GVQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
             GVQE+   YLDPH+VQ V+ + K+  + DTS+YH
Sbjct:   354 GVQEDKGFYLDPHEVQQVVTVNKETPDVDTSSYH 387

GO:0006914 "autophagy" evidence=ISS

GO:0008233 "peptidase activity" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2080447 AT3G59950 [Arabidopsis thaliana (taxid:3702)]

 Score = 1046 (373.3 bits), Expect = 1.1e-105, P = 1.1e-105
 Identities = 201/391 (51%), Positives = 256/391 (65%)

Query:     1 MKGFREKAGASKCFSKSTPDTPNRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXETY 60
             MK   ++   SKC S ST +  +                                  +  
Sbjct:     1 MKAICDRFVPSKCSSSSTSEKRDISSPTSLVSDSASSDNKSNLTLCSDVVASSSPVSQLC 60

Query:    61 SESSASEKKAVHNKSNGWTAAVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVC 119
              E+S S    V    + WT  +K   + +G++RR  +RVLGPSRTGISSSTS+IWLLGVC
Sbjct:    61 REASTSGHNPVCTTHSSWTVILKTASMASGAIRRFQDRVLGPSRTGISSSTSEIWLLGVC 120

Query:   120 HKIAQXXXXXXXXXXXXXXXFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQM 179
             +KI++               F QDFSS IL++YR+GF+PIGD+  TSDV WGCMLRS QM
Sbjct:   121 YKISEGESSEEADAGRVLAAFRQDFSSLILMTYRRGFEPIGDTTYTSDVNWGCMLRSGQM 180

Query:   180 LVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGS 239
             L AQALLF RLGR WRK   +P D +Y+EIL LFGD+E S FSIHNL+ AG++YGLAAGS
Sbjct:   181 LFAQALLFQRLGRSWRKKDSEPADEKYLEILELFGDTEASAFSIHNLILAGESYGLAAGS 240

Query:   240 WVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCS 299
             WVGPYA+CRSWE+LAR  + ET    +S  MA+++VSG EDGERGGAP++CI+D ++ C 
Sbjct:   241 WVGPYAVCRSWESLARKNKEETDDKHKSFSMAVHIVSGSEDGERGGAPILCIEDVTKTCL 300

Query:   300 VFSKGQADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQ 359
              FS+G+ +W PI          ++VNPRYIP+L  TFTFPQSLGI+GGKPGASTYIVGVQ
Sbjct:   301 EFSEGETEWPPILLLVPLVLGLDRVNPRYIPSLIATFTFPQSLGILGGKPGASTYIVGVQ 360

Query:   360 EESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
             E+   YLDPHDVQ V+ + K++ + DTS+YH
Sbjct:   361 EDKGFYLDPHDVQQVVTVKKENQDVDTSSYH 391

GO:0005737 "cytoplasm" evidence=ISM

GO:0006914 "autophagy" evidence=ISS

GO:0008233 "peptidase activity" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM

UNIPROTKB|Q2XPP4 ATG4B "Cysteine protease ATG4B" [Oryza sativa Indica Group (taxid:39946)]

 Score = 1005 (358.8 bits), Expect = 2.3e-101, P = 2.3e-101
 Identities = 189/335 (56%), Positives = 241/335 (71%)

Query:    58 ETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLG 117
             E + +SSA++     + S  W   ++R+V +GSM R     LG S+     ++SD+W LG
Sbjct:    57 EAHQDSSANKSPKSSSGSYDWLRVLRRIVCSGSMWRF----LGTSKV---LTSSDVWFLG 109

Query:   118 VCHKIAQXXXXXXXXXXXXXXXFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSS 177
              C+K++                F +DFSSRI I+YR+GFD I DSK TSDV WGCM+RSS
Sbjct:   110 KCYKLSSEESSSDSDSESGHATFLEDFSSRIWITYRRGFDAISDSKYTSDVNWGCMVRSS 169

Query:   178 QMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAA 237
             QMLVAQAL+FH LGR WR+P +KP++ EY+ ILH+FGDSE   FSIHNLLQAG +YGLAA
Sbjct:   170 QMLVAQALIFHHLGRSWRRPSEKPYNPEYIGILHMFGDSEACAFSIHNLLQAGNSYGLAA 229

Query:   238 GSWVGPYAMCRSWEALARCQRAETGL--GCQSLPMAIYVVSGDEDGERGGAPVVCIDDAS 295
             GSWVGPYAMCR+W+ L R  R +  +  G +S PMA+YVVSGDEDGERGGAPVVCID A+
Sbjct:   230 GSWVGPYAMCRAWQTLVRTNREQHEVVDGNESFPMALYVVSGDEDGERGGAPVVCIDVAA 289

Query:   296 RHCSVFSKGQADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYI 355
             + C  F+KGQ+ W+PI          +K+NPRYIP L+ TFTFPQSLGI+GGKPG STYI
Sbjct:   290 QLCCDFNKGQSTWSPILLLVPLVLGLDKINPRYIPLLKETFTFPQSLGILGGKPGTSTYI 349

Query:   356 VGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYH 390
              GVQ++ A+YLDPH+VQ  ++I  D++EADTS+YH
Sbjct:   350 AGVQDDRALYLDPHEVQMAVDIAADNIEADTSSYH 384

GO:0005737 "cytoplasm" evidence=ISS

GO:0005775 "vacuolar lumen" evidence=ISS

GO:0005776 "autophagic vacuole" evidence=ISS

GO:0006914 "autophagy" evidence=ISS

GO:0016807 "cysteine-type carboxypeptidase activity" evidence=ISS

GO:0019786 "APG8-specific protease activity" evidence=ISS

UNIPROTKB|F1MJZ9 ATG4B "Cysteine protease ATG4B" [Bos taurus (taxid:9913)]

 Score = 370 (135.3 bits), Expect = 4.6e-34, P = 4.6e-34
 Identities = 92/261 (35%), Positives = 123/261 (47%)

Query:   143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
             D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    45 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 104

Query:   203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
                Y  +L  F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PDSYCSVLQAFLDRKDSCYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSA 163

Query:   263 LGCQSLPMAIYVVSGDEDGE-RGGAPVVCID----DASRHCSVFSKGQ------ADWTPI 311
             L    + M   VV  D     R   P    +    D+ RHC+ F  G       A W P+
Sbjct:   164 LAVH-VAMDNTVVMADIRRLCRSSLPCAGAEAFPADSERHCNGFPAGAEGGGRAAPWRPL 222

Query:   312 XXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDV 371
                         VN  Y  TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH  
Sbjct:   223 VLLIPLRLGLADVNAAYAGTLKHCFRMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTT 282

Query:   372 QPVINIGKDDLEADTSTYHSE 392
             QP +    D       ++H +
Sbjct:   283 QPAV-AAADRCPVPDESFHCQ 302

GO:0000045 "autophagic vacuole assembly" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0006508 "proteolysis" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q6PZ03 ATG4B "Cysteine protease ATG4B" [Bos taurus (taxid:9913)]

 Score = 370 (135.3 bits), Expect = 4.6e-34, P = 4.6e-34
 Identities = 92/261 (35%), Positives = 123/261 (47%)

Query:   143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
             D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    45 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 104

Query:   203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
                Y  +L  F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PDSYCSVLQAFLDRKDSCYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSA 163

Query:   263 LGCQSLPMAIYVVSGDEDGE-RGGAPVVCID----DASRHCSVFSKGQ------ADWTPI 311
             L    + M   VV  D     R   P    +    D+ RHC+ F  G       A W P+
Sbjct:   164 LAVH-VAMDNTVVMADIRRLCRSSLPCAGAEAFPADSERHCNGFPAGAEGGGRAAPWRPL 222

Query:   312 XXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDV 371
                         VN  Y  TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH  
Sbjct:   223 VLLIPLRLGLADVNAAYAGTLKHCFRMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTT 282

Query:   372 QPVINIGKDDLEADTSTYHSE 392
             QP +    D       ++H +
Sbjct:   283 QPAV-AAADRCPVPDESFHCQ 302

GO:0005737 "cytoplasm" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0006914 "autophagy" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

ZFIN|ZDB-GENE-040917-3 atg4b "ATG4 autophagy related 4 homolog B (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 369 (135.0 bits), Expect = 5.8e-34, P = 5.8e-34
 Identities = 90/265 (33%), Positives = 128/265 (48%)

Query:   143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWR-KPLQKP 201
             D +SR+  +YRK F PIG +  TSD GWGCMLR  QM++ +AL+   LGR W+  P Q+ 
Sbjct:    45 DVTSRLWFTYRKNFQPIGGTGPTSDTGWGCMLRCGQMILGEALICRHLGRDWKWSPGQRQ 104

Query:   202 FDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCR---------SWEA 252
                EYV IL+ F D + S +SIH + Q G   G + G W GP  + +         SW  
Sbjct:   105 RP-EYVSILNAFIDKKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDSWSR 163

Query:   253 LARCQRAETGLGCQSLPMAIYVVSGDEDGERGGA-----PVVCIDDASRHCSVFSKGQAD 307
             LA     +  +  + +           D +RG       P     D    C++  +  A 
Sbjct:   164 LAVHVAMDNTVVIEEIKRLCMPWL---DFDRGACAVSEEPREMNGDLEGACALAEEETAL 220

Query:   308 WTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLD 367
             W P+            +N  YI  L+  F  PQSLG++GGKP ++ Y +G   +  IYLD
Sbjct:   221 WKPLVLLIPLRLGLSDINEAYIEPLKQCFMMPQSLGVIGGKPNSAHYFIGFVGDELIYLD 280

Query:   368 PHDVQPVINIGKDDLEADTSTYHSE 392
             PH  QP ++  +D    D S YH +
Sbjct:   281 PHTTQPAVDPSEDGHFPDDS-YHCQ 304

GO:0005737 "cytoplasm" evidence=IEA

GO:0006914 "autophagy" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0006810 "transport" evidence=IEA

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

ZFIN|ZDB-GENE-050522-430 atg4a "ATG4 autophagy related 4 homolog A (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 366 (133.9 bits), Expect = 1.2e-33, P = 1.2e-33
 Identities = 87/255 (34%), Positives = 126/255 (49%)

Query:   143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
             D  SR+  +YRK F PIG +  +SD GWGCMLR  QM++AQAL+   LGR WR   +K  
Sbjct:    45 DVRSRLWFTYRKKFSPIGGTGPSSDAGWGCMLRCGQMILAQALICSHLGRDWRWDPEKHQ 104

Query:   203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
              +EY  IL  F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PKEYQRILDCFLDKKDSCYSIHQMAQMGVGEGKSVGEWYGPNTVAQVLKKLALFDDWNS- 163

Query:   263 LGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHC-----SVFSKGQADWTPIXXXXXX 317
                    +++YV S D          V I+D  + C      + S+   DW P+      
Sbjct:   164 -------LSVYV-SMDN--------TVVIEDIKKLCVRADLQLQSQQPLDWRPLLLVIPL 207

Query:   318 XXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINI 377
                   +NP YI  L+  F  PQS G++GGKP  + Y +G  ++  IYLDPH  Q  ++ 
Sbjct:   208 RMGINSINPVYIQALKECFKMPQSCGVLGGKPNLAYYFIGFIDDELIYLDPHTTQQAVDT 267

Query:   378 GKDDLEADTSTYHSE 392
              +     D  ++H +
Sbjct:   268 -ESGSAVDDQSFHCQ 281

GO:0005737 "cytoplasm" evidence=IEA

GO:0006914 "autophagy" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0006810 "transport" evidence=IEA

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

UNIPROTKB|Q9Y4P1 ATG4B "Cysteine protease ATG4B" [Homo sapiens (taxid:9606)]

 Score = 366 (133.9 bits), Expect = 1.2e-33, P = 1.2e-33
 Identities = 88/245 (35%), Positives = 120/245 (48%)

Query:   143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
             D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    45 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 104

Query:   203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
                Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSS 163

Query:   263 LGCQSLPMAIYVVSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ADWTP 310
             L    + M   VV  +E        V C        D+ RHC+ F  G       + W P
Sbjct:   164 LAVH-IAMDNTVVM-EEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRP 221

Query:   311 IXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHD 370
             +            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH 
Sbjct:   222 LVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHT 281

Query:   371 VQPVI 375
              QP +
Sbjct:   282 TQPAV 286

GO:0015031 "protein transport" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0006508 "proteolysis" evidence=IDA

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

GO:0006914 "autophagy" evidence=IGI

GO:0000045 "autophagic vacuole assembly" evidence=IGI

GO:0010508 "positive regulation of autophagy" evidence=IDA

GO:0004175 "endopeptidase activity" evidence=IDA

MGI|MGI:1913865 Atg4b "autophagy related 4B, cysteine peptidase" [Mus musculus (taxid:10090)]

 Score = 366 (133.9 bits), Expect = 1.2e-33, P = 1.2e-33
 Identities = 90/262 (34%), Positives = 127/262 (48%)

Query:   143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
             D +SR+  +YR+ F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    45 DVASRLWFTYRRNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 104

Query:   203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
                Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PDSYFNVLNAFLDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSS 163

Query:   263 LGCQSLPMAIYVVSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ADWTP 310
             L    + M   VV  +E      A + C        D+ RHC+ F  G       + W P
Sbjct:   164 LAVH-IAMDNTVVM-EEIRRLCRANLPCAGAAALPTDSERHCNGFPAGAEVTNRPSAWRP 221

Query:   311 IXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHD 370
             +            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH 
Sbjct:   222 LVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHT 281

Query:   371 VQPVINIGKDDLEADTSTYHSE 392
              QP + +       D S +H +
Sbjct:   282 TQPAVELTDSCFIPDES-FHCQ 302

GO:0000045 "autophagic vacuole assembly" evidence=ISO

GO:0004175 "endopeptidase activity" evidence=ISO

GO:0004197 "cysteine-type endopeptidase activity" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=ISS;IDA

GO:0006508 "proteolysis" evidence=ISO

GO:0006810 "transport" evidence=IEA

GO:0006914 "autophagy" evidence=ISO;ISS

GO:0008152 "metabolic process" evidence=IDA;TAS

GO:0008233 "peptidase activity" evidence=IDA

GO:0008234 "cysteine-type peptidase activity" evidence=ISO;TAS

GO:0010508 "positive regulation of autophagy" evidence=ISO

GO:0015031 "protein transport" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0045732 "positive regulation of protein catabolic process" evidence=ISO

UNIPROTKB|F1LRG2 Atg4b "Protein Atg4b" [Rattus norvegicus (taxid:10116)]

 Score = 355 (130.0 bits), Expect = 1.8e-32, P = 1.8e-32
 Identities = 89/262 (33%), Positives = 125/262 (47%)

Query:   143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
             D +SR+  +YR+ F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    46 DVASRLWFTYRRNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 105

Query:   203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
                Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   106 PDSYFSVLNAFLDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSS 164

Query:   263 LGCQSLPMAIYVVSGDEDGERGGAPVVCIDDAS------RHCSVFSKGQA------DWTP 310
             L    + M   VV  +E      A + C   A+      RHC+    G         W P
Sbjct:   165 LAVH-IAMDNTVVM-EEIRRLCRASLPCAGAAALSMESERHCNGLPAGAEVTNRPLAWRP 222

Query:   311 IXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHD 370
             +            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH 
Sbjct:   223 LVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHT 282

Query:   371 VQPVINIGKDDLEADTSTYHSE 392
              QP + +       D S +H +
Sbjct:   283 TQPAVELTDSCFIPDES-FHCQ 303

GO:0000045 "autophagic vacuole assembly" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8S929	ATG4A_ARATH	3, ., 4, ., 2, 2, ., -	0.5882	0.9846	0.8265	yes	no
Q7XPW8	ATG4B_ORYSJ	3, ., 4, ., 2, 2, ., -	0.6073	0.8801	0.7217	yes	no
A2Q1V6	ATG4_MEDTR	3, ., 4, ., 2, 2, ., -	0.6641	0.9948	0.8008	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.22	0.691

---

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	392
pfam03416	277	pfam03416, Peptidase_C54, Peptidase family C54	1e-111

>gnl|CDD|217545 pfam03416, Peptidase_C54, Peptidase family C54

 Score =  327 bits (841), Expect = e-111
 Identities = 114/257 (44%), Positives = 145/257 (56%), Gaps = 18/257 (7%)

Query: 136 GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWR 195
           GL  F  D  SRI  +YR+GF PIG +  TSD GWGCMLR+ QML+AQAL+ H LGR WR
Sbjct: 3   GLEAFLSDVYSRIWFTYRRGFPPIGGTGFTSDCGWGCMLRTGQMLLAQALIIHHLGRDWR 62

Query: 196 KPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAY-GLAAGSWVGPYAMCRSWEALA 254
            P +K  D EY +IL  FGDS  +PFSIH  +Q GK+  G   G W GP  + R  + L 
Sbjct: 63  WPAEKEPDEEYKKILAWFGDSPDAPFSIHQFVQMGKSLCGKKPGEWFGPNTVARILKKLV 122

Query: 255 RCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLL 314
                 +GL           V  D+  E+              CS  + GQ+ W P+LLL
Sbjct: 123 -KFDDWSGL--AVYVAMDGTVVYDDIVEK--------------CSAPNNGQSAWKPLLLL 165

Query: 315 VPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPV 374
           +PL LG++K+NP YI  L+  F+ PQS+GI+GGKP  S Y VG Q +  IYLDPH VQ  
Sbjct: 166 IPLRLGIDKINPVYIEALKECFSLPQSVGIIGGKPNQSLYFVGFQGDELIYLDPHTVQEA 225

Query: 375 INIGKDDLEADTSTYHS 391
           + + +     D  TYH 
Sbjct: 226 VTVNQKGFPVDDETYHC 242

Length = 277

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	392
KOG2674	409	consensus Cysteine protease required for autophagy	100.0
PF03416	278	Peptidase_C54: Peptidase family C54 This family be	100.0
PF07910	218	Peptidase_C78: Peptidase family C78; InterPro: IPR	98.04
KOG2433	577	consensus Uncharacterized conserved protein [Funct	97.38
KOG2674	409	consensus Cysteine protease required for autophagy	94.59
KOG4696	393	consensus Uncharacterized conserved protein [Funct	88.7

>KOG2674 consensus Cysteine protease required for autophagy - Apg4p/Aut2p [Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.4e-97  Score=743.90  Aligned_cols=306  Identities=42%  Similarity=0.788  Sum_probs=276.5

Q ss_pred             cccccccCCChhHHHHHH-hhcchHHHHHHHhhCCCCCCCCCCCCcEEEcCeeecCCCcccccccCCCcchHHHHhhccc
Q 016269           68 KKAVHNKSNGWTAAVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSS  146 (392)
Q Consensus        68 ~~~~~~~~~~w~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~pvwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~Df~S  146 (392)
                      ++.+++..+.|+.+++++ +.++..++++++++++..++++..+++||+||++|.+..++.          ++|+.||.|
T Consensus         3 ~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~lg~~y~is~~~~----------e~f~~D~~S   72 (409)
T KOG2674|consen    3 HSIVCTTRQSWTLFVKTLGEASSHIRFLGKTVLFAELENIESGGEDVWILGRRYKISTEES----------EEFLSDVSS   72 (409)
T ss_pred             ccchhhhhhhHHHHHHHHHhhhhhhhhhhheecccccccCCCCCcceEEEeeeeeeccCHH----------HHHHHhhhh
Confidence            566788899999999988 455567777888899999999999999999999999987641          899999999


Q ss_pred             eEEEeecCCCCCCCCCcccccCCccccccchhhHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCCCCCCCchhhHH
Q 016269          147 RILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNL  226 (392)
Q Consensus       147 riWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D~~~aPFSIH~i  226 (392)
                      |||||||++|+||+++++|||+|||||||||||||||||+++||||+|+|++.+..+++|.+||++|.|.|.+|||||||
T Consensus        73 riw~TYR~~F~pig~t~~ttD~GWGCMlR~gQMllaqaL~~~~lGRdw~w~~~~~~~~~y~~il~~F~D~~~a~~SiHq~  152 (409)
T KOG2674|consen   73 RLWFTYRRGFSPIGGTGPTTDCGWGCMLRCGQMLLAQALICRHLGRDWRWTDEKRLEEEYLKILNLFEDEPDAPFSIHQI  152 (409)
T ss_pred             cceeeccCCCCcccCCCcccCcceeeEEehhHHHHHHHHHHhhcccccccccccccchHHHHHHHhhcCCCccccCHHHH
Confidence            99999999999999999999999999999999999999999999999999999888999999999999999999999999


Q ss_pred             HHHHhHcCCCCCcccChhHHHHHHHHHHHHHhhhccCCCCCCCeEEEEeeC--------CCCCCCCCCceeecccccccc
Q 016269          227 LQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSG--------DEDGERGGAPVVCIDDASRHC  298 (392)
Q Consensus       227 v~~G~~~gk~pGeWfGPs~va~~i~~L~~~~~~~~~~~~~~~~l~vyv~s~--------~~dge~g~~~~v~~dd~~~~~  298 (392)
                      +++|...||++|+||||+++|+++++|....        .+.+.++||+.+        .+....++.+.+++.+..+.|
T Consensus       153 ~~~G~~~~~~~g~WfGP~~~a~~~~~L~~~~--------~~~~~~~~v~~~~~vv~~d~~~~~~~~~~~~~~~~~~~~~~  224 (409)
T KOG2674|consen  153 VQMGVGEGKAVGSWFGPNTVAQVLKKLARFD--------PWSSLAVYVAMDNAVIIRDIVEKCRRGPLPALTIEDATKQS  224 (409)
T ss_pred             HHHHhhccCCCccccCCcHHHHHHHHhhccC--------CCCCccEEEecccceEEeeeehhcccCCcccceecccchhh
Confidence            9999999999999999999999999998753        234556666543        234556678888888888888


Q ss_pred             ccccCCCCCCccEEEEEeeeccCCCCCcchHHHHHHhhCCCCceEEecCCCCceeEEEEEeCceeEEeCCCCcccccccC
Q 016269          299 SVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIG  378 (392)
Q Consensus       299 ~~~~~~~~~w~plLlLVPlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~  378 (392)
                      .++.....+|+|||||||||||++.|||.|+|+||++|++||||||+||||+||+||||||||+|||||||+||++|+++
T Consensus       225 ~~~~~~~~ewkpllLLVPvRLG~~~iNp~Yvp~lk~~f~~~q~lGI~GGkP~~S~YFvGyq~d~l~YLDPH~~Q~~V~vs  304 (409)
T KOG2674|consen  225 LEFSNGITEWKPLLLLIPLRLGITSINPSYVPALKECFEMPQSVGIIGGRPNHSLYFVGYQGDELFYLDPHYTQPAVEVS  304 (409)
T ss_pred             cccCCCCCCCcceEEEEEeeecccccChHHHHHHHHHhcchhhceeccCCCCcceEEEEEecceEEEeCCccCccccccc
Confidence            88888889999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCCCCCCCCccCC
Q 016269          379 KDDLEADTSTYHSE  392 (392)
Q Consensus       379 ~~~~~~~~~SyHC~  392 (392)
                      + +...+++||||+
T Consensus       305 ~-~~~~~~esfHC~  317 (409)
T KOG2674|consen  305 K-AKDVPDETFHCQ  317 (409)
T ss_pred             c-cCCCCccccccC
Confidence            4 223467999996

>PF03416 Peptidase_C54: Peptidase family C54 This family belongs to family C54 of the peptidase classification

Probab=100.00  E-value=3.3e-89  Score=663.53  Aligned_cols=240  Identities=48%  Similarity=0.884  Sum_probs=180.9

Q ss_pred             chHHHHhhccceEEEeecCCCCCCCCCcccccCCccccccchhhHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCC
Q 016269          136 GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGD  215 (392)
Q Consensus       136 ~~~~f~~Df~SriWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D  215 (392)
                      +.++|++||+||||||||+||+||+++++|||+|||||||||||||||||++|++||+|++......++.+.+||+||.|
T Consensus         2 ~~~~~~~d~~s~iwfTYR~~F~~i~~s~~tSD~GWGCmlRs~QMlLAqaL~~~~lgr~~~~~~~~~~~~~~~~il~~F~D   81 (278)
T PF03416_consen    2 NKEEFLKDFSSRIWFTYRKGFPPIPGSGLTSDCGWGCMLRSGQMLLAQALLRHHLGRDWRWPDNSDNNEEYRRILSLFQD   81 (278)
T ss_dssp             THHHHHHHHHCSB---EEESS--TTTTS-SB-TTT-HHHHHHHHHHHHHHHHHHC-TT--TTTTSS--HHHHHHHHTTSS
T ss_pred             cHHHHHHHHhhheEEeccCCCCCCCCCCcccCCCcccccchhHHHHHHHHHHHhhcccccccccccCcHHHHHHHHhcCC
Confidence            47899999999999999999999999999999999999999999999999999999999998776667889999999999


Q ss_pred             CCCCCchhhHHHHHHhHc-CCCCCcccChhHHHHHHHHHHHHHhhhccCCCCCCCeEEEEeeCCCCCCCCCCceeecccc
Q 016269          216 SETSPFSIHNLLQAGKAY-GLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDA  294 (392)
Q Consensus       216 ~~~aPFSIH~iv~~G~~~-gk~pGeWfGPs~va~~i~~L~~~~~~~~~~~~~~~~l~vyv~s~~~dge~g~~~~v~~dd~  294 (392)
                      .++||||||||+++|... ||+||+||||+++|++|++|++.+        ....++|||+.++         +++.+|+
T Consensus        82 ~~~apfSIh~i~~~g~~~~g~~~G~W~gPs~~~~~l~~l~~~~--------~~~~l~v~v~~d~---------~i~~~d~  144 (278)
T PF03416_consen   82 SPSAPFSIHNIVQEGKSEFGKKPGEWFGPSTIAQALKKLVNEA--------DLSGLRVYVSSDG---------TIYYDDV  144 (278)
T ss_dssp             STTSTTSHHHHHHHHHTT-T--TTS-B-HHHHHHHHHHHHCC---------TTT--EEEE-BTT---------EEEHHHH
T ss_pred             CCCCcchHHHHHHHHHHHcCCCCcccCCHHHHHHHHHHHHHhc--------cccCceEEEeecc---------ccchhHH
Confidence            999999999999999987 999999999999999999999743        3346889998754         7888888


Q ss_pred             ccccccc--cCCCCCCccEEEEEeeeccCCCCCcchHHHHHHhhCCCCceEEecCCCCceeEEEEEeCceeEEeCCCCcc
Q 016269          295 SRHCSVF--SKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQ  372 (392)
Q Consensus       295 ~~~~~~~--~~~~~~w~plLlLVPlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q  372 (392)
                      .+.|...  ......|+|||||||+|||+|++||+|+++|+++|++|||+|||||||++|+||||+|+|+|||||||+||
T Consensus       145 ~~~~~~~~~~~~~~~~~~vLlliplrLGl~~in~~Y~~~l~~~l~~pq~vGiiGG~p~~a~YfvG~~~d~liYLDPH~~Q  224 (278)
T PF03416_consen  145 EELCSNSNPTKQSSWWKPVLLLIPLRLGLDKINPKYIPSLKSLLSLPQSVGIIGGRPNSALYFVGFQGDQLIYLDPHYVQ  224 (278)
T ss_dssp             HHHHCCS-S-----CE--EEEEEEEE-SSSS--GGGHHHHHHHCCSTTEEEEEEEETTEEEEEEEEETTEEEEE---SEE
T ss_pred             HHHHhhhccccccccCceEEEEEEeecCCCCCCHHHHHHHHHHhCCcccceeeccCCCceEEEEEEccCeEEEECCCCCe
Confidence            8776532  12345789999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccCCCCCCCCCCCccCC
Q 016269          373 PVINIGKDDLEADTSTYHSE  392 (392)
Q Consensus       373 ~av~~~~~~~~~~~~SyHC~  392 (392)
                      +|++....+.+.+.+||||+
T Consensus       225 ~a~~~~~~~~~~~~~s~h~~  244 (278)
T PF03416_consen  225 PAVDSQNNNFELDDSSYHCS  244 (278)
T ss_dssp             E-----TTS-----GGGC-S
T ss_pred             eCCccCCCCCcCCCCceecC
Confidence            99998776665556899995

; InterPro: IPR005078 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. 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 is a group of cysteine peptidases which constitute MEROPS peptidase family C54 (Aut2 peptidase family, clan CA), which are a group of proteins of unknown function.; PDB: 2CY7_A 2ZZP_A 2D1I_B 2Z0E_A 2Z0D_A 2P82_D.

>PF07910 Peptidase_C78: Peptidase family C78; InterPro: IPR012462 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=98.04  E-value=4.8e-06  Score=79.44  Aligned_cols=47  Identities=23%  Similarity=0.231  Sum_probs=29.3

Q ss_pred             chHHHHHHhhCCC-C----------ceEEecCCCCceeEEEEEeC-----ceeEEeCCCCcccc
Q 016269          327 RYIPTLRLTFTFP-Q----------SLGIVGGKPGASTYIVGVQE-----ESAIYLDPHDVQPV  374 (392)
Q Consensus       327 ~Y~~~Lk~~f~lp-q----------svGIiGGrP~~SlYFvG~q~-----d~LiYLDPH~~Q~a  374 (392)
                      ..++.|..-|+-. .          .--++|| .+||.=+||+.-     -+||.||||++-..
T Consensus       123 ~l~~~v~~yF~~~~~~~~~~~~t~~~Piylqh-~ghS~TIvGie~~~~g~~~LLVlDP~~~~~~  185 (218)
T PF07910_consen  123 RLLDWVWNYFESGCGSPSQSRQTNKPPIYLQH-DGHSRTIVGIERNKDGEVNLLVLDPHYTGSD  185 (218)
T ss_dssp             CGHHHHHHHHCCT--------------EEEEE-TTEEEEEEEEEE-TT--EEEEEE-TT--S-S
T ss_pred             HHHHHHHHHhhcCCCccccccccCCCCeEeCc-cccceEEEEEEECCCCCEEEEEECCCCCCHH
Confidence            4445556665544 2          3445666 999999999974     48999999998763

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 entry contains UfSP1 and UfSP2, which are cysteine peptidases required for the processing and activation of Ubiquitin fold modifier 1 (Ufm1, IPR005375 from INTERPRO) and for its release from conjugated cellular proteins. UfSP1 and UfSP2 are 217 aa and 461 aa respectively [, ]. The peptidases belong to MEROPS peptidase family C78, clan CA. The UfSP2 family have an N-terminal extension with one or more zinc finger domains of the C2H2 type (IPR007087 from INTERPRO), which have been shown to be involved in protein:protein interaction. UfSP2 is present in most, if not all, multi-cellular organisms including plants, nematodes, flies, and mammals, whereas UfSP1 is not present in plants and nematodes []. ; PDB: 3OQC_B 2Z84_A.

>KOG2433 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.38  E-value=0.00041  Score=71.58  Aligned_cols=69  Identities=25%  Similarity=0.428  Sum_probs=40.7

Q ss_pred             ccccCCccccccchhhHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcC---CCCCCCchhhHHHHHHhHcCCCCCcc
Q 016269          164 ITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFG---DSETSPFSIHNLLQAGKAYGLAAGSW  240 (392)
Q Consensus       164 ~TSD~GWGCMLRsgQMLLAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~---D~~~aPFSIH~iv~~G~~~gk~pGeW  240 (392)
                      -.-|.||||..||-|-+-.--.+   -|-  . +...   +.|++|-+..-   |.|.+ |             +---+|
T Consensus       402 ~idD~GWGCAYRSlQTIcSWFil---qGY--T-~~pI---PtHrEiQqaLvdi~DKpA~-F-------------VGSrQW  458 (577)
T KOG2433|consen  402 GIDDSGWGCAYRSLQTICSWFIL---QGY--T-DKPI---PTHREIQQALVDIQDKPAK-F-------------VGSRQW  458 (577)
T ss_pred             ccccCCcchhhHhHHHHHHHHHH---cCc--c-CCCC---CcHHHHHHHHHhccCcccc-e-------------ecccce
Confidence            35799999999999976554333   221  0 1111   23444433332   33311 1             112379


Q ss_pred             cChhHHHHHHHHHHH
Q 016269          241 VGPYAMCRSWEALAR  255 (392)
Q Consensus       241 fGPs~va~~i~~L~~  255 (392)
                      .|-..+..+|..|++
T Consensus       459 IGStEis~vLn~ll~  473 (577)
T KOG2433|consen  459 IGSTEISFVLNELLK  473 (577)
T ss_pred             ecchhHHHHHHHHhc
Confidence            999999999998876

>KOG2674 consensus Cysteine protease required for autophagy - Apg4p/Aut2p [Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=94.59  E-value=0.0029  Score=65.38  Aligned_cols=134  Identities=11%  Similarity=0.032  Sum_probs=92.9

Q ss_pred             cccccccccccccccccccCCChhHHHHHHhhcchHHHHHHHhhCCCCCCCCCCCCcEEEcCeeecCCCcccccccCCCc
Q 016269           56 VFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNN  135 (392)
Q Consensus        56 ~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pvwlLG~~Y~~~~~~~~~~~~~~~  135 (392)
                      +-=|||.-=+.-.....+.+.||+|++|.    |.|.-+|-.+..              -||+-+....+..        
T Consensus        74 iw~TYR~~F~pig~t~~ttD~GWGCMlR~----gQMllaqaL~~~--------------~lGRdw~w~~~~~--------  127 (409)
T KOG2674|consen   74 LWFTYRRGFSPIGGTGPTTDCGWGCMLRC----GQMLLAQALICR--------------HLGRDWRWTDEKR--------  127 (409)
T ss_pred             ceeeccCCCCcccCCCcccCcceeeEEeh----hHHHHHHHHHHh--------------hcccccccccccc--------
Confidence            34467766555555668999999999987    777655443322              1344333332211        


Q ss_pred             chHHHHhhccceEEEeecCCCCCCCCCcccccCCccccccchhhHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCC
Q 016269          136 GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGD  215 (392)
Q Consensus       136 ~~~~f~~Df~SriWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D  215 (392)
                            .+      ..|++        .++.+.+|+|+.+|.++|++.+...+                  +.|-+||++
T Consensus       128 ------~~------~~y~~--------il~~F~D~~~a~~SiHq~~~~G~~~~------------------~~~g~WfGP  169 (409)
T KOG2674|consen  128 ------LE------EEYLK--------ILNLFEDEPDAPFSIHQIVQMGVGEG------------------KAVGSWFGP  169 (409)
T ss_pred             ------cc------hHHHH--------HHHhhcCCCccccCHHHHHHHHhhcc------------------CCCccccCC
Confidence                  01      12332        57889999999999999999998653                  246789999


Q ss_pred             CCCCCchhhHHHHHHhHcCCCCCcccChhHHHHHHHHHHHHH
Q 016269          216 SETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQ  257 (392)
Q Consensus       216 ~~~aPFSIH~iv~~G~~~gk~pGeWfGPs~va~~i~~L~~~~  257 (392)
                      ++.|.+    +...+...+++++.|+++-..+.+++......
T Consensus       170 ~~~a~~----~~~L~~~~~~~~~~~~v~~~~~vv~~d~~~~~  207 (409)
T KOG2674|consen  170 NTVAQV----LKKLARFDPWSSLAVYVAMDNAVIIRDIVEKC  207 (409)
T ss_pred             cHHHHH----HHHhhccCCCCCccEEEecccceEEeeeehhc
Confidence            887776    66677778899999999998888877765543

>KOG4696 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.70  E-value=0.22  Score=50.25  Aligned_cols=38  Identities=39%  Similarity=0.678  Sum_probs=28.8

Q ss_pred             EeecCCCCCCCC----CcccccCCccccccchhhHHHHHHHH
Q 016269          150 ISYRKGFDPIGD----SKITSDVGWGCMLRSSQMLVAQALLF  187 (392)
Q Consensus       150 fTYRk~F~pI~~----s~~TSD~GWGCMLRsgQMLLAqaL~~  187 (392)
                      ...-|||.-|+.    ...--|.||||..|+.|||++..|..
T Consensus       173 ~awnkGFDi~~ALH~D~R~~G~K~W~~~~~~~qml~s~gl~~  214 (393)
T KOG4696|consen  173 SAWNKGFDIIEALHTDVRSLGDKGWGCGYRNFQMLDSEGLAQ  214 (393)
T ss_pred             HHHhcccchhhhhcccchhcccccccccchhHHHHHHHHHHh
Confidence            345677876652    22345789999999999999999975

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	392
2cy7_A	396	The Crystal Structure Of Human Atg4b Length = 396		2e-34
2d1i_A	398	Structure Of Human Atg4b Length = 398		2e-34
2p82_A	355	Cysteine Protease Atg4a Length = 355		3e-34
2z0d_A	357	The Crystal Structure Of Human Atg4b- Lc3(1-120) Co		2e-33
2zzp_A	357	The Crystal Structure Of Human Atg4b(C74s)- Lc3(1-1		3e-33

>pdb|2CY7|A Chain A, The Crystal Structure Of Human Atg4b Length = 396

Iteration: 1
 Score =  143 bits (360), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 86/251 (34%), Positives = 121/251 (48%), Gaps = 25/251 (9%)
Query: 143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
           D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct: 48  DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
              Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 263 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 305
                  +A+++     V  +E        V C        D+ RHC+ F  G       
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 306 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 365
           + W P+            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 366 LDPHDVQPVIN 376
           LDPH  QP + 
Sbjct: 280 LDPHTTQPAVE 290

>pdb|2D1I|A Chain A, Structure Of Human Atg4b Length = 398

Iteration: 1
 Score =  143 bits (360), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 86/251 (34%), Positives = 121/251 (48%), Gaps = 25/251 (9%)
Query: 143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
           D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct: 50  DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 109
Query: 203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
              Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct: 110 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 168
Query: 263 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 305
                  +A+++     V  +E        V C        D+ RHC+ F  G       
Sbjct: 169 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 221
Query: 306 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 365
           + W P+            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IY
Sbjct: 222 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 281
Query: 366 LDPHDVQPVIN 376
           LDPH  QP + 
Sbjct: 282 LDPHTTQPAVE 292

>pdb|2P82|A Chain A, Cysteine Protease Atg4a Length = 355

Iteration: 1
 Score =  142 bits (358), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 84/262 (32%), Positives = 125/262 (47%), Gaps = 22/262 (8%)
Query: 143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
           D S+R+  +YR+ F PIG +  +SD GWGCMLR  QM++AQAL+   LGR W    QK  
Sbjct: 44  DISARLWFTYRRKFSPIGGTGPSSDAGWGCMLRCGQMMLAQALICRHLGRDWSWEKQKEQ 103
Query: 203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGP---------YAMCRSWEAL 253
            +EY  IL  F D +   +SIH + Q G   G + G W GP          A+   W +L
Sbjct: 104 PKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVLKKLALFDEWNSL 163
Query: 254 ARCQRAETGLGCQSLPMAIYV--VSGDEDGERGGAPVVCIDDA---SRHCSVFSKGQADW 308
           A     +  +  + +     V  +S D  G+R    +   + +   S +CS        W
Sbjct: 164 AVYVSMDNTVVIEDIKKMCRVLPLSADTAGDRPPDSLTASNQSKGTSAYCSA-------W 216
Query: 309 TPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDP 368
            P+           ++NP Y+   +  F  PQSLG +GGKP  + Y +G   +  I+LDP
Sbjct: 217 KPLLLIVPLRLGINQINPVYVDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDP 276
Query: 369 HDVQPVINIGKDDLEADTSTYH 390
           H  Q  ++  ++    D  T+H
Sbjct: 277 HTTQTFVDTEENGTVND-QTFH 297

>pdb|2Z0D|A Chain A, The Crystal Structure Of Human Atg4b- Lc3(1-120) Complex Length = 357

Iteration: 1
 Score =  139 bits (351), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 85/251 (33%), Positives = 120/251 (47%), Gaps = 25/251 (9%)
Query: 143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
           D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct: 48  DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
              Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 263 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 305
                  +A+++     V  +E        V C        D+ RHC+ F  G       
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 306 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 365
           + W P+            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 366 LDPHDVQPVIN 376
           LDP   QP + 
Sbjct: 280 LDPATTQPAVE 290

>pdb|2ZZP|A Chain A, The Crystal Structure Of Human Atg4b(C74s)- Lc3(1-124) Complex Length = 357

Iteration: 1
 Score =  139 bits (350), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 85/251 (33%), Positives = 120/251 (47%), Gaps = 25/251 (9%)
Query: 143 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 202
           D +SR+  +YRK F  IG +  TSD GWG MLR  QM+ AQAL+   LGR WR   +K  
Sbjct: 48  DVASRLWFTYRKNFPAIGGTGPTSDTGWGSMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 203 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 262
              Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 263 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 305
                  +A+++     V  +E        V C        D+ RHC+ F  G       
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 306 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 365
           + W P+            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 366 LDPHDVQPVIN 376
           LDPH  QP + 
Sbjct: 280 LDPHTTQPAVE 290
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	392
2cy7_A	396	Cysteine protease APG4B; papain-like fold, autopha	2e-84
2p82_A	355	Cysteine protease ATG4A; autophagy, hydrolase, pro	9e-84

>2cy7_A Cysteine protease APG4B; papain-like fold, autophagy, hydrolase; 1.90A {Homo sapiens} SCOP: d.3.1.22 PDB: 2d1i_A 2zzp_A 2z0d_A 2z0e_A Length = 396

 Score =  261 bits (668), Expect = 2e-84
 Identities = 95/295 (32%), Positives = 139/295 (47%), Gaps = 20/295 (6%)

Query: 106 ISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKIT 165
              ++  +W+LG  + I  ++            E   D +SR+  +YRK F  IG +  T
Sbjct: 22  FPETSEPVWILGRKYSIFTEKD-----------EILSDVASRLWFTYRKNFPAIGGTGPT 70

Query: 166 SDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHN 225
           SD GWGCMLR  QM+ AQAL+   LGR WR   +K     Y  +L+ F D + S +SIH 
Sbjct: 71  SDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQ 130

Query: 226 LLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIY---VVSGDEDGE 282
           + Q G   G + G W GP  + +  + LA      +     ++   +    +        
Sbjct: 131 IAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSSLAVHIAMDNTVVMEEIRRLCRTSV 190

Query: 283 RGGAPVVCIDDASRHCSVFSKGQ------ADWTPILLLVPLVLGLEKVNPRYIPTLRLTF 336
                     D+ RHC+ F  G       + W P++LL+PL LGL  +N  Y+ TL+  F
Sbjct: 191 PCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRPLVLLIPLRLGLTDINEAYVETLKHCF 250

Query: 337 TFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHS 391
             PQSLG++GGKP ++ Y +G   E  IYLDPH  QP +         D S +  
Sbjct: 251 MMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTTQPAVEPTDGCFIPDESFHCQ 305

>2p82_A Cysteine protease ATG4A; autophagy, hydrolase, protein transport, thiol Pro transport, UBL conjugation pathway, structural genomics; 2.10A {Homo sapiens} SCOP: d.3.1.22 Length = 355

 Score =  258 bits (660), Expect = 9e-84
 Identities = 89/294 (30%), Positives = 139/294 (47%), Gaps = 22/294 (7%)

Query: 108 SSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSD 167
            +   +W+LG  H +  +++           +   D S+R+  +YR+ F PIG +  +SD
Sbjct: 20  DTDELVWILGKQHLLKTEKS-----------KLLSDISARLWFTYRRKFSPIGGTGPSSD 68

Query: 168 VGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLL 227
            GWGCMLR  QM++AQAL+   LGR W    QK   +EY  IL  F D +   +SIH + 
Sbjct: 69  AGWGCMLRCGQMMLAQALICRHLGRDWSWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMA 128

Query: 228 QAGKAYGLAAGSWVGPYAMCRSWEALARCQ---------RAETGLGCQSLPMAIYVVSGD 278
           Q G   G + G W GP  + +  + LA              +  +  + +     V+   
Sbjct: 129 QMGVGEGKSIGEWFGPNTVAQVLKKLALFDEWNSLAVYVSMDNTVVIEDIKKMCRVLPLS 188

Query: 279 EDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTF 338
            D      P      AS      S   + W P+LL+VPL LG+ ++NP Y+   +  F  
Sbjct: 189 ADTAGDRPP--DSLTASNQSKGTSAYCSAWKPLLLIVPLRLGINQINPVYVDAFKECFKM 246

Query: 339 PQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE 392
           PQSLG +GGKP  + Y +G   +  I+LDPH  Q  ++  ++    D + +  +
Sbjct: 247 PQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTEENGTVNDQTFHCLQ 300

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	392
2p82_A	355	Cysteine protease ATG4A; autophagy, hydrolase, pro	100.0
2cy7_A	396	Cysteine protease APG4B; papain-like fold, autopha	100.0
3oqc_A	481	UFSP2, UFM1-specific protease 2; DPH motif Cys pro	98.06
2z84_A	218	UFSP1, UFM1-specific protease 1; alpha/beta, papai	97.96

>2p82_A Cysteine protease ATG4A; autophagy, hydrolase, protein transport, thiol Pro transport, UBL conjugation pathway, structural genomics; 2.10A {Homo sapiens} SCOP: d.3.1.22

Probab=100.00  E-value=2.6e-98  Score=747.12  Aligned_cols=261  Identities=35%  Similarity=0.692  Sum_probs=231.0

Q ss_pred             CCCCCCCCCcEEEcCeeecCCCcccccccCCCcchHHHHhhccceEEEeecCCCCCCCCCcccccCCccccccchhhHHH
Q 016269          103 RTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVA  182 (392)
Q Consensus       103 ~~~~~~~~~pvwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~Df~SriWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLLA  182 (392)
                      +++++++++||||||++|+..++           .++|++||.||||||||+||+||+++++|||+||||||||||||||
T Consensus        15 ~~~~~~~~~pv~iLG~~y~~~~~-----------~~~fl~d~~SriWfTYR~~F~~I~~s~~TSD~GWGCMlRsgQMlLA   83 (355)
T 2p82_A           15 YFQGPDTDELVWILGKQHLLKTE-----------KSKLLSDISARLWFTYRRKFSPIGGTGPSSDAGWGCMLRCGQMMLA   83 (355)
T ss_dssp             -------CCEEEETTEEEETTTT-----------HHHHHHHHHTSBCCCEEESSCCTTTTSCSCCTTTCHHHHHHHHHHH
T ss_pred             ccccCCCCCeEEEecceecCCcC-----------HHHHHHHhhhcEEEEecCCCccCCCCCccCCCccceeeehhHHHHH
Confidence            45677899999999999998754           6899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCCCCCCCchhhHHHHHHhHcCCCCCcccChhHHHHHHHHHHHHHhhhcc
Q 016269          183 QALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG  262 (392)
Q Consensus       183 qaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D~~~aPFSIH~iv~~G~~~gk~pGeWfGPs~va~~i~~L~~~~~~~~~  262 (392)
                      |||++|+|||+|||...+..+++|++||+||+|+|+|||||||||++|.++||+|||||||+++|++|++|++.      
T Consensus        84 qaL~~~~LGr~wr~~~~~~~~~~~~~Il~~F~D~~~apfSIH~iv~~g~~~gk~~GeWfGPs~va~~lk~L~~~------  157 (355)
T 2p82_A           84 QALICRHLGRDWSWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVLKKLALF------  157 (355)
T ss_dssp             HHHHHHHTCTTCCTTSCSSCCHHHHHHHHTTSSSTTSTTSHHHHHHHHHTTTCCTTCCCCHHHHHHHHHHHHTT------
T ss_pred             HHHHHHhcCccccccccccccHHHHHHHHhcCCCCCCCccHHHHHHHHHHcCCCcccccCHHHHHHHHHHHHhc------
Confidence            99999999999999877667789999999999999999999999999999999999999999999999999863      


Q ss_pred             CCCCCCCeEEEEeeCCCCCCCCCCceeeccccccccccccC------------------------CCCCCccEEEEEeee
Q 016269          263 LGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSK------------------------GQADWTPILLLVPLV  318 (392)
Q Consensus       263 ~~~~~~~l~vyv~s~~~dge~g~~~~v~~dd~~~~~~~~~~------------------------~~~~w~plLlLVPlR  318 (392)
                        .++.+++|||++|+         +++++|+.++|.....                        ....|+|||||||+|
T Consensus       158 --~~~~~l~v~va~D~---------~v~~~di~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~plLlliplR  226 (355)
T 2p82_A          158 --DEWNSLAVYVSMDN---------TVVIEDIKKMCRVLPLSADTAGDRPPDSLTASNQSKGTSAYCSAWKPLLLIVPLR  226 (355)
T ss_dssp             --CTTTCCEEEECBTT---------EEEHHHHHHHHEECCSCC----------------------CCCEECCEEEEEEEE
T ss_pred             --ccccCceEEEecCC---------cEeHHHHHHHhhcccccccccccccccccccccccccccccccCCceEEEEEEee
Confidence              23457999998753         7888998887753211                        012699999999999


Q ss_pred             ccCCCCCcchHHHHHHhhCCCCceEEecCCCCceeEEEEEeCceeEEeCCCCcccccccCCCCCCCCCCCccCC
Q 016269          319 LGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE  392 (392)
Q Consensus       319 LGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~SyHC~  392 (392)
                      ||+|+|||+|+++||++|++|||+|||||||++|+||||+|+|+|||||||+||+|+++.+.++ .+++||||+
T Consensus       227 LGld~in~~Y~~~Lk~~l~~pqsvGIiGGkP~~s~YfvG~q~d~l~YLDPH~~Q~a~~~~~~~~-~~~~sfhc~  299 (355)
T 2p82_A          227 LGINQINPVYVDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTEENGT-VNDQTFHCL  299 (355)
T ss_dssp             CCSSSCCGGGHHHHHHHHHSTTEEEEEEEETTEEEEEEEEETTEEEEECCCSEEECCCBCTTSC-BCCGGGBCC
T ss_pred             cCCCcCCHHHHHHHHHHhCccccceEecCCCCceEEEEEEcCCEEEEeCCCCCcccccccccCc-CCCCceeeC
Confidence            9999999999999999999999999999999999999999999999999999999998876543 357899995

>2cy7_A Cysteine protease APG4B; papain-like fold, autophagy, hydrolase; 1.90A {Homo sapiens} SCOP: d.3.1.22 PDB: 2d1i_A 2zzp_A 2z0d_A 2z0e_A

Probab=100.00  E-value=6e-97  Score=746.02  Aligned_cols=262  Identities=35%  Similarity=0.673  Sum_probs=231.9

Q ss_pred             CCCCCCCCCCcEEEcCeeecCCCcccccccCCCcchHHHHhhccceEEEeecCCCCCCCCCcccccCCccccccchhhHH
Q 016269          102 SRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLV  181 (392)
Q Consensus       102 ~~~~~~~~~~pvwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~Df~SriWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLL  181 (392)
                      +.+++|.+++||||||++|+..++           .++|++||+||||||||+||+||+++++|||+|||||||||||||
T Consensus        18 ~~~~~~~~~~pv~iLG~~y~~~~~-----------~~~fl~d~~SriWfTYR~~F~~I~~s~~TSD~GWGCMlRsgQMlL   86 (396)
T 2cy7_A           18 EFEDFPETSEPVWILGRKYSIFTE-----------KDEILSDVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIF   86 (396)
T ss_dssp             CCCCCCCCSSCEEETTEEECTTTC-----------HHHHHHHHHHSBCCCEEESCCCTTTTSCSBCTTTCHHHHHHHHHH
T ss_pred             ccccCCCCCCcEEEeCcEecCCcC-----------HHHHHHHhhhcEEEEccCCCcccCCCCCCCCCCccceeeccHHHH
Confidence            568999999999999999997654           579999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCCCCCCCchhhHHHHHHhHcCCCCCcccChhHHHHHHHHHHHHHhhhc
Q 016269          182 AQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAET  261 (392)
Q Consensus       182 AqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D~~~aPFSIH~iv~~G~~~gk~pGeWfGPs~va~~i~~L~~~~~~~~  261 (392)
                      ||||++|||||+|||++.+..+++|.+||+||+|+++|||||||||++|.++||+||+||||+++|++|++|++.     
T Consensus        87 AqaL~~~~LGrdwr~~~~~~~~~~~~~Il~~F~D~~~apFSIH~iv~~G~~~gk~~GeWfGPs~va~~lk~L~~~-----  161 (396)
T 2cy7_A           87 AQALVCRHLGRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVF-----  161 (396)
T ss_dssp             HHHHHHHHTCTTCCCCTTSCCCHHHHHHHHTTSSSTTSTTCHHHHHHHHHTTTCCTTCCCCHHHHHHHHHHHHTT-----
T ss_pred             HHHHHHHHhcccccccccccCcHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCCcccccCHHHHHHHHHHHhhc-----
Confidence            999999999999999877667778999999999999999999999999999999999999999999999999752     


Q ss_pred             cCCCCCCCeEEEEeeCCCCCCCCCCceeeccccccccccc--------------------cC------CCCCCccEEEEE
Q 016269          262 GLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVF--------------------SK------GQADWTPILLLV  315 (392)
Q Consensus       262 ~~~~~~~~l~vyv~s~~~dge~g~~~~v~~dd~~~~~~~~--------------------~~------~~~~w~plLlLV  315 (392)
                         +.+..++|||++++         +|+++|+.++|...                    ..      ....|+||||||
T Consensus       162 ---~~~~~l~v~va~D~---------~v~~~di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~plLlli  229 (396)
T 2cy7_A          162 ---DTWSSLAVHIAMDN---------TVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRPLVLLI  229 (396)
T ss_dssp             ---CTTTCCEEEECCTT---------EEEHHHHHHHHBSSCCC---------------------------CCBCCEEEEE
T ss_pred             ---ccccCceEEEecCC---------ceeHHHHHHHhhcccccccccccccccccccccccccccccccccCCcceEEEE
Confidence               23446899998753         67778877665421                    00      124699999999


Q ss_pred             eeeccCCCCCcchHHHHHHhhCCCCceEEecCCCCceeEEEEEeCceeEEeCCCCcccccccCCCCCCCCCCCccCC
Q 016269          316 PLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE  392 (392)
Q Consensus       316 PlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~SyHC~  392 (392)
                      |+|||+|+|||+|+++||++|++|||+|||||||++|+||||+|+|+|||||||+||+|++....+. .+++||||+
T Consensus       230 plRLGld~iNp~Y~~~Lk~~l~~pqsvGIiGGkP~~s~YfvG~q~d~liYLDPH~~Q~a~~~~~~~~-~~~~s~hc~  305 (396)
T 2cy7_A          230 PLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTTQPAVEPTDGCF-IPDESFHCQ  305 (396)
T ss_dssp             EEECCSSSCCGGGHHHHHHHTSSTTEEEEEECSTTCCEEEEEEETTEEEEECCCSEEECCC---CCC-CCCGGGBCC
T ss_pred             EEeecCCcCCHHHHHHHHHHhCCcccceEecCccCceEEEEEEeCCEEEeeCCCccccccccccccc-CCCcceeec
Confidence            9999999999999999999999999999999999999999999999999999999999998765433 246899995

>3oqc_A UFSP2, UFM1-specific protease 2; DPH motif Cys protease, hydrolase; 2.60A {Mus musculus}

Probab=98.06  E-value=2.5e-05  Score=80.08  Aligned_cols=46  Identities=26%  Similarity=0.225  Sum_probs=33.5

Q ss_pred             hHHHHHHhhCCCCceEEecCCCCceeEEEEEeCc------eeEEeCCCCcccc
Q 016269          328 YIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEE------SAIYLDPHDVQPV  374 (392)
Q Consensus       328 Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d------~LiYLDPH~~Q~a  374 (392)
                      ....|..-|+-.-.-=++|| ..+|+=++|+.-+      +|+.|||||+-+.
T Consensus       394 l~~~L~~hF~~~GtPImiGG-~~~S~TIlGVe~~~~tG~~~lLIlDPHytg~~  445 (481)
T 3oqc_A          394 QGRELANHFQNVGTPVMVGG-GVLAHTILGVAWNETTGQIKFLILDPHYTGAE  445 (481)
T ss_dssp             GHHHHHHHHTTTCCCEEEEE-TTEEEEEEEEEECTTTCCEEEEEECTTCCSCS
T ss_pred             HHHHHHHHHhccCCCEEecC-CCCCceEEEEEEecCCCeEEEEEECCCCCChH
Confidence            34667777765444556666 6799999999731      6899999998754

>2z84_A UFSP1, UFM1-specific protease 1; alpha/beta, papain like fold, hydrolase, thiol protease, UBL conjugation pathway; 1.70A {Mus musculus}

Probab=97.96  E-value=4.1e-05  Score=71.95  Aligned_cols=27  Identities=30%  Similarity=0.443  Sum_probs=22.9

Q ss_pred             cCCCCceeEEEEEeC-----ceeEEeCCCCcc
Q 016269          346 GGKPGASTYIVGVQE-----ESAIYLDPHDVQ  372 (392)
Q Consensus       346 GGrP~~SlYFvG~q~-----d~LiYLDPH~~Q  372 (392)
                      ||...||.=+||+..     -+|+.||||++-
T Consensus       144 G~~~ghS~tIvGve~~~~g~~~lLIlDPhy~~  175 (218)
T 2z84_A          144 GDADAQSKALLGICEGPGSEVYVLILDPHYWG  175 (218)
T ss_dssp             CTTTSCCEEEEEEEECTTCCEEEEEECCCCCS
T ss_pred             CCcccccceEEeEEecCCCcEEEEEECCCcCC
Confidence            578899999999962     279999999987

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	392
d2z0da1	350	d.3.1.22 (A:5-354) Cysteine protease ATG4B {Human	1e-100
d2p82a1	334	d.3.1.22 (A:26-359) Cysteine protease ATG4A {Human	4e-96

>d2z0da1 d.3.1.22 (A:5-354) Cysteine protease ATG4B {Human (Homo sapiens) [TaxId: 9606]} Length = 350

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Autophagin-like
domain: Cysteine protease ATG4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  299 bits (766), Expect = e-100
 Identities = 96/298 (32%), Positives = 142/298 (47%), Gaps = 26/298 (8%)

Query: 106 ISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKIT 165
              ++  +W+LG  + I  ++            E   D +SR+  +YRK F  IG +  T
Sbjct: 15  FPETSEPVWILGRKYSIFTEKD-----------EILSDVASRLWFTYRKNFPAIGGTGPT 63

Query: 166 SDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHN 225
           SD GWGCMLR  QM+ AQAL+   LGR WR   +K     Y  +L+ F D + S +SIH 
Sbjct: 64  SDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQ 123

Query: 226 LLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGG 285
           + Q G   G + G W GP  + +  + LA      +     ++   + +   +E      
Sbjct: 124 IAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSSLAVHIAMDNTVVM---EEIRRLCR 180

Query: 286 APVVCID------DASRHCSVF------SKGQADWTPILLLVPLVLGLEKVNPRYIPTLR 333
             V C        D+ RHC+ F      +   + W P++LL+PL LGL  +N  Y+ TL+
Sbjct: 181 TSVPCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRPLVLLIPLRLGLTDINEAYVETLK 240

Query: 334 LTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHS 391
             F  PQSLG++GGKP ++ Y +G   E  IYLDP   QP +         D S +  
Sbjct: 241 HCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPATTQPAVEPTDGCFIPDESFHCQ 298

>d2p82a1 d.3.1.22 (A:26-359) Cysteine protease ATG4A {Human (Homo sapiens) [TaxId: 9606]} Length = 334

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Autophagin-like
domain: Cysteine protease ATG4A
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  288 bits (738), Expect = 4e-96
 Identities = 90/294 (30%), Positives = 138/294 (46%), Gaps = 29/294 (9%)

Query: 111 SDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGW 170
             +W+LG  H +  +++           +   D S+R+  +YR+ F PIG +  +SD GW
Sbjct: 2   ELVWILGKQHLLKTEKS-----------KLLSDISARLWFTYRRKFSPIGGTGPSSDAGW 50

Query: 171 GCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAG 230
           GCMLR  QM++AQAL+   LGR W    QK   +EY  IL  F D +   +SIH + Q G
Sbjct: 51  GCMLRCGQMMLAQALICRHLGRDWSWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMG 110

Query: 231 KAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGC------------QSLPMAIYVVSGD 278
              G + G W GP  + +  + LA        L                    +  +S D
Sbjct: 111 VGEGKSIGEWFGPNTVAQVLKKLALFDEWN-SLAVYVSMDNTVVIEDIKKMCRVLPLSAD 169

Query: 279 EDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTF 338
             G+R    +   +         S   + W P+LL+VPL LG+ ++NP Y+   +  F  
Sbjct: 170 TAGDRPPDSLTASNQ----SKGTSAYCSAWKPLLLIVPLRLGINQINPVYVDAFKECFKM 225

Query: 339 PQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE 392
           PQSLG +GGKP  + Y +G   +  I+LDPH  Q  ++  ++    +  T+H  
Sbjct: 226 PQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTEENG-TVNDQTFHCL 278

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	392
d2z0da1	350	Cysteine protease ATG4B {Human (Homo sapiens) [Tax	100.0
d2p82a1	334	Cysteine protease ATG4A {Human (Homo sapiens) [Tax	100.0

>d2z0da1 d.3.1.22 (A:5-354) Cysteine protease ATG4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Autophagin-like
domain: Cysteine protease ATG4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.9e-97  Score=732.69  Aligned_cols=263  Identities=35%  Similarity=0.668  Sum_probs=233.0

Q ss_pred             CCCCCCCCCCCcEEEcCeeecCCCcccccccCCCcchHHHHhhccceEEEeecCCCCCCCCCcccccCCccccccchhhH
Q 016269          101 PSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQML  180 (392)
Q Consensus       101 ~~~~~~~~~~~pvwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~Df~SriWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQML  180 (392)
                      .+.+|++.+++||||||++|...++           .++|++||+||||||||+|||||+++++|||+||||||||||||
T Consensus        10 ~~~~~~~~~~~pv~iLG~~y~~~~~-----------~~~fl~d~~s~iwfTYR~~F~~i~~s~~TSD~GWGCMlRsgQMl   78 (350)
T d2z0da1          10 AEFEDFPETSEPVWILGRKYSIFTE-----------KDEILSDVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMI   78 (350)
T ss_dssp             GGGCCCCSSCCCEEETTEEECTTTC-----------HHHHHHHHHHSCCCCEEESCCCGGGTSCSBCTTTCHHHHHHHHH
T ss_pred             cchhhCCCCCCCEEEeceeecCCcC-----------HHHHHHHhhheEEEEccCCCcCCCCCCCcCCCchhHHHHHHHHH
Confidence            3567888999999999999997654           57999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCCCCCCCchhhHHHHHHhHcCCCCCcccChhHHHHHHHHHHHHHhhh
Q 016269          181 VAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAE  260 (392)
Q Consensus       181 LAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D~~~aPFSIH~iv~~G~~~gk~pGeWfGPs~va~~i~~L~~~~~~~  260 (392)
                      |||||++|+|||+|||......+++|.+||+||.|.|+|||||||||++|.++||+||+||||+++|++|++|++..   
T Consensus        79 LA~aL~~~~lgr~wr~~~~~~~~~~~~~Il~~F~D~~~apfSIH~iv~~g~~~gk~~GeWfGPs~~a~~ik~L~~~~---  155 (350)
T d2z0da1          79 FAQALVCRHLGRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD---  155 (350)
T ss_dssp             HHHHHHHHHTCTTCCCCTTSCCCHHHHHHHHTTSSSTTSTTCHHHHHHHHHHTTCCTTCCBCHHHHHHHHHHHHTTC---
T ss_pred             HHHHHHHHhcCCcccccccccCcHHHHHHHHhhcCCCCCCcCHHHHHHHHHHhCCCCccccCHHHHHHHHHHHHhhc---
Confidence            99999999999999999887778889999999999999999999999999999999999999999999999998742   


Q ss_pred             ccCCCCCCCeEEEEeeCCCCCCCCCCceeeccccccccccc--------------------------cCCCCCCccEEEE
Q 016269          261 TGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVF--------------------------SKGQADWTPILLL  314 (392)
Q Consensus       261 ~~~~~~~~~l~vyv~s~~~dge~g~~~~v~~dd~~~~~~~~--------------------------~~~~~~w~plLlL  314 (392)
                           +...++|||++++         ++++||+.++|...                          .....+|+|||||
T Consensus       156 -----~~~~l~v~va~d~---------~v~~~di~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lll  221 (350)
T d2z0da1         156 -----TWSSLAVHIAMDN---------TVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRPLVLL  221 (350)
T ss_dssp             -----TTTCCEEEECCTT---------EEEHHHHHHHHTCC-------------------------------CCCCEEEE
T ss_pred             -----cccCceEEEecCC---------cEehHHHHHHhcccccccccccccccccccccccccchhhcccccCCcceEEE
Confidence                 3346899998753         78888887766421                          0123579999999


Q ss_pred             EeeeccCCCCCcchHHHHHHhhCCCCceEEecCCCCceeEEEEEeCceeEEeCCCCcccccccCCCCCCCCCCCccCC
Q 016269          315 VPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE  392 (392)
Q Consensus       315 VPlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~SyHC~  392 (392)
                      ||+|||+|+|||+|+++||++|++|||||||||||++|+||||+|+|+|||||||+||+|++...+... +++||||+
T Consensus       222 iplRLG~d~iN~~Y~~~Lk~~~~~pqsvGIiGGrP~~a~YfvG~q~d~l~YLDPH~~Q~a~~~~~~~~~-~~~S~hc~  298 (350)
T d2z0da1         222 IPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPATTQPAVEPTDGCFI-PDESFHCQ  298 (350)
T ss_dssp             EEEECSSSSCCHHHHHHHHHTTSSTTEEEEEEEETTEEEEEEEEETTEEEEECCCSEEECCCC-----C-CCGGGSCC
T ss_pred             EeeecCCCcCCHHHHHHHHHHhcchhhceEecCCCCCceEEEEEcCCceEeeccccccccccccccccC-CccceecC
Confidence            999999999999999999999999999999999999999999999999999999999999987654432 46799995

>d2p82a1 d.3.1.22 (A:26-359) Cysteine protease ATG4A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Autophagin-like
domain: Cysteine protease ATG4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.2e-95  Score=719.11  Aligned_cols=254  Identities=37%  Similarity=0.720  Sum_probs=228.4

Q ss_pred             CCcEEEcCeeecCCCcccccccCCCcchHHHHhhccceEEEeecCCCCCCCCCcccccCCccccccchhhHHHHHHHHhh
Q 016269          110 TSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHR  189 (392)
Q Consensus       110 ~~pvwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~Df~SriWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~h~  189 (392)
                      +++|||||++|+..++           .++|++||.||||||||+||+||+++++|||+|||||||||||||||||++||
T Consensus         1 d~~v~iLG~~y~~~~~-----------~~~~l~d~~s~iwfTYR~~F~~i~~s~~tSD~GWGCMlRsgQMlLA~aL~~~~   69 (334)
T d2p82a1           1 DELVWILGKQHLLKTE-----------KSKLLSDISARLWFTYRRKFSPIGGTGPSSDAGWGCMLRCGQMMLAQALICRH   69 (334)
T ss_dssp             CCEEEETTEEEETTTT-----------HHHHHHHHHTSBCCCEEESSCCTTTTSCSCCTTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEeeeeecCccc-----------HHHHHHHhhhhEEEEccCCCcCCCCCCCcCCcChhHHHHHHHHHHHHHHHHHh
Confidence            5899999999998765           47899999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCcHHHHHHhhhcCCCCCCCchhhHHHHHHhHcCCCCCcccChhHHHHHHHHHHHHHhhhccCCCCCCC
Q 016269          190 LGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLP  269 (392)
Q Consensus       190 LGRdwr~~~~~~~~~~~~~IL~lF~D~~~aPFSIH~iv~~G~~~gk~pGeWfGPs~va~~i~~L~~~~~~~~~~~~~~~~  269 (392)
                      |||+|||......+++|.+||+||.|+++|||||||||++|.++||+||+||||+++|++|++|++.        .+...
T Consensus        70 lgr~wr~~~~~~~~~~~~~Il~~F~D~~~apfSIH~iv~~g~~~gk~~G~WfgPs~~a~~i~~L~~~--------~~~~~  141 (334)
T d2p82a1          70 LGRDWSWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVLKKLALF--------DEWNS  141 (334)
T ss_dssp             TCTTCCTTSCSSCCHHHHHHHHTTSSSTTSTTSHHHHHHHHHTTTCCTTCCCCHHHHHHHHHHHHTT--------CTTTC
T ss_pred             cCCccccccccCccHHHHHHHHHhcCCCCCCccHHHHHHHHHHcCCCcccccCHHHHHHHHHHHHhh--------ccccC
Confidence            9999999987777889999999999999999999999999999999999999999999999999973        23346


Q ss_pred             eEEEEeeCCCCCCCCCCceeeccccccccccc------------------------cCCCCCCccEEEEEeeeccCCCCC
Q 016269          270 MAIYVVSGDEDGERGGAPVVCIDDASRHCSVF------------------------SKGQADWTPILLLVPLVLGLEKVN  325 (392)
Q Consensus       270 l~vyv~s~~~dge~g~~~~v~~dd~~~~~~~~------------------------~~~~~~w~plLlLVPlRLGld~iN  325 (392)
                      ++|||++++         +++++|+.++|...                        ......|+|+|||||+|||+|+||
T Consensus       142 l~v~v~~d~---------~v~~~di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~llliplrLGld~iN  212 (334)
T d2p82a1         142 LAVYVSMDN---------TVVIEDIKKMCRVLPLSADTAGDRPPDSLTASNQSKGTSAYCSAWKPLLLIVPLRLGINQIN  212 (334)
T ss_dssp             CEEEECBTT---------EEEHHHHHHHHEECCSCC----------------------CCCEECCEEEEEEEECCSSSCC
T ss_pred             ceEEEecCC---------CEehhhHHHHhhcccccccccccccccchhhhhcccccccccccCCceEEEEeeecCCCCCC
Confidence            899998753         78888887666321                        112346899999999999999999


Q ss_pred             cchHHHHHHhhCCCCceEEecCCCCceeEEEEEeCceeEEeCCCCcccccccCCCCCCCCCCCccCC
Q 016269          326 PRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSE  392 (392)
Q Consensus       326 p~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~SyHC~  392 (392)
                      |+|+++||++|++|||||||||||++|+||||+|+|+|||||||+||+|++.... ...+++||||+
T Consensus       213 ~~Y~~~L~~~l~lpqsvGiiGGkp~~a~YfiG~q~d~l~YLDPH~~Q~a~~~~~~-~~~~~~s~h~~  278 (334)
T d2p82a1         213 PVYVDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTEEN-GTVNDQTFHCL  278 (334)
T ss_dssp             GGGHHHHHHHHHSTTEEEEEEEETTEEEEEEEEETTEEEEECCCSEEECCCBCTT-SCBCCGGGBCC
T ss_pred             HHHHHHHHHHhCCcccceEecCCCCCceEEEEEcCCeEEeecCcccccccccccc-CCcCccceecC
Confidence            9999999999999999999999999999999999999999999999999987643 33457899993