Citrus Sinensis ID: 029371

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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----
Protein Sequence
MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISLEKTEK
Secondary Structure (PSIPRED)
ccEEEcccccccHHHHHHHcccccEEHHHHHHHHHHcccccEEEEEEEEcccccccccccccccccHHHHHHHHHHHHHHcccEEEEcEEEHHHHHHHHHccccEEEEEEccccccccccccccccccccccccccEEEEEEEEEcccccEEEEEccccccccEEEcHHHHHHHHHcccccccEEEEEcccccc
Secondary Structure Prediction (SSPRO)
cHHHHcccccHHHHHHHHHcccccEEHHHHHHHHHHccccEEEEEEEccccccccccHHHHHHccHHHHHHHHHHHHHHHcccEEEEEEEcHHHHHHHHHccccEEEEEEEccEcccHHHcccccHHHccccccccEEEEEEEEEcccccEEEEEccccccccEEEcHHHHHHHHHHccccccEEEEEEccccc
Coil and Loop (DISEMBL)
mvlrtiginncniqglaeqccttsiWTVDLAYLLQKFNVGFSYFTItlganpnysvetfykeqlptdlVRVDMLFQKARSAGikiecgsisgVEISLMILSGNYIAIALVDQyklshswmedvivpgfygsdsgytgHYILICgydansdefeirdpascrkREKVTLKCLEEARksfgtdedLLLISLEKTEK
Flexible Loop (DISEMBL)
MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSagikiecgsiSGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDpascrkrekVTLKCLEearksfgtdedlllislektek
Low Complexity Region (SEG)
MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISLEKTEK
Disordered region (IsUnstruct)
**LRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRD***CR**EKVTLKCLEE*********DLLLI*******
Disordered Region (DISOPRED)
MVLRT**INNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISLEK***
Disordered Region (DISEMBL)
MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISLEKTEK
Disordered Region (DISPRO)
MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISLEK***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISLEKTEK
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	194	2.2.26 [Sep-21-2011]
Q8BZI6	239	Protein GUCD1 OS=Mus musc	yes	no	0.969	0.786	0.323	5e-20
Q96NT3	240	Protein GUCD1 OS=Homo sap	yes	no	0.948	0.766	0.315	1e-17

>sp|Q8BZI6|GUCD1_MOUSE Protein GUCD1 OS=Mus musculus GN=Gucd1 PE=2 SV=2

 Score = 97.4 bits (241), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 65/201 (32%), Positives = 110/201 (54%), Gaps = 13/201 (6%)

Query: 1   MVLRTIG-INNCNIQ-GLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVET 58
           MVLR +G +++   +  L E   T SIWT+DLAYL++ F V   + T TLG +  Y  ++
Sbjct: 40  MVLRYLGQLDDGEFENALQELQLTRSIWTIDLAYLMRHFGVRHRFCTQTLGVDKGYKNQS 99

Query: 59  FYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHS 118
           FY++   T+  RV+ LF +A++  +++E  ++S  +I + +  G ++AI LV+   L H 
Sbjct: 100 FYRKHFDTEETRVNQLFAQAKACKVQVEKCTVSVQDIQVHLAQG-HVAIVLVNSGVL-HC 157

Query: 119 WMEDVIVPGFYGSDSG---------YTGHYILICGYDANSDEFEIRDPASCRKREKVTLK 169
            +    V     + SG         Y GH+I++ GY+  +      +PA   +    ++ 
Sbjct: 158 DLCSSPVKYCCFTPSGHRCFCRTPDYQGHFIVLRGYNRATGCIFYNNPAYADRMCSTSIS 217

Query: 170 CLEEARKSFGTDEDLLLISLE 190
             EEAR S+GTDED+L + L+
Sbjct: 218 NFEEARTSYGTDEDILFVYLD 238

Mus musculus (taxid: 10090)

>sp|Q96NT3|GUCD1_HUMAN Protein GUCD1 OS=Homo sapiens GN=GUCD1 PE=2 SV=2

 Score = 89.7 bits (221), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 65/206 (31%), Positives = 107/206 (51%), Gaps = 22/206 (10%)

Query: 1   MVLRTIG-INNCNIQ-GLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVET 58
           MVLR +G +++   +  L +   T SIWT+DLAYL+  F V   + T TLG +  Y  ++
Sbjct: 40  MVLRYLGQLDDSEFERALQKLQLTRSIWTIDLAYLMHHFGVRHRFCTQTLGVDKGYKNQS 99

Query: 59  FYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHS 118
           FY++   T+  RV+ LF +A++  + +E  ++S  +I   +  G ++AI LV+   L H 
Sbjct: 100 FYRKHFDTEETRVNQLFAQAKACKVLVEKCTVSVKDIQAHLAQG-HVAIVLVNSGVL-HC 157

Query: 119 WMEDVIVPGFYGSDSG---------YTGHYILICGYDANS-----DEFEIRDPASCRKRE 164
            +    V     + SG         Y GH+I++ GY+  +     +     DP  C    
Sbjct: 158 DLCSSPVKYCCFTPSGHHCFCRTPDYQGHFIVLRGYNRATGCIFYNNPAYADPGMC---- 213

Query: 165 KVTLKCLEEARKSFGTDEDLLLISLE 190
             ++   EEAR S+GTDED+L + L+
Sbjct: 214 STSISNFEEARTSYGTDEDILFVYLD 239

Homo sapiens (taxid: 9606)

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	194
225449311	280	PREDICTED: uncharacterized protein C22or	1.0	0.692	0.768	3e-83
224098493	269	predicted protein [Populus trichocarpa]	0.989	0.713	0.755	5e-83
255566548	299	Protein C22orf13, putative [Ricinus comm	1.0	0.648	0.773	5e-80
356539907	282	PREDICTED: uncharacterized protein C22or	0.989	0.680	0.713	2e-77
351723633	281	guanylyl cyclase [Glycine max] gi|116668	0.984	0.679	0.713	5e-77
163111774	286	guanylyl cyclase [Ipomoea nil]	0.984	0.667	0.727	8e-76
350538261	275	guanylyl cyclase [Solanum lycopersicum]	0.989	0.698	0.730	1e-75
297810693	274	hypothetical protein ARALYDRAFT_487393 [	0.979	0.693	0.710	1e-72
449441342	282	PREDICTED: uncharacterized protein C22or	1.0	0.687	0.675	5e-72
18415044	274	guanylyl cyclase 1 [Arabidopsis thaliana	0.984	0.697	0.696	1e-71

>gi|225449311|ref|XP_002277052.1| PREDICTED: uncharacterized protein C22orf13 homolog [Vitis vinifera] gi|296086142|emb|CBI31583.3| unnamed protein product [Vitis vinifera]

 Score =  313 bits (801), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 149/194 (76%), Positives = 169/194 (87%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           MVLRT GINNCNIQ L E CCTTSIWTVDLAYLLQKF+V FSYFT+TLGANPN+SVETFY
Sbjct: 75  MVLRTFGINNCNIQALEELCCTTSIWTVDLAYLLQKFSVSFSYFTVTLGANPNFSVETFY 134

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           K+QL TDLVRVD LF+KA  AGI I+C SISG EISL+ILSG YIAIAL+DQYKLS SW+
Sbjct: 135 KDQLATDLVRVDSLFKKAMEAGIDIQCRSISGDEISLLILSGKYIAIALIDQYKLSQSWL 194

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           E+V V GF G  S YTGHY++ICGYD ++DEFEIRDPAS RK E+++  CLEEARKSFGT
Sbjct: 195 ENVHVSGFCGGYSEYTGHYVVICGYDVDTDEFEIRDPASSRKHERISSNCLEEARKSFGT 254

Query: 181 DEDLLLISLEKTEK 194
           DEDLLLIS+EKT++
Sbjct: 255 DEDLLLISMEKTKR 268

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224098493|ref|XP_002311194.1| predicted protein [Populus trichocarpa] gi|222851014|gb|EEE88561.1| predicted protein [Populus trichocarpa]

 Score =  312 bits (799), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 145/192 (75%), Positives = 167/192 (86%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           M L TIGINNC+IQGLA+ CCT+SIWTVDLAYLLQK++V FS++T+TLGANPNYSVETFY
Sbjct: 72  MALNTIGINNCSIQGLADLCCTSSIWTVDLAYLLQKYSVSFSFYTVTLGANPNYSVETFY 131

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KEQLP DLVRVDMLFQKAR  GI I+C SI+  EISL ILSG YIAIALV+QYKLSHSW+
Sbjct: 132 KEQLPADLVRVDMLFQKARGEGINIQCRSINETEISLFILSGKYIAIALVNQYKLSHSWL 191

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           E+ I+PG  G +SGY GHYI+ICGYD  +DEFEIRDPA+ RK E+++ +CLEEARKSFGT
Sbjct: 192 ENAILPGLNGGNSGYAGHYIVICGYDTGTDEFEIRDPAASRKHERMSSRCLEEARKSFGT 251

Query: 181 DEDLLLISLEKT 192
           DEDLLLISLE  
Sbjct: 252 DEDLLLISLENA 263

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255566548|ref|XP_002524259.1| Protein C22orf13, putative [Ricinus communis] gi|223536536|gb|EEF38183.1| Protein C22orf13, putative [Ricinus communis]

 Score =  302 bits (773), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 150/194 (77%), Positives = 166/194 (85%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           M L TIGINNC+IQ LAE C TTSIWTVDLAYLLQKF+V FSYFT+TLGANPNYS ETFY
Sbjct: 42  MALNTIGINNCSIQALAELCSTTSIWTVDLAYLLQKFSVRFSYFTVTLGANPNYSAETFY 101

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KEQLPTDLVRVD LFQKAR  GI I+C SI+  EISL ILSG YIA+ALVDQYKLS SW+
Sbjct: 102 KEQLPTDLVRVDRLFQKAREKGINIQCRSINEKEISLFILSGKYIAVALVDQYKLSRSWV 161

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           EDVI+ G   S S YTGHY++ICGYDAN+DEFEIRDPAS R  E+++ KCLEEARKSFGT
Sbjct: 162 EDVILSGLKDSKSSYTGHYVVICGYDANADEFEIRDPASSRISERISSKCLEEARKSFGT 221

Query: 181 DEDLLLISLEKTEK 194
           DEDLLLISLEK+ +
Sbjct: 222 DEDLLLISLEKSNE 235

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356539907|ref|XP_003538434.1| PREDICTED: uncharacterized protein C22orf13 homolog [Glycine max]

 Score =  293 bits (751), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 137/192 (71%), Positives = 162/192 (84%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           MVL+TIG+NNC+IQ LAE CCTTSIWTVDLAYLLQ+F V FSYFT+T GANPNYS+E+FY
Sbjct: 73  MVLKTIGVNNCDIQTLAELCCTTSIWTVDLAYLLQRFAVAFSYFTVTFGANPNYSIESFY 132

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KE+LP DLVRVD+LFQKA  AGI I+C SIS  EIS++ILSG YIAI LVD  KLSH   
Sbjct: 133 KEELPNDLVRVDLLFQKAVEAGIDIQCRSISEEEISILILSGKYIAIVLVDHNKLSHVLQ 192

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           EDV +PG + ++ GYTGHY+LICGYDA +D FEIRDPAS +K ++++ K LEEAR +FGT
Sbjct: 193 EDVPMPGLFSNNPGYTGHYVLICGYDAGADMFEIRDPASSKKHKRISSKSLEEARNTFGT 252

Query: 181 DEDLLLISLEKT 192
           DEDLLLISLEK+
Sbjct: 253 DEDLLLISLEKS 264

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723633|ref|NP_001236262.1| guanylyl cyclase [Glycine max] gi|116668552|gb|ABK15530.1| guanylyl cyclase [Glycine max]

 Score =  292 bits (747), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 137/192 (71%), Positives = 164/192 (85%), Gaps = 1/192 (0%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           MVL+TIG+NNC+IQ LAE CCTTSIWTVDLAYLLQ+F V FSYFT+T GANPNY +E+FY
Sbjct: 73  MVLKTIGVNNCDIQTLAELCCTTSIWTVDLAYLLQRFAVAFSYFTVTFGANPNYCIESFY 132

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KE+LP DLVRVD+LFQKA  AGI I+C SIS  EIS++ILSG Y+AIALVD  KLSH  +
Sbjct: 133 KEELPNDLVRVDLLFQKAMEAGIDIQCRSISAEEISILILSGKYVAIALVDHNKLSHV-L 191

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           +DV VPG + ++SGYTGHY+LICGYDA +D FEIRDP S +K ++++ K LEEARK+FGT
Sbjct: 192 QDVPVPGVFSNNSGYTGHYVLICGYDAGADMFEIRDPGSSKKHKRISSKSLEEARKAFGT 251

Query: 181 DEDLLLISLEKT 192
           DEDLLLISLEK+
Sbjct: 252 DEDLLLISLEKS 263

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|163111774|gb|ABG67691.2| guanylyl cyclase [Ipomoea nil]

 Score =  288 bits (737), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 139/191 (72%), Positives = 157/191 (82%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           MVLRT+GI N NI+ LA+ C TTSIWTVDLAY+L+KF+V FSYFTIT+GANPN+ VETFY
Sbjct: 83  MVLRTLGIYNSNIEELAQSCSTTSIWTVDLAYMLRKFSVNFSYFTITIGANPNFCVETFY 142

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KEQLP+DL RV+ LFQKAR AGI IEC SISG E+ ++ILSGN IAIALVD +KLSH W 
Sbjct: 143 KEQLPSDLARVNTLFQKAREAGINIECRSISGEEMCMLILSGNCIAIALVDHHKLSHYWS 202

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           ED  +  FY    GYTGHY++ICGYDA  DEFEIRDPAS RK EKVT + L EARKSFGT
Sbjct: 203 EDGCIQNFYPKSPGYTGHYVVICGYDAAMDEFEIRDPASSRKHEKVTSRRLAEARKSFGT 262

Query: 181 DEDLLLISLEK 191
           DEDLLLI LEK
Sbjct: 263 DEDLLLIHLEK 273

Source: Ipomoea nil

Species: Ipomoea nil

Genus: Ipomoea

Family: Convolvulaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350538261|ref|NP_001234334.1| guanylyl cyclase [Solanum lycopersicum] gi|116668554|gb|ABK15531.1| guanylyl cyclase [Solanum lycopersicum]

 Score =  287 bits (735), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 141/193 (73%), Positives = 161/193 (83%), Gaps = 1/193 (0%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           MVLR +GI + N+Q L E CCTTSIWTVDLAYLL+KF+V FSYFT+TLGANP++SVETFY
Sbjct: 70  MVLRFLGIKDGNMQELEEFCCTTSIWTVDLAYLLKKFSVSFSYFTVTLGANPSFSVETFY 129

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KEQLP DLVRVDMLFQKAR AGI IEC SIS  EISL+ILSGN++AI LVDQYKLSHSW+
Sbjct: 130 KEQLPNDLVRVDMLFQKARDAGISIECRSISSEEISLLILSGNFLAITLVDQYKLSHSWL 189

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
            DV           YTGHYI+ICGYD+++DEFEIRDPAS RK  +VT KCLE+ARKSFGT
Sbjct: 190 -DVCASDLCIDTPDYTGHYIVICGYDSDADEFEIRDPASSRKYGRVTSKCLEKARKSFGT 248

Query: 181 DEDLLLISLEKTE 193
           DEDLLLI +E+ E
Sbjct: 249 DEDLLLIRVEREE 261

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297810693|ref|XP_002873230.1| hypothetical protein ARALYDRAFT_487393 [Arabidopsis lyrata subsp. lyrata] gi|297319067|gb|EFH49489.1| hypothetical protein ARALYDRAFT_487393 [Arabidopsis lyrata subsp. lyrata]

 Score =  277 bits (709), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 135/190 (71%), Positives = 158/190 (83%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           MVLR IGI +C ++ LAE C T SIWTVDLAYLLQKF V FSY+TIT GANPNYS+E FY
Sbjct: 77  MVLRAIGIASCTLEDLAEICSTNSIWTVDLAYLLQKFCVEFSYYTITFGANPNYSIEEFY 136

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KEQLP DLVRVD+LF+KA  +GI I+C ++S  EIS ++LSGNYIAIALVDQ KLS SW+
Sbjct: 137 KEQLPEDLVRVDLLFRKAHESGIIIQCRTVSIHEISCLLLSGNYIAIALVDQDKLSKSWL 196

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           E+VIV G + S+S YTGHYI+ICGYDA  DEFEIRDPAS +  E+++ KCLE ARKSFGT
Sbjct: 197 EEVIVAGLHSSNSCYTGHYIVICGYDAVRDEFEIRDPASSKIHERISSKCLENARKSFGT 256

Query: 181 DEDLLLISLE 190
           DEDLLLI+LE
Sbjct: 257 DEDLLLINLE 266

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441342|ref|XP_004138441.1| PREDICTED: uncharacterized protein C22orf13 homolog [Cucumis sativus] gi|449495307|ref|XP_004159795.1| PREDICTED: uncharacterized protein C22orf13 homolog [Cucumis sativus]

 Score =  275 bits (704), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 131/194 (67%), Positives = 160/194 (82%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           MVL  +GIN C+IQ LA+ C T SIWTVDLAYLLQ+F+V FSYFT+T GA+PNYSVE+FY
Sbjct: 73  MVLNILGINGCDIQSLADLCGTRSIWTVDLAYLLQRFSVSFSYFTVTFGADPNYSVESFY 132

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KE+L  DLVRVD LFQKA  AGIKIEC S+S  +ISL++LSG Y+AI LVDQ +LS SW+
Sbjct: 133 KEELANDLVRVDRLFQKALEAGIKIECRSLSKEDISLLMLSGIYVAIVLVDQRRLSGSWL 192

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           ED++V G   SDS YTGHYI++CGYDA++DEFEIRDPAS RK  +++  CL+ ARK FGT
Sbjct: 193 EDILVSGICDSDSSYTGHYIVVCGYDADADEFEIRDPASTRKHVRISSNCLDGARKCFGT 252

Query: 181 DEDLLLISLEKTEK 194
           DED+LL+SLEK+ K
Sbjct: 253 DEDILLVSLEKSGK 266

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18415044|ref|NP_568159.1| guanylyl cyclase 1 [Arabidopsis thaliana] gi|21436487|gb|AAM51559.1| putative guanylate cyclase [Arabidopsis thaliana] gi|87116632|gb|ABD19680.1| At5g05930 [Arabidopsis thaliana] gi|110738420|dbj|BAF01136.1| hypothetical protein [Arabidopsis thaliana] gi|332003558|gb|AED90941.1| guanylyl cyclase 1 [Arabidopsis thaliana]

 Score =  274 bits (701), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 133/191 (69%), Positives = 157/191 (82%)

Query: 1   MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
           MVLR  GI +C ++ LAE C T SIWTVDLAYLLQKF V FSY+TIT GANPNYS+E FY
Sbjct: 77  MVLRASGIASCTLEDLAEICSTNSIWTVDLAYLLQKFCVEFSYYTITFGANPNYSIEEFY 136

Query: 61  KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
           KEQLP DLVRVD+LF+KA  +GI I+C S+S  EIS ++LSGNYIAIALVDQ KLS SW+
Sbjct: 137 KEQLPEDLVRVDLLFRKAHESGIIIQCRSVSIHEISCLLLSGNYIAIALVDQDKLSKSWL 196

Query: 121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
           E+V+V G + S+S YTGHY++ICGYDA  DEFEIRDPAS +  E+++ KCLE ARKSFGT
Sbjct: 197 EEVLVSGLHSSNSCYTGHYVVICGYDAVRDEFEIRDPASSKIHERISSKCLENARKSFGT 256

Query: 181 DEDLLLISLEK 191
           DEDLLLI+LE 
Sbjct: 257 DEDLLLINLEN 267

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	194
TAIR|locus:2153674	274	GC1 "AT5G05930" [Arabidopsis t	0.979	0.693	0.7	5.6e-68
MGI|MGI:1916028	239	Gucd1 "guanylyl cyclase domain	0.974	0.790	0.31	1.3e-20
ZFIN|ZDB-GENE-060929-872	226	gucd1 "guanylyl cyclase domain	0.850	0.730	0.327	5.1e-19

TAIR|locus:2153674 GC1 "AT5G05930" [Arabidopsis thaliana (taxid:3702)]

 Score = 690 (248.0 bits), Expect = 5.6e-68, P = 5.6e-68
 Identities = 133/190 (70%), Positives = 157/190 (82%)

Query:     1 MVLRTIGINNCNIQGLAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFY 60
             MVLR  GI +C ++ LAE C T SIWTVDLAYLLQKF V FSY+TIT GANPNYS+E FY
Sbjct:    77 MVLRASGIASCTLEDLAEICSTNSIWTVDLAYLLQKFCVEFSYYTITFGANPNYSIEEFY 136

Query:    61 KEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWM 120
             KEQLP DLVRVD+LF+KA  +GI I+C S+S  EIS ++LSGNYIAIALVDQ KLS SW+
Sbjct:   137 KEQLPEDLVRVDLLFRKAHESGIIIQCRSVSIHEISCLLLSGNYIAIALVDQDKLSKSWL 196

Query:   121 EDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGT 180
             E+V+V G + S+S YTGHY++ICGYDA  DEFEIRDPAS +  E+++ KCLE ARKSFGT
Sbjct:   197 EEVLVSGLHSSNSCYTGHYVVICGYDAVRDEFEIRDPASSKIHERISSKCLENARKSFGT 256

Query:   181 DEDLLLISLE 190
             DEDLLLI+LE
Sbjct:   257 DEDLLLINLE 266

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

MGI|MGI:1916028 Gucd1 "guanylyl cyclase domain containing 1" [Mus musculus (taxid:10090)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 62/200 (31%), Positives = 107/200 (53%)

Query:     1 MVLRTIG-INNCNIQG-LAEQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVET 58
             MVLR +G +++   +  L E   T SIWT+DLAYL++ F V   + T TLG +  Y  ++
Sbjct:    40 MVLRYLGQLDDGEFENALQELQLTRSIWTIDLAYLMRHFGVRHRFCTQTLGVDKGYKNQS 99

Query:    59 FYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHS 118
             FY++   T+  RV+ LF +A++  +++E  ++S  +I + +  G ++AI LV+   L   
Sbjct:   100 FYRKHFDTEETRVNQLFAQAKACKVQVEKCTVSVQDIQVHLAQG-HVAIVLVNSGVLHCD 158

Query:   119 WMEDVI-----VPG---FYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKC 170
                  +      P     +     Y GH+I++ GY+  +      +PA   +    ++  
Sbjct:   159 LCSSPVKYCCFTPSGHRCFCRTPDYQGHFIVLRGYNRATGCIFYNNPAYADRMCSTSISN 218

Query:   171 LEEARKSFGTDEDLLLISLE 190
              EEAR S+GTDED+L + L+
Sbjct:   219 FEEARTSYGTDEDILFVYLD 238

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-060929-872 gucd1 "guanylyl cyclase domain containing 1" [Danio rerio (taxid:7955)]

 Score = 228 (85.3 bits), Expect = 5.1e-19, P = 5.1e-19
 Identities = 57/174 (32%), Positives = 93/174 (53%)

Query:    22 TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSA 81
             T S+WT+DLAYL+ K  V   + T TLG +  +  ++FYK+   T+  RV+ LF KA S 
Sbjct:    50 TESVWTIDLAYLMCKLGVRHCFCTQTLGVDKGFRNQSFYKKHFDTEEDRVNELFLKAESK 109

Query:    82 GIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVI-----VP-G--FYGSDS 133
             G+ ++  S++  EI   +  G ++AI LV+   L        +     +P G   +    
Sbjct:   110 GVLVKKCSVTVQEIQSHLEQG-HVAIVLVNAVLLVCELCSTPVKYCCFLPVGQKCFCRKP 168

Query:   134 GYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLI 187
              Y GH++++CG++  +      +PA   +    +    EEAR+S+GTDED+L I
Sbjct:   169 DYQGHFVVVCGFNRKTSSIFYNNPAYSDRVCCTSFSNFEEARRSYGTDEDILFI 222


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.321   0.137   0.409    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      194       194   0.00076  111 3  11 22  0.45    32
                                                     31  0.43    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  3
  No. of states in DFA:  605 (64 KB)
  Total size of DFA:  173 KB (2101 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  17.56u 0.12s 17.68t   Elapsed:  00:00:01
  Total cpu time:  17.56u 0.12s 17.68t   Elapsed:  00:00:01
  Start:  Fri May 10 17:23:27 2013   End:  Fri May 10 17:23:28 2013

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	194
pfam09778	212	pfam09778, Guanylate_cyc_2, Guanylylate cyclase	2e-92

>gnl|CDD|220395 pfam09778, Guanylate_cyc_2, Guanylylate cyclase

 Score =  268 bits (687), Expect = 2e-92
 Identities = 102/196 (52%), Positives = 130/196 (66%), Gaps = 10/196 (5%)

Query: 1   MVLRTIGINNCNIQGLAEQCC----TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSV 56
           MVLRT+G ++   +   E CC    TTSIWT+DLAYLL+KF V  SYFT TLGANPNYSV
Sbjct: 19  MVLRTLGRDSELTE-FEEICCELGFTTSIWTIDLAYLLKKFGVRHSYFTQTLGANPNYSV 77

Query: 57  ETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLS 116
           ETFYK+    D VRV+ LFQKA SAGI +EC S+S  EI   +LSG+ +AI LV+   L 
Sbjct: 78  ETFYKKHFDADEVRVNELFQKAESAGIDVECRSVSIQEIQEHLLSGH-VAILLVNASLLY 136

Query: 117 ----HSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLE 172
                      +    +   S Y GHY+++CGYD  +D+FE R+PAS  +  +++ K LE
Sbjct: 137 CDLCKYCCFLPVGQKCFCRKSDYMGHYVVLCGYDKKTDKFEYRNPASSDRVCRISFKSLE 196

Query: 173 EARKSFGTDEDLLLIS 188
           EARKS+GTDED+LLI 
Sbjct: 197 EARKSYGTDEDILLIY 212

Members of this family of proteins catalyze the conversion of guanosine triphosphate (GTP) to 3',5'-cyclic guanosine monophosphate (cGMP) and pyrophosphate. Length = 212

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	194
PF09778	212	Guanylate_cyc_2: Guanylylate cyclase; InterPro: IP	100.0
KOG4621	167	consensus Uncharacterized conserved protein [Funct	100.0
cd02549	141	Peptidase_C39A A sub-family of peptidase family C3	99.4
PF13529	144	Peptidase_C39_2: Peptidase_C39 like family; PDB: 3	99.08
PF14399	317	Transpep_BrtH: NlpC/p60-like transpeptidase	99.07
PF11814	207	DUF3335: Peptidase_C39 like family; InterPro: IPR0	99.07
COG4990	195	Uncharacterized protein conserved in bacteria [Fun	98.77
cd02418	136	Peptidase_C39B A sub-family of peptidase family C3	98.42
cd02259	122	Peptidase_C39_like Peptidase family C39 mostly con	98.23
PF03412	131	Peptidase_C39: Peptidase C39 family This is family	98.09
cd02423	129	Peptidase_C39G A sub-family of peptidase family C3	97.87
cd02424	129	Peptidase_C39E A sub-family of peptidase family C3	97.81
cd02420	125	Peptidase_C39D A sub-family of peptidase family C3	97.7
PF12385	166	Peptidase_C70: Papain-like cysteine protease AvrRp	97.63
cd02419	127	Peptidase_C39C A sub-family of peptidase family C3	97.52
cd02425	126	Peptidase_C39F A sub-family of peptidase family C3	97.51
cd02417	121	Peptidase_C39_likeA A sub-family of peptidase C39	97.51
cd02421	124	Peptidase_C39_likeD A sub-family of peptidase fami	97.39
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	96.83
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	96.49
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	96.2
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	96.05
PF05543	175	Peptidase_C47: Staphopain peptidase C47; InterPro:	95.82
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	95.69
PF05023	212	Phytochelatin: Phytochelatin synthase; InterPro: I	95.63
cd02619	223	Peptidase_C1 C1 Peptidase family (MEROPS database	95.16
cd02248	210	Peptidase_C1A Peptidase C1A subfamily (MEROPS data	94.44
PF00112	219	Peptidase_C1: Papain family cysteine protease This	94.28
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	94.2
cd02620	236	Peptidase_C1A_CathepsinB Cathepsin B group; compos	89.34
cd02698	239	Peptidase_C1A_CathepsinX Cathepsin X; the only pap	88.96
cd00307	84	RuBisCO_small_like Ribulose bisphosphate carboxyla	87.88
cd02621	243	Peptidase_C1A_CathepsinC Cathepsin C; also known a	87.61
COG4451	127	RbcS Ribulose bisphosphate carboxylase small subun	86.57
cd03527	99	RuBisCO_small Ribulose bisphosphate carboxylase/ox	85.73

>PF09778 Guanylate_cyc_2: Guanylylate cyclase; InterPro: IPR018616 Members of this family of proteins catalyse the conversion of guanosine triphosphate (GTP) to 3',5'-cyclic guanosine monophosphate (cGMP) and pyrophosphate

Probab=100.00  E-value=2.3e-79  Score=516.68  Aligned_cols=186  Identities=51%  Similarity=0.812  Sum_probs=179.4

Q ss_pred             CeeeccCCCCCChhHHHhhhc----CCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHH
Q 029371            1 MVLRTIGINNCNIQGLAEQCC----TTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQ   76 (194)
Q Consensus         1 MvL~~~g~~~~~~~~l~~~c~----~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~   76 (194)
                      |||+++|+++++ ++|.++|.    |+|||||||||||++|||+|+|||+|+|+||+|++++||+++|++|++||++||+
T Consensus        19 MvL~~~~~~~~~-~~~~~~c~~~~~t~SiWTIDLayLL~~f~v~~~f~T~TlGvnp~y~~~~FY~~~~~~D~~RV~~lF~   97 (212)
T PF09778_consen   19 MVLRYLGRNNFL-ANFEEICQEEGFTTSIWTIDLAYLLRRFGVRHSFYTVTLGVNPNYSVESFYKKNFDEDENRVNRLFQ   97 (212)
T ss_pred             HHHHHcCccchH-HHHHHHHHHccCCcceehhHHHHHHHHcCCCeeEecCccccCcCccccchHHHhhhhHHHHHHHHHH
Confidence            999999999777 99999998    9999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccc----cccCccCCCCCCcceEEEEEEeeCCCceE
Q 029371           77 KARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDV----IVPGFYGSDSGYTGHYILICGYDANSDEF  152 (194)
Q Consensus        77 ~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~----~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~  152 (194)
                      +|++.||.|++|++|++||++||++|+ |||||||+++|+|++++..    +.+++++++++|+||||||||||+++++|
T Consensus        98 ~A~~~gi~V~~rsvs~~ei~~hl~~g~-~aIvLVd~~~L~C~~Ck~~~~~~~~~~~~~~~~~Y~GHYVVlcGyd~~~~~~  176 (212)
T PF09778_consen   98 KAKAAGINVEKRSVSIQEIIEHLSSGG-PAIVLVDASLLHCDLCKSNCFDPIGSKCFGRSPDYQGHYVVLCGYDAATKEF  176 (212)
T ss_pred             HHHHcCCceEEeeccHHHHHHHHhCCC-cEEEEEccccccChhhcccccccccccccCCCCCccEEEEEEEeecCCCCeE
Confidence            999999999999999999999999996 9999999999999876443    44689999999999999999999999999


Q ss_pred             EEeCCCCCCceeeeChHHHHHHHhhCCCCccEEEEE
Q 029371          153 EIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLIS  188 (194)
Q Consensus       153 ~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeDil~I~  188 (194)
                      +|||||+++++|++|+++||+||+||||||||||||
T Consensus       177 ~yrdPa~~~~~c~~s~~~ld~AR~s~GTDeDii~Iy  212 (212)
T PF09778_consen  177 EYRDPASSDRVCRVSPEALDEARKSFGTDEDIIFIY  212 (212)
T ss_pred             EEeCCccccceeecCHHHHHHHHhccCCCcceEEeC
Confidence            999999999999999999999999999999999997

>KOG4621 consensus Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=9.4e-63  Score=388.24  Aligned_cols=158  Identities=51%  Similarity=0.837  Sum_probs=150.8

Q ss_pred             HhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCC
Q 029371           34 LQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQY  113 (194)
Q Consensus        34 L~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~  113 (194)
                      |++|+|+|+|||+|+|+||+|+.|+|||++||+|+.||++||++|+++||.||+++||+.+|+.+|++|+++||||||+.
T Consensus         1 lhhF~V~~rfcT~T~GadkgYk~eeFYkehfd~detRVd~LFakA~ac~iiie~csVSi~dIqahLaqGnhiAIaLVdq~   80 (167)
T KOG4621|consen    1 LHHFCVEFRFCTITFGADKGYKIEEFYKEHFDEDETRVDLLFAKAHACGIIIECCSVSIHDIQAHLAQGNHIAIALVDQD   80 (167)
T ss_pred             CceeeEEEEEEEEEecCCCCcchHHHHHHhCChHHHHHHHHHHHhhhcceEEEEeeeeHHHHHHHHhcCCeEEEEEecCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Cccccccccc----cc-c---CccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCC-ceeeeChHHHHHHHhhCCCCccE
Q 029371          114 KLSHSWMEDV----IV-P---GFYGSDSGYTGHYILICGYDANSDEFEIRDPASCR-KREKVTLKCLEEARKSFGTDEDL  184 (194)
Q Consensus       114 ~L~~~~~~~~----~~-~---~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~-~~~~~s~~~~e~AR~s~GTDeDi  184 (194)
                      +|+|+|+++.    |. |   -|||+.|.|+||||||||||+++++|+|||||+++ -+|++|.++||+||+||||||||
T Consensus        81 ~Lhcdlceeplk~ccfspnghhcfcrtp~YqGHfiVi~GYd~a~~c~~~ndPA~adpg~c~~Sik~fEeARkSfGTDEDi  160 (167)
T KOG4621|consen   81 KLHCDLCEEPLKSCCFSPNGHHCFCRTPCYQGHFIVICGYDAARDCFEINDPASADPGHCRISIKCFEEARKSFGTDEDI  160 (167)
T ss_pred             ceehHHHHhHHHHhccCCCCccccccCCcccccEEEEeccccccCeEEEcCcccCCCcceeehhhHHHHHHhccCCCcce
Confidence            9999997544    32 3   58999999999999999999999999999999999 59999999999999999999999


Q ss_pred             EEEEcCC
Q 029371          185 LLISLEK  191 (194)
Q Consensus       185 l~I~~~~  191 (194)
                      |||++++
T Consensus       161 Lfi~Ldn  167 (167)
T KOG4621|consen  161 LFINLDN  167 (167)
T ss_pred             EEEecCC
Confidence            9999874

>cd02549 Peptidase_C39A A sub-family of peptidase family C39

Probab=99.40  E-value=2.1e-12  Score=99.29  Aligned_cols=130  Identities=22%  Similarity=0.260  Sum_probs=87.0

Q ss_pred             hhhcCCceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHH-HHHcCCceEeccccHHHHH
Q 029371           18 EQCCTTSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQK-ARSAGIKIECGSISGVEIS   96 (194)
Q Consensus        18 ~~c~~~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~-A~~~gi~v~~rsvs~~eI~   96 (194)
                      .-|..+|     |+++|+.+|.+..--...  .  ......|..+.   .+.....+-.. |++.|......+.+.. |.
T Consensus         5 ~~C~~~s-----lamvl~~~g~~~~~~~l~--~--~~~~~~~~~~~---~g~~~~~l~~~~a~~~G~~~~~~~~~~~-~~   71 (141)
T cd02549           5 NGCGPTS-----LAMVLSYLGVKVTKPQLA--A--EGNTYDFAKDG---YGTYPKPIVSAAARKYGLVVRPLTGLLA-LL   71 (141)
T ss_pred             CccHHHH-----HHHHHHhcCCCCCHHHHH--h--hccccccCCCC---CCcCHHHHHHHHHhhCCCcEEECCCHHH-HH
Confidence            3466565     899999999875422211  0  01112222111   12223555556 8889987655444444 77


Q ss_pred             HHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371           97 LMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK  176 (194)
Q Consensus        97 ~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~  176 (194)
                      +++.+|. |+|+.++...                 .....||||||.||| ..+.+++.||+.. ....++.+.|+++|.
T Consensus        72 ~~l~~~~-Pvi~~~~~~~-----------------~~~~~gH~vVv~g~~-~~~~~~i~DP~~~-~~~~~~~~~f~~~w~  131 (141)
T cd02549          72 RQLAAGH-PVIVSVNLGV-----------------SITPSGHAMVVIGYD-RKGNVYVNDPGGG-RRLVVSFDEFEKAWK  131 (141)
T ss_pred             HHHHCCC-eEEEEEecCc-----------------ccCCCCeEEEEEEEc-CCCCEEEECCCCC-cCEEEeHHHHHHHHH
Confidence            8888995 9999998621                 134789999999999 3445999999875 456799999999999


Q ss_pred             hCCC
Q 029371          177 SFGT  180 (194)
Q Consensus       177 s~GT  180 (194)
                      +.|.
T Consensus       132 ~~~~  135 (141)
T cd02549         132 RMGG  135 (141)
T ss_pred             HcCC
Confidence            9994

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are

>PF13529 Peptidase_C39_2: Peptidase_C39 like family; PDB: 3ERV_A

Probab=99.08  E-value=4.9e-10  Score=84.68  Aligned_cols=77  Identities=27%  Similarity=0.329  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHcCC-ceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCC
Q 029371           71 VDMLFQKARSAGI-KIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS  149 (194)
Q Consensus        71 V~~lF~~A~~~gi-~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~  149 (194)
                      ...+-+.+++.|. .......++++|++.|.+|+ |+|+.++.......   ..      .....+.||||||+|||...
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~G~-Pvi~~~~~~~~~~~---~~------~~~~~~~~H~vvi~Gy~~~~  136 (144)
T PF13529_consen   67 PDDLARYLEKYGYKATDTSDASFDDIKQEIDAGR-PVIVSVNSGWRPPN---GD------GYDGTYGGHYVVIIGYDEDG  136 (144)
T ss_dssp             HHHHHHHHHHH-TTEEE-TTS-HHHHHHHHHTT---EEEEEETTSS--T---TE------EEEE-TTEEEEEEEEE-SSE
T ss_pred             cHHHHHHHHHcCcceeeccCCcHHHHHHHHHCCC-cEEEEEEcccccCC---CC------CcCCCcCCEEEEEEEEeCCC
Confidence            3566667777887 44567889999999999995 99999986533220   00      00134899999999999977


Q ss_pred             ceEEEeCCC
Q 029371          150 DEFEIRDPA  158 (194)
Q Consensus       150 ~~~~~~DPa  158 (194)
                       .|++.||+
T Consensus       137 -~~~v~DP~  144 (144)
T PF13529_consen  137 -YVYVNDPW  144 (144)
T ss_dssp             --EEEE-TT
T ss_pred             -EEEEeCCC
Confidence             89999995

>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase

Probab=99.07  E-value=1.3e-09  Score=94.86  Aligned_cols=93  Identities=29%  Similarity=0.338  Sum_probs=72.6

Q ss_pred             HHHHHcCCceEe-ccccHH----HHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCc
Q 029371           76 QKARSAGIKIEC-GSISGV----EISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD  150 (194)
Q Consensus        76 ~~A~~~gi~v~~-rsvs~~----eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~  150 (194)
                      ..++.+|+.++. .+-+.+    .|.+.|.+|+ |||+.||...|.-...         .....+.+|+||+.|||.+.+
T Consensus        57 ~~~~~lG~~~~~~~~~~~~~~~~~l~~~l~~g~-pv~~~~D~~~lpy~~~---------~~~~~~~~H~i~v~G~d~~~~  126 (317)
T PF14399_consen   57 NLLERLGIKYEWREFSSPDEAWEELKEALDAGR-PVIVWVDMYYLPYRPN---------YYKKHHADHYIVVYGYDEEED  126 (317)
T ss_pred             HHHHHCCceEEEEecCCHHHHHHHHHHHHhCCC-ceEEEeccccCCCCcc---------ccccccCCcEEEEEEEeCCCC
Confidence            445668998774 444555    5677788895 9999999999954210         113457899999999999999


Q ss_pred             eEEEeCCCCCCceeeeChHHHHHHHhhCC
Q 029371          151 EFEIRDPASCRKREKVTLKCLEEARKSFG  179 (194)
Q Consensus       151 ~~~~~DPa~~~~~~~~s~~~~e~AR~s~G  179 (194)
                      .+++.|| .....-.+|.++|.+||.+-+
T Consensus       127 ~~~v~D~-~~~~~~~~~~~~l~~A~~~~~  154 (317)
T PF14399_consen  127 VFYVSDP-PSYEPGRLPYEDLAKARFSEG  154 (317)
T ss_pred             EEEEEcC-CCCcceeecHHHHHHHHhccC
Confidence            9999999 455677899999999999877

>PF11814 DUF3335: Peptidase_C39 like family; InterPro: IPR021770 This family of proteins are functionally uncharacterised

Probab=99.07  E-value=4.1e-09  Score=89.38  Aligned_cols=129  Identities=18%  Similarity=0.317  Sum_probs=102.0

Q ss_pred             HHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHH-----HHHHHHHcCCceEeccccHHHHHHHHHc
Q 029371           27 TVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDM-----LFQKARSAGIKIECGSISGVEISLMILS  101 (194)
Q Consensus        27 TIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~-----lF~~A~~~gi~v~~rsvs~~eI~~~L~~  101 (194)
                      -..||.+..+.|++++.+..+-|  |-     |....=+++++.|.+     .-++|.+.||+++.+.+|.++|.+.|.+
T Consensus        56 P~GLAlAA~rrG~~vev~~~~~~--pl-----fld~vr~~~kk~v~~~v~~~f~~~a~~~gv~~~~~~~~~~~l~~~l~~  128 (207)
T PF11814_consen   56 PFGLALAAARRGFKVEVWVSTDG--PL-----FLDSVRSEEKKEVMELVHEDFREEAEQAGVPVHYRPLSLADLRAALAA  128 (207)
T ss_pred             hHHHHHHHHHcCCceEEEECCCC--Cc-----eeccCCCHHHHHHHHHHHHHHHHHHHHCCCceecCCCCHHHHHHHHHC
Confidence            37899999999999999998776  32     333333334444433     3368999999999999999999999999


Q ss_pred             CCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCC---------ceeeeChHHHH
Q 029371          102 GNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCR---------KREKVTLKCLE  172 (194)
Q Consensus       102 G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~---------~~~~~s~~~~e  172 (194)
                      |. .+|||+++..+...                =.+|+||++|+|...  ||++||-...         ...-|+.+.||
T Consensus       129 G~-~~lvLIS~y~~~g~----------------k~PHWV~v~g~d~~~--vyihDP~~d~~~~~~~~d~~~lPi~~~~f~  189 (207)
T PF11814_consen  129 GA-IVLVLISTYRMDGK----------------KVPHWVVVTGVDDDF--VYIHDPDVDAERGESWVDCQHLPIPRADFD  189 (207)
T ss_pred             CC-EEEEEEeecccCCC----------------CCCeEEEEEEecCCE--EEEeCCCCCcccCCCchhhccCCccHHHHH
Confidence            95 99999999987652                579999999999865  9999998873         25778889998


Q ss_pred             HHHhhCCCCc
Q 029371          173 EARKSFGTDE  182 (194)
Q Consensus       173 ~AR~s~GTDe  182 (194)
                      +.- +||.+.
T Consensus       190 ~m~-~~G~~~  198 (207)
T PF11814_consen  190 RMA-RFGKSK  198 (207)
T ss_pred             HHH-hhcccc
Confidence            763 577653

This family is only found in bacteria. This presumed domain is typically between 226 to 230 amino acids in length.

>COG4990 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.77  E-value=5.4e-08  Score=81.12  Aligned_cols=137  Identities=24%  Similarity=0.287  Sum_probs=101.9

Q ss_pred             hHHHhhhcCCceeHHHHHHHHhhcCccee-----eeecccCCCCCCCcchhhcccccchh-------h--HHHHHHHHHH
Q 029371           14 QGLAEQCCTTSIWTVDLAYLLQKFNVGFS-----YFTITLGANPNYSVETFYKEQLPTDL-------V--RVDMLFQKAR   79 (194)
Q Consensus        14 ~~l~~~c~~~S~WTIDLaylL~~~gv~~~-----f~T~tlG~np~y~~~~fY~~~~~~D~-------~--RV~~lF~~A~   79 (194)
                      ..+-+.|..+|     ||++|+..|=.+.     --..|-+.||+   .+|-.+.|+.+.       .  +=..+.+.|+
T Consensus        38 i~ly~GCEvvs-----lam~L~y~Gk~vtk~~la~~~~t~p~npn---~Gy~GnP~~~~vg~~~n~g~tI~p~al~~fak  109 (195)
T COG4990          38 IGLYQGCEVVS-----LAMMLQYLGKTVTKNILARNWPTHPINPN---SGYVGNPWDAFVGFPYNYGLTIWPTALVSFAK  109 (195)
T ss_pred             cccccchHHHH-----HHHHHHHcCCCCcHHHHhhccCCCCCCCC---cCccCCCchhhccCccCCCceechHHHHHHHH
Confidence            56778899888     9999999987665     12233345555   222233333211       1  1256888899


Q ss_pred             HcCCce-EeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCC
Q 029371           80 SAGIKI-ECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPA  158 (194)
Q Consensus        80 ~~gi~v-~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa  158 (194)
                      +..+.+ .....|+.+|...|.+|+ |+.+.+=.  ++.                 |+=|-|+|.|||+..  |+|+||-
T Consensus       110 kY~~~a~d~tGksl~~ik~ql~kg~-PV~iw~T~--~~~-----------------~s~H~v~itgyDk~n--~yynDpy  167 (195)
T COG4990         110 KYNGNAVDLTGKSLSDIKGQLLKGR-PVVIWVTN--FHS-----------------YSIHSVLITGYDKYN--IYYNDPY  167 (195)
T ss_pred             HhCCccccCcCCcHHHHHHHHhcCC-cEEEEEec--ccc-----------------cceeeeEeecccccc--eEecccc
Confidence            888764 466789999999999997 77766655  433                 999999999999999  9999998


Q ss_pred             CCCceeeeChHHHHHHHhhCCCC
Q 029371          159 SCRKREKVTLKCLEEARKSFGTD  181 (194)
Q Consensus       159 ~~~~~~~~s~~~~e~AR~s~GTD  181 (194)
                      - .+..+++-+-||.+|.+.|..
T Consensus       168 G-~kn~~~~~~~~e~g~n~~g~q  189 (195)
T COG4990         168 G-YKNRKISHTYLEDGWNAQGNQ  189 (195)
T ss_pred             c-cchhhhhHHHHHHHHhhhcce
Confidence            4 578889999999999999984

>cd02418 Peptidase_C39B A sub-family of peptidase family C39

Probab=98.42  E-value=3.9e-06  Score=63.90  Aligned_cols=120  Identities=17%  Similarity=0.124  Sum_probs=80.0

Q ss_pred             eHHHHHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCC
Q 029371           26 WTVDLAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGN  103 (194)
Q Consensus        26 WTIDLaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~  103 (194)
                      +---|+++++++|++++--..  .++.++              ++.-...+=+.|+..|+......++.++ ..+.... 
T Consensus        13 gl~~l~~~~~~~g~~~~~~~l~~~~~~~~--------------~~~~~~~l~~~a~~~Gl~~~~~~~~~~~-~~l~~~~-   76 (136)
T cd02418          13 GAACLAMIAKYYGKNYSLAKLRELAGTDR--------------EGTSLLGLVKAAEKLGFETRAVKADMDL-FELKDIP-   76 (136)
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHcCCCC--------------CCcCHHHHHHHHHHCCCeeEEEEcccch-hhHhcCC-
Confidence            344588999999987653222  111111              1223356667788999987666666653 1222235 


Q ss_pred             cEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCcc
Q 029371          104 YIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDED  183 (194)
Q Consensus       104 ~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeD  183 (194)
                      .|+|+.++..                    .-.|||+||.|+|.+  .+.+.||+  .....++.+.|++.|.  |   .
T Consensus        77 ~P~I~~~~~~--------------------~~~~~~~Vl~~~~~~--~~~i~dp~--~~~~~~~~~ef~~~w~--g---~  127 (136)
T cd02418          77 LPFIAHVIKE--------------------WKLNHYVVVYKIKKK--KILIADPA--VGITKISKEEFEKEWT--G---V  127 (136)
T ss_pred             CCEEEEEccC--------------------CCCCeEEEEEEEcCC--EEEEECCC--CCCEEeeHHHHHhhCe--E---E
Confidence            6999988743                    156999999999944  58899993  3455799999999995  3   5


Q ss_pred             EEEEEcC
Q 029371          184 LLLISLE  190 (194)
Q Consensus       184 il~I~~~  190 (194)
                      +|++...
T Consensus       128 ~l~~~~~  134 (136)
T cd02418         128 ALFLEPT  134 (136)
T ss_pred             EEEEecC
Confidence            7777754

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.

>cd02259 Peptidase_C39_like Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria

Probab=98.23  E-value=1.2e-05  Score=59.84  Aligned_cols=109  Identities=17%  Similarity=0.162  Sum_probs=74.4

Q ss_pred             eeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCc
Q 029371           25 IWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNY  104 (194)
Q Consensus        25 ~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~  104 (194)
                      -|---|+++++++|++++--...         +.+.   .+.++.....+=+.|+..|........+.++|    .+-+.
T Consensus         7 ~gl~~l~~i~~~~g~~~~~~~l~---------~~~~---~~~~~~~~~~l~~~a~~~gl~~~~~~~~~~~l----~~~~~   70 (122)
T cd02259           7 CGLACLQMLLRYFGIPVRRDVLL---------NAQQ---RRQQGLSLADLVSLANKLGLTAQGVKLPLAAL----SRLQL   70 (122)
T ss_pred             hHHHHHHHHHHHcCCCCCHHHHH---------HHHh---hccCCCCHHHHHHHHHHcCCeeeEEEcCHHHh----ccCCC
Confidence            45556899999999876421110         0000   11223444566777899999887777777554    33336


Q ss_pred             EEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371          105 IAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK  176 (194)
Q Consensus       105 ~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~  176 (194)
                      |+|+.       .                 -.|||+||.|++  .+.+.+.||+ ......++.+.|++.|.
T Consensus        71 P~i~~-------~-----------------~~~~~~Vl~~~~--~~~~~i~dp~-~~~~~~~~~~~l~~~w~  115 (122)
T cd02259          71 PALLL-------W-----------------KQGHFVILYGAD--KGQVLIADPL-EEGPVTLSESELEERWT  115 (122)
T ss_pred             CEEEE-------c-----------------CCCcEEEEEEEc--CCEEEEECCc-ccCCEEeCHHHHHhhCC
Confidence            99876       1                 468999999999  4569999998 44455799999999995

The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in all sub-families.

>PF03412 Peptidase_C39: Peptidase C39 family This is family C39 in the peptidase classification

Probab=98.09  E-value=9.3e-06  Score=61.77  Aligned_cols=112  Identities=22%  Similarity=0.268  Sum_probs=70.5

Q ss_pred             HHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEE
Q 029371           30 LAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIAL  109 (194)
Q Consensus        30 LaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvL  109 (194)
                      |+++++++|++.+.-..--....            +.++.=...|-+.|++.|+......++.+++    .+...|+|+.
T Consensus        18 l~~l~~~~g~~~s~~~l~~~~~~------------~~~g~s~~~L~~~~~~~gl~~~~~~~~~~~l----~~~~~P~I~~   81 (131)
T PF03412_consen   18 LAMLLKYYGIPVSEEELRRQLGT------------SEEGTSLADLKRAARKYGLKAKAVKLNFEKL----KRLPLPAIAH   81 (131)
T ss_dssp             HHHHHHHTT----HHHHHCCTT-------------BTTB--CCCHHHHHHHTTEEEEEEE--GGGC----TCGGSSEEEE
T ss_pred             HHHHHHHhCCCchHHHHHHHhcC------------CccCCCHHHHHHHHHhcccceeeeecchhhh----hhccccEEEE
Confidence            88999999998764432111110            0111112456788999999877666777665    4444688876


Q ss_pred             EcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCccEEEEEc
Q 029371          110 VDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLISL  189 (194)
Q Consensus       110 vd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeDil~I~~  189 (194)
                      +                        -.||||||-|.  +.+.+.+.||+  .....++.+.|++.|.     -.+|++..
T Consensus        82 ~------------------------~~~h~vVi~~~--~~~~~~i~dP~--~g~~~~~~~~f~~~w~-----G~~l~~~~  128 (131)
T PF03412_consen   82 L------------------------KDGHFVVIYKI--DDGRVLIYDPK--KGKIKLSKEEFEEIWT-----GEVLLIKP  128 (131)
T ss_dssp             E------------------------CCCEEEEEEEE--CCCEEEECCTT--TCEEEEEHHHHHHHEE-----EEEEEEEE
T ss_pred             e------------------------cCcceEEEEeE--cCcEEEEEeCC--CCeEEEeHHHHHhhCC-----CEEEEEEe
Confidence            6                        25899999999  44569999993  3456799999999995     34666554


Q ss_pred             C
Q 029371          190 E  190 (194)
Q Consensus       190 ~  190 (194)
                      +
T Consensus       129 ~  129 (131)
T PF03412_consen  129 S  129 (131)
T ss_dssp             -
T ss_pred             C
Confidence            3

; InterPro: IPR005074 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 group of sequences defined by this cysteine peptidase domain belong to the MEROPS peptidase family C39 (clan CA). It is found in a wide range of ABC transporters, which are maturation proteases for peptide bacteriocins, the proteolytic domain residing in the N-terminal region of the protein []. A number of the proteins are classified as non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Lantibiotic and non-lantibiotic bacteriocins are synthesised as precursor peptides containing N-terminal extensions (leader peptides) which are cleaved off during maturation. Most non-lantibiotics and also some lantibiotics have leader peptides of the so-called double-glycine type. These leader peptides share consensus sequences and also a common processing site with two conserved glycine residues in positions -1 and -2. The double- glycine-type leader peptides are unrelated to the N-terminal signal sequences which direct proteins across the cytoplasmic membrane via the sec pathway. Their processing sites are also different from typical signal peptidase cleavage sites, suggesting that a different processing enzyme is involved. ; GO: 0005524 ATP binding, 0008233 peptidase activity, 0006508 proteolysis, 0016021 integral to membrane; PDB: 3K8U_A 3B79_A.

>cd02423 Peptidase_C39G A sub-family of peptidase family C39

Probab=97.87  E-value=0.00015  Score=54.63  Aligned_cols=104  Identities=20%  Similarity=0.223  Sum_probs=73.3

Q ss_pred             HHHHHhhcC-cceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEE
Q 029371           30 LAYLLQKFN-VGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIA  106 (194)
Q Consensus        30 LaylL~~~g-v~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~  106 (194)
                      |++++++|| ++++--..  .++.++              ++.....+-+.|++.|+......++.++|..    -..|+
T Consensus        17 l~~~~~~~g~~~~~~~~l~~~~~~~~--------------~~~s~~~l~~~a~~~Gl~~~~~~~~~~~L~~----~~lP~   78 (129)
T cd02423          17 LATLLRYYGGINITEQEVLKLMLIRS--------------EGFSMLDLKRYAEALGLKANGYRLNLDKLNA----LQIPV   78 (129)
T ss_pred             HHHHHHhcCCCCCCHHHHHHHhCccc--------------CCcCHHHHHHHHHHCCCcceEEEcCHHHHhh----CCCCE
Confidence            789999999 87653322  222221              1333466778889999987777777766543    34689


Q ss_pred             EEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371          107 IALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK  176 (194)
Q Consensus       107 IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~  176 (194)
                      |+.++.+                     =.|||+||-|+|.  +++.+.||+.. + ..+|.+.|++-|.
T Consensus        79 i~~~~~~---------------------~~~~~vvl~~~~~--~~~~i~dp~~~-~-~~~s~~el~~~w~  123 (129)
T cd02423          79 IVLVNNG---------------------GYGHFVVIKGIDG--DRVLVGDPALG-N-ISMSREEFERIWT  123 (129)
T ss_pred             EEEEecC---------------------CCceEEEEEEEeC--CEEEEECCCCC-C-cccCHHHHHHHhc
Confidence            8776311                     2579999999994  45999999875 3 4799999999994

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are

>cd02424 Peptidase_C39E A sub-family of peptidase family C39

Probab=97.81  E-value=0.00021  Score=54.79  Aligned_cols=104  Identities=19%  Similarity=0.242  Sum_probs=68.9

Q ss_pred             HHHHHHhh-cCccee--eeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE
Q 029371           29 DLAYLLQK-FNVGFS--YFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI  105 (194)
Q Consensus        29 DLaylL~~-~gv~~~--f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~  105 (194)
                      -|++++++ +|.+++  .....+|.+++              +.-...+=+.|++.|+....-.++.+++.+.  .++.|
T Consensus        16 ~l~~i~~~~~g~~~~~~~l~~~~~~~~~--------------g~s~~~l~~~a~~~Gl~~k~~~~~~~~l~~~--~~p~P   79 (129)
T cd02424          16 VIQMLYNHYYKKKYDLNELKIKANLKKN--------------GLSIYDLENLAKKFGLETESYQGSFLEFLEL--KNKFI   79 (129)
T ss_pred             HHHHHHHHhcCCCccHHHHHHHhCCCCC--------------CccHHHHHHHHHHcCCceeEEEcCHHHHhhc--cCCEE
Confidence            38999999 887653  33333333222              3334677788889998766556677665442  33456


Q ss_pred             EEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHH
Q 029371          106 AIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEAR  175 (194)
Q Consensus       106 ~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR  175 (194)
                      +|+. +.                      =..||||+-+.+.+.  +.+.||+.. +. .+|.+.|++.|
T Consensus        80 ~i~~-~~----------------------~~~hfvVl~~~~~~~--v~I~DP~~g-~~-~~s~~~f~~~w  122 (129)
T cd02424          80 ILLK-SN----------------------GLNHFVIVKKIKKNK--FIVLDPKKG-KY-KITYKEFEKIF  122 (129)
T ss_pred             EEEe-cC----------------------CCCeEEEEEEEECCE--EEEECCCCC-CE-EeCHHHHHHHh
Confidence            6643 11                      115999999987654  999999433 33 69999999999

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family, which contains Colicin V perocessing peptidase.

>cd02420 Peptidase_C39D A sub-family of peptidase family C39

Probab=97.70  E-value=0.00038  Score=52.39  Aligned_cols=101  Identities=21%  Similarity=0.297  Sum_probs=71.2

Q ss_pred             HHHHHhhcCccee--eeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEE
Q 029371           30 LAYLLQKFNVGFS--YFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAI  107 (194)
Q Consensus        30 LaylL~~~gv~~~--f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~I  107 (194)
                      |+++++++|++.+  .....++.++              ++.....+-+.|++.|........+.++|.    +-..|+|
T Consensus        17 l~~i~~~~g~~~~~~~l~~~~~~~~--------------~~~~~~~l~~~a~~~Gl~~~~~~~~~~~L~----~~~lP~I   78 (125)
T cd02420          17 LAIILAYYGRYVPLSELRIACGVSR--------------DGSNASNLLKAAREYGLTAKGYKKDLEALR----EVSLPAI   78 (125)
T ss_pred             HHHHHHHcCCCCCHHHHHHHcCCCC--------------CCCCHHHHHHHHHHcCcccceEecCHHHHh----cCCCCEE
Confidence            7899999998654  3333333221              122335677788999998777777777654    3346888


Q ss_pred             EEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371          108 ALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK  176 (194)
Q Consensus       108 vLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~  176 (194)
                      ++.                        -.|||+||.|++.+  .+.+.||+..  ...+|.+.|++.|.
T Consensus        79 ~~~------------------------~~g~~~Vl~~~~~~--~~~i~dp~~~--~~~~s~~el~~~~~  119 (125)
T cd02420          79 VFW------------------------NFNHFLVVEGFDKR--KVFLNDPATG--RRTVSLEEFDQSFT  119 (125)
T ss_pred             EEe------------------------CCCEEEEEEEEeCC--EEEEECCCcC--ceeecHHHHHhhCC
Confidence            653                        24899999999944  5999999863  34699999999994

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.

>PF12385 Peptidase_C70: Papain-like cysteine protease AvrRpt2; InterPro: IPR022118 This is a family of cysteine proteases, found in actinobacteria, protobacteria and firmicutes

Probab=97.63  E-value=0.00027  Score=58.09  Aligned_cols=121  Identities=14%  Similarity=0.218  Sum_probs=84.9

Q ss_pred             CceeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcc--cccc---hhhHHHHHHHHHHHcCCceEe-ccccHHHHH
Q 029371           23 TSIWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKE--QLPT---DLVRVDMLFQKARSAGIKIEC-GSISGVEIS   96 (194)
Q Consensus        23 ~S~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~--~~~~---D~~RV~~lF~~A~~~gi~v~~-rsvs~~eI~   96 (194)
                      .+-|.--.+|++.-++-..       +.+|.+    -||-  -++.   +...+.++-..+.-.++++.. ++.+.+++.
T Consensus        34 mgCWaA~~~Mv~~w~~~~p-------rlg~~e----Lyra~~Glp~~lq~g~d~~~~~~~~gl~~v~~P~~~~~t~e~~~  102 (166)
T PF12385_consen   34 MGCWAACACMVGGWRDQGP-------RLGPPE----LYRADEGLPSQLQDGLDPEDFIRNEGLKEVPEPANASYTAEGLA  102 (166)
T ss_pred             ccHHHHHHHHHHHHhcCCC-------CCCcHH----HHHHhcCCchhhcccccHHHHHHhcCccccCCCcccccCHHHHH
Confidence            4679888888888776544       233331    1332  0221   223344444555555555554 789999999


Q ss_pred             HHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHH
Q 029371           97 LMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEA  174 (194)
Q Consensus        97 ~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~A  174 (194)
                      .+|.+. +|+.|=+++.                  ...+.||-+||.|-|.+.+.|.|+||... +.-+++++.|+.|
T Consensus       103 ~LL~~y-GPLwv~~~~P------------------~~~~~~H~~ViTGI~~dg~~i~~~DP~~g-P~~~m~l~~fn~~  160 (166)
T PF12385_consen  103 NLLREY-GPLWVAWEAP------------------GDSWVAHASVITGIDGDGDSIHVHDPEQG-PNLRMSLDMFNQA  160 (166)
T ss_pred             HHHHHc-CCeEEEecCC------------------CCcceeeEEEEEeecCCCCeEEecCcccC-CCceecHHHHhhh
Confidence            999886 4777776666                  24588999999999999999999999997 5556999999986

Papain-like cysteine proteases play a crucial role in plant-pathogen/pest interactions. On entering the host they act on non-self substrates, thereby manipulating the host to evade proteolysis []. AvrRpt2 from Pseudomonas syringae pv tomato DC3000 triggers resistance to P. syringae-2-dependent defence responses, including hypersensitive cell death, by cleaving the Arabidopsis RIN4 protein which is monitored by the cognate resistance protein RPS2 [].

>cd02419 Peptidase_C39C A sub-family of peptidase family C39

Probab=97.52  E-value=0.00097  Score=50.21  Aligned_cols=102  Identities=14%  Similarity=0.099  Sum_probs=71.9

Q ss_pred             HHHHHHhhcCcceeee--ecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEE
Q 029371           29 DLAYLLQKFNVGFSYF--TITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIA  106 (194)
Q Consensus        29 DLaylL~~~gv~~~f~--T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~  106 (194)
                      -|+++++++|++++--  ...++.+              .++.....+=+.|++.|.......++.+++..    -..|+
T Consensus        16 ~l~~~~~~~g~~~~~~~l~~~~~~~--------------~~~~~~~~l~~~a~~~Gl~~~~~~~~~~~l~~----~~lP~   77 (127)
T cd02419          16 CLAMIASYHGHHVDLASLRQRFPVS--------------LKGATLADLIDIAQQLGLSTRALRLDLEELGQ----LKLPC   77 (127)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHcCCC--------------CCCcCHHHHHHHHHHCCCceeEEEccHHHHhh----CCCCE
Confidence            3788999999876522  2222222              22444567778888999988777777766544    23688


Q ss_pred             EEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371          107 IALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK  176 (194)
Q Consensus       107 IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~  176 (194)
                      |+..                        -.|||+||.|.+  .+.+.+.||+..  ...++.+.|++.|.
T Consensus        78 i~~~------------------------~~g~~~Vl~~~~--~~~~~i~dp~~~--~~~~~~~el~~~~~  119 (127)
T cd02419          78 ILHW------------------------DMNHFVVLKKVS--RRRIVIHDPALG--KRKLSLEEASRHFT  119 (127)
T ss_pred             EEEE------------------------CCCEEEEEEEEc--CCEEEEECCccC--CEEEcHHHHHhhCC
Confidence            8652                        238999999985  446999999764  44699999999994

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.

>cd02425 Peptidase_C39F A sub-family of peptidase family C39

Probab=97.51  E-value=0.0011  Score=49.62  Aligned_cols=106  Identities=19%  Similarity=0.157  Sum_probs=72.5

Q ss_pred             eeHHHHHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccH-HHHHHHHHc
Q 029371           25 IWTVDLAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISG-VEISLMILS  101 (194)
Q Consensus        25 ~WTIDLaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~-~eI~~~L~~  101 (194)
                      .|---|+++++++|++++--..  .++.++              ++.-...+=+.|++.|+......++. +.|.    +
T Consensus        12 ~~l~~l~~~~~~~~~~~~~~~l~~~~~~~~--------------~~~~~~~l~~~a~~~gl~~~~~~~~~~~~l~----~   73 (126)
T cd02425          12 CGLACYAMILNYFGYKVSLNELREKYELGR--------------DGLSLSYLKQLLEEYGFKCKVYKISFKKNLY----P   73 (126)
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHhccCCC--------------CCcCHHHHHHHHHHCCCcceEEEEchHHHHh----h
Confidence            4556789999999987664432  222222              12223556677888999877667777 4443    3


Q ss_pred             CCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371          102 GNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK  176 (194)
Q Consensus       102 G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~  176 (194)
                      -..|+|++.                        -.|||+||.+++.+  .+.+.||... + ..++.+.|++-|.
T Consensus        74 ~~lP~I~~~------------------------~~~~~~Vl~~~~~~--~~~i~dp~~~-~-~~~~~~~l~~~~~  120 (126)
T cd02425          74 LKLPVIIFW------------------------NNNHFVVLEKIKKN--KVTIVDPAIG-R-IKISIDEFLENFS  120 (126)
T ss_pred             CCCCEEEEE------------------------cCCcEEEEEEEECC--EEEEEcCCCC-C-EEECHHHHHhhCC
Confidence            346888642                        13899999999755  4888999885 3 3699999999883

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family.

>cd02417 Peptidase_C39_likeA A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases

Probab=97.51  E-value=0.00052  Score=51.25  Aligned_cols=104  Identities=17%  Similarity=0.196  Sum_probs=71.6

Q ss_pred             HHHHHHHhhcCcceee--eecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE
Q 029371           28 VDLAYLLQKFNVGFSY--FTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI  105 (194)
Q Consensus        28 IDLaylL~~~gv~~~f--~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~  105 (194)
                      --|+++++++|++++-  ....++..              .++.....+=+.|++.|.......++.++|    .+-..|
T Consensus        10 ~~l~~i~~~~g~~~~~~~l~~~~~~~--------------~~~~~~~~l~~~a~~~Gl~~~~~~~~~~~l----~~~~lP   71 (121)
T cd02417          10 LALVLLARYHGIAADPEQLRHEFGLA--------------GEPFNSTELLLAAKSLGLKAKAVRQPVERL----ARLPLP   71 (121)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHhcCC--------------CCCCCHHHHHHHHHHcCCeeEEEecCHHHh----ccCCCC
Confidence            3488999999987652  22222221              112334566677999999887777777654    333468


Q ss_pred             EEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371          106 AIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK  176 (194)
Q Consensus       106 ~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~  176 (194)
                      +|++.                        -.|||+||.+.|.  +.+.+.||+.. ....++.+.|++.|.
T Consensus        72 ~I~~~------------------------~~g~~~Vl~~~~~--~~~~i~dp~~~-~~~~~~~~el~~~~~  115 (121)
T cd02417          72 ALAWD------------------------DDGGHFILAKLDG--QKYLIQDPISQ-RPEVLSREEFEARWS  115 (121)
T ss_pred             EEEEc------------------------cCCCEEEEEEEcC--CCEEEECCCcC-CCeecCHHHHHhhcC
Confidence            88551                        2479999999884  45999999875 444799999999994

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in this

>cd02421 Peptidase_C39_likeD A sub-family of peptidase family C39

Probab=97.39  E-value=0.0011  Score=49.85  Aligned_cols=114  Identities=20%  Similarity=0.174  Sum_probs=78.1

Q ss_pred             eHHHHHHHHhhcCcceee--eecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCC
Q 029371           26 WTVDLAYLLQKFNVGFSY--FTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGN  103 (194)
Q Consensus        26 WTIDLaylL~~~gv~~~f--~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~  103 (194)
                      |---|+++++++|++++-  ....+|.+.              ++.....+=+.|+..|.......++.+.|.    +-.
T Consensus         8 ~l~~l~~i~~~~g~~~~~~~l~~~~~~~~--------------~~~~~~~l~~~a~~~Gl~~~~~~~~~~~l~----~~~   69 (124)
T cd02421           8 LLDCLVLLARQFGKPASRDSLVAGLPLDD--------------GRLSPALFPRAAARAGLSARVVRRPLDAIP----TLL   69 (124)
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHhcCCCCC--------------CCcCHHHHHHHHHHCCCcceeeeCCHHHCC----ccc
Confidence            334589999999997663  333333321              133346778888999998777777776543    334


Q ss_pred             cEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCcc
Q 029371          104 YIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDED  183 (194)
Q Consensus       104 ~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeD  183 (194)
                      .|+|+..                        -.|||+||.+.|.  +++.+.||+.+.....++.+.|++.|.     ..
T Consensus        70 lP~i~~~------------------------~~g~~~Vl~~~~~--~~~~i~dp~~~~~~~~~~~~el~~~~~-----g~  118 (124)
T cd02421          70 LPAILLL------------------------KNGRACVLLGVDD--GHARILDPESGGGEVEISLEELEEEYS-----GY  118 (124)
T ss_pred             CCEEEEE------------------------cCCCEEEEEEecC--CeEEEEccCCCCCcEEEcHHHHHhhCC-----eE
Confidence            6888531                        3589999999986  559999998434444699999999993     34


Q ss_pred             EEEEE
Q 029371          184 LLLIS  188 (194)
Q Consensus       184 il~I~  188 (194)
                      +|++.
T Consensus       119 ~ll~~  123 (124)
T cd02421         119 AIFVK  123 (124)
T ss_pred             EEEEe
Confidence            66653

Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is not conserved in this sub-family.

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=96.83  E-value=0.0034  Score=61.01  Aligned_cols=108  Identities=19%  Similarity=0.253  Sum_probs=75.1

Q ss_pred             HHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEE
Q 029371           30 LAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAI  107 (194)
Q Consensus        30 LaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~I  107 (194)
                      ||+++++||.+++--+-  -.|++              .|+.-...+-+.|++.|...+.-..+.+++..    =+.|+|
T Consensus        18 l~mi~~~~g~~~~~~~lr~~~~~~--------------~~g~s~~~l~~~~~~~g~~~~~~~~~~~~l~~----~~lP~i   79 (710)
T TIGR03796        18 LAMILAYYGRYVPLEELREECGVS--------------RDGSKASNLLKAARSYGLEAKGFRKELDALAE----LPLPYI   79 (710)
T ss_pred             HHHHHHHcCCCCCHHHHHHHcCCC--------------CCCCCHHHHHHHHHHCCCEeEEEecCHHHhcc----CCCCEE
Confidence            78999999987663332  22222              23445578889999999987655556665533    235888


Q ss_pred             EEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCccEEEE
Q 029371          108 ALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLLI  187 (194)
Q Consensus       108 vLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeDil~I  187 (194)
                      +..+                        .+|||||-+.+.+  .+++.||+...  ..++.+.|++.|.  |   .++++
T Consensus        80 ~~~~------------------------~~h~vvl~~~~~~--~~~i~dP~~g~--~~~~~~e~~~~~~--g---~~l~~  126 (710)
T TIGR03796        80 VFWN------------------------FNHFVVVEGFRGG--RVYLNDPALGP--RTVSLEEFDESFT--G---VVLTF  126 (710)
T ss_pred             EEEc------------------------CCcEEEEEEEeCC--EEEEECCCCCC--EEccHHHHHhhCC--C---eEEEE
Confidence            6542                        3799999998665  59999999853  3589999999873  2   35555


Q ss_pred             E
Q 029371          188 S  188 (194)
Q Consensus       188 ~  188 (194)
                      .
T Consensus       127 ~  127 (710)
T TIGR03796       127 E  127 (710)
T ss_pred             E
Confidence            4

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=96.49  E-value=0.012  Score=57.36  Aligned_cols=107  Identities=18%  Similarity=0.129  Sum_probs=72.7

Q ss_pred             HHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEE
Q 029371           30 LAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIAL  109 (194)
Q Consensus        30 LaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvL  109 (194)
                      |++++++||.+++..+-.-+..            .+.++.-+..+-+.|++.|.....-..+.+++.  +.+-+.|+|+.
T Consensus        12 l~~i~~~~g~~~~~~~lr~~~~------------~~~~g~s~~~l~~~~~~~g~~~~~~~~~~~~l~--~~~~~~P~I~~   77 (708)
T TIGR01193        12 LSMILKKYGTEYSLAKLRQLAK------------TDLEGTTVLGLVKAAEYLNFEAKAIQADMSLFE--DKNLPLPFIAH   77 (708)
T ss_pred             HHHHHHHcCCCCCHHHHHHHhC------------CCCCCCCHHHHHHHHHHCCCEEEEEecCHHHhc--cccCCCCEEEE
Confidence            7899999998877554321111            112355668899999999998766556665432  22334689974


Q ss_pred             -EcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCC--CCCCceeeeChHHHHHHH
Q 029371          110 -VDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDP--ASCRKREKVTLKCLEEAR  175 (194)
Q Consensus       110 -vd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DP--a~~~~~~~~s~~~~e~AR  175 (194)
                       .+.+                     =..|||||-+++.+  .+++.||  +..  ...++.+.|++.|
T Consensus        78 ~~~~~---------------------~~~H~vVl~~~~~~--~~~i~dP~~~~g--~~~~~~~ef~~~~  121 (708)
T TIGR01193        78 VIKNG---------------------KLPHYYVVYGVTKN--HLIIADPDPTVG--ITKISKEDFYEEW  121 (708)
T ss_pred             EccCC---------------------CCCcEEEEEEEeCC--EEEEEcCCcccC--CEEecHHHHHhhC
Confidence             2111                     23599999999854  5999999  554  3369999999988

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=96.20  E-value=0.015  Score=56.57  Aligned_cols=100  Identities=20%  Similarity=0.187  Sum_probs=70.0

Q ss_pred             HHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEE
Q 029371           30 LAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIAI  107 (194)
Q Consensus        30 LaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~I  107 (194)
                      |++++++||.+++...-  .+|++              .|+.....+-..|++.|.....-..+.+++..    =+.|+|
T Consensus         5 l~~i~~~~g~~~~~~~lr~~~~~~--------------~~g~~~~~l~~~~~~~G~~~~~~~~~~~~l~~----~~lP~i   66 (694)
T TIGR01846         5 LSLLAQVHNIAVTPSQLRHMLGHA--------------GASLDDLEILLAAKQLGLKAKAVKVSIGRLNK----LPLPAL   66 (694)
T ss_pred             HHHHHHHcCCCCCHHHHHHhcCCC--------------CCCCCHHHHHHHHHHCCCEEEEEeCCHHHccC----CCCCEE
Confidence            78899999887765443  22222              22455577888899999987655556655433    235777


Q ss_pred             EEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHH
Q 029371          108 ALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEAR  175 (194)
Q Consensus       108 vLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR  175 (194)
                      +..                         .+|||||.+.+.+  .+++.||+.. ....++.+.|++.|
T Consensus        67 ~~~-------------------------~~~~vvl~~~~~~--~~~i~Dp~~g-~~~~i~~~e~~~~~  106 (694)
T TIGR01846        67 IDG-------------------------EGGWFVLGKLTAN--GVTIYDPPGD-APEVLSREVLEALW  106 (694)
T ss_pred             EEE-------------------------CCcEEEEEEEcCC--EEEEEcCCCC-CceeeCHHHHHhhC
Confidence            421                         3589999998865  5999999987 44569999999988

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=96.05  E-value=0.027  Score=54.67  Aligned_cols=105  Identities=20%  Similarity=0.177  Sum_probs=71.6

Q ss_pred             HHHHHHHhhcCcceeeee--cccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE
Q 029371           28 VDLAYLLQKFNVGFSYFT--ITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI  105 (194)
Q Consensus        28 IDLaylL~~~gv~~~f~T--~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~  105 (194)
                      -=||+++++||.+++-..  ...|+              +.++.-..++-+.|++.|+.......+.+++    .+-+.|
T Consensus         3 aclami~~~~g~~~~l~~lr~~~~~--------------~~~g~sl~~l~~~~~~~g~~~~~~~~~~~~l----~~~~~P   64 (694)
T TIGR03375         3 DCLLLLARHYGRPVSREALVAGLPL--------------EDGRLTPELLPRAARRAGLSARLVKRSLDDI----SPLLLP   64 (694)
T ss_pred             HHHHHHHHHcCCCCCHHHHHhhCCC--------------CCCCCCHHHHHHHHHHCCCEEEEecCCHhhc----CcCCCC
Confidence            347888888888765332  11111              2335556888999999999876555666544    343468


Q ss_pred             EEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHH
Q 029371          106 AIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEAR  175 (194)
Q Consensus       106 ~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR  175 (194)
                      +|+..+                        .+|||||.+.+.+. .+++.||+.......++.+.|++-|
T Consensus        65 ~i~~~~------------------------~~h~vvl~~~~~~~-~~~i~DP~~g~~~~~~~~~e~~~~~  109 (694)
T TIGR03375        65 AILLLK------------------------DGRACVLLGIDEDG-KARVLLPETGDGEQELSLDALEALY  109 (694)
T ss_pred             EEEEEc------------------------CCcEEEEEEEcCCC-cEEEEccCCCCCceEecHHHHHhhc
Confidence            885432                        36999999987753 3999999997222368999999987

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>PF05543 Peptidase_C47: Staphopain peptidase C47; InterPro: IPR008750 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=95.82  E-value=0.04  Score=45.94  Aligned_cols=77  Identities=17%  Similarity=0.195  Sum_probs=49.9

Q ss_pred             HHHHHHHHHcCC--ceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCC
Q 029371           72 DMLFQKARSAGI--KIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS  149 (194)
Q Consensus        72 ~~lF~~A~~~gi--~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~  149 (194)
                      ++..+-++..|.  ..+.+..|.+|+++.+.+++ +++++.+..-.               .+-...||=+||+||-...
T Consensus        69 ~~~i~y~ks~g~~~~~~n~~~s~~eV~~~~~~nk-~i~i~~~~v~~---------------~~~~~~gHAlavvGya~~~  132 (175)
T PF05543_consen   69 NQMIKYAKSQGRNPQYNNRMPSFDEVKKLIDNNK-GIAILADRVEQ---------------TNGPHAGHALAVVGYAKPN  132 (175)
T ss_dssp             HHHHHHHHHTTEEEEEECS---HHHHHHHHHTT--EEEEEEEETTS---------------CTTB--EEEEEEEEEEEET
T ss_pred             HHHHHHHHHcCcchhHhcCCCCHHHHHHHHHcCC-CeEEEeccccc---------------CCCCccceeEEEEeeeecC
Confidence            456666777775  57789999999999999997 77777764422               1233799999999998744


Q ss_pred             c---eEEEeCCCCCCcee
Q 029371          150 D---EFEIRDPASCRKRE  164 (194)
Q Consensus       150 ~---~~~~~DPa~~~~~~  164 (194)
                      .   .++|=||=..+-.+
T Consensus       133 ~g~~~y~~WNPW~~~~~~  150 (175)
T PF05543_consen  133 NGQKTYYFWNPWWNDVMI  150 (175)
T ss_dssp             TSEEEEEEE-TT-SS-EE
T ss_pred             CCCeEEEEeCCccCCcEE
Confidence            4   68888997765544

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 group of cysteine peptidases belong to the peptidase family C47 (staphopain family, clan CA). The type example are the staphopains, which are one of four major families of proteinases secreted by the Gram-positive Staphylococcus aureus. These staphylococcal cysteine proteases are secreted as preproenzymes that are proteolytically cleaved to generate the mature enzyme [, , ].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 1X9Y_D 1Y4H_B 1PXV_B 1CV8_A.

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=95.69  E-value=0.045  Score=53.12  Aligned_cols=102  Identities=16%  Similarity=0.094  Sum_probs=71.3

Q ss_pred             eHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcE
Q 029371           26 WTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYI  105 (194)
Q Consensus        26 WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~  105 (194)
                      |---||++++++|.+++--+---+          +      ++ -...+-+.|++.|.....-..+.+++..    -+.|
T Consensus         4 ~~~~l~~i~~~~~~~~~~~~lr~~----------~------~g-~~~~l~~~~~~~g~~~~~~~~~~~~l~~----~~lP   62 (686)
T TIGR03797         4 LLVACAAVGRAMGIEIRPPARSEN----------L------SR-SPEPLEAIARASRLRIRRVRLEGGWWRQ----DSGP   62 (686)
T ss_pred             HHHHHHHHHHHhCCCCChHHHHHH----------c------CC-CHHHHHHHHHHCCCceEEEecCHHHHhh----CCCC
Confidence            445688999999988775553111          1      23 3678889999999987655555555433    2468


Q ss_pred             EEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHH
Q 029371          106 AIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEA  174 (194)
Q Consensus       106 ~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~A  174 (194)
                      +|+..|                       -.+|||||.+.+.  +++++.||+... ...++.+.|++.
T Consensus        63 ~i~~~~-----------------------~~~h~vvl~~~~~--~~~~i~dP~~g~-~~~~~~~e~~~~  105 (686)
T TIGR03797        63 LLAYTA-----------------------EDGRPVALLPVSR--GGYEIFDPATGT-RRRVDAAMAATL  105 (686)
T ss_pred             EEEEEc-----------------------CCCCEEEEEEEcC--CEEEEECCCCCC-CcccCHHHHHhc
Confidence            885432                       1489999999854  569999999865 436899999766

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>PF05023 Phytochelatin: Phytochelatin synthase; InterPro: IPR007719 This entry represents plant phytochelatin synthases (also known as glutathione gamma-glutamylcysteinyltransferase; 2

Probab=95.63  E-value=0.15  Score=43.61  Aligned_cols=89  Identities=28%  Similarity=0.250  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHcCCceE---eccccHHHHHHHHH----cCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEE
Q 029371           71 VDMLFQKARSAGIKIE---CGSISGVEISLMIL----SGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILIC  143 (194)
Q Consensus        71 V~~lF~~A~~~gi~v~---~rsvs~~eI~~~L~----~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLc  143 (194)
                      ..++...|+..|+.++   .+..|.++..+++.    +.+..+||-.|..-|.-.                =.|||=-|-
T Consensus        99 L~e~~~la~~~g~~~~~~~~~~~s~~~FR~~l~~~~~~~~~~livnf~R~~lgq~----------------G~GHfSPig  162 (212)
T PF05023_consen   99 LDEFACLAKCNGLRVEVYRADDSSLDEFRQHLKEALSDPNDFLIVNFDRKALGQT----------------GGGHFSPIG  162 (212)
T ss_dssp             HHHHHHHHHTTT-EEEEEEGGGS-HHHHHHHHHHHCTSTTEEEEEEEEGGGGTSS----------------SSEEEEEEE
T ss_pred             HHHHHHHHHhcCCceEEEeCCcCCHHHHHHHHHHHhCCCCCEEEEECcccccCCC----------------CCCcccccc
Confidence            4778899999998655   36789999888874    233577777777766431                269999999


Q ss_pred             EeeCCCceEEEeCCC-CCCceeeeChHHHHHHH
Q 029371          144 GYDANSDEFEIRDPA-SCRKREKVTLKCLEEAR  175 (194)
Q Consensus       144 GYd~~~~~~~~~DPa-~~~~~~~~s~~~~e~AR  175 (194)
                      |||++++.|.+.|++ +.-.-.-++.+.|=+|=
T Consensus       163 aY~~~tD~vLilDVar~kYpp~WV~~~~L~~AM  195 (212)
T PF05023_consen  163 AYDAETDRVLILDVARFKYPPYWVPLERLYEAM  195 (212)
T ss_dssp             EEETTTTEEEE--S-TTT---EEEEHHHHHHHH
T ss_pred             eecccCCeEEEEecccccCCCEEeEHHHHHHHH
Confidence            999999999999999 45455558877776653

3.2.15 from EC), which is involved in the synthesis of phytochelatins (PC) and homophytochelatins (hPC), the heavy-metal-binding peptides of plants. This enzyme is required for detoxification of heavy metals such as cadmium and arsenate. The N-terminal region of phytochelatin synthase contains the active site, as well as four highly conserved cysteine residues that appear to play an important role in heavy-metal-induced phytochelatin catalysis. The C-terminal region is rich in cysteines, and may act as a metal sensor, whereby the Cys residues bind cadmium ions to bring them into closer proximity and transferring them to the activation site in the N-terminal catalytic domain []. The C-terminal region displays homology to the functional domains of metallothionein and metallochaperone.; GO: 0016756 glutathione gamma-glutamylcysteinyltransferase activity, 0046872 metal ion binding, 0010038 response to metal ion, 0046938 phytochelatin biosynthetic process; PDB: 2BTW_A 2BU3_B.

>cd02619 Peptidase_C1 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase)

Probab=95.16  E-value=0.084  Score=42.80  Aligned_cols=81  Identities=20%  Similarity=0.260  Sum_probs=48.0

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCCcccccccccc---ccCccCCCCCCcceEEEEEEeeCCC----ceEEEeCCCCCC--
Q 029371           91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVI---VPGFYGSDSGYTGHYILICGYDANS----DEFEIRDPASCR--  161 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~---~~~~~~~~~~Y~GHYVVLcGYd~~~----~~~~~~DPa~~~--  161 (194)
                      +.++|+++|.++ +|+++-++..--.-.......   ............||-|+|+|||...    +-+.++|-=-..  
T Consensus       124 ~~~~ik~aL~~~-gPv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Hav~ivGy~~~~~~~~~~~i~~NSwG~~wg  202 (223)
T cd02619         124 NIEDIKEALAKG-GPVVAGFDVYSGFDRLKEGIIYEEIVYLLYEDGDLGGHAVVIVGYDDNYVEGKGAFIVKNSWGTDWG  202 (223)
T ss_pred             hHHHHHHHHHHC-CCEEEEEEcccchhcccCccccccccccccCCCccCCeEEEEEeecCCCCCCCCEEEEEeCCCCccc
Confidence            368899999987 378877775421111111111   0111122345689999999999864    678888854432  


Q ss_pred             --ceeeeChHHHH
Q 029371          162 --KREKVTLKCLE  172 (194)
Q Consensus       162 --~~~~~s~~~~e  172 (194)
                        -..+++.+.+.
T Consensus       203 ~~Gy~~i~~~~~~  215 (223)
T cd02619         203 DNGYGRISYEDVY  215 (223)
T ss_pred             cCCEEEEehhhhh
Confidence              25556665554

Papain-like enzymes are mostly endopeptidases with some exceptions like cathepsins B, C, H and X, which are exopeptidases. Papain-like CPs have different functions in various organisms. Plant CPs are used to mobilize storage proteins in seeds while mammalian CPs are primarily lysosomal enzymes responsible for protein degradation in the lysosome. Papain-like CPs are synthesized as inactive proenzymes with N-terminal propeptide regions, which are removed upon activation. Bleomycin hydrolase (BH) is a CP that detoxifies bleomycin by hydrolysis of an amide group. It acts as a carboxypeptidase on its C-terminus to convert itself into an aminopeptidase and peptide ligase. BH is found in all tissues in mammals as well as in many other eukaryotes. It forms a hexameric ring barrel str

>cd02248 Peptidase_C1A Peptidase C1A subfamily (MEROPS database nomenclature); composed of cysteine peptidases (CPs) similar to papain, including the mammalian CPs (cathepsins B, C, F, H, L, K, O, S, V, X and W)

Probab=94.44  E-value=0.16  Score=41.33  Aligned_cols=61  Identities=10%  Similarity=0.111  Sum_probs=37.7

Q ss_pred             HHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCC--CceEEEeCC
Q 029371           92 GVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN--SDEFEIRDP  157 (194)
Q Consensus        92 ~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~--~~~~~~~DP  157 (194)
                      .++|+++|.++ +|+++-++..-  ...  ...+.....  .+....+|-|+|+||+.+  .+-++++|-
T Consensus       117 ~~~ik~~l~~~-gPV~~~~~~~~~f~~y--~~Giy~~~~--~~~~~~~Hav~iVGy~~~~~~~ywiv~NS  181 (210)
T cd02248         117 EEALKAALANY-GPVSVAIDASSSFQFY--KGGIYSGPC--CSNTNLNHAVLLVGYGTENGVDYWIVKNS  181 (210)
T ss_pred             HHHHHHHHhhc-CCEEEEEecCcccccC--CCCceeCCC--CCCCcCCEEEEEEEEeecCCceEEEEEcC
Confidence            68899999886 48888777652  111  111111111  113467899999999987  345677764

Papain is an endopeptidase with specific substrate preferences, primarily for bulky hydrophobic or aromatic residues at the S2 subsite, a hydrophobic pocket in papain that accommodates the P2 sidechain of the substrate (the second residue away from the scissile bond). Most members of the papain subfamily are endopeptidases. Some exceptions to this rule can be explained by specific details of the catalytic domains like the occluding loop in cathepsin B which confers an additional carboxydipeptidyl activity and the mini-chain of cathepsin H resulting in an N-terminal exopeptidase activity. Papain-like CPs have different functions in various organisms. Plant CPs are used to mobilize storage proteins in seeds. Parasitic CPs act extracellularly to help invade tissues and cells, to h

>PF00112 Peptidase_C1: Papain family cysteine protease This is family C1 in the peptidase classification

Probab=94.28  E-value=0.056  Score=43.82  Aligned_cols=64  Identities=17%  Similarity=0.272  Sum_probs=39.9

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCCc-cccccccccccCccCCCCCCcceEEEEEEeeCC--CceEEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYKL-SHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN--SDEFEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~L-~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~--~~~~~~~DP  157 (194)
                      ..++|+++|.++ +|+++-++..-- .-.+.+.+....  .......+|-|+|+|||.+  .+-++++|-
T Consensus       122 ~~~~ik~~L~~~-gpV~~~~~~~~~~f~~~~~gi~~~~--~~~~~~~~Hav~iVGy~~~~~~~~wiv~NS  188 (219)
T PF00112_consen  122 DIEDIKKALMKY-GPVVASIDVSSEDFQNYKSGIYDPP--DCSNESGGHAVLIVGYDDENGKGYWIVKNS  188 (219)
T ss_dssp             CHHHHHHHHHHH-SSEEEEEEEESHHHHTEESSEECST--SSSSSSEEEEEEEEEEEEETTEEEEEEE-S
T ss_pred             chhHHHHHHhhC-ceeeeeeeccccccccccceeeecc--ccccccccccccccccccccceeeEeeehh
Confidence            589999999985 377777766531 111111111111  1123678999999999999  556777774

; InterPro: IPR000668 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 group of proteins belong to the peptidase family C1, sub-family C1A (papain family, clan CA). It includes proteins classed as non-peptidase homologs. These are have either been shown experimentally to lack peptidase activity or lack one or more of the active site residues. The papain family has a wide variety of activities, including broad-range (papain) and narrow-range endo-peptidases, aminopeptidases, dipeptidyl peptidases and enzymes with both exo- and endo-peptidase activity []. Members of the papain family are widespread, found in baculovirus [], eubacteria, yeast, and practically all protozoa, plants and mammals []. The proteins are typically lysosomal or secreted, and proteolytic cleavage of the propeptide is required for enzyme activation, although bleomycin hydrolase is cytosolic in fungi and mammals []. Papain-like cysteine proteinases are essentially synthesised as inactive proenzymes (zymogens) with N-terminal propeptide regions. The activation process of these enzymes includes the removal of propeptide regions. The propeptide regions serve a variety of functions in vivo and in vitro. The pro-region is required for the proper folding of the newly synthesised enzyme, the inactivation of the peptidase domain and stabilisation of the enzyme against denaturing at neutral to alkaline pH conditions. Amino acid residues within the pro-region mediate their membrane association, and play a role in the transport of the proenzyme to lysosomes. Among the most notable features of propeptides is their ability to inhibit the activity of their cognate enzymes and that certain propeptides exhibit high selectivity for inhibition of the peptidases from which they originate []. The catalytic residues of papain are Cys-25 and His-159, other important residues being Gln-19, which helps form the 'oxyanion hole', and Asn-175, which orientates the imidazole ring of His-159. ; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 3MOR_B 3HHI_B 1S4V_A 3F75_A 1MEG_A 1PCI_C 1PPO_A 3HD3_B 1F29_A 1EWL_A ....

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=94.20  E-value=0.32  Score=48.31  Aligned_cols=108  Identities=18%  Similarity=0.151  Sum_probs=71.2

Q ss_pred             eeHHHHHHHHhhcCcceeeeecccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCc
Q 029371           25 IWTVDLAYLLQKFNVGFSYFTITLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNY  104 (194)
Q Consensus        25 ~WTIDLaylL~~~gv~~~f~T~tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~  104 (194)
                      -|.--|+++.+++|.+.+---.-..++            ++.++.....+=+.|++.|...+.-..+.++    +.+-+.
T Consensus        13 cgla~l~mia~~~g~~~~~~~lr~~~~------------~~~~g~sl~~l~~~a~~lGl~~~~~~~~~~~----l~~~~l   76 (709)
T COG2274          13 CGLACLAMIANYHGKKISLNELRELVG------------LSRNGLSLLELKQAAEKLGLSARAVKLSLEE----LKQLPL   76 (709)
T ss_pred             hHHHHHHHHHHHhCCCCCHHHHHHHcC------------CCCCCCChHHHHHHHHHcCCccccccCCHHH----hcccCC
Confidence            456668888888877654211100111            1111334467778999999966544445333    334335


Q ss_pred             EEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHh
Q 029371          105 IAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARK  176 (194)
Q Consensus       105 ~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~  176 (194)
                      |+|++.+                        .+||+|+.|++.+  .+++.||  ....-+++.+.|++.|.
T Consensus        77 P~ii~~~------------------------~~h~vVl~~~~~~--~~~v~dp--~~g~~~l~~~e~~~~~t  120 (709)
T COG2274          77 PAIIHWN------------------------GNHFVVLYKIDKN--KVVVLDP--AKGIRRLSLEEFEKLWT  120 (709)
T ss_pred             CEEEEEc------------------------CCcEEEEEEecCC--eEEEEeC--CCCcEEcCHHHHHHhhh
Confidence            8885543                        3499999999999  5899999  55677799999999996

>cd02620 Peptidase_C1A_CathepsinB Cathepsin B group; composed of cathepsin B and similar proteins, including tubulointerstitial nephritis antigen (TIN-Ag)

Probab=89.34  E-value=1.2  Score=37.80  Aligned_cols=60  Identities=17%  Similarity=0.161  Sum_probs=35.1

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCC--CccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeC
Q 029371           91 SGVEISLMILSGNYIAIALVDQY--KLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRD  156 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~--~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~D  156 (194)
                      +.++|+.+|.+. +|+++.+++.  +..-  ...+....  + .....+|-|+|+||+.+.+.  +++||
T Consensus       143 ~~~~ik~~l~~~-GPv~v~i~~~~~f~~Y--~~Giy~~~--~-~~~~~~HaV~iVGyg~~~g~~YWivrN  206 (236)
T cd02620         143 DETDIMKEIMTN-GPVQAAFTVYEDFLYY--KSGVYQHT--S-GKQLGGHAVKIIGWGVENGVPYWLAAN  206 (236)
T ss_pred             HHHHHHHHHHHC-CCeEEEEEechhhhhc--CCcEEeec--C-CCCcCCeEEEEEEEeccCCeeEEEEEe
Confidence            467899999875 3888888773  2211  11221111  1 12245799999999876432  44555

Cathepsin B is a lysosomal papain-like cysteine peptidase which is expressed in all tissues and functions primarily as an exopeptidase through its carboxydipeptidyl activity. Together with other cathepsins, it is involved in the degradation of proteins, proenzyme activation, Ag processing, metabolism and apoptosis. Cathepsin B has been implicated in a number of human diseases such as cancer, rheumatoid arthritis, osteoporosis and Alzheimer's disease. The unique carboxydipeptidyl activity of cathepsin B is attributed to the presence of an occluding loop in its active site which favors the binding of the C-termini of substrate proteins. Some members of this group do not possess the occluding loop. TIN-Ag is an extracellular matrix basement protein which was originally identified as a target Ag involved in anti-tubular basement membrane

>cd02698 Peptidase_C1A_CathepsinX Cathepsin X; the only papain-like lysosomal cysteine peptidase exhibiting carboxymonopeptidase activity

Probab=88.96  E-value=1.6  Score=37.07  Aligned_cols=88  Identities=13%  Similarity=0.129  Sum_probs=50.1

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC-ccccccccccccCccCCCCCCcceEEEEEEeeCCC---ceEEEeCCCCCC----c
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK-LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS---DEFEIRDPASCR----K  162 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~-L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~---~~~~~~DPa~~~----~  162 (194)
                      +.++|+.+|.+. +|++|-+++.. +. .....+..... +  ..+.+|-|+|+||+.+.   +=.+++|-=-..    -
T Consensus       137 ~~~~i~~~l~~~-GPV~v~i~~~~~f~-~Y~~GIy~~~~-~--~~~~~HaV~IVGyG~~~~g~~YWiikNSWG~~WGe~G  211 (239)
T cd02698         137 GRDKMMAEIYAR-GPISCGIMATEALE-NYTGGVYKEYV-Q--DPLINHIISVAGWGVDENGVEYWIVRNSWGEPWGERG  211 (239)
T ss_pred             CHHHHHHHHHHc-CCEEEEEEeccccc-ccCCeEEccCC-C--CCcCCeEEEEEEEEecCCCCEEEEEEcCCCcccCcCc
Confidence            467788888765 38888888752 11 11111221111 1  23568999999998654   335566643221    2


Q ss_pred             eeeeChHHHHHHHhhCCCCcc
Q 029371          163 REKVTLKCLEEARKSFGTDED  183 (194)
Q Consensus       163 ~~~~s~~~~e~AR~s~GTDeD  183 (194)
                      ..+|+...|.+|+-..|=..+
T Consensus       212 y~~i~rg~~~~~~~~~~i~~~  232 (239)
T cd02698         212 WFRIVTSSYKGARYNLAIEED  232 (239)
T ss_pred             eEEEEccCCcccccccccccc
Confidence            566766666666655554333

It can also act as a carboxydipeptidase, like cathepsin B, but has been shown to preferentially cleave substrates through a monopeptidyl carboxypeptidase pathway. The propeptide region of cathepsin X, the shortest among papain-like peptidases, is covalently attached to the active site cysteine in the inactive form of the enzyme. Little is known about the biological function of cathepsin X. Some studies point to a role in early tumorigenesis. A more recent study indicates that cathepsin X expression is restricted to immune cells suggesting a role in phagocytosis and the regulation of the immune response.

>cd00307 RuBisCO_small_like Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins

Probab=87.88  E-value=1.9  Score=31.89  Aligned_cols=59  Identities=14%  Similarity=0.213  Sum_probs=37.3

Q ss_pred             HHHHHHHHHcCCcEEEEEEcCCCccccccccccc----------cCccCCCCCCcceEEEEEEeeCCCc
Q 029371           92 GVEISLMILSGNYIAIALVDQYKLSHSWMEDVIV----------PGFYGSDSGYTGHYILICGYDANSD  150 (194)
Q Consensus        92 ~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~----------~~~~~~~~~Y~GHYVVLcGYd~~~~  150 (194)
                      .++|...|++|-.|.|=..|.+--...|.-+.+.          +..-.--..|.||||=|+|||...+
T Consensus         5 ~~QI~yll~qG~~~~iE~~d~~rywt~w~lp~f~~~~~~~~~Vl~el~~c~~~~p~~YVRlig~D~~~q   73 (84)
T cd00307           5 VEQVRQLLAQGYKIGLEHADARRFRTSSWQSCGPIEGRSEAQVLAALEACLAEHPGEYVRLIGIDPKAK   73 (84)
T ss_pred             HHHHHHHHHCCCEeEEEECCCCccHhhhcCCCCCCCCCCHHHHHHHHHHHHHHCCCCeEEEEEEeCCcc
Confidence            3678888999977888788876443333212111          0000001459999999999999876

Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits. This superfamily also contains specific proteins from cyanobacteria. CcmM plays a role in a CO2 concentrating mechanism, which cyanobacteria need to to overcome t

>cd02621 Peptidase_C1A_CathepsinC Cathepsin C; also known as Dipeptidyl Peptidase I (DPPI), an atypical papain-like cysteine peptidase with chloride dependency and dipeptidyl aminopeptidase activity, resulting from its tetrameric structure which limits substrate access

Probab=87.61  E-value=2.5  Score=35.84  Aligned_cols=65  Identities=15%  Similarity=0.212  Sum_probs=35.6

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCCccccccccccccC-----ccCCC-----CCCcceEEEEEEeeCCC----ceEEEeC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPG-----FYGSD-----SGYTGHYILICGYDANS----DEFEIRD  156 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~-----~~~~~-----~~Y~GHYVVLcGYd~~~----~~~~~~D  156 (194)
                      +.++|+.+|.+. +|++|-++..--.-.+...+....     |-...     ....+|-|+|+||+.+.    +=.+++|
T Consensus       132 ~~~~ik~~i~~~-GPv~v~~~~~~~F~~Y~~GIy~~~~~~~~C~~~~~~~~~~~~~~HaV~iVGyg~~~~~g~~YWiirN  210 (243)
T cd02621         132 NEDEMKWEIYRN-GPIVVAFEVYSDFDFYKEGVYHHTDNDEVSDGDNDNFNPFELTNHAVLLVGWGEDEIKGEKYWIVKN  210 (243)
T ss_pred             CHHHHHHHHHHc-CCEEEEEEecccccccCCeEECcCCcccccccccccccCcccCCeEEEEEEeeccCCCCCcEEEEEc
Confidence            567899888875 388888877511001111111111     10100     12457999999998764    2345555

Each subunit of the tetramer is composed of three peptides: the heavy and light chains, which together adopts the papain fold and forms the catalytic domain; and the residual propeptide region, which forms a beta barrel and points towards the substrate's N-terminus. The subunit composition is the result of the unique characteristic of procathepsin C maturation involving the cleavage of the catalytic domain and the non-autocatalytic excision of an activation peptide within its propeptide region. By removing N-terminal dipeptide extensions, cathepsin C activates granule serine peptidases (granzymes) involved in cell-mediated apoptosis, inflammation and tissue remodelling. Loss-of-function mutations in cathepsin C are assoc

>COG4451 RbcS Ribulose bisphosphate carboxylase small subunit [Energy production and conversion]

Probab=86.57  E-value=1.8  Score=34.23  Aligned_cols=66  Identities=20%  Similarity=0.428  Sum_probs=43.5

Q ss_pred             HHHHHHHHHcCCcEEEEEEcCCCc-cccc---ccccccc-----------CccCCCCCCcceEEEEEEeeCCCc----eE
Q 029371           92 GVEISLMILSGNYIAIALVDQYKL-SHSW---MEDVIVP-----------GFYGSDSGYTGHYILICGYDANSD----EF  152 (194)
Q Consensus        92 ~~eI~~~L~~G~~~~IvLvd~~~L-~~~~---~~~~~~~-----------~~~~~~~~Y~GHYVVLcGYd~~~~----~~  152 (194)
                      .++++.+|.+|-.|.+=.+|++-- ..+|   ..+.+-.           .|.   .+|.||||=|+|+|...+    +|
T Consensus        25 ~~QVrylL~QGykigvE~~d~rrprtgsWt~wg~p~f~~~~~~evlaele~Cr---~dhp~eYIRliGfDp~gkrrv~sf  101 (127)
T COG4451          25 AEQVRYLLSQGYKIGVEYVDDRRPRTGSWTMWGTPMFGAKTAGEVLAELEACR---ADHPGEYIRLIGFDPKGKRRVVSF  101 (127)
T ss_pred             HHHHHHHHhCCcccceeecccCCcccceeeecCCccccccchHHHHHHHHHHH---HhCCCCeEEEEEecCCCceEEEEE
Confidence            345566677886677777887743 2344   2222211           121   469999999999999987    68


Q ss_pred             EEeCCCCC
Q 029371          153 EIRDPASC  160 (194)
Q Consensus       153 ~~~DPa~~  160 (194)
                      +++-|.-.
T Consensus       102 IVhRPng~  109 (127)
T COG4451         102 IVHRPNGN  109 (127)
T ss_pred             EEECCCCC
Confidence            88888743

>cd03527 RuBisCO_small Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit

Probab=85.73  E-value=3.9  Score=31.13  Aligned_cols=55  Identities=16%  Similarity=0.396  Sum_probs=34.3

Q ss_pred             HHHHHHHcCCcEEEEEEcCCCc-ccccc---ccccc--------c---CccCCCCCCcceEEEEEEeeCCCce
Q 029371           94 EISLMILSGNYIAIALVDQYKL-SHSWM---EDVIV--------P---GFYGSDSGYTGHYILICGYDANSDE  151 (194)
Q Consensus        94 eI~~~L~~G~~~~IvLvd~~~L-~~~~~---~~~~~--------~---~~~~~~~~Y~GHYVVLcGYd~~~~~  151 (194)
                      +|...|++|-.|.|=..|.+-- ..+|.   -+.+.        .   .|   ...|.||||=|+|||...+.
T Consensus        20 QI~yll~qG~~~~lE~ad~~~~~~~yW~mwklP~f~~~d~~~Vl~ei~~C---~~~~p~~YVRliG~D~~~q~   89 (99)
T cd03527          20 QIDYIISNGWAPCLEFTEPEHYDNRYWTMWKLPMFGCTDPAQVLREIEAC---RKAYPDHYVRVVGFDNYKQS   89 (99)
T ss_pred             HHHHHHhCCCEEEEEcccCCCCCCCEEeeccCCCCCCCCHHHHHHHHHHH---HHHCCCCeEEEEEEeCCccE
Confidence            4566678887777777776643 22332   11110        0   11   14599999999999999773

Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	194
3erv_A	236	Putative C39-like peptidase; structural genomics,	99.59
3b79_A	129	Toxin secretion ATP-binding protein; alpha-beta st	98.63
3k8u_A	156	Putative ABC transporter, ATP-binding protein COMA	98.39
3zua_A	142	CLD, alpha-hemolysin translocation ATP-binding pro	98.14
2bu3_A	254	ALR0975 protein; phytochelatin synthase, PCS, acyl	96.96
1pxv_A	183	Cysteine protease; hydrolase; 1.80A {Staphylococcu	96.3
8pch_A	220	Cathepsin H; hydrolase, protease, cysteine protein	95.35
1cv8_A	174	Staphopain; cysteine protease, thiol protease, pap	95.22
3u8e_A	222	Papain-like cysteine protease; papain-like cystein	93.76
1x9y_A	367	Cysteine proteinase; half-barrel, barrel-sandwich-	93.11
3ovx_A	218	Cathepsin S; hydrolase, covalent inhibitor, aldehy	93.02
3i06_A	215	Cruzipain; autocatalytic cleavage, glycoprotein, p	92.64
1iwd_A	215	Ervatamin B; cysteine protease, alpha-beta protein	91.21
2xu3_A	220	Cathepsin L1; hydrolase, drug design, thiol protea	91.13
3kwz_A	215	Cathepsin K; enzyme inhibitor, covalent reversible	91.13
1cqd_A	221	Protein (protease II); cysteine protease, glycopro	90.78
3ois_A	291	Cysteine protease; alpha and beta, hydrolase; HET:	90.08
3p5u_A	220	Actinidin; SAD, cysteine proteinases, hydrolase; 1	89.77
1yal_A	218	Chymopapain; hydrolase, thiol protease; 1.70A {Car	89.59
2bdz_A	214	Mexicain; cysteine protease, peptidase_C1, papain-	89.19
1o0e_A	208	Ervatamin C; plant cysteine protease, two domain,	89.15
1ppo_A	216	Protease omega; hydrolase(thiol protease); 1.80A {	88.95
3qt4_A	329	Cathepsin-L-like midgut cysteine proteinase; hydro	88.8
1s4v_A	229	Cysteine endopeptidase; KDEL ER retention signal,	88.75
1m6d_A	214	Cathepsin F, catsf; papain family cysteine proteas	88.57
2cio_A	212	Papain; hydrolase/inhibitor, complex hydrolase/inh	88.53
3f75_A	224	Toxopain-2, cathepsin L protease; medical structur	88.33
3qj3_A	331	Cathepsin L-like protein; hydrolase, proteinase, l	88.25
1xkg_A	312	DER P I, major mite fecal allergen DER P 1; major	87.61
2b1m_A	246	SPE31; papain-like, sugar binding protein; HET: NA	87.17
3ioq_A	213	CMS1MS2; caricaceae, cysteine protease, papain fam	87.03
2c0y_A	315	Procathepsin S; proenzyme, proteinase, hydrolase,	86.77
3cbj_A	266	Cathepsin B; cathepsin B, occluding loop, chagas d	85.92
3zxw_B	118	Ribulose bisphosphate carboxylase small chain; CO2	85.89
3f5v_A	222	DER P 1 allergen; allergy, asthma, DUST mites, gly	85.59
1by8_A	314	Protein (procathepsin K); hydrolase(sulfhydryl pro	85.51
2fo5_A	262	Cysteine proteinase EP-B 2; EP-B2, EPB2, EPB, cyst	85.11
2o6x_A	310	Procathepsin L1, secreted cathepsin L 1; hydrolase	83.62
2oul_A	241	Falcipain 2; cysteine protease, inhibitor, macromo	83.4
1deu_A	277	Procathepsin X; cysteine protease, proregion, pros	83.38
3bwk_A	243	Cysteine protease falcipain-3; malaria, hydrolase;	83.14
1pci_A	322	Procaricain; zymogen, hydrolase, thiol protease; 3	82.66
1cs8_A	316	Human procathepsin L; prosegment, propeptide, inhi	81.75
1rbl_M	109	Ribulose 1,5 bisphosphate carboxylase/oxygenase (	81.52

>3erv_A Putative C39-like peptidase; structural genomics, unknown function, PSI-2, protein structure initiative; 2.10A {Bacillus anthracis}

Probab=99.59  E-value=7.7e-15  Score=125.04  Aligned_cols=150  Identities=24%  Similarity=0.293  Sum_probs=107.4

Q ss_pred             HHHhhhcCCceeHHHHHHHHhhcCccee-------eee-----cccCCCCCCCcchhhcccc--cchhhH--HHHHHHHH
Q 029371           15 GLAEQCCTTSIWTVDLAYLLQKFNVGFS-------YFT-----ITLGANPNYSVETFYKEQL--PTDLVR--VDMLFQKA   78 (194)
Q Consensus        15 ~l~~~c~~~S~WTIDLaylL~~~gv~~~-------f~T-----~tlG~np~y~~~~fY~~~~--~~D~~R--V~~lF~~A   78 (194)
                      ++...|..+|     ||++|+..|++++       ..+     +....||+   +.|-.+.+  +....-  -..+++.|
T Consensus        45 ~~~~gCe~tS-----lam~L~y~G~~~~~~~la~~l~~~p~~~~g~~gnP~---~gFvG~p~~~~~~g~giy~~~i~~~a  116 (236)
T 3erv_A           45 ELDRGCEVTS-----LAMMLQYAGITVDKMKLANEIKKVDFMNDGVRGNPN---EGFVGNIYTFSESGYGVYHGPLFQLA  116 (236)
T ss_dssp             TCTTCHHHHH-----HHHHHHHTTCCCCHHHHHHHSCEECSEETTEECCTT---TSEEBCSSCTTSCBCCCCHHHHHHHH
T ss_pred             CCCCCCHHHH-----HHHHHHHcCcCCCHHHHHHHHhhCcccccCCCCCCc---cCccCCccccCCCcceeecHHHHHHH
Confidence            4456688888     9999999999875       212     22345777   55544432  111111  26789999


Q ss_pred             HHcCC--ceEeccccHHHHHHHHHcCCcEEEEEEcCCCcccc------ccccccccCccCCCCCCcceEEEEEEeeCCCc
Q 029371           79 RSAGI--KIECGSISGVEISLMILSGNYIAIALVDQYKLSHS------WMEDVIVPGFYGSDSGYTGHYILICGYDANSD  150 (194)
Q Consensus        79 ~~~gi--~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~------~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~  150 (194)
                      ++.+.  .+.....|+++|.+.|++|+ ||||+++..+-..+      |..+   .+  .....+.+|||||+|||..  
T Consensus       117 ~~y~~~~~~dltG~sl~~L~~~I~~G~-PVIv~~t~~~~p~~~~~~~~W~~~---~G--~~~~~~~~H~VVl~GYd~~--  188 (236)
T 3erv_A          117 KKYLPNKAVDLTGKSIEELYKSVKAGQ-PVVIITNATFAPLDEDEFTTWETN---NG--DVSITYNEHCVVLIGYDQE--  188 (236)
T ss_dssp             HHHCTTTEEECTTSCHHHHHHHHHTTC-CEEEEEETTSSCCCGGGCEEEEET---TE--EEEECTTEEEEEEEEECSS--
T ss_pred             HHHhhcceeecCCCCHHHHHHHHHCCC-eEEEEEeCCcccccccccceeecC---CC--ceeeccCCeEEEEEEEeCC--
Confidence            99863  45567779999999999996 99999988753211      1100   00  0112489999999999984  


Q ss_pred             eEEEeCCCCCCceeeeChHHHHHHHhhCCC
Q 029371          151 EFEIRDPASCRKREKVTLKCLEEARKSFGT  180 (194)
Q Consensus       151 ~~~~~DPa~~~~~~~~s~~~~e~AR~s~GT  180 (194)
                      .++++||+...+...++.+.||++|.+.|.
T Consensus       189 ~vyi~DP~~g~~~~~vs~~eFe~~w~~~G~  218 (236)
T 3erv_A          189 SVYIRDPLKDSLDVKVPREKFEQAWVQMGS  218 (236)
T ss_dssp             EEEEECTTSCCSCCEEEHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCccEEEcHHHHHHHHHhcCC
Confidence            699999999876788999999999999997

>3b79_A Toxin secretion ATP-binding protein; alpha-beta structure, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.37A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.63  E-value=4.5e-08  Score=73.34  Aligned_cols=108  Identities=18%  Similarity=0.116  Sum_probs=77.3

Q ss_pred             eHHHHHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCC
Q 029371           26 WTVDLAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGN  103 (194)
Q Consensus        26 WTIDLaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~  103 (194)
                      |---|+++++++|++++--..  .++.++              ++.-...+-+.|++.|........+.++|...   . 
T Consensus         8 gla~L~~i~~~~g~~~~~~~l~~~~~~~~--------------~g~s~~~l~~~a~~~Gl~~~~~~~~~~~L~~l---~-   69 (129)
T 3b79_A            8 LLNSLIYVSRYYGLANSPEALVNGLPLSD--------------GKLTPFLLPRAAERAGLVAKENRAELEKISSL---I-   69 (129)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHTTCCCBT--------------TBCCTTTHHHHHHHHTEEEEEEECCGGGSCGG---G-
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHhcCCCcC--------------CCCCHHHHHHHHHHCCCeEEEEECCHHHCCcC---C-
Confidence            444589999999987763332  222111              12222456788999999877666777776431   2 


Q ss_pred             cEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHH
Q 029371          104 YIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEAR  175 (194)
Q Consensus       104 ~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR  175 (194)
                      .|+|++.+                        .||||||.|+|.+.+.+.+.||+.......++.+.|++.|
T Consensus        70 lP~I~~~~------------------------~~h~vVl~~~~~~~~~~~i~dp~~~~g~~~~~~~ef~~~w  117 (129)
T 3b79_A           70 LPAILVLK------------------------GGDSCVLNSINMETREAEVTTLESGMVPISIPLEDLLEQY  117 (129)
T ss_dssp             CSEEEEEG------------------------GGEEEEEEEEETTTTEEEEECTTTTTSCEEEEHHHHHHHE
T ss_pred             CCEEEEEc------------------------CCCEEEEEEEcCCCceEEEEccCCCCCcEEeeHHHHHhhC
Confidence            58997764                        3699999999987667999999966667889999999999

>3k8u_A Putative ABC transporter, ATP-binding protein COMA; cysteine protease, quorum-sensing, hydrolase; 1.90A {Streptococcus mutans}

Probab=98.39  E-value=6.5e-07  Score=69.75  Aligned_cols=119  Identities=13%  Similarity=0.115  Sum_probs=80.1

Q ss_pred             HHHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEE
Q 029371           29 DLAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGNYIA  106 (194)
Q Consensus        29 DLaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~  106 (194)
                      -|+++++.+|.+++--..  .++.              +.++.-...+-+.|++.|........+.+++  .|.+-+.|+
T Consensus        21 cLa~i~~~~g~~~s~~~L~~~~~~--------------~~~g~s~~~l~~~a~~~Gl~a~~~~~~~~~~--~l~~~~lP~   84 (156)
T 3k8u_A           21 VLASVAKHYGSNYSIAYLRELSKT--------------NKQGTTALGIVEAAKKLGFETRSIKADMTLF--DYNDLTYPF   84 (156)
T ss_dssp             HHHHHHHHTTCCCCHHHHHHHTTC--------------BTTBCCHHHHHHHHHHTTEEEEEEECCGGGG--GCTTCCSCE
T ss_pred             HHHHHHHHhCCCCCHHHHHHHcCC--------------CCCCcCHHHHHHHHHHCCCeeEEEEeehhhh--hHhcCCCCE
Confidence            389999999987652221  1111              1122333667788999999776555666522  123333699


Q ss_pred             EEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCccEEE
Q 029371          107 IALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDEDLLL  186 (194)
Q Consensus       107 IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeDil~  186 (194)
                      |++++..                    +-.||||||.|++.  +.+++.||+..+....+|.+.|++.|.     ..+|+
T Consensus        85 I~~~~~~--------------------g~~~hfvVl~~~~~--~~v~I~DP~~g~~~~~ls~~ef~~~w~-----G~~l~  137 (156)
T 3k8u_A           85 IVHVIKG--------------------KRLQHYYVVYGSQN--NQLIIGDPDPSVKVTRMSKERFQSEWT-----GLAIF  137 (156)
T ss_dssp             EEEEEET--------------------TEEEEEEEEEEEET--TEEEEEECSTTTEEEEEEHHHHHHHEE-----EEEEE
T ss_pred             EEEEEec--------------------CCCcEEEEEEEEcC--CEEEEEcCCCCcceEEEcHHHHHhhCc-----eEEEE
Confidence            9876532                    02479999999995  469999999986677899999999993     35666


Q ss_pred             EEcC
Q 029371          187 ISLE  190 (194)
Q Consensus       187 I~~~  190 (194)
                      +...
T Consensus       138 ~~p~  141 (156)
T 3k8u_A          138 LAPQ  141 (156)
T ss_dssp             EEEC
T ss_pred             EEcC
Confidence            6543

>3zua_A CLD, alpha-hemolysin translocation ATP-binding protein; C39 peptidase-like domain, ABC transporter, haemolysin, HYDR heteronuclear; NMR {Escherichia coli}

Probab=98.14  E-value=7.9e-06  Score=62.56  Aligned_cols=117  Identities=15%  Similarity=0.137  Sum_probs=79.7

Q ss_pred             eHHHHHHHHhhcCcceeeeec--ccCCCCCCCcchhhcccccchhhHHHHHHHHHHHcCCceEeccccHHHHHHHHHcCC
Q 029371           26 WTVDLAYLLQKFNVGFSYFTI--TLGANPNYSVETFYKEQLPTDLVRVDMLFQKARSAGIKIECGSISGVEISLMILSGN  103 (194)
Q Consensus        26 WTIDLaylL~~~gv~~~f~T~--tlG~np~y~~~~fY~~~~~~D~~RV~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~  103 (194)
                      |---|+++++++|++++--..  .++.+.              ++.-...+-+.|++.|........+.++|..    -+
T Consensus        15 glacLa~i~~~~g~~~s~~~L~~~~~~~~--------------~g~s~~~l~~aa~~~Gl~a~~~~~~~~~L~~----l~   76 (142)
T 3zua_A           15 GLYALEILAQYHNVSVNPEEIKHRFDTDG--------------TGLGLTSWLLAAKSLELKVKQVKKTIDRLNF----IS   76 (142)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHTCTTS--------------SCCCHHHHHHHHHTTTEEEEEEECCHHHHTT----SS
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHcCCCc--------------CCcCHHHHHHHHHHCCCeeEEeecCHHHHhc----CC
Confidence            444589999999987663332  222222              2233366778899999987776778877654    23


Q ss_pred             cEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCCceeeeChHHHHHHHhhCCCCcc
Q 029371          104 YIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCRKREKVTLKCLEEARKSFGTDED  183 (194)
Q Consensus       104 ~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~~~~~~s~~~~e~AR~s~GTDeD  183 (194)
                      .|+|++.+.                       ..|||| .+++.+.+.+++.||+... ...++.+.|++.|.     ..
T Consensus        77 lP~Il~~~~-----------------------g~~~Vv-~~~~~~~~~~~I~dP~~g~-~~~~s~~ef~~~w~-----G~  126 (142)
T 3zua_A           77 LPALVWRED-----------------------GRHFIL-TKVSKEANRYLIFDLEQRN-PRVLEQSEFEALYQ-----GH  126 (142)
T ss_dssp             SSEEECCTT-----------------------SCCEEE-EEEETTTTEEEEEETTTTE-EEEEEHHHHHHHCC-----SE
T ss_pred             CCEEEEEcC-----------------------CCEEEE-EEEeCCCCEEEEEcCCCCC-cEEecHHHHHhhCC-----CE
Confidence            699964311                       136655 6899876789999999875 66799999999994     35


Q ss_pred             EEEEEcC
Q 029371          184 LLLISLE  190 (194)
Q Consensus       184 il~I~~~  190 (194)
                      +|++...
T Consensus       127 ~l~~~~~  133 (142)
T 3zua_A          127 IILIASR  133 (142)
T ss_dssp             EEEEEES
T ss_pred             EEEEEEC
Confidence            6666543

>2bu3_A ALR0975 protein; phytochelatin synthase, PCS, acyl-enzyme intermedia nostoc, glutathione metabolism, cysteine protease, transfer; HET: 3GC; 1.4A {Anabaena SP} SCOP: d.3.1.14 PDB: 2btw_A* 2btw_B

Probab=96.96  E-value=0.011  Score=50.72  Aligned_cols=93  Identities=17%  Similarity=0.169  Sum_probs=66.7

Q ss_pred             hhhHHHHHHHHHHHcCCceEe---ccccHHHHHHHH----HcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceE
Q 029371           67 DLVRVDMLFQKARSAGIKIEC---GSISGVEISLMI----LSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHY  139 (194)
Q Consensus        67 D~~RV~~lF~~A~~~gi~v~~---rsvs~~eI~~~L----~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHY  139 (194)
                      ++-=..++...|+..|+.++.   ...|.+++.+.+    .+....+||-++...|.-.                =.|||
T Consensus       132 ~GiTL~el~~La~c~G~~v~~y~a~~~sl~~fR~~v~~~~~~~~~~vvvny~R~~l~q~----------------G~GHf  195 (254)
T 2bu3_A          132 QGMTLDELGRLIASYGVKVKVNHASDTNIEDFRKQVAENLKQDGNFVIVNYLRKEIGQE----------------RGGHI  195 (254)
T ss_dssp             HCCCHHHHHHHHHTTTCEEEEEEGGGSCHHHHHHHHHHHHTCTTEEEEEEEEGGGGTCS----------------SSEEE
T ss_pred             CCcCHHHHHHHHHhCCceEEEEECCcCcHHHHHHHHHHHhCCCCcEEEEEeEccccCCC----------------CCCce
Confidence            333447788889999987652   456888875554    3333578877777766431                38999


Q ss_pred             EEEEEeeCCCceEEEeCCCCCC-ceeeeChHHHHHHH
Q 029371          140 ILICGYDANSDEFEIRDPASCR-KREKVTLKCLEEAR  175 (194)
Q Consensus       140 VVLcGYd~~~~~~~~~DPa~~~-~~~~~s~~~~e~AR  175 (194)
                      --|-|||++++.+.+.|+|... .---|+.+.|=+|=
T Consensus       196 SPIggY~~~~D~vLIlDVar~kYpp~WV~~~~L~~Am  232 (254)
T 2bu3_A          196 SPLAAYNEQTDRFLIMDVSRYKYPPVWVKTTDLWKAM  232 (254)
T ss_dssp             EEEEEEETTTTEEEECCSCTTTCCCEEEEHHHHHHHH
T ss_pred             eceeeEcCCCCeEEEEecCccCCCCEeeeHHHHHHHH
Confidence            9999999999999999999643 34447777665553

>1pxv_A Cysteine protease; hydrolase; 1.80A {Staphylococcus aureus} SCOP: d.3.1.1 PDB: 1y4h_A

Probab=96.30  E-value=0.031  Score=45.66  Aligned_cols=93  Identities=14%  Similarity=0.147  Sum_probs=64.2

Q ss_pred             CCCCcchhhcccccchhhHHHHHHHHHHHcC--CceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCcc
Q 029371           52 PNYSVETFYKEQLPTDLVRVDMLFQKARSAG--IKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFY  129 (194)
Q Consensus        52 p~y~~~~fY~~~~~~D~~RV~~lF~~A~~~g--i~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~  129 (194)
                      |+-+.+.|=...+.-++     .-+-++..|  +.++.|..|.+|++..+.+++ |+.++.+..-=              
T Consensus        62 PN~s~~~l~~t~~~~~q-----~Iky~~s~G~~~~~~nr~ls~neV~~~i~~Nk-~I~v~~~~v~e--------------  121 (183)
T 1pxv_A           62 PEVSEQDLPNCATFPNQ-----MIEYGKSQGRDIHYQEGVPSYNQVDQLTKDNV-GIMILAQSVSQ--------------  121 (183)
T ss_dssp             TTSCTTTGGGCCBCHHH-----HHHHHHHTTCCCEEEESCCCHHHHHHHHHTTC-CEEEEEECCCS--------------
T ss_pred             CCCChhHHhhcCCCHHH-----HHHHHHHcCcChhHhcCCCCHHHHHHHHhcCC-cEEEEcccccc--------------
Confidence            66666655544454444     444444555  679999999999999999998 66655543311              


Q ss_pred             CCCCCCcceEEEEEEeeCCCc--eEEEeCCCCCCcee
Q 029371          130 GSDSGYTGHYILICGYDANSD--EFEIRDPASCRKRE  164 (194)
Q Consensus       130 ~~~~~Y~GHYVVLcGYd~~~~--~~~~~DPa~~~~~~  164 (194)
                      +.+....||=+||+||-...+  .+++=||=...-.+
T Consensus       122 ~~~~~~~gHA~av~Gya~~~~~~~y~~WNPW~~~~~~  158 (183)
T 1pxv_A          122 NPNDPHLGHALAVVGNAKINDQEKLIYWNPWDTELSI  158 (183)
T ss_dssp             STTSCCCEEEEEEEEEEEETTEEEEEEECTTCSSCEE
T ss_pred             CCCCccCceeEEEEeeeecCCCeEEEEeCCccCCcEe
Confidence            233458999999999987765  57788887765444

>8pch_A Cathepsin H; hydrolase, protease, cysteine proteinase, aminopeptidase; HET: NAG BMA; 2.10A {Sus scrofa} SCOP: d.3.1.1 PDB: 1nb3_A* 1nb5_A*

Probab=95.35  E-value=0.034  Score=45.27  Aligned_cols=67  Identities=6%  Similarity=0.010  Sum_probs=41.4

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      -+.++|++.|.++ +|+.+-+|+.--.-...+.+.....+.......+|-|+|+||+.+.+.  ++++|-
T Consensus       119 ~~~~~ik~~l~~~-gPV~~~~~~~~~f~~Y~~Giy~~~~~~~~~~~~~HaV~iVGyg~~~g~~yWivkNS  187 (220)
T 8pch_A          119 NDEEAMVEAVALY-NPVSFAFEVTNDFLMYRKGIYSSTSCHKTPDKVNHAVLAVGYGEENGIPYWIVKNS  187 (220)
T ss_dssp             TCHHHHHHHHHHT-CCEEEEECCCHHHHTCCSSEECCSSCCCSTTTCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             CCHHHHHHHHHhc-CCEEEEEEeccchhhcCCCcccCCcCCCCCCcCCcEEEEEEEEccCCeeEEEEECC
Confidence            4688999999876 388898988620000111222222222233467999999999977644  666763

>1cv8_A Staphopain; cysteine protease, thiol protease, papain family; HET: E64; 1.75A {Staphylococcus aureus} SCOP: d.3.1.1

Probab=95.22  E-value=0.1  Score=42.36  Aligned_cols=92  Identities=16%  Similarity=0.150  Sum_probs=61.9

Q ss_pred             CCCCcchhhcccccchhhHHHHHHHHHHHcC--CceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCcc
Q 029371           52 PNYSVETFYKEQLPTDLVRVDMLFQKARSAG--IKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFY  129 (194)
Q Consensus        52 p~y~~~~fY~~~~~~D~~RV~~lF~~A~~~g--i~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~  129 (194)
                      |+-+.+.|=.+.+..     ++.++-++..|  +.++.|.+|.+|++..+.++++++| +.|..  .             
T Consensus        53 Pn~S~~~l~~~~~t~-----~e~iky~~s~g~~~~~~n~~ls~~eV~~~~~~nk~i~i-~~~~v--e-------------  111 (174)
T 1cv8_A           53 PNLQGQQFQFTGLTP-----REMIYFGQTQGRSPQLLNRMTTYNEVDNLTKNNKGIAI-LGSRV--E-------------  111 (174)
T ss_dssp             SSCCHHHHHHCCCCH-----HHHHHHHHHTTCCCEEESSCCCHHHHHHHHHTTCCEEE-EEEES--S-------------
T ss_pred             CCCCHHHHhhcCCCH-----HHHHHHHHHcCCChhhhcCCCCHHHHHHHHhcCCceEE-Ecccc--c-------------
Confidence            555544444333333     35667777777  4688999999999999999984444 43332  0             


Q ss_pred             CCCCCCcceEEEEEEeeCCC---ceEEEeCCCCCCcee
Q 029371          130 GSDSGYTGHYILICGYDANS---DEFEIRDPASCRKRE  164 (194)
Q Consensus       130 ~~~~~Y~GHYVVLcGYd~~~---~~~~~~DPa~~~~~~  164 (194)
                      ..+....||=+||+||-...   +.++|=||=..+-.+
T Consensus       112 ~~~~~~~gHAlav~Gy~~~~ng~~~y~~WNPW~~~~~~  149 (174)
T 1cv8_A          112 SRNGMHAGHAMAVVGNAKLNNGQEVIIIWNPWDNGFMT  149 (174)
T ss_dssp             CBTTBCCEEEEEEEEEEEETTSCEEEEEECTTCSSCEE
T ss_pred             CCCCCCCceeEEEEeeeeecCCceEEEEeCCccCCcEE
Confidence            11234899999999998853   367888887765543

>3u8e_A Papain-like cysteine protease; papain-like cysteine peptidase, peptidase_C1A, hydrolase, in form; 1.31A {Crocus sativus} SCOP: d.3.1.0

Probab=93.76  E-value=0.14  Score=41.89  Aligned_cols=64  Identities=14%  Similarity=0.212  Sum_probs=38.6

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccc-cccccCccCCCCCCcceEEEEEEeeCCC---ceEEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWME-DVIVPGFYGSDSGYTGHYILICGYDANS---DEFEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~-~~~~~~~~~~~~~Y~GHYVVLcGYd~~~---~~~~~~D  156 (194)
                      .+.++|++.|.+|  |+.|-+|+.-  +. .... .+.....+..++...+|-|+|+||+.+.   +-++++|
T Consensus       114 ~~~~~i~~~l~~G--PV~v~i~~~~~~f~-~Y~~~Giy~~~~~~~~~~~~~HaV~iVGyg~~~~g~~yWivkN  183 (222)
T 3u8e_A          114 NSSSALLDAVAKQ--PVSVNIYTSSTSFQ-LYTGPGIFAGSSCSDDPATVDHTVLIVGYGSNGTNADYWIVKN  183 (222)
T ss_dssp             SCHHHHHHHHHHS--CEEEEECCCSHHHH-TCCCSSCBCCTTCCCCGGGCCEEEEEEEEEESSTTCEEEEEEC
T ss_pred             CcHHHHHHHHhCC--CEEEEEEecChhhh-cEeCCceECCCcccCCCCcCCEEEEEEEEeecCCCCcEEEEEC
Confidence            5678899999777  7777888752  11 1111 2222212222233579999999999764   3466666

>1x9y_A Cysteine proteinase; half-barrel, barrel-sandwich-hybrid, hydrolase; 2.50A {Staphylococcus aureus} SCOP: d.3.1.1 d.17.1.4

Probab=93.11  E-value=0.37  Score=43.10  Aligned_cols=79  Identities=11%  Similarity=0.128  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHcCC--ceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCC
Q 029371           71 VDMLFQKARSAGI--KIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN  148 (194)
Q Consensus        71 V~~lF~~A~~~gi--~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~  148 (194)
                      .++.++-+++.|.  ..+.|..|.+|++..+.+++ |++++.+..-=              +.+....||=+||+||-..
T Consensus       252 ~~q~Iky~qsyG~~~~~~n~~ls~deVk~~id~Nk-~I~v~~~~v~~--------------~~n~~~~gHAlavvGyA~~  316 (367)
T 1x9y_A          252 PNQMIEYGKSQGRDIHYQEGVPSYNQVDQLTKDNV-GIMILAQSVSQ--------------NPNDPHLGHALAVVGNAKI  316 (367)
T ss_dssp             HHHHHHHHHHTTEEEEEEESCCCHHHHHHHHHTTC-CEEEEEEETTS--------------CSSSCCCSEEEEEEEEEEE
T ss_pred             HHHHHHHHHHhCcchhhhcCCCCHHHHHHHHhcCC-cEEEEcccccc--------------CCCCccCceeEEEEecccc
Confidence            3567888888886  57799999999999998886 77777665411              1234489999999999554


Q ss_pred             C--ceEEEeCCCCCCcee
Q 029371          149 S--DEFEIRDPASCRKRE  164 (194)
Q Consensus       149 ~--~~~~~~DPa~~~~~~  164 (194)
                      .  ..++|=||=..+-.+
T Consensus       317 ~~~~~y~~WNPW~~~~~~  334 (367)
T 1x9y_A          317 NDQEKLIYWNPWDTELSI  334 (367)
T ss_dssp             TTEEEEEEECTTCSSCEE
T ss_pred             CCCcEEEEecCccCCcee
Confidence            4  457888887765444

>3ovx_A Cathepsin S; hydrolase, covalent inhibitor, aldehyde warhead is covalently bound to Cys25, lysosomeal protein; HET: O64; 1.49A {Homo sapiens} SCOP: d.3.1.1 PDB: 2h7j_A* 2f1g_A* 2hh5_B* 2hhn_A* 2hxz_A* 2op3_A* 2frq_A* 2fra_A* 2fq9_A* 2ft2_A* 2fud_A* 2g7y_A* 1ms6_A* 2r9m_A* 2r9n_A* 2r9o_A* 3n3g_A* 3n4c_A* 3mpe_A* 1nqc_A* ...

Probab=93.02  E-value=0.19  Score=40.63  Aligned_cols=62  Identities=11%  Similarity=0.075  Sum_probs=39.2

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~D  156 (194)
                      .+.++|++.|.++ +|+.+-+|+..  +.- ..+.+..... +  ....+|-|+|+||+.+.++  ++++|
T Consensus       120 ~~~~~ik~~l~~~-gPV~v~~~~~~~~f~~-y~~Giy~~~~-~--~~~~~HaV~iVGyg~~~g~~ywivkN  185 (218)
T 3ovx_A          120 GREDVLKEAVANK-GPVSVGVDARHPSFFL-YRSGVYYEPS-C--TQNVNHGVLVVGYGDLNGKEYWLVKN  185 (218)
T ss_dssp             TCHHHHHHHHHHT-CCEEEEECCCSHHHHH-CCSSEECCTT-C--CSCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             CCHHHHHHHHHhc-CCEEEEEEecchhhhc-ccCceecCCC-C--CcccCcEEEEEEEeccCCceEEEEEC
Confidence            3678899999986 38888888863  111 1111111111 1  3567999999999976533  66666

>3i06_A Cruzipain; autocatalytic cleavage, glycoprotein, protease, thiol protease, zymogen; HET: QL2; 1.10A {Trypanosoma cruzi} SCOP: d.3.1.1 PDB: 1ewm_A* 1ewo_A* 1ewl_A* 1f29_A* 1ewp_A* 1f2b_A* 1f2c_A* 1f2a_A* 1me4_A* 1u9q_X* 2aim_A* 2efm_A* 2oz2_A* 1me3_A* 3kku_A* 3lxs_A* 1aim_A* 3iut_A* 3hd3_A* 2p86_A* ...

Probab=92.64  E-value=0.31  Score=39.49  Aligned_cols=61  Identities=16%  Similarity=0.232  Sum_probs=37.7

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~DP  157 (194)
                      +.++|++.|.++ +|+.+-+|+.-+.- ..+.+. ..+   .....+|-|+|+||+.+.+  =++++|-
T Consensus       121 ~~~~ik~~l~~~-gPV~v~~~~~~f~~-Y~~Giy-~~~---~~~~~~HaV~iVGyg~~~g~~yWivkNS  183 (215)
T 3i06_A          121 DEAQIAAWLAVN-GPVAVAVDASSWMT-YTGGVM-TSC---VSEQLDHGVLLVGYNDSAAVPYWIIKNS  183 (215)
T ss_dssp             CHHHHHHHHHHH-CCEEEEECCTTGGG-CCSSEE-CSC---CCSCCCEEEEEEEEESSSSSCEEEEECS
T ss_pred             hHHHHHHHHHHC-CCEEEEEEchHHhc-CCCCcc-cCC---CCCccCcEEEEEEEeccCCcEEEEEECC
Confidence            678899999875 37888888742211 111111 111   1234699999999998754  3666663

>1iwd_A Ervatamin B; cysteine protease, alpha-beta protein, catalytic DYAD, L-DOM domain., hydrolase; 1.63A {Tabernaemontana divaricata} SCOP: d.3.1.1

Probab=91.21  E-value=0.45  Score=38.67  Aligned_cols=60  Identities=13%  Similarity=0.216  Sum_probs=36.7

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~DP  157 (194)
                      +.++|++.|.+|  |+.|-+++.-  +. ...+.+....  +.  ...+|-|+|+||+.+.+  =++++|-
T Consensus       116 ~~~~ik~~l~~G--PV~v~i~~~~~~f~-~Y~~Gvy~~~--c~--~~~~HaV~iVGyg~~~g~~yWivkNS  179 (215)
T 1iwd_A          116 NESALQSAVASQ--PVSVTVEAAGAPFQ-HYSSGIFTGP--CG--TAQNHGVVIVGYGTQSGKNYWIVRNS  179 (215)
T ss_dssp             CHHHHHHHHHHS--CEEEEECCCSHHHH-TCCSSEECCC--CC--CCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             cHHHHHHHHHhC--CEEEEEecCCcchh-hcCCceECCC--CC--CcCCEEEEEEEEeccCCccEEEEEeC
Confidence            567888888876  7778888752  11 1111222221  11  25799999999997643  3666663

>2xu3_A Cathepsin L1; hydrolase, drug design, thiol protease; HET: XU3 BTB; 0.90A {Homo sapiens} PDB: 2xu4_A* 2xu5_A* 2yj2_A* 2yj8_A* 2yj9_A* 2yjb_A* 2yjc_A* 3bc3_A* 3h89_A* 3h8b_A* 3h8c_A* 3of9_A* 3of8_A* 3hha_A* 2xu1_A* 3iv2_A* 3k24_A* 2nqd_B* 3kse_A* 2vhs_A ...

Probab=91.13  E-value=0.52  Score=38.21  Aligned_cols=62  Identities=13%  Similarity=0.139  Sum_probs=37.8

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEee----CCC--ceEEEeC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYD----ANS--DEFEIRD  156 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd----~~~--~~~~~~D  156 (194)
                      +.++|++.|.++ +|+.|-+++..  +.- ..+.+..... +. ....+|-|+|+||+    .+.  +=++++|
T Consensus       118 ~~~~ik~~l~~~-GPV~v~~~~~~~~f~~-Y~~Gvy~~~~-c~-~~~~~HaV~iVGygd~~~~~~g~~yWivkN  187 (220)
T 2xu3_A          118 QEKALMKAVATV-GPISVAIDAGHESFLF-YKEGIYFEPD-CS-SEDMDHGVLVVGYGFESTESDNNKYWLVKN  187 (220)
T ss_dssp             CHHHHHHHHHHT-CCEEEEECCCSHHHHT-CCSSEECCTT-CC-SSCCCEEEEEEEEEECCCSSSCCEEEEEEC
T ss_pred             CHHHHHHHHHhc-CCEEEEEeecCccccc-ccceEEcCCC-CC-CCCCCeEEEEEEcCCccccCCCCcEEEEEe
Confidence            688999999885 38888888762  110 1112221111 11 24679999999999    432  2366666

>3kwz_A Cathepsin K; enzyme inhibitor, covalent reversible inhibitor, disease mutation, disulfide bond, glycoprotein, hydrolase, lysosome, protease; HET: KWZ; 1.49A {Homo sapiens} PDB: 1au0_A* 1au2_A* 1au3_A* 1au4_A* 1ayu_A* 1ayv_A* 1ayw_A* 1bgo_A* 1atk_A* 1nl6_A* 1nlj_A* 1q6k_A* 1mem_A* 1yk7_A* 1yk8_A* 1yt7_A* 2ato_A* 2aux_A* 2auz_A* 2bdl_A* ...

Probab=91.13  E-value=0.47  Score=38.24  Aligned_cols=63  Identities=13%  Similarity=0.142  Sum_probs=38.7

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~D  156 (194)
                      .+.++|++.|.++ +|+.+-+|+..  +.- ..+.+.....+  .....+|-|+|+||+.+.+  -++++|
T Consensus       116 ~~~~~ik~~l~~~-gPV~v~~~~~~~~f~~-y~~Giy~~~~~--~~~~~~HaV~iVGyg~~~g~~yWivkN  182 (215)
T 3kwz_A          116 GNEKALKRAVARV-GPVSVAIDASLTSFQF-YSKGVYYDESC--NSDNLNHAVLAVGYGIQKGNKHWIIKN  182 (215)
T ss_dssp             TCHHHHHHHHHHT-CCEEEEECCCSHHHHT-CCSSEECCTTC--CTTCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             CCHHHHHHHHHHC-CCEEEEEeechhhhhc-ccCCeECCCCC--CCChhhCEEEEEEEeccCCceEEEEEC
Confidence            3678999999886 38888888761  111 11112111111  1246799999999996543  366666

>1cqd_A Protein (protease II); cysteine protease, glycoprotein, proline specificity, carboh papain family, hydrolase; HET: NAG FUL FUC; 2.10A {Zingiber officinale} SCOP: d.3.1.1

Probab=90.78  E-value=0.41  Score=39.01  Aligned_cols=60  Identities=8%  Similarity=0.184  Sum_probs=36.8

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~DP  157 (194)
                      +.++|++.|.+|  |+.|-+|+.-  +. ...+.+....  +.  ...+|-|+|+||+.+.+  =++++|-
T Consensus       119 ~~~~i~~~l~~G--PV~v~i~~~~~~f~-~Y~~Giy~~~--~~--~~~~HaV~iVGyg~~~g~~yWivkNS  182 (221)
T 1cqd_A          119 NEQSLQKAVANQ--PVSVTMDAAGRDFQ-LYRSGIFTGS--CN--ISANHALTVVGYGTENDKDFWIVKNS  182 (221)
T ss_dssp             CHHHHHHHHTTS--CEEEEECCCSHHHH-TCCSSEECCC--CC--CCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             hHHHHHHHHHhC--CEEEEEeccCcccc-cccCccccCC--CC--CcCCeEEEEEEEcccCCCcEEEEEeC
Confidence            577899988765  7788888751  11 0111222221  11  25899999999997643  3666664

>3ois_A Cysteine protease; alpha and beta, hydrolase; HET: UDP; 1.65A {Xylella fastidiosa}

Probab=90.08  E-value=0.56  Score=39.84  Aligned_cols=79  Identities=18%  Similarity=0.149  Sum_probs=46.7

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCC--Ccccccccc-ccccCccCCCCCCcceEEEEEEeeCCCceEEEeCCCCCC----ce
Q 029371           91 SGVEISLMILSGNYIAIALVDQY--KLSHSWMED-VIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDPASCR----KR  163 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~--~L~~~~~~~-~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DPa~~~----~~  163 (194)
                      +.++|++.|.++ +|+.+-++..  +..-  ... -......+......+|-|+|+||+...+-++++|-=-..    -.
T Consensus       190 ~e~~i~~al~~~-gPV~v~~~~~~~f~~y--~~~~Gi~~~~~~~~~~~~~Hav~iVGy~~~~~ywivkNSWG~~WG~~Gy  266 (291)
T 3ois_A          190 DIDHLKACLAVG-SPFVFGFSVYNSWVGN--NSLPVRIPLPTKNDTLEGGHAVLCVGYDDEIRHFRIRNSWGNNVGEDGY  266 (291)
T ss_dssp             CHHHHHHHHHTT-CCEEEEEEEEHHHHGG--GCCCSBCCCCCTTSCEEEEEEEEEEEEETTTTEEEEECSBCTTSTBTTE
T ss_pred             CHHHHHHHHHcC-CCEEEEEEeccchhhc--CCCCeEEeCCCCCCCCcCCeEEEEEEEeCCCCEEEEEeCCCCCCCCCcE
Confidence            788999999987 4777777654  1110  000 011111111112238999999999777778888843322    26


Q ss_pred             eeeChHHHH
Q 029371          164 EKVTLKCLE  172 (194)
Q Consensus       164 ~~~s~~~~e  172 (194)
                      .+++.+-|.
T Consensus       267 ~~i~~~~~~  275 (291)
T 3ois_A          267 FWMPYEYIS  275 (291)
T ss_dssp             EEEEHHHHT
T ss_pred             EEEEHHHhc
Confidence            777766653

>3p5u_A Actinidin; SAD, cysteine proteinases, hydrolase; 1.50A {Actinidia arguta} SCOP: d.3.1.1 PDB: 3p5v_A 3p5w_A 3p5x_A 1aec_A* 2act_A

Probab=89.77  E-value=0.57  Score=37.99  Aligned_cols=60  Identities=7%  Similarity=0.142  Sum_probs=35.9

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~D  156 (194)
                      .+.++|++.|.+|  |+.|-+|+..  +. ...+.+.... +   ....+|-|+|+||+.+.+.  ++++|
T Consensus       119 ~~~~~l~~~l~~G--PV~v~~~~~~~~f~-~Y~~Giy~~~-~---~~~~~HaV~iVGyg~~~g~~yWivkN  182 (220)
T 3p5u_A          119 NNEWALQTAVAYQ--PVSVALEAAGYNFQ-HYSSGIFTGP-C---GTAVDHAVTIVGYGTEGGIDYWIVKN  182 (220)
T ss_dssp             TCHHHHHHHHTTS--CEEEEECCCSHHHH-TCCSSEECCC-C---CCSCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             CcHHHHHHHHhcC--CEEEEEecCchhhc-cccCceECCC-C---CCccceEEEEEEEecCCCceEEEEEC
Confidence            4677888888555  7888888752  11 0111222111 1   2246999999999965443  56665

>1yal_A Chymopapain; hydrolase, thiol protease; 1.70A {Carica papaya} SCOP: d.3.1.1 PDB: 1gec_E*

Probab=89.59  E-value=0.59  Score=37.97  Aligned_cols=61  Identities=11%  Similarity=0.073  Sum_probs=37.4

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeCC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRDP  157 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~DP  157 (194)
                      .+.++|++.|.+|  |+.+-+|+.-  +. ...+.+....  +.  ...+|-|+|+||+.+.+  =++++|-
T Consensus       116 ~~~~~i~~~l~~G--PV~v~i~~~~~~f~-~Y~~Giy~~~--~~--~~~~HaV~iVGyg~~~g~~yWivkNS  180 (218)
T 1yal_A          116 NCETSFLGALANQ--PLSVLVEAGGKPFQ-LYKSGVFDGP--CG--TKLDHAVTAVGYGTSDGKNYIIIKNS  180 (218)
T ss_dssp             SBHHHHHHHHTTS--CEEEEECCCSHHHH-TCCSSEECCS--CC--SCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             CCHHHHHHHHHhC--CEEEEEeccchhcc-ccCCceECCC--CC--CCCCEEEEEEEeeccCCccEEEEEeC
Confidence            3677899999875  7888888741  11 0111222211  11  13699999999998653  3666663

>2bdz_A Mexicain; cysteine protease, peptidase_C1, papain-like, HYDR; HET: E64; 2.10A {Jacaratia mexicana}

Probab=89.19  E-value=0.85  Score=36.95  Aligned_cols=59  Identities=10%  Similarity=0.126  Sum_probs=37.1

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDP  157 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DP  157 (194)
                      .+.++|++.|.+|  |+.|-+|+.-  +. .....+....  +.  ...+|-|+|+||+.  +=++++|-
T Consensus       116 ~~~~~i~~~l~~g--PV~v~i~~~~~~f~-~Y~~Giy~~~--~~--~~~~HaV~iVGyg~--~yWivkNS  176 (214)
T 2bdz_A          116 NDEISLIQAIANQ--PVSVVTDSRGRGFQ-FYKGGIYEGP--CG--TNTDHAVTAVGYGK--TYLLLKNS  176 (214)
T ss_dssp             SBHHHHHHHHHHS--CEEEEECCCSHHHH-TCCSSEECCS--CC--SCCCEEEEEEEECS--SEEEEECS
T ss_pred             CcHHHHHHHHHhC--CEEEEEeeChhHhh-cccCceecCC--CC--CCCCeEEEEEEcCC--CeEEEEeC
Confidence            4678899999875  7788888761  11 0111222111  11  24799999999998  55777764

>1o0e_A Ervatamin C; plant cysteine protease, two domain, stable at PH 2-12, HYDR; 1.90A {Tabernaemontana divaricata} SCOP: d.3.1.1 PDB: 2pns_A* 2pre_A* 3bcn_A*

Probab=89.15  E-value=1  Score=36.28  Aligned_cols=58  Identities=12%  Similarity=0.228  Sum_probs=36.4

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DP  157 (194)
                      +.++|++.|.+|  |+.|-+|+.-  +. ...+.+....  +.  ...+|-|+|+||+.  +=++++|-
T Consensus       115 ~~~~i~~~l~~G--PV~v~i~~~~~~f~-~Y~~Gvy~~~--c~--~~~~HaV~iVGyg~--~yWivkNS  174 (208)
T 1o0e_A          115 NEXALKQAVAVQ--PSTVAIDASSAQFQ-QYSSGIFSGP--CG--TKLNHGVTIVGYQA--NYWIVRNS  174 (208)
T ss_dssp             CHHHHHHHHHHS--CEEEEECCCSHHHH-TCCSSEECCC--CC--SCCCEEEEEEEECS--SEEEEECS
T ss_pred             CHHHHHHHHHhC--CEEEEEEccCcccc-cccCceECCC--CC--CcCCEEEEEEEeCC--CeEEEEcC
Confidence            567788888876  7778888742  11 1111222211  11  24699999999998  56777773

>1ppo_A Protease omega; hydrolase(thiol protease); 1.80A {Carica papaya} SCOP: d.3.1.1 PDB: 1meg_A*

Probab=88.95  E-value=0.66  Score=37.62  Aligned_cols=60  Identities=10%  Similarity=0.089  Sum_probs=36.6

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~D  156 (194)
                      .+.++|++.|.+|  |+.|-+|+.-  +. ...+.+....  +.  ...+|-|+|+||+.+.+  =++++|
T Consensus       116 ~~~~~i~~~l~~G--PV~v~~~~~~~~f~-~Y~~Giy~~~--~~--~~~~HaV~iVGyg~~~g~~ywivkN  179 (216)
T 1ppo_A          116 NNEGNLLNAIAKQ--PVSVVVESKGRPFQ-LYKGGIFEGP--CG--TKVDHAVTAVGYGKSGGKGYILIKN  179 (216)
T ss_dssp             SCHHHHHHHHHHS--CEEEEECCCSHHHH-HCCSSEECCS--CC--SCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             CCHHHHHHHHHhC--CEEEEEecCChhhh-hcCCceECCC--CC--CCCCEEEEEEEeeccCCccEEEEEe
Confidence            3677899999886  7788888741  11 0111222211  11  13699999999997643  366666

>3qt4_A Cathepsin-L-like midgut cysteine proteinase; hydrolase, zymogen, intramolecular DISS bonds, insect larVal midgut; HET: PG4 PG6; 2.11A {Tenebrio molitor}

Probab=88.80  E-value=0.95  Score=39.47  Aligned_cols=63  Identities=10%  Similarity=0.157  Sum_probs=39.4

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC-ccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK-LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~-L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~D  156 (194)
                      -+.++|+..|.++ +|+.|-+|+.- +. ...+.+..... | +....+|-|+|+||+.+.+.  ++++|
T Consensus       231 ~~e~~lk~al~~~-GPV~v~i~a~~~f~-~Y~~GVy~~~~-c-~~~~~~HaV~iVGyg~~~g~~yWivkN  296 (329)
T 3qt4_A          231 GDENSLADAVGQA-GPVAVAIDATDELQ-FYSGGLFYDQT-C-NQSDLNHGVLVVGYGSDNGQDYWILKN  296 (329)
T ss_dssp             TCHHHHHHHHHHT-CCEEEEECCCGGGT-TEEEEEECCSS-C-CSSCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             CCHHHHHHHHHhC-CCEEEEEecChhhh-hccCceeecCC-C-CCCcCCEEEEEEEEEeeCCccEEEEEe
Confidence            4688999999986 48999999873 10 01111221111 1 12457899999999976433  66666

>1s4v_A Cysteine endopeptidase; KDEL ER retention signal, endosperm, ricinosomes, SEED germi senescence, hydrolase-hydrolase inhibitor complex; 2.00A {Ricinus communis} SCOP: d.3.1.1

Probab=88.75  E-value=0.87  Score=37.26  Aligned_cols=60  Identities=12%  Similarity=0.158  Sum_probs=36.5

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCC---ceEEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS---DEFEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~---~~~~~~DP  157 (194)
                      +.+.|++.|.+|  |+.|-+++..  +. ...+.+....  +.  ...+|-|+|+||+.+.   +=++++|-
T Consensus       120 ~~~~i~~~l~~G--PV~v~i~~~~~~f~-~Y~~Giy~~~--c~--~~~~HaV~iVGyg~~~~g~~yWivkNS  184 (229)
T 1s4v_A          120 DENALLKAVANQ--PVSVAIDAGGSDFQ-FYSEGVFTGS--CG--TELDHGVAIVGYGTTIDGTKYWTVKNS  184 (229)
T ss_dssp             CHHHHHHHHHHS--CEEEEECCCSHHHH-TCCSSEECCC--CC--CCCCEEEEEEEEEECTTSCEEEEEECS
T ss_pred             cHHHHHHHHhcC--CEEEEEEeCcHHHh-hCCCcEECCC--CC--CCCCeEEEEEEeccccCCCCEEEEEeC
Confidence            567888888886  7888888731  11 0111222211  11  2369999999999864   34666663

>1m6d_A Cathepsin F, catsf; papain family cysteine protease, hydrolase; HET: MYP; 1.70A {Homo sapiens} SCOP: d.3.1.1

Probab=88.57  E-value=0.52  Score=38.11  Aligned_cols=63  Identities=13%  Similarity=0.251  Sum_probs=37.4

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCCcccccccccccc-CccCCCCCCcceEEEEEEeeCCCc--eEEEeC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVP-GFYGSDSGYTGHYILICGYDANSD--EFEIRD  156 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~-~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~D  156 (194)
                      +.++|++.|.++ +|+.|-+|+.-+.- ..+.+... ...+ .....+|-|+|+||+.+.+  =++++|
T Consensus       116 ~~~~ik~~l~~~-GPV~v~i~~~~f~~-Y~~Giy~~~~~~c-~~~~~~HaV~iVGyg~~~g~~yWivkN  181 (214)
T 1m6d_A          116 NEQKLAAWLAKR-GPISVAINAFGMQF-YRHGISRPLRPLC-SPWLIDHAVLLVGYGQRSDVPFWAIKN  181 (214)
T ss_dssp             CHHHHHHHHHHH-CCEEEEECTHHHHH-CCSSEECCCGGGS-CTTCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             HHHHHHHHHHhC-CCEEEEEEechhhh-cCCceecCCCCcC-CCCcCCEEEEEEEEeecCCcEEEEEEe
Confidence            678899998765 37888888752110 11122111 1111 1235799999999998654  356666

>2cio_A Papain; hydrolase/inhibitor, complex hydrolase/inhibitor, ICP, cysteine protease, allergen, protease, thiol protease; 1.5A {Carica papaya} PDB: 1khq_A 1khp_A 1ppn_A 3e1z_B 3ima_A 3lfy_A 9pap_A 1bqi_A* 1bp4_A* 1pad_A 1pe6_A* 1pip_A* 1pop_A* 1ppd_A 1ppp_A* 1stf_E* 2pad_A 4pad_A* 5pad_A* 6pad_A* ...

Probab=88.53  E-value=1.2  Score=35.87  Aligned_cols=58  Identities=10%  Similarity=0.157  Sum_probs=36.4

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~DP  157 (194)
                      +.++|++.|.+|  |+.|-+|+.-  +. ...+.+....  +.  ...+|-|+|+||+.  +=++++|-
T Consensus       117 ~~~~i~~~l~~G--PV~v~i~~~~~~f~-~Y~~Gvy~~~--~~--~~~~HaV~iVGyg~--~yWivkNS  176 (212)
T 2cio_A          117 NEGALLYSIANQ--PVSVVLEAAGKDFQ-LYRGGIFVGP--CG--NKVDHAVAAVGYGP--NYILIKNS  176 (212)
T ss_dssp             CHHHHHHHHHHS--CEEEEECCCSHHHH-TCCSSEECCC--CC--SCCCEEEEEEEEET--TEEEEECS
T ss_pred             cHHHHHHHHHhC--CEEEEEeccCcchh-hcCCceecCC--CC--CCCCEEEEEEEecC--CeEEEEeC
Confidence            567889988876  7788888742  11 1111222211  11  24699999999998  55777764

>3f75_A Toxopain-2, cathepsin L protease; medical structural genomics of pathogenic protozoa, MSGPP, C protease, parasite, protozoa, hydrolase; 1.99A {Toxoplasma gondii} SCOP: d.3.1.0

Probab=88.33  E-value=0.68  Score=37.44  Aligned_cols=60  Identities=13%  Similarity=0.232  Sum_probs=37.2

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCC--Cc--eEEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN--SD--EFEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~--~~--~~~~~D  156 (194)
                      .+.++|++.|..|  |+.+-+|+..  +.- ....+..+.+    ....+|-|+|+||+.+  .+  -++++|
T Consensus       124 ~~~~~l~~~l~~g--PV~v~i~~~~~~f~~-y~~Giy~~~~----~~~~~Hav~iVGyg~~~~~g~~ywivkN  189 (224)
T 3f75_A          124 RSEAAMKAALAKS--PVSIAIEADQMPFQF-YHEGVFDASC----GTDLDHGVLLVGYGTDKESKKDFWIMKN  189 (224)
T ss_dssp             SCHHHHHHHHHHS--CEEEEECCCSHHHHT-EEEEEECCCC----CCCCCEEEEEEEEEEETTTTEEEEEEEC
T ss_pred             ChHHHHHHHHcCC--CEEEEEeccchhhhc-CccceECCCC----CCccCeEEEEEEEecccCCCCCEEEEEC
Confidence            4678899998844  7888888762  111 1112222221    2467999999999975  33  366666

>3qj3_A Cathepsin L-like protein; hydrolase, proteinase, larVal midgut; 1.85A {Tenebrio molitor} SCOP: d.3.1.0

Probab=88.25  E-value=0.87  Score=39.67  Aligned_cols=64  Identities=14%  Similarity=0.141  Sum_probs=38.6

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~D  156 (194)
                      -+.++|+..|.++ +|+.|-+|+.--.-.....+..... | .....+|-|+|+||+.+.+.  ++++|
T Consensus       233 ~~e~~lk~al~~~-GPV~v~i~a~~~f~~Y~~Gvy~~~~-c-~~~~~~HaV~iVGyg~~~g~~yWivkN  298 (331)
T 3qj3_A          233 PDENMLADMVATK-GPVAVAFDADDPFGSYSGGVYYNPT-C-ETNKFTHAVLIVGYGNENGQDYWLVKN  298 (331)
T ss_dssp             CCHHHHHHHHHHH-CCEEEEECCCTTGGGEEEEEECCTT-C-CSSCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             CCHHHHHHHHHhC-CCEEEEEEcccccccccCceEeCCC-C-CCCcCCEEEEEEEEeccCCceEEEEEc
Confidence            3678999999885 3888888886310011111111111 1 12457899999999976443  56666

>1xkg_A DER P I, major mite fecal allergen DER P 1; major allergen, cysteine protease, house DUST mite, dermatop pteronyssinus; 1.61A {Dermatophagoides pteronyssinus} SCOP: d.3.1.1

Probab=87.61  E-value=0.92  Score=39.23  Aligned_cols=64  Identities=11%  Similarity=0.130  Sum_probs=38.5

Q ss_pred             ccHHHHHHHHHc-CCcEEEEEEcCCC---ccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           90 ISGVEISLMILS-GNYIAIALVDQYK---LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        90 vs~~eI~~~L~~-G~~~~IvLvd~~~---L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      -+.++|++.|.+ + +|+.|-+|+.-   +. .+.+.+.... .|..... +|-|+|+||+.+.+.  .+++|-
T Consensus       202 ~~~~~ik~al~~~~-GPV~v~i~~~~~~~f~-~Y~~GVy~~~-~c~~~~~-~HaV~iVGyg~~~g~~yWivkNS  271 (312)
T 1xkg_A          202 PNANKIREALAQTH-SAIAVIIGIKDLDAFR-HYDGRTIIQR-DNGYQPN-YHAVNIVGYSNAQGVDYWIVRNS  271 (312)
T ss_dssp             CCHHHHHHHHHHHC-CCEEEEEEESCHHHHH-TCCSSSCBCC-CCSSCCE-EEEEEEEEEEEETTEEEEEEECS
T ss_pred             CCHHHHHHHHHhcC-CCEEEEEEeccccccc-ccCCcEEcCC-CCCCCcC-ceEEEEEEEeccCCceEEEEEeC
Confidence            367899999998 5 48888888762   11 1111222111 1221224 999999999976543  566663

>2b1m_A SPE31; papain-like, sugar binding protein; HET: NAG FUC PG4; 2.00A {Pachyrhizus erosus} PDB: 2b1n_A*

Probab=87.17  E-value=1.8  Score=35.78  Aligned_cols=61  Identities=20%  Similarity=0.290  Sum_probs=35.6

Q ss_pred             cHHHHHHHHHc----CCcEEEEEEcCCCccccccccccccCccCCCCCC-cceEEEEEEeeCCCc--eEEEeC
Q 029371           91 SGVEISLMILS----GNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGY-TGHYILICGYDANSD--EFEIRD  156 (194)
Q Consensus        91 s~~eI~~~L~~----G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y-~GHYVVLcGYd~~~~--~~~~~D  156 (194)
                      +.++|++.|.+    |  |+.|-+++.-+. ...+.+..... +. ..+ .+|-|+|+||+.+.+  =++++|
T Consensus       121 ~~~~ik~~l~~~~~~G--PV~v~i~~~~f~-~Y~~Giy~~~~-c~-~~~~~~HaV~iVGyg~~~g~~yWivkN  188 (246)
T 2b1m_A          121 TESEAESSLQSFVLEQ--PISVSIDAKDFH-FYSGGIYDGGN-CS-SPYGINHFVLIVGYGSEDGVDYWIAKN  188 (246)
T ss_dssp             CHHHHHHHHHHHHHHS--CEEEEECCTTGG-GCCSSEECCTT-CC-SSCCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             hHHHHHHHHHhhccCC--CEEEEEEcchhh-cccceeecCCC-CC-CCCcCceEEEEEEEeccCCceEEEEEe
Confidence            56788888887    6  778888872111 11112221111 11 223 799999999997543  255665

>3ioq_A CMS1MS2; caricaceae, cysteine protease, papain family, hydrolase; HET: E64 SO4; 1.87A {Carica candamarcensis} SCOP: d.3.1.1

Probab=87.03  E-value=1.4  Score=35.49  Aligned_cols=57  Identities=12%  Similarity=0.133  Sum_probs=32.9

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCceEEEeC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDEFEIRD  156 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~~~~~D  156 (194)
                      ..+.+++.+.+|  |+.+-+|+.-  +. .....+... . +  ....+|-|+|+||+.  +-++++|
T Consensus       117 ~~~~~~~~~~~G--PV~v~i~~~~~~f~-~y~~Giy~~-~-~--~~~~~HaV~iVGyg~--~yWivkN  175 (213)
T 3ioq_A          117 NEQALIQRIAIQ--PVSIVVEAKGRAFQ-NYRGGIFAG-P-C--GTSIDHAVAAVGYGN--DYILIKN  175 (213)
T ss_dssp             CHHHHHHHHTTS--CEEEEECCCSHHHH-TCCSSEECC-S-C--CSCCCEEEEEEEEET--TEEEEEC
T ss_pred             hHHHHHHHHHhC--CEEEEEEechhhhh-hccCCeEcC-C-C--CCccCceEEEEecCC--CeEEEEC
Confidence            344455656555  8888888851  11 111122211 1 1  235699999999997  4566666

>2c0y_A Procathepsin S; proenzyme, proteinase, hydrolase, thiol protease, prosegment binding loop, glycoprotein, lysosome, protease, zymogen; 2.1A {Homo sapiens}

Probab=86.77  E-value=0.96  Score=39.04  Aligned_cols=62  Identities=11%  Similarity=0.068  Sum_probs=38.1

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~D  156 (194)
                      -+.++|+..|.+. +|+.|-+|+.-  +. ...+.+.... .|..  ..+|-|+|+||+.+.+  =.+++|
T Consensus       217 ~~~~~i~~al~~~-GPV~v~i~~~~~~f~-~Y~~Gvy~~~-~c~~--~~~HaV~iVGyg~~~g~~yWivkN  282 (315)
T 2c0y_A          217 GREDVLKEAVANK-GPVSVGVDARHPSFF-LYRSGVYYEP-SCTQ--NVNHGVLVVGYGDLNGKEYWLVKN  282 (315)
T ss_dssp             TCHHHHHHHHHHT-CCEEEEECCCSHHHH-TEEEEEECCT-TCCS--CCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             CCHHHHHHHHHHc-CCEEEEEecCchhhh-ccCCCcccCC-CCCC--cCCEEEEEEEEeecCCCcEEEEEc
Confidence            3678899999885 38888998861  11 0111222111 1212  6799999999997543  356666

>3cbj_A Cathepsin B; cathepsin B, occluding loop, chagas disease, glyco hydrolase, lysosome, protease, thiol protease, zymogen, CYT vesicle; 1.80A {Homo sapiens} PDB: 3cbk_A 1gmy_A* 3ai8_B* 3k9m_A 1the_A* 1cpj_A* 1cte_A 2dcc_A* 2dc6_A* 1ito_A* 2dc8_A* 2dc9_A* 2dca_A* 2dcb_A* 2dc7_A* 2dcd_A* 1qdq_A* 1csb_B* 1huc_B 2ipp_B ...

Probab=85.92  E-value=0.89  Score=37.99  Aligned_cols=62  Identities=19%  Similarity=0.176  Sum_probs=36.7

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCC--CccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQY--KLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~--~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      .+.++|++.|.+. +|+.|-+++.  +..  ..+.+.... .+  ....+|-|+|+||+.+.+.  ++++|-
T Consensus       161 ~~~~~i~~~i~~~-GPV~v~i~~~~~f~~--Y~~Gvy~~~-~~--~~~~~HaV~iVGyg~~~g~~yWivkNS  226 (266)
T 3cbj_A          161 NSEKDIMAEIYKN-GPVEGAFSVYSDFLL--YKSGVYQHV-TG--EMMGGHAIRILGWGVENGTPYWLVANS  226 (266)
T ss_dssp             SCHHHHHHHHHHH-CCEEEEEEEEGGGGG--CCSSEECCC-SS--CEEEEEEEEEEEEEEETTEEEEEEECS
T ss_pred             CCHHHHHHHHHhc-CCEEEEEEeccchhh--cCCeEEecC-CC--CccCCeEEEEEEecccCCceEEEEEcC
Confidence            4788899999874 2778888764  111  111222111 11  1234899999999976443  566663

>3zxw_B Ribulose bisphosphate carboxylase small chain; CO2/O2 specificity, carbon dioxide fixation, photosynthesis, thermostability; HET: KCX CAP; 2.10A {Thermosynechococcus elongatus} PDB: 2ybv_B*

Probab=85.89  E-value=3.1  Score=31.57  Aligned_cols=65  Identities=15%  Similarity=0.296  Sum_probs=39.5

Q ss_pred             HHHHHHHcCCcEEEEEEcCCCcc-cccc---ccccc--------c---CccCCCCCCcceEEEEEEeeCCCc----eEEE
Q 029371           94 EISLMILSGNYIAIALVDQYKLS-HSWM---EDVIV--------P---GFYGSDSGYTGHYILICGYDANSD----EFEI  154 (194)
Q Consensus        94 eI~~~L~~G~~~~IvLvd~~~L~-~~~~---~~~~~--------~---~~~~~~~~Y~GHYVVLcGYd~~~~----~~~~  154 (194)
                      +|..+|++|=.|.|=..|.+.-. .+|.   -+.+.        .   .|   ...|.||||=|+|||...+    +|++
T Consensus        27 QV~yll~qGw~~~lE~~d~~~~~~~yW~mWklPmf~~~d~~~Vl~Ele~C---~k~~p~~yVRliGfD~~~q~q~~sfIv  103 (118)
T 3zxw_B           27 QIQYAIDQGYHPCVEFNETSNAEIRYWTMWKLPLFNCTNAQDVLNEVQQC---RSEYPNCFIRVVAFDNIKQCQVMSFIV  103 (118)
T ss_dssp             HHHHHHHHTCEEEEEEESCCCTTCCCCEEESSCCTTCCCHHHHHHHHHHH---HHHCTTSEEEEEEEETTTTEEEEEEEE
T ss_pred             HHHHHHhCCCeeEEEeccCCCcccCEEeecccCCcCCCCHHHHHHHHHHH---HHHCCCceEEEEEEeCCcCEEEEEEEE
Confidence            44556788977777777766442 2331   11111        0   11   1349999999999999987    5888


Q ss_pred             eCCCCCC
Q 029371          155 RDPASCR  161 (194)
Q Consensus       155 ~DPa~~~  161 (194)
                      .-|+.++
T Consensus       104 ~RP~~~~  110 (118)
T 3zxw_B          104 YKPNQAN  110 (118)
T ss_dssp             ECC----
T ss_pred             ECCCCCC
Confidence            8887654

>3f5v_A DER P 1 allergen; allergy, asthma, DUST mites, glycoprotein, hydrola protease, secreted, thiol protease; HET: P6G; 1.36A {Dermatophagoides pteronyssinus} PDB: 2as8_A 3rvw_A* 3rvx_A 3rvv_A* 3d6s_A*

Probab=85.59  E-value=1.8  Score=34.96  Aligned_cols=64  Identities=11%  Similarity=0.072  Sum_probs=37.8

Q ss_pred             cccHHHHHHHHHc-CCcEEEEEEcCC----CccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeCC
Q 029371           89 SISGVEISLMILS-GNYIAIALVDQY----KLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRDP  157 (194)
Q Consensus        89 svs~~eI~~~L~~-G~~~~IvLvd~~----~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~DP  157 (194)
                      ..+.++|++.|.+ + +|+.|.++..    +..-  ........  .......+|-|+|+||+.+.+  -++++|-
T Consensus       121 ~~~~~~ik~~l~~~~-gpV~v~~~~~~~~~f~~Y--~~gi~~~~--~~~~~~~~HaV~iVGyg~~~g~~ywivkNS  191 (222)
T 3f5v_A          121 PPNANKIREALAQTH-SAIAVIIGIKDLDAFRHY--DGRTIIQR--DNGYQPNYHAVNIVGYSNAQGVDYWIVRNS  191 (222)
T ss_dssp             SCCHHHHHHHHHHHC-CCEEEEEEESCHHHHHTC--CSSSCBCC--CCSSSCEEEEEEEEEEEEETTEEEEEEECS
T ss_pred             CCCHHHHHHHHHhcC-CCEEEEEEeccchhhhcc--CCCceecC--CCCCCccCcEEEEEEEeccCCCEEEEEEcC
Confidence            3467889999998 5 4777777652    1111  01111111  011346799999999997643  3666663

>1by8_A Protein (procathepsin K); hydrolase(sulfhydryl proteinase), papain; 2.60A {Homo sapiens} SCOP: d.3.1.1 PDB: 7pck_A

Probab=85.51  E-value=1  Score=38.82  Aligned_cols=64  Identities=13%  Similarity=0.128  Sum_probs=38.5

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeCC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRDP  157 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~DP  157 (194)
                      -+.++|++.|.+. +|+.|-+|+.-  +.- ..+.+..... |. ....+|-|+|+||+.+.+  =++++|-
T Consensus       215 ~~~~~i~~al~~~-GPV~v~i~~~~~~f~~-Y~~Gvy~~~~-c~-~~~~~HaV~iVGyg~~~g~~yWivkNS  282 (314)
T 1by8_A          215 GNEKALKRAVARV-GPVSVAIDASLTSFQF-YSKGVYYDES-CN-SDNLNHAVLAVGYGIQKGNKHWIIKNS  282 (314)
T ss_dssp             SCHHHHHHHHHHH-CCEEEEECCCSHHHHT-EEEECBCCTT-CC-SSCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             CCHHHHHHHHHHc-CCEEEEEEeChHHhhh-ccCceecCCC-CC-CCCCCeEEEEEEEeccCCceEEEEEcC
Confidence            3678899999874 38888888861  110 1112221111 11 235799999999996543  3666663

>2fo5_A Cysteine proteinase EP-B 2; EP-B2, EPB2, EPB, cysteine endoprotease, endopeptidase, LEUP hydrolase; HET: AR7; 2.20A {Hordeum vulgare}

Probab=85.11  E-value=1.7  Score=36.52  Aligned_cols=60  Identities=12%  Similarity=0.165  Sum_probs=36.1

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCC---ceEEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS---DEFEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~---~~~~~~D  156 (194)
                      .+.++|++.|.+|  |+.|-+|+.-  +. ...+.+....  +.  ...+|-|+|+||+.+.   +=++++|
T Consensus       124 ~~e~~ik~al~~G--PV~v~i~~~~~~f~-~Y~sGVy~~~--c~--~~~~HaV~IVGyg~~~~G~~YWivkN  188 (262)
T 2fo5_A          124 NSEEDLARAVANQ--PVSVAVEASGKAFM-FYSEGVFTGE--CG--TELDHGVAVVGYGVAEDGKAYWTVKN  188 (262)
T ss_dssp             TCHHHHHHHHHHS--CEEEEECCCSHHHH-TCCSSEECCC--CC--CCCCEEEEEEEEEECTTSCEEEEEEC
T ss_pred             chHHHHHHHHHhC--CEEEEEecChHHHh-ccCCceECCC--CC--CcCCEEEEEEEEcccCCCceEEEEEe
Confidence            3567899999886  7888888751  11 1111222221  11  2369999999999762   3355555

>2o6x_A Procathepsin L1, secreted cathepsin L 1; hydrolase, thiol protease, cysteine protease, zymogen, hydro; 1.40A {Fasciola hepatica}

Probab=83.62  E-value=1.4  Score=37.93  Aligned_cols=61  Identities=16%  Similarity=0.174  Sum_probs=38.5

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCCccccc---cccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYKLSHSW---MEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~L~~~~---~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~D  156 (194)
                      -+.++|+..|.++ +|+.|-+|+.-   ++   .+.+.....+.  ....+|-|+|+||+.+.+  =.+++|
T Consensus       208 ~~~~~i~~~l~~~-GPV~v~i~~~~---~f~~Y~~Gvy~~~~c~--~~~~~HaV~iVGyg~~~g~~yWivkN  273 (310)
T 2o6x_A          208 GSEVELKNLVGAE-GPAAVAVDVES---DFMMYRSGIYQSQTCS--PLRVNHAVLAVGYGTQGGTDYWIVKN  273 (310)
T ss_dssp             CCHHHHHHHHHHH-CCEEEEECCCH---HHHTEEEEEECCSSCC--TTCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             CCHHHHHHHHHhc-CCeEEEEecch---hhhhCCCceecCCCCC--CCCCCEEEEEEEEeccCCceEEEEEe
Confidence            3678899999875 38888888862   22   11222211111  235799999999997643  356666

>2oul_A Falcipain 2; cysteine protease, inhibitor, macromolecular interaction, HY hydrolase inhibitor complex; 2.20A {Plasmodium falciparum} SCOP: d.3.1.1 PDB: 2ghu_A 1yvb_A 3bpf_A* 3pnr_A

Probab=83.40  E-value=1.4  Score=36.32  Aligned_cols=52  Identities=13%  Similarity=0.068  Sum_probs=30.7

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS  149 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~  149 (194)
                      .+.++|++.|  |  |+.|-+++.--.-...+.+... . +.. . .+|-|+|+||+.+.
T Consensus       134 ~~~~~ik~~l--G--PV~v~i~~~~~f~~Y~~Giy~~-~-c~~-~-~~HaV~iVGyg~~~  185 (241)
T 2oul_A          134 NKLKEALRFL--G--PISISVAVSDDFAFYKEGIFDG-E-CGD-Q-LNHAVMLVGFGMKE  185 (241)
T ss_dssp             TCHHHHHHHT--C--CEEEEECBCHHHHTCCSSBCCS-C-BCS-S-CCEEEEEEEEEEEE
T ss_pred             CCHHHHHHhh--C--CEEEEEecCcchhhcCCcEEcC-c-CCC-C-CCEEEEEEEecccc
Confidence            3577899988  6  7778888751000111122222 1 111 2 79999999999763

>1deu_A Procathepsin X; cysteine protease, proregion, prosegment, HY; 1.70A {Homo sapiens} SCOP: d.3.1.1 PDB: 1ef7_A

Probab=83.38  E-value=1.7  Score=36.75  Aligned_cols=63  Identities=10%  Similarity=0.132  Sum_probs=36.7

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~DP  157 (194)
                      +.++|+..|.+. +|+.|-+++.--.-...+.+.....   .....+|-|+|+||+.+.+  =++++|-
T Consensus       172 ~~~~i~~~i~~~-GPV~v~i~~~~~f~~Y~~GIy~~~~---~~~~~~HaV~iVGyg~~~g~~YWivkNS  236 (277)
T 1deu_A          172 GREKMMAEIYAN-GPISCGIMATERLANYTGGIYAEYQ---DTTYINHVVSVAGWGISDGTEYWIVRNS  236 (277)
T ss_dssp             SHHHHHHHHHHH-CCEEEEECCCHHHHTCCSSEECBCC---SCCCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             CHHHHHHHHHHc-CCEEEEEecccccccCcCcEECCCC---CCCcCCeEEEEEEecccCCccEEEEEeC
Confidence            467888888764 3788888875100001111211111   1236799999999987543  3666663

>3bwk_A Cysteine protease falcipain-3; malaria, hydrolase; HET: C1P; 2.42A {Plasmodium falciparum} PDB: 3bpm_A*

Probab=83.14  E-value=1.5  Score=36.23  Aligned_cols=52  Identities=10%  Similarity=0.005  Sum_probs=30.8

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANS  149 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~  149 (194)
                      .+.++|++.|  |  |+.|-+++.--.-...+.+...  .+.+ . .+|-|+|+||+.+.
T Consensus       136 ~~~~~ik~~l--G--PV~v~i~~~~~f~~Y~~Giy~~--~c~~-~-~~HaV~iVGyg~~~  187 (243)
T 3bwk_A          136 DKFKEALRYL--G--PISISIAASDDFAFYRGGFYDG--ECGA-A-PNHAVILVGYGMKD  187 (243)
T ss_dssp             TCHHHHHHHT--C--CEEEEECCCHHHHTCCSSSCCC--CCCS-S-CCEEEEEEEEEEEE
T ss_pred             CCHHHHHHhh--C--CEEEEEecChhHHhcCCceecC--CCCC-c-CCeEEEEEEecCcc
Confidence            3677899988  5  7788888751000111122222  1222 2 79999999999763

>1pci_A Procaricain; zymogen, hydrolase, thiol protease; 3.20A {Carica papaya} SCOP: d.3.1.1

Probab=82.66  E-value=1.8  Score=37.50  Aligned_cols=59  Identities=10%  Similarity=0.114  Sum_probs=35.9

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCc--eEEEeC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSD--EFEIRD  156 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~--~~~~~D  156 (194)
                      +.++|++.|.+|  |+.|-+|+.-  +. ...+.+.... ++ .  ..+|-|+|+||+.+.+  =++++|
T Consensus       223 ~e~~l~~~l~~G--PV~v~i~~~~~~f~-~Y~~Gvy~~~-c~-~--~~~HaV~iVGyg~~~g~~yWivkN  285 (322)
T 1pci_A          223 NEGNLLNAIAKQ--PVSVVVESKGRPFQ-LYKGGIFEGP-CG-T--KVDGAVTAVGYGKSGGKGYILIKN  285 (322)
T ss_dssp             BHHHHHHHHHHS--CEEEEECTTCHHHH-TEEEEEECCS-CC-S--CCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             cHHHHHHHHHHC--CEEEEEeccccccc-ccCCeEeCCC-CC-C--CCCEEEEEEEEeccCCccEEEEEe
Confidence            567889988886  7888888751  10 0111222221 12 1  3699999999997643  355555

>1cs8_A Human procathepsin L; prosegment, propeptide, inhibition, hydrolase; HET: OCS; 1.80A {Homo sapiens} SCOP: d.3.1.1 PDB: 1cjl_A 3hwn_A*

Probab=81.75  E-value=2.2  Score=36.71  Aligned_cols=62  Identities=13%  Similarity=0.151  Sum_probs=37.1

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEee---CC-Cc--eEEEeC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYD---AN-SD--EFEIRD  156 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd---~~-~~--~~~~~D  156 (194)
                      +.++|+..|.+. +|+.|-+|+.-  +.- ....+..... |. ....+|-|+|+||+   .+ .+  =.+++|
T Consensus       214 ~~~~ik~~l~~~-GPV~v~i~~~~~~f~~-Y~~Gvy~~~~-c~-~~~~~HaV~iVGygd~~~~~~g~~yWivkN  283 (316)
T 1cs8_A          214 QEKALMKAVATV-GPISVAIDAGHESFLF-YKEGIYFEPD-CS-SEDMDHGVLVVGYGFESTESDNNKYWLVKN  283 (316)
T ss_dssp             CHHHHHHHHHHH-CCEEEEECCCSHHHHT-EEEEEECCTT-CC-SSCCCEEEEEEEEEEECCSSCCEEEEEEEC
T ss_pred             CHHHHHHHHHhc-CCEEEEEecCChhhcc-ccCceECCCC-CC-CCCCCEEEEEEEecCCcccCCCCcEEEEEc
Confidence            688899999884 38888888762  110 1112221111 11 23579999999999   54 23  355666

>1rbl_M Ribulose 1,5 bisphosphate carboxylase/oxygenase ( chain); lyase(carbon-carbon), lyase; HET: CAP; 2.20A {Synechococcus elongatus} SCOP: d.73.1.1 PDB: 1rsc_M*

Probab=81.52  E-value=6.9  Score=29.22  Aligned_cols=63  Identities=22%  Similarity=0.374  Sum_probs=39.2

Q ss_pred             HHHHHHHHcCCcEEEEEEcCCCcc-cccc---cccccc-----------CccCCCCCCcceEEEEEEeeCCCc----eEE
Q 029371           93 VEISLMILSGNYIAIALVDQYKLS-HSWM---EDVIVP-----------GFYGSDSGYTGHYILICGYDANSD----EFE  153 (194)
Q Consensus        93 ~eI~~~L~~G~~~~IvLvd~~~L~-~~~~---~~~~~~-----------~~~~~~~~Y~GHYVVLcGYd~~~~----~~~  153 (194)
                      ++|...|++|=.|.|=..|.+.-. .+|.   -+.+..           .|.   ..|.||||=|+|||...+    +|+
T Consensus        27 kQI~Yll~qGw~p~lEf~d~~~~~~~yW~mwklPmf~~~d~~~Vl~Ele~C~---k~~p~~yVRligfD~~~q~q~~sfI  103 (109)
T 1rbl_M           27 AQIEYMIEQGFHPLIEFNEHSNPEEFYWTMWKLPLFACAAPQQVLDEVRECR---SEYGDCYIRVAGFDNIKECQTSSFI  103 (109)
T ss_dssp             HHHHHHHHHTCEEEEEEESCCCTTCCCCEECSSCCTTCCCHHHHHHHHHHHH---HHCTTSEEEEEEEETTTTEEEEEEE
T ss_pred             HHHHHHHHCCCEEEEEeccCccccccEEeecccCCcCCCCHHHHHHHHHHHH---HHCCCCeEEEEEEeCCCcEEEEEEE
Confidence            345556778877777778766542 2331   111110           111   249999999999999887    366


Q ss_pred             EeCCC
Q 029371          154 IRDPA  158 (194)
Q Consensus       154 ~~DPa  158 (194)
                      +.-|+
T Consensus       104 v~RP~  108 (109)
T 1rbl_M          104 VHRPG  108 (109)
T ss_dssp             EECCC
T ss_pred             eeCCC
Confidence            66664

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	194
g8pch.1	228	Cathepsin H {Pig (Sus scrofa) [TaxId: 9823]}	96.43
d2bu3a1	210	Primitive phytochelatin synthase {Nostoc sp. pcc 7	96.03
g1k3b.1	233	Cathepsin C (dipeptidyl peptidase I), catalytic do	95.25
d2h7ja1	217	(Pro)cathepsin S {Human (Homo sapiens) [TaxId: 960	95.08
d1me4a_	215	Cruzain {Trypanosoma cruzi [TaxId: 5693]}	94.98
d1gmya_	254	(Pro)cathepsin B {Human (Homo sapiens) [TaxId: 960	94.74
d1m6da_	214	Cathepsin F {Human (Homo sapiens) [TaxId: 9606]}	94.52
d1deua_	275	(Pro)cathepsin X {Human (Homo sapiens) [TaxId: 960	94.12
d1ppoa_	216	Caricain (protease omega) {Papaya (Carica papaya)	93.84
d1aeca_	218	Actinidin {Chinese gooseberry or kiwifruit (Actini	93.8
d1s4va_	224	Vignain (bean endopeptidase) {Castor bean (Ricinus	92.63
d2r6na1	215	(Pro)cathepsin K {Human (Homo sapiens) [TaxId: 960	91.45
d1o0ea_	208	Ervatamin C {East indian rosebay (Ervatamia corona	91.03
d1yala_	218	Chymopapain {Papaya (Carica papaya) [TaxId: 3649]}	90.68
d2oula1	241	Falcipain 2 {Plasmodium falciparum [TaxId: 5833]}	89.57
d1xkga1	302	Major mite fecal allergen der p 1 {House-dust mite	89.28
d1iwda_	215	Ervatamin B {Adam's apple (Ervatamia coronaria) [T	87.83
d1rbli_	109	Ribulose 1,5-bisphosphate carboxylase-oxygenase {S	87.05
d1cqda_	216	Proline-specific cysteine protease {Ginger rhizome	85.9
d1svdm1	108	Ribulose 1,5-bisphosphate carboxylase-oxygenase {H	84.86
d1khqa_	212	Papain {Papaya (Carica papaya) [TaxId: 3649]}	83.61
d1cs8a_	316	(Pro)cathepsin L {Human (Homo sapiens) [TaxId: 960	82.5
d1bwvs_	138	Ribulose 1,5-bisphosphate carboxylase-oxygenase {G	82.1

>d2bu3a1 d.3.1.14 (A:29-238) Primitive phytochelatin synthase {Nostoc sp. pcc 7120 [TaxId: 103690]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Phytochelatin synthase
domain: Primitive phytochelatin synthase
species: Nostoc sp. pcc 7120 [TaxId: 103690]

Probab=96.03  E-value=0.04  Score=43.83  Aligned_cols=88  Identities=18%  Similarity=0.181  Sum_probs=62.3

Q ss_pred             HHHHHHHHHcCCceE---eccccHHHHHHHHH----cCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEE
Q 029371           72 DMLFQKARSAGIKIE---CGSISGVEISLMIL----SGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICG  144 (194)
Q Consensus        72 ~~lF~~A~~~gi~v~---~rsvs~~eI~~~L~----~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcG  144 (194)
                      .++...|+..|..++   ....|+++..+++.    +....+||-.+..-|.-                .=.|||-.|-|
T Consensus        98 ~el~~la~~~g~~v~~~~~~~~s~d~FR~~v~~~~~~~~~~vivny~r~~l~q----------------~G~GHfSPI~g  161 (210)
T d2bu3a1          98 DELGRLIASYGVKVKVNHASDTNIEDFRKQVAENLKQDGNFVIVNYLRKEIGQ----------------ERGGHISPLAA  161 (210)
T ss_dssp             HHHHHHHHTTTCEEEEEEGGGSCHHHHHHHHHHHHTCTTEEEEEEEEGGGGTC----------------SSSEEEEEEEE
T ss_pred             HHHHHHHHhCCCeeEEEeCCcccHHHHHHHHHHHhCCCCCEEEEEecCcccCc----------------CCCcceeeEEE
Confidence            677888888888654   34567777766653    33356676666554432                12799999999


Q ss_pred             eeCCCceEEEeCCCCCC-ceeeeChHHHHHHH
Q 029371          145 YDANSDEFEIRDPASCR-KREKVTLKCLEEAR  175 (194)
Q Consensus       145 Yd~~~~~~~~~DPa~~~-~~~~~s~~~~e~AR  175 (194)
                      ||++++++.+.|||... ...-|+.+.|=+|=
T Consensus       162 Y~~~~d~vlilDvar~kypp~Wv~~~~L~~am  193 (210)
T d2bu3a1         162 YNEQTDRFLIMDVSRYKYPPVWVKTTDLWKAM  193 (210)
T ss_dssp             EETTTTEEEECCSCTTTCCCEEEEHHHHHHHH
T ss_pred             EcCCCCEEEEEecCcccCCCeEeEHHHHHHHH
Confidence            99999999999998643 44557777765553

>d2h7ja1 d.3.1.1 (A:1-217) (Pro)cathepsin S {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: (Pro)cathepsin S
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.08  E-value=0.029  Score=42.60  Aligned_cols=66  Identities=12%  Similarity=0.057  Sum_probs=36.6

Q ss_pred             cccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           89 SISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        89 svs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      ....+.|++.|.+.. |+++-++.....-...+.-....  +.....-||.|+|+|||.+.++  ++++|-
T Consensus       118 ~~~~~~~~~~l~~~g-~v~~~~~~~~~~f~~~~~gi~~~--~~~~~~~~Hav~iVGy~~~~~~~ywivrNS  185 (217)
T d2h7ja1         118 YGREDVLKEAVANKG-PVSVGVDARHPSFFLYRSGVYYE--PSCTQNVNHGVLVVGYGDLNGKEYWLVKNS  185 (217)
T ss_dssp             TTCHHHHHHHHHHTC-CEEEEECCCSHHHHTCCSSCBCC--TTCCSCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             ccHHHHHHHHhhcCc-eEEEEEeeehhhhcccCCcceeC--CCCCCCCCeEEEEEecccCCCceEEEEEcC
Confidence            445666778787763 66655544322100001111111  1112345999999999988766  778774

>d1me4a_ d.3.1.1 (A:) Cruzain {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Cruzain
species: Trypanosoma cruzi [TaxId: 5693]

Probab=94.98  E-value=0.03  Score=42.63  Aligned_cols=62  Identities=15%  Similarity=0.178  Sum_probs=39.1

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      -+.+.|+..|.++ +|+++.++..-..-.  +......   ......+|-|+|+|||.+.+.  +++||-
T Consensus       120 ~~~~~ik~~i~~~-gpv~~~~~~~~~~~~--~~~~~~~---~~~~~~~Hav~IVGyg~~~~~~ywivrNS  183 (215)
T d1me4a_         120 QDEAQIAAWLAVN-GPVAVAVDASSWMTY--TGGVMTS---CVSEQLDHGVLLVGYNDSAAVPYWIIKNS  183 (215)
T ss_dssp             SCHHHHHHHHHHH-CCEEEEECCTTGGGC--CSSEECS---CCCSCCCEEEEEEEEESSSSSCEEEEECS
T ss_pred             ccHHHHHHHHHhc-CceeEEEEeeeeccc--ccccccC---CccccceeEEEEEEccccCCceEEEEEcC
Confidence            3678888888876 377777776532111  1111111   123356899999999988766  777774

>d1gmya_ d.3.1.1 (A:) (Pro)cathepsin B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: (Pro)cathepsin B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.74  E-value=0.016  Score=45.25  Aligned_cols=82  Identities=15%  Similarity=0.110  Sum_probs=47.7

Q ss_pred             HHHHHHHHHcCCceEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce
Q 029371           72 DMLFQKARSAGIKIECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE  151 (194)
Q Consensus        72 ~~lF~~A~~~gi~v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~  151 (194)
                      ...+..++...+.........++|++.|..+ +|+.+-++..--.-...... ...  .......+|-|+|+||+.+.++
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~~ik~~l~~~-gpv~~~~~~~~~f~~y~~gi-~~~--~~~~~~~~Hav~IVGyg~~~g~  213 (254)
T d1gmya_         138 SPTYKQDKHYGYNSYSVSNSEKDIMAEIYKN-GPVEGAFSVYSDFLLYKSGV-YQH--VTGEMMGGHAIRILGWGVENGT  213 (254)
T ss_dssp             CSCHHHHCBCBSCCEECCSCHHHHHHHHHHH-CCEEEEEEEEGGGTTCCSSE-ECC--CSCCEEEEEEEEEEEEEEETTE
T ss_pred             ccceeeeeeeeeeeeccccHHHHHHHHHHHc-CCEEEEEEeechhhhccCCc-ccc--ccccccccEEEEEEEEeccCCc
Confidence            3345566666665556667788899998876 37777776531110111111 111  1123456999999999765444


Q ss_pred             --EEEeCC
Q 029371          152 --FEIRDP  157 (194)
Q Consensus       152 --~~~~DP  157 (194)
                        +++||-
T Consensus       214 ~ywIvkNS  221 (254)
T d1gmya_         214 PYWLVANS  221 (254)
T ss_dssp             EEEEEECS
T ss_pred             eEEEEEcC
Confidence              666664

>d1m6da_ d.3.1.1 (A:) Cathepsin F {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=94.52  E-value=0.028  Score=42.85  Aligned_cols=71  Identities=13%  Similarity=0.138  Sum_probs=43.1

Q ss_pred             eEeccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           85 IECGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        85 v~~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      ......+.++|+..|.+.. |+++-++.....-.. ..............-.||-|+|+||+.+.+.  ++++|-
T Consensus       110 ~~~~~~~~~~ik~~i~~~g-pv~~~~~~~~~~~~~-~g~~~~~~~~~~~~~~~HaV~iVGyg~~~~~~ywivkNS  182 (214)
T d1m6da_         110 SVELSQNEQKLAAWLAKRG-PISVAINAFGMQFYR-HGISRPLRPLCSPWLIDHAVLLVGYGQRSDVPFWAIKNS  182 (214)
T ss_dssp             EEECCSCHHHHHHHHHHHC-CEEEEECTHHHHHCC-SSEECCCGGGSCTTCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             ccccccCHHHHHHHHHhcC-CeEEEEEEEehhhcc-CCccccccCCCCCcccceeEEEEcccccCCceEEEEECC
Confidence            3455668889999888763 778777764321110 0111111112224457999999999987765  778873

>d1deua_ d.3.1.1 (A:) (Pro)cathepsin X {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: (Pro)cathepsin X
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.12  E-value=0.032  Score=44.32  Aligned_cols=63  Identities=11%  Similarity=0.149  Sum_probs=38.5

Q ss_pred             cHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           91 SGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        91 s~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      ..++|+++|.+. +|+.+.++...-.-... ......  ..+....+|-|+|+||+.+.+.  ++++|-
T Consensus       170 ~~e~ik~~l~~~-GPv~v~~~~~~~f~~y~-~Gi~~~--~~~~~~~~HAV~IVGyg~~~g~~ywivrNS  234 (275)
T d1deua_         170 GREKMMAEIYAN-GPISCGIMATERLANYT-GGIYAE--YQDTTYINHVVSVAGWGISDGTEYWIVRNS  234 (275)
T ss_dssp             SHHHHHHHHHHH-CCEEEEECCCHHHHTCC-SSEECB--CCSCCCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             cHHHHHHHHHhC-CCcEEEEEeccchhccC-CCcccC--ccccccCCeEEEEEEEeccCCcEEEEEECC
Confidence            357788888775 38888888662211111 111111  1234568999999999866554  777774

>d1ppoa_ d.3.1.1 (A:) Caricain (protease omega) {Papaya (Carica papaya) [TaxId: 3649]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Caricain (protease omega)
species: Papaya (Carica papaya) [TaxId: 3649]

Probab=93.84  E-value=0.051  Score=41.32  Aligned_cols=62  Identities=13%  Similarity=0.127  Sum_probs=34.0

Q ss_pred             ccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeC
Q 029371           90 ISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRD  156 (194)
Q Consensus        90 vs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~D  156 (194)
                      ...+.|++.|.+|  |+++.++...-.-..-+......   ......+|.|+|+|||...+.  +++||
T Consensus       116 ~~~~~~~~~l~~g--pv~~~~~~~~~~~~~y~~g~~~~---~~~~~~~Hav~iVGyg~~~~~~ywivrN  179 (216)
T d1ppoa_         116 NNEGNLLNAIAKQ--PVSVVVESKGRPFQLYKGGIFEG---PCGTKVDHAVTAVGYGKSGGKGYILIKN  179 (216)
T ss_dssp             SCHHHHHHHHHHS--CEEEEECCCSHHHHHCCSSEECC---SCCSCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             cHHHHHHHHHhhC--CCceeeeeccccceecCCccccc---cccccCCcEEEEEeccccCCCceEEEEC
Confidence            3456677778777  55666665421100001111111   112357999999999976543  66666

>d1aeca_ d.3.1.1 (A:) Actinidin {Chinese gooseberry or kiwifruit (Actinidia chinensis) [TaxId: 3625]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Actinidin
species: Chinese gooseberry or kiwifruit (Actinidia chinensis) [TaxId: 3625]

Probab=93.80  E-value=0.036  Score=42.19  Aligned_cols=67  Identities=10%  Similarity=0.042  Sum_probs=38.6

Q ss_pred             eccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           87 CGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        87 ~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      ......++|...+.+. .|+++.+++..-.-.........   .......||-|+|+||+.+.+.  ++++|-
T Consensus       115 ~~~~~~~~~~~~~~~~-gpv~v~~~~~~~~~~~~~~g~~~---~~~~~~~~Hav~iVGyg~~~~~~ywivrNS  183 (218)
T d1aeca_         115 NVPYNNEWALQTAVTY-QPVSVALDAAGDAFKQYSSGIFT---GPCGTAIDHAVTIVGYGTEGGIDYWIVKNS  183 (218)
T ss_dssp             ECCSSCHHHHHHHHHH-SCEEEEECCCSHHHHHCCSSEEC---CSCCSSCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             cccccHHHHHHHHhhc-CCceeEEEecchhhhcCCCCccc---ccccccCCceeEEEEEeccCCeEEEEEEcC
Confidence            3445667787777765 38888887652110000011111   1123356999999999876654  677664

>d1s4va_ d.3.1.1 (A:) Vignain (bean endopeptidase) {Castor bean (Ricinus communis) [TaxId: 3988]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Vignain (bean endopeptidase)
species: Castor bean (Ricinus communis) [TaxId: 3988]

Probab=92.63  E-value=0.15  Score=38.65  Aligned_cols=66  Identities=11%  Similarity=0.157  Sum_probs=36.2

Q ss_pred             eccccHHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCC---CceEEEeCC
Q 029371           87 CGSISGVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN---SDEFEIRDP  157 (194)
Q Consensus        87 ~rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~---~~~~~~~DP  157 (194)
                      ......+.|++.|.++  |+++.++...-.-..-..-...   .....-.||.|+|+||+.+   .+-++++|-
T Consensus       116 ~~~~~~~~~k~~l~~~--pv~~~~~~~~~~~~~y~~g~~~---~~~~~~~~Hav~iVGy~~~~~g~~ywiikNS  184 (224)
T d1s4va_         116 VPENDENALLKAVANQ--PVSVAIDAGGSDFQFYSEGVFT---GSCGTELDHGVAIVGYGTTIDGTKYWTVKNS  184 (224)
T ss_dssp             CCTTCHHHHHHHHHHS--CEEEEECCCSHHHHTCCSSEEC---CCCCCCCCEEEEEEEEEECTTSCEEEEEECS
T ss_pred             ccCccHHHHHHHHhcC--CceEEEEecchhhhhccCCCcc---CcccccCCcceEEEecccccCCceEEEEEcC
Confidence            4566778889989887  4455555442211100111111   1123346999999999754   223556664

>d2r6na1 d.3.1.1 (A:1-215) (Pro)cathepsin K {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: (Pro)cathepsin K
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.45  E-value=0.21  Score=37.73  Aligned_cols=65  Identities=12%  Similarity=0.145  Sum_probs=38.1

Q ss_pred             cccHHHHHHHHHcCCcEEEEEEcCCC--ccccccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           89 SISGVEISLMILSGNYIAIALVDQYK--LSHSWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        89 svs~~eI~~~L~~G~~~~IvLvd~~~--L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      ....++|++.|.+.. |+++.++...  ...+ .......  ...+....||-|+|+|||...+.  ++++|-
T Consensus       115 ~~~~~~ik~~~~~~g-~v~~~~~~~~~~f~~y-~~gi~~~--~~~~~~~~~Hav~iVGy~~~~~~~ywivrNS  183 (215)
T d2r6na1         115 EGNEKALKRAVARVG-PVSVAIDASLTSFQFY-SKGVYYD--ESCNSDNLNHAVLAVGYGIQKGNKHWIIKNS  183 (215)
T ss_dssp             TTCHHHHHHHHHHTC-CEEEEECCCSHHHHTC-CSSEECC--TTCCTTCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             ccHHHHHHHhhcccc-cEEEEEEeeechhccc-CCCcccC--CCCCCCCCCeeEEEEEeeccCCCcEEEEEcC
Confidence            457888988888753 5555554331  1100 1111111  12245678999999999987554  777774

>d1o0ea_ d.3.1.1 (A:) Ervatamin C {East indian rosebay (Ervatamia coronaria) [TaxId: 52861]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Ervatamin C
species: East indian rosebay (Ervatamia coronaria) [TaxId: 52861]

Probab=91.03  E-value=0.24  Score=37.04  Aligned_cols=20  Identities=35%  Similarity=0.576  Sum_probs=16.4

Q ss_pred             CcceEEEEEEeeCCCceEEEeC
Q 029371          135 YTGHYILICGYDANSDEFEIRD  156 (194)
Q Consensus       135 Y~GHYVVLcGYd~~~~~~~~~D  156 (194)
                      ..||-|+|+|||.+  -+++||
T Consensus       154 ~~~Hav~iVGy~~~--ywiirN  173 (208)
T d1o0ea_         154 KLNHGVTIVGYQAN--YWIVRN  173 (208)
T ss_dssp             CCCEEEEEEEECSS--EEEEEC
T ss_pred             cCCcEEEEEeeecc--eEEEEC
Confidence            45999999999875  477777

>d1yala_ d.3.1.1 (A:) Chymopapain {Papaya (Carica papaya) [TaxId: 3649]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Chymopapain
species: Papaya (Carica papaya) [TaxId: 3649]

Probab=90.68  E-value=0.24  Score=37.41  Aligned_cols=24  Identities=17%  Similarity=0.306  Sum_probs=17.8

Q ss_pred             CCcceEEEEEEeeCCCc--eEEEeCC
Q 029371          134 GYTGHYILICGYDANSD--EFEIRDP  157 (194)
Q Consensus       134 ~Y~GHYVVLcGYd~~~~--~~~~~DP  157 (194)
                      ...||-|+|+||+.+.+  -++++|-
T Consensus       155 ~~~~Hav~IVGyg~~~g~~ywivkNS  180 (218)
T d1yala_         155 TKLDHAVTAVGYGTSDGKNYIIIKNS  180 (218)
T ss_dssp             SCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             ccCCcEEEEEEeeccCCceEEEEECC
Confidence            35799999999976654  3777763

>d1xkga1 d.3.1.1 (A:4-305) Major mite fecal allergen der p 1 {House-dust mite (Dermatophagoides pteronyssinus) [TaxId: 6956]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Major mite fecal allergen der p 1
species: House-dust mite (Dermatophagoides pteronyssinus) [TaxId: 6956]

Probab=89.28  E-value=0.29  Score=39.61  Aligned_cols=68  Identities=12%  Similarity=0.104  Sum_probs=35.0

Q ss_pred             ccccHHHHHHHHHcCCcEEEEEEcCCCccc--cccccccccCccCCCCCCcceEEEEEEeeCCCce--EEEeCC
Q 029371           88 GSISGVEISLMILSGNYIAIALVDQYKLSH--SWMEDVIVPGFYGSDSGYTGHYILICGYDANSDE--FEIRDP  157 (194)
Q Consensus        88 rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~--~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~~~~--~~~~DP  157 (194)
                      ...+.++|.+.+.....++-+.++.....-  ...........+  ...-.+|-|+|+||+.+.+.  ++++|-
T Consensus       197 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~y~~gi~~~~~~--~~~~~~HaV~iVGyg~~~g~~YWivkNS  268 (302)
T d1xkga1         197 YPPNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDN--GYQPNYHAVNIVGYSNAQGVDYWIVRNS  268 (302)
T ss_dssp             CSCCHHHHHHHHHHHCCCEEEEEEESCHHHHHTCCSSSCBCCCC--SSCCEEEEEEEEEEEEETTEEEEEEECS
T ss_pred             cCchHHHHHHhhhhcccccceeecccccchhhccccceeecCCC--CCCcCCEEEEEEEEeccCCeEEEEEEcC
Confidence            455777888887652223333333332210  000111111111  12234799999999987765  667774

>d1iwda_ d.3.1.1 (A:) Ervatamin B {Adam's apple (Ervatamia coronaria) [TaxId: 52861]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Ervatamin B
species: Adam's apple (Ervatamia coronaria) [TaxId: 52861]

Probab=87.83  E-value=0.48  Score=35.50  Aligned_cols=24  Identities=25%  Similarity=0.537  Sum_probs=18.4

Q ss_pred             CCCcceEEEEEEeeCCCce--EEEeC
Q 029371          133 SGYTGHYILICGYDANSDE--FEIRD  156 (194)
Q Consensus       133 ~~Y~GHYVVLcGYd~~~~~--~~~~D  156 (194)
                      ....+|-|+|+||+.+.++  +++||
T Consensus       153 ~~~~~Hav~iVGyg~~~~~~ywiirN  178 (215)
T d1iwda_         153 GTAQNHGVVIVGYGTQSGKNYWIVRN  178 (215)
T ss_dssp             CCCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             cccccceEEEEEeecCCCceEEEEEC
Confidence            3467999999999876654  77766

>d1rbli_ d.73.1.1 (I:) Ribulose 1,5-bisphosphate carboxylase-oxygenase {Synechococcus sp., strain pcc 6301 [TaxId: 1131]}

class: Alpha and beta proteins (a+b)
fold: RuBisCO, small subunit
superfamily: RuBisCO, small subunit
family: RuBisCO, small subunit
domain: Ribulose 1,5-bisphosphate carboxylase-oxygenase
species: Synechococcus sp., strain pcc 6301 [TaxId: 1131]

Probab=87.05  E-value=1.3  Score=31.38  Aligned_cols=63  Identities=22%  Similarity=0.374  Sum_probs=39.6

Q ss_pred             HHHHHHHHcCCcEEEEEEcCCCcc-cccc---cccccc-----------CccCCCCCCcceEEEEEEeeCCCc----eEE
Q 029371           93 VEISLMILSGNYIAIALVDQYKLS-HSWM---EDVIVP-----------GFYGSDSGYTGHYILICGYDANSD----EFE  153 (194)
Q Consensus        93 ~eI~~~L~~G~~~~IvLvd~~~L~-~~~~---~~~~~~-----------~~~~~~~~Y~GHYVVLcGYd~~~~----~~~  153 (194)
                      ++|..+|++|=.|.|=..|.+--. .+|.   -+.+..           .|.   ..|.||||=|+|||...+    +|+
T Consensus        27 ~QV~yll~qGw~i~iE~ad~~~~~~~yW~mwklPmf~~~d~~~Vl~ele~c~---~~~p~~YVRliG~D~~~q~r~~~fI  103 (109)
T d1rbli_          27 AQIEYMIEQGFHPLIEFNEHSNPEEFYWTMWKLPLFACAAPQQVLDEVRECR---SEYGDCYIRVAGFDNIKECQTSSFI  103 (109)
T ss_dssp             HHHHHHHHHTCEEEEEEESCCCTTCCCCEECSSCCTTCCCHHHHHHHHHHHH---HHCTTSEEEEEEEETTTTEEEEEEE
T ss_pred             HHHHHHHhCCCceeEEEccCCCccceeeeecccCcccCCCHHHHHHHHHHHH---HhCCcCEEEEEEEeCCCCEEEEEEE
Confidence            345666788977777777776431 2331   011110           111   349999999999998877    577


Q ss_pred             EeCCC
Q 029371          154 IRDPA  158 (194)
Q Consensus       154 ~~DPa  158 (194)
                      +.-|+
T Consensus       104 V~RP~  108 (109)
T d1rbli_         104 VHRPG  108 (109)
T ss_dssp             EECCC
T ss_pred             EeCCC
Confidence            77775

>d1cqda_ d.3.1.1 (A:) Proline-specific cysteine protease {Ginger rhizome (Zingiber officinale) [TaxId: 94328]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Proline-specific cysteine protease
species: Ginger rhizome (Zingiber officinale) [TaxId: 94328]

Probab=85.90  E-value=0.87  Score=33.83  Aligned_cols=62  Identities=13%  Similarity=0.146  Sum_probs=31.6

Q ss_pred             HHHHHHHHHcCCcEEEEEEcCCCccccccccccccCccCCCCCCcceEEEEEEeeCC--CceEEEeCC
Q 029371           92 GVEISLMILSGNYIAIALVDQYKLSHSWMEDVIVPGFYGSDSGYTGHYILICGYDAN--SDEFEIRDP  157 (194)
Q Consensus        92 ~~eI~~~L~~G~~~~IvLvd~~~L~~~~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~--~~~~~~~DP  157 (194)
                      -+++...+.... |+++.+......-..-+.-..   ........+|.|+|+||+.+  .+-++++|.
T Consensus       117 ~~~~~~~~~~~~-pv~~~~~~~~~~~~~y~~gi~---~~~~~~~~~Hav~iVGyg~~~~~~~wiv~NS  180 (216)
T d1cqda_         117 NEQSLQKAVANQ-PVSVTMDAAGRDFQLYRSGIF---TGSCNISANHALTVVGYGTENDKDFWIVKNS  180 (216)
T ss_dssp             CHHHHHHHHTTS-CEEEEECCCSHHHHTCCSSEE---CCCCCCCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             chhhHHHHhhcC-CcceeeeeecccccccccCcc---cccccccCCcceeeeccccccCCceEEEECC
Confidence            344555555553 566655554321111111111   11123457999999999654  335777764

>d1svdm1 d.73.1.1 (M:3-110) Ribulose 1,5-bisphosphate carboxylase-oxygenase {Halothiobacillus neapolitanus [TaxId: 927]}

class: Alpha and beta proteins (a+b)
fold: RuBisCO, small subunit
superfamily: RuBisCO, small subunit
family: RuBisCO, small subunit
domain: Ribulose 1,5-bisphosphate carboxylase-oxygenase
species: Halothiobacillus neapolitanus [TaxId: 927]

Probab=84.86  E-value=1.7  Score=30.70  Aligned_cols=62  Identities=19%  Similarity=0.292  Sum_probs=38.6

Q ss_pred             HHHHHHHHcCCcEEEEEEcCCCc-ccccc---ccccc--------c---CccCCCCCCcceEEEEEEeeCCCc----eEE
Q 029371           93 VEISLMILSGNYIAIALVDQYKL-SHSWM---EDVIV--------P---GFYGSDSGYTGHYILICGYDANSD----EFE  153 (194)
Q Consensus        93 ~eI~~~L~~G~~~~IvLvd~~~L-~~~~~---~~~~~--------~---~~~~~~~~Y~GHYVVLcGYd~~~~----~~~  153 (194)
                      ++|..+|++|-.|.|=.+|.+-- ..+|.   -+.+.        +   .|   ...|.||||=|+|||...+    +|+
T Consensus        27 ~QV~yll~qGw~~~~E~~d~~~~r~~yW~mwklPmf~~~d~~~Vl~Ele~c---~~~~p~~YVRliG~D~~~q~q~~~fI  103 (108)
T d1svdm1          27 AQIKYAIAQGWSPGIEHVEVKNSMNQYWYMWKLPFFGEQNVDNVLAEIEAC---RSAYPTHQVKLVAYDNYAQSLGLAFV  103 (108)
T ss_dssp             HHHHHHHHTTCEEEEEEECGGGTTCSCCEEESCCCTTCCCHHHHHHHHHHH---HHHSTTSEEEEEEEETTTTEEEEEEE
T ss_pred             HHHHHHHHCCCEeeEeecccCCCcCceeeecCCCCcCCCcHHHHHHHHHHH---HHHCCCCEEEEEEEcCCccEEEEEEE
Confidence            34566678897778877877633 23341   11111        0   11   1349999999999999987    455


Q ss_pred             EeCC
Q 029371          154 IRDP  157 (194)
Q Consensus       154 ~~DP  157 (194)
                      +.=|
T Consensus       104 V~RP  107 (108)
T d1svdm1         104 VYRG  107 (108)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            5554

>d1khqa_ d.3.1.1 (A:) Papain {Papaya (Carica papaya) [TaxId: 3649]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Papain
species: Papaya (Carica papaya) [TaxId: 3649]

Probab=83.61  E-value=1.2  Score=32.77  Aligned_cols=21  Identities=24%  Similarity=0.419  Sum_probs=16.5

Q ss_pred             CcceEEEEEEeeCCCceEEEeCC
Q 029371          135 YTGHYILICGYDANSDEFEIRDP  157 (194)
Q Consensus       135 Y~GHYVVLcGYd~~~~~~~~~DP  157 (194)
                      ..||-|+|+|||.+  -+++||-
T Consensus       156 ~~~Hav~iVGyg~~--ywivrNS  176 (212)
T d1khqa_         156 KVDHAVAAVGYGPN--YILIKNS  176 (212)
T ss_dssp             CCCEEEEEEEEETT--EEEEECS
T ss_pred             ccCeEEEecccCCc--EEEEEcC
Confidence            46999999999965  4777763

>d1cs8a_ d.3.1.1 (A:) (Pro)cathepsin L {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: (Pro)cathepsin L
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.50  E-value=0.76  Score=37.06  Aligned_cols=58  Identities=14%  Similarity=0.034  Sum_probs=32.4

Q ss_pred             ccccHHHHHHHHHcCCcEEEEEEcCCCcccc-ccccccccCccCCCCCCcceEEEEEEeeCC
Q 029371           88 GSISGVEISLMILSGNYIAIALVDQYKLSHS-WMEDVIVPGFYGSDSGYTGHYILICGYDAN  148 (194)
Q Consensus        88 rsvs~~eI~~~L~~G~~~~IvLvd~~~L~~~-~~~~~~~~~~~~~~~~Y~GHYVVLcGYd~~  148 (194)
                      .....++|...|.+. +|+.|.+++..-.=. ....+..... | .....+|-|+|+||+.+
T Consensus       211 ~~~~~~~l~~~l~~~-gpv~v~i~~~~~~f~~y~~Gi~~~~~-c-~~~~~nHaV~iVGyG~d  269 (316)
T d1cs8a_         211 IPKQEKALMKAVATV-GPISVAIDAGHESFLFYKEGIYFEPD-C-SSEDMDHGVLVVGYGFE  269 (316)
T ss_dssp             CCSCHHHHHHHHHHH-CCEEEEECCCSHHHHTEEEEEECCTT-C-CSSCCCEEEEEEEEEEE
T ss_pred             ccCcHHHHHHHHHHh-CCeEEEEEeccchhccccCCcccCCC-C-CCCcCCEEEEEEEEccc
Confidence            344677788888775 277888887632100 0111111111 1 12346899999999743

>d1bwvs_ d.73.1.1 (S:) Ribulose 1,5-bisphosphate carboxylase-oxygenase {Galdieria partita [TaxId: 83374]}

class: Alpha and beta proteins (a+b)
fold: RuBisCO, small subunit
superfamily: RuBisCO, small subunit
family: RuBisCO, small subunit
domain: Ribulose 1,5-bisphosphate carboxylase-oxygenase
species: Galdieria partita [TaxId: 83374]

Probab=82.10  E-value=3.3  Score=30.38  Aligned_cols=66  Identities=17%  Similarity=0.270  Sum_probs=41.9

Q ss_pred             HHHHHHHHcCCcEEEEEEcCCCcc-cccc---cccccc-----------CccCCCCCCcceEEEEEEeeCC--Cc----e
Q 029371           93 VEISLMILSGNYIAIALVDQYKLS-HSWM---EDVIVP-----------GFYGSDSGYTGHYILICGYDAN--SD----E  151 (194)
Q Consensus        93 ~eI~~~L~~G~~~~IvLvd~~~L~-~~~~---~~~~~~-----------~~~~~~~~Y~GHYVVLcGYd~~--~~----~  151 (194)
                      ++|...|++|=.|.|=..|.+--. .+|.   -+.+..           .|   ...|.||||=|+|||..  .+    +
T Consensus        21 ~QV~yll~qGw~~~iE~~d~~~~r~~yW~mwklPmf~~~d~~~Vl~Ele~C---~k~~p~~YVRliGfDn~rq~Q~~~~s   97 (138)
T d1bwvs_          21 KQIDYMISKKLAIGIEYTNDIHPRNAYWEIWGLPLFDVTDPAAVLFEINAC---RKARSNFYIKVVGFSSVRGIESTIIS   97 (138)
T ss_dssp             HHHHHHHHTTCEEEEEEESCCCTTCCCCEECSSCBCSCCCHHHHHHHHHHH---HHHCTTSEEEEEEEECCTTTCEEEEE
T ss_pred             HHHHHHHcCCCEeeeEeccccccccchhhccccccccCCCHHHHHHHHHHH---HHHCCcceEEEEEEeCccceeEEEEE
Confidence            445566788877778788776442 2331   111110           11   13499999999999964  45    7


Q ss_pred             EEEeCCCCCC
Q 029371          152 FEIRDPASCR  161 (194)
Q Consensus       152 ~~~~DPa~~~  161 (194)
                      |+++-|..+.
T Consensus        98 fIV~RP~~~p  107 (138)
T d1bwvs_          98 FIVNRPKHEP  107 (138)
T ss_dssp             EEEECCSCCC
T ss_pred             EEEeCCCCCC
Confidence            9999998764