Citrus Sinensis ID: 016970

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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-------38
Protein Sequence
MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTFE
Secondary Structure (PSIPRED)
ccccEEEccccccccccccccccccccccccccccHHHHHHHHccccHHHHHHccccccccccccccccEEEcccEEccccccccccccccccHHHHHHHcHHcEEEEEcccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccHHHHHHHHHccccccccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccccccccEEEEEEcccccccccccEEEEcccccccccccccccccccEEEEEEcccccccccccHHHHHHHHHccccccEEEccccccEEEEEEEEcccEEEEccccccccccccccccccccccccccccccccccccccccEEEEEEccHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccEcccccccccccccccccccccccccccccHHHHHHHHHHccHHHHHHHHHccccccccccccccEEEEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHccccccccHHHHHHHHcccccccccccccHHHHHHHHHHHHHHcccccccccccccEEEEEEccccEEccccccEEccccHHHHccccccccccccEEEEEEEEEcccccccHHHHHHHHHHHccccEEEEEccccccEEEEEEEEccEEEEEccccccccEcccccccccccccccccccccccHHcccccEEEEEEEccHHHHHHcc
Coil and Loop (DISEMBL)
mkgfrekagaskcfskstpdtpnrslasvgselgssETVKRLVTAGSMRrihervlgpsrtgissstsdIWLLGVCHKIaqdealgdaagnnglaefnqdFSSRILISYrkgfdpigdskitsdvgwgcmlRSSQMLVAQALLFHrlgrpwrkplqkpfdREYVEILHlfgdsetspfsIHNLLQAGKAyglaagswvgpyaMCRSWEALARCQraetglgcqslpMAIYVVsgdedgerggapvvciddasrhcsvfskgqadwtpiLLLVPLVlglekvnpryiptlrltftfpqslgivggkpgastYIVGVQeesaiyldphdvqpvinigkddleadtstyhsDVIRHIhldsidpslaigfycrdkgllvtfe
Flexible Loop (DISEMBL)
mkgfrekagaskcfskstpdtpnrslasvgselgssetVKRLvtagsmrrihervlgpsrtgisssTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAEtglgcqslPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLdsidpslaiGFYCRDKGLLVTFE
Low Complexity Region (SEG)
MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQdealgdaagnnglaeFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPIlllvplvlglEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTFE
Disordered region (IsUnstruct)
******************************************************************TSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVT**
Disordered Region (DISOPRED)
*******************************************TAGSMRRIHERVLGPSR****SSTSDIWLLGVCHKIAQ***********GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF*REYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDAS***********DWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTFE
Disordered Region (DISEMBL)
*************************LASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTFE
Disordered Region (DISPRO)
********************************LGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQ********GNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLL*TFE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTFE
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	379	2.2.26 [Sep-21-2011]
A2Q1V6	487	Cysteine protease ATG4 OS	N/A	no	0.894	0.696	0.707	1e-135
Q8S929	467	Cysteine protease ATG4a O	yes	no	0.891	0.723	0.632	1e-130
Q9M1Y0	477	Cysteine protease ATG4b O	no	no	0.870	0.691	0.645	1e-122
Q7XPW8	478	Cysteine protease ATG4B O	yes	no	0.928	0.736	0.612	1e-120
Q2XPP4	478	Cysteine protease ATG4B O	N/A	no	0.928	0.736	0.606	1e-118
A2XHJ5	473	Cysteine protease ATG4A O	N/A	no	0.928	0.744	0.606	1e-117
Q75KP8	474	Cysteine protease ATG4A O	no	no	0.928	0.742	0.606	1e-115
Q8C9S8	396	Cysteine protease ATG4A O	yes	no	0.725	0.694	0.317	8e-46
Q8BGE6	393	Cysteine protease ATG4B O	no	no	0.749	0.722	0.336	5e-45
Q5R699	398	Cysteine protease ATG4A O	yes	no	0.725	0.690	0.311	2e-44

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

 Score =  481 bits (1237), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 240/339 (70%), Positives = 274/339 (80%)

Query: 34  GSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNG 93
           G +  V+++V+ GSMRR  ERVLG  RT +SSS  DIWLLGVCHKI+Q E+ GD    N 
Sbjct: 79  GWAAAVRKVVSGGSMRRFQERVLGSCRTDVSSSDGDIWLLGVCHKISQHESTGDVDIRNV 138

Query: 94  LAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRK 153
            A F QDF SRILI+YRKGFD I DSK TSDV WGCMLRSSQMLVAQALLFH+LGR WRK
Sbjct: 139 FAAFEQDFFSRILITYRKGFDAIEDSKYTSDVNWGCMLRSSQMLVAQALLFHKLGRSWRK 198

Query: 154 PLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARC 213
            + KP D+EY++IL LFGDSE + FSIHNLLQAGK YGLA GSWVGPYAMCR+WE LAR 
Sbjct: 199 TVDKPVDKEYIDILQLFGDSEAAAFSIHNLLQAGKGYGLAVGSWVGPYAMCRTWEVLARN 258

Query: 214 QRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVP 273
           QR +   G Q LPMAIYVVSGDEDGERGGAPVVCI+DA + C  FS+G   WTP+LLLVP
Sbjct: 259 QREKNEQGEQLLPMAIYVVSGDEDGERGGAPVVCIEDACKRCLEFSRGLVPWTPLLLLVP 318

Query: 274 LVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVIN 333
           LVLGL+KVN RYIP L+ TF FPQSLGI+GGKPGASTYI+GVQ + A YLDPH+V+PV+N
Sbjct: 319 LVLGLDKVNLRYIPLLQSTFKFPQSLGILGGKPGASTYIIGVQNDKAFYLDPHEVKPVVN 378

Query: 334 IGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           I  D  E +TS+YH ++ RH+ LDSIDPSLAIGFYCRDK
Sbjct: 379 ITGDTQEPNTSSYHCNISRHMPLDSIDPSLAIGFYCRDK 417

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 =  463 bits (1192), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 215/340 (63%), Positives = 275/340 (80%), Gaps = 2/340 (0%)

Query: 34  GSSETVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNN 92
           G +  VKR+ + +G++RR  ERVLGP+RTG+ S+TSD+WLLGVC+KI+ DE  G+     
Sbjct: 74  GWTAFVKRVSMASGAIRRFQERVLGPNRTGLPSTTSDVWLLGVCYKISADENSGETDTGT 133

Query: 93  GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWR 152
            LA    DFSS+IL++YRKGF+P  D+  TSDV WGCM+RSSQML AQALLFHRLGR W 
Sbjct: 134 VLAALQLDFSSKILMTYRKGFEPFRDTTYTSDVNWGCMIRSSQMLFAQALLFHRLGRAWT 193

Query: 153 KPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALAR 212
           K  + P ++EY+E L  FGDSE S FSIHNL+ AG +YGLAAGSWVGPYA+CR+WE+LA 
Sbjct: 194 KKSELP-EQEYLETLEPFGDSEPSAFSIHNLIIAGASYGLAAGSWVGPYAICRAWESLAC 252

Query: 213 CQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLV 272
            +R +T    Q+LPMA+++VSG EDGERGGAP++CI+DA++ C  FSKGQ++WTPI+LLV
Sbjct: 253 KKRKQTDSKNQTLPMAVHIVSGSEDGERGGAPILCIEDATKSCLEFSKGQSEWTPIILLV 312

Query: 273 PLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVI 332
           PLVLGL+ VNPRYIP+L  TFTFPQS+GI+GGKPGASTYIVGVQE+   YLDPH+VQ V+
Sbjct: 313 PLVLGLDSVNPRYIPSLVATFTFPQSVGILGGKPGASTYIVGVQEDKGFYLDPHEVQQVV 372

Query: 333 NIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
            + K+  + DTS+YH +V+R++ L+S+DPSLA+GFYCRDK
Sbjct: 373 TVNKETPDVDTSSYHCNVLRYVPLESLDPSLALGFYCRDK 412

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

 Score =  438 bits (1127), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 213/330 (64%), Positives = 270/330 (81%)

Query: 43  VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFS 102
           + +G++RR  +RVLGPSRTGISSSTS+IWLLGVC+KI++ E+  +A     LA F QDFS
Sbjct: 87  MASGAIRRFQDRVLGPSRTGISSSTSEIWLLGVCYKISEGESSEEADAGRVLAAFRQDFS 146

Query: 103 SRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDRE 162
           S IL++YR+GF+PIGD+  TSDV WGCMLRS QML AQALLF RLGR WRK   +P D +
Sbjct: 147 SLILMTYRRGFEPIGDTTYTSDVNWGCMLRSGQMLFAQALLFQRLGRSWRKKDSEPADEK 206

Query: 163 YVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGC 222
           Y+EIL LFGD+E S FSIHNL+ AG++YGLAAGSWVGPYA+CRSWE+LAR  + ET    
Sbjct: 207 YLEILELFGDTEASAFSIHNLILAGESYGLAAGSWVGPYAVCRSWESLARKNKEETDDKH 266

Query: 223 QSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVN 282
           +S  MA+++VSG EDGERGGAP++CI+D ++ C  FS+G+ +W PILLLVPLVLGL++VN
Sbjct: 267 KSFSMAVHIVSGSEDGERGGAPILCIEDVTKTCLEFSEGETEWPPILLLVPLVLGLDRVN 326

Query: 283 PRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEAD 342
           PRYIP+L  TFTFPQSLGI+GGKPGASTYIVGVQE+   YLDPHDVQ V+ + K++ + D
Sbjct: 327 PRYIPSLIATFTFPQSLGILGGKPGASTYIVGVQEDKGFYLDPHDVQQVVTVKKENQDVD 386

Query: 343 TSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           TS+YH + +R++ L+S+DPSLA+GFYC+ K
Sbjct: 387 TSSYHCNTLRYVPLESLDPSLALGFYCQHK 416

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 =  430 bits (1106), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 221/361 (61%), Positives = 274/361 (75%), Gaps = 9/361 (2%)

Query: 14  FSKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLL 73
           F      + N+S  S       S  ++R+V +GSM R     LG S+   SS   D+W L
Sbjct: 56  FEAHQDSSANKSPKSSSGSYDWSRVLRRIVCSGSMWRF----LGTSKVLTSS---DVWFL 108

Query: 74  GVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRS 133
           G C+K++ +E+  D+   +G A F +DFSSRI I+YR+GFD I DSK TSDV WGCM+RS
Sbjct: 109 GKCYKLSSEESSSDSDSESGHATFLEDFSSRIWITYRRGFDAISDSKYTSDVNWGCMVRS 168

Query: 134 SQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLA 193
           SQMLVAQAL+FH LGR WR+PL+KP++ EY+ ILH+FGDSE   FSIHNLLQAG +YGLA
Sbjct: 169 SQMLVAQALIFHHLGRSWRRPLEKPYNPEYIGILHMFGDSEACAFSIHNLLQAGNSYGLA 228

Query: 194 AGSWVGPYAMCRSWEALARCQRAETGL--GCQSLPMAIYVVSGDEDGERGGAPVVCIDDA 251
           AGSWVGPYAMCR+W+ L R  R +  +  G +S PMA+YVVSGDEDGERGGAPVVCID A
Sbjct: 229 AGSWVGPYAMCRAWQTLVRTNREQHEVVDGNESFPMALYVVSGDEDGERGGAPVVCIDVA 288

Query: 252 SRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTY 311
           ++ C  F+KGQ+ W+PILLLVPLVLGL+K+NPRYIP L+ TFTFPQSLGI+GGKPG STY
Sbjct: 289 AQLCCDFNKGQSTWSPILLLVPLVLGLDKINPRYIPLLKETFTFPQSLGILGGKPGTSTY 348

Query: 312 IVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRD 371
           I GVQ++ A+YLDPH+VQ  ++I  D++EADTS+YH   +R + LD IDPSLAIGFYCRD
Sbjct: 349 IAGVQDDRALYLDPHEVQMAVDIAADNIEADTSSYHCSTVRDLALDLIDPSLAIGFYCRD 408

Query: 372 K 372
           K
Sbjct: 409 K 409

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 =  425 bits (1093), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 219/361 (60%), Positives = 272/361 (75%), Gaps = 9/361 (2%)

Query: 14  FSKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLL 73
           F      + N+S  S          ++R+V +GSM R     LG S+   SS   D+W L
Sbjct: 56  FEAHQDSSANKSPKSSSGSYDWLRVLRRIVCSGSMWRF----LGTSKVLTSS---DVWFL 108

Query: 74  GVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRS 133
           G C+K++ +E+  D+   +G A F +DFSSRI I+YR+GFD I DSK TSDV WGCM+RS
Sbjct: 109 GKCYKLSSEESSSDSDSESGHATFLEDFSSRIWITYRRGFDAISDSKYTSDVNWGCMVRS 168

Query: 134 SQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLA 193
           SQMLVAQAL+FH LGR WR+P +KP++ EY+ ILH+FGDSE   FSIHNLLQAG +YGLA
Sbjct: 169 SQMLVAQALIFHHLGRSWRRPSEKPYNPEYIGILHMFGDSEACAFSIHNLLQAGNSYGLA 228

Query: 194 AGSWVGPYAMCRSWEALARCQRAETGL--GCQSLPMAIYVVSGDEDGERGGAPVVCIDDA 251
           AGSWVGPYAMCR+W+ L R  R +  +  G +S PMA+YVVSGDEDGERGGAPVVCID A
Sbjct: 229 AGSWVGPYAMCRAWQTLVRTNREQHEVVDGNESFPMALYVVSGDEDGERGGAPVVCIDVA 288

Query: 252 SRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTY 311
           ++ C  F+KGQ+ W+PILLLVPLVLGL+K+NPRYIP L+ TFTFPQSLGI+GGKPG STY
Sbjct: 289 AQLCCDFNKGQSTWSPILLLVPLVLGLDKINPRYIPLLKETFTFPQSLGILGGKPGTSTY 348

Query: 312 IVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRD 371
           I GVQ++ A+YLDPH+VQ  ++I  D++EADTS+YH   +R + LD IDPSLAIGFYCRD
Sbjct: 349 IAGVQDDRALYLDPHEVQMAVDIAADNIEADTSSYHCSTVRDLALDLIDPSLAIGFYCRD 408

Query: 372 K 372
           K
Sbjct: 409 K 409

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 =  421 bits (1081), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 219/361 (60%), Positives = 267/361 (73%), Gaps = 9/361 (2%)

Query: 14  FSKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLL 73
           F      + +R L         S  ++R+   GSM R     LG S+   + ++SD+W L
Sbjct: 52  FEAHQDSSAHRPLKPHSGSYAWSRFLRRIACTGSMWRF----LGASK---ALTSSDVWFL 104

Query: 74  GVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRS 133
           G C+K++ +E    +   +G A F +DFSSRI I+YRKGFD I DSK TSDV WGCM+RS
Sbjct: 105 GKCYKLSSEELSNSSDCESGNAAFLEDFSSRIWITYRKGFDAISDSKYTSDVNWGCMVRS 164

Query: 134 SQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLA 193
           SQMLVAQAL+FH LGR WRKP QKP+  EY+ ILH+FGDSE   FSIHNLLQAGK+YGLA
Sbjct: 165 SQMLVAQALIFHHLGRSWRKPSQKPYSPEYIGILHMFGDSEACAFSIHNLLQAGKSYGLA 224

Query: 194 AGSWVGPYAMCRSWEALARCQRA--ETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDA 251
           AGSWVGPYAMCR+W+ L R  R   E   G  + PMA+YVVSGDEDGERGGAPVVCID A
Sbjct: 225 AGSWVGPYAMCRAWQTLVRTNREHHEAVDGNGNFPMALYVVSGDEDGERGGAPVVCIDVA 284

Query: 252 SRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTY 311
           ++ C  F+KGQ+ W+PILLLVPLVLGL+K+NPRYIP L+ TFTFPQSLGI+GGKPG STY
Sbjct: 285 AQLCCDFNKGQSTWSPILLLVPLVLGLDKLNPRYIPLLKETFTFPQSLGILGGKPGTSTY 344

Query: 312 IVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRD 371
           + GVQ++  +YLDPH+VQ  ++I  D+LEADTS+YH   +R + LD IDPSLAIGFYCRD
Sbjct: 345 VAGVQDDRVLYLDPHEVQLAVDIAADNLEADTSSYHCSTVRDLALDLIDPSLAIGFYCRD 404

Query: 372 K 372
           K
Sbjct: 405 K 405

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

 Score =  416 bits (1070), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 219/361 (60%), Positives = 265/361 (73%), Gaps = 9/361 (2%)

Query: 14  FSKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLL 73
           F      + NRSL         S  ++R+   GSM R     LG S+   + ++SD+W L
Sbjct: 53  FEAHQDSSANRSLKPHSGSYAWSRFLRRIACTGSMWRF----LGASK---ALTSSDVWFL 105

Query: 74  GVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRS 133
           G C+K++ +E    +   +G A F +DFSSRI I+YRKGFD I DSK TSDV WGCM+RS
Sbjct: 106 GKCYKLSSEELSNSSDCESGNAAFLEDFSSRIWITYRKGFDAISDSKYTSDVNWGCMVRS 165

Query: 134 SQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLA 193
           SQMLVAQAL+FH LGR WRKP QKP+  EY+ ILH+FGDSE   FSIHNLLQAGK+YGLA
Sbjct: 166 SQMLVAQALIFHHLGRSWRKPSQKPYSPEYIGILHMFGDSEACAFSIHNLLQAGKSYGLA 225

Query: 194 AGSWVGPYAMCRSWEALARCQRA--ETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDA 251
           AGSWVGPYAMCR+W+ L    R   E   G  + PMA+YVVSGDEDGERGGAPVVCID A
Sbjct: 226 AGSWVGPYAMCRAWQTLVCTNREHHEAVDGNGNFPMALYVVSGDEDGERGGAPVVCIDVA 285

Query: 252 SRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTY 311
           ++ C  F+K Q+ W+PILLLVPLVLGL+K+NPRYIP L+ T TFPQSLGI+GGKPG STY
Sbjct: 286 AQLCCDFNKNQSTWSPILLLVPLVLGLDKLNPRYIPLLKETLTFPQSLGILGGKPGTSTY 345

Query: 312 IVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRD 371
           I GVQ++ A+YLDPH+VQ  ++I  D+LEA TS+YH   +R + LD IDPSLAIGFYCRD
Sbjct: 346 IAGVQDDRALYLDPHEVQLAVDIAADNLEAGTSSYHCSTVRDLALDLIDPSLAIGFYCRD 405

Query: 372 K 372
           K
Sbjct: 406 K 406

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 =  184 bits (468), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 103/324 (31%), Positives = 161/324 (49%), Gaps = 49/324 (15%)

Query: 70  IWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGC 129
           +W+LG  H +  +++           +   D S+R+  +YR+ F PIG +  +SD GWGC
Sbjct: 29  VWILGKQHPLKTEKS-----------KLLSDISARLWFTYRRKFSPIGGTGPSSDAGWGC 77

Query: 130 MLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKA 189
           MLR  QM++AQAL+   LGR W    QK   +EY  IL  F D +   +SIH + Q G  
Sbjct: 78  MLRCGQMMLAQALICRHLGRDWNWERQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMGVG 137

Query: 190 YGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCID 249
            G + G W GP  + +  + LA      +        +A+YV   +          V I+
Sbjct: 138 EGKSIGEWFGPNTVAQVIKKLALFDEWNS--------LAVYVSMDN---------TVVIE 180

Query: 250 DASRHCSVFSKGQAD---------------------WTPILLLVPLVLGLEKVNPRYIPT 288
           D  + C V   G AD                     W P+LL+VPL LG+ ++NP Y+  
Sbjct: 181 DIKKMCCVLPVGAADPAGDFLTASNQSRDTSVPCSAWKPLLLIVPLRLGINQINPVYVEA 240

Query: 289 LRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHS 348
            +  F  PQSLG +GGKP  + Y +G   +  I+LDPH  Q  ++I +  L  D + +  
Sbjct: 241 FKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDIEESGLVDDQTFHCL 300

Query: 349 DVIRHIHLDSIDPSLAIGFYCRDK 372
              + + + ++DPS+A+GF+C+++
Sbjct: 301 QSPQRMSILNLDPSVALGFFCKEE 324

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 =  182 bits (461), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 109/324 (33%), Positives = 162/324 (50%), Gaps = 40/324 (12%)

Query: 66  STSDIWLLGVCHKI--AQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITS 123
           ++  +W+LG  + I   +DE L D A             SR+  +YR+ F  IG +  TS
Sbjct: 22  TSEPVWILGRKYSIFTEKDEILSDVA-------------SRLWFTYRRNFPAIGGTGPTS 68

Query: 124 DVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNL 183
           D GWGCMLR  QM+ AQAL+   LGR WR   +K     Y  +L+ F D + S +SIH +
Sbjct: 69  DTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQPDSYFNVLNAFLDRKDSYYSIHQI 128

Query: 184 LQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYV-----VSGDEDG 238
            Q G   G + G W GP  + +  + LA      +        +A+++     V  +E  
Sbjct: 129 AQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS--------LAVHIAMDNTVVMEEIR 180

Query: 239 ERGGAPVVCI------DDASRHCSVFSKGQ------ADWTPILLLVPLVLGLEKVNPRYI 286
               A + C        D+ RHC+ F  G       + W P++LL+PL LGL  +N  Y+
Sbjct: 181 RLCRANLPCAGAAALPTDSERHCNGFPAGAEVTNRPSAWRPLVLLIPLRLGLTDINEAYV 240

Query: 287 PTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTY 346
            TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH  QP + +       D S +
Sbjct: 241 ETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTTQPAVELTDSCFIPDESFH 300

Query: 347 HSDVIRHIHLDSIDPSLAIGFYCR 370
                  + +  +DPS+A+GF+C+
Sbjct: 301 CQHPPSRMGIGELDPSIAVGFFCK 324

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|Q5R699|ATG4A_PONAB Cysteine protease ATG4A OS=Pongo abelii GN=ATG4A PE=2 SV=1

 Score =  180 bits (456), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 102/327 (31%), Positives = 163/327 (49%), Gaps = 52/327 (15%)

Query: 70  IWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGC 129
           +W+LG  H +  +++           +   D S+R+  +YR+ F PIG +  +SD GWGC
Sbjct: 29  VWILGKQHLLKTEKS-----------KLLSDISARLWFTYRRKFSPIGGTGPSSDAGWGC 77

Query: 130 MLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKA 189
           MLR  QM++AQAL+   LGR W    QK   +EY  IL  F D +   +SIH + Q G  
Sbjct: 78  MLRCGQMMLAQALICRHLGRDWSWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMGVG 137

Query: 190 YGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCID 249
            G + G W GP  + +  + LA      +        +A+YV   +          V I+
Sbjct: 138 EGKSIGEWFGPNTVAQVLKKLALFDEWNS--------LAVYVSMDN---------TVVIE 180

Query: 250 DASRHCSV--------------------FSKGQ----ADWTPILLLVPLVLGLEKVNPRY 285
           D  + C V                     SKG     + W P+LL+VPL LG+ ++NP Y
Sbjct: 181 DIKKMCRVLPLGADTAGDRPPDSLTASNLSKGTSAYCSAWKPLLLIVPLRLGINQINPVY 240

Query: 286 IPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTST 345
           +   +  F  PQSLG +GGKP  + Y +G   +  I+LDPH  Q  ++ G++    D + 
Sbjct: 241 VDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTGENGTVNDQTF 300

Query: 346 YHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           +     + +++ ++DPS+A+GF+C+++
Sbjct: 301 HCLQSPQRMNILNLDPSVALGFFCKEE 327

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.

Pongo abelii (taxid: 9601)

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	379
255576671	489	Cysteine protease ATG4B, putative [Ricin	0.992	0.768	0.685	1e-156
359495820	486	PREDICTED: cysteine protease ATG4-like [	0.944	0.736	0.737	1e-151
224092798	481	predicted protein [Populus trichocarpa]	0.910	0.717	0.756	1e-150
224117658	482	predicted protein [Populus trichocarpa]	0.981	0.771	0.669	1e-150
147862867	489	hypothetical protein VITISV_021940 [Viti	0.944	0.732	0.734	1e-149
449442361	483	PREDICTED: cysteine protease ATG4-like [	0.899	0.706	0.768	1e-146
356568569	485	PREDICTED: cysteine protease ATG4-like [	0.886	0.692	0.738	1e-137
356531828	486	PREDICTED: cysteine protease ATG4-like [	0.886	0.691	0.729	1e-136
357507987	487	Cysteine protease ATG4 [Medicago truncat	0.894	0.696	0.707	1e-133
30689628	467	cysteine protease ATG4a [Arabidopsis tha	0.891	0.723	0.632	1e-128

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

 Score =  556 bits (1434), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 288/420 (68%), Positives = 327/420 (77%), Gaps = 44/420 (10%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGS------------------------- 35
           MKGFRE+  AS+C SK   DTPNRSL S   E GS                         
Sbjct: 1   MKGFRERV-ASRCSSKCPVDTPNRSLTSDCLESGSNFSTKGSLWSSFFASAFSVFETYRE 59

Query: 36  -----------------SETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHK 78
                            +  VK++V+ GSMRRIHERVLGPSRTGISS+TSDIWLLGVC+K
Sbjct: 60  SPPASEKKGSHSRHNGWTSAVKKIVSGGSMRRIHERVLGPSRTGISSTTSDIWLLGVCYK 119

Query: 79  IAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLV 138
           I++DE+ G+A   N LAEF  D+SSRIL++YR+GFD IGDSK  SDVGWGCMLRSSQMLV
Sbjct: 120 ISEDES-GNADTGNALAEFTHDYSSRILMTYRRGFDAIGDSKYISDVGWGCMLRSSQMLV 178

Query: 139 AQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWV 198
           AQALLFH+LGR W KP QKP D+ YVEILHLFGDSE +PFSIHNL+QAGKAY LAAGSWV
Sbjct: 179 AQALLFHKLGRAWTKPFQKPMDQAYVEILHLFGDSEAAPFSIHNLIQAGKAYSLAAGSWV 238

Query: 199 GPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVF 258
           GPYAMCRSWE+LAR +R E  L  QSLPMA+YVVSGDEDGERGGAPVV I+DASRHC  F
Sbjct: 239 GPYAMCRSWESLARSKREENSLEYQSLPMAVYVVSGDEDGERGGAPVVYIEDASRHCLEF 298

Query: 259 SKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEE 318
           S+GQADWTPILLLVPLVLGL+KVNPRYIP+L+ TFTF QSLGI+GGKPGASTYIVGVQ++
Sbjct: 299 SRGQADWTPILLLVPLVLGLDKVNPRYIPSLQATFTFSQSLGIMGGKPGASTYIVGVQDD 358

Query: 319 SAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTF 378
           +A YLDPH+VQ V+NIG+DD+EADTS+YHSD++RHI L SIDPSLAIGFYCRDK     F
Sbjct: 359 NAFYLDPHEVQSVVNIGRDDIEADTSSYHSDIVRHIPLHSIDPSLAIGFYCRDKDDFDEF 418

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 =  539 bits (1388), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 264/358 (73%), Positives = 305/358 (85%)

Query: 15  SKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLG 74
           S+S+P    +     G   G +  V+++VT  SMRRI ERVLG S+TGISSSTSDIWLLG
Sbjct: 54  SESSPSASEKKAIDNGRNNGWTTAVRKVVTGVSMRRIQERVLGTSKTGISSSTSDIWLLG 113

Query: 75  VCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSS 134
           +C+KI+Q+E+   A+ +NGLAEF QDFSSRIL++YRKGF+ IGDSK+TSDV WGCMLRSS
Sbjct: 114 LCYKISQEESSNHASSSNGLAEFEQDFSSRILMTYRKGFEAIGDSKLTSDVNWGCMLRSS 173

Query: 135 QMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAA 194
           QMLVAQALL HR+GR WRK   KP D++Y+EILH FGDS+ S FSIHN+LQAGKAYGLAA
Sbjct: 174 QMLVAQALLLHRMGRSWRKTSHKPMDQDYIEILHHFGDSKASAFSIHNILQAGKAYGLAA 233

Query: 195 GSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRH 254
           GSWVGPYAMCRSWE LAR +R ET L CQSLPMAIY+VSGDEDGERGGAPVV I++ASRH
Sbjct: 234 GSWVGPYAMCRSWETLARSKREETDLECQSLPMAIYIVSGDEDGERGGAPVVYIEEASRH 293

Query: 255 CSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVG 314
           C  FSKGQ DWTPILLLVPLVLGLEKVNPRYIP+L  TFTFPQSLGI+GGKPGASTYIVG
Sbjct: 294 CLEFSKGQVDWTPILLLVPLVLGLEKVNPRYIPSLAATFTFPQSLGILGGKPGASTYIVG 353

Query: 315 VQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           VQ+E A YLDPH+ Q V++I +++LEADTS+YH ++IRHI LDSIDPSLAIGFYCRDK
Sbjct: 354 VQDEKAFYLDPHEAQSVVDIRRENLEADTSSYHCNIIRHICLDSIDPSLAIGFYCRDK 411

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 =  536 bits (1381), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 261/345 (75%), Positives = 302/345 (87%)

Query: 34  GSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNG 93
           G + +VK++V  G+MRRI ERVLG S+TGIS++TSDIWLLG  +KI+QD++ G+A   N 
Sbjct: 78  GWTSSVKKIVAGGTMRRIQERVLGTSKTGISNTTSDIWLLGARYKISQDDSSGNADATNA 137

Query: 94  LAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRK 153
           LA F++DFSSRILI+YRKGFD I DSK+TSDV WGCMLRSSQMLVAQALLFHRLGR WRK
Sbjct: 138 LAAFHRDFSSRILITYRKGFDMIEDSKLTSDVNWGCMLRSSQMLVAQALLFHRLGRSWRK 197

Query: 154 PLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARC 213
           P+ KP DR+YVEILHLFGDSE S FSIHNLLQAGKAYGLAAGSWVGPYAMCRSWE+LAR 
Sbjct: 198 PVDKPLDRDYVEILHLFGDSEASAFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWESLARS 257

Query: 214 QRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVP 273
           +R ET L  Q+LPMA+YVVSG EDGERGGAPV+ I+DA+RHCS FSKG+ DWTPILLLVP
Sbjct: 258 KREETNLEYQTLPMAVYVVSGCEDGERGGAPVLSIEDAARHCSEFSKGREDWTPILLLVP 317

Query: 274 LVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVIN 333
           LVLGL+K+NPRYIP+L+ TFTFPQSLGI+GGKPGASTYIVGVQ+E+A YLDPH+VQPV+N
Sbjct: 318 LVLGLDKINPRYIPSLQATFTFPQSLGILGGKPGASTYIVGVQDENAFYLDPHEVQPVVN 377

Query: 334 IGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTF 378
             +DD+EA+TS+YH DV+RHI LD IDPSLAIGFYCRDK     F
Sbjct: 378 FSRDDVEANTSSYHCDVVRHIPLDLIDPSLAIGFYCRDKDDFDDF 422

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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 =  536 bits (1381), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 279/417 (66%), Positives = 322/417 (77%), Gaps = 45/417 (10%)

Query: 1   MKGFREKAGASKCFSKSTPDTPNRSLASVGSELGSSET---------------------- 38
           MKGFRE+   +   S ST ++PNRS  S  SELGS++T                      
Sbjct: 1   MKGFRERGFVASSKSSSTAESPNRSFTSDSSELGSADTKFSKPSLWSTFFASAFSVFDTH 60

Query: 39  -----------------------VKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGV 75
                                  VK++V  GSMRRI E VLG S+TGIS++T DIWLLG 
Sbjct: 61  CDSSSTSEKKAPHIRHGNGWTSAVKKIVAGGSMRRIQECVLGTSKTGISNTTGDIWLLGA 120

Query: 76  CHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQ 135
           C+KI+QD + GDAA  N LA FN DFSSRILI+YRKGFD I DSK+TSDV WGCMLRSSQ
Sbjct: 121 CYKISQDNSSGDAAATNALAAFNHDFSSRILITYRKGFDAIEDSKLTSDVSWGCMLRSSQ 180

Query: 136 MLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAG 195
           MLVAQALLFHRLGR WRKPL KP DREYVEILHLFGDSE+S FSIHNLL+AGKAYGLAAG
Sbjct: 181 MLVAQALLFHRLGRSWRKPLDKPLDREYVEILHLFGDSESSAFSIHNLLRAGKAYGLAAG 240

Query: 196 SWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHC 255
           SWVGPYA+C SWE+L R +R ET L  QSL MA+YVVSG EDGERGGAPV+CI++A+RHC
Sbjct: 241 SWVGPYAVCHSWESLVRSRREETNLEYQSLSMAVYVVSGSEDGERGGAPVLCIEEAARHC 300

Query: 256 SVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGV 315
           S FSKGQ DWTPILLLVPLVLGL+K+NPRYIP+L+ TFTFPQSLGI+GGKPGASTYIVGV
Sbjct: 301 SEFSKGQEDWTPILLLVPLVLGLDKINPRYIPSLQATFTFPQSLGILGGKPGASTYIVGV 360

Query: 316 QEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           Q+E+A YLDPH+VQPV+N+ +DD+EA+TS+YH +V+RH+ LD IDPSLAIGFYCRDK
Sbjct: 361 QDENAFYLDPHEVQPVVNVSRDDVEANTSSYHCNVVRHMPLDLIDPSLAIGFYCRDK 417

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 =  535 bits (1377), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 265/361 (73%), Positives = 305/361 (84%), Gaps = 3/361 (0%)

Query: 15  SKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLG 74
           S+S+P    +     G   G +  V+++VT  SMRRI ERVLG S+TGISSSTSDIWLLG
Sbjct: 54  SESSPSASEKKAIDNGRNNGWTTAVRKVVTGVSMRRIQERVLGTSKTGISSSTSDIWLLG 113

Query: 75  VCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSS 134
           +C+KI+Q+E+   A+ +NGLAEF QDFSSRIL++YRKGF+ IGDSK+TSDV WGCMLRSS
Sbjct: 114 LCYKISQEESSNHASSSNGLAEFEQDFSSRILMTYRKGFEAIGDSKLTSDVNWGCMLRSS 173

Query: 135 QMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAA 194
           QMLVAQALL HR+GR WRK   KP D++Y+EILH FGDS+ S FSIHN+LQAGKAYGLAA
Sbjct: 174 QMLVAQALLLHRMGRSWRKTSHKPMDQDYIEILHHFGDSKASAFSIHNILQAGKAYGLAA 233

Query: 195 GSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRH 254
           GSWVGPYAMCRSWE LAR +R ET L CQSLPMAIY+VSGDEDGERGGAPVV I++ASRH
Sbjct: 234 GSWVGPYAMCRSWETLARSKREETDLECQSLPMAIYIVSGDEDGERGGAPVVYIEEASRH 293

Query: 255 CSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVG 314
           C  FSKGQ DWTPILLLVPLVLGLEKVNPRYIP+L  TFTFPQSLGI+GGKPGASTYIVG
Sbjct: 294 CLEFSKGQVDWTPILLLVPLVLGLEKVNPRYIPSLAATFTFPQSLGILGGKPGASTYIVG 353

Query: 315 VQEESAIYLDPHDVQPVINIGKDDLEADTSTYH---SDVIRHIHLDSIDPSLAIGFYCRD 371
           VQ+E A YLDPH+ Q V++I +++LEADTS+YH   S +IRHI LDSIDPSLAIGFYCRD
Sbjct: 354 VQDEKAFYLDPHEAQSVVDIRRENLEADTSSYHCNCSSIIRHICLDSIDPSLAIGFYCRD 413

Query: 372 K 372
           K
Sbjct: 414 K 414

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  525 bits (1352), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 262/341 (76%), Positives = 292/341 (85%)

Query: 38  TVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEF 97
           TV++++T+GSMRRI ER+LG  R+G+ SS  DIWLLGVCHKI+QD    DAA + G+A +
Sbjct: 78  TVRKVMTSGSMRRIQERLLGSRRSGVYSSGGDIWLLGVCHKISQDHPPDDAASSPGVAGY 137

Query: 98  NQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQK 157
            QDFSSRIL++YRKGF  I DSK TSDV WGCMLRSSQMLVAQALLFHRLGR WRKP QK
Sbjct: 138 EQDFSSRILMTYRKGFHVIQDSKYTSDVNWGCMLRSSQMLVAQALLFHRLGRSWRKPSQK 197

Query: 158 PFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAE 217
           P D+EYVEILHLFGDSETS FSIHNLLQAG+AY LAAGSWVGPYAMCRSWE L R +R  
Sbjct: 198 PLDKEYVEILHLFGDSETSAFSIHNLLQAGRAYDLAAGSWVGPYAMCRSWETLVRSKRET 257

Query: 218 TGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLG 277
             L  Q LPMAIY+VSGDEDGERGGAPV+ IDDASRHC  FSKGQ DW+PILLLVPLVLG
Sbjct: 258 PILQDQQLPMAIYIVSGDEDGERGGAPVLYIDDASRHCFEFSKGQHDWSPILLLVPLVLG 317

Query: 278 LEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKD 337
           LEK+NPRYIP+LR TFTFPQSLGI+GGKPGASTYIVGVQ+E+A YLDPH+VQ V+NI KD
Sbjct: 318 LEKINPRYIPSLRTTFTFPQSLGILGGKPGASTYIVGVQDENAFYLDPHEVQQVVNIDKD 377

Query: 338 DLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTF 378
           DLEADTS+YH +VIRHI L+SIDPSLAIGFYCRDK     F
Sbjct: 378 DLEADTSSYHCNVIRHIPLESIDPSLAIGFYCRDKDDFDNF 418

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 =  495 bits (1274), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 251/340 (73%), Positives = 280/340 (82%), Gaps = 4/340 (1%)

Query: 34  GSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNG 93
           G +  V+++VT GSMRR  ERVLG SRT ISSS  DIWLLGVCHKI+Q E+ G    +NG
Sbjct: 79  GWAAAVRKVVTGGSMRRFQERVLGSSRTDISSSDGDIWLLGVCHKISQQESTGGVDTSNG 138

Query: 94  LAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRK 153
           LA F QDFSS+IL++YRKGFD IGD+K TSDV WGCMLRSSQMLVAQALLFH+LGR WRK
Sbjct: 139 LASFEQDFSSKILVTYRKGFDAIGDTKYTSDVNWGCMLRSSQMLVAQALLFHKLGRSWRK 198

Query: 154 PLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARC 213
           P+ KP D+EY+++L LFGDSE S FSIHNLLQAGK YGLA GSWVGPYAMCR+WE LA  
Sbjct: 199 PIDKPLDKEYIDVLQLFGDSEASAFSIHNLLQAGKGYGLAVGSWVGPYAMCRTWEVLA-- 256

Query: 214 QRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVP 273
            R +  LG   LPMAIYVVSGDEDGERGGAPVVCI+DAS+ CS FS G A WTP+LLLVP
Sbjct: 257 -RKKNDLGEPPLPMAIYVVSGDEDGERGGAPVVCIEDASKRCSEFSSGLAVWTPLLLLVP 315

Query: 274 LVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVIN 333
           LVLGL+KVNPRYIP LR TF FPQSLGI+GGKPGASTYI+GVQ E A YLDPHDVQ V+N
Sbjct: 316 LVLGLDKVNPRYIPLLRSTFKFPQSLGIMGGKPGASTYIIGVQNEKAFYLDPHDVQQVVN 375

Query: 334 IGKDDLE-ADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           I  D  E   TS+YH +V+RHI LDSIDPSLAIGFYCRDK
Sbjct: 376 ISGDTQEPTGTSSYHCNVMRHIPLDSIDPSLAIGFYCRDK 415

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 =  489 bits (1260), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 248/340 (72%), Positives = 278/340 (81%), Gaps = 4/340 (1%)

Query: 34  GSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNG 93
           G +  V+++VT GSMRR  ERVLG SRT ISSS  DIWLLGVCHKI+Q E+ G    +NG
Sbjct: 79  GWAAAVRKVVTGGSMRRFQERVLGSSRTDISSSDGDIWLLGVCHKISQQESSGGVDNSNG 138

Query: 94  LAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRK 153
           LA F QDFSS+IL++YRKGFD IGD+K TSDV WGCMLRSSQMLVAQALLFH+LGR WRK
Sbjct: 139 LASFEQDFSSKILVTYRKGFDAIGDTKYTSDVHWGCMLRSSQMLVAQALLFHKLGRSWRK 198

Query: 154 PLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARC 213
           P+ KP D+EY+++L LFGDSE S FSIHNLLQAGK YGLA GSWVGPYAMCR+WE LA  
Sbjct: 199 PIDKPPDKEYIDVLQLFGDSEASAFSIHNLLQAGKGYGLAVGSWVGPYAMCRTWEVLA-- 256

Query: 214 QRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVP 273
            R +  LG   LPMAIYVVSGDEDGERGGAPVVCI+DAS+ C  FS G A WTP+LLLVP
Sbjct: 257 -RKKNDLGELPLPMAIYVVSGDEDGERGGAPVVCIEDASKRCFEFSSGLAAWTPLLLLVP 315

Query: 274 LVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVIN 333
           LVLGL+KVNPRYIP LR TF FPQSLGI+GGKPGASTYI+G Q E A YLDPHDVQ V+N
Sbjct: 316 LVLGLDKVNPRYIPLLRSTFKFPQSLGIMGGKPGASTYIIGAQNEKAFYLDPHDVQQVVN 375

Query: 334 IGKDDLE-ADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           I  D  E   TS+YH +++RHI LDSIDPSLAIGFYCRDK
Sbjct: 376 ISGDTQEPTSTSSYHCNIMRHIPLDSIDPSLAIGFYCRDK 415

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 =  481 bits (1237), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 240/339 (70%), Positives = 274/339 (80%)

Query: 34  GSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNG 93
           G +  V+++V+ GSMRR  ERVLG  RT +SSS  DIWLLGVCHKI+Q E+ GD    N 
Sbjct: 79  GWAAAVRKVVSGGSMRRFQERVLGSCRTDVSSSDGDIWLLGVCHKISQHESTGDVDIRNV 138

Query: 94  LAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRK 153
            A F QDF SRILI+YRKGFD I DSK TSDV WGCMLRSSQMLVAQALLFH+LGR WRK
Sbjct: 139 FAAFEQDFFSRILITYRKGFDAIEDSKYTSDVNWGCMLRSSQMLVAQALLFHKLGRSWRK 198

Query: 154 PLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARC 213
            + KP D+EY++IL LFGDSE + FSIHNLLQAGK YGLA GSWVGPYAMCR+WE LAR 
Sbjct: 199 TVDKPVDKEYIDILQLFGDSEAAAFSIHNLLQAGKGYGLAVGSWVGPYAMCRTWEVLARN 258

Query: 214 QRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVP 273
           QR +   G Q LPMAIYVVSGDEDGERGGAPVVCI+DA + C  FS+G   WTP+LLLVP
Sbjct: 259 QREKNEQGEQLLPMAIYVVSGDEDGERGGAPVVCIEDACKRCLEFSRGLVPWTPLLLLVP 318

Query: 274 LVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVIN 333
           LVLGL+KVN RYIP L+ TF FPQSLGI+GGKPGASTYI+GVQ + A YLDPH+V+PV+N
Sbjct: 319 LVLGLDKVNLRYIPLLQSTFKFPQSLGILGGKPGASTYIIGVQNDKAFYLDPHEVKPVVN 378

Query: 334 IGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           I  D  E +TS+YH ++ RH+ LDSIDPSLAIGFYCRDK
Sbjct: 379 ITGDTQEPNTSSYHCNISRHMPLDSIDPSLAIGFYCRDK 417

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 =  463 bits (1192), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 215/340 (63%), Positives = 275/340 (80%), Gaps = 2/340 (0%)

Query: 34  GSSETVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNN 92
           G +  VKR+ + +G++RR  ERVLGP+RTG+ S+TSD+WLLGVC+KI+ DE  G+     
Sbjct: 74  GWTAFVKRVSMASGAIRRFQERVLGPNRTGLPSTTSDVWLLGVCYKISADENSGETDTGT 133

Query: 93  GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWR 152
            LA    DFSS+IL++YRKGF+P  D+  TSDV WGCM+RSSQML AQALLFHRLGR W 
Sbjct: 134 VLAALQLDFSSKILMTYRKGFEPFRDTTYTSDVNWGCMIRSSQMLFAQALLFHRLGRAWT 193

Query: 153 KPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALAR 212
           K  + P ++EY+E L  FGDSE S FSIHNL+ AG +YGLAAGSWVGPYA+CR+WE+LA 
Sbjct: 194 KKSELP-EQEYLETLEPFGDSEPSAFSIHNLIIAGASYGLAAGSWVGPYAICRAWESLAC 252

Query: 213 CQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLV 272
            +R +T    Q+LPMA+++VSG EDGERGGAP++CI+DA++ C  FSKGQ++WTPI+LLV
Sbjct: 253 KKRKQTDSKNQTLPMAVHIVSGSEDGERGGAPILCIEDATKSCLEFSKGQSEWTPIILLV 312

Query: 273 PLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVI 332
           PLVLGL+ VNPRYIP+L  TFTFPQS+GI+GGKPGASTYIVGVQE+   YLDPH+VQ V+
Sbjct: 313 PLVLGLDSVNPRYIPSLVATFTFPQSVGILGGKPGASTYIVGVQEDKGFYLDPHEVQQVV 372

Query: 333 NIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
            + K+  + DTS+YH +V+R++ L+S+DPSLA+GFYCRDK
Sbjct: 373 TVNKETPDVDTSSYHCNVLRYVPLESLDPSLALGFYCRDK 412

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	379
TAIR|locus:2080447	477	AT3G59950 [Arabidopsis thalian	0.870	0.691	0.603	1.3e-113
TAIR|locus:2051754	467	AT2G44140 "AT2G44140" [Arabido	0.891	0.723	0.591	8.9e-113
UNIPROTKB|Q2XPP4	478	ATG4B "Cysteine protease ATG4B	0.928	0.736	0.565	1.1e-108
ZFIN|ZDB-GENE-050522-430	375	atg4a "ATG4 autophagy related	0.672	0.68	0.344	7.8e-39
MGI|MGI:1913865	393	Atg4b "autophagy related 4B, c	0.707	0.681	0.339	5.5e-38
ZFIN|ZDB-GENE-040917-3	394	atg4b "ATG4 autophagy related	0.704	0.677	0.335	5.5e-38
UNIPROTKB|F1MJZ9	393	ATG4B "Cysteine protease ATG4B	0.704	0.679	0.351	1.1e-37
UNIPROTKB|Q6PZ03	393	ATG4B "Cysteine protease ATG4B	0.704	0.679	0.351	1.1e-37
UNIPROTKB|Q9Y4P1	393	ATG4B "Cysteine protease ATG4B	0.707	0.681	0.342	1.5e-37
UNIPROTKB|Q6PZ05	398	ATG4A "Cysteine protease ATG4A	0.707	0.673	0.322	1.3e-36

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

 Score = 1099 (391.9 bits), Expect = 1.3e-113, Sum P(2) = 1.3e-113
 Identities = 199/330 (60%), Positives = 254/330 (76%)

Query:    43 VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQXXXXXXXXXXXXXXXFNQDFS 102
             + +G++RR  +RVLGPSRTGISSSTS+IWLLGVC+KI++               F QDFS
Sbjct:    87 MASGAIRRFQDRVLGPSRTGISSSTSEIWLLGVCYKISEGESSEEADAGRVLAAFRQDFS 146

Query:   103 SRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDRE 162
             S IL++YR+GF+PIGD+  TSDV WGCMLRS QML AQALLF RLGR WRK   +P D +
Sbjct:   147 SLILMTYRRGFEPIGDTTYTSDVNWGCMLRSGQMLFAQALLFQRLGRSWRKKDSEPADEK 206

Query:   163 YVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGC 222
             Y+EIL LFGD+E S FSIHNL+ AG++YGLAAGSWVGPYA+CRSWE+LAR  + ET    
Sbjct:   207 YLEILELFGDTEASAFSIHNLILAGESYGLAAGSWVGPYAVCRSWESLARKNKEETDDKH 266

Query:   223 QSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPIXXXXXXXXXXEKVN 282
             +S  MA+++VSG EDGERGGAP++CI+D ++ C  FS+G+ +W PI          ++VN
Sbjct:   267 KSFSMAVHIVSGSEDGERGGAPILCIEDVTKTCLEFSEGETEWPPILLLVPLVLGLDRVN 326

Query:   283 PRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEAD 342
             PRYIP+L  TFTFPQSLGI+GGKPGASTYIVGVQE+   YLDPHDVQ V+ + K++ + D
Sbjct:   327 PRYIPSLIATFTFPQSLGILGGKPGASTYIVGVQEDKGFYLDPHDVQQVVTVKKENQDVD 386

Query:   343 TSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
             TS+YH + +R++ L+S+DPSLA+GFYC+ K
Sbjct:   387 TSSYHCNTLRYVPLESLDPSLALGFYCQHK 416

GO:0005737 "cytoplasm" evidence=ISM

GO:0006914 "autophagy" evidence=ISS

GO:0008233 "peptidase activity" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM

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

 Score = 1093 (389.8 bits), Expect = 8.9e-113, Sum P(2) = 8.9e-113
 Identities = 201/340 (59%), Positives = 259/340 (76%)

Query:    34 GSSETVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQXXXXXXXXXXX 92
             G +  VKR+ + +G++RR  ERVLGP+RTG+ S+TSD+WLLGVC+KI+            
Sbjct:    74 GWTAFVKRVSMASGAIRRFQERVLGPNRTGLPSTTSDVWLLGVCYKISADENSGETDTGT 133

Query:    93 XXXXFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWR 152
                    DFSS+IL++YRKGF+P  D+  TSDV WGCM+RSSQML AQALLFHRLGR W 
Sbjct:   134 VLAALQLDFSSKILMTYRKGFEPFRDTTYTSDVNWGCMIRSSQMLFAQALLFHRLGRAWT 193

Query:   153 KPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALAR 212
             K  + P ++EY+E L  FGDSE S FSIHNL+ AG +YGLAAGSWVGPYA+CR+WE+LA 
Sbjct:   194 KKSELP-EQEYLETLEPFGDSEPSAFSIHNLIIAGASYGLAAGSWVGPYAICRAWESLAC 252

Query:   213 CQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPIXXXX 272
              +R +T    Q+LPMA+++VSG EDGERGGAP++CI+DA++ C  FSKGQ++WTPI    
Sbjct:   253 KKRKQTDSKNQTLPMAVHIVSGSEDGERGGAPILCIEDATKSCLEFSKGQSEWTPIILLV 312

Query:   273 XXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVI 332
                   + VNPRYIP+L  TFTFPQS+GI+GGKPGASTYIVGVQE+   YLDPH+VQ V+
Sbjct:   313 PLVLGLDSVNPRYIPSLVATFTFPQSVGILGGKPGASTYIVGVQEDKGFYLDPHEVQQVV 372

Query:   333 NIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
              + K+  + DTS+YH +V+R++ L+S+DPSLA+GFYCRDK
Sbjct:   373 TVNKETPDVDTSSYHCNVLRYVPLESLDPSLALGFYCRDK 412

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 = 1074 (383.1 bits), Expect = 1.1e-108, P = 1.1e-108
 Identities = 204/361 (56%), Positives = 255/361 (70%)

Query:    14 FSKSTPDTPNRSLASVGSELGSSETVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLL 73
             F      + N+S  S          ++R+V +GSM R     LG S+     ++SD+W L
Sbjct:    56 FEAHQDSSANKSPKSSSGSYDWLRVLRRIVCSGSMWRF----LGTSKV---LTSSDVWFL 108

Query:    74 GVCHKIAQXXXXXXXXXXXXXXXFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRS 133
             G C+K++                F +DFSSRI I+YR+GFD I DSK TSDV WGCM+RS
Sbjct:   109 GKCYKLSSEESSSDSDSESGHATFLEDFSSRIWITYRRGFDAISDSKYTSDVNWGCMVRS 168

Query:   134 SQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLA 193
             SQMLVAQAL+FH LGR WR+P +KP++ EY+ ILH+FGDSE   FSIHNLLQAG +YGLA
Sbjct:   169 SQMLVAQALIFHHLGRSWRRPSEKPYNPEYIGILHMFGDSEACAFSIHNLLQAGNSYGLA 228

Query:   194 AGSWVGPYAMCRSWEALARCQRAETGL--GCQSLPMAIYVVSGDEDGERGGAPVVCIDDA 251
             AGSWVGPYAMCR+W+ L R  R +  +  G +S PMA+YVVSGDEDGERGGAPVVCID A
Sbjct:   229 AGSWVGPYAMCRAWQTLVRTNREQHEVVDGNESFPMALYVVSGDEDGERGGAPVVCIDVA 288

Query:   252 SRHCSVFSKGQADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTY 311
             ++ C  F+KGQ+ W+PI          +K+NPRYIP L+ TFTFPQSLGI+GGKPG STY
Sbjct:   289 AQLCCDFNKGQSTWSPILLLVPLVLGLDKINPRYIPLLKETFTFPQSLGILGGKPGTSTY 348

Query:   312 IVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRD 371
             I GVQ++ A+YLDPH+VQ  ++I  D++EADTS+YH   +R + LD IDPSLAIGFYCRD
Sbjct:   349 IAGVQDDRALYLDPHEVQMAVDIAADNIEADTSSYHCSTVRDLALDLIDPSLAIGFYCRD 408

Query:   372 K 372
             K
Sbjct:   409 K 409

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

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

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 96/279 (34%), Positives = 142/279 (50%)

Query:   100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
             D  SR+  +YRK F PIG +  +SD GWGCMLR  QM++AQAL+   LGR WR   +K  
Sbjct:    45 DVRSRLWFTYRKKFSPIGGTGPSSDAGWGCMLRCGQMILAQALICSHLGRDWRWDPEKHQ 104

Query:   160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
              +EY  IL  F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PKEYQRILDCFLDKKDSCYSIHQMAQMGVGEGKSVGEWYGPNTVAQVLKKLALFDDWNS- 163

Query:   220 LGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHC-----SVFSKGQADWTPIXXXXXX 274
                    +++YV S D          V I+D  + C      + S+   DW P+      
Sbjct:   164 -------LSVYV-SMDN--------TVVIEDIKKLCVRADLQLQSQQPLDWRPLLLVIPL 207

Query:   275 XXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINI 334
                   +NP YI  L+  F  PQS G++GGKP  + Y +G  ++  IYLDPH  Q  ++ 
Sbjct:   208 RMGINSINPVYIQALKECFKMPQSCGVLGGKPNLAYYFIGFIDDELIYLDPHTTQQAVDT 267

Query:   335 GKDDLEADTSTYHSDVIRH-IHLDSIDPSLAIGFYCRDK 372
              +     D  ++H     H + + S+DPS+A+GF+C+ +
Sbjct:   268 -ESGSAVDDQSFHCQRTPHRMKITSLDPSVALGFFCKSE 305

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

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

 Score = 407 (148.3 bits), Expect = 5.5e-38, P = 5.5e-38
 Identities = 96/283 (33%), Positives = 139/283 (49%)

Query:   100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
             D +SR+  +YR+ F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    45 DVASRLWFTYRRNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 104

Query:   160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
                Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PDSYFNVLNAFLDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSS 163

Query:   220 LGCQSLPMAIYVVSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ADWTP 267
             L    + M   VV  +E      A + C        D+ RHC+ F  G       + W P
Sbjct:   164 LAVH-IAMDNTVVM-EEIRRLCRANLPCAGAAALPTDSERHCNGFPAGAEVTNRPSAWRP 221

Query:   268 IXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHD 327
             +            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH 
Sbjct:   222 LVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHT 281

Query:   328 VQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCR 370
              QP + +       D S +       + +  +DPS+A+GF+C+
Sbjct:   282 TQPAVELTDSCFIPDESFHCQHPPSRMGIGELDPSIAVGFFCK 324

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

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

 Score = 407 (148.3 bits), Expect = 5.5e-38, P = 5.5e-38
 Identities = 96/286 (33%), Positives = 140/286 (48%)

Query:   100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWR-KPLQKP 158
             D +SR+  +YRK F PIG +  TSD GWGCMLR  QM++ +AL+   LGR W+  P Q+ 
Sbjct:    45 DVTSRLWFTYRKNFQPIGGTGPTSDTGWGCMLRCGQMILGEALICRHLGRDWKWSPGQRQ 104

Query:   159 FDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCR---------SWEA 209
                EYV IL+ F D + S +SIH + Q G   G + G W GP  + +         SW  
Sbjct:   105 RP-EYVSILNAFIDKKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDSWSR 163

Query:   210 LARCQRAETGLGCQSLPMAIYVVSGDEDGERGGA-----PVVCIDDASRHCSVFSKGQAD 264
             LA     +  +  + +           D +RG       P     D    C++  +  A 
Sbjct:   164 LAVHVAMDNTVVIEEIKRLCMPWL---DFDRGACAVSEEPREMNGDLEGACALAEEETAL 220

Query:   265 WTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLD 324
             W P+            +N  YI  L+  F  PQSLG++GGKP ++ Y +G   +  IYLD
Sbjct:   221 WKPLVLLIPLRLGLSDINEAYIEPLKQCFMMPQSLGVIGGKPNSAHYFIGFVGDELIYLD 280

Query:   325 PHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCR 370
             PH  QP ++  +D    D S +       +H+  +DPS+A GF+C+
Sbjct:   281 PHTTQPAVDPSEDGHFPDDSYHCQHPPCRMHICELDPSIAAGFFCQ 326

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

 Score = 404 (147.3 bits), Expect = 1.1e-37, P = 1.1e-37
 Identities = 99/282 (35%), Positives = 135/282 (47%)

Query:   100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
             D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    45 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 104

Query:   160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
                Y  +L  F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PDSYCSVLQAFLDRKDSCYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSA 163

Query:   220 LGCQSLPMAIYVVSGDEDGE-RGGAPVVCID----DASRHCSVFSKGQ------ADWTPI 268
             L    + M   VV  D     R   P    +    D+ RHC+ F  G       A W P+
Sbjct:   164 LAVH-VAMDNTVVMADIRRLCRSSLPCAGAEAFPADSERHCNGFPAGAEGGGRAAPWRPL 222

Query:   269 XXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDV 328
                         VN  Y  TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH  
Sbjct:   223 VLLIPLRLGLADVNAAYAGTLKHCFRMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTT 282

Query:   329 QPVINIGKDDLEADTSTYHSD-VIRHIHLDSIDPSLAIGFYC 369
             QP +    D       ++H       + +  +DPS+A+GF+C
Sbjct:   283 QPAV-AAADRCPVPDESFHCQHPPGRMSIAELDPSIAVGFFC 323

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 = 404 (147.3 bits), Expect = 1.1e-37, P = 1.1e-37
 Identities = 99/282 (35%), Positives = 135/282 (47%)

Query:   100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
             D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    45 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 104

Query:   160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
                Y  +L  F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PDSYCSVLQAFLDRKDSCYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSA 163

Query:   220 LGCQSLPMAIYVVSGDEDGE-RGGAPVVCID----DASRHCSVFSKGQ------ADWTPI 268
             L    + M   VV  D     R   P    +    D+ RHC+ F  G       A W P+
Sbjct:   164 LAVH-VAMDNTVVMADIRRLCRSSLPCAGAEAFPADSERHCNGFPAGAEGGGRAAPWRPL 222

Query:   269 XXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDV 328
                         VN  Y  TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH  
Sbjct:   223 VLLIPLRLGLADVNAAYAGTLKHCFRMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTT 282

Query:   329 QPVINIGKDDLEADTSTYHSD-VIRHIHLDSIDPSLAIGFYC 369
             QP +    D       ++H       + +  +DPS+A+GF+C
Sbjct:   283 QPAV-AAADRCPVPDESFHCQHPPGRMSIAELDPSIAVGFFC 323

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

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

 Score = 403 (146.9 bits), Expect = 1.5e-37, P = 1.5e-37
 Identities = 97/283 (34%), Positives = 137/283 (48%)

Query:   100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
             D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct:    45 DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 104

Query:   160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
                Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct:   105 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD-TWSS 163

Query:   220 LGCQSLPMAIYVVSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ADWTP 267
             L    + M   VV  +E        V C        D+ RHC+ F  G       + W P
Sbjct:   164 LAVH-IAMDNTVVM-EEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRP 221

Query:   268 IXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHD 327
             +            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IYLDPH 
Sbjct:   222 LVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHT 281

Query:   328 VQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCR 370
              QP +         D S +       + +  +DPS+A+GF+C+
Sbjct:   282 TQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCK 324

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

UNIPROTKB|Q6PZ05 ATG4A "Cysteine protease ATG4A" [Bos taurus (taxid:9913)]

 Score = 394 (143.8 bits), Expect = 1.3e-36, P = 1.3e-36
 Identities = 92/285 (32%), Positives = 143/285 (50%)

Query:   100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
             D S+R+  +YR+ F PIG +  +SD GWGCMLR  QM++AQAL+   LGR W    QK  
Sbjct:    48 DISARLWFTYRRKFSPIGGTGPSSDAGWGCMLRCGQMMLAQALICRHLGRDWNWEKQKEQ 107

Query:   160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGP---------YAMCRSWEAL 210
              +EY  IL  F D +   +SIH + Q G   G + G W GP          A+   W +L
Sbjct:   108 PKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVLKKLALFDEWNSL 167

Query:   211 ARCQRAETGLGCQSLPMAIYVVS--GDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPI 268
             A     +  +  + +      +S   D   ER   P+  +  AS      S     W P+
Sbjct:   168 AVYVSMDNTVVIEDIKKMCRTLSLSADTPAER---PLESLT-ASNQSKGPSACCTAWKPL 223

Query:   269 XXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDV 328
                        ++NP Y+   +  F  PQSLG +GGKP  + Y +G   +  I+LDPH  
Sbjct:   224 LLIVPLRLGINQINPVYVDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDPHTT 283

Query:   329 QPVINIGKDDLEADTSTYHS-DVIRHIHLDSIDPSLAIGFYCRDK 372
             Q  ++  +++  AD  T+H     + +++ ++DPS+A+GF+C+++
Sbjct:   284 QTFVDT-EENGTADDQTFHCLQPPQRMNILNLDPSVALGFFCKEE 327

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

---

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, ., -	0.6323	0.8918	0.7237	yes	no
Q7XPW8	ATG4B_ORYSJ	3, ., 4, ., 2, 2, ., -	0.6121	0.9287	0.7364	yes	no
A2Q1V6	ATG4_MEDTR	3, ., 4, ., 2, 2, ., -	0.7079	0.8944	0.6960	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

Your Input: eugene3.00070004 hypothetical protein (481 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	379
pfam03416	277	pfam03416, Peptidase_C54, Peptidase family C54	1e-125

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

 Score =  361 bits (928), Expect = e-125
 Identities = 127/281 (45%), Positives = 162/281 (57%), Gaps = 18/281 (6%)

Query: 93  GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWR 152
           GL  F  D  SRI  +YR+GF PIG +  TSD GWGCMLR+ QML+AQAL+ H LGR WR
Sbjct: 3   GLEAFLSDVYSRIWFTYRRGFPPIGGTGFTSDCGWGCMLRTGQMLLAQALIIHHLGRDWR 62

Query: 153 KPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAY-GLAAGSWVGPYAMCRSWEALA 211
            P +K  D EY +IL  FGDS  +PFSIH  +Q GK+  G   G W GP  + R  + L 
Sbjct: 63  WPAEKEPDEEYKKILAWFGDSPDAPFSIHQFVQMGKSLCGKKPGEWFGPNTVARILKKLV 122

Query: 212 RCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLL 271
                 +GL           V  D+  E+              CS  + GQ+ W P+LLL
Sbjct: 123 -KFDDWSGL--AVYVAMDGTVVYDDIVEK--------------CSAPNNGQSAWKPLLLL 165

Query: 272 VPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPV 331
           +PL LG++K+NP YI  L+  F+ PQS+GI+GGKP  S Y VG Q +  IYLDPH VQ  
Sbjct: 166 IPLRLGIDKINPVYIEALKECFSLPQSVGIIGGKPNQSLYFVGFQGDELIYLDPHTVQEA 225

Query: 332 INIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           + + +     D  TYH   +R +H   +DPSLAIGF CRD+
Sbjct: 226 VTVNQKGFPVDDETYHCRSLRKLHFSDMDPSLAIGFLCRDE 266

Length = 277

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	379
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	98.02
KOG2433	577	consensus Uncharacterized conserved protein [Funct	97.37
KOG4696	393	consensus Uncharacterized conserved protein [Funct	92.46
KOG4696	393	consensus Uncharacterized conserved protein [Funct	80.33

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

Probab=100.00  E-value=2.3e-108  Score=816.15  Aligned_cols=321  Identities=42%  Similarity=0.815  Sum_probs=293.0

Q ss_pred             HHHH-HhcchhhHHHHHhcCCCCCCCCCCCCcEEEeCceecCCCcccccccCCCcchHHHHHhcccceEEeecCCCCCCC
Q 016970           39 VKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIG  117 (379)
Q Consensus        39 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~vwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~df~SriWfTYR~~F~pI~  117 (379)
                      +|++ +.+...+++.++++.+..++++..+++||+||++|.+..++.          ++|++||.||||||||++|+||+
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~lg~~y~is~~~~----------e~f~~D~~Sriw~TYR~~F~pig   86 (409)
T KOG2674|consen   17 VKTLGEASSHIRFLGKTVLFAELENIESGGEDVWILGRRYKISTEES----------EEFLSDVSSRLWFTYRRGFSPIG   86 (409)
T ss_pred             HHHHHhhhhhhhhhhheecccccccCCCCCcceEEEeeeeeeccCHH----------HHHHHhhhhcceeeccCCCCccc
Confidence            5554 666777788889999999999999999999999999987642          89999999999999999999999


Q ss_pred             CCcccccCCccccccchhHHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHHhhcCCCCCCCcchhHHHHHHHHcCCCCccc
Q 016970          118 DSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSW  197 (379)
Q Consensus       118 ~s~~TSD~GWGCMLRsgQMLLAqaL~~~~LGr~wr~~~~~~~~~~~~~IL~lF~D~~~apFSIH~iv~~G~~~gk~~GeW  197 (379)
                      ++++|||+|||||||||||||||||+++||||+|+|+..+..+++|.+||++|.|.|.||||||||+++|...||++|+|
T Consensus        87 ~t~~ttD~GWGCMlR~gQMllaqaL~~~~lGRdw~w~~~~~~~~~y~~il~~F~D~~~a~~SiHq~~~~G~~~~~~~g~W  166 (409)
T KOG2674|consen   87 GTGPTTDCGWGCMLRCGQMLLAQALICRHLGRDWRWTDEKRLEEEYLKILNLFEDEPDAPFSIHQIVQMGVGEGKAVGSW  166 (409)
T ss_pred             CCCcccCcceeeEEehhHHHHHHHHHHhhcccccccccccccchHHHHHHHhhcCCCccccCHHHHHHHHhhccCCCccc
Confidence            99999999999999999999999999999999999999988889999999999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHHHHhhhccCCCCCCCeEEEEeeC--------CCCCCCCCCceEeccccccccccccCCCCCCccEE
Q 016970          198 VGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSG--------DEDGERGGAPVVCIDDASRHCSVFSKGQADWTPIL  269 (379)
Q Consensus       198 fGPs~~a~~i~~L~~~~~~~~~~~~~~~~l~v~v~s~--------~~dge~~~~~~v~~dd~~~~~~~~~~~~~~w~plL  269 (379)
                      ||||++|+++++|....        .+.+.++|++.+        .+...+++.+.+++.+..++|.+++++..+|+|||
T Consensus       167 fGP~~~a~~~~~L~~~~--------~~~~~~~~v~~~~~vv~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ewkpll  238 (409)
T KOG2674|consen  167 FGPNTVAQVLKKLARFD--------PWSSLAVYVAMDNAVIIRDIVEKCRRGPLPALTIEDATKQSLEFSNGITEWKPLL  238 (409)
T ss_pred             cCCcHHHHHHHHhhccC--------CCCCccEEEecccceEEeeeehhcccCCcccceecccchhhcccCCCCCCCcceE
Confidence            99999999999998743        244566666543        23445567778888888888888888899999999


Q ss_pred             EEEeeeecCCCCCcchHHHHHHhhCCCceeEEecCCCCceEEEEEEecCceEEeCCCCcccccccCCCCCCCCCCccccC
Q 016970          270 LLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSD  349 (379)
Q Consensus       270 lLiPlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~Syhc~  349 (379)
                      ||||||||++.|||.|+++||++|++||||||+||||+||+||||||||+|||||||+||++|++++ ...++++||||+
T Consensus       239 LLVPvRLG~~~iNp~Yvp~lk~~f~~~q~lGI~GGkP~~S~YFvGyq~d~l~YLDPH~~Q~~V~vs~-~~~~~~esfHC~  317 (409)
T KOG2674|consen  239 LLIPLRLGITSINPSYVPALKECFEMPQSVGIIGGRPNHSLYFVGYQGDELFYLDPHYTQPAVEVSK-AKDVPDETFHCQ  317 (409)
T ss_pred             EEEEeeecccccChHHHHHHHHHhcchhhceeccCCCCcceEEEEEecceEEEeCCccCcccccccc-cCCCCccccccC
Confidence            9999999999999999999999999999999999999999999999999999999999999999873 233567899999


Q ss_pred             CccccccCCCCcccEEEEEeCChhhhhcc
Q 016970          350 VIRHIHLDSIDPSLAIGFYCRDKGLLVTF  378 (379)
Q Consensus       350 ~~~~m~~~~mDPS~alGFyc~~~~Df~df  378 (379)
                      .++||++.+|||||||||||++++||++|
T Consensus       318 ~~~km~f~~mDPS~alGF~c~~~~dF~~~  346 (409)
T KOG2674|consen  318 SLRKMAFEDMDPSLALGFYCKDEDDFDNL  346 (409)
T ss_pred             chhhcchhhcCcceEEEEEecCHHHHHHH
Confidence            99999999999999999999999999987

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

Probab=100.00  E-value=7.7e-101  Score=743.54  Aligned_cols=269  Identities=47%  Similarity=0.882  Sum_probs=208.2

Q ss_pred             chHHHHHhcccceEEeecCCCCCCCCCcccccCCccccccchhHHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHHhhcCC
Q 016970           93 GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGD  172 (379)
Q Consensus        93 ~~~~f~~df~SriWfTYR~~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~~~LGr~wr~~~~~~~~~~~~~IL~lF~D  172 (379)
                      +.++|++||+||||||||+||+||+++++|||+|||||||||||||||||++|++||+|++......++.+.+||+||.|
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            36899999999999999999999999999999999999999999999999999999999998765667889999999999


Q ss_pred             CCCCCcchhHHHHHHHHc-CCCCccccCchHHHHHHHHHHHHHhhhccCCCCCCCeEEEEeeCCCCCCCCCCceEecccc
Q 016970          173 SETSPFSIHNLLQAGKAY-GLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDA  251 (379)
Q Consensus       173 ~~~apFSIH~iv~~G~~~-gk~~GeWfGPs~~a~~i~~L~~~~~~~~~~~~~~~~l~v~v~s~~~dge~~~~~~v~~dd~  251 (379)
                      +++||||||||+++|.++ ||+||+||||+++|++|++|++..        ....++|||++++         +++.+|+
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        3446889998754         6788888


Q ss_pred             ccccccc--cCCCCCCccEEEEEeeeecCCCCCcchHHHHHHhhCCCceeEEecCCCCceEEEEEEecCceEEeCCCCcc
Q 016970          252 SRHCSVF--SKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQ  329 (379)
Q Consensus       252 ~~~~~~~--~~~~~~w~plLlLiPlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q  329 (379)
                      .+.|...  ......|+|||||||+|||+|++||+|++.|+++|++|||||||||||++|+||||+|+|+|||||||+||
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            7776421  12345789999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccCCCCCCCCCCccccCCccccccCCCCcccEEEEEeCChhhhhcc
Q 016970          330 PVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDKGLLVTF  378 (379)
Q Consensus       330 ~av~~~~~~~~~~~~Syhc~~~~~m~~~~mDPS~alGFyc~~~~Df~df  378 (379)
                      +|++....+.+.+.+||||..+++|++++|||||+|||||+|++||++|
T Consensus       225 ~a~~~~~~~~~~~~~s~h~~~~~~~~~~~lDPS~~lgF~~~~~~d~~~~  273 (278)
T PF03416_consen  225 PAVDSQNNNFELDDSSYHCSSPRKMPISKLDPSMALGFYCRNEEDFEDF  273 (278)
T ss_dssp             E-----TTS-----GGGC-SSSEEEEGGGS-SEEEEEEEESSHHHHHHH
T ss_pred             eCCccCCCCCcCCCCceecCCcccCcHhhcCCCEEEEEEECCHHHHHHH
Confidence            9998766555445689999999999999999999999999999999998

; 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=98.02  E-value=6.3e-06  Score=78.24  Aligned_cols=32  Identities=28%  Similarity=0.333  Sum_probs=22.6

Q ss_pred             eEEecCCCCceEEEEEEec-----CceEEeCCCCcccc
Q 016970          299 LGIVGGKPGASTYIVGVQE-----ESAIYLDPHDVQPV  331 (379)
Q Consensus       299 vGIiGGrP~~SlYFvG~q~-----d~LiYLDPH~~Q~a  331 (379)
                      --++|| ..||.=+||+.-     -+|+.||||++-.+
T Consensus       149 Piylqh-~ghS~TIvGie~~~~g~~~LLVlDP~~~~~~  185 (218)
T PF07910_consen  149 PIYLQH-DGHSRTIVGIERNKDGEVNLLVLDPHYTGSD  185 (218)
T ss_dssp             -EEEEE-TTEEEEEEEEEE-TT--EEEEEE-TT--S-S
T ss_pred             CeEeCc-cccceEEEEEEECCCCCEEEEEECCCCCCHH
Confidence            446677 999999999975     48999999998764

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=97.37  E-value=0.0004  Score=70.92  Aligned_cols=68  Identities=28%  Similarity=0.541  Sum_probs=40.3

Q ss_pred             cccCCccccccchhHHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHHhhcCC---CCCCCcchhHHHHHHHHcCCCCcccc
Q 016970          122 TSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGD---SETSPFSIHNLLQAGKAYGLAAGSWV  198 (379)
Q Consensus       122 TSD~GWGCMLRsgQMLLAqaL~~~~LGr~wr~~~~~~~~~~~~~IL~lF~D---~~~apFSIH~iv~~G~~~gk~~GeWf  198 (379)
                      .-|.||||..||-|-+-.=-.+   -|-    + +++. ..+++|-+...|   .|. .|             +---+|.
T Consensus       403 idD~GWGCAYRSlQTIcSWFil---qGY----T-~~pI-PtHrEiQqaLvdi~DKpA-~F-------------VGSrQWI  459 (577)
T KOG2433|consen  403 IDDSGWGCAYRSLQTICSWFIL---QGY----T-DKPI-PTHREIQQALVDIQDKPA-KF-------------VGSRQWI  459 (577)
T ss_pred             cccCCcchhhHhHHHHHHHHHH---cCc----c-CCCC-CcHHHHHHHHHhccCccc-ce-------------eccccee
Confidence            5699999999998876543332   221    1 1111 224444444333   221 11             1123799


Q ss_pred             CchHHHHHHHHHHH
Q 016970          199 GPYAMCRSWEALAR  212 (379)
Q Consensus       199 GPs~~a~~i~~L~~  212 (379)
                      |-+.+..+|..|++
T Consensus       460 GStEis~vLn~ll~  473 (577)
T KOG2433|consen  460 GSTEISFVLNELLK  473 (577)
T ss_pred             cchhHHHHHHHHhc
Confidence            99999999999886

>KOG4696 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.46  E-value=0.1  Score=52.03  Aligned_cols=38  Identities=39%  Similarity=0.678  Sum_probs=29.1

Q ss_pred             EeecCCCCCCCC----CcccccCCccccccchhHHHHHHHHH
Q 016970          107 ISYRKGFDPIGD----SKITSDVGWGCMLRSSQMLVAQALLF  144 (379)
Q Consensus       107 fTYR~~F~pI~~----s~~TSD~GWGCMLRsgQMLLAqaL~~  144 (379)
                      ...-|||.-|+.    ...--|.||||..|+.|||++..|..
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    23455789999999999999999985

>KOG4696 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.33  E-value=0.91  Score=45.45  Aligned_cols=22  Identities=41%  Similarity=0.786  Sum_probs=19.6

Q ss_pred             cccCCccccccchhHHHHHHHH
Q 016970          122 TSDVGWGCMLRSSQMLVAQALL  143 (379)
Q Consensus       122 TSD~GWGCMLRsgQMLLAqaL~  143 (379)
                      .=|.||||.-|.+||.+|.-|.
T Consensus       124 ~~d~Gwgcgw~niqmq~shll~  145 (393)
T KOG4696|consen  124 GIDRGWGCGWRNIQMQISHLLY  145 (393)
T ss_pred             ccccccCccccchHHHHHHHHh
Confidence            3489999999999999999775

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	379
2p82_A	355	Cysteine Protease Atg4a Length = 355		1e-39
2d1i_A	398	Structure Of Human Atg4b Length = 398		7e-39
2cy7_A	396	The Crystal Structure Of Human Atg4b Length = 396		8e-39
2z0d_A	357	The Crystal Structure Of Human Atg4b- Lc3(1-120) Co		7e-38
2zzp_A	357	The Crystal Structure Of Human Atg4b(C74s)- Lc3(1-1		9e-38

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

Iteration: 1
 Score =  160 bits (404), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 89/287 (31%), Positives = 143/287 (49%), Gaps = 21/287 (7%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
           D S+R+  +YR+ F PIG +  +SD GWGCMLR  QM++AQAL+   LGR W    QK  
Sbjct: 44  DISARLWFTYRRKFSPIGGTGPSSDAGWGCMLRCGQMMLAQALICRHLGRDWSWEKQKEQ 103
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGP---------YAMCRSWEAL 210
            +EY  IL  F D +   +SIH + Q G   G + G W GP          A+   W +L
Sbjct: 104 PKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVLKKLALFDEWNSL 163
Query: 211 ARCQRAETGLGCQSLPMAIYV--VSGDEDGERGGAPVVCIDDA---SRHCSVFSKGQADW 265
           A     +  +  + +     V  +S D  G+R    +   + +   S +CS        W
Sbjct: 164 AVYVSMDNTVVIEDIKKMCRVLPLSADTAGDRPPDSLTASNQSKGTSAYCSA-------W 216
Query: 266 TPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDP 325
            P+           ++NP Y+   +  F  PQSLG +GGKP  + Y +G   +  I+LDP
Sbjct: 217 KPLLLIVPLRLGINQINPVYVDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDP 276
Query: 326 HDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           H  Q  ++  ++    D + +     + +++ ++DPS+A+GF+C+++
Sbjct: 277 HTTQTFVDTEENGTVNDQTFHCLQSPQRMNILNLDPSVALGFFCKEE 323

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

Iteration: 1
 Score =  157 bits (398), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 95/288 (32%), Positives = 138/288 (47%), Gaps = 25/288 (8%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
           D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct: 50  DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 109
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
              Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct: 110 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 168
Query: 220 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 262
                  +A+++     V  +E        V C        D+ RHC+ F  G       
Sbjct: 169 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 221
Query: 263 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 322
           + W P+            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IY
Sbjct: 222 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 281
Query: 323 LDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCR 370
           LDPH  QP +         D S +       + +  +DPS+A+GF+C+
Sbjct: 282 LDPHTTQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCK 329

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

Iteration: 1
 Score =  157 bits (398), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 95/288 (32%), Positives = 138/288 (47%), Gaps = 25/288 (8%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
           D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct: 48  DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
              Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 220 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 262
                  +A+++     V  +E        V C        D+ RHC+ F  G       
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 263 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 322
           + W P+            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 323 LDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCR 370
           LDPH  QP +         D S +       + +  +DPS+A+GF+C+
Sbjct: 280 LDPHTTQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCK 327

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

Iteration: 1
 Score =  154 bits (390), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 94/290 (32%), Positives = 138/290 (47%), Gaps = 25/290 (8%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
           D +SR+  +YRK F  IG +  TSD GWGCMLR  QM+ AQAL+   LGR WR   +K  
Sbjct: 48  DVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
              Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 220 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 262
                  +A+++     V  +E        V C        D+ RHC+ F  G       
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 263 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 322
           + W P+            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 323 LDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           LDP   QP +         D S +       + +  +DPS+A+GF+C+ +
Sbjct: 280 LDPATTQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCKTE 329

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

Iteration: 1
 Score =  154 bits (389), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 94/290 (32%), Positives = 138/290 (47%), Gaps = 25/290 (8%)
Query: 100 DFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPF 159
           D +SR+  +YRK F  IG +  TSD GWG MLR  QM+ AQAL+   LGR WR   +K  
Sbjct: 48  DVASRLWFTYRKNFPAIGGTGPTSDTGWGSMLRCGQMIFAQALVCRHLGRDWRWTQRKRQ 107
Query: 160 DREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG 219
              Y  +L+ F D + S +SIH + Q G   G + G W GP  + +  + LA      + 
Sbjct: 108 PDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSS- 166
Query: 220 LGCQSLPMAIYV-----VSGDEDGERGGAPVVCID------DASRHCSVFSKGQ------ 262
                  +A+++     V  +E        V C        D+ RHC+ F  G       
Sbjct: 167 -------LAVHIAMDNTVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRP 219
Query: 263 ADWTPIXXXXXXXXXXEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIY 322
           + W P+            +N  Y+ TL+  F  PQSLG++GGKP ++ Y +G   E  IY
Sbjct: 220 SPWRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY 279
Query: 323 LDPHDVQPVINIGKDDLEADTSTYHSDVIRHIHLDSIDPSLAIGFYCRDK 372
           LDPH  QP +         D S +       + +  +DPS+A+GF+C+ +
Sbjct: 280 LDPHTTQPAVEPTDGCFIPDESFHCQHPPCRMSIAELDPSIAVGFFCKTE 329
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	379
2p82_A	355	Cysteine protease ATG4A; autophagy, hydrolase, pro	6e-96
2cy7_A	396	Cysteine protease APG4B; papain-like fold, autopha	8e-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 Length = 355

 Score =  289 bits (740), Expect = 6e-96
 Identities = 96/317 (30%), Positives = 157/317 (49%), Gaps = 22/317 (6%)

Query: 65  SSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSD 124
            +   +W+LG  H +  +++           +   D S+R+  +YR+ F PIG +  +SD
Sbjct: 20  DTDELVWILGKQHLLKTEKS-----------KLLSDISARLWFTYRRKFSPIGGTGPSSD 68

Query: 125 VGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLL 184
            GWGCMLR  QM++AQAL+   LGR W    QK   +EY  IL  F D +   +SIH + 
Sbjct: 69  AGWGCMLRCGQMMLAQALICRHLGRDWSWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMA 128

Query: 185 QAGKAYGLAAGSWVGPYAMCRSWEALARCQ---------RAETGLGCQSLPMAIYVVSGD 235
           Q G   G + G W GP  + +  + LA              +  +  + +     V+   
Sbjct: 129 QMGVGEGKSIGEWFGPNTVAQVLKKLALFDEWNSLAVYVSMDNTVVIEDIKKMCRVLPLS 188

Query: 236 EDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTF 295
            D      P      AS      S   + W P+LL+VPL LG+ ++NP Y+   +  F  
Sbjct: 189 ADTAGDRPP--DSLTASNQSKGTSAYCSAWKPLLLIVPLRLGINQINPVYVDAFKECFKM 246

Query: 296 PQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIH 355
           PQSLG +GGKP  + Y +G   +  I+LDPH  Q  ++  ++    D + +     + ++
Sbjct: 247 PQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTEENGTVNDQTFHCLQSPQRMN 306

Query: 356 LDSIDPSLAIGFYCRDK 372
           + ++DPS+A+GF+C+++
Sbjct: 307 ILNLDPSVALGFFCKEE 323

>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 =  290 bits (743), Expect = 8e-96
 Identities = 102/319 (31%), Positives = 154/319 (48%), Gaps = 20/319 (6%)

Query: 63  ISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKIT 122
              ++  +W+LG  + I  ++            E   D +SR+  +YRK F  IG +  T
Sbjct: 22  FPETSEPVWILGRKYSIFTEKD-----------EILSDVASRLWFTYRKNFPAIGGTGPT 70

Query: 123 SDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHN 182
           SD GWGCMLR  QM+ AQAL+   LGR WR   +K     Y  +L+ F D + S +SIH 
Sbjct: 71  SDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQ 130

Query: 183 LLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIY---VVSGDEDGE 239
           + Q G   G + G W GP  + +  + LA      +     ++   +    +        
Sbjct: 131 IAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSSLAVHIAMDNTVVMEEIRRLCRTSV 190

Query: 240 RGGAPVVCIDDASRHCSVFSKGQ------ADWTPILLLVPLVLGLEKVNPRYIPTLRLTF 293
                     D+ RHC+ F  G       + W P++LL+PL LGL  +N  Y+ TL+  F
Sbjct: 191 PCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRPLVLLIPLRLGLTDINEAYVETLKHCF 250

Query: 294 TFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRH 353
             PQSLG++GGKP ++ Y +G   E  IYLDPH  QP +         D S +       
Sbjct: 251 MMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTTQPAVEPTDGCFIPDESFHCQHPPCR 310

Query: 354 IHLDSIDPSLAIGFYCRDK 372
           + +  +DPS+A+GF+C+ +
Sbjct: 311 MSIAELDPSIAVGFFCKTE 329

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	379
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	98.08
2z84_A	218	UFSP1, UFM1-specific protease 1; alpha/beta, papai	97.9

>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=1.9e-110  Score=831.71  Aligned_cols=290  Identities=34%  Similarity=0.691  Sum_probs=259.3

Q ss_pred             CCCCCCCCCcEEEeCceecCCCcccccccCCCcchHHHHHhcccceEEeecCCCCCCCCCcccccCCccccccchhHHHH
Q 016970           60 RTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVA  139 (379)
Q Consensus        60 ~~~~~~~~~~vwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~df~SriWfTYR~~F~pI~~s~~TSD~GWGCMLRsgQMLLA  139 (379)
                      +++++++++||||||++|+..++           .++|++||+||||||||+||+||+++++|||+||||||||||||||
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             HHHHHhhcCCCCCCCCCCCCcHHHHHHHhhcCCCCCCCcchhHHHHHHHHcCCCCccccCchHHHHHHHHHHHHHhhhcc
Q 016970          140 QALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETG  219 (379)
Q Consensus       140 qaL~~~~LGr~wr~~~~~~~~~~~~~IL~lF~D~~~apFSIH~iv~~G~~~gk~~GeWfGPs~~a~~i~~L~~~~~~~~~  219 (379)
                      |||++|+|||+|||...+..+++|.+||+||+|+|+|||||||||++|.++||+|||||||+++|++|++|++.      
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 016970          220 LGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVFSK------------------------GQADWTPILLLVPLV  275 (379)
Q Consensus       220 ~~~~~~~l~v~v~s~~~dge~~~~~~v~~dd~~~~~~~~~~------------------------~~~~w~plLlLiPlR  275 (379)
                        .++.+++|||++++         +++++|+.++|.....                        ....|+|||||||+|
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         7888888877754211                        012699999999999


Q ss_pred             ecCCCCCcchHHHHHHhhCCCceeEEecCCCCceEEEEEEecCceEEeCCCCcccccccCCCCCCCCCCccccCC-cccc
Q 016970          276 LGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDV-IRHI  354 (379)
Q Consensus       276 LGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~Syhc~~-~~~m  354 (379)
                      ||+|+|||+|+++||++|++|||||||||||++|+||||+|+|+|||||||+||+|++..+... .+.+||||+. +++|
T Consensus       227 LGld~in~~Y~~~Lk~~l~~pqsvGIiGGkP~~s~YfvG~q~d~l~YLDPH~~Q~a~~~~~~~~-~~~~sfhc~~~~~~m  305 (355)
T 2p82_A          227 LGINQINPVYVDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTEENGT-VNDQTFHCLQSPQRM  305 (355)
T ss_dssp             CCSSSCCGGGHHHHHHHHHSTTEEEEEEEETTEEEEEEEEETTEEEEECCCSEEECCCBCTTSC-BCCGGGBCCSSCEEE
T ss_pred             cCCCcCCHHHHHHHHHHhCccccceEecCCCCceEEEEEEcCCEEEEeCCCCCcccccccccCc-CCCCceeeCCCcCcC
Confidence            9999999999999999999999999999999999999999999999999999999998765433 2578999999 9999


Q ss_pred             ccCCCCcccEEEEEeCChhhhhcc
Q 016970          355 HLDSIDPSLAIGFYCRDKGLLVTF  378 (379)
Q Consensus       355 ~~~~mDPS~alGFyc~~~~Df~df  378 (379)
                      ++++|||||+|||||+|++||++|
T Consensus       306 ~~~~lDPS~~lGF~c~~~~df~d~  329 (355)
T 2p82_A          306 NILNLDPSVALGFFCKEEKDFDNW  329 (355)
T ss_dssp             EGGGSCSEEEEEEEESSHHHHHHH
T ss_pred             chhhcCcceEEEEEECCHHHHHHH
Confidence            999999999999999999999998

>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=1.7e-108  Score=827.27  Aligned_cols=291  Identities=34%  Similarity=0.684  Sum_probs=258.9

Q ss_pred             CCCCCCCCCCcEEEeCceecCCCcccccccCCCcchHHHHHhcccceEEeecCCCCCCCCCcccccCCccccccchhHHH
Q 016970           59 SRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLV  138 (379)
Q Consensus        59 ~~~~~~~~~~~vwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~df~SriWfTYR~~F~pI~~s~~TSD~GWGCMLRsgQMLL  138 (379)
                      +..+++.+++||||||++|+..++           .++|++||+||||||||+|||||+++++|||+|||||||||||||
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            457899999999999999998654           579999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCCCCCCcHHHHHHHhhcCCCCCCCcchhHHHHHHHHcCCCCccccCchHHHHHHHHHHHHHhhhc
Q 016970          139 AQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAET  218 (379)
Q Consensus       139 AqaL~~~~LGr~wr~~~~~~~~~~~~~IL~lF~D~~~apFSIH~iv~~G~~~gk~~GeWfGPs~~a~~i~~L~~~~~~~~  218 (379)
                      ||||++|||||+|||++.+..+++|.+||+||+|+|+|||||||||++|.++||+|||||||+++|++|++|++.     
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            999999999999999877666778999999999999999999999999999999999999999999999999752     


Q ss_pred             cCCCCCCCeEEEEeeCCCCCCCCCCceEecccccccccc--------------------cc------CCCCCCccEEEEE
Q 016970          219 GLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSV--------------------FS------KGQADWTPILLLV  272 (379)
Q Consensus       219 ~~~~~~~~l~v~v~s~~~dge~~~~~~v~~dd~~~~~~~--------------------~~------~~~~~w~plLlLi  272 (379)
                         .++..++|||++++         +|+++|+.+.|..                    +.      .....|+|+||||
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               23456899998753         6777777665542                    11      1124699999999


Q ss_pred             eeeecCCCCCcchHHHHHHhhCCCceeEEecCCCCceEEEEEEecCceEEeCCCCcccccccCCCCCCCCCCccccCC-c
Q 016970          273 PLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDV-I  351 (379)
Q Consensus       273 PlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~Syhc~~-~  351 (379)
                      |+|||+|+|||+|+++||++|++|||+|||||||++|+||||+|+|+|||||||+||+|++...... .+.+||||.. +
T Consensus       230 plRLGld~iNp~Y~~~Lk~~l~~pqsvGIiGGkP~~s~YfvG~q~d~liYLDPH~~Q~a~~~~~~~~-~~~~s~hc~~~~  308 (396)
T 2cy7_A          230 PLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPHTTQPAVEPTDGCF-IPDESFHCQHPP  308 (396)
T ss_dssp             EEECCSSSCCGGGHHHHHHHTSSTTEEEEEECSTTCCEEEEEEETTEEEEECCCSEEECCC---CCC-CCCGGGBCCSCC
T ss_pred             EEeecCCcCCHHHHHHHHHHhCCcccceEecCccCceEEEEEEeCCEEEeeCCCccccccccccccc-CCCcceeecCcc
Confidence            9999999999999999999999999999999999999999999999999999999999998654332 2457999998 5


Q ss_pred             cccccCCCCcccEEEEEeCChhhhhcc
Q 016970          352 RHIHLDSIDPSLAIGFYCRDKGLLVTF  378 (379)
Q Consensus       352 ~~m~~~~mDPS~alGFyc~~~~Df~df  378 (379)
                      ++|++++|||||+|||||+|++||++|
T Consensus       309 ~~m~~~~mDPS~~lGFyc~~~~Df~d~  335 (396)
T 2cy7_A          309 CRMSIAELDPSIAVGFFCKTEDDFNDW  335 (396)
T ss_dssp             EEEEGGGSCSEEEEEEEESSHHHHHHH
T ss_pred             cccchhhcCCceEEEEEECCHHHHHHH
Confidence            899999999999999999999999998

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

Probab=98.08  E-value=2.5e-05  Score=79.41  Aligned_cols=46  Identities=26%  Similarity=0.225  Sum_probs=33.5

Q ss_pred             hHHHHHHhhCCCceeEEecCCCCceEEEEEEecC------ceEEeCCCCcccc
Q 016970          285 YIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEE------SAIYLDPHDVQPV  331 (379)
Q Consensus       285 Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d------~LiYLDPH~~Q~a  331 (379)
                      ..+.|.+-|+-.-+-=|+|| ..+|+=++|+.-+      .|+.|||||+-+.
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            34667777766445556666 6799999999732      5799999998644

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

Probab=97.90  E-value=4.5e-05  Score=71.05  Aligned_cols=27  Identities=30%  Similarity=0.443  Sum_probs=22.7

Q ss_pred             cCCCCceEEEEEEec-----CceEEeCCCCcc
Q 016970          303 GGKPGASTYIVGVQE-----ESAIYLDPHDVQ  329 (379)
Q Consensus       303 GGrP~~SlYFvG~q~-----d~LiYLDPH~~Q  329 (379)
                      ||...||.=+||+..     -.|+.||||++-
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            567899999999962     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	379
d2z0da1	350	d.3.1.22 (A:5-354) Cysteine protease ATG4B {Human	1e-114
d2p82a1	334	d.3.1.22 (A:26-359) Cysteine protease ATG4A {Human	1e-110

>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 =  334 bits (858), Expect = e-114
 Identities = 103/322 (31%), Positives = 157/322 (48%), Gaps = 26/322 (8%)

Query: 63  ISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKIT 122
              ++  +W+LG  + I  ++            E   D +SR+  +YRK F  IG +  T
Sbjct: 15  FPETSEPVWILGRKYSIFTEKD-----------EILSDVASRLWFTYRKNFPAIGGTGPT 63

Query: 123 SDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHN 182
           SD GWGCMLR  QM+ AQAL+   LGR WR   +K     Y  +L+ F D + S +SIH 
Sbjct: 64  SDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQ 123

Query: 183 LLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGG 242
           + Q G   G + G W GP  + +  + LA      +     ++   + +   +E      
Sbjct: 124 IAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDTWSSLAVHIAMDNTVVM---EEIRRLCR 180

Query: 243 APVVCID------DASRHCSVF------SKGQADWTPILLLVPLVLGLEKVNPRYIPTLR 290
             V C        D+ RHC+ F      +   + W P++LL+PL LGL  +N  Y+ TL+
Sbjct: 181 TSVPCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRPLVLLIPLRLGLTDINEAYVETLK 240

Query: 291 LTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDV 350
             F  PQSLG++GGKP ++ Y +G   E  IYLDP   QP +         D S +    
Sbjct: 241 HCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPATTQPAVEPTDGCFIPDESFHCQHP 300

Query: 351 IRHIHLDSIDPSLAIGFYCRDK 372
              + +  +DPS+A+GF+C+ +
Sbjct: 301 PCRMSIAELDPSIAVGFFCKTE 322

>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 =  323 bits (829), Expect = e-110
 Identities = 96/317 (30%), Positives = 156/317 (49%), Gaps = 28/317 (8%)

Query: 68  SDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGW 127
             +W+LG  H +  +++           +   D S+R+  +YR+ F PIG +  +SD GW
Sbjct: 2   ELVWILGKQHLLKTEKS-----------KLLSDISARLWFTYRRKFSPIGGTGPSSDAGW 50

Query: 128 GCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAG 187
           GCMLR  QM++AQAL+   LGR W    QK   +EY  IL  F D +   +SIH + Q G
Sbjct: 51  GCMLRCGQMMLAQALICRHLGRDWSWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMG 110

Query: 188 KAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGC------------QSLPMAIYVVSGD 235
              G + G W GP  + +  + LA        L                    +  +S D
Sbjct: 111 VGEGKSIGEWFGPNTVAQVLKKLALFDEWN-SLAVYVSMDNTVVIEDIKKMCRVLPLSAD 169

Query: 236 EDGERGGAPVVCIDDASRHCSVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTF 295
             G+R    +   +         S   + W P+LL+VPL LG+ ++NP Y+   +  F  
Sbjct: 170 TAGDRPPDSLTASNQ----SKGTSAYCSAWKPLLLIVPLRLGINQINPVYVDAFKECFKM 225

Query: 296 PQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDVIRHIH 355
           PQSLG +GGKP  + Y +G   +  I+LDPH  Q  ++  ++    D + +     + ++
Sbjct: 226 PQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTEENGTVNDQTFHCLQSPQRMN 285

Query: 356 LDSIDPSLAIGFYCRDK 372
           + ++DPS+A+GF+C+++
Sbjct: 286 ILNLDPSVALGFFCKEE 302

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	379
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=2.6e-108  Score=813.91  Aligned_cols=291  Identities=34%  Similarity=0.671  Sum_probs=259.3

Q ss_pred             CCCCCCCCCCcEEEeCceecCCCcccccccCCCcchHHHHHhcccceEEeecCCCCCCCCCcccccCCccccccchhHHH
Q 016970           59 SRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLV  138 (379)
Q Consensus        59 ~~~~~~~~~~~vwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~df~SriWfTYR~~F~pI~~s~~TSD~GWGCMLRsgQMLL  138 (379)
                      +..+++.+++||||||++|+..++           .++|++||+||||||||+|||||+++++|||+|||||||||||||
T Consensus        11 ~~~~~~~~~~pv~iLG~~y~~~~~-----------~~~fl~d~~s~iwfTYR~~F~~i~~s~~TSD~GWGCMlRsgQMlL   79 (350)
T d2z0da1          11 EFEDFPETSEPVWILGRKYSIFTE-----------KDEILSDVASRLWFTYRKNFPAIGGTGPTSDTGWGCMLRCGQMIF   79 (350)
T ss_dssp             GGCCCCSSCCCEEETTEEECTTTC-----------HHHHHHHHHHSCCCCEEESCCCGGGTSCSBCTTTCHHHHHHHHHH
T ss_pred             chhhCCCCCCCEEEeceeecCCcC-----------HHHHHHHhhheEEEEccCCCcCCCCCCCcCCCchhHHHHHHHHHH
Confidence            457788899999999999998765           579999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCCCCCCcHHHHHHHhhcCCCCCCCcchhHHHHHHHHcCCCCccccCchHHHHHHHHHHHHHhhhc
Q 016970          139 AQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAET  218 (379)
Q Consensus       139 AqaL~~~~LGr~wr~~~~~~~~~~~~~IL~lF~D~~~apFSIH~iv~~G~~~gk~~GeWfGPs~~a~~i~~L~~~~~~~~  218 (379)
                      ||||++|||||+|||...+..+++|.+||+||.|.|+|||||||||++|.++||+|||||||+++|++|++|++..    
T Consensus        80 A~aL~~~~lgr~wr~~~~~~~~~~~~~Il~~F~D~~~apfSIH~iv~~g~~~gk~~GeWfGPs~~a~~ik~L~~~~----  155 (350)
T d2z0da1          80 AQALVCRHLGRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFD----  155 (350)
T ss_dssp             HHHHHHHHTCTTCCCCTTSCCCHHHHHHHHTTSSSTTSTTCHHHHHHHHHHTTCCTTCCBCHHHHHHHHHHHHTTC----
T ss_pred             HHHHHHHhcCCcccccccccCcHHHHHHHHhhcCCCCCCcCHHHHHHHHHHhCCCCccccCHHHHHHHHHHHHhhc----
Confidence            9999999999999998877777889999999999999999999999999999999999999999999999998742    


Q ss_pred             cCCCCCCCeEEEEeeCCCCCCCCCCceEeccccccccccc--------------------------cCCCCCCccEEEEE
Q 016970          219 GLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDASRHCSVF--------------------------SKGQADWTPILLLV  272 (379)
Q Consensus       219 ~~~~~~~~l~v~v~s~~~dge~~~~~~v~~dd~~~~~~~~--------------------------~~~~~~w~plLlLi  272 (379)
                          +...++|||++++         ++++||+.++|...                          .....+|+|+||||
T Consensus       156 ----~~~~l~v~va~d~---------~v~~~di~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~llli  222 (350)
T d2z0da1         156 ----TWSSLAVHIAMDN---------TVVMEEIRRLCRTSVPCAGATAFPADSDRHCNGFPAGAEVTNRPSPWRPLVLLI  222 (350)
T ss_dssp             ----TTTCCEEEECCTT---------EEEHHHHHHHHTCC-------------------------------CCCCEEEEE
T ss_pred             ----cccCceEEEecCC---------cEehHHHHHHhcccccccccccccccccccccccccchhhcccccCCcceEEEE
Confidence                3446899998753         68888877665321                          11235799999999


Q ss_pred             eeeecCCCCCcchHHHHHHhhCCCceeEEecCCCCceEEEEEEecCceEEeCCCCcccccccCCCCCCCCCCccccCC-c
Q 016970          273 PLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSDV-I  351 (379)
Q Consensus       273 PlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~Syhc~~-~  351 (379)
                      |+|||+|+|||+|+++||++|++|||||||||||++|+||||+|+|+|||||||+||+|++..+... ..++||||.+ +
T Consensus       223 plRLG~d~iN~~Y~~~Lk~~~~~pqsvGIiGGrP~~a~YfvG~q~d~l~YLDPH~~Q~a~~~~~~~~-~~~~S~hc~~~~  301 (350)
T d2z0da1         223 PLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIYLDPATTQPAVEPTDGCF-IPDESFHCQHPP  301 (350)
T ss_dssp             EEECSSSSCCHHHHHHHHHTTSSTTEEEEEEEETTEEEEEEEEETTEEEEECCCSEEECCCC------CCCGGGSCCSSC
T ss_pred             eeecCCCcCCHHHHHHHHHHhcchhhceEecCCCCCceEEEEEcCCceEeecccccccccccccccc-CCccceecCCCc
Confidence            9999999999999999999999999999999999999999999999999999999999998754433 2457999987 5


Q ss_pred             cccccCCCCcccEEEEEeCChhhhhcc
Q 016970          352 RHIHLDSIDPSLAIGFYCRDKGLLVTF  378 (379)
Q Consensus       352 ~~m~~~~mDPS~alGFyc~~~~Df~df  378 (379)
                      ++|++++|||||+|||||+|++||++|
T Consensus       302 ~~~~~~~lDPSm~lGF~~~~~~d~~~~  328 (350)
T d2z0da1         302 CRMSIAELDPSIAVGFFCKTEDDFNDW  328 (350)
T ss_dssp             EEEEGGGCCSEEEEEEEESSHHHHHHH
T ss_pred             CcCChhhcCCCeEEEEEECCHHHHHHH
Confidence            689999999999999999999999998

>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=3.6e-107  Score=801.55  Aligned_cols=283  Identities=35%  Similarity=0.717  Sum_probs=255.9

Q ss_pred             CCcEEEeCceecCCCcccccccCCCcchHHHHHhcccceEEeecCCCCCCCCCcccccCCccccccchhHHHHHHHHHhh
Q 016970           67 TSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHR  146 (379)
Q Consensus        67 ~~~vwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~df~SriWfTYR~~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~~~  146 (379)
                      +++|||||++|+..++           .++|++||+||||||||+|||||+++++|||+|||||||||||||||||++||
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           47999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCcHHHHHHHhhcCCCCCCCcchhHHHHHHHHcCCCCccccCchHHHHHHHHHHHHHhhhccCCCCCCC
Q 016970          147 LGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLP  226 (379)
Q Consensus       147 LGr~wr~~~~~~~~~~~~~IL~lF~D~~~apFSIH~iv~~G~~~gk~~GeWfGPs~~a~~i~~L~~~~~~~~~~~~~~~~  226 (379)
                      |||+|||......+++|.+||+||.|+|+|||||||||++|.++||+|||||||+++|++|++|++.        .+...
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            9999999887777889999999999999999999999999999999999999999999999999863        23456


Q ss_pred             eEEEEeeCCCCCCCCCCceEeccccccccccc------------------------cCCCCCCccEEEEEeeeecCCCCC
Q 016970          227 MAIYVVSGDEDGERGGAPVVCIDDASRHCSVF------------------------SKGQADWTPILLLVPLVLGLEKVN  282 (379)
Q Consensus       227 l~v~v~s~~~dge~~~~~~v~~dd~~~~~~~~------------------------~~~~~~w~plLlLiPlRLGld~iN  282 (379)
                      ++|||++++         +++.+|+.++|...                        ......|+|+|||||+|||+|+||
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            899998743         68888877666321                        112346899999999999999999


Q ss_pred             cchHHHHHHhhCCCceeEEecCCCCceEEEEEEecCceEEeCCCCcccccccCCCCCCCCCCccccC-CccccccCCCCc
Q 016970          283 PRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIGKDDLEADTSTYHSD-VIRHIHLDSIDP  361 (379)
Q Consensus       283 p~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~~~~~~~~~~Syhc~-~~~~m~~~~mDP  361 (379)
                      |+|+++||++|++|||||||||||++|+||||+|+|+|||||||+||+|++.... ...+..||||. .+++|++++|||
T Consensus       213 ~~Y~~~L~~~l~lpqsvGiiGGkp~~a~YfiG~q~d~l~YLDPH~~Q~a~~~~~~-~~~~~~s~h~~~~~~~m~~~~lDP  291 (334)
T d2p82a1         213 PVYVDAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLDPHTTQTFVDTEEN-GTVNDQTFHCLQSPQRMNILNLDP  291 (334)
T ss_dssp             GGGHHHHHHHHHSTTEEEEEEEETTEEEEEEEEETTEEEEECCCSEEECCCBCTT-SCBCCGGGBCCSSCEEEEGGGSCS
T ss_pred             HHHHHHHHHHhCCcccceEecCCCCCceEEEEEcCCeEEeecCcccccccccccc-CCcCccceecCCccccCchhhcCC
Confidence            9999999999999999999999999999999999999999999999999976542 23456799995 589999999999


Q ss_pred             ccEEEEEeCChhhhhcc
Q 016970          362 SLAIGFYCRDKGLLVTF  378 (379)
Q Consensus       362 S~alGFyc~~~~Df~df  378 (379)
                      ||+|||||+|++||++|
T Consensus       292 S~~lgF~~~~~~d~~~~  308 (334)
T d2p82a1         292 SVALGFFCKEEKDFDNW  308 (334)
T ss_dssp             EEEEEEEESSHHHHHHH
T ss_pred             CeEEEEEECCHHHHHHH
Confidence            99999999999999998