Psyllid ID: psy1911

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340--
Protein Sequence
MSLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMVLM
Secondary Structure (PSIPRED)
cccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccHHHHHHHHHHcccEEEEEEEccccccccccEEEcccccccccEEEEEEEEccccccccEEEEccccccccccccEEEcccccccHHHcccccccccccccccccccccccccccccccEEcccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccccccHHHHHHHccccccccccccHHHHHHHHHccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHccccccHcccccccccccccccccccccccccccEEcccccccccHHccccccEEEEccHHHHHHHHHHHccEEEEEEEEHHHccccccEEccccccEEEEEEEEEEEEEEEccEEEEEEEccEcccccEccEEEEEccccHHHccHHHccccccccccccccccccccccccccccEEHHHHccccHHHHcccEccccEcHHHHHHHHHHHHHHHHcccccccccEcHHHHHHHcccccHHHcEcHHHHHHHHHHccEEEEcccccccEccccccccccccccccccccccccccccccccEEccccccccccHHccccccEEEEccc
Coil and Loop (DISEMBL)
mslegrlktKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKkkkkkkkrlylptsiplshyfkkahmvprcNAMRQIYEHGPLVAIFSVYADFLQYksgvyqhnfgdsigLHAVRVLgwgvendipyWLVANswndhwgdhgtfkilrgeneadiemgfnnrveanssedddletmgcqnakglprnfdarekwpecpslrhiadqsncgscWAVSVANAISDRlciasngyftgqISAQHIVactpncwgcnggwpqlawrfwghngvvtggdynsqegcqpytlapcehhvqgplqnctllgklktpeckqncynpsyestyrfdlkkgkkAHMVLM
Flexible Loop (DISEMBL)
mslegrlktkkkkkkkkkkeekkkkkkkkkkkeeekkkkkkkkkkkkkkkkrlylptsiplshyfkKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNcynpsyestyrfdlkkgkkAHMVLM
Low Complexity Region (SEG)
MSLEGRLKTkkkkkkkkkkeekkkkkkkkkkkeeekkkkkkkkkkkkkkkkRLYLPTSIPLSHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMVLM
Disordered region (IsUnstruct)
*****************************************************YLPTSIPLSHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADI*************************************KWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFD************
Disordered Region (DISOPRED)
****GRL*TKKKKKKKKKKEEKKKKKKKKKKKE***************KKKRLYLPTSIPLSHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQ**********KLKTPECKQNCYNPSYESTYRFDLKKGKKAHMVLM
Disordered Region (DISEMBL)
****************************************************LYLPTSIPLSHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKG********
Disordered Region (DISPRO)
*******KT******************KKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEAN***DDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMVLM
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSLEGRxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLYLPTSIPLSHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMVLM
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	342	2.2.26 [Sep-21-2011]
Q5R6D1	339	Cathepsin B OS=Pongo abel	yes	N/A	0.441	0.445	0.461	1e-36
P07858	339	Cathepsin B OS=Homo sapie	yes	N/A	0.441	0.445	0.461	2e-36
Q4R5M2	339	Cathepsin B OS=Macaca fas	N/A	N/A	0.441	0.445	0.461	3e-36
A1E295	335	Cathepsin B OS=Sus scrofa	yes	N/A	0.441	0.450	0.467	4e-36
P00787	339	Cathepsin B OS=Rattus nor	yes	N/A	0.470	0.474	0.445	1e-34
P10605	339	Cathepsin B OS=Mus muscul	yes	N/A	0.412	0.415	0.493	1e-34
P43233	340	Cathepsin B OS=Gallus gal	yes	N/A	0.444	0.447	0.442	4e-34
P43157	342	Cathepsin B-like cysteine	N/A	N/A	0.529	0.529	0.391	2e-33
P43510	379	Cathepsin B-like cysteine	no	N/A	0.450	0.406	0.419	8e-33
P25802	341	Cathepsin B-like cysteine	N/A	N/A	0.403	0.404	0.503	8e-32

>sp|Q5R6D1|CATB_PONAB Cathepsin B OS=Pongo abelii GN=CTSB PE=2 SV=1

 Score =  154 bits (388), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 101/156 (64%), Gaps = 5/156 (3%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N + + ++SA+ ++
Sbjct: 80  LPESFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 139

Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  +    GCNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCEHHV G    CT
Sbjct: 140 TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT 199

Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 200 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 232

Thiol protease which is believed to participate in intracellular degradation and turnover of proteins. Has also been implicated in tumor invasion and metastasis.
Pongo abelii (taxid: 9601)
EC: 3EC: .EC: 4EC: .EC: 2EC: 2EC: .EC: 1

>sp|P07858|CATB_HUMAN Cathepsin B OS=Homo sapiens GN=CTSB PE=1 SV=3

 Score =  153 bits (387), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 101/156 (64%), Gaps = 5/156 (3%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N + + ++SA+ ++
Sbjct: 80  LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 139

Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  +    GCNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCEHHV G    CT
Sbjct: 140 TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT 199

Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 200 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 232

Thiol protease which is believed to participate in intracellular degradation and turnover of proteins. Has also been implicated in tumor invasion and metastasis.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: 1

>sp|Q4R5M2|CATB_MACFA Cathepsin B OS=Macaca fascicularis GN=CTSB PE=2 SV=1

 Score =  152 bits (385), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 101/156 (64%), Gaps = 5/156 (3%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N + + ++SA+ ++
Sbjct: 80  LPESFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 139

Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C       GCNGG+P  AW FW   G+V+GG Y+S  GC+PY++ PCEHHV G    CT
Sbjct: 140 TCCGIMCGDGCNGGYPAGAWNFWTRKGLVSGGLYDSHVGCRPYSIPPCEHHVNGSRPPCT 199

Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 200 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 232

Thiol protease which is believed to participate in intracellular degradation and turnover of proteins. Has also been implicated in tumor invasion and metastasis.

Macaca fascicularis (taxid: 9541)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: 1

>sp|A1E295|CATB_PIG Cathepsin B OS=Sus scrofa GN=CTSB PE=1 SV=1

 Score =  152 bits (383), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 73/156 (46%), Positives = 102/156 (65%), Gaps = 5/156 (3%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP++FDARE+WP CP+++ I DQ +CGSCWA     AISDR+CI SNG    ++SA+ ++
Sbjct: 80  LPKSFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIRSNGRVNVEVSAEDML 139

Query: 247 ACTPN-CW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  + C  GCNGG+P  AW FW   G+V+GG Y+S  GC+PY++ PCEHHV G    CT
Sbjct: 140 TCCGDECGDGCNGGFPSGAWNFWTKKGLVSGGLYDSHVGCRPYSIPPCEHHVNGSRPPCT 199

Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  +Y+ D   G  ++ +
Sbjct: 200 --GEGDTPKCSKIC-EPGYTPSYKEDKHFGCSSYSI 232

Thiol protease which is believed to participate in intracellular degradation and turnover of proteins. Has also been implicated in tumor invasion and metastasis.

Sus scrofa (taxid: 9823)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: 1

>sp|P00787|CATB_RAT Cathepsin B OS=Rattus norvegicus GN=Ctsb PE=1 SV=2

 Score =  147 bits (371), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 74/166 (44%), Positives = 100/166 (60%), Gaps = 5/166 (3%)

Query: 177 ETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYF 236
           E +G      LP +FDARE+W  CP++  I DQ +CGSCWA     A+SDR+CI +NG  
Sbjct: 70  ERVGFSEDINLPESFDAREQWSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRV 129

Query: 237 TGQISAQHIVACTP-NCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEH 294
             ++SA+ ++ C    C  GCNGG+P  AW FW   G+V+GG YNS  GC PYT+ PCEH
Sbjct: 130 NVEVSAEDLLTCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPPCEH 189

Query: 295 HVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
           HV G    CT  G+  TP+C + C    Y ++Y+ D   G  ++ V
Sbjct: 190 HVNGSRPPCT--GEGDTPKCNKMC-EAGYSTSYKEDKHYGYTSYSV 232

Thiol protease which is believed to participate in intracellular degradation and turnover of proteins. Has also been implicated in tumor invasion and metastasis.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: 1

>sp|P10605|CATB_MOUSE Cathepsin B OS=Mus musculus GN=Ctsb PE=1 SV=2

 Score =  147 bits (371), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 73/148 (49%), Positives = 92/148 (62%), Gaps = 7/148 (4%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP  FDARE+W  CP++  I DQ +CGSCWA     AISDR CI +NG    ++SA+ ++
Sbjct: 80  LPETFDAREQWSNCPTIGQIRDQGSCGSCWAFGAVEAISDRTCIHTNGRVNVEVSAEDLL 139

Query: 247 ACTP-NCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C    C  GCNGG+P  AW FW   G+V+GG YNS  GC PYT+ PCEHHV G    CT
Sbjct: 140 TCCGIQCGDGCNGGYPSGAWSFWTKKGLVSGGVYNSHVGCLPYTIPPCEHHVNGSRPPCT 199

Query: 305 LLGKLKTPECKQNC---YNPSYESTYRF 329
             G+  TP C ++C   Y+PSY+    F
Sbjct: 200 --GEGDTPRCNKSCEAGYSPSYKEDKHF 225

Thiol protease which is believed to participate in intracellular degradation and turnover of proteins. Has also been implicated in tumor invasion and metastasis.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: 1

>sp|P43233|CATB_CHICK Cathepsin B OS=Gallus gallus GN=CTSB PE=2 SV=1

 Score =  145 bits (366), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 69/156 (44%), Positives = 98/156 (62%), Gaps = 4/156 (2%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP  FD R++WP CP++  I DQ +CGSCWA     AISDR+C+ +N   + ++SA+ ++
Sbjct: 80  LPDTFDTRKQWPNCPTISEIRDQGSCGSCWAFGAVEAISDRICVHTNAKVSVEVSAEDLL 139

Query: 247 ACTP-NC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
           +C    C  GCNGG+P  AWR+W   G+V+GG Y+S  GC+ YT+ PCEHHV G    CT
Sbjct: 140 SCCGFECGMGCNGGYPSGAWRYWTERGLVSGGLYDSHVGCRAYTIPPCEHHVNGSRPPCT 199

Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G  +TP C ++C  P Y  +Y+ D   G  ++ V
Sbjct: 200 GEGG-ETPRCSRHC-EPGYSPSYKEDKHYGITSYGV 233

Thiol protease which is believed to participate in intracellular degradation and turnover of proteins. Has also been implicated in tumor invasion and metastasis.

Gallus gallus (taxid: 9031)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: 1

>sp|P43157|CYSP_SCHJA Cathepsin B-like cysteine proteinase OS=Schistosoma japonicum GN=CATB PE=2 SV=1

 Score =  143 bits (361), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 76/194 (39%), Positives = 107/194 (55%), Gaps = 13/194 (6%)

Query: 148 KILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIA 207
           +IL G  + D EM  N R   +   D ++E         +P  FD+R+KWP C S+  I 
Sbjct: 61  RILMGARKEDAEMKRNRRPTVDH-HDLNVE---------IPSQFDSRKKWPHCKSISQIR 110

Query: 208 DQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCW-GCNGGWPQLAWRF 266
           DQS CGSCWA     A++DR+CI S G  + ++SA  +++C  +C  GC GG+P +AW +
Sbjct: 111 DQSRCGSCWAFGAVEAMTDRICIQSGGGQSAELSALDLISCCKDCGDGCQGGFPGVAWDY 170

Query: 267 WGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYEST 326
           W   G+VTGG   +  GCQPY    CEHH +G    C      KTP+CKQ C    Y++ 
Sbjct: 171 WVKRGIVTGGSKENHTGCQPYPFPKCEHHTKGKYPACG-TKIYKTPQCKQTC-QKGYKTP 228

Query: 327 YRFDLKKGKKAHMV 340
           Y  D   G +++ V
Sbjct: 229 YEQDKHYGDESYNV 242

Thiol protease. Has a role as a digestive enzyme.

Schistosoma japonicum (taxid: 6182)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|P43510|CPR6_CAEEL Cathepsin B-like cysteine proteinase 6 OS=Caenorhabditis elegans GN=cpr-6 PE=1 SV=1

 Score =  141 bits (355), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 65/155 (41%), Positives = 96/155 (61%), Gaps = 1/155 (0%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P +FD+R+ WP+C S++ I DQS+CGSCWA     A+SDR+CIAS+G     +SA  ++
Sbjct: 105 IPESFDSRDNWPKCDSIKVIRDQSSCGSCWAFGAVEAMSDRICIASHGELQVTLSADDLL 164

Query: 247 ACTPNC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTL 305
           +C  +C +GCNGG P  AWR+W  +G+VTG +Y +  GC+PY   PCEHH +    +   
Sbjct: 165 SCCKSCGFGCNGGDPLAAWRYWVKDGIVTGSNYTANNGCKPYPFPPCEHHSKKTHFDPCP 224

Query: 306 LGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
                TP+C++ C +   + TY  D   G  A+ V
Sbjct: 225 HDLYPTPKCEKKCVSDYTDKTYSEDKFFGASAYGV 259

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

>sp|P25802|CYSP1_OSTOS Cathepsin B-like cysteine proteinase 1 OS=Ostertagia ostertagi GN=CP-1 PE=3 SV=3

 Score =  137 bits (346), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 72/143 (50%), Positives = 88/143 (61%), Gaps = 5/143 (3%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P ++D R +W  C SL HI DQ+NCGSCWAVS A A+SDR+CIAS G     ISAQ +V
Sbjct: 91  IPESYDPRIQWANCSSLFHIPDQANCGSCWAVSSAAAMSDRICIASKGAKQVLISAQDVV 150

Query: 247 ACTPNCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTL 305
           +C   C  GC GGWP  A+RF    GVVTGGDYN++  C+PY + PC HH          
Sbjct: 151 SCCTWCGDGCEGGWPISAFRFHADEGVVTGGDYNTKGSCRPYEIHPCGHHGNETYYG-EC 209

Query: 306 LGKLKTPECKQNC---YNPSYES 325
           +G   TP CK+ C   Y  SY S
Sbjct: 210 VGMADTPRCKRRCLLGYPKSYPS 232

Expression of the protease correlates with blood-feeding and suggests a role for the protease in blood digestion.

Ostertagia ostertagi (taxid: 6317)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	342
110456454	125	cathepsin B preproprotein-like protein [	0.286	0.784	1.0	7e-53
22535408	347	cathepsin B-like protease [Nilaparvata l	0.447	0.440	0.522	1e-39
27882093	330	Zgc:55862 [Danio rerio]	0.543	0.563	0.463	2e-39
74179506	330	cathepsin B preproprotein [Cyprinus carp	0.543	0.563	0.468	2e-39
37788265	330	cathepsin B precursor [Fundulus heterocl	0.543	0.563	0.463	6e-39
50540542	330	cathepsin B, a precursor [Danio rerio] g	0.543	0.563	0.447	3e-38
51038793	330	cathepsin B [Paralichthys olivaceus] gi|	0.543	0.563	0.453	5e-38
254746338	337	putative C1A cysteine protease precursor	0.441	0.448	0.490	1e-37
197725747	333	cathepsin B precursor [Epinephelus coioi	0.444	0.456	0.503	1e-37
312374701	335	hypothetical protein AND_15621 [Anophele	0.444	0.453	0.490	2e-37

>gi|110456454|gb|ABG74712.1| cathepsin B preproprotein-like protein [Diaphorina citri]

 Score =  213 bits (543), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 98/98 (100%), Positives = 98/98 (100%)

Query: 66  KKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVE 125
           KKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVE
Sbjct: 19  KKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVE 78

Query: 126 NDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFN 163
           NDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFN
Sbjct: 79  NDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFN 116

Source: Diaphorina citri

Species: Diaphorina citri

Genus: Diaphorina

Family: Psyllidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|22535408|emb|CAC87118.1| cathepsin B-like protease [Nilaparvata lugens]

 Score =  169 bits (429), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 81/155 (52%), Positives = 108/155 (69%), Gaps = 2/155 (1%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P+ FDAR+KW +C SLR I DQ NCGSCWAVSVA A +DRLCIASN  + G IS++ ++
Sbjct: 92  VPKYFDARKKWKKCKSLREIRDQGNCGSCWAVSVAAAFADRLCIASNAKWNGHISSRELM 151

Query: 247 ACTPNC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTL 305
           +C   C +GC GG+P  AW F   +G+VTGGDY+S +GCQPY +APCEHH++G   NC+ 
Sbjct: 152 SCCSYCGFGCEGGFPDAAWVFIKRHGLVTGGDYHSHDGCQPYPIAPCEHHMEGSKPNCSA 211

Query: 306 LGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
                TP C+  C + S    Y+ D +KGK A++V
Sbjct: 212 SPTEPTPACETTCTHGS-SLAYQKDRQKGKSAYLV 245

Source: Nilaparvata lugens

Species: Nilaparvata lugens

Genus: Nilaparvata

Family: Delphacidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|27882093|gb|AAH44517.1| Zgc:55862 [Danio rerio]

 Score =  169 bits (428), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 89/192 (46%), Positives = 115/192 (59%), Gaps = 6/192 (3%)

Query: 152 GENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGL--PRNFDAREKWPECPSLRHIADQ 209
           G N  D++  +  R+     +   L  M  Q  +GL  P+NFDARE+WP CP+L+ I DQ
Sbjct: 43  GHNFRDVDYSYVKRLCGTFLKGPKLPVM-VQYTEGLKLPKNFDAREQWPNCPTLKEIRDQ 101

Query: 210 SNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLAWRFWG 268
            +CGSCWA   A AISDR+CI SN   + +IS+Q ++ C  +C  GCNGG+P  AW FW 
Sbjct: 102 GSCGSCWAFGAAEAISDRVCIQSNAKVSVEISSQDLLTCCDSCGMGCNGGYPSAAWDFWT 161

Query: 269 HNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYR 328
            +G+VTGG YNS  GC+PYT+ PCEHHV G    CT  G   TP C   C  P Y   Y+
Sbjct: 162 TDGLVTGGLYNSHIGCRPYTIEPCEHHVNGSRPPCTGEGG-DTPNCDMKC-EPGYSPLYK 219

Query: 329 FDLKKGKKAHMV 340
            D   GK ++ V
Sbjct: 220 EDKHFGKTSYSV 231

Source: Danio rerio

Species: Danio rerio

Genus: Danio

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|74179506|dbj|BAE44111.1| cathepsin B preproprotein [Cyprinus carpio]

 Score =  169 bits (428), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 90/192 (46%), Positives = 114/192 (59%), Gaps = 6/192 (3%)

Query: 152 GENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGL--PRNFDAREKWPECPSLRHIADQ 209
           G N  D++  +  R+     +   L  M  Q A  L  P NFDARE+WP CP+L+ I DQ
Sbjct: 43  GHNFHDVDYSYVKRLCGTLLKGPRLPVM-VQYADDLKLPTNFDAREQWPNCPTLKEIRDQ 101

Query: 210 SNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLAWRFWG 268
            +CGSCWA   A AISDR+CI SN   + +ISAQ ++ C   C  GCNGG+P  AW FW 
Sbjct: 102 GSCGSCWAFGAAEAISDRVCIHSNAKVSVEISAQDLLTCCDGCGMGCNGGYPSAAWDFWS 161

Query: 269 HNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYR 328
            +G+VTGG YNS  GC+PYT+ PCEHHV G    CT  G   TP C  +C  P Y  +Y+
Sbjct: 162 SDGLVTGGLYNSHIGCRPYTIEPCEHHVNGSRPPCTGEGG-DTPNCDMSC-EPGYSPSYK 219

Query: 329 FDLKKGKKAHMV 340
            D   GK ++ V
Sbjct: 220 QDKHFGKTSYSV 231

Source: Cyprinus carpio

Species: Cyprinus carpio

Genus: Cyprinus

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|37788265|gb|AAO64472.1| cathepsin B precursor [Fundulus heteroclitus]

 Score =  167 bits (424), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 89/192 (46%), Positives = 116/192 (60%), Gaps = 6/192 (3%)

Query: 152 GENEADIEMGFNNRVEANSSEDDDLETMGCQNAKG--LPRNFDAREKWPECPSLRHIADQ 209
           G N  D++ G+   +     +   L  M  Q+A G  LP+ FDARE+WPECP+L+ I DQ
Sbjct: 43  GHNFHDVDYGYVKNLCGTLLKGPKLPIM-VQSAGGMKLPKQFDAREQWPECPTLKEIRDQ 101

Query: 210 SNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLAWRFWG 268
            +CGSCWA   A AISDR+CI + G  + +IS+Q ++ C  +C  GCNGG+P  AW FW 
Sbjct: 102 GSCGSCWAFGAAEAISDRICIHTKGKVSVEISSQDLLTCCDSCGMGCNGGYPANAWEFWT 161

Query: 269 HNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYR 328
             G+VTGG YNS  GC+PYT+ PCEHHV G    CT  G   TPEC   C    Y  +Y+
Sbjct: 162 EQGLVTGGLYNSHIGCRPYTIEPCEHHVNGSRPPCTGEGG-DTPECVTQC-EAGYTPSYQ 219

Query: 329 FDLKKGKKAHMV 340
            D   GK ++ V
Sbjct: 220 KDKHYGKTSYGV 231

Source: Fundulus heteroclitus

Species: Fundulus heteroclitus

Genus: Fundulus

Family: Fundulidae

Order: Cyprinodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|50540542|ref|NP_998501.1| cathepsin B, a precursor [Danio rerio] gi|34784038|gb|AAH56688.1| Cathepsin B, a [Danio rerio] gi|37681773|gb|AAQ97764.1| cathepsin B [Danio rerio] gi|41351445|gb|AAH65589.1| Cathepsin B, a [Danio rerio]

 Score =  165 bits (417), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 86/192 (44%), Positives = 115/192 (59%), Gaps = 6/192 (3%)

Query: 152 GENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGL--PRNFDAREKWPECPSLRHIADQ 209
           G N  D++  +  ++     +   L  M  Q  +GL  P+NFDARE+WP CP+L+ I DQ
Sbjct: 43  GHNFRDVDYSYVKKLCGTFLKGPKLPVM-VQYTEGLKLPKNFDAREQWPNCPTLKEIRDQ 101

Query: 210 SNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLAWRFWG 268
            +CGSCWA   A AISDR+CI S+   + +IS+Q ++ C  +C  GCNGG+P  AW FW 
Sbjct: 102 GSCGSCWAFGAAEAISDRVCIHSDAKVSVEISSQDLLTCCDSCGMGCNGGYPSAAWDFWA 161

Query: 269 HNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYR 328
             G+VTGG YNS  GC+PYT+ PCEHHV G    C+  G   TP C   C  P Y  +Y+
Sbjct: 162 TEGLVTGGLYNSHIGCRPYTIEPCEHHVNGSRPPCSGEGG-DTPNCDMKC-EPGYSPSYK 219

Query: 329 FDLKKGKKAHMV 340
            D   GK ++ V
Sbjct: 220 QDKHFGKTSYSV 231

Source: Danio rerio

Species: Danio rerio

Genus: Danio

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|51038793|gb|AAT94175.1| cathepsin B [Paralichthys olivaceus] gi|121053785|gb|ABM47001.1| cathepsin B [Paralichthys olivaceus]

 Score =  164 bits (415), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 87/192 (45%), Positives = 115/192 (59%), Gaps = 6/192 (3%)

Query: 152 GENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGL--PRNFDAREKWPECPSLRHIADQ 209
           G N  +++  +  R+     +   L  M  Q A GL  P  FDARE+WPECP+L+ I DQ
Sbjct: 43  GHNFHNVDYSYVRRLCGTMLKGPKLPIM-VQYAGGLKLPAEFDAREQWPECPTLKEIRDQ 101

Query: 210 SNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLAWRFWG 268
            +CGSCWA   A AISDR+CI S G  + +IS++ ++ C  +C  GCNGG+P  AW FW 
Sbjct: 102 GSCGSCWAFGAAEAISDRVCIHSGGKISVEISSEDLLTCCDSCGMGCNGGYPSSAWDFWT 161

Query: 269 HNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYR 328
             G+V+GG YNS  GC+PYT++PCEHHV G    CT  G   TPEC   C    Y  +Y+
Sbjct: 162 KEGLVSGGLYNSHIGCRPYTISPCEHHVNGSRPPCTGEGG-DTPECISRC-EAGYSPSYK 219

Query: 329 FDLKKGKKAHMV 340
            D   GK ++ V
Sbjct: 220 QDKHYGKSSYSV 231

Source: Paralichthys olivaceus

Species: Paralichthys olivaceus

Genus: Paralichthys

Family: Paralichthyidae

Order: Pleuronectiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|254746338|emb|CAX16634.1| putative C1A cysteine protease precursor [Manduca sexta]

 Score =  163 bits (413), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 76/155 (49%), Positives = 101/155 (65%), Gaps = 4/155 (2%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP NFD R+KWP+CP+L  I DQ +CGSCWA     A++DR C  SNG      S++ ++
Sbjct: 83  LPENFDPRDKWPDCPTLNEIRDQGSCGSCWAFGAVEAMTDRYCTYSNGTKHFHFSSEDLL 142

Query: 247 ACTPNC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTL 305
           +C P C  GCNGG P LAW +W H G+V+GG+YNS +GC+PY + PCEHHV G    C+ 
Sbjct: 143 SCCPICGLGCNGGIPSLAWEYWKHFGIVSGGNYNSTQGCRPYEIPPCEHHVPGNRMPCS- 201

Query: 306 LGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
            G  KTP+C++NC N  Y   Y+ D + GK  + V
Sbjct: 202 -GDTKTPKCQKNCEN-GYNVMYKKDKRYGKHVYSV 234

Source: Manduca sexta

Species: Manduca sexta

Genus: Manduca

Family: Sphingidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|197725747|gb|ACH73069.1| cathepsin B precursor [Epinephelus coioides]

 Score =  163 bits (412), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 78/155 (50%), Positives = 102/155 (65%), Gaps = 3/155 (1%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP+NFD+RE+WP CP+L+ I DQ +CGSCWA   A AISDRLCI SNG  + +IS++ ++
Sbjct: 79  LPKNFDSREQWPNCPTLKEIRDQGSCGSCWAFGAAEAISDRLCIHSNGKVSVEISSEDLL 138

Query: 247 ACTPNC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTL 305
            C  +C  GCNGG+P  AW FW   G+V+GG Y+S  GC+PYT+ PCEHHV G    CT 
Sbjct: 139 TCCDSCGMGCNGGYPSAAWDFWTDVGLVSGGLYDSHVGCRPYTIPPCEHHVNGTRPPCTG 198

Query: 306 LGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
            G   TP+C   C    Y  +Y+ D   GK ++ V
Sbjct: 199 EGG-DTPQCILQC-ESGYTPSYKADKHYGKSSYSV 231

Source: Epinephelus coioides

Species: Epinephelus coioides

Genus: Epinephelus

Family: Serranidae

Order: Perciformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|312374701|gb|EFR22198.1| hypothetical protein AND_15621 [Anopheles darlingi]

 Score =  162 bits (411), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 76/155 (49%), Positives = 102/155 (65%), Gaps = 3/155 (1%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP NFD+RE+WP CP++R I DQ +CGSCWA     A+SDR+CIAS G    + SA+ +V
Sbjct: 83  LPENFDSREQWPNCPTIREIRDQGSCGSCWAFGAVEAMSDRVCIASGGKIHFRFSAEDLV 142

Query: 247 ACTPNC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTL 305
           +C   C +GCNGG+P  AW +W H G+V+GG + S  GCQPY +APCEHHV G   +C  
Sbjct: 143 SCCHTCGFGCNGGFPGAAWSYWVHKGLVSGGPFGSNLGCQPYAIAPCEHHVNGTRPSCEG 202

Query: 306 LGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
            G  KTP+C + C + SY   Y  D + G K++ +
Sbjct: 203 EGG-KTPKCVKKCQD-SYTVPYAKDKRYGSKSYSI 235

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	342
ZFIN|ZDB-GENE-040426-2650	330	ctsba "cathepsin B, a" [Danio	0.543	0.563	0.463	6.4e-44
UNIPROTKB|P07858	339	CTSB "Cathepsin B" [Homo sapie	0.540	0.545	0.409	1.1e-39
UNIPROTKB|P07688	335	CTSB "Cathepsin B" [Bos taurus	0.441	0.450	0.480	1.1e-39
UNIPROTKB|E2R6Q7	339	CTSB "Uncharacterized protein"	0.619	0.625	0.381	1.8e-39
UNIPROTKB|A1E295	335	CTSB "Cathepsin B" [Sus scrofa	0.441	0.450	0.467	4.8e-39
RGD|621509	339	Ctsb "cathepsin B" [Rattus nor	0.543	0.548	0.401	4.3e-38
ZFIN|ZDB-GENE-070323-1	326	ctsbb "capthepsin B, b" [Danio	0.450	0.472	0.465	4.3e-38
UNIPROTKB|Q6IN22	339	Ctsb "Cathepsin B" [Rattus nor	0.470	0.474	0.445	5.5e-38
MGI|MGI:88561	339	Ctsb "cathepsin B" [Mus muscul	0.412	0.415	0.493	1.1e-37
UNIPROTKB|F1N9D7	340	CTSB "Cathepsin B" [Gallus gal	0.426	0.429	0.46	1.5e-37

ZFIN|ZDB-GENE-040426-2650 ctsba "cathepsin B, a" [Danio rerio (taxid:7955)]

 Score = 463 (168.0 bits), Expect = 6.4e-44, P = 6.4e-44
 Identities = 89/192 (46%), Positives = 115/192 (59%)

Query:   152 GENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGL--PRNFDAREKWPECPSLRHIADQ 209
             G N  D++  +  R+     +   L  M  Q  +GL  P+NFDARE+WP CP+L+ I DQ
Sbjct:    43 GHNFRDVDYSYVKRLCGTFLKGPKLPVM-VQYTEGLKLPKNFDAREQWPNCPTLKEIRDQ 101

Query:   210 SNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLAWRFWG 268
              +CGSCWA   A AISDR+CI SN   + +IS+Q ++ C  +C  GCNGG+P  AW FW 
Sbjct:   102 GSCGSCWAFGAAEAISDRVCIQSNAKVSVEISSQDLLTCCDSCGMGCNGGYPSAAWDFWT 161

Query:   269 HNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYR 328
              +G+VTGG YNS  GC+PYT+ PCEHHV G    CT  G   TP C   C  P Y   Y+
Sbjct:   162 TDGLVTGGLYNSHIGCRPYTIEPCEHHVNGSRPPCTGEGG-DTPNCDMKC-EPGYSPLYK 219

Query:   329 FDLKKGKKAHMV 340
              D   GK ++ V
Sbjct:   220 EDKHFGKTSYSV 231

GO:0006508 "proteolysis" evidence=IEA

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

GO:0050790 "regulation of catalytic activity" evidence=IEA

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

GO:0005575 "cellular_component" evidence=ND

GO:0031101 "fin regeneration" evidence=IEP

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

UNIPROTKB|P07858 CTSB "Cathepsin B" [Homo sapiens (taxid:9606)]

 Score = 423 (154.0 bits), Expect = 1.1e-39, P = 1.1e-39
 Identities = 79/193 (40%), Positives = 115/193 (59%)

Query:   152 GENEADIEMGFNNRVEAN--SSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQ 209
             G N  +++M +  R+              M  ++ K LP +FDARE+WP+CP+++ I DQ
Sbjct:    44 GHNFYNVDMSYLKRLCGTFLGGPKPPQRVMFTEDLK-LPASFDAREQWPQCPTIKEIRDQ 102

Query:   210 SNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN-CW-GCNGGWPQLAWRFW 267
              +CGSCWA     AISDR+CI +N + + ++SA+ ++ C  + C  GCNGG+P  AW FW
Sbjct:   103 GSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPAEAWNFW 162

Query:   268 GHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTY 327
                G+V+GG Y S  GC+PY++ PCEHHV G    CT  G+  TP+C + C  P Y  TY
Sbjct:   163 TRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT--GEGDTPKCSKIC-EPGYSPTY 219

Query:   328 RFDLKKGKKAHMV 340
             + D   G  ++ V
Sbjct:   220 KQDKHYGYNSYSV 232

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0042470 "melanosome" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0006508 "proteolysis" evidence=IDA

GO:0005764 "lysosome" evidence=IDA

GO:0097067 "cellular response to thyroid hormone stimulus" evidence=IEP

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

GO:0048471 "perinuclear region of cytoplasm" evidence=IDA

GO:0005622 "intracellular" evidence=TAS

GO:0036021 "endolysosome lumen" evidence=TAS

GO:0045087 "innate immune response" evidence=TAS

GO:0008233 "peptidase activity" evidence=IDA

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

GO:0005615 "extracellular space" evidence=ISS

GO:0005730 "nucleolus" evidence=IDA

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

UNIPROTKB|P07688 CTSB "Cathepsin B" [Bos taurus (taxid:9913)]

 Score = 423 (154.0 bits), Expect = 1.1e-39, P = 1.1e-39
 Identities = 75/156 (48%), Positives = 100/156 (64%)

Query:   187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
             LP +FDARE+WP CP+++ I DQ +CGSCWA     AISDR+CI SNG    ++SA+ ++
Sbjct:    80 LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDML 139

Query:   247 ACTPN-CW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
              C    C  GCNGG+P  AW FW   G+V+GG YNS  GC+PY++ PCEHHV G    CT
Sbjct:   140 TCCGGECGDGCNGGFPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCT 199

Query:   305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
               G+  TP+C + C  P Y  +Y+ D   G  ++ V
Sbjct:   200 --GEGDTPKCSKTC-EPGYSPSYKEDKHFGCSSYSV 232

GO:0042470 "melanosome" evidence=IEA

GO:0005764 "lysosome" evidence=IEA

GO:0005615 "extracellular space" evidence=IEA

GO:0097067 "cellular response to thyroid hormone stimulus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

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

UNIPROTKB|E2R6Q7 CTSB "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 421 (153.3 bits), Expect = 1.8e-39, P = 1.8e-39
 Identities = 85/223 (38%), Positives = 128/223 (57%)

Query:   123 GVENDIPYWLVANSWNDHWGDHGT-FKILRGENEADIEMGFNNRVEANSSEDDDLETMGC 181
             G ++ +P+  +++   D+     T +K   G N  +++  +  R+         L     
Sbjct:    16 GAQSRLPFRALSDELVDYVNKRNTTWKA--GHNFHNVDPSYLRRLCGTFLGGPKLPQR-V 72

Query:   182 QNAKGL--PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQ 239
             Q AK L  P +FDARE+WP CP+++ I DQ +CGSCWA     AISDR+CI +NG+   +
Sbjct:    73 QFAKNLILPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIRTNGHVNVE 132

Query:   240 ISAQHIVACTPN-CW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQ 297
             +SA+ ++ C  + C  GCNGG+P  AW FW   G+V+GG Y+S  GC+PY++ PCEHHV 
Sbjct:   133 VSAEDMLTCCGDQCGDGCNGGFPAEAWNFWTKQGLVSGGLYDSHVGCRPYSIPPCEHHVN 192

Query:   298 GPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G    CT  G+  TP+C + C  P Y  +Y+ D   G  ++ V
Sbjct:   193 GSRPPCT--GEGDTPKCSKIC-EPGYSPSYKEDKHYGCSSYSV 232

GO:0097067 "cellular response to thyroid hormone stimulus" evidence=IEA

GO:0005764 "lysosome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

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

UNIPROTKB|A1E295 CTSB "Cathepsin B" [Sus scrofa (taxid:9823)]

 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 73/156 (46%), Positives = 102/156 (65%)

Query:   187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
             LP++FDARE+WP CP+++ I DQ +CGSCWA     AISDR+CI SNG    ++SA+ ++
Sbjct:    80 LPKSFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIRSNGRVNVEVSAEDML 139

Query:   247 ACTPN-CW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
              C  + C  GCNGG+P  AW FW   G+V+GG Y+S  GC+PY++ PCEHHV G    CT
Sbjct:   140 TCCGDECGDGCNGGFPSGAWNFWTKKGLVSGGLYDSHVGCRPYSIPPCEHHVNGSRPPCT 199

Query:   305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
               G+  TP+C + C  P Y  +Y+ D   G  ++ +
Sbjct:   200 --GEGDTPKCSKIC-EPGYTPSYKEDKHFGCSSYSI 232

GO:0005615 "extracellular space" evidence=IDA

GO:0042470 "melanosome" evidence=IEA

GO:0005764 "lysosome" evidence=IEA

GO:0097067 "cellular response to thyroid hormone stimulus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

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

RGD|621509 Ctsb "cathepsin B" [Rattus norvegicus (taxid:10116)]

 Score = 408 (148.7 bits), Expect = 4.3e-38, P = 4.3e-38
 Identities = 77/192 (40%), Positives = 111/192 (57%)

Query:   152 GENEADIEMGFNNRVEANSSEDDDL-ETMGCQNAKGLPRNFDAREKWPECPSLRHIADQS 210
             G N  ++++ +  ++        +L E +G      LP +FDARE+W  CP++  I DQ 
Sbjct:    44 GRNFYNVDISYLKKLCGTVLGGPNLPERVGFSEDINLPESFDAREQWSNCPTIAQIRDQG 103

Query:   211 NCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTP-NCW-GCNGGWPQLAWRFWG 268
             +CGSCWA     A+SDR+CI +NG    ++SA+ ++ C    C  GCNGG+P  AW FW 
Sbjct:   104 SCGSCWAFGAVEAMSDRICIHTNGRVNVEVSAEDLLTCCGIQCGDGCNGGYPSGAWNFWT 163

Query:   269 HNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYR 328
               G+V+GG YNS  GC PYT+ PCEHHV G    CT  G+  TP+C + C    Y ++Y+
Sbjct:   164 RKGLVSGGVYNSHIGCLPYTIPPCEHHVNGSRPPCT--GEGDTPKCNKMC-EAGYSTSYK 220

Query:   329 FDLKKGKKAHMV 340
              D   G  ++ V
Sbjct:   221 EDKHYGYTSYSV 232

GO:0004175 "endopeptidase activity" evidence=IMP;IDA

GO:0004197 "cysteine-type endopeptidase activity" evidence=IEA;ISO;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005576 "extracellular region" evidence=IDA

GO:0005615 "extracellular space" evidence=IDA

GO:0005730 "nucleolus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IDA

GO:0005739 "mitochondrion" evidence=IEA;ISO;IDA

GO:0005764 "lysosome" evidence=IEA;ISO;IDA

GO:0006508 "proteolysis" evidence=IEA;IEP;ISO;IMP;IDA;TAS

GO:0006914 "autophagy" evidence=IEP

GO:0006950 "response to stress" evidence=IEP

GO:0007283 "spermatogenesis" evidence=IEP

GO:0007519 "skeletal muscle tissue development" evidence=IEP

GO:0008233 "peptidase activity" evidence=ISO

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

GO:0009611 "response to wounding" evidence=IEP

GO:0009612 "response to mechanical stimulus" evidence=IEP

GO:0009749 "response to glucose stimulus" evidence=IEP

GO:0009897 "external side of plasma membrane" evidence=IDA

GO:0009986 "cell surface" evidence=IDA

GO:0014070 "response to organic cyclic compound" evidence=IEP

GO:0014075 "response to amine stimulus" evidence=IEP

GO:0016324 "apical plasma membrane" evidence=IDA

GO:0030984 "kininogen binding" evidence=IPI

GO:0032403 "protein complex binding" evidence=IPI

GO:0034097 "response to cytokine stimulus" evidence=IEP

GO:0042277 "peptide binding" evidence=IDA

GO:0042383 "sarcolemma" evidence=IDA

GO:0042470 "melanosome" evidence=IEA

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISO

GO:0043434 "response to peptide hormone stimulus" evidence=IEP

GO:0043621 "protein self-association" evidence=IDA

GO:0045471 "response to ethanol" evidence=IEP

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO;IDA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0060548 "negative regulation of cell death" evidence=IMP

GO:0070670 "response to interleukin-4" evidence=IEP

GO:0097067 "cellular response to thyroid hormone stimulus" evidence=IEA;ISO

GO:0005901 "caveola" evidence=IDA

ZFIN|ZDB-GENE-070323-1 ctsbb "capthepsin B, b" [Danio rerio (taxid:7955)]

 Score = 408 (148.7 bits), Expect = 4.3e-38, P = 4.3e-38
 Identities = 74/159 (46%), Positives = 101/159 (63%)

Query:   183 NAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISA 242
             N K LP +FD R++WP C +L  I DQ +CGSCWA     +ISDR+CI S G  + +ISA
Sbjct:    72 NVK-LPDSFDLRDQWPNCKTLNQIRDQGSCGSCWAFGAVESISDRICIHSKGKQSPEISA 130

Query:   243 QHIVACTPNC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQ 301
             + +++C   C +GC+GG+P  AW +W  +G+VTGG YNS  GC+PY++APCEHHV G   
Sbjct:   131 EDLLSCCDQCGFGCSGGFPAEAWDYWRRSGLVTGGLYNSDVGCRPYSIAPCEHHVNGTRP 190

Query:   302 NCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
              C+  G+  TP+C   C  P Y   Y+ D   G K + V
Sbjct:   191 PCS--GEQDTPKCTGVCI-PKYSVPYKQDKHFGSKVYNV 226

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

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

GO:0006508 "proteolysis" evidence=IEA

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

UNIPROTKB|Q6IN22 Ctsb "Cathepsin B" [Rattus norvegicus (taxid:10116)]

 Score = 407 (148.3 bits), Expect = 5.5e-38, P = 5.5e-38
 Identities = 74/166 (44%), Positives = 100/166 (60%)

Query:   177 ETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYF 236
             E +G      LP +FDARE+W  CP++  I DQ +CGSCWA     A+SDR+CI +NG  
Sbjct:    70 ERVGFSEDINLPESFDAREQWSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRV 129

Query:   237 TGQISAQHIVACTP-NCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEH 294
               ++SA+ ++ C    C  GCNGG+P  AW FW   G+V+GG YNS  GC PYT+ PCEH
Sbjct:   130 NVEVSAEDLLTCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPPCEH 189

Query:   295 HVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             HV G    CT  G+  TP+C + C    Y ++Y+ D   G  ++ V
Sbjct:   190 HVNGSRPPCT--GEGDTPKCNKMC-EAGYSTSYKEDKHYGYTSYSV 232

GO:0050790 "regulation of catalytic activity" evidence=IEA

MGI|MGI:88561 Ctsb "cathepsin B" [Mus musculus (taxid:10090)]

 Score = 404 (147.3 bits), Expect = 1.1e-37, P = 1.1e-37
 Identities = 73/148 (49%), Positives = 92/148 (62%)

Query:   187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
             LP  FDARE+W  CP++  I DQ +CGSCWA     AISDR CI +NG    ++SA+ ++
Sbjct:    80 LPETFDAREQWSNCPTIGQIRDQGSCGSCWAFGAVEAISDRTCIHTNGRVNVEVSAEDLL 139

Query:   247 ACTP-NCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
              C    C  GCNGG+P  AW FW   G+V+GG YNS  GC PYT+ PCEHHV G    CT
Sbjct:   140 TCCGIQCGDGCNGGYPSGAWSFWTKKGLVSGGVYNSHVGCLPYTIPPCEHHVNGSRPPCT 199

Query:   305 LLGKLKTPECKQNC---YNPSYESTYRF 329
               G+  TP C ++C   Y+PSY+    F
Sbjct:   200 --GEGDTPRCNKSCEAGYSPSYKEDKHF 225

GO:0004175 "endopeptidase activity" evidence=ISO

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

GO:0005576 "extracellular region" evidence=ISO

GO:0005615 "extracellular space" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0005764 "lysosome" evidence=ISO;IDA

GO:0005901 "caveola" evidence=ISO

GO:0006508 "proteolysis" evidence=ISO

GO:0008233 "peptidase activity" evidence=ISO

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

GO:0009897 "external side of plasma membrane" evidence=ISO

GO:0009986 "cell surface" evidence=ISO

GO:0016324 "apical plasma membrane" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0030984 "kininogen binding" evidence=ISO

GO:0032403 "protein complex binding" evidence=ISO

GO:0042277 "peptide binding" evidence=ISO

GO:0042383 "sarcolemma" evidence=ISO

GO:0043621 "protein self-association" evidence=ISO

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO

GO:0050790 "regulation of catalytic activity" evidence=IEA

GO:0060548 "negative regulation of cell death" evidence=ISO

UNIPROTKB|F1N9D7 CTSB "Cathepsin B" [Gallus gallus (taxid:9031)]

 Score = 403 (146.9 bits), Expect = 1.5e-37, P = 1.5e-37
 Identities = 69/150 (46%), Positives = 97/150 (64%)

Query:   187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
             LP  FD+R++WP CP++  I DQ +CGSCWA     AISDR+C+ +N   + ++SA+ ++
Sbjct:    80 LPDTFDSRKQWPNCPTISEIRDQGSCGSCWAFGAVEAISDRICVHTNAKVSVEVSAEDLL 139

Query:   247 ACTP-NC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
             +C    C  GCNGG+P  AWR+W   G+V+GG Y+S  GC+PYT+ PCEHHV G    CT
Sbjct:   140 SCCGFECGMGCNGGYPSGAWRYWTERGLVSGGLYDSHVGCRPYTIPPCEHHVNGSRPPCT 199

Query:   305 LLGKLKTPECKQNCYNPSYESTYRFDLKKG 334
               G  +TP C ++C  P Y  +Y+ D   G
Sbjct:   200 GEGG-ETPRCSRHC-EPGYSPSYKEDKHYG 227

GO:0050790 "regulation of catalytic activity" evidence=IEA

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

GO:0006508 "proteolysis" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005764 "lysosome" evidence=IEA

GO:0097067 "cellular response to thyroid hormone stimulus" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	342
cd02620	236	cd02620, Peptidase_C1A_CathepsinB, Cathepsin B gro	8e-56
cd02620	236	cd02620, Peptidase_C1A_CathepsinB, Cathepsin B gro	3e-46
pfam00112	213	pfam00112, Peptidase_C1, Papain family cysteine pr	1e-29
smart00645	175	smart00645, Pept_C1, Papain family cysteine protea	6e-27
pfam00112	213	pfam00112, Peptidase_C1, Papain family cysteine pr	1e-26
smart00645	175	smart00645, Pept_C1, Papain family cysteine protea	8e-22
cd02248	210	cd02248, Peptidase_C1A, Peptidase C1A subfamily (M	1e-21
cd02621	243	cd02621, Peptidase_C1A_CathepsinC, Cathepsin C; al	2e-21
cd02248	210	cd02248, Peptidase_C1A, Peptidase C1A subfamily (M	2e-16
cd02698	239	cd02698, Peptidase_C1A_CathepsinX, Cathepsin X; th	1e-13
PTZ00049	693	PTZ00049, PTZ00049, cathepsin C-like protein; Prov	2e-13
cd02621	243	cd02621, Peptidase_C1A_CathepsinC, Cathepsin C; al	8e-12
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	6e-11
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	7e-11
cd02619	223	cd02619, Peptidase_C1, C1 Peptidase family (MEROPS	1e-10
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	2e-09
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-09
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-09
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	6e-09
PTZ00203	348	PTZ00203, PTZ00203, cathepsin L protease; Provisio	8e-09
PTZ00364	548	PTZ00364, PTZ00364, dipeptidyl-peptidase I precurs	2e-08
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	5e-08
PTZ00200	448	PTZ00200, PTZ00200, cysteine proteinase; Provision	5e-08
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	7e-08
cd02619	223	cd02619, Peptidase_C1, C1 Peptidase family (MEROPS	8e-08
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	9e-08
cd02698	239	cd02698, Peptidase_C1A_CathepsinX, Cathepsin X; th	1e-07
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	1e-07
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	1e-07
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-07
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	2e-07
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	3e-07
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-07
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	3e-07
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	4e-07
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	7e-07
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	8e-07
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	8e-07
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	8e-07
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	9e-07
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	1e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-06
PTZ00021	489	PTZ00021, PTZ00021, falcipain-2; Provisional	1e-06
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	1e-06
PTZ00203	348	PTZ00203, PTZ00203, cathepsin L protease; Provisio	2e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-06
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	2e-06
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	2e-06
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	2e-06
PTZ00049	693	PTZ00049, PTZ00049, cathepsin C-like protein; Prov	3e-06
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	3e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	3e-06
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	3e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	4e-06
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	4e-06
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	4e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-06
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	5e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	6e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	6e-06
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	6e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	6e-06
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	6e-06
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	7e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	7e-06
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	7e-06
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	7e-06
pfam11208	132	pfam11208, DUF2992, Protein of unknown function (D	7e-06
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	9e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	9e-06
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	9e-06
PTZ00364	548	PTZ00364, PTZ00364, dipeptidyl-peptidase I precurs	1e-05
PTZ00200	448	PTZ00200, PTZ00200, cysteine proteinase; Provision	1e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-05
pfam11208	132	pfam11208, DUF2992, Protein of unknown function (D	1e-05
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	1e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	1e-05
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	1e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-05
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	2e-05
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	2e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	2e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	2e-05
PRK11778	330	PRK11778, PRK11778, putative inner membrane peptid	2e-05
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	2e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-05
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	2e-05
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	3e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-05
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	3e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	3e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-05
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	3e-05
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	3e-05
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	3e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	4e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	4e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	4e-05
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	4e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-05
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	4e-05
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	4e-05
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	4e-05
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	4e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	5e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-05
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	5e-05
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	5e-05
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	5e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-05
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	5e-05
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	6e-05
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	6e-05
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	6e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	7e-05
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	7e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	8e-05
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	8e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-05
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	8e-05
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	8e-05
PRK06319	860	PRK06319, PRK06319, DNA topoisomerase I/SWI domain	8e-05
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	9e-05
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	9e-05
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	1e-04
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	1e-04
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	1e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	1e-04
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	1e-04
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	1e-04
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	1e-04
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	1e-04
PTZ00399	651	PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Pro	1e-04
pfam08555	90	pfam08555, DUF1754, Eukaryotic family of unknown f	1e-04
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	2e-04
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	2e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	2e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-04
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	2e-04
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	2e-04
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	2e-04
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	2e-04
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	2e-04
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	2e-04
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	2e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	2e-04
PTZ00069	300	PTZ00069, PTZ00069, 60S ribosomal protein L5; Prov	2e-04
pfam00183	529	pfam00183, HSP90, Hsp90 protein	2e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	3e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-04
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	3e-04
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	3e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	3e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	3e-04
pfam00183	529	pfam00183, HSP90, Hsp90 protein	3e-04
pfam00183	529	pfam00183, HSP90, Hsp90 protein	3e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	3e-04
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	3e-04
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	3e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	4e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	4e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	4e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	4e-04
pfam07890	132	pfam07890, Rrp15p, Rrp15p	4e-04
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	4e-04
pfam09736	141	pfam09736, Bud13, Pre-mRNA-splicing factor of RES	4e-04
pfam04615	728	pfam04615, Utp14, Utp14 protein	4e-04
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	5e-04
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	5e-04
PTZ00021	489	PTZ00021, PTZ00021, falcipain-2; Provisional	5e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-04
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	5e-04
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	5e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-04
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	5e-04
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	5e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	5e-04
pfam05178	99	pfam05178, Kri1, KRI1-like family	5e-04
PTZ00462	1004	PTZ00462, PTZ00462, Serine-repeat antigen protein;	5e-04
PTZ00217	393	PTZ00217, PTZ00217, flap endonuclease-1; Provision	5e-04
cd09270	211	cd09270, RNase_H2-B, Ribonuclease H2-B is a subuni	5e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	6e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	6e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-04
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	6e-04
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	6e-04
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	6e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	6e-04
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	6e-04
pfam07741	95	pfam07741, BRF1, Brf1-like TBP-binding domain	6e-04
CHL00189	742	CHL00189, infB, translation initiation factor 2; P	6e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	7e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-04
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	7e-04
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	7e-04
PTZ00069	300	PTZ00069, PTZ00069, 60S ribosomal protein L5; Prov	7e-04
pfam07741	95	pfam07741, BRF1, Brf1-like TBP-binding domain	7e-04
pfam14058	136	pfam14058, PcfK, PcfK-like protein	7e-04
pfam09756	189	pfam09756, DDRGK, DDRGK domain	7e-04
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	8e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	8e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	8e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-04
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	8e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	8e-04
pfam09831	177	pfam09831, DUF2058, Uncharacterized protein conser	8e-04
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	8e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-04
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	0.001
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.001
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.001
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.001
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	0.001
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	0.001
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	0.001
PRK11778	330	PRK11778, PRK11778, putative inner membrane peptid	0.001
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.001
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.001
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.001
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.001
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.001
pfam07890	132	pfam07890, Rrp15p, Rrp15p	0.001
PTZ00217	393	PTZ00217, PTZ00217, flap endonuclease-1; Provision	0.001
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	0.001
pfam03343	603	pfam03343, SART-1, SART-1 family	0.001
pfam14303	147	pfam14303, NAM-associated, No apical meristem-asso	0.001
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	0.001
cd13156	152	cd13156, KOW_RPL6, KOW motif of Ribosomal Protein	0.001
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.001
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.001
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.001
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.002
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.002
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.002
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.002
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	0.002
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	0.002
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	0.002
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	0.002
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	0.002
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	0.002
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.002
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.002
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.002
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	0.002
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	0.002
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.002
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.002
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.002
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.002
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	0.002
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.002
PTZ00399	651	PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Pro	0.002
pfam08555	90	pfam08555, DUF1754, Eukaryotic family of unknown f	0.002
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	0.002
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.002
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.002
cd09270	211	cd09270, RNase_H2-B, Ribonuclease H2-B is a subuni	0.002
pfam09756	189	pfam09756, DDRGK, DDRGK domain	0.002
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	0.002
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	0.002
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	0.002
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.002
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	0.002
pfam08079	71	pfam08079, Ribosomal_L30_N, Ribosomal L30 N-termin	0.002
pfam11947	149	pfam11947, DUF3464, Protein of unknown function (D	0.002
pfam03998	239	pfam03998, Utp11, Utp11 protein	0.002
pfam06375	561	pfam06375, BLVR, Bovine leukaemia virus receptor (	0.002
pfam05501	122	pfam05501, DUF755, Domain of unknown function (DUF	0.002
PLN02381	1066	PLN02381, PLN02381, valyl-tRNA synthetase	0.002
smart00435	391	smart00435, TOPEUc, DNA Topoisomerase I (eukaryota	0.002
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	0.003
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	0.003
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	0.003
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.003
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.003
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.003
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.003
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.003
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.003
PTZ00069	300	PTZ00069, PTZ00069, 60S ribosomal protein L5; Prov	0.003
pfam00183	529	pfam00183, HSP90, Hsp90 protein	0.003
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.003
pfam07741	95	pfam07741, BRF1, Brf1-like TBP-binding domain	0.003
pfam09831	177	pfam09831, DUF2058, Uncharacterized protein conser	0.003
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	0.003
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.003
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.003
pfam06375	561	pfam06375, BLVR, Bovine leukaemia virus receptor (	0.003
smart00435	391	smart00435, TOPEUc, DNA Topoisomerase I (eukaryota	0.003
cd12951	129	cd12951, RRP7_Rrp7A, RRP7 domain ribosomal RNA-pro	0.003
pfam08576	98	pfam08576, DUF1764, Eukaryotic protein of unknown	0.003
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	0.004
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	0.004
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	0.004
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.004
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	0.004
PRK06319	860	PRK06319, PRK06319, DNA topoisomerase I/SWI domain	0.004
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.004
pfam00183	529	pfam00183, HSP90, Hsp90 protein	0.004
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.004
pfam09736	141	pfam09736, Bud13, Pre-mRNA-splicing factor of RES	0.004
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.004
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	0.004
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	0.004
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	0.004
pfam06375	561	pfam06375, BLVR, Bovine leukaemia virus receptor (	0.004
pfam08576	98	pfam08576, DUF1764, Eukaryotic protein of unknown	0.004
pfam13166	713	pfam13166, AAA_13, AAA domain	0.004
pfam13166	713	pfam13166, AAA_13, AAA domain	0.004
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	0.004

>gnl|CDD|239111 cd02620, Peptidase_C1A_CathepsinB, Cathepsin B group; composed of cathepsin B and similar proteins, including tubulointerstitial nephritis antigen (TIN-Ag)

 Score =  181 bits (461), Expect = 8e-56
 Identities = 75/151 (49%), Positives = 87/151 (57%), Gaps = 15/151 (9%)

Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P +FDAREKWP C S+  I DQ NCGSCWA S   A SDRLCI SNG     +SAQ +++
Sbjct: 1   PESFDAREKWPNCISIGEIRDQGNCGSCWAFSAVEAFSDRLCIQSNGKENVLLSAQDLLS 60

Query: 248 CTPNC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLL 306
           C   C  GCNGG+P  AW++    GVVTG       GCQPYT+ PC HH +GP   C   
Sbjct: 61  CCSGCGDGCNGGYPDAAWKYLTTTGVVTG-------GCQPYTIPPCGHHPEGPPPCCG-- 111

Query: 307 GKLKTPECKQNCYNPSYESTYRFDLKKGKKA 337
               TP C   C +   E TY  D  KGK A
Sbjct: 112 ----TPYCTPKCQDG-CEKTYEEDKHKGKSA 137

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 antibody-mediated interstitial nephritis. It plays a role in renal tubulogenesis and is defective in hereditary tubulointerstitial disorders. TIN-Ag is exclusively expressed in kidney tissues. . Length = 236

>gnl|CDD|239111 cd02620, Peptidase_C1A_CathepsinB, Cathepsin B group; composed of cathepsin B and similar proteins, including tubulointerstitial nephritis antigen (TIN-Ag)

 Score =  156 bits (397), Expect = 3e-46
 Identities = 50/83 (60%), Positives = 63/83 (75%)

Query: 77  MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANS 136
           M++I  +GP+ A F+VY DFL YKSGVYQH  G  +G HAV+++GWGVEN +PYWL ANS
Sbjct: 148 MKEIMTNGPVQAAFTVYEDFLYYKSGVYQHTSGKQLGGHAVKIIGWGVENGVPYWLAANS 207

Query: 137 WNDHWGDHGTFKILRGENEADIE 159
           W   WG++G F+ILRG NE  IE
Sbjct: 208 WGTDWGENGYFRILRGSNECGIE 230

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 antibody-mediated interstitial nephritis. It plays a role in renal tubulogenesis and is defective in hereditary tubulointerstitial disorders. TIN-Ag is exclusively expressed in kidney tissues. . Length = 236

>gnl|CDD|215726 pfam00112, Peptidase_C1, Papain family cysteine protease

 Score =  112 bits (283), Expect = 1e-29
 Identities = 36/85 (42%), Positives = 49/85 (57%), Gaps = 1/85 (1%)

Query: 77  MRQIYEHGPLVAIFSVYADFLQ-YKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVAN 135
              + ++GP+      Y D  Q YKSGVY+H        HAV ++G+G EN +PYW+V N
Sbjct: 123 QAALAKNGPVSVAIDAYEDDFQLYKSGVYKHTECSGELDHAVLIVGYGTENGVPYWIVKN 182

Query: 136 SWNDHWGDHGTFKILRGENEADIEM 160
           SW   WG++G F+I RG NE  I  
Sbjct: 183 SWGTDWGENGYFRIARGVNECGIAS 207

Length = 213

>gnl|CDD|214761 smart00645, Pept_C1, Papain family cysteine protease

 Score =  104 bits (261), Expect = 6e-27
 Identities = 38/105 (36%), Positives = 51/105 (48%), Gaps = 13/105 (12%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FD R+K    P    + DQ  CGSCWA S   A+  R CI +    +  +S Q +V
Sbjct: 1   LPESFDWRKKGAVTP----VKDQGQCGSCWAFSATGALEGRYCIKTGKLVS--LSEQQLV 54

Query: 247 ACTPNCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLA 290
            C+     GCNGG P  A+ +   NG +        E C PYT +
Sbjct: 55  DCSGGGNCGCNGGLPDNAFEYIKKNGGLET------ESCYPYTGS 93

Length = 175

>gnl|CDD|215726 pfam00112, Peptidase_C1, Papain family cysteine protease

 Score =  104 bits (261), Expect = 1e-26
 Identities = 41/106 (38%), Positives = 53/106 (50%), Gaps = 20/106 (18%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQ---ISAQ 243
           LP +FD REK     ++  + DQ  CGSCWA S   A+  R CI      TG+   +S Q
Sbjct: 1   LPESFDWREKG----AVTPVKDQGQCGSCWAFSAVGALEGRYCIK-----TGKLVSLSEQ 51

Query: 244 HIVACTPNCWGCNGGWPQLAWRFW-GHNGVVTGGDYNSQEGCQPYT 288
            +V C     GCNGG P  A+ +   + G+VT  DY       PYT
Sbjct: 52  QLVDCDTGNNGCNGGLPDNAFEYIKKNGGIVTESDY-------PYT 90

Length = 213

>gnl|CDD|214761 smart00645, Pept_C1, Papain family cysteine protease

 Score = 90.3 bits (225), Expect = 8e-22
 Identities = 39/98 (39%), Positives = 53/98 (54%), Gaps = 13/98 (13%)

Query: 75  NAMRQIYEHGPLV---------AIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGV 124
           NA   I ++G L          ++    +DF  YKSG+Y H    S  L HAV ++G+G 
Sbjct: 71  NAFEYIKKNGGLETESCYPYTGSVAIDASDFQFYKSGIYDHPGCGSGTLDHAVLIVGYGT 130

Query: 125 --ENDIPYWLVANSWNDHWGDHGTFKILRGE-NEADIE 159
             EN   YW+V NSW   WG++G F+I RG+ NE  IE
Sbjct: 131 EVENGKDYWIVKNSWGTDWGENGYFRIARGKNNECGIE 168

Length = 175

>gnl|CDD|239068 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)

 Score = 91.1 bits (227), Expect = 1e-21
 Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 1/76 (1%)

Query: 80  IYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVANSWN 138
           +  +GP+       + F  YK G+Y      +  L HAV ++G+G EN + YW+V NSW 
Sbjct: 124 LANYGPVSVAIDASSSFQFYKGGIYSGPCCSNTNLNHAVLLVGYGTENGVDYWIVKNSWG 183

Query: 139 DHWGDHGTFKILRGEN 154
             WG+ G  +I RG N
Sbjct: 184 TSWGEKGYIRIARGSN 199

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 hatch or to evade the host immune system. Mammalian CPs are primarily lysosomal enzymes with the exception of cathepsin W, which is retained in the endoplasmic reticulum. They are 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. In addition to its inhibitory role, the propeptide is required for proper folding of the newly synthesized enzyme and its stabilization in denaturing pH conditions. Residues within the propeptide region also play a role in the transport of the proenzyme to lysosomes or acidified vesicles. Also included in this subfamily are proteins classified as non-peptidase homologs, which lack peptidase activity or have missing active site residues. Length = 210

>gnl|CDD|239112 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

 Score = 91.3 bits (227), Expect = 2e-21
 Identities = 41/98 (41%), Positives = 51/98 (52%), Gaps = 15/98 (15%)

Query: 77  MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGL-------------HAVRVLGWG 123
             +IY +GP+V  F VY+DF  YK GVY H   D +               HAV ++GWG
Sbjct: 137 KWEIYRNGPIVVAFEVYSDFDFYKEGVYHHTDNDEVSDGDNDNFNPFELTNHAVLLVGWG 196

Query: 124 VE--NDIPYWLVANSWNDHWGDHGTFKILRGENEADIE 159
            +      YW+V NSW   WG+ G FKI RG NE  IE
Sbjct: 197 EDEIKGEKYWIVKNSWGSSWGEKGYFKIRRGTNECGIE 234

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 associated with Papillon-Lefevre and Haim-Munk syndromes, rare diseases characterized by hyperkeratosis and early-onset periodontitis. Cathepsin C is widely expressed in many tissues with high levels in lung, kidney and placenta. It is also highly expressed in cytotoxic lymphocytes and mature myeloid cells. Length = 243

>gnl|CDD|239068 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)

 Score = 76.9 bits (190), Expect = 2e-16
 Identities = 34/102 (33%), Positives = 49/102 (48%), Gaps = 14/102 (13%)

Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P + D REK    P    + DQ +CGSCWA S   A+     I +    +  +S Q +V 
Sbjct: 1   PESVDWREKGAVTP----VKDQGSCGSCWAFSTVGALEGAYAIKTGKLVS--LSEQQLVD 54

Query: 248 CTPN-CWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYT 288
           C+ +   GCNGG P  A+ +  + G+ +  DY       PYT
Sbjct: 55  CSTSGNNGCNGGNPDNAFEYVKNGGLASESDY-------PYT 89

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 hatch or to evade the host immune system. Mammalian CPs are primarily lysosomal enzymes with the exception of cathepsin W, which is retained in the endoplasmic reticulum. They are 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. In addition to its inhibitory role, the propeptide is required for proper folding of the newly synthesized enzyme and its stabilization in denaturing pH conditions. Residues within the propeptide region also play a role in the transport of the proenzyme to lysosomes or acidified vesicles. Also included in this subfamily are proteins classified as non-peptidase homologs, which lack peptidase activity or have missing active site residues. Length = 210

>gnl|CDD|239149 cd02698, Peptidase_C1A_CathepsinX, Cathepsin X; the only papain-like lysosomal cysteine peptidase exhibiting carboxymonopeptidase activity

 Score = 69.0 bits (169), Expect = 1e-13
 Identities = 27/77 (35%), Positives = 40/77 (51%), Gaps = 1/77 (1%)

Query: 77  MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEND-IPYWLVAN 135
           M +IY  GP+            Y  GVY+    D +  H + V GWGV+ + + YW+V N
Sbjct: 142 MAEIYARGPISCGIMATEALENYTGGVYKEYVQDPLINHIISVAGWGVDENGVEYWIVRN 201

Query: 136 SWNDHWGDHGTFKILRG 152
           SW + WG+ G F+I+  
Sbjct: 202 SWGEPWGERGWFRIVTS 218

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. Length = 239

>gnl|CDD|240244 PTZ00049, PTZ00049, cathepsin C-like protein; Provisional

 Score = 70.8 bits (173), Expect = 2e-13
 Identities = 40/109 (36%), Positives = 54/109 (49%), Gaps = 27/109 (24%)

Query: 77  MRQIYEHGPLVAIFSVYADFLQYKSGVY----------------QHNFGDSIG-----LH 115
           M +IY +GP+VA F    DF  Y  GVY                +HN   +I       H
Sbjct: 561 MNEIYRNGPIVASFEASPDFYDYADGVYYVEDFPHARRCTVDLPKHNGVYNITGWEKVNH 620

Query: 116 AVRVLGWGVENDI-----PYWLVANSWNDHWGDHGTFKILRGENEADIE 159
           A+ ++GWG E +I      YW+  NSW  +WG  G FKI+RG+N + IE
Sbjct: 621 AIVLVGWG-EEEINGKLYKYWIGRNSWGKNWGKEGYFKIIRGKNFSGIE 668

Length = 693

>gnl|CDD|239112 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

 Score = 63.9 bits (156), Expect = 8e-12
 Identities = 34/106 (32%), Positives = 53/106 (50%), Gaps = 11/106 (10%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGY----FTGQISA 242
           LP++FD  +       +  + +Q  CGSC+A +   A+  R+ IASN          +S 
Sbjct: 1   LPKSFDWGDVNNGFNYVSPVRNQGGCGSCYAFASVYALEARIMIASNKTDPLGQQPILSP 60

Query: 243 QHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYT 288
           QH+++C+    GC+GG+P L  +F    G+VT       E   PYT
Sbjct: 61  QHVLSCSQYSQGCDGGFPFLVGKFAEDFGIVT-------EDYFPYT 99

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 associated with Papillon-Lefevre and Haim-Munk syndromes, rare diseases characterized by hyperkeratosis and early-onset periodontitis. Cathepsin C is widely expressed in many tissues with high levels in lung, kidney and placenta. It is also highly expressed in cytotoxic lymphocytes and mature myeloid cells. Length = 243

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 60.5 bits (147), Expect = 6e-11
 Identities = 28/44 (63%), Positives = 36/44 (81%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           + ++KK+KKKKKE KK+KK+KK KKE+  + K  KKKKKKKKKK
Sbjct: 150 EEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 62.7 bits (153), Expect = 7e-11
 Identities = 22/49 (44%), Positives = 29/49 (59%), Gaps = 2/49 (4%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK--KR 52
           R KTK   +KK  K  KK   K+ +KKE+EK+K K KK+ +  K   KR
Sbjct: 377 RPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKR 425

Length = 434

>gnl|CDD|239110 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)

 Score = 60.2 bits (146), Expect = 1e-10
 Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 8/78 (10%)

Query: 80  IYEHGPLVAIFSVYADFLQYKSG------VYQHNFGDSIGLHAVRVLGWGVEN--DIPYW 131
           + + GP+VA F VY+ F + K G      VY       +G HAV ++G+          +
Sbjct: 132 LAKGGPVVAGFDVYSGFDRLKEGIIYEEIVYLLYEDGDLGGHAVVIVGYDDNYVEGKGAF 191

Query: 132 LVANSWNDHWGDHGTFKI 149
           +V NSW   WGD+G  +I
Sbjct: 192 IVKNSWGTDWGDNGYGRI 209

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 structure with the active sites imbedded in the central channel. Some members of the C1 family are proteins classified as non-peptidase homologs which lack peptidase activity or have missing active site residues. Length = 223

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 55.9 bits (135), Expect = 2e-09
 Identities = 25/45 (55%), Positives = 36/45 (80%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             +++KK+KKKK+E KK+KK+KK K+E+  + K  KKKKKKKKK+
Sbjct: 149 VEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 57.6 bits (140), Expect = 3e-09
 Identities = 15/45 (33%), Positives = 25/45 (55%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           KT K  KK   K  +KK+K+K+K K +++ +  K   K++K    
Sbjct: 387 KTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGT 431

Length = 434

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 57.6 bits (140), Expect = 3e-09
 Identities = 14/47 (29%), Positives = 24/47 (51%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           E +     KK   K+ E+K+K+K+K K K+  +  K   K++K    
Sbjct: 385 EKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGT 431

Length = 434

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 56.9 bits (138), Expect = 6e-09
 Identities = 14/47 (29%), Positives = 24/47 (51%)

Query: 5   GRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            +   K  KK   K+ EKK+K+K+K K ++  +  K   K++K    
Sbjct: 385 EKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGT 431

Length = 434

>gnl|CDD|185513 PTZ00203, PTZ00203, cathepsin L protease; Provisional

 Score = 56.2 bits (135), Expect = 8e-09
 Identities = 23/74 (31%), Positives = 43/74 (58%), Gaps = 2/74 (2%)

Query: 82  EHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHW 141
           ++GP ++I    + F+ Y SGV     G+ +  H V ++G+ +  ++PYW++ NSW + W
Sbjct: 257 KNGP-ISIAVDASSFMSYHSGVLTSCIGEQLN-HGVLLVGYNMTGEVPYWVIKNSWGEDW 314

Query: 142 GDHGTFKILRGENE 155
           G+ G  ++  G N 
Sbjct: 315 GEKGYVRVTMGVNA 328

Length = 348

>gnl|CDD|240381 PTZ00364, PTZ00364, dipeptidyl-peptidase I precursor; Provisional

 Score = 55.3 bits (133), Expect = 2e-08
 Identities = 35/110 (31%), Positives = 45/110 (40%), Gaps = 32/110 (29%)

Query: 77  MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGL---------------------- 114
           + +IY HGP+ A  SVYA+   Y       N  + +                        
Sbjct: 347 IWEIYRHGPVPA--SVYANSDWYNC---DENSTEDVRYVSLDDYSTASADRPLRHYFASN 401

Query: 115 --HAVRVLGWGV-ENDIPYWLVANSWNDH--WGDHGTFKILRGENEADIE 159
             H V ++GWG  EN   YWLV + W     W D GT KI RG N  +IE
Sbjct: 402 VNHTVLIIGWGTDENGGDYWLVLDPWGSRRSWCDGGTRKIARGVNAYNIE 451

Length = 548

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 51.4 bits (124), Expect = 5e-08
 Identities = 17/36 (47%), Positives = 25/36 (69%)

Query: 19  KEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
           K+E K  +K +KK E+ K K +KKK KK++ K RL+
Sbjct: 65  KKELKAWEKAEKKAEKAKAKAEKKKAKKEEPKPRLF 100

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|240310 PTZ00200, PTZ00200, cysteine proteinase; Provisional

 Score = 53.5 bits (129), Expect = 5e-08
 Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 3/70 (4%)

Query: 84  GPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIP--YWLVANSWNDHW 141
            P V   +V  + L+YKSGVY    G S+  HAV ++G G +      YW++ NSW   W
Sbjct: 358 SPTVVYIAVSRELLKYKSGVYNGECGKSLN-HAVLLVGEGYDEKTKKRYWIIKNSWGTDW 416

Query: 142 GDHGTFKILR 151
           G++G  ++ R
Sbjct: 417 GENGYMRLER 426

Length = 448

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 53.4 bits (129), Expect = 7e-08
 Identities = 25/42 (59%), Positives = 31/42 (73%), Gaps = 3/42 (7%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKK 49
           K K  K  KKK+EEKK +K+KKKKK   +KKK KK+KKK +K
Sbjct: 376 KEKYPKPPKKKREEKKPQKRKKKKK---RKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|239110 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)

 Score = 52.1 bits (125), Expect = 8e-08
 Identities = 20/82 (24%), Positives = 29/82 (35%), Gaps = 6/82 (7%)

Query: 208 DQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV-----ACTPNCWGCNGGWPQL 262
           +Q + GSCWA + A A+     I         +S Q++       C      C+GG P  
Sbjct: 14  NQGSRGSCWAFASAYALESAYRIKGGEDEYVDLSPQYLYICANDECLGINGSCDGGGPLS 73

Query: 263 AWR-FWGHNGVVTGGDYNSQEG 283
           A        G+    DY     
Sbjct: 74  ALLKLVALKGIPPEEDYPYGAE 95

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 structure with the active sites imbedded in the central channel. Some members of the C1 family are proteins classified as non-peptidase homologs which lack peptidase activity or have missing active site residues. Length = 223

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 50.0 bits (120), Expect = 9e-08
 Identities = 17/48 (35%), Positives = 33/48 (68%), Gaps = 2/48 (4%)

Query: 6   RLKTKKKKKKK--KKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           R K KKKK+K+  KK+    + ++++ K+  EK+K+ +K ++KK K++
Sbjct: 77  REKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRR 124

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|239149 cd02698, Peptidase_C1A_CathepsinX, Cathepsin X; the only papain-like lysosomal cysteine peptidase exhibiting carboxymonopeptidase activity

 Score = 51.3 bits (123), Expect = 1e-07
 Identities = 27/98 (27%), Positives = 43/98 (43%), Gaps = 9/98 (9%)

Query: 212 CGSCWAVSVANAISDRLCIASNGYF-TGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHN 270
           CGSCWA    +A++DR+ IA  G + +  +S Q ++ C      C+GG P   + +   +
Sbjct: 28  CGSCWAHGSTSALADRINIARKGAWPSVYLSVQVVIDCA-GGGSCHGGDPGGVYEYAHKH 86

Query: 271 GVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGK 308
           G+         E C PY     E +       C   G+
Sbjct: 87  GIP-------DETCNPYQAKDGECNPFNRCGTCNPFGE 117

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. Length = 239

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 52.7 bits (127), Expect = 1e-07
 Identities = 20/39 (51%), Positives = 31/39 (79%)

Query: 14  KKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K+K  K  KKK+++KK +K ++KKK+KKK KK+KKK ++
Sbjct: 376 KEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 49.6 bits (119), Expect = 1e-07
 Identities = 15/45 (33%), Positives = 30/45 (66%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + KKK+K+  KK     + ++++ KE  +K+K+ +K ++KK K+R
Sbjct: 80  EKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRR 124

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 52.6 bits (127), Expect = 1e-07
 Identities = 20/49 (40%), Positives = 36/49 (73%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           L G  K  KK KK  +K EKK++++KK+KK++    KKK+++++++K+K
Sbjct: 402 LTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEK 450

Length = 482

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 51.5 bits (124), Expect = 2e-07
 Identities = 23/43 (53%), Positives = 33/43 (76%), Gaps = 2/43 (4%)

Query: 12  KKKKKKKKEEKKKK--KKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K++  K+ EE K+K  K  KKK+EE+K +K+KKKKK+KKK K+
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKK 407

Length = 414

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 51.5 bits (124), Expect = 3e-07
 Identities = 22/42 (52%), Positives = 31/42 (73%)

Query: 11  KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K++  K+ +E K+K  K  KKK EEKK +K+KKKKK+KKK +
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGK 406

Length = 414

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 51.5 bits (124), Expect = 3e-07
 Identities = 19/44 (43%), Positives = 35/44 (79%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            TKK KK  +K E+K++++KK+KKK+    KKK+++++++K+KK
Sbjct: 408 ATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKK 451

Length = 482

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 50.5 bits (121), Expect = 3e-07
 Identities = 20/55 (36%), Positives = 29/55 (52%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPT 57
           L+   + KKKK+ K K  ++  KKKKKK     K  K    + KKK ++  + PT
Sbjct: 78  LQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAPT 132

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 49.3 bits (118), Expect = 4e-07
 Identities = 24/60 (40%), Positives = 35/60 (58%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLS 62
            E + K K KKKK KKK++K K KK  KK ++ +KK +K+ + K +   + Y  T   LS
Sbjct: 78  YEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLEDLTKSYSETLSTLS 137

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 50.3 bits (121), Expect = 7e-07
 Identities = 19/45 (42%), Positives = 37/45 (82%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             K +KK++++K+EKKKK    KKKEEE++++K+KK+++K++++ 
Sbjct: 416 VEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEE 460

Length = 482

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 47.3 bits (113), Expect = 8e-07
 Identities = 13/47 (27%), Positives = 32/47 (68%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           E   K K+K+  KK++   + ++++ K++ E++K+ +K ++KK K++
Sbjct: 78  EKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRR 124

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 50.3 bits (121), Expect = 8e-07
 Identities = 16/44 (36%), Positives = 37/44 (84%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K  +K +KK+++E+K+KKKK    K++E++++++K+KK+++K++
Sbjct: 414 KIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEE 457

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 49.9 bits (120), Expect = 8e-07
 Identities = 15/45 (33%), Positives = 32/45 (71%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             K  KK KK  E+ +KK++++KK++++K    KKK+++++++K 
Sbjct: 405 SKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKE 449

Length = 482

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 48.2 bits (115), Expect = 9e-07
 Identities = 21/50 (42%), Positives = 35/50 (70%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           S     +T  K +K+ + EE++KK+KKKKK+ +++KK+KK KK+K  + K
Sbjct: 132 SETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPK 181

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 49.2 bits (118), Expect = 1e-06
 Identities = 21/43 (48%), Positives = 33/43 (76%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K+ ++ K+K  +  KKK+++KK ++ KKKKK+KKK KK+KKK 
Sbjct: 370 KRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKG 412

Length = 414

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 49.9 bits (120), Expect = 1e-06
 Identities = 18/45 (40%), Positives = 36/45 (80%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K KK  +K +KK E++KK+KKKK    +KK+++++++K+KK++++
Sbjct: 411 KIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEK 455

Length = 482

>gnl|CDD|240232 PTZ00021, PTZ00021, falcipain-2; Provisional

 Score = 49.8 bits (119), Expect = 1e-06
 Identities = 25/75 (33%), Positives = 34/75 (45%), Gaps = 3/75 (4%)

Query: 190 NFD-AREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVAC 248
            FD A+  W     +  + DQ NCGSCWA S    +  +  I  N   +  +S Q +V C
Sbjct: 264 TFDHAKYDWRLHNGVTPVKDQKNCGSCWAFSTVGVVESQYAIRKNELVS--LSEQELVDC 321

Query: 249 TPNCWGCNGGWPQLA 263
           +    GC GG    A
Sbjct: 322 SFKNNGCYGGLIPNA 336

Length = 489

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 49.5 bits (119), Expect = 1e-06
 Identities = 15/42 (35%), Positives = 26/42 (61%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +KK +KK++K EKK +K++ +K   +KK +   KK K    +
Sbjct: 411 RKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGE 452

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|185513 PTZ00203, PTZ00203, cathepsin L protease; Provisional

 Score = 48.9 bits (116), Expect = 2e-06
 Identities = 33/104 (31%), Positives = 41/104 (39%), Gaps = 16/104 (15%)

Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P   D REK    P    + +Q  CGSCWA S    I  +  +A +      +S Q +V+
Sbjct: 127 PDAVDWREKGAVTP----VKNQGACGSCWAFSAVGNIESQWAVAGHKLVR--LSEQQLVS 180

Query: 248 CTPNCWGCNGGWPQLA--WRFWGHNGVV-TGGDYNSQEGCQPYT 288
           C     GC GG    A  W     NG V T   Y       PY 
Sbjct: 181 CDHVDNGCGGGLMLQAFEWVLRNMNGTVFTEKSY-------PYV 217

Length = 348

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 49.1 bits (118), Expect = 2e-06
 Identities = 16/45 (35%), Positives = 37/45 (82%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +K   +K +KK++EEKK+KKKK    ++++++++++K+KK+++K+
Sbjct: 412 IKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKE 456

Length = 482

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 47.0 bits (112), Expect = 2e-06
 Identities = 19/51 (37%), Positives = 31/51 (60%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            ++   + K+K K KKKK +KKK K K KK +++  K +KK +K+ + K  
Sbjct: 73  KVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLE 123

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 48.4 bits (116), Expect = 2e-06
 Identities = 14/45 (31%), Positives = 33/45 (73%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +  +K  K +++EE+K  K  +++++EE ++KK++KKK++++ K 
Sbjct: 256 EVLRKVDKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKL 300

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 45.7 bits (109), Expect = 2e-06
 Identities = 13/47 (27%), Positives = 28/47 (59%)

Query: 6  RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +  +K K +KK++E+K + +K  K   EEK + + +K +K+ ++  
Sbjct: 16 AIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELE 62

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|240244 PTZ00049, PTZ00049, cathepsin C-like protein; Provisional

 Score = 48.8 bits (116), Expect = 3e-06
 Identities = 36/153 (23%), Positives = 58/153 (37%), Gaps = 21/153 (13%)

Query: 144 HGTFKILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSL 203
           +  F      ++A  EM   N  +   +   +LE         LP+NF   + +      
Sbjct: 344 NTNFLAHVHGSDATNEMDLENYEDTEKAPHRELE------IDELPKNFTWGDPFNNNTRE 397

Query: 204 RHIADQSNCGSCWAVSVANAISDRLCIASN--------GYFTGQISAQHIVACTPNCWGC 255
             + +Q  CGSC+  S   A   R+ IA            F   +S Q +++C+    GC
Sbjct: 398 YDVTNQLLCGSCYIASQMYAFKRRIEIALTKNLDKKYLNNFDDLLSIQTVLSCSFYDQGC 457

Query: 256 NGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYT 288
           NGG+P L  +     G+         +   PYT
Sbjct: 458 NGGFPYLVSKMAKLQGI-------PLDKVFPYT 483

Length = 693

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 46.6 bits (111), Expect = 3e-06
 Identities = 18/51 (35%), Positives = 36/51 (70%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            L    +T +K+   K ++E + ++++KK+K+++K+ KK+KK+KK KK+K 
Sbjct: 127 ELGSESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKM 177

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 48.4 bits (116), Expect = 3e-06
 Identities = 18/49 (36%), Positives = 41/49 (83%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           ++  ++  +KK++++KKE+KKK    KKK+EEE+++K+KK+++K+++++
Sbjct: 412 IKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEE 460

Length = 482

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 48.3 bits (115), Expect = 3e-06
 Identities = 20/49 (40%), Positives = 37/49 (75%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           E   + ++ K++KKKK+EK K++ K +K +EE K+K+  K+K+K+K+K+
Sbjct: 105 EEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKK 153

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 46.4 bits (110), Expect = 3e-06
 Identities = 26/58 (44%), Positives = 34/58 (58%), Gaps = 12/58 (20%)

Query: 7   LKTKKKKKKKKKKE------------EKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            K K K KK + ++             K  +KK KKKK E+ K++KKKKK+KKKKKKR
Sbjct: 111 KKHKHKHKKHRTQDPLPEETPSDSEGLKGHEKKHKKKKHEDDKERKKKKKEKKKKKKR 168

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 48.0 bits (115), Expect = 4e-06
 Identities = 18/44 (40%), Positives = 38/44 (86%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K     KKK+++EE++K+KK+++K+EEE++ +++K+++++KKKK
Sbjct: 432 KKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKKK 475

Length = 482

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 48.0 bits (115), Expect = 4e-06
 Identities = 19/51 (37%), Positives = 29/51 (56%)

Query: 1   MSLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +S   R K +KK++K +KK EK++ +K   KK+ E   KK K    + KK 
Sbjct: 406 LSPAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKKV 456

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 47.0 bits (112), Expect = 4e-06
 Identities = 16/42 (38%), Positives = 28/42 (66%)

Query: 10 KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
          ++K+++K K   K K KK  K K EEK+K K++K++K  ++ 
Sbjct: 43 EEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLREL 84

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 47.6 bits (113), Expect = 5e-06
 Identities = 17/45 (37%), Positives = 34/45 (75%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             ++KKKKK+K +E+ K +K K++ +E++  K+K+K+K+KK ++ 
Sbjct: 113 VKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEP 157

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 47.6 bits (113), Expect = 5e-06
 Identities = 18/49 (36%), Positives = 36/49 (73%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +     +++K+K++ KEEKKKKK+K K++ +++K K++ K+K+  K+K 
Sbjct: 99  KNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKE 147

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 47.6 bits (113), Expect = 5e-06
 Identities = 22/45 (48%), Positives = 34/45 (75%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K +KKKKK+K KEE K +K K++ KE+   K+K+K+K+KK ++ R
Sbjct: 114 KEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPR 158

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 45.4 bits (108), Expect = 5e-06
 Identities = 22/40 (55%), Positives = 33/40 (82%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKK 49
           +K+++KK+K EEK  KK+ K++K+++KKKKKKK KK  KK
Sbjct: 70  QKREEKKRKDEEKTAKKRAKRQKKKQKKKKKKKAKKGNKK 109

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 47.2 bits (113), Expect = 6e-06
 Identities = 17/46 (36%), Positives = 39/46 (84%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
             K +KK++++KK+++KK    KKK++EEE++K+KK+++K++++++
Sbjct: 416 VEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEE 461

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 47.2 bits (113), Expect = 6e-06
 Identities = 20/40 (50%), Positives = 27/40 (67%)

Query: 13  KKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             KK  K+ KK  +K +KK+EEEKK+KKKK    KKK++ 
Sbjct: 404 GSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEE 443

Length = 482

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 46.9 bits (112), Expect = 6e-06
 Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 8/54 (14%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKK--------KKKKKKKKKKKKKR 52
            +   K  +++++EE ++KK++KKK+E E K         +K ++K++KK+ ++
Sbjct: 269 EEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 47.2 bits (112), Expect = 6e-06
 Identities = 18/44 (40%), Positives = 34/44 (77%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            K +  K+++KE+++ K++KKKKKE+ K++ K +K K++ K+KR
Sbjct: 98  PKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKR 141

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 47.4 bits (113), Expect = 6e-06
 Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 2/77 (2%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYF-- 65
           K      KK KKE+K  + KKK +K+++KKK+KK+ K + + K     P     +     
Sbjct: 48  KVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEPKSEGETKLGFKTPKKSKKTKKKPP 107

Query: 66  KKAHMVPRCNAMRQIYE 82
           K        NA  +I E
Sbjct: 108 KPKPNEDVDNAFNKIAE 124

Length = 413

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 45.5 bits (108), Expect = 7e-06
 Identities = 20/60 (33%), Positives = 29/60 (48%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSH 63
           +     KKK KKKK K++ KK  KK  K E++ +K+ + K +   K     L T   L  
Sbjct: 82  QKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLEDLTKSYSETLSTLSELKP 141

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 47.2 bits (112), Expect = 7e-06
 Identities = 22/45 (48%), Positives = 35/45 (77%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K + K++KKKKKE+ K++ K +K KEE K+K+  K+K+K+K+KK 
Sbjct: 110 KEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKV 154

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 46.2 bits (110), Expect = 7e-06
 Identities = 14/44 (31%), Positives = 28/44 (63%)

Query: 10 KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
           ++K+++K K   K K KK  K + E+K+K K++K++K  ++  
Sbjct: 42 DEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLRELE 85

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 45.0 bits (107), Expect = 7e-06
 Identities = 21/43 (48%), Positives = 34/43 (79%), Gaps = 3/43 (6%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           ++K+++KK+K+E+K  KK+ K+   +KKK+KKKKKKK KK  +
Sbjct: 69  QQKREEKKRKDEEKTAKKRAKR---QKKKQKKKKKKKAKKGNK 108

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|221028 pfam11208, DUF2992, Protein of unknown function (DUF2992)

 Score = 44.5 bits (106), Expect = 7e-06
 Identities = 17/39 (43%), Positives = 32/39 (82%)

Query: 12  KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           K + ++ K+EKKK+ K+KK++E+E+K++ K++KKK K +
Sbjct: 92  KLEHERNKQEKKKRSKEKKEEEKERKRQLKQQKKKAKHR 130

This bacterial family of proteins has no known function. However, the cis-regulatory yjdF motif, just upstream from the gene encoding the proteins for this family, is a small non-coding RNA, Rfam:RF01764. The yjdF motif is found in many Firmicutes, including Bacillus subtilis. In most cases, it resides in potential 5' UTRs of homologues of the yjdF gene whose function is unknown. However, in Streptococcus thermophilus, a yjdF RNA motif is associated with an operon whose protein products synthesise nicotinamide adenine dinucleotide (NAD+). Also, the S. thermophilus yjdF RNA lacks typical yjdF motif consensus features downstream of and including the P4 stem. Thus, if yjdF RNAs are riboswitch aptamers, the S. thermophilus RNAs might sense a distinct compound that structurally resembles the ligand bound by other yjdF RNAs. On the ohter hand, perhaps these RNAs have an alternative solution forming a similar binding site, as is observed with some SAM riboswitches. Length = 132

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 44.8 bits (107), Expect = 9e-06
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 8  KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKK 40
          K  K  +K +KK EK K K +KKK ++E+ K +
Sbjct: 66 KELKAWEKAEKKAEKAKAKAEKKKAKKEEPKPR 98

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 46.8 bits (112), Expect = 9e-06
 Identities = 17/48 (35%), Positives = 40/48 (83%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           E + K KK    KKK+EE++++K+KK++++EE++++ +++K+++++KK
Sbjct: 426 EKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKK 473

Length = 482

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 46.8 bits (112), Expect = 9e-06
 Identities = 15/40 (37%), Positives = 25/40 (62%)

Query: 13  KKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             ++KK  +K++K +KK +KEE +K   KKK +   KK +
Sbjct: 408 PAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAK 447

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|240381 PTZ00364, PTZ00364, dipeptidyl-peptidase I precursor; Provisional

 Score = 46.4 bits (110), Expect = 1e-05
 Identities = 25/102 (24%), Positives = 42/102 (41%), Gaps = 14/102 (13%)

Query: 187 LPRNFDAREK-----WPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASN-----GYF 236
            P  +   +       P  P          C S +  +   A+  R+ +ASN     G  
Sbjct: 205 PPAAWSWGDVGGASFLPAAPPASP---GRGCNSSYVEAALAAMMARVMVASNRTDPLGQQ 261

Query: 237 TGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDY 278
           T  +SA+H++ C+    GC GG+P+   +F    G++T   Y
Sbjct: 262 T-FLSARHVLDCSQYGQGCAGGFPEEVGKFAETFGILTTDSY 302

Length = 548

>gnl|CDD|240310 PTZ00200, PTZ00200, cysteine proteinase; Provisional

 Score = 46.2 bits (110), Expect = 1e-05
 Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 10/93 (10%)

Query: 197 WPECPSLRHIADQS-NCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGC 255
           W    ++  + DQ  NCGSCWA S   ++     I  +   +  +S Q +V C     GC
Sbjct: 240 WRRADAVTKVKDQGLNCGSCWAFSSVGSVESLYKIYRDK--SVDLSEQELVNCDTKSQGC 297

Query: 256 NGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYT 288
           +GG+P  A  +  + G+ +  D        PY 
Sbjct: 298 SGGYPDTALEYVKNKGLSSSSDV-------PYL 323

Length = 448

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 46.5 bits (111), Expect = 1e-05
 Identities = 18/45 (40%), Positives = 39/45 (86%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K K    KKK++EE+++K+KK+++KEEE+++ +++K+++++KKK+
Sbjct: 431 KKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKKK 475

Length = 482

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 46.8 bits (111), Expect = 1e-05
 Identities = 19/49 (38%), Positives = 34/49 (69%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           E   + KKKKK+K K+E K +K K++ K++   K+K+K+K+KK ++ + 
Sbjct: 111 EQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRD 159

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 46.4 bits (110), Expect = 1e-05
 Identities = 18/47 (38%), Positives = 36/47 (76%)

Query: 5   GRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            + + K++KKKKK+K +++ K +K K++ +EK+  K+K+K+K+KK +
Sbjct: 109 EKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVE 155

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|221028 pfam11208, DUF2992, Protein of unknown function (DUF2992)

 Score = 44.2 bits (105), Expect = 1e-05
 Identities = 22/51 (43%), Positives = 36/51 (70%), Gaps = 2/51 (3%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKK--KKKKEEEKKKKKKKKKKKKKKKKR 52
           +  + TK ++  K + E  K++KKK  K+KKEEEK++K++ K++KKK K R
Sbjct: 80  KPGISTKAQQALKLEHERNKQEKKKRSKEKKEEEKERKRQLKQQKKKAKHR 130

This bacterial family of proteins has no known function. However, the cis-regulatory yjdF motif, just upstream from the gene encoding the proteins for this family, is a small non-coding RNA, Rfam:RF01764. The yjdF motif is found in many Firmicutes, including Bacillus subtilis. In most cases, it resides in potential 5' UTRs of homologues of the yjdF gene whose function is unknown. However, in Streptococcus thermophilus, a yjdF RNA motif is associated with an operon whose protein products synthesise nicotinamide adenine dinucleotide (NAD+). Also, the S. thermophilus yjdF RNA lacks typical yjdF motif consensus features downstream of and including the P4 stem. Thus, if yjdF RNAs are riboswitch aptamers, the S. thermophilus RNAs might sense a distinct compound that structurally resembles the ligand bound by other yjdF RNAs. On the ohter hand, perhaps these RNAs have an alternative solution forming a similar binding site, as is observed with some SAM riboswitches. Length = 132

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 45.4 bits (108), Expect = 1e-05
 Identities = 27/53 (50%), Positives = 36/53 (67%), Gaps = 7/53 (13%)

Query: 7   LKTKKKKKKKKKKE-------EKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           LK K+K+KKK KKE        +KKK +++KK+EE  KK+K  KK KKKKK +
Sbjct: 148 LKRKEKQKKKSKKEWKERKEKVEKKKAERQKKREENLKKRKDDKKNKKKKKAK 200

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 46.4 bits (110), Expect = 1e-05
 Identities = 12/46 (26%), Positives = 26/46 (56%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            L+ +   +K  K+ E+  K+ ++K+K+ E+ K K+  + K K + 
Sbjct: 93  ELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEA 138

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 44.4 bits (105), Expect = 1e-05
 Identities = 18/47 (38%), Positives = 30/47 (63%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
           +T+++   + K E K+KKK++  K + EK+K K + KK K  K +LY
Sbjct: 108 ETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKPKPSKPKLY 154

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 46.1 bits (110), Expect = 2e-05
 Identities = 16/44 (36%), Positives = 37/44 (84%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
             KK++++KK+K++K    KKK+++EEE+K+KK+++K++++++ 
Sbjct: 419 AEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEA 462

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 45.7 bits (109), Expect = 2e-05
 Identities = 13/47 (27%), Positives = 39/47 (82%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + + ++KK+KKKK    KKK++++++++E+K+++K++++++ +++K 
Sbjct: 421 KKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKE 467

Length = 482

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 44.3 bits (105), Expect = 2e-05
 Identities = 21/47 (44%), Positives = 30/47 (63%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
               K KK+ ++K++ K KKKK KKKK+++K KK  KK  K +KK  
Sbjct: 69  EEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDE 115

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 45.7 bits (109), Expect = 2e-05
 Identities = 13/43 (30%), Positives = 26/43 (60%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           KK +KK++K E+K +K++ +K   ++K +   KK K    + +
Sbjct: 412 KKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETK 454

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 46.0 bits (109), Expect = 2e-05
 Identities = 19/48 (39%), Positives = 35/48 (72%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           E   +  K++KKKKK++ K++ K +K K+E ++K+  K+K+K+K+KK 
Sbjct: 107 EKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKV 154

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 45.6 bits (108), Expect = 2e-05
 Identities = 16/43 (37%), Positives = 25/43 (58%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            + K K + + EKK K++ KK+ EEE K K   + KKK  + +
Sbjct: 130 AEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAK 172

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 45.2 bits (107), Expect = 2e-05
 Identities = 17/48 (35%), Positives = 27/48 (56%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           E + K   + K K + E +KK K++ KK+ EE+ K K   + KKK  +
Sbjct: 123 EAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAE 170

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional

 Score = 45.6 bits (109), Expect = 2e-05
 Identities = 16/44 (36%), Positives = 26/44 (59%)

Query: 11 KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
          K+ K++ K     KK+ K   K ++KK+K++ K  K K K RL+
Sbjct: 50 KEMKEELKAALLDKKELKAWHKAQKKKEKQEAKAAKAKSKPRLF 93

Length = 330

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 43.6 bits (103), Expect = 2e-05
 Identities = 18/43 (41%), Positives = 31/43 (72%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           ++K++K+  K+ E+K+  K KK+K+E+K+KK  +K  KKK  K
Sbjct: 95  SEKEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTK 137

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.9 bits (108), Expect = 2e-05
 Identities = 16/44 (36%), Positives = 26/44 (59%)

Query: 8    KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            K + +    + +  ++K +  +KKKEE KKK    KKK ++KKK
Sbjct: 1349 KAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKK 1392

Length = 2084

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 43.1 bits (102), Expect = 2e-05
 Identities = 21/37 (56%), Positives = 28/37 (75%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKK 44
           K  K+  K+K K++K+KKKKKKKKK++  KK  KKKK
Sbjct: 99  KIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 42.6 bits (101), Expect = 3e-05
 Identities = 13/45 (28%), Positives = 33/45 (73%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           L+ K+KKKK+K+  +K++   + +++  +++ +K+K+ +K ++KK
Sbjct: 76  LREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKK 120

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 45.3 bits (108), Expect = 3e-05
 Identities = 18/46 (39%), Positives = 39/46 (84%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
               KKK+++++EEK+KK+++K+++EEE +++K+++++KKKK+  L
Sbjct: 434 AFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKKKQATL 479

Length = 482

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 45.3 bits (108), Expect = 3e-05
 Identities = 15/41 (36%), Positives = 26/41 (63%)

Query: 12  KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             ++KK +++++K +KK +K+E EK   KKK +   KK K 
Sbjct: 408 PAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKG 448

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 45.6 bits (108), Expect = 3e-05
 Identities = 19/45 (42%), Positives = 31/45 (68%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             K K  K+ K E  K+++K+K++ +EEKKKKK+K K++ K +K 
Sbjct: 89  AAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKP 133

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.5 bits (107), Expect = 3e-05
 Identities = 13/46 (28%), Positives = 21/46 (45%)

Query: 8    KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
            + KKK    KKK E+ KK  +  K E E    + +  ++K +    
Sbjct: 1326 EAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEK 1371

Length = 2084

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 44.1 bits (105), Expect = 3e-05
 Identities = 12/57 (21%), Positives = 32/57 (56%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLS 62
           +++ ++ +++ KK+E   +K+K  +++ + K K  +KK+K + +K          +S
Sbjct: 109 KVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQHTPVSDIS 165

Length = 213

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 45.0 bits (107), Expect = 3e-05
 Identities = 17/49 (34%), Positives = 19/49 (38%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
               KKK K   K    K   KKK K E +  KK +KK    K     Y
Sbjct: 72  SDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNY 120

Length = 509

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 44.6 bits (106), Expect = 3e-05
 Identities = 17/43 (39%), Positives = 27/43 (62%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KKK++ ++  E  + + +KK+K +EE KKKK K+ K  K  K
Sbjct: 231 KKKKRETEEDVEAAESRAEKKRKSKEEIKKKKPKESKGVKALK 273

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 44.5 bits (106), Expect = 4e-05
 Identities = 15/50 (30%), Positives = 40/50 (80%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            +  + + K++++KK+KK++    KKK++++EEEK+KK+++K++++++ +
Sbjct: 414 KIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAE 463

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 44.5 bits (106), Expect = 4e-05
 Identities = 15/51 (29%), Positives = 40/51 (78%)

Query: 1   MSLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +  +   K +++KK+KKKK    KKK++++++E+EKK+++K++++++ +++
Sbjct: 415 IVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEE 465

Length = 482

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 44.9 bits (106), Expect = 4e-05
 Identities = 18/47 (38%), Positives = 31/47 (65%)

Query: 5   GRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           G  K    K K  K+ + +  K+++K+KE+ K++KKKKK+K K++ K
Sbjct: 83  GGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPK 129

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 44.3 bits (105), Expect = 4e-05
 Identities = 14/43 (32%), Positives = 27/43 (62%)

Query: 8  KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
            +K+++K K   + K KK  K K EE++K K++K++K  ++ 
Sbjct: 42 DEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLREL 84

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.1 bits (106), Expect = 4e-05
 Identities = 18/43 (41%), Positives = 22/43 (51%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KK  + KKK EE KKK    KKK EE KK  +  K + +    
Sbjct: 1315 KKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAAD 1357

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.1 bits (106), Expect = 4e-05
 Identities = 25/50 (50%), Positives = 30/50 (60%), Gaps = 4/50 (8%)

Query: 6    RLKTKKKKKK----KKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
              K ++ KKK    KKK EEKKK  + KKK EE+KKK  + KK    KKK
Sbjct: 1370 EKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKK 1419

Length = 2084

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 42.8 bits (101), Expect = 4e-05
 Identities = 22/42 (52%), Positives = 31/42 (73%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKK 48
           L  ++K  K+  KE+ K+KK+KKKKK+++KKK  KK  KKKK
Sbjct: 94  LVEEQKIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 42.4 bits (100), Expect = 4e-05
 Identities = 20/34 (58%), Positives = 27/34 (79%)

Query: 16  KKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKK 49
           K+  +EK K+KK+KKKK+++KKKK  KK  KKKK
Sbjct: 102 KQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 45.2 bits (108), Expect = 4e-05
 Identities = 10/46 (21%), Positives = 19/46 (41%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            L  +K +K +   +   K    KK   +  +K K++    +K  K
Sbjct: 812 ELLAEKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGK 857

Length = 859

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 44.7 bits (106), Expect = 4e-05
 Identities = 15/48 (31%), Positives = 29/48 (60%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
           R + +K+ +K K+K  K   K K ++ ++E+  + ++KKK+KK K   
Sbjct: 343 REELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSER 390

Length = 395

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 44.5 bits (106), Expect = 5e-05
 Identities = 12/48 (25%), Positives = 39/48 (81%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +   + K+KKKK    ++K+++++++K+K+EE+K++++++ +++K+++
Sbjct: 422 KREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEE 469

Length = 482

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 44.5 bits (105), Expect = 5e-05
 Identities = 16/51 (31%), Positives = 35/51 (68%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +     K  K +  K++++EK++ K++KKKK+E+ K++ K +K K++ K++
Sbjct: 90  AKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEK 140

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 44.5 bits (105), Expect = 5e-05
 Identities = 18/54 (33%), Positives = 31/54 (57%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPT 57
           E         K K  KE K +  K+++K++E+ K++KKKKK+K K++ +   P 
Sbjct: 81  EKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPK 134

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 42.3 bits (100), Expect = 5e-05
 Identities = 20/41 (48%), Positives = 34/41 (82%)

Query: 11 KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
          +K KK+ + EE ++K+++KK+K+EEK  KK+ K++KKK+KK
Sbjct: 57 EKWKKETEDEEFQQKREEKKRKDEEKTAKKRAKRQKKKQKK 97

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 42.8 bits (101), Expect = 5e-05
 Identities = 16/44 (36%), Positives = 29/44 (65%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           + ++K+  K+ +E++  K KK+KK+++EKK  +K  KKK  K  
Sbjct: 96  EKEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTT 139

Length = 158

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 42.8 bits (101), Expect = 5e-05
 Identities = 22/54 (40%), Positives = 30/54 (55%), Gaps = 6/54 (11%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKK------KKKKEEEKKKKKKKKKKKKKKKK 51
           E   +T++K+  K KKE+K+KK+KK      KKK  +  K   KK  KK   KK
Sbjct: 101 EVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTKK 154

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.1 bits (106), Expect = 5e-05
 Identities = 13/43 (30%), Positives = 24/43 (55%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK ++ KK  E  K + +    E E  ++K +  +KKK++ +
Sbjct: 1335 KKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAK 1377

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.7 bits (105), Expect = 5e-05
 Identities = 22/43 (51%), Positives = 29/43 (67%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            +K +  +KKKEE KKK    KKK EEKKK  + KKK ++ KK+
Sbjct: 1364 EKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKK 1406

Length = 2084

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 44.3 bits (105), Expect = 5e-05
 Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 3/47 (6%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +LK K  K   K K E+ KK++  +     +KKK+KK K +++  + 
Sbjct: 352 KLKEKPPKPPTKAKPERDKKERPGRY---RRKKKEKKAKSERRGLQN 395

Length = 395

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 43.5 bits (103), Expect = 6e-05
 Identities = 14/41 (34%), Positives = 28/41 (68%)

Query: 13 KKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
          + ++K++E+ K   K K KK  + K ++K+K K++K++K L
Sbjct: 41 EDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGL 81

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 42.4 bits (100), Expect = 6e-05
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +  K+ ++K+  + KK+KK+KK+KK  EK  KKK  K  K   K+
Sbjct: 101 EVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKK 145

Length = 158

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 42.4 bits (100), Expect = 6e-05
 Identities = 18/44 (40%), Positives = 29/44 (65%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K +K+  K+ +++E  K KK+KK+K+E+K  +K  KKK  K  K
Sbjct: 97  KEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTK 140

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.7 bits (105), Expect = 6e-05
 Identities = 12/43 (27%), Positives = 22/43 (51%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KK ++ KKK +  KKK ++ KK  E  K + +    + +  + 
Sbjct: 1322 KKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEE 1364

Length = 2084

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 44.1 bits (105), Expect = 7e-05
 Identities = 14/49 (28%), Positives = 38/49 (77%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
                K +KKKK    K+++++++++K+KKEEEK++++++ +++K++++
Sbjct: 422 KREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEE 470

Length = 482

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 41.5 bits (98), Expect = 7e-05
 Identities = 14/54 (25%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 3  LEGRLKTKKKKKKKKKKEEKK-KKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYL 55
          +       +KK+++KK E +K  K   ++K E E +K +K+ ++ + +  R  L
Sbjct: 17 IAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARREL 70

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 43.7 bits (103), Expect = 8e-05
 Identities = 17/45 (37%), Positives = 36/45 (80%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K ++K+K++ K+E+KKKK+K K++ ++ K K++ K+K+  K+K++
Sbjct: 104 KEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEK 148

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 43.1 bits (102), Expect = 8e-05
 Identities = 13/44 (29%), Positives = 29/44 (65%)

Query: 10 KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
          + ++K+++K +   K K KK  K + ++K+K K++K++K  + L
Sbjct: 41 EDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLREL 84

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.4 bits (104), Expect = 8e-05
 Identities = 21/44 (47%), Positives = 29/44 (65%)

Query: 8    KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            + K +  +KKK+E KKK    KKK EE+KK  + KKK ++ KKK
Sbjct: 1363 EEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKK 1406

Length = 2084

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 41.6 bits (98), Expect = 8e-05
 Identities = 19/33 (57%), Positives = 26/33 (78%)

Query: 19  KEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K+  K+K K+KK+K+++KKKKKKK  KK  KKK
Sbjct: 102 KQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKK 134

Length = 135

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 43.0 bits (102), Expect = 8e-05
 Identities = 13/46 (28%), Positives = 30/46 (65%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           L+  K K + ++ E++ KK++   +KE+  ++++K K K  +KK++
Sbjct: 103 LEEAKAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRK 148

Length = 213

>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein; Validated

 Score = 44.0 bits (104), Expect = 8e-05
 Identities = 23/54 (42%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 5   GRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTS 58
           G  KT  +KK K KK  K    K K  K  +KK K K KK  KK+   LY P+ 
Sbjct: 741 GTPKTPYEKKTKAKK--KSASTKGKAAKTVKKKSKAKSKKTTKKRAGPLYTPSP 792

Length = 860

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 41.5 bits (98), Expect = 9e-05
 Identities = 13/49 (26%), Positives = 32/49 (65%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
           +   ++K+KKKK+K   KK++   + + E  K++ +K+K+ +K +++ +
Sbjct: 73  KELLREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKF 121

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 41.6 bits (98), Expect = 9e-05
 Identities = 21/39 (53%), Positives = 29/39 (74%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKK 42
           E ++  +  K+K K+K++KKKKKKKKKKK  +K  KKKK
Sbjct: 97  EQKIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKK 47
           K +   + ++++ +++ +K+K+ +K  EKK K+++K+K+K
Sbjct: 91  KRRIALRLRRERTKERAEKEKRTRKNREKKFKRRQKEKEK 130

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 42.1 bits (99), Expect = 1e-04
 Identities = 22/37 (59%), Positives = 27/37 (72%), Gaps = 4/37 (10%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKK 43
           LK  +KK KKKK E+ K++KKKKK    EKKKKKK+ 
Sbjct: 137 LKGHEKKHKKKKHEDDKERKKKKK----EKKKKKKRH 169

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 14/41 (34%), Positives = 27/41 (65%)

Query: 14 KKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
          + ++K+EEK K   K K K+  K K ++K+K K++K+++  
Sbjct: 41 EDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGL 81

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 2/51 (3%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKK--KKKKEEEKKKKKKKKKKKKKKKKR 52
           E   + K K++ KK+ EE+ K K     KKK  E KKK + + K K + K 
Sbjct: 137 EAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKA 187

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 41.3 bits (97), Expect = 1e-04
 Identities = 16/44 (36%), Positives = 26/44 (59%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K   K+ ++K+  + KK+KK+KK+K+  +K  KKK  K  K   
Sbjct: 100 KEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTT 143

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.0 bits (103), Expect = 1e-04
 Identities = 21/42 (50%), Positives = 28/42 (66%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KK    KKK +E KKK ++KKK +E KKK ++ KK  + KKK
Sbjct: 1411 KKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKK 1452

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.6 bits (102), Expect = 1e-04
 Identities = 12/46 (26%), Positives = 23/46 (50%)

Query: 7    LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             K K ++ KKK    KKK ++ KK  E  K + +    + +  +++
Sbjct: 1320 AKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEK 1365

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.6 bits (102), Expect = 1e-04
 Identities = 21/42 (50%), Positives = 26/42 (61%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KK  + KKK EE KKK  + KK    KKK  + KKK ++KKK
Sbjct: 1391 KKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKK 1432

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.6 bits (102), Expect = 1e-04
 Identities = 21/42 (50%), Positives = 26/42 (61%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KKK  + KK    KKK  + KKK EEKKK  + KKK ++ KK
Sbjct: 1404 KKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKK 1445

Length = 2084

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 42.2 bits (100), Expect = 1e-04
 Identities = 11/44 (25%), Positives = 27/44 (61%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K K + ++ +++ +K++   +K+K    ++K K K  +KK+K +
Sbjct: 107 KAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPR 150

Length = 213

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 15/39 (38%), Positives = 22/39 (56%)

Query: 13  KKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            + + +K+ K K++ KKKK +E K  K  KK   K  KK
Sbjct: 244 AESRAEKKRKSKEEIKKKKPKESKGVKALKKVVAKGMKK 282

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 43.6 bits (104), Expect = 1e-04
 Identities = 8/39 (20%), Positives = 14/39 (35%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKK 46
           K +       K    KK   K  +K +++    +K  K 
Sbjct: 820 KLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 42.8 bits (101), Expect = 1e-04
 Identities = 18/51 (35%), Positives = 31/51 (60%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           SL   L+ + +K K+K  +   K K ++ KKE   + ++KKK+KK K ++R
Sbjct: 341 SLREELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERR 391

Length = 395

>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 19/57 (33%), Positives = 35/57 (61%), Gaps = 3/57 (5%)

Query: 11  KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYFKK 67
           K   K++ + EK++K+  K++K   K KK+++KKKK+ +K        IP + +FK+
Sbjct: 546 KLDDKEELQREKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKA---KIPPAEFFKR 599

Length = 651

>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function (DUF1754)

 Score = 40.1 bits (94), Expect = 1e-04
 Identities = 18/43 (41%), Positives = 27/43 (62%)

Query: 10 KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            K K K KK + KKKKKKKKKK + K++   +K++++K    
Sbjct: 7  GGKLKLKGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKSSAE 49

This is a eukaryotic protein family of unknown function. Length = 90

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 18/38 (47%), Positives = 29/38 (76%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKK 41
           E + K + KK+KK+KK++K+K  + K  K+++KKKKKK
Sbjct: 156 EKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 43.0 bits (102), Expect = 2e-04
 Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 1/37 (2%)

Query: 17  KKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
           K K   +KK  K  KK    K+ +KK+K+K+K K + 
Sbjct: 379 KTKAPSEKKTGKPSKKVL-AKRAEKKEKEKEKPKVKK 414

Length = 434

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 42.6 bits (101), Expect = 2e-04
 Identities = 15/43 (34%), Positives = 24/43 (55%)

Query: 16  KKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTS 58
             KK  KK KK  +K +++ +++KK+KKKK    KK+      
Sbjct: 404 GSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEE 446

Length = 482

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 13/41 (31%), Positives = 29/41 (70%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKK 44
           E   + K++KKK++++ +  K   ++++K EEK++KK+ +K
Sbjct: 282 EEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 16/43 (37%), Positives = 27/43 (62%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           K K+KK ++ +  E++KK+++ + K   KK  KKK   KKK+ 
Sbjct: 148 KEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNKKKEP 190

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 18/37 (48%), Positives = 28/37 (75%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKK 44
           KT KK+ K++KK++KKKKKKK KK  ++++K+  K  
Sbjct: 82  KTAKKRAKRQKKKQKKKKKKKAKKGNKKEEKEGSKSS 118

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 21/43 (48%), Positives = 29/43 (67%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK ++KKK +E KKK ++ KKK +E KK    KKK  + KK+
Sbjct: 1384 KKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKK 1426

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 21/42 (50%), Positives = 31/42 (73%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KKK ++KKK +E KKK ++ KK +E KKK ++ KK ++ KKK
Sbjct: 1424 KKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKK 1465

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 22/43 (51%), Positives = 26/43 (60%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KK  + KKK EE KK  + KKK EE KKK    KKK ++ KK 
Sbjct: 1302 KKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKA 1344

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 21/42 (50%), Positives = 29/42 (69%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KKK ++ KK +E KKK ++ KK EE KKK ++ KK  + KKK
Sbjct: 1437 KKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKK 1478

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 21/42 (50%), Positives = 29/42 (69%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KKK ++ KK EE KKK ++ KK +E KKK ++ KK  + KKK
Sbjct: 1450 KKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKK 1491

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 15/47 (31%), Positives = 25/47 (53%)

Query: 4    EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
            E      +    + +  E+K +  +KKK+E +KK    KKK ++KKK
Sbjct: 1346 EAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKK 1392

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 22/42 (52%), Positives = 26/42 (61%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KK  + KKK EE KK  + KKK EE KKK  + KK  + KKK
Sbjct: 1470 KKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKK 1511

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.8 bits (100), Expect = 2e-04
 Identities = 17/49 (34%), Positives = 29/49 (59%)

Query: 4    EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            E      + +  ++K E  +KKK++ KKK +  KKK ++KKK  + KK+
Sbjct: 1351 EAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKK 1399

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.8 bits (100), Expect = 2e-04
 Identities = 14/45 (31%), Positives = 25/45 (55%)

Query: 8    KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
               + +    + E  ++K +  +KK+EE KKK    KKK ++KK+
Sbjct: 1348 AKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKK 1392

Length = 2084

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 20/40 (50%), Positives = 28/40 (70%), Gaps = 6/40 (15%)

Query: 19  KEEKK------KKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            EE+K      K+K K+KK++++KKKKKKKK  KK  KK+
Sbjct: 95  VEEQKIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKK 134

Length = 135

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 22/37 (59%), Positives = 27/37 (72%), Gaps = 3/37 (8%)

Query: 14  KKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           K+  K++ K+KK+KKKKKK   KKKKK  KK  KKKK
Sbjct: 102 KQVLKEKAKQKKQKKKKKK---KKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 15/39 (38%), Positives = 22/39 (56%)

Query: 12  KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
            + + +KK + K++ KKKK KE +  K  KK   K  KK
Sbjct: 244 AESRAEKKRKSKEEIKKKKPKESKGVKALKKVVAKGMKK 282

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 17/39 (43%), Positives = 22/39 (56%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKK 46
              + +KK+K KEE KKKK K+ K  +  KK   K  KK
Sbjct: 244 AESRAEKKRKSKEEIKKKKPKESKGVKALKKVVAKGMKK 282

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 8/53 (15%)

Query: 7   LKTKKKKKKKKKKE--------EKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           L    K+ KKKK+E        E + +KK+K K+E +KKK K+ K  K  KK 
Sbjct: 223 LDKYLKESKKKKRETEEDVEAAESRAEKKRKSKEEIKKKKPKESKGVKALKKV 275

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 42.9 bits (102), Expect = 2e-04
 Identities = 9/42 (21%), Positives = 16/42 (38%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K +K +       K    KK   +  +K K++    +K  K 
Sbjct: 817 KPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 14/41 (34%), Positives = 26/41 (63%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKK 44
           E     K  + K+K K ++ K+K++K+ + E K++K+ KKK
Sbjct: 265 EYEPINKPVRPKRKTKAQRNKEKRRKELEREAKEEKQLKKK 305

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 42.1 bits (99), Expect = 2e-04
 Identities = 19/40 (47%), Positives = 22/40 (55%)

Query: 12  KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            K K+K K EKK KK K K K + K K K K + K KK  
Sbjct: 82  PKPKEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPP 121

Length = 244

>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional

 Score = 42.0 bits (99), Expect = 2e-04
 Identities = 20/43 (46%), Positives = 29/43 (67%)

Query: 12  KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
           K KKKKKK++K   KK K KK   K++K + K KK ++++RL 
Sbjct: 254 KVKKKKKKKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRERLQ 296

Length = 300

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 17/39 (43%), Positives = 32/39 (82%)

Query: 13 KKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
          ++K++KKEE++K   K+++ +EE++K++KKKK KK K+ 
Sbjct: 42 EEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKET 80

Length = 529

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 39.9 bits (94), Expect = 3e-04
 Identities = 15/48 (31%), Positives = 27/48 (56%)

Query: 4  EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
          E +  T K+  K   KE+ K +KK+++KK E +K  K   ++K + + 
Sbjct: 4  EEKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYEL 51

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.8 bits (100), Expect = 3e-04
 Identities = 21/42 (50%), Positives = 28/42 (66%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KK ++ KKK +E KK    KKK +E KKK ++KKK  + KKK
Sbjct: 1398 KKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKK 1439

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.4 bits (99), Expect = 3e-04
 Identities = 22/42 (52%), Positives = 28/42 (66%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KKK  + KKK E+KKK  + KKK EE KK  + KKK ++ KK
Sbjct: 1417 KKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKK 1458

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.4 bits (99), Expect = 3e-04
 Identities = 20/42 (47%), Positives = 28/42 (66%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KKK ++ KK +E KKK ++ KKK +E KK  + KKK  + KK
Sbjct: 1476 KKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKK 1517

Length = 2084

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 13/45 (28%), Positives = 17/45 (37%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           + KT  K    K   +KK K +    K+ EKK    K       K
Sbjct: 78  KTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVK 122

Length = 509

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 18/52 (34%), Positives = 31/52 (59%), Gaps = 3/52 (5%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
            LE R++   K K+K  K   K K ++ KK+   + ++KKK+KK K +++ L
Sbjct: 345 ELEKRIE---KLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGL 393

Length = 395

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 41.7 bits (98), Expect = 3e-04
 Identities = 17/43 (39%), Positives = 21/43 (48%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           K K +KK KK K + K K K K K + + K KK   K   K  
Sbjct: 87  KPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTAAKAP 129

Length = 244

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 16/44 (36%), Positives = 21/44 (47%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +  K +KK KK + K K K K K K + + K KK   K   K  
Sbjct: 86  EKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTAAKAP 129

Length = 244

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 42.1 bits (99), Expect = 3e-04
 Identities = 18/41 (43%), Positives = 31/41 (75%)

Query: 12 KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
          ++K++KK+EE+K   K+++  EEE+K++KKKK KK K+   
Sbjct: 42 EEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTT 82

Length = 529

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 42.1 bits (99), Expect = 3e-04
 Identities = 18/41 (43%), Positives = 31/41 (75%)

Query: 11 KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
          ++K++KK++EEK   K+++  +EEEK++KKKK KK K+   
Sbjct: 42 EEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTT 82

Length = 529

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 42.3 bits (99), Expect = 3e-04
 Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 11/79 (13%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKK-----------KKKKEEEKKKKKKKKKKKKKKK 50
           +   R K KKK++ KK  EE +   +             K KE+ KK  +  + K+K + 
Sbjct: 163 AAGSREKRKKKERLKKLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLEL 222

Query: 51  KRLYLPTSIPLSHYFKKAH 69
           +   L     L    ++  
Sbjct: 223 EEENLLYLDYLKLNEERID 241

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 40.3 bits (95), Expect = 3e-04
 Identities = 12/53 (22%), Positives = 35/53 (66%), Gaps = 4/53 (7%)

Query: 5   GRLKTKKKKKKKKKKEEKKKKKK----KKKKKEEEKKKKKKKKKKKKKKKKRL 53
           G  K +K+++++++ E ++  ++    +  +KE  K K++K+++ ++K+K+ L
Sbjct: 95  GLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEIL 147

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 21/59 (35%), Positives = 42/59 (71%), Gaps = 5/59 (8%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKK--KKKKKRLYLPTSIPLSHYFK 66
           KK K++++K+EE+++K++KK+++EEE+K+K ++  +K  K  K+R   P  +PL+    
Sbjct: 190 KKLKQQQQKREEERRKQRKKQQEEEERKQKAEEAWQKWMKNVKQR---PKPVPLNQGMD 245

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 41.1 bits (97), Expect = 4e-04
 Identities = 17/45 (37%), Positives = 32/45 (71%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKK 48
           E R +  ++KK++KKKEE++ K  K   +E+ K ++K++KK+ +K
Sbjct: 278 EERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 16/45 (35%), Positives = 33/45 (73%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + K+K+  K+K++EK+KK ++ + +EEEKK+++ + K + KK  +
Sbjct: 136 EAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPK 180

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 15/49 (30%), Positives = 29/49 (59%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           E   + +KK ++ + +EE+KK+++ + K   +K  KKK   KKK+  + 
Sbjct: 145 EKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEE 193

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.4 bits (99), Expect = 4e-04
 Identities = 19/48 (39%), Positives = 31/48 (64%)

Query: 4    EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            E   K K  ++ KK +E+KKK ++ KK +E+EKK  +  KK+ ++ KK
Sbjct: 1656 EEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKK 1703

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.1 bits (98), Expect = 4e-04
 Identities = 20/43 (46%), Positives = 29/43 (67%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK ++ KK +E KKK ++ KK +E KKK ++ KKK  + KK 
Sbjct: 1463 KKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKA 1505

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.1 bits (98), Expect = 4e-04
 Identities = 21/43 (48%), Positives = 30/43 (69%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK++ KKK +  KKK ++KKK +E KKK ++ KKK  + KK 
Sbjct: 1371 KKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKA 1413

Length = 2084

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 40.9 bits (96), Expect = 4e-04
 Identities = 17/44 (38%), Positives = 23/44 (52%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +T  +    K KE+ K +KK KK K + K K K K K K + K 
Sbjct: 74  ETPPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKP 117

Length = 244

>gnl|CDD|219621 pfam07890, Rrp15p, Rrp15p

 Score = 39.7 bits (93), Expect = 4e-04
 Identities = 14/39 (35%), Positives = 25/39 (64%)

Query: 8  KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKK 46
          ++KK  K KKK + +K +KK K++   EK++  +K + K
Sbjct: 26 RSKKLLKAKKKLKSEKLEKKAKRQLRAEKRQALEKGRVK 64

Rrp15p is required for the formation of 60S ribosomal subunits. Length = 132

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 41.4 bits (97), Expect = 4e-04
 Identities = 19/44 (43%), Positives = 20/44 (45%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           KT    KK  K   K  KK KK  K+  KK  K  KK  KK  K
Sbjct: 233 KTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAK 276

Length = 333

>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex

 Score = 40.0 bits (94), Expect = 4e-04
 Identities = 17/48 (35%), Positives = 37/48 (77%)

Query: 6  RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
          R K+ +    ++K+EEK+++K++K++KEE++K+  K   +K++++KRL
Sbjct: 5  RDKSGRIIDIEEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRL 52

This entry is characterized by proteins with alternating conserved and low-complexity regions. Bud13 together with Snu17p and a newly identified factor, Pml1p/Ylr016c, form a novel trimeric complex. called The RES complex, pre-mRNA retention and splicing complex. Subunits of this complex are not essential for viability of yeasts but they are required for efficient splicing in vitro and in vivo. Furthermore, inactivation of this complex causes pre-mRNA leakage from the nucleus. Bud13 contains a unique, phylogenetically conserved C-terminal region of unknown function. Length = 141

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 41.6 bits (98), Expect = 4e-04
 Identities = 20/45 (44%), Positives = 23/45 (51%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           LKT     K  KK++ KKK   K  K   K  K   K KKKKKK+
Sbjct: 497 LKTTSSVGKSAKKQDSKKKSSSKLDKAANKISKAAVKVKKKKKKE 541

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 39.4 bits (93), Expect = 5e-04
 Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)

Query: 7  LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKK 39
          LK  +K +KK +K   K K +KKK K+EE K +
Sbjct: 68 LKAWEKAEKKAEKA--KAKAEKKKAKKEEPKPR 98

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 39.2 bits (92), Expect = 5e-04
 Identities = 12/44 (27%), Positives = 30/44 (68%), Gaps = 6/44 (13%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKK 49
           R+  + ++++ K++ EK+K+ +K       ++KK K+++K+K+K
Sbjct: 93  RIALRLRRERTKERAEKEKRTRK------NREKKFKRRQKEKEK 130

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|240232 PTZ00021, PTZ00021, falcipain-2; Provisional

 Score = 41.3 bits (97), Expect = 5e-04
 Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 11/81 (13%)

Query: 84  GPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIP----------YWLV 133
           GP+    +V  DF  YK G++    G+    HAV ++G+G+E              Y+++
Sbjct: 392 GPISVSIAVSDDFAFYKGGIFDGECGEEPN-HAVILVGYGMEEIYNSDTKKMEKRYYYII 450

Query: 134 ANSWNDHWGDHGTFKILRGEN 154
            NSW + WG+ G  +I   EN
Sbjct: 451 KNSWGESWGEKGFIRIETDEN 471

Length = 489

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 14/46 (30%), Positives = 33/46 (71%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            K K+  K+K+K++EKK ++ + +++E+++++ + K + KK  KK+
Sbjct: 137 AKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKK 182

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 39.7 bits (93), Expect = 5e-04
 Identities = 16/34 (47%), Positives = 27/34 (79%)

Query: 20  EEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
           EE +K++K+  K+ EEK+  K KK+KK+KK+K++
Sbjct: 93  EESEKEQKEVSKETEEKEAIKAKKEKKEKKEKKV 126

Length = 158

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 39.7 bits (93), Expect = 5e-04
 Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 2/47 (4%)

Query: 8   KTKKKKKKKKKKEEKKKKK--KKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + K+  K KK+K+EKK+KK  +K  KK+  K  K   KK  KK   +
Sbjct: 107 EEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTK 153

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.7 bits (97), Expect = 5e-04
 Identities = 20/41 (48%), Positives = 25/41 (60%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
            KK  + KKK EE KKK  + KK  E KKK  + KK ++ KK
Sbjct: 1483 KKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKK 1523

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.7 bits (97), Expect = 5e-04
 Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 6/55 (10%)

Query: 4    EGRLKTKKKKKK----KKKKEEKKKKKKKKKKKEEEKKKK--KKKKKKKKKKKKR 52
            E + K ++ KKK    KKK EE KK  +  K + E    +    ++K +  +KK+
Sbjct: 1319 EAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKK 1373

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.7 bits (97), Expect = 5e-04
 Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 2/53 (3%)

Query: 3    LEGRLKTKKKKKKKKKKEEKKKKKKK--KKKKEEEKKKKKKKKKKKKKKKKRL 53
             + + +  KK  + KKK E+ KKK    KKK EE KK  +  K + +      
Sbjct: 1307 AKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEA 1359

Length = 2084

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 41.5 bits (98), Expect = 5e-04
 Identities = 10/64 (15%), Positives = 17/64 (26%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYFKK 67
                K    K   KKK K +    ++ +KK    K       K + +            
Sbjct: 79  TKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVKDIDVLNQADDDDDDDD 138

Query: 68  AHMV 71
              +
Sbjct: 139 DDDL 142

Length = 509

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 41.7 bits (99), Expect = 5e-04
 Identities = 11/49 (22%), Positives = 20/49 (40%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +E  L+   +K +K +       K    KK   K  +K K++    +K 
Sbjct: 807 VEEALELLAEKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKD 855

Length = 859

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 40.9 bits (96), Expect = 5e-04
 Identities = 17/45 (37%), Positives = 23/45 (51%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             +    K K+K + +KK KK K K + K K K K K + K KK 
Sbjct: 76  PPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKP 120

Length = 244

>gnl|CDD|218482 pfam05178, Kri1, KRI1-like family

 Score = 38.4 bits (90), Expect = 5e-04
 Identities = 14/35 (40%), Positives = 26/35 (74%)

Query: 8  KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKK 42
          K +K+++K +++EE K+ K  K+++ EEK +K KK
Sbjct: 1  KERKEEEKAQREEELKRLKNLKREEIEEKLEKIKK 35

The yeast member of this family (Kri1p) is found to be required for 40S ribosome biogenesis in the nucleolus. Length = 99

>gnl|CDD|185641 PTZ00462, PTZ00462, Serine-repeat antigen protein; Provisional

 Score = 41.6 bits (97), Expect = 5e-04
 Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 5/46 (10%)

Query: 109 GDSIGLHAVRVLGWG-----VENDIPYWLVANSWNDHWGDHGTFKI 149
           GD    HAV ++G+G      +    YW+V NSW  +WGD G FK+
Sbjct: 717 GDDTADHAVNIVGYGNYINDEDEKKSYWIVRNSWGKYWGDEGYFKV 762

Length = 1004

>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional

 Score = 41.1 bits (97), Expect = 5e-04
 Identities = 17/51 (33%), Positives = 22/51 (43%)

Query: 1   MSLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
             L+      KK  KK   + K KKKKKK       K +  ++ K   KKK
Sbjct: 340 TRLDSFFTATKKPIKKSNSKAKLKKKKKKAGASAVPKSETSQEAKSSGKKK 390

Length = 393

>gnl|CDD|187751 cd09270, RNase_H2-B, Ribonuclease H2-B is a subunit of the eukaryotic RNase H complex which cleaves RNA-DNA hybrids

 Score = 40.4 bits (95), Expect = 5e-04
 Identities = 23/49 (46%), Positives = 30/49 (61%), Gaps = 3/49 (6%)

Query: 6   RLKTKKKKKKK---KKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
             K ++ KKK+   K+ E  + KKK    +EE+KKKKKK  KKKK KK 
Sbjct: 150 LKKVERLKKKELDIKEAEAARDKKKSNNAEEEKKKKKKKSAKKKKLKKV 198

Ribonuclease H2B is one of the three proteins of eukaryotic RNase H2 complex that is required for nucleic acid binding and hydrolysis. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. Eukaryotic RNase HII is active during replication and is believed to play a role in removal of Okazaki fragment primers and single ribonucleotides in DNA-DNA duplexes. Eukaryotic RNase HII is functional when it forms a complex with RNase H2B and RNase H2C proteins. It is speculated that the two accessory subunits are required for correct folding of the catalytic subunit of RNase HII. Mutations in the three subunits of human RNase HII cause neurological disorder. Length = 211

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 40.7 bits (96), Expect = 6e-04
 Identities = 12/49 (24%), Positives = 37/49 (75%), Gaps = 3/49 (6%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEE---EKKKKKKKKKKKKKKKK 51
           +   ++++++ ++K+E+KKK++++ K  +   E+++K ++K++KK+ +K
Sbjct: 274 KAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.0 bits (96), Expect = 6e-04
 Identities = 16/43 (37%), Positives = 23/43 (53%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           K K   + KKK  E KKK + + K + E K K K ++ K K +
Sbjct: 157 KAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAE 199

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.7 bits (97), Expect = 6e-04
 Identities = 20/43 (46%), Positives = 29/43 (67%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK ++ KKK ++ KK    KKK +E KKK ++KKK  + KK+
Sbjct: 1397 KKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKK 1439

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.7 bits (97), Expect = 6e-04
 Identities = 20/50 (40%), Positives = 29/50 (58%)

Query: 3    LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             + + +  KK  + KKK E+ KK  + KKK EE KKK  + KK  + KK+
Sbjct: 1462 AKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKK 1511

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 6e-04
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 4/54 (7%)

Query: 2    SLEGRLKTKKKKKKKKKKEEKKKKKK----KKKKKEEEKKKKKKKKKKKKKKKK 51
            + + + +  KK  +  K E +    +    ++K +  EKKK++ KKK    KKK
Sbjct: 1333 AAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKK 1386

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 6e-04
 Identities = 17/42 (40%), Positives = 28/42 (66%)

Query: 11   KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            K  ++ KK EE KKK ++ KK EE++KK  +  KK+ ++ K+
Sbjct: 1662 KAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKK 1703

Length = 2084

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 41.1 bits (97), Expect = 6e-04
 Identities = 11/48 (22%), Positives = 16/48 (33%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYL 55
           K  K   K    +   KKK K +    +K +KK    K         +
Sbjct: 77  KKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVKDI 124

Length = 509

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 40.8 bits (96), Expect = 6e-04
 Identities = 13/40 (32%), Positives = 24/40 (60%)

Query: 14  KKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
            + + ++++K K++ KKKK +E K  K  KK   K  K++
Sbjct: 244 AESRAEKKRKSKEEIKKKKPKESKGVKALKKVVAKGMKKI 283

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 41.3 bits (98), Expect = 6e-04
 Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 3/48 (6%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           L  + +  +       K+   KK   K  +   K K++    +K  K 
Sbjct: 814 LAEKPEKLRYLADAPAKDPAGKKAAVKFSR---KTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 40.5 bits (95), Expect = 6e-04
 Identities = 15/45 (33%), Positives = 22/45 (48%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + K   + +   E    K K+K K E++ KK K K K K K K +
Sbjct: 66  QPKPPTEPETPPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPK 110

Length = 244

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 41.6 bits (98), Expect = 6e-04
 Identities = 16/49 (32%), Positives = 23/49 (46%)

Query: 6    RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
              K ++ K K K K  K +K K KKK++++KK    K KK         
Sbjct: 1152 IAKEQRLKSKTKGKASKLRKPKLKKKEKKKKKSSADKSKKASVVGNSKR 1200

Length = 1388

>gnl|CDD|219547 pfam07741, BRF1, Brf1-like TBP-binding domain

 Score = 38.0 bits (89), Expect = 6e-04
 Identities = 15/36 (41%), Positives = 24/36 (66%)

Query: 21 EKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLP 56
          E++++K+ K+K +E     KKKKK+K KKK+    P
Sbjct: 30 EEQEEKELKQKADEGNNSGKKKKKRKAKKKRDEAGP 65

This region covers both the Brf homology II and III regions. This region is involved in binding TATA binding protein. Length = 95

>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional

 Score = 41.4 bits (97), Expect = 6e-04
 Identities = 23/70 (32%), Positives = 27/70 (38%), Gaps = 24/70 (34%)

Query: 8   KTKKKKKKKKKKE------------------------EKKKKKKKKKKKEEEKKKKKKKK 43
           KTK K+KKK KK+                             +K K K E+ KKK    K
Sbjct: 74  KTKLKQKKKIKKKLHIDDDYDNFFDSKNNSKQFAGPLAISLMRKPKPKTEKLKKKITVNK 133

Query: 44  KKKKKKKKRL 53
              KKKKK L
Sbjct: 134 STNKKKKKVL 143

Length = 742

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 40.6 bits (95), Expect = 7e-04
 Identities = 16/41 (39%), Positives = 22/41 (53%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKK 48
           K  +++ K K   E KKK  + KKK E + K K + K K K
Sbjct: 150 KQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAK 190

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 7e-04
 Identities = 20/49 (40%), Positives = 30/49 (61%)

Query: 3    LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
             + + +  KK  + KKK E+ KK ++ KKK EE KK  + KKK ++ KK
Sbjct: 1436 AKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKK 1484

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 7e-04
 Identities = 21/49 (42%), Positives = 31/49 (63%)

Query: 3    LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
             + + + KKK  + KKK E+ KK  + KKK EE KK ++ KKK ++ KK
Sbjct: 1423 AKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKK 1471

Length = 2084

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 39.9 bits (94), Expect = 7e-04
 Identities = 11/43 (25%), Positives = 28/43 (65%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K K + ++ +++ KK++   +K++  ++++K K K  +KK+K 
Sbjct: 107 KAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKP 149

Length = 213

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 40.8 bits (96), Expect = 7e-04
 Identities = 13/47 (27%), Positives = 29/47 (61%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            +  +++ +K+ +K ++K  K   K K E  KK++  + ++KKK+K+
Sbjct: 339 GISLREELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKK 385

Length = 395

>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 20/45 (44%), Positives = 30/45 (66%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K KKKKKKKKK   KK K KK   K+ + + K KK +++++ +K+
Sbjct: 254 KVKKKKKKKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRERLQKK 298

Length = 300

>gnl|CDD|219547 pfam07741, BRF1, Brf1-like TBP-binding domain

 Score = 38.0 bits (89), Expect = 7e-04
 Identities = 15/33 (45%), Positives = 22/33 (66%)

Query: 20 EEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
          EE+++K+ K+K  E     KKKKK+K KKK+  
Sbjct: 30 EEQEEKELKQKADEGNNSGKKKKKRKAKKKRDE 62

This region covers both the Brf homology II and III regions. This region is involved in binding TATA binding protein. Length = 95

>gnl|CDD|206228 pfam14058, PcfK, PcfK-like protein

 Score = 38.9 bits (91), Expect = 7e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           T     +  ++E+ + +K+  K  ++E+ +K +K+ KK KK +
Sbjct: 83  TVNHTVELTEEEKAEARKEALKAYQQEELRKIQKRSKKSKKAE 125

The PcfK-like protein family includes the Enterococcus faecalis PcfK protein, which is functionally uncharacterized. This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 137 and 257 amino acids in length. There are two completely conserved residues (D and L) that may be functionally important. Length = 136

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 39.7 bits (93), Expect = 7e-04
 Identities = 11/45 (24%), Positives = 35/45 (77%)

Query: 9  TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
            KK+ K ++K+ ++++++ ++++ EE+KK ++K++ ++K+++ L
Sbjct: 4  GAKKRAKLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEEL 48

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 39.0 bits (92), Expect = 8e-04
 Identities = 22/66 (33%), Positives = 30/66 (45%), Gaps = 15/66 (22%)

Query: 10 KKKKKKKKKK-------EEKKKKKK--------KKKKKEEEKKKKKKKKKKKKKKKKRLY 54
           +KKK KK +       EE K  K+        KK+ K  EK +KK +K K K +KK+  
Sbjct: 32 AQKKKGKKGELEITDLNEEYKDLKESLEAALLDKKELKAWEKAEKKAEKAKAKAEKKKAK 91

Query: 55 LPTSIP 60
               P
Sbjct: 92 KEEPKP 97

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 38.8 bits (91), Expect = 8e-04
 Identities = 12/44 (27%), Positives = 26/44 (59%)

Query: 8  KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
          K++ +K  K   EEK + + +K +KE E+ + +  +++ K + K
Sbjct: 32 KSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRELKAEAK 75

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 41.0 bits (96), Expect = 8e-04
 Identities = 15/45 (33%), Positives = 31/45 (68%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +  K+K+  K+KE++K+KK ++ +  EE+KK+++ + K + KK  
Sbjct: 135 EEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPP 179

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 8e-04
 Identities = 22/42 (52%), Positives = 28/42 (66%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KK ++ KKK EE KK  + KKK EE KK  + KKK ++ KKK
Sbjct: 1457 KKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKK 1498

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 8e-04
 Identities = 21/43 (48%), Positives = 27/43 (62%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK  + KKK E+ KK  + KKK EE KKK    KKK ++ K+
Sbjct: 1301 KKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKK 1343

Length = 2084

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 40.9 bits (97), Expect = 8e-04
 Identities = 8/41 (19%), Positives = 17/41 (41%)

Query: 12  KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K +K +   +   K    KK   +  +K K++    +K  +
Sbjct: 817 KPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGK 857

Length = 859

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 40.2 bits (94), Expect = 8e-04
 Identities = 18/48 (37%), Positives = 23/48 (47%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           E      K+K K +KK +K K K K K K + K K + K KK   K  
Sbjct: 78  EPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTA 125

Length = 244

>gnl|CDD|220431 pfam09831, DUF2058, Uncharacterized protein conserved in bacteria (DUF2058)

 Score = 39.5 bits (93), Expect = 8e-04
 Identities = 16/49 (32%), Positives = 30/49 (61%), Gaps = 4/49 (8%)

Query: 9  TKKKKKKKKKKEEKKKKKKKKKKK----EEEKKKKKKKKKKKKKKKKRL 53
            KKK KK KKE++K++K+ +K      +E K+  ++ K +K ++ + L
Sbjct: 12 VDKKKAKKAKKEKRKQRKQARKGADDGDDELKQAAEEAKAEKAERDREL 60

This domain, found in various prokaryotic proteins, has no known function. Length = 177

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 39.2 bits (92), Expect = 8e-04
 Identities = 18/40 (45%), Positives = 25/40 (62%)

Query: 12  KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           KK + KK   KKK  + KK K+ +K  +KK+KK   K+KK
Sbjct: 129 KKSEIKKLVLKKKFDELKKSKQLDKALEKKRKKNAGKEKK 168

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.9 bits (95), Expect = 9e-04
 Identities = 19/42 (45%), Positives = 28/42 (66%)

Query: 11   KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KK    KKK ++ KKK ++KKK +E KKK ++ KK  + KK+
Sbjct: 1411 KKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKK 1452

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.9 bits (95), Expect = 9e-04
 Identities = 20/50 (40%), Positives = 31/50 (62%)

Query: 3    LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             + + +  KK ++ KKK E+ KK  + KKK EE KK  + KKK ++ KK+
Sbjct: 1449 AKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKK 1498

Length = 2084

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 39.3 bits (92), Expect = 0.001
 Identities = 22/58 (37%), Positives = 27/58 (46%), Gaps = 4/58 (6%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKK----KKKEEEKKKKKKKKKKKKKKKKRLYLPT 57
           E RLK KK+ K K  KE  KKKKKK     K  +    + KKK ++       L  P 
Sbjct: 81  EERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAPTLLDSPR 138

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 15/45 (33%), Positives = 29/45 (64%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + +K   K    + K  K+ K +  +EE+K+K++ K++KKKKK++
Sbjct: 79  RVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEK 123

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 16/47 (34%), Positives = 30/47 (63%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           R++    K    K +  K+ K +  K+EE++K++ K++KKKKK+K +
Sbjct: 79  RVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPK 125

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 13/47 (27%), Positives = 31/47 (65%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
                K+ K +  +E++K+K++ K+++++KK+K K++ K +K K+  
Sbjct: 91  KTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEA 137

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 39.6 bits (93), Expect = 0.001
 Identities = 12/32 (37%), Positives = 21/32 (65%)

Query: 20 EEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
          EE ++K+++K K   + K KK  K K ++K+K
Sbjct: 40 EEDEEKEEEKAKVAAKAKAKKALKAKIEEKEK 71

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 39.3 bits (92), Expect = 0.001
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 20 EEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
          EE+ ++K+++K K   K K KK  K K ++K++ 
Sbjct: 39 EEEDEEKEEEKAKVAAKAKAKKALKAKIEEKEKA 72

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 38.6 bits (90), Expect = 0.001
 Identities = 15/44 (34%), Positives = 26/44 (59%)

Query: 13  KKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLP 56
           + +++   E K + K+KKK+E  K K +K+K K + KK +   P
Sbjct: 108 ETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKPKPSKP 151

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional

 Score = 39.8 bits (94), Expect = 0.001
 Identities = 12/37 (32%), Positives = 21/37 (56%)

Query: 2  SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKK 38
           L+  L  KK+ K   K ++KK+K++ K  K + K +
Sbjct: 55 ELKAALLDKKELKAWHKAQKKKEKQEAKAAKAKSKPR 91

Length = 330

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 39.0 bits (91), Expect = 0.001
 Identities = 18/56 (32%), Positives = 32/56 (57%)

Query: 14  KKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYFKKAH 69
           +K++K+  K+ ++K+  K ++EKK+KK+KK  +K  KK+    T        KK  
Sbjct: 96  EKEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTT 151

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.9 bits (95), Expect = 0.001
 Identities = 16/45 (35%), Positives = 28/45 (62%)

Query: 8    KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            + K K  ++ KK E+ KKK ++ KK EE +KK  +  KK+ ++ +
Sbjct: 1658 ENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAK 1702

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.9 bits (95), Expect = 0.001
 Identities = 20/42 (47%), Positives = 29/42 (69%)

Query: 11   KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KK ++KKK +E KKK ++ KK +E KKK ++ KKK    KK+
Sbjct: 1296 KKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKK 1337

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.9 bits (95), Expect = 0.001
 Identities = 23/75 (30%), Positives = 34/75 (45%)

Query: 8    KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYFKK 67
            + KKK  + KK  E KKK  + KK EE KK  + KK ++ KK            +   KK
Sbjct: 1494 EAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKK 1553

Query: 68   AHMVPRCNAMRQIYE 82
            A  + +    ++  E
Sbjct: 1554 AEELKKAEEKKKAEE 1568

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.5 bits (94), Expect = 0.001
 Identities = 23/42 (54%), Positives = 28/42 (66%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            KKK  + KK EEKKK  + KKK EE KK  + KKK ++ KKK
Sbjct: 1289 KKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKK 1330

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.1 bits (93), Expect = 0.001
 Identities = 19/42 (45%), Positives = 31/42 (73%)

Query: 11   KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK ++KKK ++ KKK ++ KK +E KKK ++ KK ++ KK+
Sbjct: 1424 KKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKK 1465

Length = 2084

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 13/50 (26%), Positives = 18/50 (36%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           S   + KTK   K    K   KKK K +    ++ +KK    K       
Sbjct: 72  SDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYV 121

Length = 509

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 39.8 bits (93), Expect = 0.001
 Identities = 14/44 (31%), Positives = 21/44 (47%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
              + +   +    K K+K K +KK ++ K K K K K K K K
Sbjct: 69  PPTEPETPPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPKVK 112

Length = 244

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 16/44 (36%), Positives = 23/44 (52%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K K+K K +KK ++ K K K K K + + K + K KK   K   
Sbjct: 83  KPKEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTAA 126

Length = 244

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 17/45 (37%), Positives = 22/45 (48%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
            +K K +KK K+ K K K K K K + K + K KK   K   K  
Sbjct: 85  KEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTAAKAP 129

Length = 244

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 13/45 (28%), Positives = 20/45 (44%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
                + +   +    K K+K K +++ KK K K K K K K K 
Sbjct: 67  PKPPTEPETPPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPKV 111

Length = 244

>gnl|CDD|219621 pfam07890, Rrp15p, Rrp15p

 Score = 38.1 bits (89), Expect = 0.001
 Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 2/49 (4%)

Query: 7  LKTKKKKKKKKKK--EEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
          L +K    K+K       KK  K KKK + EK +KK K++ + +K++ L
Sbjct: 10 LASKLPASKRKDPILSRSKKLLKAKKKLKSEKLEKKAKRQLRAEKRQAL 58

Rrp15p is required for the formation of 60S ribosomal subunits. Length = 132

>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 17/44 (38%), Positives = 22/44 (50%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           TKK  KK   K + KKKKKK       K +  ++ K   KKK +
Sbjct: 349 TKKPIKKSNSKAKLKKKKKKAGASAVPKSETSQEAKSSGKKKVK 392

Length = 393

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 15/75 (20%), Positives = 31/75 (41%)

Query: 7   LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYFK 66
           ++  K + ++++ ++KKKKKKKK KK        +         +       +  +   K
Sbjct: 169 VELLKARLEEERAKKKKKKKKKKTKKNNATGSSAEATVSSAVPTELSSGAGQVGEAKKLK 228

Query: 67  KAHMVPRCNAMRQIY 81
           K   +   N   ++Y
Sbjct: 229 KKRSIAPDNEKSEVY 243

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 40.5 bits (95), Expect = 0.001
 Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 7/52 (13%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKE-------EEKKKKKKKKKKKKKKKKR 52
           + K+++ KKK K           +          E  K KK KKKKKKKKKR
Sbjct: 237 EKKRQEVKKKLKINNVSLDDDSTETPASDYYDVSEMVKFKKPKKKKKKKKKR 288

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|222665 pfam14303, NAM-associated, No apical meristem-associated C-terminal domain

 Score = 38.9 bits (91), Expect = 0.001
 Identities = 17/53 (32%), Positives = 34/53 (64%), Gaps = 1/53 (1%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKK-KKKRLYL 55
           EGR K K+K ++ K K +K++ +K+K+K+E   K   + +K++ + +KK+   
Sbjct: 63  EGRKKAKEKLRRDKLKAKKEEAEKEKEKEERFMKALAEAEKERAELEKKKAEA 115

This domain is found in a number of different types of plant proteins including NAM-like proteins. Length = 147

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 40.5 bits (95), Expect = 0.001
 Identities = 15/42 (35%), Positives = 21/42 (50%)

Query: 11  KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + +KK K K  KK  +K KK   + +K     K K+  KKK 
Sbjct: 770 RGEKKAKPKAAKKDARKAKKPSAKTQKIAAATKAKRAAKKKV 811

Length = 813

>gnl|CDD|240520 cd13156, KOW_RPL6, KOW motif of Ribosomal Protein L6

 Score = 38.7 bits (91), Expect = 0.001
 Identities = 23/54 (42%), Positives = 30/54 (55%), Gaps = 6/54 (11%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKK------KKKKKKKKKRLYL 55
           K KKKKKKKKK+ E  ++KKKK    EE+K+ +K          KK    + YL
Sbjct: 82  KRKKKKKKKKKEGEFFEEKKKKYVVSEERKEDQKAVDAALLAAIKKVPLLKGYL 135

RPL6 contains KOW motif that has an extra ribosomal role as an oncogenic. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. . Length = 152

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 40.2 bits (94), Expect = 0.001
 Identities = 14/43 (32%), Positives = 30/43 (69%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
               ++ + K KEEK K+++ +KK++E+  + K+K++K ++KK
Sbjct: 392 TDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDERKK 434

Length = 434

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 39.8 bits (93), Expect = 0.001
 Identities = 13/44 (29%), Positives = 32/44 (72%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +T   ++ + K +E+K K+++ +KK++E+  + K+K++K ++KK
Sbjct: 391 ETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDERKK 434

Length = 434

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 39.8 bits (93), Expect = 0.001
 Identities = 13/48 (27%), Positives = 20/48 (41%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           E + K + + KKK   E KKK   + K    +   + K   +K    K
Sbjct: 198 EAKKKAEAEAKKKAAAEAKKKAAAEAKAAAAKAAAEAKAAAEKAAAAK 245

Length = 387

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 39.9 bits (93), Expect = 0.002
 Identities = 15/49 (30%), Positives = 35/49 (71%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + + K + K+K+  K++EK+K+KK ++ ++ E++KK+++ + K + KK 
Sbjct: 130 DRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKP 178

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 16/48 (33%), Positives = 36/48 (75%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           + + K K++ K +K KEE K+K+  K+K++E++KK ++ + ++++KK+
Sbjct: 119 KKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKR 166

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 13/45 (28%), Positives = 34/45 (75%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +  K +K K++ +EK+  K+K+K+KE++ ++ + ++++KK+++ R
Sbjct: 126 EEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVR 170

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 16/51 (31%), Positives = 32/51 (62%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             + +   K+K+K+K+KK E+ + ++++KK+E  + K + KK  KKK   +
Sbjct: 136 EAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNK 186

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 37.9 bits (88), Expect = 0.002
 Identities = 19/30 (63%), Positives = 22/30 (73%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKK 32
           L+G  K  KKKK +  KE KKKKK+KKKKK
Sbjct: 137 LKGHEKKHKKKKHEDDKERKKKKKEKKKKK 166

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 37.7 bits (88), Expect = 0.002
 Identities = 18/48 (37%), Positives = 38/48 (79%)

Query: 6  RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
          RL+   +K KK+ ++E+ ++K+++KK+++E+K  KK+ K++KKK+K+ 
Sbjct: 51 RLELMDEKWKKETEDEEFQQKREEKKRKDEEKTAKKRAKRQKKKQKKK 98

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 37.3 bits (87), Expect = 0.002
 Identities = 20/45 (44%), Positives = 31/45 (68%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKK 48
           E + K ++K  KK+ K +KKK+KKKKKKK ++  KK++K+  K  
Sbjct: 74  EKKRKDEEKTAKKRAKRQKKKQKKKKKKKAKKGNKKEEKEGSKSS 118

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 19/43 (44%), Positives = 25/43 (58%)

Query: 9  TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
               +++ K      KK KK+ K  E KKK +KKKKKKK+KK
Sbjct: 39 LSTFSEEENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKK 81

Length = 413

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 20/45 (44%), Positives = 28/45 (62%)

Query: 7  LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
          L T  +++ K      KK KK+ K  E +KK +KKKKKKK+KK+ 
Sbjct: 39 LSTFSEEENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEP 83

Length = 413

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 19/67 (28%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKK-------------------KK 48
           K K +KKKKKKKE+K+ K + + K   +  KK KK KKK                     
Sbjct: 67  KKKSEKKKKKKKEKKEPKSEGETKLGFKTPKKSKKTKKKPPKPKPNEDVDNAFNKIAELA 126

Query: 49  KKKRLYL 55
           +K  +Y+
Sbjct: 127 EKSNVYI 133

Length = 413

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 7/45 (15%), Positives = 29/45 (64%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +  ++ +K++  E+ ++K+ +++   E+  K+ ++  K+ ++K++
Sbjct: 75  QQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQK 119

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 12/48 (25%), Positives = 22/48 (45%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           E + K + + K K + + K K ++ K K E  K K   +   K + + 
Sbjct: 170 EAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAKAKAAAEAAAKAEAEA 217

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 4/52 (7%)

Query: 3   LEGRLKTKKKKKK----KKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           LE R   +K  K+     K+ EEK+K+ ++ K K+  + K K + + +KK K
Sbjct: 94  LEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAK 145

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 13/44 (29%), Positives = 24/44 (54%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            +   + +++   + K + K+KKK E  K K +K+K K + KK 
Sbjct: 103 EESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKP 146

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 11/50 (22%), Positives = 26/50 (52%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPT 57
             ++   + ++++  + K + K+KK+ E  K K +K+K K + K+     
Sbjct: 101 TEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKPKPSK 150

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 20/44 (45%), Positives = 26/44 (59%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K +KK+KK+KK  EK  KKK  K  +   KK  KK   KK++ K
Sbjct: 115 KKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTKKEEGK 158

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.1 bits (93), Expect = 0.002
 Identities = 18/43 (41%), Positives = 31/43 (72%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KK ++ KK +E++KK  +  KK+ EE KK ++ KKK+ ++KK+
Sbjct: 1675 KKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKK 1717

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.1 bits (93), Expect = 0.002
 Identities = 19/43 (44%), Positives = 30/43 (69%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK ++ KK EE +KK  +  KKE E+ KK ++ KKK+ ++K+
Sbjct: 1674 KKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKK 1716

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.1 bits (93), Expect = 0.002
 Identities = 19/42 (45%), Positives = 29/42 (69%)

Query: 11   KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KKK ++ KK ++ KKK ++ KK EE KKK ++ KK  + KK+
Sbjct: 1437 KKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKK 1478

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 39.7 bits (92), Expect = 0.002
 Identities = 12/44 (27%), Positives = 22/44 (50%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
            + KK  +  K E +    + +  EE+ +  +KKK++ KKK    
Sbjct: 1340 EAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAA 1383

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 39.7 bits (92), Expect = 0.002
 Identities = 18/43 (41%), Positives = 29/43 (67%)

Query: 10   KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KK ++ KKK EE KK ++ +KK  E  KK+ ++ KK ++ KK+
Sbjct: 1668 KKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKK 1710

Length = 2084

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 12/44 (27%), Positives = 17/44 (38%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            T    +    K++ K   K    K   KKK K +    KK +K
Sbjct: 65  DTDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEK 108

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 12/44 (27%), Positives = 17/44 (38%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
                +    KK+ K   K    K   +KK K +    KK +KK
Sbjct: 66  TDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKK 109

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 39.2 bits (92), Expect = 0.002
 Identities = 12/44 (27%), Positives = 16/44 (36%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
                 KKK K   K    K   KK+ + +    KK +KK    
Sbjct: 70  TESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALD 113

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 39.2 bits (92), Expect = 0.002
 Identities = 11/44 (25%), Positives = 17/44 (38%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
               +    KKK +   K    K   ++K K +    KK +KK 
Sbjct: 67  DDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKN 110

Length = 509

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 39.2 bits (92), Expect = 0.002
 Identities = 15/41 (36%), Positives = 22/41 (53%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKK 44
           E      +KK+K K++ +KKK K+ K  K  +K   K  KK
Sbjct: 242 EAAESRAEKKRKSKEEIKKKKPKESKGVKALKKVVAKGMKK 282

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 39.4 bits (93), Expect = 0.002
 Identities = 9/39 (23%), Positives = 16/39 (41%)

Query: 19  KEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPT 57
             EK +K +       +    KK   K  +K K+ Y+ +
Sbjct: 814 LAEKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVAS 852

Length = 859

>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional

 Score = 39.6 bits (93), Expect = 0.002
 Identities = 17/36 (47%), Positives = 26/36 (72%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKK 41
           R K +K+  K++K+  K KK+++KKKKE EK +K K
Sbjct: 555 REKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKAK 590

Length = 651

>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function (DUF1754)

 Score = 37.0 bits (86), Expect = 0.002
 Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 5/50 (10%)

Query: 5  GRLKTKKKK--KKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
          G+LK K KK   KKKKK   KKKKK K K+E   +K++++K   +   K 
Sbjct: 8  GKLKLKGKKIDVKKKKK---KKKKKNKSKEEVVTEKEEEEKSSAESDLKE 54

This is a eukaryotic protein family of unknown function. Length = 90

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 13/35 (37%), Positives = 25/35 (71%)

Query: 11  KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKK 45
           K  + K+K + ++ K+K++K+ E E K++K+ KKK
Sbjct: 271 KPVRPKRKTKAQRNKEKRRKELEREAKEEKQLKKK 305

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 39.0 bits (91), Expect = 0.002
 Identities = 16/44 (36%), Positives = 21/44 (47%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +  K   + +   E    K K+K K E+K KK K K K K K K
Sbjct: 65  EQPKPPTEPETPPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPK 108

Length = 244

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 15/47 (31%), Positives = 40/47 (85%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           R  ++++ KK+ ++ E KK K++++K+EEE++K++KK+++++++K++
Sbjct: 173 RNVSQEEAKKRLQEWELKKLKQQQQKREEERRKQRKKQQEEEERKQK 219

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 18/44 (40%), Positives = 18/44 (40%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
                KK  KKK  K     KK  K   K  KK KK  KK  KK
Sbjct: 219 AKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKK 262

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 39.1 bits (91), Expect = 0.002
 Identities = 17/47 (36%), Positives = 21/47 (44%)

Query: 5   GRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            + K+  KK  KKK  +     KK  K   +  KK KK  KK  KK 
Sbjct: 217 AKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKA 263

Length = 333

>gnl|CDD|187751 cd09270, RNase_H2-B, Ribonuclease H2-B is a subunit of the eukaryotic RNase H complex which cleaves RNA-DNA hybrids

 Score = 38.4 bits (90), Expect = 0.002
 Identities = 24/49 (48%), Positives = 31/49 (63%), Gaps = 3/49 (6%)

Query: 7   LKTKKKKKKKKK---KEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           L  K ++ KKK+   KE +  + KKK    EE+KKKKKKK  KKKK K+
Sbjct: 149 LLKKVERLKKKELDIKEAEAARDKKKSNNAEEEKKKKKKKSAKKKKLKK 197

Ribonuclease H2B is one of the three proteins of eukaryotic RNase H2 complex that is required for nucleic acid binding and hydrolysis. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. Eukaryotic RNase HII is active during replication and is believed to play a role in removal of Okazaki fragment primers and single ribonucleotides in DNA-DNA duplexes. Eukaryotic RNase HII is functional when it forms a complex with RNase H2B and RNase H2C proteins. It is speculated that the two accessory subunits are required for correct folding of the catalytic subunit of RNase HII. Mutations in the three subunits of human RNase HII cause neurological disorder. Length = 211

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 38.5 bits (90), Expect = 0.002
 Identities = 16/53 (30%), Positives = 43/53 (81%)

Query: 1  MSLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
             E R K ++K++ ++K+EE+ +++++KKK+EEE+K+++++ +K++++ ++L
Sbjct: 26 EEREERKKLEEKREGERKEEEELEEEREKKKEEEERKEREEQARKEQEEYEKL 78

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 38.0 bits (89), Expect = 0.002
 Identities = 27/62 (43%), Positives = 35/62 (56%), Gaps = 10/62 (16%)

Query: 2   SLEGRLKTKKKK------KKKKKKEEKKKKKKKKK----KKEEEKKKKKKKKKKKKKKKK 51
           S++ RLKT K K       K+ KK+EK+  K+ KK    KK E KK   KKK  + KK K
Sbjct: 90  SMKSRLKTLKNKDREREILKEHKKQEKELIKEGKKPYYLKKSEIKKLVLKKKFDELKKSK 149

Query: 52  RL 53
           +L
Sbjct: 150 QL 151

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 16/43 (37%), Positives = 19/43 (44%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKK 48
           R + K K K  KK   K KK   K +K     K K+  KKK  
Sbjct: 770 RGEKKAKPKAAKKDARKAKKPSAKTQKIAAATKAKRAAKKKVA 812

Length = 813

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 14/42 (33%), Positives = 21/42 (50%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           + +KK K K  +K  +K KK   + +K     K K+  KKK 
Sbjct: 770 RGEKKAKPKAAKKDARKAKKPSAKTQKIAAATKAKRAAKKKV 811

Length = 813

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 15/45 (33%), Positives = 29/45 (64%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           K  + K +    EE + K K++K K+EE +KK+K++  + K+K++
Sbjct: 384 KLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQ 428

Length = 434

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 38.6 bits (90), Expect = 0.002
 Identities = 15/42 (35%), Positives = 22/42 (52%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKK 45
           EG++  KK K  K KK  KK   + +KK  E + +   +KK 
Sbjct: 111 EGKVNAKKDKLSKAKKAAKKAALEAEKKVNEARAEAVAEKKA 152

Length = 186

>gnl|CDD|203848 pfam08079, Ribosomal_L30_N, Ribosomal L30 N-terminal domain

 Score = 36.4 bits (85), Expect = 0.002
 Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 5/41 (12%)

Query: 12 KKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            KK+K+ E+ + K+ KK+       KK  +KKK+K   KR
Sbjct: 2  LLKKRKRNEKLRAKRAKKR-----AAKKAARKKKRKLIFKR 37

This presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018. Length = 71

>gnl|CDD|204792 pfam11947, DUF3464, Protein of unknown function (DUF3464)

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 16/50 (32%), Positives = 23/50 (46%)

Query: 11 KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIP 60
              +K+   E K+ +KK  K   +    K K K+KK K KR    + IP
Sbjct: 1  MASSRKRLPFEPKRSRKKGVKALRKAAVAKSKDKQKKPKSKRAASESGIP 50

This family of proteins are functionally uncharacterized. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length. Length = 149

>gnl|CDD|217834 pfam03998, Utp11, Utp11 protein

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 22/69 (31%), Positives = 41/69 (59%), Gaps = 2/69 (2%)

Query: 1   MSLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKK--KKKKKKKKKKKKKKRLYLPTS 58
           +  E + K   KKK+K  KE K++K+++KK K+ E++   +++  KK K KKK++     
Sbjct: 167 LVDEKQKKKSAKKKRKLYKELKERKEREKKLKKVEQRLELQRELMKKGKGKKKKIVKDKD 226

Query: 59  IPLSHYFKK 67
             + + +KK
Sbjct: 227 GKVVYKWKK 235

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 239

>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR)

 Score = 39.7 bits (92), Expect = 0.002
 Identities = 20/43 (46%), Positives = 27/43 (62%)

Query: 20  EEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLS 62
           E+K KK KKK+KKE+EK++ K KKK+ +  K  L      P S
Sbjct: 196 EKKSKKPKKKEKKEKEKERDKDKKKEVEGFKSLLLALDDSPAS 238

This family consists of several bovine specific leukaemia virus receptors which are thought to function as transmembrane proteins, although their exact function is unknown. Length = 561

>gnl|CDD|218612 pfam05501, DUF755, Domain of unknown function (DUF755)

 Score = 37.4 bits (87), Expect = 0.002
 Identities = 13/46 (28%), Positives = 28/46 (60%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +L+  ++K+K+++K  +  KKK+KK +    +  KK   KK+++  
Sbjct: 60  QLQQPQRKRKEQQKSSQTHKKKRKKSRHVSSRSAKKISAKKRRRSS 105

This family is predominated by ORFs from Circoviridae. The function of this family remains to be determined. Length = 122

>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase

 Score = 39.9 bits (93), Expect = 0.002
 Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 12/61 (19%)

Query: 4  EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKK------------KKKKKKKKKK 51
          E ++ T+++ ++KKKKEEK K+K+ KK K  +K+ K K             KK +KK +K
Sbjct: 9  EKKILTEEELERKKKKEEKAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKKSEKKSRK 68

Query: 52 R 52
          R
Sbjct: 69 R 69

Length = 1066

>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota)

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 18/50 (36%), Positives = 35/50 (70%)

Query: 1   MSLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           M  + + K K K ++  +K + + K+KKK+KK+EEKKKK+ ++ +++ +K
Sbjct: 305 MISDLKRKLKSKFERDNEKLDAEVKEKKKEKKKEEKKKKQIERLEERIEK 354

DNA Topoisomerase I (eukaryota), DNA topoisomerase V, Vaccina virus topoisomerase, Variola virus topoisomerase, Shope fibroma virus topoisomeras. Length = 391

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 37.5 bits (88), Expect = 0.003
 Identities = 13/27 (48%), Positives = 17/27 (62%)

Query: 6  RLKTKKKKKKKKKKEEKKKKKKKKKKK 32
            K +KK +K K K EKKK KK++ K 
Sbjct: 71 WEKAEKKAEKAKAKAEKKKAKKEEPKP 97

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 11/40 (27%), Positives = 25/40 (62%)

Query: 11 KKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
          + +++K   +++  K   K+K + EKK+++KK + +K  K
Sbjct: 1  EPEEEKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAK 40

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 12/40 (30%), Positives = 24/40 (60%)

Query: 10 KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKK 49
          + +++K    +E  K   K+K K E+K+++KK + +K  K
Sbjct: 1  EPEEEKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAK 40

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 15/43 (34%), Positives = 21/43 (48%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
           K K  + KKK + E K K + K K + E+ K K +  K K   
Sbjct: 165 KKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAKAKAAA 207

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 16/49 (32%), Positives = 29/49 (59%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           E + K + + +KK K+E KK+ +++ K K   + KKK  + KKK + + 
Sbjct: 131 EAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEA 179

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 9/48 (18%), Positives = 31/48 (64%)

Query: 5   GRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            +    KK+++++KK E++ ++ +K++  E+ ++K+ +++   +K  +
Sbjct: 58  QKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAK 105

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 39.4 bits (91), Expect = 0.003
 Identities = 22/49 (44%), Positives = 31/49 (63%)

Query: 4    EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            E +   +KKK  + KK E+KKK  + KKK EE KK  + KKK ++ KK+
Sbjct: 1282 ELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKK 1330

Length = 2084

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 38.2 bits (89), Expect = 0.003
 Identities = 17/44 (38%), Positives = 22/44 (50%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K K K +KK KK + K K K K K + + + K KK   K   K 
Sbjct: 85  KEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTAAKA 128

Length = 244

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 38.2 bits (89), Expect = 0.003
 Identities = 17/52 (32%), Positives = 21/52 (40%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSI 59
             KK KK K K + K K K K K + + KK   K   K      +   P S 
Sbjct: 90  PEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTAAKAPAAPNQPARPPSA 141

Length = 244

>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 19/44 (43%), Positives = 28/44 (63%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           K KKKKKK   K+ K KK   K++K   K KK +++++ +KK K
Sbjct: 257 KKKKKKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRERLQKKIK 300

Length = 300

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 12/40 (30%), Positives = 31/40 (77%)

Query: 15 KKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
          ++K++++++++K   K++E +++++K++KKKK KK K   
Sbjct: 42 EEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETT 81

Length = 529

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 16/46 (34%), Positives = 20/46 (43%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +  + K K   KK  +KK  K     K+  K   K  KK KK  KK
Sbjct: 213 KKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKK 258

Length = 333

>gnl|CDD|219547 pfam07741, BRF1, Brf1-like TBP-binding domain

 Score = 36.1 bits (84), Expect = 0.003
 Identities = 13/32 (40%), Positives = 22/32 (68%)

Query: 19 KEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
          +E+++K+ K+K  +     KKKKK+K KKK+ 
Sbjct: 30 EEQEEKELKQKADEGNNSGKKKKKRKAKKKRD 61

This region covers both the Brf homology II and III regions. This region is involved in binding TATA binding protein. Length = 95

>gnl|CDD|220431 pfam09831, DUF2058, Uncharacterized protein conserved in bacteria (DUF2058)

 Score = 37.6 bits (88), Expect = 0.003
 Identities = 15/46 (32%), Positives = 29/46 (63%)

Query: 7  LKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
          L  KKK KK KK++ K++K+ +K   + + + K+  ++ K +K +R
Sbjct: 11 LVDKKKAKKAKKEKRKQRKQARKGADDGDDELKQAAEEAKAEKAER 56

This domain, found in various prokaryotic proteins, has no known function. Length = 177

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 37.6 bits (88), Expect = 0.003
 Identities = 17/49 (34%), Positives = 28/49 (57%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLY 54
            +K++ K  K K +E +  K+ KK++KE  K+ KK    KK + KK + 
Sbjct: 90  SMKSRLKTLKNKDREREILKEHKKQEKELIKEGKKPYYLKKSEIKKLVL 138

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 13/43 (30%), Positives = 29/43 (67%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + K +    +E + K K++K K+EE +KK+K++  + K+K+++
Sbjct: 387 EVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQK 429

Length = 434

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 38.6 bits (90), Expect = 0.003
 Identities = 15/46 (32%), Positives = 30/46 (65%)

Query: 6   RLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
           +L   K +    ++ E K K++K K++E EKK+K++  + K+K++K
Sbjct: 384 KLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQK 429

Length = 434

>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR)

 Score = 39.3 bits (91), Expect = 0.003
 Identities = 20/50 (40%), Positives = 30/50 (60%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTS 58
           +K  +K      EKK KK KKK+K+E++K++ K KKK+ +  K L L   
Sbjct: 184 SKSPEKGDVPAVEKKSKKPKKKEKKEKEKERDKDKKKEVEGFKSLLLALD 233

This family consists of several bovine specific leukaemia virus receptors which are thought to function as transmembrane proteins, although their exact function is unknown. Length = 561

>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota)

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 21/56 (37%), Positives = 35/56 (62%), Gaps = 2/56 (3%)

Query: 5   GRLKTKKKKKKKKKKEEKKKKKKKKKK--KEEEKKKKKKKKKKKKKKKKRLYLPTS 58
            R   K   + K+KK+EKKK++KKKK+  + EE+ +K + +   K++ K + L TS
Sbjct: 318 ERDNEKLDAEVKEKKKEKKKEEKKKKQIERLEERIEKLEVQATDKEENKTVALGTS 373

DNA Topoisomerase I (eukaryota), DNA topoisomerase V, Vaccina virus topoisomerase, Variola virus topoisomerase, Shope fibroma virus topoisomeras. Length = 391

>gnl|CDD|240578 cd12951, RRP7_Rrp7A, RRP7 domain ribosomal RNA-processing protein 7 homolog A (Rrp7A) and similar proteins

 Score = 37.3 bits (87), Expect = 0.003
 Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 9/55 (16%)

Query: 8  KTKKKKKKKKKKEE---------KKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
          + ++K++K+K+ E          KK ++ K  +KE    K  +K+KKKKKKK+  
Sbjct: 34 EEEEKEEKEKEAEPDEDGWVTVTKKGRRPKTARKESVAAKAAEKEKKKKKKKELK 88

The family corresponds to the RRP7 domain of Rrp7A, also termed gastric cancer antigen Zg14, and similar proteins which are yeast ribosomal RNA-processing protein 7 (Rrp7p) homologs mainly found in Metazoans. The cellular function of Rrp7A remains unclear currently. Rrp7A harbors an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal RRP7 domain. Length = 129

>gnl|CDD|219913 pfam08576, DUF1764, Eukaryotic protein of unknown function (DUF1764)

 Score = 36.3 bits (84), Expect = 0.003
 Identities = 16/52 (30%), Positives = 29/52 (55%)

Query: 1  MSLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            ++      KK+KKKKK+  K  + K  KK +++ KKK +  +  ++ K+R
Sbjct: 12 RDIDDIFSNIKKRKKKKKRTAKTARPKATKKGQKKDKKKDEFPEFPEESKRR 63

This is a family of eukaryotic proteins of unknown function. This family contains many hypothetical proteins. Length = 98

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 38.4 bits (90), Expect = 0.004
 Identities = 9/36 (25%), Positives = 19/36 (52%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKK 38
           L  R + K+K+K+K K +++ +  K   K+ +    
Sbjct: 396 LAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGT 431

Length = 434

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 38.1 bits (89), Expect = 0.004
 Identities = 15/40 (37%), Positives = 23/40 (57%)

Query: 14  KKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
            +K+ + E++ KKKK+ K +  K+  KKKKKK     K  
Sbjct: 74  GEKELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSP 113

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 38.3 bits (89), Expect = 0.004
 Identities = 14/40 (35%), Positives = 27/40 (67%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKK 49
           K+ ++K+K+ EE K K+  + K + E + +KK K++ KK+
Sbjct: 112 KQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKKQ 151

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 38.3 bits (89), Expect = 0.004
 Identities = 16/46 (34%), Positives = 22/46 (47%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKK 49
           E        + KKK  E KKK + + K K E K K K ++ K K +
Sbjct: 154 EEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAE 199

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 20/47 (42%), Positives = 25/47 (53%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
               K KK+KK+KK  E+  KKK  K  K   KK  KK   KK++ K
Sbjct: 112 IKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTKKEEGK 158

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 39.0 bits (90), Expect = 0.004
 Identities = 19/49 (38%), Positives = 28/49 (57%)

Query: 3    LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
             + + +  KK  + KKK E+ KKK  + KK  E KKK  + KK ++ KK
Sbjct: 1475 AKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKK 1523

Length = 2084

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 38.1 bits (89), Expect = 0.004
 Identities = 16/46 (34%), Positives = 29/46 (63%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
             + KKKK++ +E+ +  + + +KK + K++ KKKK K+ K  K L
Sbjct: 227 LKESKKKKRETEEDVEAAESRAEKKRKSKEEIKKKKPKESKGVKAL 272

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein; Validated

 Score = 38.6 bits (90), Expect = 0.004
 Identities = 17/43 (39%), Positives = 21/43 (48%)

Query: 18  KKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIP 60
           +K+ K KKK    K +  K  KKK K K KK  K+   P   P
Sbjct: 748 EKKTKAKKKSASTKGKAAKTVKKKSKAKSKKTTKKRAGPLYTP 790

Length = 860

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 37.8 bits (88), Expect = 0.004
 Identities = 10/45 (22%), Positives = 22/45 (48%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           + + +  +++ K   + +   +    + K+K K +KK KK K K 
Sbjct: 57  QPEPEPPEEQPKPPTEPETPPEPTPPKPKEKPKPEKKPKKPKPKP 101

Length = 244

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 38.6 bits (90), Expect = 0.004
 Identities = 14/41 (34%), Positives = 31/41 (75%)

Query: 10 KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
          ++K++KK+++E+   K+++  ++EE+++KKKK KK K+   
Sbjct: 42 EEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTT 82

Length = 529

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 38.3 bits (89), Expect = 0.004
 Identities = 16/42 (38%), Positives = 18/42 (42%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            K  KK KK  +K  KK  K  K+  KK  K   K  K   K
Sbjct: 246 AKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAK 287

Length = 333

>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex

 Score = 36.9 bits (86), Expect = 0.004
 Identities = 16/54 (29%), Positives = 38/54 (70%), Gaps = 8/54 (14%)

Query: 5  GRLKTKKKKKKKKKKEEKKKKKKKKKKKE--------EEKKKKKKKKKKKKKKK 50
          GR+   ++K+++K++E+++K++K++K+KE        EE++K+ ++ +K K K 
Sbjct: 9  GRIIDIEEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNKP 62

This entry is characterized by proteins with alternating conserved and low-complexity regions. Bud13 together with Snu17p and a newly identified factor, Pml1p/Ylr016c, form a novel trimeric complex. called The RES complex, pre-mRNA retention and splicing complex. Subunits of this complex are not essential for viability of yeasts but they are required for efficient splicing in vitro and in vivo. Furthermore, inactivation of this complex causes pre-mRNA leakage from the nucleus. Bud13 contains a unique, phylogenetically conserved C-terminal region of unknown function. Length = 141

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 38.5 bits (90), Expect = 0.004
 Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 6/52 (11%)

Query: 15  KKKKKEEKKKKKKKKKKKEEEKKKKKKKKKK------KKKKKKRLYLPTSIP 60
           KK+KK+ K+K++   K +  +K+K+K KK K      K+ KK   Y  + +P
Sbjct: 627 KKRKKKRKRKRRFLTKIEGVKKEKRKDKKLKNVIINEKRNKKAAKYQVSQLP 678

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 38.1 bits (89), Expect = 0.004
 Identities = 16/54 (29%), Positives = 20/54 (37%), Gaps = 3/54 (5%)

Query: 2   SLEGRLKTKKKKKKKKK---KEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
               + K KKKKKK KK        +         E      +  + KK KKKR
Sbjct: 178 EERAKKKKKKKKKKTKKNNATGSSAEATVSSAVPTELSSGAGQVGEAKKLKKKR 231

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 39.0 bits (91), Expect = 0.004
 Identities = 15/42 (35%), Positives = 20/42 (47%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKK 49
             KK K K  KK+ +K KK   K ++     K K+  KKK  
Sbjct: 771 GEKKAKPKAAKKDARKAKKPSAKTQKIAAATKAKRAAKKKVA 812

Length = 813

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 39.0 bits (91), Expect = 0.004
 Identities = 13/42 (30%), Positives = 20/42 (47%)

Query: 10  KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            +KK K K  ++  +K KK   K ++     K K+  KKK  
Sbjct: 771 GEKKAKPKAAKKDARKAKKPSAKTQKIAAATKAKRAAKKKVA 812

Length = 813

>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR)

 Score = 38.5 bits (89), Expect = 0.004
 Identities = 18/53 (33%), Positives = 27/53 (50%)

Query: 4   EGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLP 56
               + K  + ++ KK  K KKKK++K+KEE+KKKKK    +          P
Sbjct: 261 SEPDEPKDAEAEETKKSPKHKKKKQRKEKEEKKKKKKHHHHRCHHSDGGAEQP 313

This family consists of several bovine specific leukaemia virus receptors which are thought to function as transmembrane proteins, although their exact function is unknown. Length = 561

>gnl|CDD|219913 pfam08576, DUF1764, Eukaryotic protein of unknown function (DUF1764)

 Score = 35.9 bits (83), Expect = 0.004
 Identities = 15/44 (34%), Positives = 29/44 (65%)

Query: 9  TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           KK+KKKKK+  +  + K  KK ++++KKK +  +  ++ K++R
Sbjct: 21 IKKRKKKKKRTAKTARPKATKKGQKKDKKKDEFPEFPEESKRRR 64

This is a family of eukaryotic proteins of unknown function. This family contains many hypothetical proteins. Length = 98

>gnl|CDD|221952 pfam13166, AAA_13, AAA domain

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 16/43 (37%), Positives = 26/43 (60%)

Query: 9   TKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            + KK+ KK +E+ ++ + + +KKEEE +K K K   K  KK 
Sbjct: 98  EELKKELKKLEEKIEQLEAEIEKKEEELEKAKNKFLDKAWKKL 140

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease. Length = 713

>gnl|CDD|221952 pfam13166, AAA_13, AAA domain

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 14/49 (28%), Positives = 26/49 (53%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKK 50
            L+  LK  ++K ++ + E +KK+++ +K K +   K  KK  KK    
Sbjct: 99  ELKKELKKLEEKIEQLEAEIEKKEEELEKAKNKFLDKAWKKLAKKYDSN 147

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease. Length = 713

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 36.5 bits (85), Expect = 0.004
 Identities = 13/43 (30%), Positives = 35/43 (81%)

Query: 10 KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
          K+K++++KK +E+ K+K+++++ EE K+ ++++K++ +K+ K 
Sbjct: 29 KRKQQRRKKAQEEAKEKEREERIEERKRIREERKQELEKQLKE 71

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	342
cd02620	236	Peptidase_C1A_CathepsinB Cathepsin B group; compos	99.96
KOG1542|consensus	372		99.95
PTZ00049	693	cathepsin C-like protein; Provisional	99.94
cd02621	243	Peptidase_C1A_CathepsinC Cathepsin C; also known a	99.94
KOG1543|consensus	325		99.94
cd02698	239	Peptidase_C1A_CathepsinX Cathepsin X; the only pap	99.93
cd02620	236	Peptidase_C1A_CathepsinB Cathepsin B group; compos	99.93
KOG1542|consensus	372		99.92
PTZ00203	348	cathepsin L protease; Provisional	99.92
cd02621	243	Peptidase_C1A_CathepsinC Cathepsin C; also known a	99.92
KOG1543|consensus	325		99.92
PTZ00364	548	dipeptidyl-peptidase I precursor; Provisional	99.92
PTZ00203	348	cathepsin L protease; Provisional	99.91
cd02698	239	Peptidase_C1A_CathepsinX Cathepsin X; the only pap	99.91
PTZ00200	448	cysteine proteinase; Provisional	99.91
cd02248	210	Peptidase_C1A Peptidase C1A subfamily (MEROPS data	99.91
PTZ00021	489	falcipain-2; Provisional	99.9
smart00645	174	Pept_C1 Papain family cysteine protease.	99.9
PTZ00021	489	falcipain-2; Provisional	99.9
PTZ00200	448	cysteine proteinase; Provisional	99.89
PF00112	219	Peptidase_C1: Papain family cysteine protease This	99.89
cd02248	210	Peptidase_C1A Peptidase C1A subfamily (MEROPS data	99.88
PTZ00049	693	cathepsin C-like protein; Provisional	99.88
PF00112	219	Peptidase_C1: Papain family cysteine protease This	99.87
PTZ00364	548	dipeptidyl-peptidase I precursor; Provisional	99.86
KOG1544|consensus	470		99.82
KOG1544|consensus	470		99.81
cd02619	223	Peptidase_C1 C1 Peptidase family (MEROPS database	99.8
PTZ00462	1004	Serine-repeat antigen protein; Provisional	99.8
cd02619	223	Peptidase_C1 C1 Peptidase family (MEROPS database	99.78
smart00645	174	Pept_C1 Papain family cysteine protease.	99.75
PTZ00462	1004	Serine-repeat antigen protein; Provisional	99.69
cd00585	437	Peptidase_C1B Peptidase C1B subfamily (MEROPS data	99.55
COG4870	372	Cysteine protease [Posttranslational modification,	99.39
PF03051	438	Peptidase_C1_2: Peptidase C1-like family This fami	98.8
COG4870	372	Cysteine protease [Posttranslational modification,	98.49
cd00585	437	Peptidase_C1B Peptidase C1B subfamily (MEROPS data	97.08
PF03051	438	Peptidase_C1_2: Peptidase C1-like family This fami	96.89
COG3579	444	PepC Aminopeptidase C [Amino acid transport and me	96.76
PF13529	144	Peptidase_C39_2: Peptidase_C39 like family; PDB: 3	84.03
COG3579	444	PepC Aminopeptidase C [Amino acid transport and me	82.53
PF14399	317	Transpep_BrtH: NlpC/p60-like transpeptidase	80.78

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

Probab=99.96  E-value=5.1e-29  Score=230.58  Aligned_cols=139  Identities=53%  Similarity=0.998  Sum_probs=107.6

Q ss_pred             CcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC-CCCCCCCchhhHHHH
Q psy1911         188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN-CWGCNGGWPQLAWRF  266 (342)
Q Consensus       188 P~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~-~~GC~GG~~~~a~~y  266 (342)
                      |++||||++|++|..|+||+||+.||||||||++++||++++|++++...+.||+|+||||+.. ..||+||++..||+|
T Consensus         1 p~~~DwR~~~~~~~~v~~v~dQg~CGsCwAfa~~~~le~~~~i~~~~~~~~~LS~Q~lidC~~~~~~gC~GG~~~~a~~~   80 (236)
T cd02620           1 PESFDAREKWPNCISIGEIRDQGNCGSCWAFSAVEAFSDRLCIQSNGKENVLLSAQDLLSCCSGCGDGCNGGYPDAAWKY   80 (236)
T ss_pred             CCcccchhhCCCCCCccccCCcccchhHHHHHHHHHHhhHHHHhcCCCCccccCHHHHHhhcCCCCCCCCCCCHHHHHHH
Confidence            8999999999988888999999999999999999999999999988555789999999999876 559999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCCCCCccCCCCCCccCCCCCccccccccccccccccccccccccccccceeEe
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV  340 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~~~c~~~~~~~~~~C~~~~~~~~p~C~~~C~~~~~~~~y~~d~~~~~~~y~~  340 (342)
                      |+++||++|.+|       ||....|..+.... .+|..     ++.|+..|. ......|..+.++....|.+
T Consensus        81 i~~~G~~~e~~y-------PY~~~~~~~~~~~~-~~~~~-----~~~~~~~C~-~~~~~~~~~~~~~~~~~~~~  140 (236)
T cd02620          81 LTTTGVVTGGCQ-------PYTIPPCGHHPEGP-PPCCG-----TPYCTPKCQ-DGCEKTYEEDKHKGKSAYSV  140 (236)
T ss_pred             HHhcCCCcCCEe-------cCcCCCCccCCCCC-CCCCC-----CCCCCCCCC-cCCccccceeeeeecceeee
Confidence            999999996655       99876665433222 34542     335555665 33222355555555544543

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

>KOG1542|consensus

Probab=99.95  E-value=9.5e-29  Score=232.90  Aligned_cols=95  Identities=35%  Similarity=0.653  Sum_probs=88.0

Q ss_pred             cCCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchh
Q psy1911         182 QNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQ  261 (342)
Q Consensus       182 ~~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~  261 (342)
                      .....||++||||++    +.||||+|||.||||||||+++++|....|+++  ..+.||+|+||||+....||+||.+.
T Consensus       152 ~~~~~lP~~fDWR~k----gaVTpVKnQG~CGSCWAFS~tG~vEga~~i~~g--~LvsLSEQeLvDCD~~d~gC~GGl~~  225 (372)
T KOG1542|consen  152 EPGESLPESFDWRDK----GAVTPVKNQGMCGSCWAFSTTGAVEGAWAIATG--KLVSLSEQELVDCDSCDNGCNGGLMD  225 (372)
T ss_pred             CCCCCCCcccchhcc----CCccccccCCcCcchhhhhhhhhhhhHHHhhcC--cccccchhhhhcccCcCCcCCCCChh
Confidence            356789999999999    999999999999999999999999999999999  68999999999998777799999999


Q ss_pred             hHHHHh-hhcccccCCCCCCCCCcccCCC
Q psy1911         262 LAWRFW-GHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       262 ~a~~y~-~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      .||+|+ ...||.+|.+|       ||++
T Consensus       226 nA~~~~~~~gGL~~E~dY-------PY~g  247 (372)
T KOG1542|consen  226 NAFKYIKKAGGLEKEKDY-------PYTG  247 (372)
T ss_pred             HHHHHHHHhCCccccccC-------Cccc
Confidence            999995 55699999999       8876

>PTZ00049 cathepsin C-like protein; Provisional

Probab=99.94  E-value=2.6e-27  Score=243.06  Aligned_cols=103  Identities=29%  Similarity=0.536  Sum_probs=91.2

Q ss_pred             CCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCc--------cccccCHHHHHhhCCCCCCC
Q psy1911         184 AKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGY--------FTGQISAQHIVACTPNCWGC  255 (342)
Q Consensus       184 ~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~--------~~~~LS~Q~lldC~~~~~GC  255 (342)
                      ..+||++||||+.|++|+.|+||+|||.||||||||++++||+|++|++++.        +...||+|+||||+..++||
T Consensus       378 ~~~LP~sfDWRd~~~~~~~vtpVkdQG~CGSCWAFAat~alEsR~~Ia~~~~l~~~~~~~~~~~LS~QqLLDCs~~nqGC  457 (693)
T PTZ00049        378 IDELPKNFTWGDPFNNNTREYDVTNQLLCGSCYIASQMYAFKRRIEIALTKNLDKKYLNNFDDLLSIQTVLSCSFYDQGC  457 (693)
T ss_pred             cccCCCCEecCcCCCCCCcccCCCCCccCcHHHHHHHHHHHHHHHHHHhccccccccccccccCcCHHHhcccCCCCCCc
Confidence            5689999999999999999999999999999999999999999999997531        23479999999999877899


Q ss_pred             CCCchhhHHHHhhhcccccCCCCCCCCCcccCCC--CCCc
Q psy1911         256 NGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTL--APCE  293 (342)
Q Consensus       256 ~GG~~~~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~--~~c~  293 (342)
                      +||++..|++|+.++||+++..|       ||++  +.|.
T Consensus       458 ~GG~~~~A~kya~~~GI~tEscY-------PY~a~~g~C~  490 (693)
T PTZ00049        458 NGGFPYLVSKMAKLQGIPLDKVF-------PYTATEQTCP  490 (693)
T ss_pred             CCCcHHHHHHHHHHCCCCcCCcc-------CCcCCCCCCC
Confidence            99999999999999999996555       8875  4564

>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=99.94  E-value=3.5e-27  Score=219.10  Aligned_cols=96  Identities=34%  Similarity=0.628  Sum_probs=87.8

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCC----ccccccCHHHHHhhCCCCCCCCCCchhh
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNG----YFTGQISAQHIVACTPNCWGCNGGWPQL  262 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~----~~~~~LS~Q~lldC~~~~~GC~GG~~~~  262 (342)
                      ||++||||+.|++|..|+||+||+.||||||||++++||++++|+++.    ...+.||+|+||||+....||+||++..
T Consensus         1 lP~~fDwr~~~~~~~~v~~v~dQg~CGsCwAfa~~~~ies~~~i~~~~~~~~~~~~~lS~q~l~dC~~~~~GC~GG~~~~   80 (243)
T cd02621           1 LPKSFDWGDVNNGFNYVSPVRNQGGCGSCYAFASVYALEARIMIASNKTDPLGQQPILSPQHVLSCSQYSQGCDGGFPFL   80 (243)
T ss_pred             CCCcccccccCCCCcccccCCCCCcCccHHHHHHHHHHHHHHHHHhCCCCccccCcccCHHHhhhhcCCCCCCCCCCHHH
Confidence            799999999998889999999999999999999999999999999875    2368899999999987667999999999


Q ss_pred             HHHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         263 AWRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       263 a~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |++|+.++||+++.+|       ||..
T Consensus        81 a~~~~~~~Gi~~e~~y-------PY~~  100 (243)
T cd02621          81 VGKFAEDFGIVTEDYF-------PYTA  100 (243)
T ss_pred             HHHHHHhcCcCCCcee-------CCCC
Confidence            9999999999996665       8875

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

>KOG1543|consensus

Probab=99.94  E-value=4e-27  Score=227.19  Aligned_cols=92  Identities=39%  Similarity=0.743  Sum_probs=84.3

Q ss_pred             CCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCC-CCCCCchh
Q psy1911         183 NAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCW-GCNGGWPQ  261 (342)
Q Consensus       183 ~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~-GC~GG~~~  261 (342)
                      ...+||++||||++|   +.+.|||||+.||||||||++++||+|++|++++ .++.||+||||||+..++ ||+||++.
T Consensus       105 ~~~~~p~s~DwR~~~---~~~~~vkdQg~CgsCWAFaa~~aie~~~~i~~g~-~l~sLSeq~lvdC~~~~~~GC~GG~~~  180 (325)
T KOG1543|consen  105 DGDDLPDSFDWRDKG---AVTPPVKDQGSCGSCWAFAATGALEDRYNIKTGG-KLLSLSEQDLVDCCGECGDGCNGGEPK  180 (325)
T ss_pred             chhhCCCCccccccC---CcCCCcCCCCcCcchHHHHHHHHHHHHHHHHhCC-ccCccChhhhhhccCCCCCCcCCCCHH
Confidence            356899999999997   5677899999999999999999999999999997 788999999999998744 99999999


Q ss_pred             hHHHHhhhccccc-CCCC
Q psy1911         262 LAWRFWGHNGVVT-GGDY  278 (342)
Q Consensus       262 ~a~~y~~~~Gi~~-e~~Y  278 (342)
                      .||+|+.++|+++ +.+|
T Consensus       181 ~A~~yi~~~G~~t~~~~Y  198 (325)
T KOG1543|consen  181 NAFKYIKKNGGVTECENY  198 (325)
T ss_pred             HHHHHHHHhCCCCCCcCC
Confidence            9999999999998 6666

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

Probab=99.93  E-value=3.4e-26  Score=212.09  Aligned_cols=105  Identities=29%  Similarity=0.602  Sum_probs=92.9

Q ss_pred             eeeeeeEEcCchHH-HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccC-CccEEEEecCCCCC
Q psy1911          63 HYFKKAHMVPRCNA-MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEN-DIPYWLVANSWNDH  140 (342)
Q Consensus        63 ~~i~~~~~v~~~~~-~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~-g~~ywiikNSWG~~  140 (342)
                      +++.+|..++..+. +++|+++|||+++|.++++|+.|++|||...++...++|+|+|||||++. +.+|||||||||+.
T Consensus       127 ~~i~~~~~~~~~~~i~~~l~~~GPV~v~i~~~~~f~~Y~~GIy~~~~~~~~~~HaV~IVGyG~~~~g~~YWiikNSWG~~  206 (239)
T cd02698         127 YFVSDYGSVSGRDKMMAEIYARGPISCGIMATEALENYTGGVYKEYVQDPLINHIISVAGWGVDENGVEYWIVRNSWGEP  206 (239)
T ss_pred             EEeeeceecCCHHHHHHHHHHcCCEEEEEEecccccccCCeEEccCCCCCcCCeEEEEEEEEecCCCCEEEEEEcCCCcc
Confidence            56778888876555 77899999999999999899999999998776666679999999999876 89999999999999


Q ss_pred             CCCCCceeeecCC-----cchhhccccccccc
Q psy1911         141 WGDHGTFKILRGE-----NEADIEMGFNNRVE  167 (342)
Q Consensus       141 WG~~Gy~~i~~~~-----~~~gi~~~~~~~v~  167 (342)
                      ||++|||||.|+.     |++||++.+.++.+
T Consensus       207 WGe~Gy~~i~rg~~~~~~~~~~i~~~~~~~~~  238 (239)
T cd02698         207 WGERGWFRIVTSSYKGARYNLAIEEDCAWADP  238 (239)
T ss_pred             cCcCceEEEEccCCcccccccccccceEEEee
Confidence            9999999999999     99999988877653

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.

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

Probab=99.93  E-value=7.2e-26  Score=209.58  Aligned_cols=102  Identities=54%  Similarity=1.018  Sum_probs=89.1

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWND  139 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~  139 (342)
                      .+++..++.+..++.  +.+|+++|||+++|.++++|+.|.+|||...++...++|||+|||||++++.+|||||||||+
T Consensus       131 ~~~~~~~~~~~~~~~~ik~~l~~~GPv~v~i~~~~~f~~Y~~Giy~~~~~~~~~~HaV~iVGyg~~~g~~YWivrNSWG~  210 (236)
T cd02620         131 KHKGKSAYSVPSDETDIMKEIMTNGPVQAAFTVYEDFLYYKSGVYQHTSGKQLGGHAVKIIGWGVENGVPYWLAANSWGT  210 (236)
T ss_pred             eeeecceeeeCCHHHHHHHHHHHCCCeEEEEEechhhhhcCCcEEeecCCCCcCCeEEEEEEEeccCCeeEEEEEeCCCC
Confidence            455667777765433  678999999999999988999999999987665556799999999999888999999999999


Q ss_pred             CCCCCCceeeecCCcchhhccccc
Q psy1911         140 HWGDHGTFKILRGENEADIEMGFN  163 (342)
Q Consensus       140 ~WG~~Gy~~i~~~~~~~gi~~~~~  163 (342)
                      .||++|||||.|+.|.|||++.+.
T Consensus       211 ~WGe~Gy~ri~~~~~~cgi~~~~~  234 (236)
T cd02620         211 DWGENGYFRILRGSNECGIESEVV  234 (236)
T ss_pred             CCCCCcEEEEEccCccccccccee
Confidence            999999999999999999987764

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

>KOG1542|consensus

Probab=99.92  E-value=1.1e-25  Score=212.31  Aligned_cols=112  Identities=25%  Similarity=0.471  Sum_probs=98.3

Q ss_pred             ccCCCCCcccceeeeeeEEcCchHH--HHHHHHcCCeEEEEeecccccccccccccc---CCCCCccceEEEEeeecccC
Q psy1911          52 RLYLPTSIPLSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQH---NFGDSIGLHAVRVLGWGVEN  126 (342)
Q Consensus        52 ~~~~p~s~~~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~---~~~~~~~~Hav~ivGyg~~~  126 (342)
                      .|.... .....+|++|+.++.+++  ++.|+++|||+|+|++ ..+|+|++||+.+   .|....++|+|+|||||..+
T Consensus       252 ~C~~~~-~~~~v~I~~f~~l~~nE~~ia~wLv~~GPi~vgiNa-~~mQ~YrgGV~~P~~~~Cs~~~~~HaVLlvGyG~~g  329 (372)
T KOG1542|consen  252 QCHFDK-SKIVVSIKDFSMLSNNEDQIAAWLVTFGPLSVGINA-KPMQFYRGGVSCPSKYICSPKLLNHAVLLVGYGSSG  329 (372)
T ss_pred             ccccch-hhceEEEeccEecCCCHHHHHHHHHhcCCeEEEEch-HHHHHhcccccCCCcccCCccccCceEEEEeecCCC
Confidence            666665 446799999999999887  5679999999999996 4699999999987   46666689999999999988


Q ss_pred             -CccEEEEecCCCCCCCCCCceeeecCCcchhhccccccc
Q psy1911         127 -DIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNR  165 (342)
Q Consensus       127 -g~~ywiikNSWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~  165 (342)
                       ..+|||||||||+.||++||+++.||.|.|||...+..+
T Consensus       330 ~~~PYWIVKNSWG~~WGE~GY~~l~RG~N~CGi~~mvss~  369 (372)
T KOG1542|consen  330 YEKPYWIVKNSWGTSWGEKGYYKLCRGSNACGIADMVSSA  369 (372)
T ss_pred             CCCceEEEECCccccccccceEEEeccccccccccchhhh
Confidence             899999999999999999999999999999998776544

>PTZ00203 cathepsin L protease; Provisional

Probab=99.92  E-value=2.1e-25  Score=216.97  Aligned_cols=92  Identities=33%  Similarity=0.589  Sum_probs=83.3

Q ss_pred             CCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHH
Q psy1911         185 KGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAW  264 (342)
Q Consensus       185 ~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~  264 (342)
                      .+||++||||++    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+..+.||+||++..||
T Consensus       124 ~~lP~~~DWR~~----g~VtpVkdQg~CGSCWAfa~~~aiEs~~~i~~~--~~~~LSeQqLvdC~~~~~GC~GG~~~~a~  197 (348)
T PTZ00203        124 SAVPDAVDWREK----GAVTPVKNQGACGSCWAFSAVGNIESQWAVAGH--KLVRLSEQQLVSCDHVDNGCGGGLMLQAF  197 (348)
T ss_pred             ccCCCCCcCCcC----CCCCCccccCCCccHHHHhhHHHHHHHHHHhcC--CCccCCHHHHHhccCCCCCCCCCCHHHHH
Confidence            368999999998    889999999999999999999999999999988  46789999999998776799999999999


Q ss_pred             HHhhhc---ccccCCCCCCCCCcccCCC
Q psy1911         265 RFWGHN---GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       265 ~y~~~~---Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +|+.++   ||++|.+|       ||..
T Consensus       198 ~yi~~~~~ggi~~e~~Y-------PY~~  218 (348)
T PTZ00203        198 EWVLRNMNGTVFTEKSY-------PYVS  218 (348)
T ss_pred             HHHHHhcCCCCCccccC-------CCcc
Confidence            999764   57888888       8864

>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=99.92  E-value=3.7e-25  Score=205.52  Aligned_cols=98  Identities=41%  Similarity=0.778  Sum_probs=82.7

Q ss_pred             EcCchHH-HHHHHHcCCeEEEEeeccccccccccccccC-----CCC--------CccceEEEEeeecccC--CccEEEE
Q psy1911          70 MVPRCNA-MRQIYEHGPLVAIFSVYADFLQYKSGVYQHN-----FGD--------SIGLHAVRVLGWGVEN--DIPYWLV  133 (342)
Q Consensus        70 ~v~~~~~-~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~-----~~~--------~~~~Hav~ivGyg~~~--g~~ywii  133 (342)
                      .+...+. +++|+++|||+++|++.++|++|++|||...     |..        ..++|+|+|||||++.  +.+||||
T Consensus       129 ~~~~~~~ik~~i~~~GPv~v~~~~~~~F~~Y~~GIy~~~~~~~~C~~~~~~~~~~~~~~HaV~iVGyg~~~~~g~~YWii  208 (243)
T cd02621         129 GCTNEDEMKWEIYRNGPIVVAFEVYSDFDFYKEGVYHHTDNDEVSDGDNDNFNPFELTNHAVLLVGWGEDEIKGEKYWIV  208 (243)
T ss_pred             ccCCHHHHHHHHHHcCCEEEEEEecccccccCCeEECcCCcccccccccccccCcccCCeEEEEEEeeccCCCCCcEEEE
Confidence            3334444 6789999999999999989999999999765     321        2468999999999876  8899999


Q ss_pred             ecCCCCCCCCCCceeeecCCcchhhccccccccc
Q psy1911         134 ANSWNDHWGDHGTFKILRGENEADIEMGFNNRVE  167 (342)
Q Consensus       134 kNSWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v~  167 (342)
                      |||||+.||++|||||.|+.|.|||+..+..+++
T Consensus       209 rNSWG~~WGe~Gy~~i~~~~~~cgi~~~~~~~~~  242 (243)
T cd02621         209 KNSWGSSWGEKGYFKIRRGTNECGIESQAVFAYP  242 (243)
T ss_pred             EcCCCCCCCcCCeEEEecCCcccCcccceEeecc
Confidence            9999999999999999999999999888766543

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

>KOG1543|consensus

Probab=99.92  E-value=6.2e-25  Score=212.00  Aligned_cols=112  Identities=32%  Similarity=0.617  Sum_probs=98.5

Q ss_pred             ccCCCCCcccceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCC-ccceEEEEeeecccCCc
Q psy1911          52 RLYLPTSIPLSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDS-IGLHAVRVLGWGVENDI  128 (342)
Q Consensus        52 ~~~~p~s~~~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~-~~~Hav~ivGyg~~~g~  128 (342)
                      .|-.... ...+.+.+++.++.++.  +.+|+.+|||+|+|++.++|+.|++|||.++++.. .++|+|+|||||..++.
T Consensus       206 ~C~~~~~-~~~~~~~~~~~~~~~e~~i~~~v~~~GPv~v~~~a~~~F~~Y~~GVy~~~~~~~~~~~Hav~iVGyG~~~~~  284 (325)
T KOG1543|consen  206 TCKSNKK-DKTVTIKGFYNVPANEEAIAEAVAKNGPVSVAIDAYEDFSLYKGGVYAEEKGDDKEGDHAVLIVGYGTGDGV  284 (325)
T ss_pred             CccCCCc-cceeEeeeeeecCcCHHHHHHHHHhcCCeEEEEeehhhhhhccCceEeCCCCCCCCCCceEEEEEEcCCCCc
Confidence            4444443 56788999999999976  78899999999999999999999999999988776 48999999999996568


Q ss_pred             cEEEEecCCCCCCCCCCceeeecCCcchhhcccccc
Q psy1911         129 PYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNN  164 (342)
Q Consensus       129 ~ywiikNSWG~~WG~~Gy~~i~~~~~~~gi~~~~~~  164 (342)
                      +||||+||||+.||++|||||.|+.+.|+|++...+
T Consensus       285 ~YWivkNSWG~~WGe~Gy~ri~r~~~~~~I~~~~~~  320 (325)
T KOG1543|consen  285 DYWIVKNSWGTDWGEKGYFRIARGVNKCGIASEASY  320 (325)
T ss_pred             eeEEEEcCCCCCcccCceEEEecCCCchhhhccccc
Confidence            999999999999999999999999999998776655

>PTZ00364 dipeptidyl-peptidase I precursor; Provisional

Probab=99.92  E-value=4.4e-25  Score=223.93  Aligned_cols=100  Identities=25%  Similarity=0.424  Sum_probs=88.7

Q ss_pred             CCCCCcccccCccCCCCCCCcccccccc---cchHHHHHhhHHHHHHHHHHhCCc----cccccCHHHHHhhCCCCCCCC
Q psy1911         184 AKGLPRNFDAREKWPECPSLRHIADQSN---CGSCWAVSVANAISDRLCIASNGY----FTGQISAQHIVACTPNCWGCN  256 (342)
Q Consensus       184 ~~~lP~sfD~R~~~~~c~~i~~v~dQg~---CGsCwAfa~~~~le~r~~i~~~~~----~~~~LS~Q~lldC~~~~~GC~  256 (342)
                      ..+||++||||++ .++++|+|||||+.   ||||||||++++||+|++|++++.    ..+.||+|+||||+..+.||+
T Consensus       202 ~~~LP~sfDWR~~-gg~~~VtpVrdQg~~~~CGSCWAFAav~alEsr~~I~tn~~~~~g~~~~LS~QqLVDCs~~n~GCd  280 (548)
T PTZ00364        202 GDPPPAAWSWGDV-GGASFLPAAPPASPGRGCNSSYVEAALAAMMARVMVASNRTDPLGQQTFLSARHVLDCSQYGQGCA  280 (548)
T ss_pred             ccCCCCccccCcC-CCCccCCCCcCCCCCCCCcCHHHHHHHHHHHHHHHHHhCCCcccCcccCcCHHHHhcccCCCCCCC
Confidence            4689999999998 34457999999999   999999999999999999998643    357899999999987767999


Q ss_pred             CCchhhHHHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         257 GGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       257 GG~~~~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      ||++..|++|++++||++|.+|     |.||..
T Consensus       281 GG~p~~A~~yi~~~GI~tE~dY-----~~PY~~  308 (548)
T PTZ00364        281 GGFPEEVGKFAETFGILTTDSY-----YIPYDS  308 (548)
T ss_pred             CCcHHHHHHHHHhCCccccccc-----CCCCCC
Confidence            9999999999999999998887     668864

>PTZ00203 cathepsin L protease; Provisional

Probab=99.91  E-value=1.3e-24  Score=211.42  Aligned_cols=100  Identities=21%  Similarity=0.456  Sum_probs=85.4

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWND  139 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~  139 (342)
                      ...+.+|..|+.++.  +.+|+++|||+|+|++. +|++|++|||.. |....++|+|+|||||.++|.+|||||||||+
T Consensus       235 ~~~i~~~~~i~~~e~~~~~~l~~~GPv~v~i~a~-~f~~Y~~GIy~~-c~~~~~nHaVliVGYG~~~g~~YWiikNSWG~  312 (348)
T PTZ00203        235 GARIDGYVSMESSERVMAAWLAKNGPISIAVDAS-SFMSYHSGVLTS-CIGEQLNHGVLLVGYNMTGEVPYWVIKNSWGE  312 (348)
T ss_pred             ceEecceeecCcCHHHHHHHHHhCCCEEEEEEhh-hhcCccCceeec-cCCCCCCeEEEEEEEecCCCceEEEEEcCCCC
Confidence            456778888876544  56788899999999985 899999999974 54445699999999999888999999999999


Q ss_pred             CCCCCCceeeecCCcchhhccccc
Q psy1911         140 HWGDHGTFKILRGENEADIEMGFN  163 (342)
Q Consensus       140 ~WG~~Gy~~i~~~~~~~gi~~~~~  163 (342)
                      .||++|||||.++.|.|||...+.
T Consensus       313 ~WGe~GY~ri~rg~n~Cgi~~~~~  336 (348)
T PTZ00203        313 DWGEKGYVRVTMGVNACLLTGYPV  336 (348)
T ss_pred             CcCcCceEEEEcCCCcccccceEE
Confidence            999999999999999999975443

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

Probab=99.91  E-value=9.7e-25  Score=202.38  Aligned_cols=94  Identities=29%  Similarity=0.545  Sum_probs=83.1

Q ss_pred             CCcccccCccCCCCCCCccccccc---ccchHHHHHhhHHHHHHHHHHhCCcc-ccccCHHHHHhhCCCCCCCCCCchhh
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQS---NCGSCWAVSVANAISDRLCIASNGYF-TGQISAQHIVACTPNCWGCNGGWPQL  262 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg---~CGsCwAfa~~~~le~r~~i~~~~~~-~~~LS~Q~lldC~~~~~GC~GG~~~~  262 (342)
                      ||++||||+.+.. ..|+||+||+   .||||||||++++||+|++|++++.. .+.||+|+||||+. ..||+||++..
T Consensus         1 lP~~~Dwr~~~~~-~~v~~vk~Qg~~~~CGsCwAfa~~~aies~~~i~~~~~~~~~~lS~Q~lldC~~-~~gC~GG~~~~   78 (239)
T cd02698           1 LPKSWDWRNVNGV-NYVSPTRNQHIPQYCGSCWAHGSTSALADRINIARKGAWPSVYLSVQVVIDCAG-GGSCHGGDPGG   78 (239)
T ss_pred             CCCCcccccCCCC-cccCccccCCCCCCCCcchHHHhHHHHHHHHHHHHCCCCCCcccCHHHHHhCCC-CCCccCcCHHH
Confidence            7999999998432 4899999998   89999999999999999999987543 57899999999986 56999999999


Q ss_pred             HHHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         263 AWRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       263 a~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      ||+|++++||++|.+|       ||..
T Consensus        79 a~~~~~~~Gl~~e~~y-------PY~~   98 (239)
T cd02698          79 VYEYAHKHGIPDETCN-------PYQA   98 (239)
T ss_pred             HHHHHHHcCcCCCCee-------CCcC
Confidence            9999999999996666       8875

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.

>PTZ00200 cysteine proteinase; Provisional

Probab=99.91  E-value=6.2e-25  Score=219.36  Aligned_cols=91  Identities=30%  Similarity=0.611  Sum_probs=83.8

Q ss_pred             CCCcccccCccCCCCCCCccccccc-ccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHH
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQS-NCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAW  264 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg-~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~  264 (342)
                      .+|++||||+.    +.|+||+||| .||||||||++++||++++|.++  ..+.||+|+||||+..+.||+||++..||
T Consensus       233 ~~P~~~DWR~~----g~vtpVkdQG~~CGSCWAFat~~aiEs~~~i~~~--~~~~LSeQqLvDC~~~~~GC~GG~~~~A~  306 (448)
T PTZ00200        233 ITGEGLDWRRA----DAVTKVKDQGLNCGSCWAFSSVGSVESLYKIYRD--KSVDLSEQELVNCDTKSQGCSGGYPDTAL  306 (448)
T ss_pred             cCCCCccCCCC----CCCCCcccCCCccchHHHHhHHHHHHHHHHHhcC--CCeecCHHHHhhccCccCCCCCCcHHHHH
Confidence            46999999998    8899999999 99999999999999999999876  46889999999998777799999999999


Q ss_pred             HHhhhcccccCCCCCCCCCcccCCC
Q psy1911         265 RFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       265 ~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +|++++||+++.+|       ||++
T Consensus       307 ~yi~~~Gi~~e~~Y-------PY~~  324 (448)
T PTZ00200        307 EYVKNKGLSSSSDV-------PYLA  324 (448)
T ss_pred             HHHhhcCccccccC-------CCCC
Confidence            99999999997777       8875

>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=99.91  E-value=1.9e-24  Score=195.29  Aligned_cols=103  Identities=30%  Similarity=0.557  Sum_probs=91.1

Q ss_pred             ccceeeeeeEEcCch--HH-HHHHHHcCCeEEEEeeccccccccccccccCCC-CCccceEEEEeeecccCCccEEEEec
Q psy1911          60 PLSHYFKKAHMVPRC--NA-MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFG-DSIGLHAVRVLGWGVENDIPYWLVAN  135 (342)
Q Consensus        60 ~~~~~i~~~~~v~~~--~~-~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~-~~~~~Hav~ivGyg~~~g~~ywiikN  135 (342)
                      ....++.+|+.|+..  +. +++|+++|||+++|.+.++|+.|.+|||..+.+ ...++|+|+|||||++.+.+||||+|
T Consensus       101 ~~~~~i~~~~~i~~~~~~~ik~~l~~~gPV~~~~~~~~~f~~y~~Giy~~~~~~~~~~~Hav~iVGy~~~~~~~ywiv~N  180 (210)
T cd02248         101 KVGAKITGYSNVPPGDEEALKAALANYGPVSVAIDASSSFQFYKGGIYSGPCCSNTNLNHAVLLVGYGTENGVDYWIVKN  180 (210)
T ss_pred             cccEEEeeEEEcCCCcHHHHHHHHhhcCCEEEEEecCcccccCCCCceeCCCCCCCcCCEEEEEEEEeecCCceEEEEEc
Confidence            456888999999874  33 788999999999999999999999999987665 45679999999999988899999999


Q ss_pred             CCCCCCCCCCceeeecCCcchhhcccc
Q psy1911         136 SWNDHWGDHGTFKILRGENEADIEMGF  162 (342)
Q Consensus       136 SWG~~WG~~Gy~~i~~~~~~~gi~~~~  162 (342)
                      |||+.||++|||||+++.+.|||....
T Consensus       181 SWG~~WG~~Gy~~i~~~~~~cgi~~~~  207 (210)
T cd02248         181 SWGTSWGEKGYIRIARGSNLCGIASYA  207 (210)
T ss_pred             CCCCccccCcEEEEEcCCCccCceeee
Confidence            999999999999999999999997554

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

>PTZ00021 falcipain-2; Provisional

Probab=99.90  E-value=1.4e-24  Score=218.00  Aligned_cols=90  Identities=31%  Similarity=0.537  Sum_probs=82.8

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      +|++||||+.    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+..+.||+||++..||+|
T Consensus       266 ~P~s~DWR~~----g~VtpVKdQG~CGSCWAFAa~~alEs~~~I~~g--~~v~LSeQqLVDCs~~n~GC~GG~~~~Af~y  339 (489)
T PTZ00021        266 DHAKYDWRLH----NGVTPVKDQKNCGSCWAFSTVGVVESQYAIRKN--ELVSLSEQELVDCSFKNNGCYGGLIPNAFED  339 (489)
T ss_pred             CccccccccC----CCCCCcccccccccHHHHHHHHHHHHHHHHHcC--CCcccCHHHHhhhccCCCCCCCcchHhhhhh
Confidence            5999999998    889999999999999999999999999999988  4688999999999877779999999999999


Q ss_pred             hhhc-ccccCCCCCCCCCcccCCC
Q psy1911         267 WGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +.++ ||++|.+|       ||..
T Consensus       340 i~~~gGl~tE~~Y-------PY~~  356 (489)
T PTZ00021        340 MIELGGLCSEDDY-------PYVS  356 (489)
T ss_pred             hhhccccCccccc-------CccC
Confidence            9776 89998888       8864

>smart00645 Pept_C1 Papain family cysteine protease

Probab=99.90  E-value=3.2e-24  Score=189.81  Aligned_cols=86  Identities=40%  Similarity=0.790  Sum_probs=78.2

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC-CCCCCCCchhhHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN-CWGCNGGWPQLAWR  265 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~-~~GC~GG~~~~a~~  265 (342)
                      ||++||||+.    +.++||+||+.||+|||||++++||++++|+++.  .+.||+|+|++|... ..||+||++..|++
T Consensus         1 lP~~~D~R~~----~~~~~v~dQg~CGsCwAfa~~~~ie~~~~i~~~~--~~~lS~q~l~~C~~~~~~gC~GG~~~~a~~   74 (174)
T smart00645        1 LPESFDWRKK----GAVTPVKDQGQCGSCWAFSATGALEGRYCIKTGK--LVSLSEQQLVDCSTGGNNGCNGGLPDNAFE   74 (174)
T ss_pred             CCCcCccccc----CCCCccccCcccchHHHHHHHHHHHHHHHHhcCC--ccccCHHHHhhhcCCCCCCCCCcCHHHHHH
Confidence            7999999998    3689999999999999999999999999999884  678999999999875 44999999999999


Q ss_pred             Hhhhc-ccccCCCC
Q psy1911         266 FWGHN-GVVTGGDY  278 (342)
Q Consensus       266 y~~~~-Gi~~e~~Y  278 (342)
                      |+.++ ||++|.+|
T Consensus        75 ~~~~~~Gi~~e~~~   88 (174)
T smart00645       75 YIKKNGGLETESCY   88 (174)
T ss_pred             HHHHcCCccccccc
Confidence            99998 99996555

>PTZ00021 falcipain-2; Provisional

Probab=99.90  E-value=1e-23  Score=211.70  Aligned_cols=104  Identities=26%  Similarity=0.499  Sum_probs=88.2

Q ss_pred             ceeeeeeEEcCchHHHHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccC----------CccEE
Q psy1911          62 SHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEN----------DIPYW  131 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~----------g~~yw  131 (342)
                      .+.+.+|..|+..+.+++|+.+|||+|+|+++.+|++|.+|||...|.. .++|||+|||||.++          +.+||
T Consensus       370 ~~~i~~y~~i~~~~lk~al~~~GPVsv~i~a~~~f~~YkgGIy~~~C~~-~~nHAVlIVGYG~e~~~~~~~~~~~~~~YW  448 (489)
T PTZ00021        370 KYKIKSYVSIPEDKFKEAIRFLGPISVSIAVSDDFAFYKGGIFDGECGE-EPNHAVILVGYGMEEIYNSDTKKMEKRYYY  448 (489)
T ss_pred             cceeeeEEEecHHHHHHHHHhcCCeEEEEEeecccccCCCCcCCCCCCC-ccceEEEEEEecCcCCcccccccCCCCCEE
Confidence            4678889999865557788889999999999889999999999876654 469999999999753          24799


Q ss_pred             EEecCCCCCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         132 LVANSWNDHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       132 iikNSWG~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      |||||||+.||++|||||.++.    |.|||...+.+++
T Consensus       449 IVKNSWGt~WGE~GY~rI~r~~~g~~n~CGI~t~a~yP~  487 (489)
T PTZ00021        449 IIKNSWGESWGEKGFIRIETDENGLMKTCSLGTEAYVPL  487 (489)
T ss_pred             EEECCCCCCcccCeEEEEEcCCCCCCCCCCCcccceeEe
Confidence            9999999999999999999986    5899987766553

>PTZ00200 cysteine proteinase; Provisional

Probab=99.89  E-value=1.5e-23  Score=209.40  Aligned_cols=104  Identities=28%  Similarity=0.510  Sum_probs=87.8

Q ss_pred             ceeeeeeEEcCchHHHHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecc--cCCccEEEEecCCCC
Q psy1911          62 SHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGV--ENDIPYWLVANSWND  139 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~--~~g~~ywiikNSWG~  139 (342)
                      ..+|.+|..++..+.+++++.+|||+|+|+++.+|++|++|||..+|... ++|||+|||||.  ++|.+||||+||||+
T Consensus       336 ~~~i~~y~~~~~~~~l~~~l~~GPV~v~i~~~~~f~~Yk~GIy~~~C~~~-~nHaV~lVGyG~d~~~g~~YWIIkNSWG~  414 (448)
T PTZ00200        336 KVYIDSYLVAKGKDVLNKSLVISPTVVYIAVSRELLKYKSGVYNGECGKS-LNHAVLLVGEGYDEKTKKRYWIIKNSWGT  414 (448)
T ss_pred             eeEecceEecCHHHHHHHHHhcCCEEEEeecccccccCCCCccccccCCC-CcEEEEEEEecccCCCCCceEEEEcCCCC
Confidence            35677787776555577777899999999998899999999998776554 799999999984  467899999999999


Q ss_pred             CCCCCCceeeecC---Ccchhhcccccccc
Q psy1911         140 HWGDHGTFKILRG---ENEADIEMGFNNRV  166 (342)
Q Consensus       140 ~WG~~Gy~~i~~~---~~~~gi~~~~~~~v  166 (342)
                      .||++|||||.|+   .|.|||...+.+++
T Consensus       415 ~WGe~GY~ri~r~~~g~n~CGI~~~~~~P~  444 (448)
T PTZ00200        415 DWGENGYMRLERTNEGTDKCGILTVGLTPV  444 (448)
T ss_pred             CcccCeeEEEEeCCCCCCcCCccccceeeE
Confidence            9999999999985   48999987766554

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

Probab=99.89  E-value=2.9e-23  Score=187.53  Aligned_cols=104  Identities=36%  Similarity=0.575  Sum_probs=90.6

Q ss_pred             ceeeeeeEEcCch--HH-HHHHHHcCCeEEEEeecc-ccccccccccccCC-CCCccceEEEEeeecccCCccEEEEecC
Q psy1911          62 SHYFKKAHMVPRC--NA-MRQIYEHGPLVAIFSVYA-DFLQYKSGVYQHNF-GDSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        62 ~~~i~~~~~v~~~--~~-~~~i~~~GPV~v~i~v~~-~f~~y~~Gi~~~~~-~~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ...+..+..+...  +. +++|+++|||+++|.+++ +|+.|.+|||..+. ....++|+|+|||||++.+.+||||+||
T Consensus       109 ~~~i~~~~~~~~~~~~~ik~~L~~~gpV~~~~~~~~~~f~~~~~gi~~~~~~~~~~~~Hav~iVGy~~~~~~~~wiv~NS  188 (219)
T PF00112_consen  109 YVKIKGYGKVKDNDIEDIKKALMKYGPVVASIDVSSEDFQNYKSGIYDPPDCSNESGGHAVLIVGYDDENGKGYWIVKNS  188 (219)
T ss_dssp             EBEESEEEEEESTCHHHHHHHHHHHSSEEEEEEEESHHHHTEESSEECSTSSSSSSEEEEEEEEEEEEETTEEEEEEE-S
T ss_pred             cccccccccccccchhHHHHHHhhCceeeeeeeccccccccccceeeeccccccccccccccccccccccceeeEeeehh
Confidence            3677888888875  23 788999999999999998 69999999998863 3457899999999999999999999999


Q ss_pred             CCCCCCCCCceeeecCCc-chhhccccccc
Q psy1911         137 WNDHWGDHGTFKILRGEN-EADIEMGFNNR  165 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~~-~~gi~~~~~~~  165 (342)
                      ||+.||++||+||+++.+ .|||+..+.++
T Consensus       189 WG~~WG~~Gy~~i~~~~~~~c~i~~~~~~~  218 (219)
T PF00112_consen  189 WGTDWGDNGYFRISYDYNNECGIESQAVYP  218 (219)
T ss_dssp             BTTTSTBTTEEEEESSSSSGGGTTSSEEEE
T ss_pred             hCCccCCCeEEEEeeCCCCcCccCceeeec
Confidence            999999999999999987 99999888765

; 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 ....

>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=99.88  E-value=6.4e-23  Score=185.25  Aligned_cols=89  Identities=37%  Similarity=0.722  Sum_probs=81.1

Q ss_pred             CcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC-CCCCCCCchhhHHHH
Q psy1911         188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN-CWGCNGGWPQLAWRF  266 (342)
Q Consensus       188 P~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~-~~GC~GG~~~~a~~y  266 (342)
                      |++||||+.    +.++||+||+.||||||||++++||++++|+++  ..+.||+|+|++|... ..||.||++..|++|
T Consensus         1 P~~~d~r~~----~~~~~v~dQg~cgsCwAfa~~~~le~~~~i~~~--~~~~lS~q~l~~c~~~~~~gC~GG~~~~a~~~   74 (210)
T cd02248           1 PESVDWREK----GAVTPVKDQGSCGSCWAFSTVGALEGAYAIKTG--KLVSLSEQQLVDCSTSGNNGCNGGNPDNAFEY   74 (210)
T ss_pred             CCcccCCcC----CCCCCCccCCCCcchHHhHHHHHHHHHHHHHcC--CCcccCHHHHhccCCCCCCCCCCCCHHHhHHH
Confidence            889999998    558999999999999999999999999999987  5678999999999876 569999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCC
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +.++||+++++|       ||..
T Consensus        75 ~~~~Gi~~e~~y-------PY~~   90 (210)
T cd02248          75 VKNGGLASESDY-------PYTG   90 (210)
T ss_pred             HHHCCcCccccC-------CccC
Confidence            999999997776       8864

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

>PTZ00049 cathepsin C-like protein; Provisional

Probab=99.88  E-value=1e-22  Score=209.26  Aligned_cols=91  Identities=41%  Similarity=0.747  Sum_probs=78.6

Q ss_pred             HHHHHHcCCeEEEEeeccccccccccccccC-------CCC--------------CccceEEEEeeeccc--CCc--cEE
Q psy1911          77 MRQIYEHGPLVAIFSVYADFLQYKSGVYQHN-------FGD--------------SIGLHAVRVLGWGVE--NDI--PYW  131 (342)
Q Consensus        77 ~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~-------~~~--------------~~~~Hav~ivGyg~~--~g~--~yw  131 (342)
                      |++|+.+|||+|+|+++++|++|++|||...       |..              ...+|||+|||||.+  +|.  +||
T Consensus       561 m~eI~~~GPVsVsIda~~dF~~YksGVY~~~~~~h~~~C~~d~~~~~~~~~~~G~e~~NHAVlIVGwG~d~enG~~~~YW  640 (693)
T PTZ00049        561 MNEIYRNGPIVASFEASPDFYDYADGVYYVEDFPHARRCTVDLPKHNGVYNITGWEKVNHAIVLVGWGEEEINGKLYKYW  640 (693)
T ss_pred             HHHHHhcCCEEEEEEechhhhcCCCccccCcccccccccCCccccccccccccccccCceEEEEEEeccccCCCcccCEE
Confidence            7899999999999999889999999999742       321              136899999999975  353  799


Q ss_pred             EEecCCCCCCCCCCceeeecCCcchhhccccccccc
Q psy1911         132 LVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVE  167 (342)
Q Consensus       132 iikNSWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v~  167 (342)
                      |||||||+.||++|||||.|+.|.|||+..+.++.+
T Consensus       641 IVRNSWGt~WGenGYfKI~RG~N~CGIEs~a~~~~p  676 (693)
T PTZ00049        641 IGRNSWGKNWGKEGYFKIIRGKNFSGIESQSLFIEP  676 (693)
T ss_pred             EEECCCCCCcccCceEEEEcCCCccCCccceeEEee
Confidence            999999999999999999999999999988877653

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

Probab=99.87  E-value=2e-22  Score=182.04  Aligned_cols=92  Identities=40%  Similarity=0.740  Sum_probs=77.0

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCC-CCCCCCCCchhhHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTP-NCWGCNGGWPQLAWR  265 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~-~~~GC~GG~~~~a~~  265 (342)
                      ||++||||+.+   +.++||+||+.||+|||||++++||++++++.+ ...+.||+|+|++|+. ...+|+||++..|+.
T Consensus         1 lP~~~D~r~~~---~~~~~v~dQg~~gsCwafa~~~~~e~~~~~~~~-~~~~~lS~q~l~~~~~~~~~~c~gg~~~~a~~   76 (219)
T PF00112_consen    1 LPKSFDWRDKG---GRITPVRDQGSCGSCWAFAAAAALESRLAIQNN-GKNVDLSEQYLIDCSNKYNKGCDGGSPFDALK   76 (219)
T ss_dssp             STSSEEGGGTT---TCSG---BTTSSBTHHHHHHHHHHHHHHHHHHT-SSCEEB-HHHHHHHSTGTSSTTBBBEHHHHHH
T ss_pred             CCCCEecccCC---CCcCccccCCcccccccchhccceecccccccc-ccccccccccccccccccccccccCcccccce
Confidence            89999999962   359999999999999999999999999999985 3678999999999987 345999999999999


Q ss_pred             Hhhh-cccccCCCCCCCCCcccCCC
Q psy1911         266 FWGH-NGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       266 y~~~-~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |+.+ +||+++.+|       ||..
T Consensus        77 ~~~~~~Gi~~e~~~-------pY~~   94 (219)
T PF00112_consen   77 YIKNNNGIVTEEDY-------PYNG   94 (219)
T ss_dssp             HHHHHTSBEBTTTS---------SS
T ss_pred             eecccCcccccccc-------cccc
Confidence            9999 999997777       8873

; 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 ....

>PTZ00364 dipeptidyl-peptidase I precursor; Provisional

Probab=99.86  E-value=8.6e-22  Score=200.04  Aligned_cols=101  Identities=31%  Similarity=0.483  Sum_probs=82.7

Q ss_pred             eeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccC---------CC----------CCccceEEEEeeec
Q psy1911          65 FKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHN---------FG----------DSIGLHAVRVLGWG  123 (342)
Q Consensus        65 i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~---------~~----------~~~~~Hav~ivGyg  123 (342)
                      +.+|+.+..++.  +.+|+.+|||+|+|+++.+|++|.+|||...         ++          ....+|+|+|||||
T Consensus       333 I~gyy~~~~~e~~I~~eI~~~GPVsVaIda~~df~~YksGiy~gi~~~~~~~~~~~~~~~~~~~~~~~~~nHAVlIVGYG  412 (548)
T PTZ00364        333 LGGYYGAVTDPDEIIWEIYRHGPVPASVYANSDWYNCDENSTEDVRYVSLDDYSTASADRPLRHYFASNVNHTVLIIGWG  412 (548)
T ss_pred             ecceeecCCcHHHHHHHHHHcCCeEEEEEechHHHhcCCCCccCeeccccccccccccCCcccccccccCCeEEEEEEec
Confidence            444555554333  7789999999999999989999999998521         11          13469999999999


Q ss_pred             c-cCCccEEEEecCCCC--CCCCCCceeeecCCcchhhccccccc
Q psy1911         124 V-ENDIPYWLVANSWND--HWGDHGTFKILRGENEADIEMGFNNR  165 (342)
Q Consensus       124 ~-~~g~~ywiikNSWG~--~WG~~Gy~~i~~~~~~~gi~~~~~~~  165 (342)
                      . ++|.+|||||||||+  .||++|||||.|+.|.|||+..+...
T Consensus       413 ~de~G~~YWIVKNSWGt~~~WGE~GYfRI~RG~N~CGIes~~v~~  457 (548)
T PTZ00364        413 TDENGGDYWLVLDPWGSRRSWCDGGTRKIARGVNAYNIESEVVVM  457 (548)
T ss_pred             ccCCCceEEEEECCCCCCCCcccCCeEEEEcCCCcccccceeeee
Confidence            6 467899999999999  99999999999999999998887654

>KOG1544|consensus

Probab=99.82  E-value=9.4e-21  Score=177.06  Aligned_cols=108  Identities=37%  Similarity=0.686  Sum_probs=93.5

Q ss_pred             eeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCC--------CCccceEEEEeeecccCC-----
Q psy1911          63 HYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFG--------DSIGLHAVRVLGWGVEND-----  127 (342)
Q Consensus        63 ~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~--------~~~~~Hav~ivGyg~~~g-----  127 (342)
                      +....-|+|+.+++  |++||++|||.+.|.|.++|+.|.+|||.+...        ...+.|+|.|.|||.+.+     
T Consensus       341 yq~tPPYrVSSnE~eImkElM~NGPVQA~m~VHEDFF~YkgGiY~H~~~~~~~~e~yr~~gtHsVk~tGWG~~~~~~G~~  420 (470)
T KOG1544|consen  341 YQVTPPYRVSSNEKEIMKELMENGPVQALMEVHEDFFLYKGGIYSHTPVSLGRPERYRRHGTHSVKITGWGEETLPDGRT  420 (470)
T ss_pred             eeecCCeeccCCHHHHHHHHHhCCChhhhhhhhhhhhhhccceeeccccccCCchhhhhcccceEEEeecccccCCCCCe
Confidence            55667889999887  899999999999999999999999999976432        235789999999997632     


Q ss_pred             ccEEEEecCCCCCCCCCCceeeecCCcchhhccccccccccCC
Q psy1911         128 IPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANS  170 (342)
Q Consensus       128 ~~ywiikNSWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v~~~~  170 (342)
                      ..|||..||||+.||++|||+|.||.|+|.|+..+..++....
T Consensus       421 ~KyW~aANSWG~~WGE~GYFriLRGvNecdIEsfvIgAWGr~~  463 (470)
T KOG1544|consen  421 LKYWTAANSWGPAWGERGYFRILRGVNECDIESFVIGAWGRVG  463 (470)
T ss_pred             eEEEEeecccccccccCceEEEeccccchhhhHhhhhhhhccc
Confidence            5899999999999999999999999999999998887765433

>KOG1544|consensus

Probab=99.81  E-value=2.8e-21  Score=180.57  Aligned_cols=100  Identities=37%  Similarity=0.722  Sum_probs=92.8

Q ss_pred             ccCCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCC-CCCCCc
Q psy1911         181 CQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCW-GCNGGW  259 (342)
Q Consensus       181 ~~~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~-GC~GG~  259 (342)
                      .+...+||+.||+|++||  +.|.++.||++|++.|||+++++.+||++|++.+..+..||+|+||+|+...+ ||+||.
T Consensus       203 l~p~~~LPE~F~As~KWp--~liH~plDQgnCa~SWafSTaavasDRiAI~S~GR~t~~LSpQnLlSC~~h~q~GC~gG~  280 (470)
T KOG1544|consen  203 LNPGEVLPEAFEASEKWP--NLIHEPLDQGNCAGSWAFSTAAVASDRVAIHSLGRMTPVLSPQNLLSCDTHQQQGCRGGR  280 (470)
T ss_pred             cCcccccchhhhhhhcCC--ccccCccccCCcccceeeeeehhccceeEEeeccccccccChHHhcchhhhhhccCccCc
Confidence            355689999999999999  57999999999999999999999999999999999999999999999987666 999999


Q ss_pred             hhhHHHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         260 PQLAWRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       260 ~~~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      ...||=||++.|||+       +.|.||..
T Consensus       281 lDRAWWYlRKrGvVs-------dhCYP~~~  303 (470)
T KOG1544|consen  281 LDRAWWYLRKRGVVS-------DHCYPFSG  303 (470)
T ss_pred             ccchheeeecccccc-------cccccccC
Confidence            999999999999998       77779964

>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=99.80  E-value=1.4e-19  Score=163.70  Aligned_cols=93  Identities=29%  Similarity=0.467  Sum_probs=79.0

Q ss_pred             cceeeeeeEEcCchHH---HHHHHHcCCeEEEEeeccccccccccccc------cCCCCCccceEEEEeeecccC--Ccc
Q psy1911          61 LSHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVYADFLQYKSGVYQ------HNFGDSIGLHAVRVLGWGVEN--DIP  129 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~------~~~~~~~~~Hav~ivGyg~~~--g~~  129 (342)
                      ...++..|..+...+.   +++|++.|||+++|.++++|+.|.+|++.      ..++...++|||+|||||++.  +.+
T Consensus       110 ~~~~~~~y~~~~~~~~~~ik~aL~~~gPv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Hav~ivGy~~~~~~~~~  189 (223)
T cd02619         110 AKVKLKDYRRVLKNNIEDIKEALAKGGPVVAGFDVYSGFDRLKEGIIYEEIVYLLYEDGDLGGHAVVIVGYDDNYVEGKG  189 (223)
T ss_pred             cceeecceeEeCchhHHHHHHHHHHCCCEEEEEEcccchhcccCccccccccccccCCCccCCeEEEEEeecCCCCCCCC
Confidence            3477888888887532   77899999999999999999999999862      223445679999999999886  789


Q ss_pred             EEEEecCCCCCCCCCCceeeecCC
Q psy1911         130 YWLVANSWNDHWGDHGTFKILRGE  153 (342)
Q Consensus       130 ywiikNSWG~~WG~~Gy~~i~~~~  153 (342)
                      ||||+||||+.||++||+||.++.
T Consensus       190 ~~i~~NSwG~~wg~~Gy~~i~~~~  213 (223)
T cd02619         190 AFIVKNSWGTDWGDNGYGRISYED  213 (223)
T ss_pred             EEEEEeCCCCccccCCEEEEehhh
Confidence            999999999999999999999864

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

>PTZ00462 Serine-repeat antigen protein; Provisional

Probab=99.80  E-value=1e-19  Score=192.21  Aligned_cols=85  Identities=31%  Similarity=0.618  Sum_probs=71.1

Q ss_pred             HHHHHHcCCeEEEEeecccccccc-cccccc-CCCCCccceEEEEeeeccc-----CCccEEEEecCCCCCCCCCCceee
Q psy1911          77 MRQIYEHGPLVAIFSVYADFLQYK-SGVYQH-NFGDSIGLHAVRVLGWGVE-----NDIPYWLVANSWNDHWGDHGTFKI  149 (342)
Q Consensus        77 ~~~i~~~GPV~v~i~v~~~f~~y~-~Gi~~~-~~~~~~~~Hav~ivGyg~~-----~g~~ywiikNSWG~~WG~~Gy~~i  149 (342)
                      +++|+.+|||+|+|++. +|+.|. +|||.. .|+...++|||+|||||..     ++.+|||||||||+.||++|||||
T Consensus       684 K~eI~~kGPVaV~IdAs-df~~Y~~sGIyv~~~Cgs~~~nHAVlIVGYGt~in~eg~gk~YWIVRNSWGt~WGEnGYFKI  762 (1004)
T PTZ00462        684 KDEIMNKGSVIAYIKAE-NVLGYEFNGKKVQNLCGDDTADHAVNIVGYGNYINDEDEKKSYWIVRNSWGKYWGDEGYFKV  762 (1004)
T ss_pred             HHHHHhcCCEEEEEEee-hHHhhhcCCccccCCCCCCcCCceEEEEEecccccccCCCCceEEEEcCCCCCcCCCeEEEE
Confidence            77899999999999985 688885 898654 4655567999999999964     256999999999999999999999


Q ss_pred             ec-CCcchhhcccc
Q psy1911         150 LR-GENEADIEMGF  162 (342)
Q Consensus       150 ~~-~~~~~gi~~~~  162 (342)
                      .| +.+.||+....
T Consensus       763 ~r~g~n~CGin~i~  776 (1004)
T PTZ00462        763 DMYGPSHCEDNFIH  776 (1004)
T ss_pred             EeCCCCCCccchhe
Confidence            98 67999985543

>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=99.78  E-value=3.6e-19  Score=161.03  Aligned_cols=89  Identities=28%  Similarity=0.449  Sum_probs=78.3

Q ss_pred             ccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCC-----CCCCCCchhhHH
Q psy1911         190 NFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-----WGCNGGWPQLAW  264 (342)
Q Consensus       190 sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~-----~GC~GG~~~~a~  264 (342)
                      .||||+.    + ++||+||+.||+|||||++++||++++++.+....+.||+|+|++|....     .||.||.+..++
T Consensus         1 ~~d~r~~----~-~~~v~dQg~~gsCwafa~~~~les~~~~~~~~~~~~~lS~q~l~~c~~~~~~~~~~~c~gG~~~~~~   75 (223)
T cd02619           1 SVDLRPL----R-LTPVKNQGSRGSCWAFASAYALESAYRIKGGEDEYVDLSPQYLYICANDECLGINGSCDGGGPLSAL   75 (223)
T ss_pred             CCcchhc----C-CCCcccCCCCcCcHHHHHHHHHHHHHHHhcCCcccccCCHHHHHHhccccccccCCCCCCCcHHHHH
Confidence            4899998    4 89999999999999999999999999998764456899999999998653     489999999999


Q ss_pred             H-HhhhcccccCCCCCCCCCcccCCCC
Q psy1911         265 R-FWGHNGVVTGGDYNSQEGCQPYTLA  290 (342)
Q Consensus       265 ~-y~~~~Gi~~e~~Y~~~~~C~PY~~~  290 (342)
                      . ++..+||+++.+|       ||...
T Consensus        76 ~~~~~~~Gi~~e~~~-------Py~~~   95 (223)
T cd02619          76 LKLVALKGIPPEEDY-------PYGAE   95 (223)
T ss_pred             HHHHHHcCCCccccC-------CCCCC
Confidence            8 8899999997777       88753

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

>smart00645 Pept_C1 Papain family cysteine protease

Probab=99.75  E-value=1.3e-18  Score=153.87  Aligned_cols=75  Identities=44%  Similarity=0.866  Sum_probs=62.6

Q ss_pred             EEEEeeccccccccccccccC-CCCCccceEEEEeeeccc-CCccEEEEecCCCCCCCCCCceeeecCC-cchhhcccc
Q psy1911          87 VAIFSVYADFLQYKSGVYQHN-FGDSIGLHAVRVLGWGVE-NDIPYWLVANSWNDHWGDHGTFKILRGE-NEADIEMGF  162 (342)
Q Consensus        87 ~v~i~v~~~f~~y~~Gi~~~~-~~~~~~~Hav~ivGyg~~-~g~~ywiikNSWG~~WG~~Gy~~i~~~~-~~~gi~~~~  162 (342)
                      ++.+.+. +|++|.+|||..+ |.....+|+|+|||||.+ ++.+||||+||||+.||++|||||.++. +.|+++...
T Consensus        93 ~~~~~~~-~f~~Y~~Gi~~~~~~~~~~~~Hav~ivGyg~~~~g~~yWii~NSwG~~WG~~G~~~i~~~~~~~c~i~~~~  170 (174)
T smart00645       93 SVAIDAS-DFQFYKSGIYDHPGCGSGTLDHAVLIVGYGTEENGKDYWIVKNSWGTDWGENGYFRIARGKNNECGIEASV  170 (174)
T ss_pred             EEEEEcc-cccCCcCeEECCCCCCCCcccEEEEEEEEeecCCCeeEEEEECCCCCCcccCeEEEEEcCCCCccCceeee
Confidence            4444444 6999999999874 544447999999999986 7889999999999999999999999987 899985443

>PTZ00462 Serine-repeat antigen protein; Provisional

Probab=99.69  E-value=3.3e-17  Score=173.41  Aligned_cols=84  Identities=25%  Similarity=0.409  Sum_probs=71.8

Q ss_pred             CCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCc-hhhHHHHhhhcc-c
Q psy1911         197 WPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGW-PQLAWRFWGHNG-V  272 (342)
Q Consensus       197 ~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~-~~~a~~y~~~~G-i  272 (342)
                      +++|..+.||+|||.||||||||++++||++++|+++  ..+.||+|+||||+..  ..||.||+ +..++.|++++| |
T Consensus       538 ~~sC~s~i~VKDQG~CGSCWAFASaaaLES~~cIkgg--~~v~LSeQqLVDCs~~~gn~GC~GG~~~~efl~yI~e~GgL  615 (1004)
T PTZ00462        538 ENNCISKIQIEDQGNCAISWIFASKYHLETIKCMKGY--EPHAISALYIANCSKGEHKDRCDEGSNPLEFLQIIEDNGFL  615 (1004)
T ss_pred             CCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHHhcC--CCcccCHHHHHhcccccCCCCCCCCCcHHHHHHHHHHcCCC
Confidence            5899888999999999999999999999999999977  4678999999999864  35999997 555669998885 7


Q ss_pred             ccCCCCCCCCCcccCCC
Q psy1911         273 VTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       273 ~~e~~Y~~~~~C~PY~~  289 (342)
                      +++.+|       ||..
T Consensus       616 ptESdY-------PYt~  625 (1004)
T PTZ00462        616 PADSNY-------LYNY  625 (1004)
T ss_pred             cccccC-------CCcc
Confidence            776666       8864

>cd00585 Peptidase_C1B Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC)

Probab=99.55  E-value=8.4e-15  Score=146.00  Aligned_cols=85  Identities=26%  Similarity=0.390  Sum_probs=70.3

Q ss_pred             eeEEcCchHHH----HHHHHcCCeEEEEeeccccccccccccccC---------------------CCCCccceEEEEee
Q psy1911          67 KAHMVPRCNAM----RQIYEHGPLVAIFSVYADFLQYKSGVYQHN---------------------FGDSIGLHAVRVLG  121 (342)
Q Consensus        67 ~~~~v~~~~~~----~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~---------------------~~~~~~~Hav~ivG  121 (342)
                      .|++|+.++.+    ++|...+||.++++|. .|+.|.+||+...                     ++....+|||+|||
T Consensus       288 ~y~Nvp~d~l~~~~~~~L~~g~pV~~g~Dv~-~~~~~k~GI~d~~~~~~~~~f~~~~~~~KaeRl~~~es~~tHAM~ivG  366 (437)
T cd00585         288 LYLNVPMDVLKKAAIAQLKDGEPVWFGCDVG-KFSDRKSGILDTDLFDYELLFGIDFGLNKAERLDYGESLMTHAMVLTG  366 (437)
T ss_pred             eEEecCHHHHHHHHHHHHhcCCCEEEEEEcC-hhhccCCccccCcccchhhhcCccccCCHHHHHhhcCCcCCeEEEEEE
Confidence            68999888773    4667777999999996 4789999999543                     23445689999999


Q ss_pred             ecccC-Cc-cEEEEecCCCCCCCCCCceeeecC
Q psy1911         122 WGVEN-DI-PYWLVANSWNDHWGDHGTFKILRG  152 (342)
Q Consensus       122 yg~~~-g~-~ywiikNSWG~~WG~~Gy~~i~~~  152 (342)
                      ||.+. |. .||+|+||||+.||++||++|+.+
T Consensus       367 v~~D~~g~p~yw~VkNSWG~~~G~~Gy~~ms~~  399 (437)
T cd00585         367 VDLDEDGKPVKWKVENSWGEKVGKKGYFVMSDD  399 (437)
T ss_pred             EEecCCCCcceEEEEcccCCCCCCCcceehhHH
Confidence            99754 65 699999999999999999999974

The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is a cysteine peptidase 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. Bleomycin, a glycopeptide derived from the fungus Streptomyces verticullus, is an effective anticancer drug due to its ability to induce DNA strand breaks. Human BH is the major cause of tumor cell resistance to bleomycin chemotherapy, and is also genetically linked to Alzheimer's disease. In addition to its peptidase activity, the yeast BH (Gal6) binds DNA and acts as a repressor in the Gal4 regulatory system. BH forms a hexameric ring barrel structure w

>COG4870 Cysteine protease [Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=8e-13  Score=126.63  Aligned_cols=99  Identities=19%  Similarity=0.297  Sum_probs=70.1

Q ss_pred             cCCCCCcccceeeeeeEEcCchHH-------HHHHHHcCCeEEE--EeeccccccccccccccCCCCCccceEEEEeeec
Q psy1911          53 LYLPTSIPLSHYFKKAHMVPRCNA-------MRQIYEHGPLVAI--FSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWG  123 (342)
Q Consensus        53 ~~~p~s~~~~~~i~~~~~v~~~~~-------~~~i~~~GPV~v~--i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg  123 (342)
                      ...|+..++..+.+....++.+..       .+++...|-++..  |+++..+. ..-+.|..... ...+|||+||||+
T Consensus       197 ~~~~~~~p~~k~~~~~~~i~~~~~~LdnG~i~~~~~~yg~~s~~~~id~~~~~~-~~~~~~~~~s~-~~~gHAv~iVGyD  274 (372)
T COG4870         197 YFSPTNLPVTKHVQEAQIIPSRKKYLDNGNIKAMFGFYGAVSSSMYIDATNSLG-ICIPYPYVDSG-ENWGHAVLIVGYD  274 (372)
T ss_pred             ccCCcCCchhhccccceecccchhhhcccchHHHHhhhccccceeEEecccccc-cccCCCCCCcc-ccccceEEEEecc
Confidence            345566677777777777776654       4667778866543  44444333 33344433333 4569999999999


Q ss_pred             cc----------CCccEEEEecCCCCCCCCCCceeeecCC
Q psy1911         124 VE----------NDIPYWLVANSWNDHWGDHGTFKILRGE  153 (342)
Q Consensus       124 ~~----------~g~~ywiikNSWG~~WG~~Gy~~i~~~~  153 (342)
                      +.          .|.+.||||||||+.||++|||||++..
T Consensus       275 Ds~~~n~~~~~~~g~GAfiikNSWGt~wG~~GYfwisY~y  314 (372)
T COG4870         275 DSFDINNFKYGPPGDGAFIIKNSWGTNWGENGYFWISYYY  314 (372)
T ss_pred             ccccccccccCCCCCceEEEECccccccccCceEEEEeee
Confidence            75          3567999999999999999999999864

>PF03051 Peptidase_C1_2: Peptidase C1-like family This family is a subfamily of the Prosite entry; InterPro: IPR004134 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=98.80  E-value=1.5e-08  Score=101.45  Aligned_cols=84  Identities=27%  Similarity=0.425  Sum_probs=59.6

Q ss_pred             eeEEcCchHH---HHHHHHcC-CeEEEEeeccccccccccccccCC---------------------CCCccceEEEEee
Q psy1911          67 KAHMVPRCNA---MRQIYEHG-PLVAIFSVYADFLQYKSGVYQHNF---------------------GDSIGLHAVRVLG  121 (342)
Q Consensus        67 ~~~~v~~~~~---~~~i~~~G-PV~v~i~v~~~f~~y~~Gi~~~~~---------------------~~~~~~Hav~ivG  121 (342)
                      .|++||.++.   +.+.+..| ||..+-+|.. +.....||.....                     .....+|||+|+|
T Consensus       289 ~ylNvpid~lk~~~i~~Lk~G~~VwfgcDV~k-~~~~k~Gi~D~~~~d~~~~fg~~~~~~K~~Rl~~~eS~~tHAM~itG  367 (438)
T PF03051_consen  289 RYLNVPIDELKDAAIKSLKAGYPVWFGCDVGK-FFDRKNGIMDTDLYDYDSLFGVDFNMSKAERLDYGESTMTHAMVITG  367 (438)
T ss_dssp             EEEE--HHHHHHHHHHHHHTT--EEEEEETTT-TEETTTTEE-TTSB-HHHHHT--S-S-HHHHHHTTSS--EEEEEEEE
T ss_pred             eEeccCHHHHHHHHHHHHHcCCcEEEeccCCc-cccccchhhccchhhhhhhhccccccCHHHHHHhCCCCCceeEEEEE
Confidence            5899999887   34455566 9999999976 4455677763321                     1244689999999


Q ss_pred             ecc-cCCc-cEEEEecCCCCCCCCCCceeeec
Q psy1911         122 WGV-ENDI-PYWLVANSWNDHWGDHGTFKILR  151 (342)
Q Consensus       122 yg~-~~g~-~ywiikNSWG~~WG~~Gy~~i~~  151 (342)
                      .+. ++|. .+|.|+||||+..|.+||+.++.
T Consensus       368 v~~D~~g~p~~wkVeNSWG~~~g~kGy~~msd  399 (438)
T PF03051_consen  368 VDLDEDGKPVRWKVENSWGTDNGDKGYFYMSD  399 (438)
T ss_dssp             EEE-TTSSEEEEEEE-SBTTTSTBTTEEEEEH
T ss_pred             EEeccCCCeeEEEEEcCCCCCCCCCcEEEECH
Confidence            996 5565 59999999999999999999985

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 MEROPS peptidase family C1, sub-family C1B (bleomycin hydrolase, clan CA). This family contains prokaryotic and eukaryotic aminopeptidases and bleomycin hydrolases.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 3PW3_F 2CB5_A 1CB5_C 2DZZ_A 2E02_A 2E01_A 2E03_A 1A6R_A 1GCB_A 3GCB_A ....

>COG4870 Cysteine protease [Posttranslational modification, protein turnover, chaperones]

Probab=98.49  E-value=2.1e-08  Score=96.52  Aligned_cols=86  Identities=24%  Similarity=0.387  Sum_probs=62.1

Q ss_pred             CCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCC-CC-CCC-----CC
Q psy1911         185 KGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTP-NC-WGC-----NG  257 (342)
Q Consensus       185 ~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~-~~-~GC-----~G  257 (342)
                      ..||.-||||+.    +.|+||+||+.||+||||+++++||+.+.....    ..+|+-.++.=.. .. .+|     +|
T Consensus        97 ~s~~~~fd~r~~----g~vs~v~dQg~~Gscwaf~t~~sles~l~~~~~----w~~s~~nm~~ll~~~ye~~fd~~~~d~  168 (372)
T COG4870          97 ASLPSYFDRRDE----GKVSPVKDQGSGGSCWAFATTRSLESYLNPESA----WDFSENNMKNLLGVPYEKGFDYTSNDG  168 (372)
T ss_pred             ccchhheeeecc----CCcccccccCcccceEeeeehhhhhheeccccc----ccccccchhhhcCCCccccCCCccccC
Confidence            458999999999    889999999999999999999999988876542    3445444333111 11 144     37


Q ss_pred             CchhhHHHHhhhc-ccccCCCC
Q psy1911         258 GWPQLAWRFWGHN-GVVTGGDY  278 (342)
Q Consensus       258 G~~~~a~~y~~~~-Gi~~e~~Y  278 (342)
                      |....+..|+.+. |.+.+.+-
T Consensus       169 g~~~m~~a~l~e~sgpv~et~d  190 (372)
T COG4870         169 GNADMSAAYLTEWSGPVYETDD  190 (372)
T ss_pred             CccccccccccccCCcchhhcC
Confidence            7777777787665 77765554

>cd00585 Peptidase_C1B Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC)

Probab=97.08  E-value=0.0011  Score=66.95  Aligned_cols=75  Identities=15%  Similarity=0.189  Sum_probs=59.8

Q ss_pred             cccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHh----------------hCC------------CCCCC
Q psy1911         204 RHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA----------------CTP------------NCWGC  255 (342)
Q Consensus       204 ~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lld----------------C~~------------~~~GC  255 (342)
                      .+|.||+.-|-||.||++.+|+..+...-+. ..+.||+.+|+-                ...            ...-.
T Consensus        55 ~~vtnQ~~SGrCW~FA~Ln~lr~~~~k~~~~-~~felSq~Yl~f~dklEkaN~fle~ii~~~~~~~~~R~v~~ll~~~~~  133 (437)
T cd00585          55 EPVTNQKSSGRCWLFAALNVLRHQFMKKLNL-KEFEFSQSYLFFWDKLEKANYFLENIIETADEPLDDRLVQFLLANPQN  133 (437)
T ss_pred             CCcccCCCCchhHHHHCHHHHHHHHHHHcCC-CCEEeCcHHHHHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhCCcC
Confidence            5899999999999999999999988875554 478899855544                320            12257


Q ss_pred             CCCchhhHHHHhhhcccccCCCCC
Q psy1911         256 NGGWPQLAWRFWGHNGVVTGGDYN  279 (342)
Q Consensus       256 ~GG~~~~a~~y~~~~Gi~~e~~Y~  279 (342)
                      +||.-..+...+.+.|||+...||
T Consensus       134 DGGqw~m~~~li~KYGvVPk~~~p  157 (437)
T cd00585         134 DGGQWDMLVNLIEKYGLVPKSVMP  157 (437)
T ss_pred             CCCchHHHHHHHHHcCCCcccccC
Confidence            899999999999999999977663

The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is a cysteine peptidase 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. Bleomycin, a glycopeptide derived from the fungus Streptomyces verticullus, is an effective anticancer drug due to its ability to induce DNA strand breaks. Human BH is the major cause of tumor cell resistance to bleomycin chemotherapy, and is also genetically linked to Alzheimer's disease. In addition to its peptidase activity, the yeast BH (Gal6) binds DNA and acts as a repressor in the Gal4 regulatory system. BH forms a hexameric ring barrel structure w

>PF03051 Peptidase_C1_2: Peptidase C1-like family This family is a subfamily of the Prosite entry; InterPro: IPR004134 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=96.89  E-value=0.00086  Score=67.60  Aligned_cols=74  Identities=16%  Similarity=0.223  Sum_probs=46.3

Q ss_pred             cccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHH----------------hhCCC------------CCCC
Q psy1911         204 RHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV----------------ACTPN------------CWGC  255 (342)
Q Consensus       204 ~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~ll----------------dC~~~------------~~GC  255 (342)
                      .+|.||..-|-||.||++.+|+..+....+. ....||+-+|.                +....            ..-.
T Consensus        56 ~~vtnQk~SGRCW~FA~lN~lR~~~~kk~~l-~~felSq~Yl~F~DKlEKaN~fLe~ii~~~~~~~d~R~v~~ll~~~~~  134 (438)
T PF03051_consen   56 GPVTNQKSSGRCWLFAALNVLRHEIMKKLNL-KDFELSQNYLFFWDKLEKANYFLENIIDTADEPLDDRLVRFLLKNPVS  134 (438)
T ss_dssp             -S--B--BSSTHHHHHHHHHHHHHHHHHCT--SS--B-HHHHHHHHHHHHHHHHHHHHHHCCTS-TTSHHHHHHHHSTT-
T ss_pred             CCCCCCCCCCCcchhhchHHHHHHHHHHcCC-CceEeechHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHhcCCC
Confidence            5899999999999999999999988877653 46889986654                33210            1246


Q ss_pred             CCCchhhHHHHhhhcccccCCCC
Q psy1911         256 NGGWPQLAWRFWGHNGVVTGGDY  278 (342)
Q Consensus       256 ~GG~~~~a~~y~~~~Gi~~e~~Y  278 (342)
                      +||.-..+..-+.++|||+...|
T Consensus       135 DGGqw~~~~nli~KYGvVPk~~m  157 (438)
T PF03051_consen  135 DGGQWDMVVNLIKKYGVVPKSVM  157 (438)
T ss_dssp             S-B-HHHHHHHHHHH---BGGGS
T ss_pred             CCCchHHHHHHHHHcCcCcHhhC
Confidence            89999999999999999997777

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 MEROPS peptidase family C1, sub-family C1B (bleomycin hydrolase, clan CA). This family contains prokaryotic and eukaryotic aminopeptidases and bleomycin hydrolases.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 3PW3_F 2CB5_A 1CB5_C 2DZZ_A 2E02_A 2E01_A 2E03_A 1A6R_A 1GCB_A 3GCB_A ....

>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]

Probab=96.76  E-value=0.00093  Score=64.21  Aligned_cols=70  Identities=24%  Similarity=0.425  Sum_probs=49.0

Q ss_pred             HHcC-CeEEEEeeccccccccccccccC---------------------CCCCccceEEEEeeeccc-CCc-cEEEEecC
Q psy1911          81 YEHG-PLVAIFSVYADFLQYKSGVYQHN---------------------FGDSIGLHAVRVLGWGVE-NDI-PYWLVANS  136 (342)
Q Consensus        81 ~~~G-PV~v~i~v~~~f~~y~~Gi~~~~---------------------~~~~~~~Hav~ivGyg~~-~g~-~ywiikNS  136 (342)
                      ++.| ||-.+-+|.. +..-+.||+...                     .+.....|||+|.|.+.+ +|. --|-|.||
T Consensus       308 ~qagetVwFG~dvgq-~s~rk~Gimdtd~~~~~s~~g~~~~q~KA~RldY~eSLmTHAMvlTGvd~d~~g~p~rwkVENS  386 (444)
T COG3579         308 MQAGETVWFGCDVGQ-LSDRKTGIMDTDIYDYESSLGINLTQDKAGRLDYGESLMTHAMVLTGVDLDETGNPLRWKVENS  386 (444)
T ss_pred             HhcCCcEEeecCchh-hcccccceeeehhccchhhhCCCcccchhhccccchHHHHHHHHhhccccccCCCceeeEeecc
Confidence            4455 7877777643 555566655211                     012346899999999954 333 56999999


Q ss_pred             CCCCCCCCCceeeec
Q psy1911         137 WNDHWGDHGTFKILR  151 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~  151 (342)
                      ||..-|.+|||-++-
T Consensus       387 WG~d~G~~GyfvaSd  401 (444)
T COG3579         387 WGKDVGKKGYFVASD  401 (444)
T ss_pred             cccccCCCceEeehH
Confidence            999999999998773

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

Probab=84.03  E-value=1.5  Score=35.76  Aligned_cols=52  Identities=21%  Similarity=0.431  Sum_probs=26.5

Q ss_pred             HHHHHHcC-CeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCC
Q psy1911          77 MRQIYEHG-PLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSW  137 (342)
Q Consensus        77 ~~~i~~~G-PV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSW  137 (342)
                      +...++.| ||.+.+...-.-  .....+.    .....|.|+|+||+.+.   +++|..+|
T Consensus        92 i~~~i~~G~Pvi~~~~~~~~~--~~~~~~~----~~~~~H~vvi~Gy~~~~---~~~v~DP~  144 (144)
T PF13529_consen   92 IKQEIDAGRPVIVSVNSGWRP--PNGDGYD----GTYGGHYVVIIGYDEDG---YVYVNDPW  144 (144)
T ss_dssp             HHHHHHTT--EEEEEETTSS----TTEEEE----E-TTEEEEEEEEE-SSE----EEEE-TT
T ss_pred             HHHHHHCCCcEEEEEEccccc--CCCCCcC----CCcCCEEEEEEEEeCCC---EEEEeCCC
Confidence            44444445 999988632100  0111111    12358999999998753   67777766

>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]

Probab=82.53  E-value=1.9  Score=41.99  Aligned_cols=74  Identities=19%  Similarity=0.331  Sum_probs=50.2

Q ss_pred             cccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHH----------------HHHhhCC------------CCCCC
Q psy1911         204 RHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQ----------------HIVACTP------------NCWGC  255 (342)
Q Consensus       204 ~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q----------------~lldC~~------------~~~GC  255 (342)
                      .+|.||..-|-||.|||+..+-..+.-.-+ ...+.||..                |||.-..            ...--
T Consensus        58 d~vtNQk~SGRCWmFAAlNtfRhk~~~el~-le~fElSQaytfFwDKlEKaN~FleqIi~tadq~ldsRlv~~LL~~Pqq  136 (444)
T COG3579          58 DKVTNQKQSGRCWMFAALNTFRHKLISELK-LEDFELSQAYTFFWDKLEKANWFLEQIIETADQELDSRLVSFLLATPQQ  136 (444)
T ss_pred             CccccccccceehHHHHHHHHHHHHHHhcC-cceeehhhHHHHHHHHHHHhhHHHHHHHhhcccchHHHHHHHHHcCccc
Confidence            478999999999999999988554443322 245667752                3333111            01135


Q ss_pred             CCCchhhHHHHhhhcccccCCCC
Q psy1911         256 NGGWPQLAWRFWGHNGVVTGGDY  278 (342)
Q Consensus       256 ~GG~~~~a~~y~~~~Gi~~e~~Y  278 (342)
                      +||--.....-+.+.|||+-+.|
T Consensus       137 DGGQwdM~v~l~eKYGvVpK~~y  159 (444)
T COG3579         137 DGGQWDMFVSLFEKYGVVPKSVY  159 (444)
T ss_pred             cCchHHHHHHHHHHhCCCchhhc
Confidence            78888888888899999986666

>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase

Probab=80.78  E-value=3.5  Score=39.25  Aligned_cols=52  Identities=19%  Similarity=0.520  Sum_probs=34.0

Q ss_pred             HHHHHHcC-CeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEec
Q psy1911          77 MRQIYEHG-PLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVAN  135 (342)
Q Consensus        77 ~~~i~~~G-PV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikN  135 (342)
                      +++.+..| ||.+.++++  ++.|...-|    ......|.|+|+||++++ ..|.++.+
T Consensus        81 l~~~l~~g~pv~~~~D~~--~lpy~~~~~----~~~~~~H~i~v~G~d~~~-~~~~v~D~  133 (317)
T PF14399_consen   81 LKEALDAGRPVIVWVDMY--YLPYRPNYY----KKHHADHYIVVYGYDEEE-DVFYVSDP  133 (317)
T ss_pred             HHHHHhCCCceEEEeccc--cCCCCcccc----ccccCCcEEEEEEEeCCC-CEEEEEcC
Confidence            66677777 999998764  444443322    122358999999999653 34666644

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	342
1pbh_A	317	Crystal Structure Of Human Recombinant Procathepsin		2e-37
3ai8_B	256	Cathepsin B In Complex With The Nitroxoline Length		3e-37
3k9m_A	254	Cathepsin B In Complex With Stefin A Length = 254		4e-37
1gmy_A	261	Cathepsin B Complexed With Dipeptidyl Nitrile Inhib		4e-37
3cbj_A	266	Chagasin-cathepsin B Complex Length = 266		2e-35
1cpj_A	260	Crystal Structures Of Recombinant Rat Cathepsin B A		4e-35
1cte_A	254	Crystal Structures Of Recombinant Rat Cathepsin B A		4e-35
1mir_A	322	Rat Procathepsin B Length = 322		1e-34
1ito_A	256	Crystal Structure Analysis Of Bovine Spleen Catheps		2e-32
1qdq_A	253	X-Ray Crystal Structure Of Bovine Cathepsin B-Ca074		5e-32
3qsd_A	254	Structure Of Cathepsin B1 From Schistosoma Mansoni		1e-29
1huc_B	205	The Refined 2.15 Angstroms X-Ray Crystal Structure		2e-28
1huc_B	205	The Refined 2.15 Angstroms X-Ray Crystal Structure		3e-17
1sp4_B	205	Crystal Structure Of Ns-134 In Complex With Bovine		6e-27
1sp4_B	205	Crystal Structure Of Ns-134 In Complex With Bovine		2e-13
3hhi_A	325	Crystal Structure Of Cathepsin B From T. Brucei In		4e-23
3mor_A	317	Crystal Structure Of Cathepsin B From Trypanosoma B		4e-23
4hwy_A	340	Trypanosoma Brucei Procathepsin B Solved From 40 Fs		5e-23
1sp4_A	48	Crystal Structure Of Ns-134 In Complex With Bovine		3e-13
1huc_A	47	The Refined 2.15 Angstroms X-Ray Crystal Structure		5e-13
3pdf_A	441	Discovery Of Novel Cyanamide-Based Inhibitors Of Ca		6e-13
3pdf_A	441	Discovery Of Novel Cyanamide-Based Inhibitors Of Ca		3e-06
1jqp_A	438	Dipeptidyl Peptidase I (Cathepsin C), A Tetrameric		2e-12
1jqp_A	438	Dipeptidyl Peptidase I (Cathepsin C), A Tetrameric		1e-08
3qj3_A	331	Structure Of Digestive Procathepsin L2 Proteinase F		5e-12
8pch_A	220	Crystal Structure Of Porcine Cathepsin H Determined		9e-12
8pch_A	220	Crystal Structure Of Porcine Cathepsin H Determined		1e-04
1aec_A	218	Crystal Structure Of Actinidin-E-64 Complex+ Length		3e-09
2o6x_A	310	Crystal Structure Of Procathepsin L1 From Fasciola		9e-09
2act_A	220	Crystallographic Refinement Of The Structure Of Act		2e-08
1deu_A	277	Crystal Structure Of Human Procathepsin X: A Cystei		4e-08
1ef7_A	242	Crystal Structure Of Human Cathepsin X Length = 242		5e-08
1pci_A	322	Procaricain Length = 322		7e-08
3p5w_A	220	Actinidin From Actinidia Arguta Planch (Sarusashi)		1e-07
3p5w_A	220	Actinidin From Actinidia Arguta Planch (Sarusashi)		7e-05
3p5u_A	220	Actinidin From Actinidia Arguta Planch (Sarusashi)		2e-07
3p5u_A	220	Actinidin From Actinidia Arguta Planch (Sarusashi)		8e-04
1fh0_A	221	Crystal Structure Of Human Cathepsin V Complexed Wi		5e-07
1fh0_A	221	Crystal Structure Of Human Cathepsin V Complexed Wi		2e-04
1mem_A	215	Crystal Structure Of Cathepsin K Complexed With A P		5e-07
3ovz_A	213	Cathepsin K In Complex With A Covalent Inhibitor Wi		5e-07
1snk_A	214	Cathepsin K Complexed With Carbamate Derivatized No		5e-07
1u9v_A	217	Crystal Structure Of The Cysteine Protease Human Ca		6e-07
3h6s_A	221	Strucure Of Clitocypin - Cathepsin V Complex Length		6e-07
1yvb_A	241	The Plasmodium Falciparum Cysteine Protease Falcipa		7e-07
1o0e_A	208	1.9 Angstrom Crystal Structure Of A Plant Cysteine		9e-07
7pck_A	314	Crystal Structure Of Wild Type Human Procathepsin K		9e-07
2vhs_A	217	Cathsilicatein, A Chimera Length = 217		9e-07
1cqd_A	221	The 2.1 Angstrom Structure Of A Cysteine Protease W		1e-06
1cqd_A	221	The 2.1 Angstrom Structure Of A Cysteine Protease W		2e-06
2f7d_A	215	A Mutant Rabbit Cathepsin K With A Nitrile Inhibito		1e-06
1vsn_A	215	Crystal Structure Of A Potent Small Molecule Inhibi		2e-06
3h7d_A	215	The Crystal Structure Of The Cathepsin K Variant M5		2e-06
3h7d_A	215	The Crystal Structure Of The Cathepsin K Variant M5		7e-04
3bcn_A	209	Crystal Structure Of A Papain-Like Cysteine Proteas		2e-06
3bcn_A	209	Crystal Structure Of A Papain-Like Cysteine Proteas		6e-04
3kse_A	220	Unreduced Cathepsin L In Complex With Stefin A Leng		2e-06
3kse_A	220	Unreduced Cathepsin L In Complex With Stefin A Leng		7e-04
2p7u_A	215	The Crystal Structure Of Rhodesain, The Major Cyste		3e-06
2p7u_A	215	The Crystal Structure Of Rhodesain, The Major Cyste		6e-04
1k3b_B	164	Crystal Structure Of Human Dipeptidyl Peptidase I (		3e-06
1meg_A	216	Crystal Structure Of A Caricain D158e Mutant In Com		3e-06
1ppo_A	216	Determination Of The Structure Of Papaya Protease O		3e-06
3tnx_A	363	Structure Of The Precursor Of A Thermostable Varian		5e-06
1aim_A	215	Cruzain Inhibited By Benzoyl-Tyrosine-Alanine-Fluor		6e-06
1aim_A	215	Cruzain Inhibited By Benzoyl-Tyrosine-Alanine-Fluor		9e-04
1iwd_A	215	Proposed Amino Acid Sequence And The 1.63 Angstrom		6e-06
3pnr_A	240	Structure Of Pbicp-C In Complex With Falcipain-2 Le		6e-06
1s4v_A	229	The 2.0 A Crystal Structure Of The Kdel-Tailed Cyst		6e-06
1s4v_A	229	The 2.0 A Crystal Structure Of The Kdel-Tailed Cyst		4e-05
1k3b_C	69	Crystal Structure Of Human Dipeptidyl Peptidase I (		7e-06
3of8_A	221	Structural Basis For Reversible And Irreversible In		8e-06
3of8_A	221	Structural Basis For Reversible And Irreversible In		7e-05
3hha_A	220	Crystal Structure Of Cathepsin L In Complex With Az		9e-06
3hha_A	220	Crystal Structure Of Cathepsin L In Complex With Az		7e-05
3h89_A	220	A Combined Crystallographic And Molecular Dynamics		9e-06
3h89_A	220	A Combined Crystallographic And Molecular Dynamics		7e-05
1pip_A	212	Crystal Structure Of Papain-Succinyl-Gln-Val-Val-Al		9e-06
3hwn_A	258	Cathepsin L With Az13010160 Length = 258		9e-06
3hwn_A	258	Cathepsin L With Az13010160 Length = 258		4e-05
1ewp_A	215	Cruzain Bound To Mor-Leu-Hpq Length = 215		9e-06
1ewp_A	215	Cruzain Bound To Mor-Leu-Hpq Length = 215		8e-04
2nqd_B	221	Crystal Structure Of Cysteine Protease Inhibitor, C		9e-06
2nqd_B	221	Crystal Structure Of Cysteine Protease Inhibitor, C		5e-04
3bc3_A	220	Exploring Inhibitor Binding At The S Subsites Of Ca		1e-05
3bc3_A	220	Exploring Inhibitor Binding At The S Subsites Of Ca		7e-04
3iv2_A	220	Crystal Structure Of Mature Apo-Cathepsin L C25a Mu		1e-05
3iv2_A	220	Crystal Structure Of Mature Apo-Cathepsin L C25a Mu		5e-04
3iut_A	221	The Crystal Structure Of Cruzain In Complex With A		2e-05
3hd3_A	215	High Resolution Crystal Structure Of Cruzain Bound		2e-05
1cs8_A	316	Crystal Structure Of Procathepsin L Length = 316		2e-05
1cs8_A	316	Crystal Structure Of Procathepsin L Length = 316		3e-04
1khp_A	212	Monoclinic Form Of Papain/zlfg-dam Covalent Complex		2e-05
1ppp_A	212	Crystal Structure Of Papain-E64-C Complex. Binding		2e-05
1npz_A	217	Crystal Structures Of Cathepsin S Inhibitor Complex		2e-05
2pns_A	208	1.9 Angstrom Resolution Crystal Structure Of A Plan		2e-05
2pns_A	208	1.9 Angstrom Resolution Crystal Structure Of A Plan		4e-04
1cjl_A	312	Crystal Structure Of A Cysteine Protease Proform Le		3e-05
1cjl_A	312	Crystal Structure Of A Cysteine Protease Proform Le		2e-04
2bdz_A	214	Mexicain From Jacaratia Mexicana Length = 214		3e-05
2f1g_A	220	Cathepsin S In Complex With Non-Covalent 2-(Benzoxa		4e-05
2f1g_A	220	Cathepsin S In Complex With Non-Covalent 2-(Benzoxa		6e-05
3n3g_A	217	4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitri		4e-05
3n3g_A	217	4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitri		6e-05
3ovx_A	218	Cathepsin S In Complex With A Covalent Inhibitor Wi		4e-05
3ovx_A	218	Cathepsin S In Complex With A Covalent Inhibitor Wi		6e-05
2fq9_A	225	Cathepsin S With Nitrile Inhibitor Length = 225		4e-05
2fq9_A	225	Cathepsin S With Nitrile Inhibitor Length = 225		6e-05
3iej_A	222	Pyrazole-Based Cathepsin S Inhibitors With Arylalky		4e-05
3iej_A	222	Pyrazole-Based Cathepsin S Inhibitors With Arylalky		6e-04
3kwn_A	219	Cathepsin S In Complex With Thioether Acetamide P3		4e-05
3kwn_A	219	Cathepsin S In Complex With Thioether Acetamide P3		5e-04
2g6d_A	217	Human Cathepsin S Mutant With Vinyl Sulfone Inhibit		4e-05
2g6d_A	217	Human Cathepsin S Mutant With Vinyl Sulfone Inhibit		6e-05
2fye_A	217	Mutant Human Cathepsin S With Irreversible Inhibito		4e-05
2fye_A	217	Mutant Human Cathepsin S With Irreversible Inhibito		5e-05
3mpe_A	220	Crystal Structure Of Human Cathepsin-S C25s Mutant		4e-05
3mpe_A	220	Crystal Structure Of Human Cathepsin-S C25s Mutant		5e-04
1ms6_A	222	Dipeptide Nitrile Inhibitor Bound To Cathepsin S. L		4e-05
1ms6_A	222	Dipeptide Nitrile Inhibitor Bound To Cathepsin S. L		8e-05
1glo_A	217	Crystal Structure Of Cys25ser Mutant Of Human Cathe		4e-05
1icf_A	175	Crystal Structure Of Mhc Class Ii Associated P41 Ii		5e-05
2c0y_A	315	The Crystal Structure Of A Cys25ala Mutant Of Human		5e-05
2c0y_A	315	The Crystal Structure Of A Cys25ala Mutant Of Human		3e-04
1m6d_A	214	Crystal Structure Of Human Cathepsin F Length = 214		8e-05
2fo5_A	262	Crystal Structure Of Recombinant Barley Cysteine En		8e-05
2cio_A	212	The High Resolution X-Ray Structure Of Papain Compl		8e-05
3d6s_A	223	Crystal Structure Of Mite Allergen Der F 1 Length =		8e-05
1stf_E	212	The Refined 2.4 Angstroms X-Ray Crystal Structure O		9e-05
3qt4_A	329	Structure Of Digestive Procathepsin L 3 Of Tenebrio		2e-04
3ima_A	212	Complex Strcuture Of Tarocystatin And Papain Length		2e-04
1yal_A	218	Carica Papaya Chymopapain At 1.7 Angstroms Resoluti		3e-04
2b1m_A	246	Crystal Structure Of A Papain-Fold Protein Without		3e-04
1xkg_A	312	Crystal Structure Of The Major House Dust Mite Alle		4e-04
1mhw_A	175	Design Of Non-covalent Inhibitors Of Human Cathepsi		5e-04
2as8_A	222	Crystal Structure Of Mature And Fully Active Der P		6e-04
3rvw_A	222	Crystal Structure Of Der P 1 Complexed With Fab 4c1		6e-04
3f5v_A	222	C2 Crystal Form Of Mite Allergen Der P 1 Length = 2		6e-04
3ioq_A	213	Crystal Structure Of The Carica Candamarcensis Cyst		7e-04

>pdb|1PBH|A Chain A, Crystal Structure Of Human Recombinant Procathepsin B At 3.2 Angstrom Resolution Length = 317

Iteration: 1
 Score =  152 bits (385), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 101/156 (64%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N + + ++SA+ ++
Sbjct: 64  LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 123
Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  +    GCNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCEHHV G    CT
Sbjct: 124 TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT 183
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 184 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 216

>pdb|3AI8|B Chain B, Cathepsin B In Complex With The Nitroxoline Length = 256

Iteration: 1
 Score =  152 bits (384), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 101/156 (64%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N + + ++SA+ ++
Sbjct: 3   LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 62
Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  +    GCNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCEHHV G    CT
Sbjct: 63  TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT 122
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 123 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 155

>pdb|3K9M|A Chain A, Cathepsin B In Complex With Stefin A Length = 254

Iteration: 1
 Score =  152 bits (383), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 101/156 (64%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N + + ++SA+ ++
Sbjct: 1   LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 60
Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  +    GCNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCEHHV G    CT
Sbjct: 61  TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT 120
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 121 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 153

>pdb|1GMY|A Chain A, Cathepsin B Complexed With Dipeptidyl Nitrile Inhibitor Length = 261

Iteration: 1
 Score =  151 bits (382), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 101/156 (64%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N + + ++SA+ ++
Sbjct: 2   LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 61
Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  +    GCNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCEHHV G    CT
Sbjct: 62  TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT 121
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 122 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 154

>pdb|3CBJ|A Chain A, Chagasin-cathepsin B Complex Length = 266

Iteration: 1
 Score =  145 bits (367), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 70/156 (44%), Positives = 99/156 (63%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGS WA     AISDR+CI +N + + ++SA+ ++
Sbjct: 7   LPASFDAREQWPQCPTIKEIRDQGSCGSAWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 66
Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  +    GCNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCE HV G    CT
Sbjct: 67  TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEAHVNGARPPCT 126
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 127 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 159

>pdb|1CPJ|A Chain A, Crystal Structures Of Recombinant Rat Cathepsin B And A Cathepsin B-Inhibitor Complex: Implications For Structure- Based Inhibitor Design Length = 260

Iteration: 1
 Score =  145 bits (365), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 97/156 (62%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+W  CP++  I DQ +CGSCWA     A+SDR+CI +NG    ++SA+ ++
Sbjct: 7   LPESFDAREQWSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRVNVEVSAEDLL 66
Query: 247 ACTP-NCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C    C  GCNGG+P  AW FW   G+V+GG YNS  GC PYT+ PCEHHV G    CT
Sbjct: 67  TCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPPCEHHVNGARPPCT 126
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C    Y ++Y+ D   G  ++ V
Sbjct: 127 --GEGDTPKCNKMC-EAGYSTSYKEDKHYGYTSYSV 159

>pdb|1CTE|A Chain A, Crystal Structures Of Recombinant Rat Cathepsin B And A Cathepsin B-Inhibitor Complex: Implications For Structure- Based Inhibitor Design Length = 254

Iteration: 1
 Score =  145 bits (365), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 97/156 (62%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+W  CP++  I DQ +CGSCWA     A+SDR+CI +NG    ++SA+ ++
Sbjct: 1   LPESFDAREQWSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRVNVEVSAEDLL 60
Query: 247 ACTP-NCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C    C  GCNGG+P  AW FW   G+V+GG YNS  GC PYT+ PCEHHV G    CT
Sbjct: 61  TCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPPCEHHVNGARPPCT 120
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C    Y ++Y+ D   G  ++ V
Sbjct: 121 --GEGDTPKCNKMC-EAGYSTSYKEDKHYGYTSYSV 153

>pdb|1MIR|A Chain A, Rat Procathepsin B Length = 322

Iteration: 1
 Score =  143 bits (361), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 73/166 (43%), Positives = 99/166 (59%), Gaps = 5/166 (3%)
Query: 177 ETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYF 236
           E +G      LP +FDARE+W  CP++  I DQ +CGS WA     A+SDR+CI +NG  
Sbjct: 53  ERVGFSEDINLPESFDAREQWSNCPTIAQIRDQGSCGSSWAFGAVEAMSDRICIHTNGRV 112
Query: 237 TGQISAQHIVACTP-NCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEH 294
             ++SA+ ++ C    C  GCNGG+P  AW FW   G+V+GG YNS  GC PYT+ PCEH
Sbjct: 113 NVEVSAEDLLTCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPPCEH 172
Query: 295 HVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
           HV G    CT  G+  TP+C + C    Y ++Y+ D   G  ++ V
Sbjct: 173 HVNGARPPCT--GEGDTPKCNKMC-EAGYSTSYKEDKHYGYTSYSV 215

>pdb|1ITO|A Chain A, Crystal Structure Analysis Of Bovine Spleen Cathepsin B- E64c Complex Length = 256

Iteration: 1
 Score =  135 bits (341), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 73/156 (46%), Positives = 98/156 (62%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP CP+++ I DQ +CGSCWA     AISDR+CI SNG    ++SA+ ++
Sbjct: 1   LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDML 60
Query: 247 A--CTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
                    GCNGG+P  AW FW   G+V+GG YNS  GC+PY++ PCEHHV G    CT
Sbjct: 61  TCCGGECGDGCNGGFPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCT 120
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  +Y+ D   G  ++ V
Sbjct: 121 --GEGDTPKCSKTC-EPGYSPSYKEDKHFGCSSYSV 153

>pdb|1QDQ|A Chain A, X-Ray Crystal Structure Of Bovine Cathepsin B-Ca074 Complex Length = 253

Iteration: 1
 Score =  135 bits (339), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 70/156 (44%), Positives = 94/156 (60%), Gaps = 5/156 (3%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP CP+++ I DQ +CGSCWA     AISDR+CI SNG    ++SA+ ++
Sbjct: 1   LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDML 60
Query: 247 ACTPNCWGCNGGW--PQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C     G       P  AW FW   G+V+GG YNS  GC+PY++ PCEHHV G    CT
Sbjct: 61  TCCGGECGDGCNGGEPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCT 120
Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
             G+  TP+C + C  P Y  +Y+ D   G  ++ V
Sbjct: 121 --GEGDTPKCSKTC-EPGYSPSYKEDKHFGCSSYSV 153

>pdb|3QSD|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In Complex With Ca074 Inhibitor Length = 254

Iteration: 1
 Score =  127 bits (318), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 65/155 (41%), Positives = 87/155 (56%), Gaps = 3/155 (1%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P +FD+R+KWP C S+  I DQS CGSCWA     A+SDR CI S G    ++SA  ++
Sbjct: 3   IPSSFDSRKKWPRCKSIATIRDQSRCGSCWAFGAVEAMSDRSCIQSGGKQNVELSAVDLL 62
Query: 247 ACTPNC-WGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTL 305
           +C  +C  GC GG    AW +W   G+VTG    +  GC+PY    CEHH +G    C  
Sbjct: 63  SCCESCGLGCEGGILGPAWDYWVKEGIVTGSSKENHAGCEPYPFPKCEHHTKGKYPPCGS 122
Query: 306 LGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
               KTP CKQ C    Y++ Y  D  +GK ++ V
Sbjct: 123 K-IYKTPRCKQTC-QKKYKTPYTQDKHRGKSSYNV 155

>pdb|1HUC|B Chain B, The Refined 2.15 Angstroms X-Ray Crystal Structure Of Human Liver Cathepsin B: The Structural Basis For Its Specificity Length = 205

Iteration: 1
 Score =  122 bits (307), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 60/108 (55%), Positives = 75/108 (69%), Gaps = 2/108 (1%)
Query: 54  YLPTSIPLSHYFKKAHMVPRC--NAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDS 111
           Y PT     HY   ++ V     + M +IY++GP+   FSVY+DFL YKSGVYQH  G+ 
Sbjct: 87  YSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEM 146
Query: 112 IGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIE 159
           +G HA+R+LGWGVEN  PYWLVANSWN  WGD+G FKILRG++   IE
Sbjct: 147 MGGHAIRILGWGVENGTPYWLVANSWNTDWGDNGFFKILRGQDHCGIE 194

>pdb|1HUC|B Chain B, The Refined 2.15 Angstroms X-Ray Crystal Structure Of Human Liver Cathepsin B: The Structural Basis For Its Specificity Length = 205

Iteration: 1
 Score = 85.9 bits (211), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 44/104 (42%), Positives = 62/104 (59%), Gaps = 5/104 (4%)
Query: 239 QISAQHIVACTPNCWG--CNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHV 296
           ++SA+ ++ C  +  G  CNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCEHHV
Sbjct: 4   EVSAEDLLTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHV 63
Query: 297 QGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV 340
            G    CT  G+  TP+C + C  P Y  TY+ D   G  ++ V
Sbjct: 64  NGSRPPCT--GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYSV 104

>pdb|1SP4|B Chain B, Crystal Structure Of Ns-134 In Complex With Bovine Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor Extends Along The Whole Active Site Cleft Length = 205

Iteration: 1
 Score =  117 bits (294), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 53/83 (63%), Positives = 65/83 (78%)
Query: 77  MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANS 136
           M +IY++GP+   FSVY+DFL YKSGVYQH  G+ +G HA+R+LGWGVEN  PYWLV NS
Sbjct: 113 MAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVSGEIMGGHAIRILGWGVENGTPYWLVGNS 172
Query: 137 WNDHWGDHGTFKILRGENEADIE 159
           WN  WGD+G FKILRG++   IE
Sbjct: 173 WNTDWGDNGFFKILRGQDHCGIE 195

>pdb|1SP4|B Chain B, Crystal Structure Of Ns-134 In Complex With Bovine Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor Extends Along The Whole Active Site Cleft Length = 205

Iteration: 1
 Score = 73.6 bits (179), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 36/82 (43%), Positives = 49/82 (59%), Gaps = 3/82 (3%)
Query: 259 WPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNC 318
           +P  AW FW   G+V+GG YNS  GC+PY++ PCEHHV G    CT  G+  TP+C + C
Sbjct: 27  FPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCT--GEGDTPKCNKTC 84
Query: 319 YNPSYESTYRFDLKKGKKAHMV 340
             P Y  +Y+ D   G  ++ V
Sbjct: 85  -EPGYSPSYKEDKHFGCSSYSV 105

>pdb|3HHI|A Chain A, Crystal Structure Of Cathepsin B From T. Brucei In Complex With Ca074 Length = 325

Iteration: 1
 Score =  105 bits (262), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 59/139 (42%), Positives = 78/139 (56%), Gaps = 12/139 (8%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FD+ E WP CP++  IADQS CGSCWAV+ A+A+SDR C    G     ISA  ++
Sbjct: 72  LPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTM-GGVQDVHISAGDLL 130
Query: 247 ACTPNCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP--LQNC 303
           AC  +C  GCNGG P  AW ++   G+V+  DY     CQPY    C HH +       C
Sbjct: 131 ACCSDCGDGCNGGDPDRAWAYFSSTGLVS--DY-----CQPYPFPHCSHHSKSKNGYPPC 183
Query: 304 TLLGKLKTPECKQNCYNPS 322
           +      TP+C   C +P+
Sbjct: 184 SQF-NFDTPKCDYTCDDPT 201

>pdb|3MOR|A Chain A, Crystal Structure Of Cathepsin B From Trypanosoma Brucei Length = 317

Iteration: 1
 Score =  105 bits (261), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 59/139 (42%), Positives = 78/139 (56%), Gaps = 12/139 (8%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FD+ E WP CP++  IADQS CGSCWAV+ A+A+SDR C    G     ISA  ++
Sbjct: 71  LPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTM-GGVQDVHISAGDLL 129
Query: 247 ACTPNCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP--LQNC 303
           AC  +C  GCNGG P  AW ++   G+V+  DY     CQPY    C HH +       C
Sbjct: 130 ACCSDCGDGCNGGDPDRAWAYFSSTGLVS--DY-----CQPYPFPHCSHHSKSKNGYPPC 182
Query: 304 TLLGKLKTPECKQNCYNPS 322
           +      TP+C   C +P+
Sbjct: 183 SQF-NFDTPKCNYTCDDPT 200

>pdb|4HWY|A Chain A, Trypanosoma Brucei Procathepsin B Solved From 40 Fs Free-electron Laser Pulse Data By Serial Femtosecond X-ray Crystallography Length = 340

Iteration: 1
 Score =  105 bits (261), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 59/139 (42%), Positives = 78/139 (56%), Gaps = 12/139 (8%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FD+ E WP CP++  IADQS CGSCWAV+ A+A+SDR C    G     ISA  ++
Sbjct: 94  LPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTM-GGVQDVHISAGDLL 152
Query: 247 ACTPNCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP--LQNC 303
           AC  +C  GCNGG P  AW ++   G+V+  DY     CQPY    C HH +       C
Sbjct: 153 ACCSDCGDGCNGGDPDRAWAYFSSTGLVS--DY-----CQPYPFPHCSHHSKSKNGYPPC 205
Query: 304 TLLGKLKTPECKQNCYNPS 322
           +      TP+C   C +P+
Sbjct: 206 SQF-NFDTPKCNYTCDDPT 223

>pdb|1SP4|A Chain A, Crystal Structure Of Ns-134 In Complex With Bovine Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor Extends Along The Whole Active Site Cleft Length = 48

Iteration: 1
 Score = 72.4 bits (176), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 30/48 (62%), Positives = 37/48 (77%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNG 234
           LP +FDARE+WP CP+++ I DQ +CGSCWA     AISDR+CI SNG
Sbjct: 1   LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNG 48

>pdb|1HUC|A Chain A, The Refined 2.15 Angstroms X-Ray Crystal Structure Of Human Liver Cathepsin B: The Structural Basis For Its Specificity Length = 47

Iteration: 1
 Score = 71.6 bits (174), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 28/47 (59%), Positives = 37/47 (78%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASN 233
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N
Sbjct: 1   LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTN 47

>pdb|3PDF|A Chain A, Discovery Of Novel Cyanamide-Based Inhibitors Of Cathepsin C Length = 441

Iteration: 1
 Score = 71.6 bits (174), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 36/89 (40%), Positives = 52/89 (58%), Gaps = 8/89 (8%)
Query: 79  QIYEHGPLVAIFSVYADFLQYKSGVYQHN-FGD-----SIGLHAVRVLGWGVEN--DIPY 130
           ++  HGP+   F VY DFL YK G+Y H    D      +  HAV ++G+G ++   + Y
Sbjct: 339 ELVHHGPMAVAFEVYDDFLHYKKGIYHHTGLRDPFNPFELTNHAVLLVGYGTDSASGMDY 398
Query: 131 WLVANSWNDHWGDHGTFKILRGENEADIE 159
           W+V NSW   WG++G F+I RG +E  IE
Sbjct: 399 WIVKNSWGTGWGENGYFRIRRGTDECAIE 427

>pdb|3PDF|A Chain A, Discovery Of Novel Cyanamide-Based Inhibitors Of Cathepsin C Length = 441

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/91 (31%), Positives = 50/91 (54%), Gaps = 10/91 (10%)
Query: 206 IADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQL-AW 264
           + +Q++CGSC++ +    +  R+ I +N   T  +S Q +V+C+    GC GG+P L A 
Sbjct: 225 VRNQASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEVVSCSQYAQGCEGGFPYLIAG 284
Query: 265 RFWGHNGVVTGGDYNSQEGCQPY--TLAPCE 293
           ++    G+V       +E C PY  T +PC+
Sbjct: 285 KYAQDFGLV-------EEACFPYTGTDSPCK 308

>pdb|1JQP|A Chain A, Dipeptidyl Peptidase I (Cathepsin C), A Tetrameric Cysteine Protease Of The Papain Family Length = 438

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 35/89 (39%), Positives = 51/89 (57%), Gaps = 8/89 (8%)
Query: 79  QIYEHGPLVAIFSVYADFLQYKSGVYQHN-FGD-----SIGLHAVRVLGWGVE--NDIPY 130
           ++ +HGP+   F V+ DFL Y SG+Y H    D      +  HAV ++G+G +    + Y
Sbjct: 338 ELVKHGPMAVAFEVHDDFLHYHSGIYHHTGLSDPFNPFELTNHAVLLVGYGKDPVTGLDY 397
Query: 131 WLVANSWNDHWGDHGTFKILRGENEADIE 159
           W+V NSW   WG+ G F+I RG +E  IE
Sbjct: 398 WIVKNSWGSQWGESGYFRIRRGTDECAIE 426

>pdb|1JQP|A Chain A, Dipeptidyl Peptidase I (Cathepsin C), A Tetrameric Cysteine Protease Of The Papain Family Length = 438

Iteration: 1
 Score = 57.4 bits (137), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 35/101 (34%), Positives = 55/101 (54%), Gaps = 15/101 (14%)
Query: 206 IADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQL-AW 264
           + +Q +CGSC++ +    +  R+ I +N   T  +S Q +V+C+P   GC+GG+P L A 
Sbjct: 224 VRNQESCGSCYSFASLGMLEARIRILTNNSQTPILSPQEVVSCSPYAQGCDGGFPYLIAG 283
Query: 265 RFWGHNGVVTGGDYNSQEGCQPYTL--APCEHHVQGPLQNC 303
           ++    GVV       +E C PYT   APC+     P +NC
Sbjct: 284 KYAQDFGVV-------EENCFPYTATDAPCK-----PKENC 312

>pdb|3QJ3|A Chain A, Structure Of Digestive Procathepsin L2 Proteinase From Tenebrio Molitor Larval Midgut Length = 331

Iteration: 1
 Score = 68.6 bits (166), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 37/114 (32%), Positives = 56/114 (49%), Gaps = 10/114 (8%)
Query: 177 ETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYF 236
           E +G   +   P +FD R++    P    + +Q +CGS WA S   AI  ++ IA+   +
Sbjct: 106 EDLGLNASVRYPASFDWRDQGMVSP----VKNQGSCGSSWAFSSTGAIESQMKIANGAGY 161
Query: 237 TGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLA 290
              +S Q +V C PN  GC+GGW   A+ +   NG +        EG  PY +A
Sbjct: 162 DSSVSEQQLVDCVPNALGCSGGWMNDAFTYVAQNGGI------DSEGAYPYEMA 209

>pdb|8PCH|A Chain A, Crystal Structure Of Porcine Cathepsin H Determined At 2.1 Angstrom Resolution: Location Of The Mini-Chain C-Terminal Carboxyl Group Defines Cathepsin H Aminopeptidase Function Length = 220

Iteration: 1
 Score = 67.8 bits (164), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 34/76 (44%), Positives = 44/76 (57%), Gaps = 5/76 (6%)
Query: 83  HGPLVAIFSVYADFLQYKSGVYQ----HNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           + P+   F V  DFL Y+ G+Y     H   D +  HAV  +G+G EN IPYW+V NSW 
Sbjct: 131 YNPVSFAFEVTNDFLMYRKGIYSSTSCHKTPDKVN-HAVLAVGYGEENGIPYWIVKNSWG 189
Query: 139 DHWGDHGTFKILRGEN 154
             WG +G F I RG+N
Sbjct: 190 PQWGMNGYFLIERGKN 205

>pdb|8PCH|A Chain A, Crystal Structure Of Porcine Cathepsin H Determined At 2.1 Angstrom Resolution: Location Of The Mini-Chain C-Terminal Carboxyl Group Defines Cathepsin H Aminopeptidase Function Length = 220

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 4/74 (5%)
Query: 206 IADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC--WGCNGGWPQLA 263
           + +Q +CGSCW  S   A+   + IA+    +  ++ Q +V C  N    GC GG P  A
Sbjct: 17  VKNQGSCGSCWTFSTTGALESAVAIATGKMLS--LAEQQLVDCAQNFNNHGCQGGLPSQA 74
Query: 264 WRFWGHNGVVTGGD 277
           + +  +N  + G D
Sbjct: 75  FEYIRYNKGIMGED 88

>pdb|1AEC|A Chain A, Crystal Structure Of Actinidin-E-64 Complex+ Length = 218

Iteration: 1
 Score = 59.3 bits (142), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/77 (37%), Positives = 43/77 (55%), Gaps = 2/77 (2%)
Query: 76  AMRQIYEHGPLVAIFSVYAD-FLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVA 134
           A++    + P+        D F QY SG++    G +I  HAV ++G+G E  I YW+V 
Sbjct: 123 ALQTAVTYQPVSVALDAAGDAFKQYSSGIFTGPCGTAID-HAVTIVGYGTEGGIDYWIVK 181
Query: 135 NSWNDHWGDHGTFKILR 151
           NSW+  WG+ G  +ILR
Sbjct: 182 NSWDTTWGEEGYMRILR 198

>pdb|2O6X|A Chain A, Crystal Structure Of Procathepsin L1 From Fasciola Hepatica Length = 310

Iteration: 1
 Score = 57.8 bits (138), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 42/88 (47%), Gaps = 1/88 (1%)
Query: 65  FKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWG 123
           F   H          +   GP      V +DF+ Y+SG+YQ      + + HAV  +G+G
Sbjct: 202 FYTVHSGSEVELKNLVGAEGPAAVAVDVESDFMMYRSGIYQSQTCSPLRVNHAVLAVGYG 261
Query: 124 VENDIPYWLVANSWNDHWGDHGTFKILR 151
            +    YW+V NSW   WG+ G  +++R
Sbjct: 262 TQGGTDYWIVKNSWGLSWGERGYIRMVR 289

>pdb|2ACT|A Chain A, Crystallographic Refinement Of The Structure Of Actinidin At 1.7 Angstroms Resolution By Fast Fourier Least-Squares Methods Length = 220

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 71  VPRCN--AMRQIYEHGPLVAIFSVYAD-FLQYKSGVYQHNFGDSIGLHAVRVLGWGVEND 127
           VP  N  A++    + P+        D F QY SG++    G ++  HA+ ++G+G E  
Sbjct: 116 VPYNNEWALQTAVTYQPVSVALDAAGDAFKQYASGIFTGPCGTAVD-HAIVIVGYGTEGG 174
Query: 128 IPYWLVANSWNDHWGDHGTFKILR 151
           + YW+V NSW+  WG+ G  +ILR
Sbjct: 175 VDYWIVKNSWDTTWGEEGYMRILR 198

>pdb|1DEU|A Chain A, Crystal Structure Of Human Procathepsin X: A Cysteine Protease With The Proregion Covalently Linked To The Active Site Cysteine Length = 277

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 46/104 (44%)
Query: 73  RCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWL 132
           R   M +IY +GP+            Y  G+Y      +   H V V GWG+ +   YW+
Sbjct: 173 REKMMAEIYANGPISCGIMATERLANYTGGIYAEYQDTTYINHVVSVAGWGISDGTEYWI 232
Query: 133 VANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSSEDDDL 176
           V NSW + WG+ G  +I+    +      +N  +E + +  D +
Sbjct: 233 VRNSWGEPWGERGWLRIVTSTYKDGKGARYNLAIEEHCTFGDPI 276

>pdb|1EF7|A Chain A, Crystal Structure Of Human Cathepsin X Length = 242

Iteration: 1
 Score = 55.1 bits (131), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 37/78 (47%)
Query: 73  RCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWL 132
           R   M +IY +GP+            Y  G+Y      +   H V V GWG+ +   YW+
Sbjct: 138 REKMMAEIYANGPISCGIMATERLANYTGGIYAEYQDTTYINHVVSVAGWGISDGTEYWI 197
Query: 133 VANSWNDHWGDHGTFKIL 150
           V NSW + WG+ G  +I+
Sbjct: 198 VRNSWGEPWGERGWLRIV 215

>pdb|1PCI|A Chain A, Procaricain Length = 322

Iteration: 1
 Score = 54.7 bits (130), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 52/194 (26%), Positives = 77/194 (39%), Gaps = 30/194 (15%)
Query: 130 YWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSSEDDDLETMGCQNAKGLPR 189
           YWL  N + D   D    K +    +A IE  ++             E    ++   LP 
Sbjct: 63  YWLGLNEFADLSNDEFNEKYVGSLIDATIEQSYD-------------EEFINEDIVNLPE 109
Query: 190 NFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACT 249
           N D R+K    P +RH   Q +CGSCWA S    +     I +      ++S Q +V C 
Sbjct: 110 NVDWRKKGAVTP-VRH---QGSCGSCWAFSAVATVEGINKIRTGKLV--ELSEQELVDCE 163
Query: 250 PNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTL--APCE-HHVQGPLQNCTLL 306
               GC GG+P  A  +   NG+     Y       PY      C    V GP+   + +
Sbjct: 164 RRSHGCKGGYPPYALEYVAKNGIHLRSKY-------PYKAKQGTCRAKQVGGPIVKTSGV 216
Query: 307 GKLKTPECKQNCYN 320
           G+++ P  + N  N
Sbjct: 217 GRVQ-PNNEGNLLN 229

>pdb|3P5W|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi) Length = 220

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 47/84 (55%), Gaps = 4/84 (4%)
Query: 71  VPRCN--AMRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEND 127
           VP  N  A++    + P+ VA+ +   +F  Y SG++    G ++  HAV ++G+G E  
Sbjct: 116 VPYNNEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCGTAVD-HAVTIVGYGTEGG 174
Query: 128 IPYWLVANSWNDHWGDHGTFKILR 151
           I YW+V NSW   WG+ G  +I R
Sbjct: 175 IDYWIVKNSWGTTWGEEGYMRIQR 198

>pdb|3P5W|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi) Length = 220

Iteration: 1
 Score = 44.7 bits (104), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 34/104 (32%), Positives = 48/104 (46%), Gaps = 14/104 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP   D    W    ++  I DQ  CGSCWA S   A+     IA+    +  +S Q +V
Sbjct: 1   LPDYVD----WRSSGAVVDIKDQGQCGSCWAFSTIAAVEGINKIATGDLIS--LSEQELV 54
Query: 247 AC--TPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYT 288
            C  T N  GC+GG+    ++F  +NG +      + E   PYT
Sbjct: 55  DCGRTQNTRGCDGGFMTDGFQFIINNGGI------NTEANYPYT 92

>pdb|3P5U|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi) Length = 220

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 47/84 (55%), Gaps = 4/84 (4%)
Query: 71  VPRCN--AMRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEND 127
           VP  N  A++    + P+ VA+ +   +F  Y SG++    G ++  HAV ++G+G E  
Sbjct: 116 VPYNNEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCGTAVD-HAVTIVGYGTEGG 174
Query: 128 IPYWLVANSWNDHWGDHGTFKILR 151
           I YW+V NSW   WG+ G  +I R
Sbjct: 175 IDYWIVKNSWGTTWGEEGYMRIQR 198

>pdb|3P5U|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi) Length = 220

Iteration: 1
 Score = 41.2 bits (95), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 47/104 (45%), Gaps = 14/104 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP   D    W    ++  I DQ  CGS WA S   A+     IA+    +  +S Q +V
Sbjct: 1   LPDYVD----WRSSGAVVDIKDQGQCGSXWAFSTIAAVEGINKIATGDLIS--LSEQELV 54
Query: 247 AC--TPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYT 288
            C  T N  GC+GG+    ++F  +NG +      + E   PYT
Sbjct: 55  DCGRTQNTRGCDGGFMTDGFQFIINNGGI------NTEANYPYT 92

>pdb|1FH0|A Chain A, Crystal Structure Of Human Cathepsin V Complexed With An Irreversible Vinyl Sulfone Inhibitor Length = 221

Iteration: 1
 Score = 52.0 bits (123), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 32/84 (38%), Positives = 47/84 (55%), Gaps = 6/84 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VA+ + ++ F  YKSG+Y      S  L H V V+G+G E    ++  Y
Sbjct: 124 MKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDCSSKNLDHGVLVVGYGFEGANSDNSKY 183
Query: 131 WLVANSWNDHWGDHGTFKILRGEN 154
           WLV NSW   WG +G  KI + +N
Sbjct: 184 WLVKNSWGPEWGSNGYVKIAKDKN 207

>pdb|1FH0|A Chain A, Crystal Structure Of Human Cathepsin V Complexed With An Irreversible Vinyl Sulfone Inhibitor Length = 221

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/87 (31%), Positives = 45/87 (51%), Gaps = 8/87 (9%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP++ D R+K    P    + +Q  CGSCWA S   A+  ++   +    +  +S Q++V
Sbjct: 1   LPKSVDWRKKGYVTP----VKNQKQCGSCWAFSATGALEGQMFRKTGKLVS--LSEQNLV 54
Query: 247 ACT--PNCWGCNGGWPQLAWRFWGHNG 271
            C+      GCNGG+   A+++   NG
Sbjct: 55  DCSRPQGNQGCNGGFMARAFQYVKENG 81

>pdb|1MEM|A Chain A, Crystal Structure Of Cathepsin K Complexed With A Potent Vinyl Sulfone Inhibitor Length = 215

Iteration: 1
 Score = 52.0 bits (123), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 78  RQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVAN 135
           R +   GP+ VAI +    F  Y  GVY     +S  L HAV  +G+G++    +W++ N
Sbjct: 123 RAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKN 182
Query: 136 SWNDHWGDHGTFKILRGENEA 156
           SW ++WG+ G   + R +N A
Sbjct: 183 SWGENWGNKGYILMARNKNNA 203

>pdb|3OVZ|A Chain A, Cathepsin K In Complex With A Covalent Inhibitor With A Ketoamide Warhead Length = 213

Iteration: 1
 Score = 51.6 bits (122), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 78  RQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVAN 135
           R +   GP+ VAI +    F  Y  GVY     +S  L HAV  +G+G++    +W++ N
Sbjct: 121 RAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKN 180
Query: 136 SWNDHWGDHGTFKILRGENEA 156
           SW ++WG+ G   + R +N A
Sbjct: 181 SWGENWGNKGYILMARNKNNA 201

>pdb|1SNK|A Chain A, Cathepsin K Complexed With Carbamate Derivatized Norleucine Aldehyde Length = 214

Iteration: 1
 Score = 51.6 bits (122), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 78  RQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVAN 135
           R +   GP+ VAI +    F  Y  GVY     +S  L HAV  +G+G++    +W++ N
Sbjct: 122 RAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKN 181
Query: 136 SWNDHWGDHGTFKILRGENEA 156
           SW ++WG+ G   + R +N A
Sbjct: 182 SWGENWGNKGYILMARNKNNA 202

>pdb|1U9V|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin K In Complex With The Covalent Inhibitor Nvp-Abe854 Length = 217

Iteration: 1
 Score = 51.6 bits (122), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 78  RQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVAN 135
           R +   GP+ VAI +    F  Y  GVY     +S  L HAV  +G+G++    +W++ N
Sbjct: 125 RAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKN 184
Query: 136 SWNDHWGDHGTFKILRGENEA 156
           SW ++WG+ G   + R +N A
Sbjct: 185 SWGENWGNKGYILMARNKNNA 205

>pdb|3H6S|A Chain A, Strucure Of Clitocypin - Cathepsin V Complex Length = 221

Iteration: 1
 Score = 51.6 bits (122), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 32/84 (38%), Positives = 47/84 (55%), Gaps = 6/84 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VA+ + ++ F  YKSG+Y      S  L H V V+G+G E    ++  Y
Sbjct: 124 MKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDCSSKNLDHGVLVVGYGFEGANSDNSKY 183
Query: 131 WLVANSWNDHWGDHGTFKILRGEN 154
           WLV NSW   WG +G  KI + +N
Sbjct: 184 WLVKNSWGPEWGSNGYVKIAKDKN 207

>pdb|1YVB|A Chain A, The Plasmodium Falciparum Cysteine Protease Falcipain-2 Length = 241

Iteration: 1
 Score = 51.6 bits (122), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 32/92 (34%), Positives = 43/92 (46%), Gaps = 4/92 (4%)
Query: 189 RNFD-AREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
            NFD A   W     +  + DQ NCGSCWA S   ++  +  I  N   T  +S Q +V 
Sbjct: 15  ENFDHAAYDWRLHSGVTPVKDQKNCGSCWAFSSIGSVESQYAIRKNKLIT--LSEQELVD 72
Query: 248 CTPNCWGCNGGWPQLAWR-FWGHNGVVTGGDY 278
           C+   +GCNGG    A+       G+   GDY
Sbjct: 73  CSFKNYGCNGGLINNAFEDMIELGGICPDGDY 104

>pdb|1O0E|A Chain A, 1.9 Angstrom Crystal Structure Of A Plant Cysteine Protease Ervatamin C Length = 208

Iteration: 1
 Score = 51.2 bits (121), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 31/84 (36%), Positives = 45/84 (53%), Gaps = 8/84 (9%)
Query: 71  VPRCN--AMRQIYEHGP-LVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEND 127
           VP CN  A++Q     P  VAI +  A F QY SG++    G  +  H V ++G+     
Sbjct: 111 VPFCNEXALKQAVAVQPSTVAIDASSAQFQQYSSGIFSGPCGTKLN-HGVTIVGYQAN-- 167
Query: 128 IPYWLVANSWNDHWGDHGTFKILR 151
             YW+V NSW  +WG+ G  ++LR
Sbjct: 168 --YWIVRNSWGRYWGEKGYIRMLR 189

>pdb|7PCK|A Chain A, Crystal Structure Of Wild Type Human Procathepsin K Length = 314

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 78  RQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVAN 135
           R +   GP+ VAI +    F  Y  GVY     +S  L HAV  +G+G++    +W++ N
Sbjct: 222 RAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKN 281
Query: 136 SWNDHWGDHGTFKILRGENEA 156
           SW ++WG+ G   + R +N A
Sbjct: 282 SWGENWGNKGYILMARNKNNA 302

>pdb|2VHS|A Chain A, Cathsilicatein, A Chimera Length = 217

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 46/78 (58%), Gaps = 3/78 (3%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWG-VENDIPYWLV 133
           M+ +   GP+ VAI + +  FL YK G+Y  +   S  L HA+ V+G+G + N+  YWLV
Sbjct: 123 MKAVATVGPISVAIDAGHESFLFYKEGIYFSSDCSSSSLNHAMLVVGYGFISNNQKYWLV 182
Query: 134 ANSWNDHWGDHGTFKILR 151
            NSW + WG  G  K+ +
Sbjct: 183 KNSWGEEWGMGGYVKMAK 200

>pdb|1CQD|A Chain A, The 2.1 Angstrom Structure Of A Cysteine Protease With Proline Specificity From Ginger Rhizome, Zingiber Officinale Length = 221

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 48/88 (54%), Gaps = 2/88 (2%)
Query: 76  AMRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVA 134
           ++++   + P+ V + +   DF  Y+SG++  +   S   HA+ V+G+G END  +W+V 
Sbjct: 122 SLQKAVANQPVSVTMDAAGRDFQLYRSGIFTGSCNISAN-HALTVVGYGTENDKDFWIVK 180
Query: 135 NSWNDHWGDHGTFKILRGENEADIEMGF 162
           NSW  +WG+ G  +  R     D + G 
Sbjct: 181 NSWGKNWGESGYIRAERNIENPDGKCGI 208

>pdb|1CQD|A Chain A, The 2.1 Angstrom Structure Of A Cysteine Protease With Proline Specificity From Ginger Rhizome, Zingiber Officinale Length = 221

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 36/109 (33%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D RE     P    + +Q  CGSCWA S   A+     I +    +  +S Q +V
Sbjct: 3   LPDSIDWRENGAVVP----VKNQGGCGSCWAFSTVAAVEGINQIVTGDLIS--LSEQQLV 56
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGD---YNSQEG-CQPYTLAP 291
            CT    GC GGW   A++F  +NG +   +   Y  Q+G C     AP
Sbjct: 57  DCTTANHGCRGGWMNPAFQFIVNNGGINSEETYPYRGQDGICNSTVNAP 105

>pdb|2F7D|A Chain A, A Mutant Rabbit Cathepsin K With A Nitrile Inhibitor Length = 215

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 78  RQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVAN 135
           R +   GP+ VAI +    F  Y  GVY      S  L HAV  +G+G++    +W++ N
Sbjct: 123 RAVARVGPVSVAIDASLTSFQFYSKGVYYDENCSSDNLNHAVLAVGYGIQKGNKHWIIKN 182
Query: 136 SWNDHWGDHGTFKILRGENEA 156
           SW + WG+ G   + R +N A
Sbjct: 183 SWGESWGNKGYILMARNKNNA 203

>pdb|1VSN|A Chain A, Crystal Structure Of A Potent Small Molecule Inhibitor Bound To Cathepsin K Length = 215

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 78  RQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVAN 135
           R +   GP+ VAI +    F  Y +GVY      S  L HAV  +G+G++    +W++ N
Sbjct: 123 RAVAAVGPVSVAIDASLTSFQFYSAGVYYDENCSSDALNHAVLAVGYGIQAGNKHWIIKN 182
Query: 136 SWNDHWGDHGTFKILRGENEA 156
           SW + WG+ G   + R +N A
Sbjct: 183 SWGESWGNAGYILMARNKNNA 203

>pdb|3H7D|A Chain A, The Crystal Structure Of The Cathepsin K Variant M5 In Compl Chondroitin-4-Sulfate Length = 215

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 78  RQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDIPYWLVAN 135
           R +   GP+ VAI +    F  Y  GVY     +S  L HAV  +G+G      +W++ N
Sbjct: 123 RAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGESKGNKHWIIKN 182
Query: 136 SWNDHWGDHGTFKILRGENEA 156
           SW ++WG  G  K+ R +N A
Sbjct: 183 SWGENWGMGGYIKMARNKNNA 203

>pdb|3H7D|A Chain A, The Crystal Structure Of The Cathepsin K Variant M5 In Compl Chondroitin-4-Sulfate Length = 215

Iteration: 1
 Score = 41.2 bits (95), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P + D REK    P    + +Q  CGSCWA S   A+  +L   +       +S Q++V 
Sbjct: 2   PDSVDYREKGYVTP----VKNQGQCGSCWAFSSVGALEGQLKKKTGKLLN--LSPQNLVD 55
Query: 248 CTPNCWGCNGGWPQLAWRFWGHN 270
           C     GC GG+   A+++   N
Sbjct: 56  CVSENDGCGGGYMTNAFQYVQKN 78

>pdb|3BCN|A Chain A, Crystal Structure Of A Papain-Like Cysteine Protease Ervatamin-A Complexed With Irreversible Inhibitor E-64 Length = 209

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 45/84 (53%), Gaps = 8/84 (9%)
Query: 71  VPRCN--AMRQIYEHGP-LVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEND 127
           VP+CN  A++      P +VAI +    F  YK G++    G  +  H V ++G+G +  
Sbjct: 111 VPQCNENALKNAVASQPSVVAIDASSKQFQHYKGGIFTGPCGTKLN-HGVVIVGYGKD-- 167
Query: 128 IPYWLVANSWNDHWGDHGTFKILR 151
             YW+V NSW  HWG+ G  ++ R
Sbjct: 168 --YWIVRNSWGRHWGEQGYTRMKR 189

>pdb|3BCN|A Chain A, Crystal Structure Of A Papain-Like Cysteine Protease Ervatamin-A Complexed With Irreversible Inhibitor E-64 Length = 209

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 35/135 (25%), Positives = 55/135 (40%), Gaps = 22/135 (16%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D R K    P    + +Q  CGSCWA S    +     I +    +  +S Q +V
Sbjct: 1   LPEHVDWRAKGAVIP----LKNQGKCGSCWAFSTVTTVESINQIRTGNLIS--LSEQQLV 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLL 306
            C+    GC GG+   A+++   NG +        E   PY         QGP +    +
Sbjct: 55  DCSKKNHGCKGGYFDRAYQYIIANGGI------DTEANYPYKA------FQGPCRAAKKV 102
Query: 307 GKLK----TPECKQN 317
            ++      P+C +N
Sbjct: 103 VRIDGCKGVPQCNEN 117

>pdb|3KSE|A Chain A, Unreduced Cathepsin L In Complex With Stefin A Length = 220

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/81 (38%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    +D  Y
Sbjct: 123 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDDNKY 182
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 183 WLVKNSWGEEWGMGGYVKMAK 203

>pdb|3KSE|A Chain A, Unreduced Cathepsin L In Complex With Stefin A Length = 220

Iteration: 1
 Score = 41.6 bits (96), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGS WA S   A+  ++   +    +  +S Q++V 
Sbjct: 2   PRSVDWREKGYVTP----VKNQGQCGSXWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 55
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 56  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDAGFVDI 115
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 116 PKQEKALMKAVAT 128

>pdb|2P7U|A Chain A, The Crystal Structure Of Rhodesain, The Major Cysteine Protease Of T. Brucei Rhodesiense, Bound To Inhibitor K777 Length = 215

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/76 (31%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 80  IYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWND 139
           + E+GPL AI      F+ Y  G+      + +  H V ++G+   ++ PYW++ NSW++
Sbjct: 129 LAENGPL-AIAVDATSFMDYNGGILTSCTSEQLD-HGVLLVGYNDASNPPYWIIKNSWSN 186
Query: 140 HWGDHGTFKILRGENE 155
            WG+ G  +I +G N+
Sbjct: 187 MWGEDGYIRIEKGTNQ 202

>pdb|2P7U|A Chain A, The Crystal Structure Of Rhodesain, The Major Cysteine Protease Of T. Brucei Rhodesiense, Bound To Inhibitor K777 Length = 215

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 40/150 (26%), Positives = 58/150 (38%), Gaps = 27/150 (18%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P   D REK    P    + DQ  CGSCWA S    I  +  +A N   +  +S Q +V+
Sbjct: 2   PAAVDWREKGAVTP----VKDQGQCGSCWAFSTIGNIEGQWQVAGNPLVS--LSEQMLVS 55
Query: 248 CTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLG 307
           C    +GC GG    A+ +     V + G     E   PY                 + G
Sbjct: 56  CDTIDFGCGGGLMDNAFNWI----VNSNGGNVFTEASYPY-----------------VSG 94
Query: 308 KLKTPECKQNCYNPSYESTYRFDLKKGKKA 337
             + P+C+ N +      T   DL + + A
Sbjct: 95  NGEQPQCQMNGHEIGAAITDHVDLPQDEDA 124

>pdb|1K3B|B Chain B, Crystal Structure Of Human Dipeptidyl Peptidase I (Cathepsin C): Exclusion Domain Added To An Endopeptidase Framework Creates The Machine For Activation Of Granular Serine Proteases Length = 164

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/91 (31%), Positives = 50/91 (54%), Gaps = 10/91 (10%)
Query: 206 IADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQL-AW 264
           + +Q++CGSC++ +    +  R+ I +N   T  +S Q +V+C+    GC GG+P L A 
Sbjct: 19  VRNQASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEVVSCSQYAQGCEGGFPYLIAG 78
Query: 265 RFWGHNGVVTGGDYNSQEGCQPY--TLAPCE 293
           ++    G+V       +E C PY  T +PC+
Sbjct: 79  KYAQDFGLV-------EEACFPYTGTDSPCK 102

>pdb|1MEG|A Chain A, Crystal Structure Of A Caricain D158e Mutant In Complex With E-64 Length = 216

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 30/86 (34%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP N D R+K    P +RH   Q +CGSCWA S    +     I +      ++S Q +V
Sbjct: 1   LPENVDWRKKGAVTP-VRH---QGSCGSCWAFSAVATVEGINKIRTGKLV--ELSEQELV 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGV 272
            C     GC GG+P  A  +   NG+
Sbjct: 55  DCERRSHGCKGGYPPYALEYVAKNGI 80

>pdb|1PPO|A Chain A, Determination Of The Structure Of Papaya Protease Omega Length = 216

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 30/86 (34%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP N D R+K    P +RH   Q +CGSCWA S    +     I +      ++S Q +V
Sbjct: 1   LPENVDWRKKGAVTP-VRH---QGSCGSCWAFSAVATVEGINKIRTGKLV--ELSEQELV 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGV 272
            C     GC GG+P  A  +   NG+
Sbjct: 55  DCERRSHGCKGGYPPYALEYVAKNGI 80

>pdb|3TNX|A Chain A, Structure Of The Precursor Of A Thermostable Variant Of Papain At 2.6 Angstroem Resolution Length = 363

Iteration: 1
 Score = 48.5 bits (114), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/113 (29%), Positives = 49/113 (43%), Gaps = 11/113 (9%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P   D R+K    P    + +Q +CGS WA S  + I   + I +      + S Q ++
Sbjct: 152 IPEYVDWRQKGAVTP----VKNQGSCGSAWAFSAVSTIESIIKIRTGN--LNEYSEQELL 205
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP 299
            C    +GCNGG+P  A +     G+     Y   EG Q Y    C    +GP
Sbjct: 206 DCDRRSYGCNGGYPWSALQLVAQYGIHYRNTY-PYEGVQRY----CRSREKGP 253

>pdb|1AIM|A Chain A, Cruzain Inhibited By Benzoyl-Tyrosine-Alanine-Fluoromethylketone Length = 215

Iteration: 1
 Score = 48.5 bits (114), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 40/73 (54%), Gaps = 2/73 (2%)
Query: 83  HGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWG 142
           +GP VA+    + ++ Y  GV      +++  H V ++G+     +PYW++ NSW   WG
Sbjct: 132 NGP-VAVAVDASSWMTYTGGVMTSCVSEALD-HGVLLVGYNDSAAVPYWIIKNSWTTQWG 189
Query: 143 DHGTFKILRGENE 155
           + G  +I +G N+
Sbjct: 190 EEGYIRIAKGSNQ 202

>pdb|1AIM|A Chain A, Cruzain Inhibited By Benzoyl-Tyrosine-Alanine-Fluoromethylketone Length = 215

Iteration: 1
 Score = 41.2 bits (95), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 38/126 (30%), Positives = 54/126 (42%), Gaps = 13/126 (10%)
Query: 193 AREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC 252
           A   W    ++  + DQ  CGSCWA S    +  +  +A  G+    +S Q +V+C    
Sbjct: 3   AAVDWRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLA--GHPLTNLSEQMLVSCDKTD 60
Query: 253 WGCNGGWPQLA--WRFWGHNGVVTGGD---YNSQEGCQPYTLAPCEHHVQGPLQNCTLLG 307
            GC+GG    A  W    +NG V   D   Y S EG  P    PC     G     T+ G
Sbjct: 61  SGCSGGLMNNAFEWIVQENNGAVYTEDSYPYASGEGISP----PCT--TSGHTVGATITG 114
Query: 308 KLKTPE 313
            ++ P+
Sbjct: 115 HVELPQ 120

>pdb|1IWD|A Chain A, Proposed Amino Acid Sequence And The 1.63 Angstrom X-ray Crystal Structure Of A Plant Cysteine Protease Ervatamin B: Insight Into The Structural Basis Of Its Stability And Substrate Specificity Length = 215

Iteration: 1
 Score = 48.5 bits (114), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 37/115 (32%), Positives = 53/115 (46%), Gaps = 26/115 (22%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQI---SAQ 243
           LP   D R K     ++  I +Q  CGSCWA S   A+      + N   TGQ+   S Q
Sbjct: 1   LPSFVDWRSK----GAVNSIKNQKQCGSCWAFSAVAAVE-----SINKIRTGQLISLSEQ 51
Query: 244 HIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQE---------GCQPYTL 289
            +V C     GCNGGW   A+++     ++T G  ++Q+          C+PY L
Sbjct: 52  ELVDCDTASHGCNGGWMNNAFQY-----IITNGGIDTQQNYPYSAVQGSCKPYRL 101

>pdb|3PNR|A Chain A, Structure Of Pbicp-C In Complex With Falcipain-2 Length = 240

Iteration: 1
 Score = 48.5 bits (114), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 42/92 (45%), Gaps = 4/92 (4%)
Query: 189 RNFD-AREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
            NFD A   W     +  + DQ NCGS WA S   ++  +  I  N   T  +S Q +V 
Sbjct: 14  ENFDHAAYDWRLHSGVTPVKDQKNCGSAWAFSSIGSVESQYAIRKNKLIT--LSEQELVD 71
Query: 248 CTPNCWGCNGGWPQLAWR-FWGHNGVVTGGDY 278
           C+   +GCNGG    A+       G+   GDY
Sbjct: 72  CSFKNYGCNGGLINNAFEDMIELGGICPDGDY 103

>pdb|1S4V|A Chain A, The 2.0 A Crystal Structure Of The Kdel-Tailed Cysteine Endopeptidase Functioning In Programmed Cell Death Of Ricinus Communis Endosperm Length = 229

Iteration: 1
 Score = 48.1 bits (113), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 3/80 (3%)
Query: 75  NAMRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEND-IPYWL 132
           NA+ +   + P+ VAI +  +DF  Y  GV+  + G  +  H V ++G+G   D   YW 
Sbjct: 122 NALLKAVANQPVSVAIDAGGSDFQFYSEGVFTGSCGTELD-HGVAIVGYGTTIDGTKYWT 180
Query: 133 VANSWNDHWGDHGTFKILRG 152
           V NSW   WG+ G  ++ RG
Sbjct: 181 VKNSWGPEWGEKGYIRMERG 200

>pdb|1S4V|A Chain A, The 2.0 A Crystal Structure Of The Kdel-Tailed Cysteine Endopeptidase Functioning In Programmed Cell Death Of Ricinus Communis Endosperm Length = 229

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 43/89 (48%), Gaps = 7/89 (7%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P + D R+K     ++  + DQ  CGSCWA S   A+     I +N   +  +S Q +V
Sbjct: 2   VPASVDWRKK----GAVTSVKDQGQCGSCWAFSTIVAVEGINQIKTNKLVS--LSEQELV 55
Query: 247 AC-TPNCWGCNGGWPQLAWRFWGHNGVVT 274
            C T    GCNGG    A+ F    G +T
Sbjct: 56  DCDTDQNQGCNGGLMDYAFEFIKQRGGIT 84

>pdb|1K3B|C Chain C, Crystal Structure Of Human Dipeptidyl Peptidase I (Cathepsin C): Exclusion Domain Added To An Endopeptidase Framework Creates The Machine For Activation Of Granular Serine Proteases Length = 69

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 21/47 (44%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 115 HAVRVLGWGVEN--DIPYWLVANSWNDHWGDHGTFKILRGENEADIE 159
           HAV ++G+G ++   + YW+V NSW   WG++G F+I RG +E  IE
Sbjct: 11  HAVLLVGYGTDSASGMDYWIVKNSWGTGWGENGYFRIRRGTDECAIE 57

>pdb|3OF8|A Chain A, Structural Basis For Reversible And Irreversible Inhibition Of Human Cathepsin L By Their Respective Dipeptidyl Glyoxal And Diazomethylketone Inhibitors Length = 221

Iteration: 1
 Score = 47.8 bits (112), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    ++  Y
Sbjct: 124 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKY 183
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 184 WLVKNSWGEEWGMGGYVKMAK 204

>pdb|3OF8|A Chain A, Structural Basis For Reversible And Irreversible Inhibition Of Human Cathepsin L By Their Respective Dipeptidyl Glyoxal And Diazomethylketone Inhibitors Length = 221

Iteration: 1
 Score = 44.7 bits (104), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGSCWA S   A+  ++   +    +  +S Q++V 
Sbjct: 3   PRSVDWREKGYVTP----VKNQGQCGSCWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 56
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 57  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDI 116
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 117 PKQEKALMKAVAT 129

>pdb|3HHA|A Chain A, Crystal Structure Of Cathepsin L In Complex With Az12878478 Length = 220

Iteration: 1
 Score = 47.8 bits (112), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    ++  Y
Sbjct: 123 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKY 182
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 183 WLVKNSWGEEWGMGGYVKMAK 203

>pdb|3HHA|A Chain A, Crystal Structure Of Cathepsin L In Complex With Az12878478 Length = 220

Iteration: 1
 Score = 44.7 bits (104), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGSCWA S   A+  ++   +    +  +S Q++V 
Sbjct: 2   PRSVDWREKGYVTP----VKNQGQCGSCWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 55
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 56  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDAGFVDI 115
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 116 PKQEKALMKAVAT 128

>pdb|3H89|A Chain A, A Combined Crystallographic And Molecular Dynamics Study Of Cathepsin-L Retro-Binding Inhibitors(Compound 4) Length = 220

Iteration: 1
 Score = 47.8 bits (112), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    ++  Y
Sbjct: 123 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKY 182
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 183 WLVKNSWGEEWGMGGYVKMAK 203

>pdb|3H89|A Chain A, A Combined Crystallographic And Molecular Dynamics Study Of Cathepsin-L Retro-Binding Inhibitors(Compound 4) Length = 220

Iteration: 1
 Score = 44.7 bits (104), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGSCWA S   A+  ++   +    +  +S Q++V 
Sbjct: 2   PRSVDWREKGYVTP----VKNQGQCGSCWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 55
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 56  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDI 115
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 116 PKQEKALMKAVAT 128

>pdb|1PIP|A Chain A, Crystal Structure Of Papain-Succinyl-Gln-Val-Val-Ala-Ala-P- Nitroanilide Complex At 1.7 Angstroms Resolution: Noncovalent Binding Mode Of A Common Sequence Of Endogenous Thiol Protease Inhibitors Length = 212

Iteration: 1
 Score = 47.8 bits (112), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 35/113 (30%), Positives = 49/113 (43%), Gaps = 11/113 (9%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P   D R+K    P    + +Q +CGSCWA S    I   + I +      Q S Q ++
Sbjct: 1   IPEYVDWRQKGAVTP----VKNQGSCGSCWAFSAVVTIEGIIKIRTGN--LNQYSEQELL 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP 299
            C    +GCNGG+P  A +     G+     Y   EG Q Y    C    +GP
Sbjct: 55  DCDRRSYGCNGGYPWSALQLVAQYGIHYRNTY-PYEGVQRY----CRSREKGP 102

>pdb|3HWN|A Chain A, Cathepsin L With Az13010160 Length = 258

Iteration: 1
 Score = 47.8 bits (112), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    ++  Y
Sbjct: 161 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKY 220
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 221 WLVKNSWGEEWGMGGYVKMAK 241

>pdb|3HWN|A Chain A, Cathepsin L With Az13010160 Length = 258

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGSCWA S   A+  ++   +    +  +S Q++V 
Sbjct: 40  PRSVDWREKGYVTP----VKNQGQCGSCWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 93
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 94  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDAGFVDI 153
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 154 PKQEKALMKAVAT 166

>pdb|1EWP|A Chain A, Cruzain Bound To Mor-Leu-Hpq Length = 215

Iteration: 1
 Score = 47.8 bits (112), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 83  HGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWG 142
           +GP VA+    + ++ Y  GV      + +  H V ++G+     +PYW++ NSW   WG
Sbjct: 132 NGP-VAVAVDASSWMTYTGGVMTSCVSEQLD-HGVLLVGYNDSAAVPYWIIKNSWTTQWG 189
Query: 143 DHGTFKILRGENE 155
           + G  +I +G N+
Sbjct: 190 EEGYIRIAKGSNQ 202

>pdb|1EWP|A Chain A, Cruzain Bound To Mor-Leu-Hpq Length = 215

Iteration: 1
 Score = 41.2 bits (95), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 38/126 (30%), Positives = 54/126 (42%), Gaps = 13/126 (10%)
Query: 193 AREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC 252
           A   W    ++  + DQ  CGSCWA S    +  +  +A  G+    +S Q +V+C    
Sbjct: 3   AAVDWRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLA--GHPLTNLSEQMLVSCDKTD 60
Query: 253 WGCNGGWPQLA--WRFWGHNGVVTGGD---YNSQEGCQPYTLAPCEHHVQGPLQNCTLLG 307
            GC+GG    A  W    +NG V   D   Y S EG  P    PC     G     T+ G
Sbjct: 61  SGCSGGLMNNAFEWIVQENNGAVYTEDSYPYASGEGISP----PCT--TSGHTVGATITG 114
Query: 308 KLKTPE 313
            ++ P+
Sbjct: 115 HVELPQ 120

>pdb|2NQD|B Chain B, Crystal Structure Of Cysteine Protease Inhibitor, Chagasin, In Complex With Human Cathepsin L Length = 221

Iteration: 1
 Score = 47.8 bits (112), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    ++  Y
Sbjct: 124 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKY 183
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 184 WLVKNSWGEEWGMGGYVKMAK 204

>pdb|2NQD|B Chain B, Crystal Structure Of Cysteine Protease Inhibitor, Chagasin, In Complex With Human Cathepsin L Length = 221

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGS WA S   A+  ++   +    +  +S Q++V 
Sbjct: 3   PRSVDWREKGYVTP----VKNQGQCGSAWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 56
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 57  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDI 116
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 117 PKQEKALMKAVAT 129

>pdb|3BC3|A Chain A, Exploring Inhibitor Binding At The S Subsites Of Cathepsin L Length = 220

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    ++  Y
Sbjct: 123 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKY 182
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 183 WLVKNSWGEEWGMGGYVKMAK 203

>pdb|3BC3|A Chain A, Exploring Inhibitor Binding At The S Subsites Of Cathepsin L Length = 220

Iteration: 1
 Score = 41.6 bits (96), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGS WA S   A+  ++   +    +  +S Q++V 
Sbjct: 2   PRSVDWREKGYVTP----VKNQGQCGSXWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 55
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 56  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDI 115
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 116 PKQEKALMKAVAT 128

>pdb|3IV2|A Chain A, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant Length = 220

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    ++  Y
Sbjct: 123 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKY 182
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 183 WLVKNSWGEEWGMGGYVKMAK 203

>pdb|3IV2|A Chain A, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant Length = 220

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGS WA S   A+  ++   +    +  +S Q++V 
Sbjct: 2   PRSVDWREKGYVTP----VKNQGQCGSAWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 55
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 56  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDI 115
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 116 PKQEKALMKAVAT 128

>pdb|3IUT|A Chain A, The Crystal Structure Of Cruzain In Complex With A Tetrafluorophenoxymethyl Ketone Inhibitor Length = 221

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 83  HGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWG 142
           +GP VA+    + ++ Y  GV      + +  H V ++G+     +PYW++ NSW   WG
Sbjct: 132 NGP-VAVAVDASSWMTYTGGVMTSCVSEQLD-HGVLLVGYNDGAAVPYWIIKNSWTTQWG 189
Query: 143 DHGTFKILRGENE 155
           + G  +I +G N+
Sbjct: 190 EEGYIRIAKGSNQ 202

>pdb|3HD3|A Chain A, High Resolution Crystal Structure Of Cruzain Bound To The Vinyl Sulfone Inhibitor Smdc-256047 Length = 215

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 83  HGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWG 142
           +GP VA+    + ++ Y  GV      + +  H V ++G+     +PYW++ NSW   WG
Sbjct: 132 NGP-VAVAVDASSWMTYTGGVMTSCVSEQLD-HGVLLVGYNDGAAVPYWIIKNSWTTQWG 189
Query: 143 DHGTFKILRGENE 155
           + G  +I +G N+
Sbjct: 190 EEGYIRIAKGSNQ 202

>pdb|1CS8|A Chain A, Crystal Structure Of Procathepsin L Length = 316

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVE----NDIPY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E    ++  Y
Sbjct: 219 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKY 278
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 279 WLVKNSWGEEWGMGGYVKMAK 299

>pdb|1CS8|A Chain A, Crystal Structure Of Procathepsin L Length = 316

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGS WA S   A+  ++   +    +  +S Q++V 
Sbjct: 98  PRSVDWREKGYVTP----VKNQGQCGSXWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 151
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 152 CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDAGFVDI 211
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 212 PKQEKALMKAVAT 224

>pdb|1KHP|A Chain A, Monoclinic Form Of Papain/zlfg-dam Covalent Complex Length = 212

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/113 (30%), Positives = 49/113 (43%), Gaps = 11/113 (9%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P   D R+K    P    + +Q +CGSCWA S    I   + I +      + S Q ++
Sbjct: 1   IPEYVDWRQKGAVTP----VKNQGSCGSCWAFSAVVTIEGIIKIRTGN--LNEYSEQELL 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP 299
            C    +GCNGG+P  A +     G+     Y   EG Q Y    C    +GP
Sbjct: 55  DCDRRSYGCNGGYPWSALQLVAQYGIHYRNTY-PYEGVQRY----CRSREKGP 102

>pdb|1PPP|A Chain A, Crystal Structure Of Papain-E64-C Complex. Binding Diversity Of E64-C To Papain S2 And S3 Subsites Length = 212

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/112 (31%), Positives = 48/112 (42%), Gaps = 11/112 (9%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P   D R+K    P    + +Q +CGSCWA S    I   + I +      Q S Q ++ 
Sbjct: 2   PEYVDWRQKGAVTP----VKNQGSCGSCWAFSAVVTIEGIIKIRTGN--LNQYSEQELLD 55
Query: 248 CTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP 299
           C    +GCNGG+P  A +     G+     Y   EG Q Y    C    +GP
Sbjct: 56  CDRRSYGCNGGYPWSALQLVAQYGIHYRNTY-PYEGVQRY----CRSREKGP 102

>pdb|1NPZ|A Chain A, Crystal Structures Of Cathepsin S Inhibitor Complexes Length = 217

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+CWA S   A+  +L + +    T  +SAQ++V
Sbjct: 1   LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVT--LSAQNLV 54
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 55  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 114
Query: 297 QGP 299
           + P
Sbjct: 115 ELP 117

>pdb|2PNS|A Chain A, 1.9 Angstrom Resolution Crystal Structure Of A Plant Cysteine Protease Ervatamin-C Refinement With Cdna Derived Amino Acid Sequence Length = 208

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/84 (33%), Positives = 45/84 (53%), Gaps = 8/84 (9%)
Query: 71  VPRCN--AMRQIYEHGP-LVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEND 127
           VP CN  A+++     P +VAI +    F  YKSG++    G  +  H V ++G+  +  
Sbjct: 111 VPHCNENALKKAVASQPSVVAIDASSKQFQHYKSGIFSGPCGTKLN-HGVVIVGYWKD-- 167
Query: 128 IPYWLVANSWNDHWGDHGTFKILR 151
             YW+V NSW  +WG+ G  ++ R
Sbjct: 168 --YWIVRNSWGRYWGEQGYIRMKR 189

>pdb|2PNS|A Chain A, 1.9 Angstrom Resolution Crystal Structure Of A Plant Cysteine Protease Ervatamin-C Refinement With Cdna Derived Amino Acid Sequence Length = 208

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 37/143 (25%), Positives = 56/143 (39%), Gaps = 22/143 (15%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP   D R+K    P    + +Q  CGSCWA S  + +     I +    +  +S Q +V
Sbjct: 1   LPEQIDWRKKGAVTP----VKNQGKCGSCWAFSTVSTVESINQIRTGNLIS--LSEQQLV 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLL 306
            C     GC GG    A+++   NG +        E   PY        VQGP +    +
Sbjct: 55  DCNKKNHGCKGGAFVYAYQYIIDNGGI------DTEANYPYKA------VQGPCRAAKKV 102
Query: 307 GKLK----TPECKQNCYNPSYES 325
            ++      P C +N    +  S
Sbjct: 103 VRIDGYKGVPHCNENALKKAVAS 125

>pdb|1CJL|A Chain A, Crystal Structure Of A Cysteine Protease Proform Length = 312

Iteration: 1
 Score = 46.2 bits (108), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 30/81 (37%), Positives = 43/81 (53%), Gaps = 6/81 (7%)
Query: 77  MRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVLGWGVENDI----PY 130
           M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+G+G E+       Y
Sbjct: 215 MKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDGNKY 274
Query: 131 WLVANSWNDHWGDHGTFKILR 151
           WLV NSW + WG  G  K+ +
Sbjct: 275 WLVKNSWGEEWGMGGYVKMAK 295

>pdb|1CJL|A Chain A, Crystal Structure Of A Cysteine Protease Proform Length = 312

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGS WA S   A+  ++   +    +  +S Q++V 
Sbjct: 94  PRSVDWREKGYVTP----VKNQGQCGSSWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 147
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 148 CSGPEGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDAGFVDI 207
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 208 PKQEKALMKAVAT 220

>pdb|2BDZ|A Chain A, Mexicain From Jacaratia Mexicana Length = 214

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/94 (32%), Positives = 44/94 (46%), Gaps = 12/94 (12%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQ---ISAQH 244
           P + D REK    P    + +Q+ CGSCWA S    I        N   TGQ   +S Q 
Sbjct: 2   PESIDWREKGAVTP----VKNQNPCGSCWAFSTVATIE-----GINKIITGQLISLSEQE 52
Query: 245 IVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDY 278
           ++ C     GC+GG+   + ++   NGV T  +Y
Sbjct: 53  LLDCERRSHGCDGGYQTTSLQYVVDNGVHTEREY 86

>pdb|2F1G|A Chain A, Cathepsin S In Complex With Non-Covalent 2-(Benzoxazol-2-Ylamino)- Acetamide Length = 220

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 131 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 190
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 191 HNFGEEGYIRMAR 203

>pdb|2F1G|A Chain A, Cathepsin S In Complex With Non-Covalent 2-(Benzoxazol-2-Ylamino)- Acetamide Length = 220

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+CWA S   A+  +L + +    +  +SAQ++V
Sbjct: 4   LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 57
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 58  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 117
Query: 297 QGP 299
           + P
Sbjct: 118 ELP 120

>pdb|3N3G|A Chain A, 4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitrile As Cathepsin S Inhibitors: N3, Not N1 Is Critically Important Length = 217

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 128 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 187
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 188 HNFGEEGYIRMAR 200

>pdb|3N3G|A Chain A, 4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitrile As Cathepsin S Inhibitors: N3, Not N1 Is Critically Important Length = 217

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+CWA S   A+  +L + +    +  +SAQ++V
Sbjct: 1   LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 54
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 55  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 114
Query: 297 QGP 299
           + P
Sbjct: 115 ELP 117

>pdb|3OVX|A Chain A, Cathepsin S In Complex With A Covalent Inhibitor With An Aldehyde Warhead Length = 218

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 129 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 188
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 189 HNFGEEGYIRMAR 201

>pdb|3OVX|A Chain A, Cathepsin S In Complex With A Covalent Inhibitor With An Aldehyde Warhead Length = 218

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+CWA S   A+  +L + +    +  +SAQ++V
Sbjct: 2   LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 55
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 56  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 115
Query: 297 QGP 299
           + P
Sbjct: 116 ELP 118

>pdb|2FQ9|A Chain A, Cathepsin S With Nitrile Inhibitor Length = 225

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 129 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 188
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 189 HNFGEEGYIRMAR 201

>pdb|2FQ9|A Chain A, Cathepsin S With Nitrile Inhibitor Length = 225

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+CWA S   A+  +L + +    +  +SAQ++V
Sbjct: 2   LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 55
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 56  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 115
Query: 297 QGP 299
           + P
Sbjct: 116 ELP 118

>pdb|3IEJ|A Chain A, Pyrazole-Based Cathepsin S Inhibitors With Arylalkynes As P1 Binding Elements Length = 222

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 130 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 189
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 190 HNFGEEGYIRMAR 202

>pdb|3IEJ|A Chain A, Pyrazole-Based Cathepsin S Inhibitors With Arylalkynes As P1 Binding Elements Length = 222

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+ WA S   A+  +L + +    +  +SAQ++V
Sbjct: 3   LPDSVDWREK----GCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 56
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 57  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 116
Query: 297 QGP 299
           + P
Sbjct: 117 ELP 119

>pdb|3KWN|A Chain A, Cathepsin S In Complex With Thioether Acetamide P3 Inhibitor Length = 219

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 128 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 187
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 188 HNFGEEGYIRMAR 200

>pdb|3KWN|A Chain A, Cathepsin S In Complex With Thioether Acetamide P3 Inhibitor Length = 219

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+ WA S   A+  +L + +    +  +SAQ++V
Sbjct: 1   LPDSVDWREK----GCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 54
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 55  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 114
Query: 297 QGP 299
           + P
Sbjct: 115 ELP 117

>pdb|2G6D|A Chain A, Human Cathepsin S Mutant With Vinyl Sulfone Inhibitor Cra- 14009 Length = 217

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 128 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 187
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 188 HNFGEKGYIRMAR 200

>pdb|2G6D|A Chain A, Human Cathepsin S Mutant With Vinyl Sulfone Inhibitor Cra- 14009 Length = 217

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+CWA S   A+  +L + +    +  +SAQ++V
Sbjct: 1   LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 54
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 55  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCRKYT 114
Query: 297 QGP 299
           + P
Sbjct: 115 ELP 117

>pdb|2FYE|A Chain A, Mutant Human Cathepsin S With Irreversible Inhibitor Cra- 14013 Length = 217

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 128 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 187
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 188 HNFGEKGYIRMAR 200

>pdb|2FYE|A Chain A, Mutant Human Cathepsin S With Irreversible Inhibitor Cra- 14013 Length = 217

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+CWA S   A+  +L + +    +  +SAQ++V
Sbjct: 1   LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 54
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 55  DCSTKKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSAYRAATCRKYT 114
Query: 297 QGP 299
           + P
Sbjct: 115 ELP 117

>pdb|3MPE|A Chain A, Crystal Structure Of Human Cathepsin-S C25s Mutant With Bound Drug Length = 220

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 129 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 188
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 189 HNFGEEGYIRMAR 201

>pdb|3MPE|A Chain A, Crystal Structure Of Human Cathepsin-S C25s Mutant With Bound Drug Length = 220

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+ WA S   A+  +L + +    +  +SAQ++V
Sbjct: 2   LPDSVDWREK----GCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 55
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 56  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 115
Query: 297 QGP 299
           + P
Sbjct: 116 ELP 118

>pdb|1MS6|A Chain A, Dipeptide Nitrile Inhibitor Bound To Cathepsin S. Length = 222

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 84  GPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWG 142
           GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW  ++G
Sbjct: 132 GPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWGHNFG 191
Query: 143 DHGTFKILR 151
           + G  ++ R
Sbjct: 192 EEGYIRMAR 200

>pdb|1MS6|A Chain A, Dipeptide Nitrile Inhibitor Bound To Cathepsin S. Length = 222

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+CWA S   A+  +L + +    +  +SAQ++V
Sbjct: 1   LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 54
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 55  DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 114
Query: 297 QGP 299
           + P
Sbjct: 115 ELP 117

>pdb|1GLO|A Chain A, Crystal Structure Of Cys25ser Mutant Of Human Cathepsin S Length = 217

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 80  IYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN 138
           +   GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW 
Sbjct: 128 VANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG 187
Query: 139 DHWGDHGTFKILR 151
            ++G+ G  ++ R
Sbjct: 188 HNFGEEGYIRMAR 200

>pdb|1ICF|A Chain A, Crystal Structure Of Mhc Class Ii Associated P41 Ii Fragment In Complex With Cathepsin L Length = 175

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGSCWA S   A+  ++   +    +  +S Q++V 
Sbjct: 2   PRSVDWREKGYVTP----VKNQGQCGSCWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 55
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 56  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDI 115
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 116 PKQEKALMKAVAT 128

>pdb|2C0Y|A Chain A, The Crystal Structure Of A Cys25ala Mutant Of Human Procathepsin S Length = 315

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 84  GPL-VAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWG 142
           GP+ V + + +  F  Y+SGVY          H V V+G+G  N   YWLV NSW  ++G
Sbjct: 230 GPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWGHNFG 289
Query: 143 DHGTFKILRGE 153
           + G  ++ R +
Sbjct: 290 EEGYIRMARNK 300

>pdb|2C0Y|A Chain A, The Crystal Structure Of A Cys25ala Mutant Of Human Procathepsin S Length = 315

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 16/123 (13%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D REK      +  +  Q +CG+ WA S   A+  +L + +    +  +SAQ++V
Sbjct: 99  LPDSVDWREK----GCVTEVKYQGSCGAAWAFSAVGALEAQLKLKTGKLVS--LSAQNLV 152
Query: 247 ACTPNCW---GCNGGWPQLAWRFWGHN-GVVTGGDYNSQ---EGCQ---PYTLAPCEHHV 296
            C+   +   GCNGG+   A+++   N G+ +   Y  +   + CQ    Y  A C  + 
Sbjct: 153 DCSTEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAATCSKYT 212
Query: 297 QGP 299
           + P
Sbjct: 213 ELP 215

>pdb|1M6D|A Chain A, Crystal Structure Of Human Cathepsin F Length = 214

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 26/38 (68%)
Query: 115 HAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRG 152
           HAV ++G+G  +D+P+W + NSW   WG+ G + + RG
Sbjct: 161 HAVLLVGYGQRSDVPFWAIKNSWGTDWGEKGYYYLHRG 198

>pdb|2FO5|A Chain A, Crystal Structure Of Recombinant Barley Cysteine Endoprotease B Isoform 2 (Ep-B2) In Complex With Leupeptin Length = 262

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 78  RQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGV-ENDIPYWLVANS 136
           R +      VA+ +    F+ Y  GV+    G  +  H V V+G+GV E+   YW V NS
Sbjct: 131 RAVANQPVSVAVEASGKAFMFYSEGVFTGECGTELD-HGVAVVGYGVAEDGKAYWTVKNS 189
Query: 137 WNDHWGDHGTFKILR 151
           W   WG+ G  ++ +
Sbjct: 190 WGPSWGEQGYIRVEK 204

>pdb|2CIO|A Chain A, The High Resolution X-Ray Structure Of Papain Complexed With Fragments Of The Trypanosoma Brucei Cysteine Protease Inhibitor Icp Length = 212

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 34/113 (30%), Positives = 48/113 (42%), Gaps = 11/113 (9%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P   D R+K    P    + +Q +CGS WA S    I   + I +      Q S Q ++
Sbjct: 1   IPEYVDWRQKGAVTP----VKNQGSCGSXWAFSAVVTIEGIIKIRTGN--LNQYSEQELL 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP 299
            C    +GCNGG+P  A +     G+     Y   EG Q Y    C    +GP
Sbjct: 55  DCDRRSYGCNGGYPWSALQLVAQYGIHYRNTY-PYEGVQRY----CRSREKGP 102

>pdb|3D6S|A Chain A, Crystal Structure Of Mite Allergen Der F 1 Length = 223

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 29/57 (50%)
Query: 103 VYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIE 159
           + QH+ G     HAV ++G+G      YW+V NSW+  WGD G      G N   IE
Sbjct: 159 IIQHDNGYQPNYHAVNIVGYGSTQGDDYWIVRNSWDTTWGDSGYGYFQAGNNLMMIE 215

>pdb|1STF|E Chain E, The Refined 2.4 Angstroms X-Ray Crystal Structure Of Recombinant Human Stefin B In Complex With The Cysteine Proteinase Papain: A Novel Type Of Proteinase Inhibitor Interaction Length = 212

Iteration: 1
 Score = 44.3 bits (103), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 34/113 (30%), Positives = 48/113 (42%), Gaps = 11/113 (9%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P   D R+K    P    + +Q +CGS WA S    I   + I +      Q S Q ++
Sbjct: 1   IPEYVDWRQKGAVTP----VKNQGSCGSXWAFSAVVTIEGIIKIRTGN--LNQYSEQELL 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP 299
            C    +GCNGG+P  A +     G+     Y   EG Q Y    C    +GP
Sbjct: 55  DCDRRSYGCNGGYPWSALQLVAQYGIHYRNTY-PYEGVQRY----CRSREKGP 102

>pdb|3QT4|A Chain A, Structure Of Digestive Procathepsin L 3 Of Tenebrio Molitor Larval Midgut Length = 329

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 39/74 (52%), Gaps = 3/74 (4%)
Query: 80  IYEHGPLVAIFSVYADFLQYKSG--VYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSW 137
           + + GP VA+     D LQ+ SG   Y      S   H V V+G+G +N   YW++ NSW
Sbjct: 240 VGQAGP-VAVAIDATDELQFYSGGLFYDQTCNQSDLNHGVLVVGYGSDNGQDYWILKNSW 298
Query: 138 NDHWGDHGTFKILR 151
              WG+ G ++ +R
Sbjct: 299 GSGWGESGYWRQVR 312

>pdb|3IMA|A Chain A, Complex Strcuture Of Tarocystatin And Papain Length = 212

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 33/113 (29%), Positives = 48/113 (42%), Gaps = 11/113 (9%)
Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P   D R+K    P    + +Q +CGS WA S    I   + I +      + S Q ++
Sbjct: 1   IPEYVDWRQKGAVTP----VKNQGSCGSXWAFSAVVTIEGIIKIRTGN--LNEYSEQELL 54
Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGP 299
            C    +GCNGG+P  A +     G+     Y   EG Q Y    C    +GP
Sbjct: 55  DCDRRSYGCNGGYPWSALQLVAQYGIHYRNTY-PYEGVQRY----CRSREKGP 102

>pdb|1YAL|A Chain A, Carica Papaya Chymopapain At 1.7 Angstroms Resolution Length = 218

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/94 (28%), Positives = 43/94 (45%), Gaps = 6/94 (6%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P++ D R K    P    + +Q  CGS WA S    +     I +      ++S Q +V 
Sbjct: 2   PQSIDWRAKGAVTP----VKNQGACGSXWAFSTIATVEGINKIVTGNLL--ELSEQELVD 55
Query: 248 CTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQ 281
           C  + +GC GG+   + ++  +NGV T   Y  Q
Sbjct: 56  CDKHSYGCKGGYQTTSLQYVANNGVHTSKVYPYQ 89

>pdb|2B1M|A Chain A, Crystal Structure Of A Papain-Fold Protein Without The Catalytic Cysteine From Seeds Of Pachyrhizus Erosus Length = 246

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 95  DFLQYKSGVYQH-NFGDSIGL-HAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILR 151
           DF  Y  G+Y   N     G+ H V ++G+G E+ + YW+  NSW + WG  G  +I R
Sbjct: 146 DFHFYSGGIYDGGNCSSPYGINHFVLIVGYGSEDGVDYWIAKNSWGEDWGIDGYIRIQR 204

>pdb|1XKG|A Chain A, Crystal Structure Of The Major House Dust Mite Allergen Der P 1 In Its Pro Form At 1.61 A Resolution Length = 312

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 72  PRCNAMRQIY--EHGPLVAIFSVY-ADFLQYKSG--VYQHNFGDSIGLHAVRVLGWGVEN 126
           P  N +R+     H  +  I  +   D  ++  G  + Q + G     HAV ++G+    
Sbjct: 202 PNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNAQ 261
Query: 127 DIPYWLVANSWNDHWGDHG 145
            + YW+V NSW+ +WGD+G
Sbjct: 262 GVDYWIVRNSWDTNWGDNG 280

>pdb|1MHW|A Chain A, Design Of Non-covalent Inhibitors Of Human Cathepsin L. From The 96- Residue Proregion To Optimized Tripeptides Length = 175

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 15/133 (11%)
Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           PR+ D REK    P    + +Q  CGS WA S   A+  ++   +    +  +S Q++V 
Sbjct: 2   PRSVDWREKGYVTP----VKNQGQCGSXWAFSATGALEGQMFRKTGRLIS--LSEQNLVD 55
Query: 248 CT--PNCWGCNGGWPQLAWRFWGHNGVVTGGDY----NSQEGCQ---PYTLAPCEHHVQG 298
           C+      GCNGG    A+++   NG +   +      ++E C+    Y++A     V  
Sbjct: 56  CSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDI 115
Query: 299 PLQNCTLLGKLKT 311
           P Q   L+  + T
Sbjct: 116 PKQEKALMKAVAT 128

>pdb|2AS8|A Chain A, Crystal Structure Of Mature And Fully Active Der P 1 Allergen Length = 222

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 72  PRCNAMRQIY--EHGPLVAIFSVY-ADFLQYKSG--VYQHNFGDSIGLHAVRVLGWGVEN 126
           P  N +R+     H  +  I  +   D  ++  G  + Q + G     HAV ++G+    
Sbjct: 122 PNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNAQ 181
Query: 127 DIPYWLVANSWNDHWGDHG 145
            + YW+V NSW+ +WGD+G
Sbjct: 182 GVDYWIVRNSWDTNWGDNG 200

>pdb|3RVW|A Chain A, Crystal Structure Of Der P 1 Complexed With Fab 4c1 Length = 222

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 72  PRCNAMRQIY--EHGPLVAIFSVY-ADFLQYKSG--VYQHNFGDSIGLHAVRVLGWGVEN 126
           P  N +R+     H  +  I  +   D  ++  G  + Q + G     HAV ++G+    
Sbjct: 122 PNVNKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNAQ 181
Query: 127 DIPYWLVANSWNDHWGDHG 145
            + YW+V NSW+ +WGD+G
Sbjct: 182 GVDYWIVRNSWDTNWGDNG 200

>pdb|3F5V|A Chain A, C2 Crystal Form Of Mite Allergen Der P 1 Length = 222

Iteration: 1
 Score = 41.6 bits (96), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 5/79 (6%)
Query: 72  PRCNAMRQIY--EHGPLVAIFSVY-ADFLQYKSG--VYQHNFGDSIGLHAVRVLGWGVEN 126
           P  N +R+     H  +  I  +   D  ++  G  + Q + G     HAV ++G+    
Sbjct: 122 PNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNAQ 181
Query: 127 DIPYWLVANSWNDHWGDHG 145
            + YW+V NSW+ +WGD+G
Sbjct: 182 GVDYWIVRNSWDTNWGDNG 200

>pdb|3IOQ|A Chain A, Crystal Structure Of The Carica Candamarcensis Cysteine Protease Cms1ms2 In Complex With E-64 Length = 213

Iteration: 1
 Score = 41.2 bits (95), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 31/86 (36%), Positives = 42/86 (48%), Gaps = 8/86 (9%)
Query: 71  VPRCN--AMRQIYEHGPLVAIFSVYADFLQ-YKSGVYQHNFGDSIGLHAVRVLGWGVEND 127
           VPR N  A+ Q     P+  +        Q Y+ G++    G SI  HAV  +G+G  ND
Sbjct: 113 VPRNNEQALIQRIAIQPVSIVVEAKGRAFQNYRGGIFAGPCGTSID-HAVAAVGYG--ND 169
Query: 128 IPYWLVANSWNDHWGDHGTFKILRGE 153
             Y L+ NSW   WG+ G  +I RG 
Sbjct: 170 --YILIKNSWGTGWGEGGYIRIKRGS 193

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	342
3pbh_A	317	Procathepsin B; thiol protease, cysteine protease,	100.0
3qsd_A	254	Cathepsin B-like peptidase (C01 family); cysteine	100.0
3cbj_A	266	Cathepsin B; cathepsin B, occluding loop, chagas d	100.0
3hhi_A	325	Cathepsin B-like cysteine protease; occluding loop	100.0
3pbh_A	317	Procathepsin B; thiol protease, cysteine protease,	99.95
3tnx_A	363	Papain; hydrolase, cytoplasm for recombinant expre	99.95
3cbj_A	266	Cathepsin B; cathepsin B, occluding loop, chagas d	99.94
3ioq_A	213	CMS1MS2; caricaceae, cysteine protease, papain fam	99.94
2cio_A	212	Papain; hydrolase/inhibitor, complex hydrolase/inh	99.94
3f5v_A	222	DER P 1 allergen; allergy, asthma, DUST mites, gly	99.94
3hhi_A	325	Cathepsin B-like cysteine protease; occluding loop	99.94
8pch_A	220	Cathepsin H; hydrolase, protease, cysteine protein	99.94
3i06_A	215	Cruzipain; autocatalytic cleavage, glycoprotein, p	99.94
3kwz_A	215	Cathepsin K; enzyme inhibitor, covalent reversible	99.94
2bdz_A	214	Mexicain; cysteine protease, peptidase_C1, papain-	99.94
3qsd_A	254	Cathepsin B-like peptidase (C01 family); cysteine	99.94
1o0e_A	208	Ervatamin C; plant cysteine protease, two domain,	99.94
1ppo_A	216	Protease omega; hydrolase(thiol protease); 1.80A {	99.94
1m6d_A	214	Cathepsin F, catsf; papain family cysteine proteas	99.94
1iwd_A	215	Ervatamin B; cysteine protease, alpha-beta protein	99.94
1yal_A	218	Chymopapain; hydrolase, thiol protease; 1.70A {Car	99.94
3p5u_A	220	Actinidin; SAD, cysteine proteinases, hydrolase; 1	99.94
3qj3_A	331	Cathepsin L-like protein; hydrolase, proteinase, l	99.94
1deu_A	277	Procathepsin X; cysteine protease, proregion, pros	99.94
1cqd_A	221	Protein (protease II); cysteine protease, glycopro	99.94
2oul_A	241	Falcipain 2; cysteine protease, inhibitor, macromo	99.94
3u8e_A	222	Papain-like cysteine protease; papain-like cystein	99.94
2b1m_A	246	SPE31; papain-like, sugar binding protein; HET: NA	99.94
3bwk_A	243	Cysteine protease falcipain-3; malaria, hydrolase;	99.94
3i06_A	215	Cruzipain; autocatalytic cleavage, glycoprotein, p	99.94
3pdf_A	441	Cathepsin C, dipeptidyl peptidase 1; two domains,	99.94
1pci_A	322	Procaricain; zymogen, hydrolase, thiol protease; 3	99.93
1m6d_A	214	Cathepsin F, catsf; papain family cysteine proteas	99.93
1s4v_A	229	Cysteine endopeptidase; KDEL ER retention signal,	99.93
2fo5_A	262	Cysteine proteinase EP-B 2; EP-B2, EPB2, EPB, cyst	99.93
2xu3_A	220	Cathepsin L1; hydrolase, drug design, thiol protea	99.93
2xu3_A	220	Cathepsin L1; hydrolase, drug design, thiol protea	99.93
3kwz_A	215	Cathepsin K; enzyme inhibitor, covalent reversible	99.93
1by8_A	314	Protein (procathepsin K); hydrolase(sulfhydryl pro	99.93
2o6x_A	310	Procathepsin L1, secreted cathepsin L 1; hydrolase	99.93
3ovx_A	218	Cathepsin S; hydrolase, covalent inhibitor, aldehy	99.93
1xkg_A	312	DER P I, major mite fecal allergen DER P 1; major	99.93
3qt4_A	329	Cathepsin-L-like midgut cysteine proteinase; hydro	99.93
3p5u_A	220	Actinidin; SAD, cysteine proteinases, hydrolase; 1	99.93
3u8e_A	222	Papain-like cysteine protease; papain-like cystein	99.93
1iwd_A	215	Ervatamin B; cysteine protease, alpha-beta protein	99.93
3ovx_A	218	Cathepsin S; hydrolase, covalent inhibitor, aldehy	99.93
2c0y_A	315	Procathepsin S; proenzyme, proteinase, hydrolase,	99.93
1by8_A	314	Protein (procathepsin K); hydrolase(sulfhydryl pro	99.93
1xkg_A	312	DER P I, major mite fecal allergen DER P 1; major	99.93
3f75_A	224	Toxopain-2, cathepsin L protease; medical structur	99.93
1ppo_A	216	Protease omega; hydrolase(thiol protease); 1.80A {	99.93
2o6x_A	310	Procathepsin L1, secreted cathepsin L 1; hydrolase	99.93
8pch_A	220	Cathepsin H; hydrolase, protease, cysteine protein	99.93
1yal_A	218	Chymopapain; hydrolase, thiol protease; 1.70A {Car	99.93
3qt4_A	329	Cathepsin-L-like midgut cysteine proteinase; hydro	99.93
3qj3_A	331	Cathepsin L-like protein; hydrolase, proteinase, l	99.93
1cs8_A	316	Human procathepsin L; prosegment, propeptide, inhi	99.93
2c0y_A	315	Procathepsin S; proenzyme, proteinase, hydrolase,	99.93
1cqd_A	221	Protein (protease II); cysteine protease, glycopro	99.93
1pci_A	322	Procaricain; zymogen, hydrolase, thiol protease; 3	99.93
1cs8_A	316	Human procathepsin L; prosegment, propeptide, inhi	99.93
1deu_A	277	Procathepsin X; cysteine protease, proregion, pros	99.92
1s4v_A	229	Cysteine endopeptidase; KDEL ER retention signal,	99.92
3ioq_A	213	CMS1MS2; caricaceae, cysteine protease, papain fam	99.92
2b1m_A	246	SPE31; papain-like, sugar binding protein; HET: NA	99.92
3f5v_A	222	DER P 1 allergen; allergy, asthma, DUST mites, gly	99.92
2fo5_A	262	Cysteine proteinase EP-B 2; EP-B2, EPB2, EPB, cyst	99.92
3pdf_A	441	Cathepsin C, dipeptidyl peptidase 1; two domains,	99.92
2cio_A	212	Papain; hydrolase/inhibitor, complex hydrolase/inh	99.92
3f75_A	224	Toxopain-2, cathepsin L protease; medical structur	99.92
2oul_A	241	Falcipain 2; cysteine protease, inhibitor, macromo	99.92
1o0e_A	208	Ervatamin C; plant cysteine protease, two domain,	99.92
3bwk_A	243	Cysteine protease falcipain-3; malaria, hydrolase;	99.91
2bdz_A	214	Mexicain; cysteine protease, peptidase_C1, papain-	99.91
3tnx_A	363	Papain; hydrolase, cytoplasm for recombinant expre	99.9
2wbf_X	265	Serine-repeat antigen protein; SERA, malaria, vacu	99.89
2wbf_X	265	Serine-repeat antigen protein; SERA, malaria, vacu	99.88
3ois_A	291	Cysteine protease; alpha and beta, hydrolase; HET:	99.85
3ois_A	291	Cysteine protease; alpha and beta, hydrolase; HET:	99.85
3pw3_A	383	Aminopeptidase C; bleomycin, cysteine proteinase f	99.72
2e01_A	457	Cysteine proteinase 1; bleomycin hydrolase, thiol	99.72
2e01_A	457	Cysteine proteinase 1; bleomycin hydrolase, thiol	99.72
2cb5_A	453	Protein (bleomycin hydrolase); aminopeptidase, cys	99.71
2cb5_A	453	Protein (bleomycin hydrolase); aminopeptidase, cys	99.69
3pw3_A	383	Aminopeptidase C; bleomycin, cysteine proteinase f	99.44

>3pbh_A Procathepsin B; thiol protease, cysteine protease, proenzyme, papain; 2.50A {Homo sapiens} SCOP: d.3.1.1 PDB: 2pbh_A 1pbh_A 1mir_A

Probab=100.00  E-value=4.2e-40  Score=315.64  Aligned_cols=155  Identities=47%  Similarity=1.043  Sum_probs=143.7

Q ss_pred             CCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCC-CC-CCCCCCchh
Q psy1911         184 AKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTP-NC-WGCNGGWPQ  261 (342)
Q Consensus       184 ~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~-~~-~GC~GG~~~  261 (342)
                      ..+||++||||++||+|+.|+|||||+.||||||||++++||+|++|++++...+.||+|+||||+. .+ .||+||++.
T Consensus        61 ~~~lP~s~DwR~~~~~c~~vtpVkdQg~CGSCWAFsa~~ale~~~~i~~~~~~~~~LSeq~LvdC~~~~~~~GC~GG~~~  140 (317)
T 3pbh_A           61 DLKLPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPA  140 (317)
T ss_dssp             CCCCCSSEEHHHHCTTCGGGTCCCBCCSSCCHHHHHHHHHHHHHHHHHTTTSCCCCBCHHHHHHHSCTTTBCGGGCBCHH
T ss_pred             ccCCCCCEechhccCCCCCcCCccccCCccchHHHHHHHHHHHHHHHHhCCCCcccCCHHHHHHhccccCCCCCCCCCHH
Confidence            3689999999999999999999999999999999999999999999999876688999999999987 44 499999999


Q ss_pred             hHHHHhhhcccccCCCCCCCCCcccCCCCCCccCCCCCCccCCCCCccccccccccccccccccccccccccccceeEee
Q psy1911         262 LAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMVL  341 (342)
Q Consensus       262 ~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~~~c~~~~~~~~~~C~~~~~~~~p~C~~~C~~~~~~~~y~~d~~~~~~~y~~~  341 (342)
                      .||+||.++||++|++|++.++|+||++++|.|+..+..++|....  .+|.|..+|. ++|.+.|..|++|+...|.|+
T Consensus       141 ~A~~yi~~~Gi~te~~Y~~~~~c~PY~~~~c~~~~~~~~~~C~~~~--~~~~c~~~c~-~~~~~~~~~~~~~~~~~~~v~  217 (317)
T 3pbh_A          141 EAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCTGEG--DTPKCSKICE-PGYSPTYKQDKHYGYNSYSVS  217 (317)
T ss_dssp             HHHHHHHHTCEEBBCSTTCCCBSSCCCSCCCCCCCTTCCSCCCSCC--CCCCCCCSCC-SSCCSCGGGSEECBCCCEEEC
T ss_pred             HHHHHHHHhCCCcchhccCCCCCcCcccCcccccccCcCCCCCCcC--CCCccccccc-CCCccceeeeeeeeeecccCC
Confidence            9999999999999999999999999999999999888889998753  7899999999 889999999999999888874

>3qsd_A Cathepsin B-like peptidase (C01 family); cysteine peptidase, digestive tract, hydrolase-hydrolase INH complex; HET: 074; 1.30A {Schistosoma mansoni} SCOP: d.3.1.0 PDB: 3s3q_A* 3s3r_A*

Probab=100.00  E-value=2.6e-39  Score=300.97  Aligned_cols=154  Identities=42%  Similarity=0.915  Sum_probs=141.4

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCC-CCCCCCchhhHH
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLAW  264 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~-~GC~GG~~~~a~  264 (342)
                      +||++||||++||+|+.|+|||||+.||||||||++++||+|++|++++...+.||+|+||||+... .||+||++..||
T Consensus         2 ~lP~s~D~R~~~~~~~~vtpVkdQg~CGSCWAFaa~~ale~~~~i~~~~~~~~~LSeQ~lvdC~~~~~~GC~GG~~~~a~   81 (254)
T 3qsd_A            2 EIPSSFDSRKKWPRCKSIATIRDQSRCGSCWAFGAVEAMSDRSCIQSGGKQNVELSAVDLLSCCESCGLGCEGGILGPAW   81 (254)
T ss_dssp             CCCSCEEHHHHCTTCGGGGCCCBCCSSBCHHHHHHHHHHHHHHHHHTTTCCCCCBCHHHHHHHCTTSBCTTBCBCHHHHH
T ss_pred             CCCCcCccccccCCCCccCCCCCcccCccHHHHHHHHHHHHHHHHHhCCCccccCCHHHHHhhhcCCCCCCCCCCHHHHH
Confidence            6999999999999999999999999999999999999999999999876667899999999998654 499999999999


Q ss_pred             HHhhhcccccCCCCCCCCCcccCCCCCCccCCCCCCccCCCCCccccccccccccccccccccccccccccceeEee
Q psy1911         265 RFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMVL  341 (342)
Q Consensus       265 ~y~~~~Gi~~e~~Y~~~~~C~PY~~~~c~~~~~~~~~~C~~~~~~~~p~C~~~C~~~~~~~~y~~d~~~~~~~y~~~  341 (342)
                      +||+++||++|++|.+.++|+||++.+|.|+..+..++|..... .+|.|..+|. ..+...|..+++|+...|.|+
T Consensus        82 ~yi~~~Gi~~e~~y~~~~~c~PY~~~~c~~~~~~~~~~C~~~~~-~~~~c~~~c~-~~~~~~~~~~~~~~~~~~~~~  156 (254)
T 3qsd_A           82 DYWVKEGIVTGSSKENHAGCEPYPFPKCEHHTKGKYPPCGSKIY-KTPRCKQTCQ-KKYKTPYTQDKHRGKSSYNVK  156 (254)
T ss_dssp             HHHHHTCBCBCCCTTTCCSSSCCSSCCCBCSSCSSSCBCCSCCC-CCCCCCCCCC-TTCCSCGGGGCBCCSEEEECC
T ss_pred             HHHHHcCCCcccccccCcCcCCcccccccccccCcCCCCccccc-CCcccccccc-CCccceeeeeeeeeeeeEecC
Confidence            99999999999999999999999999999998888899987543 6899999999 778888999999988878763

>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=100.00  E-value=8.3e-38  Score=292.76  Aligned_cols=155  Identities=45%  Similarity=0.976  Sum_probs=139.2

Q ss_pred             CCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCC--CCCCCCCCchh
Q psy1911         184 AKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTP--NCWGCNGGWPQ  261 (342)
Q Consensus       184 ~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~--~~~GC~GG~~~  261 (342)
                      ..+||++||||+.||+|+.|+|||||+.||||||||++++||+|++|++++...+.||+|+||||+.  ...||+||++.
T Consensus         4 ~~~lP~~~D~R~~w~~~~~vt~VkdQg~CGSCWAfa~~~ale~~~~i~~~~~~~~~LS~q~lvdC~~~~~~~gC~GG~~~   83 (266)
T 3cbj_A            4 DLKLPASFDAREQWPQCPTIKEIRDQGSCGSAWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPA   83 (266)
T ss_dssp             CCCCCSCEEHHHHSTTCGGGGCCCBCCSSBCHHHHHHHHHHHHHHHHHTTTSCCCCBCHHHHHHHCGGGGBCTTBCBCHH
T ss_pred             CCCCCccCcchhccCCCCcCCCCCCCCCcchHHHHHHHHHHHHHHHHHhCCCCccccCHHHHHhhccccCCCCCCCCCHH
Confidence            4579999999999999999999999999999999999999999999998765678999999999985  24599999999


Q ss_pred             hHHHHhhhcccccCCCCCCCCCcccCCCCCCccCCCCCCccCCCCCccccccccccccccccccccccccccccceeEee
Q psy1911         262 LAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMVL  341 (342)
Q Consensus       262 ~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~~~c~~~~~~~~~~C~~~~~~~~p~C~~~C~~~~~~~~y~~d~~~~~~~y~~~  341 (342)
                      .||+||.++||+++++|.+.|.|.||.+.+|.|+..+..+.|....  .+|.|...|+ +++.+.|..|++|+...|.|+
T Consensus        84 ~a~~y~~~~Gi~~~~~Y~~~e~~~PY~~~~~~~~~~~~~~~C~~~~--~~p~c~~~c~-~~~~~~~~~~~~~~~~~~~v~  160 (266)
T 3cbj_A           84 EAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEAHVNGARPPCTGEG--DTPKCSKICE-PGYSPTYKQDKHYGYNSYSVS  160 (266)
T ss_dssp             HHHHHHHHTCBCBCCSTTCCCSSSCCCSCCCSCCCSCSSCCCCSCC--CCCCCCCSCC-TTCCSCTGGGCBCBSCCEECC
T ss_pred             HHHHHHHHhCcCcCccccccccccCcccccccccccCCCCCCcccc--CCCccccccC-CCCcceeeeeeeeeeeeEEeC
Confidence            9999999999999999988899999999999998766778897643  6899999998 678888989999888777763

>3hhi_A Cathepsin B-like cysteine protease; occluding loop, hydrolase, THIO protease; HET: 074; 1.60A {Trypanosoma brucei} SCOP: d.3.1.0 PDB: 4hwy_A* 3mor_A*

Probab=100.00  E-value=1.7e-34  Score=277.45  Aligned_cols=143  Identities=38%  Similarity=0.810  Sum_probs=121.4

Q ss_pred             CCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCC-CCCCCCchhhH
Q psy1911         185 KGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLA  263 (342)
Q Consensus       185 ~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~-~GC~GG~~~~a  263 (342)
                      .+||++||||+.||+|+.|+||||||.||||||||++++||+|++|+++. ..+.||+|+||||+..+ .||+||++..|
T Consensus        70 ~~lP~s~DwR~~w~~~g~vtpVkdQg~CGSCWAFsa~~alE~~~~i~~~~-~~~~LSeQ~LvdC~~~~~~GC~GG~~~~A  148 (325)
T 3hhi_A           70 APLPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGV-QDVHISAGDLLACCSDCGDGCNGGDPDRA  148 (325)
T ss_dssp             CCCCSCEEHHHHSTTCTTTTCCCBCCSSBCHHHHHHHHHHHHHHHHTSSC-SSCCBCHHHHHHHCGGGBCTTBCBCHHHH
T ss_pred             cCCCCcEehhHhcCCCCccccccCCCCccccHHHHHHHHHHHHHHHHhCC-CccccCHHHHHHhccCCCCCCCCCCHHHH
Confidence            57999999999999999999999999999999999999999999999884 26799999999998743 49999999999


Q ss_pred             HHHhhhcccccCCCCCCCCCcccCCCCCCccCCC--CCCccCCCCCccccccccccccccccccccccccccccceeEe
Q psy1911         264 WRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQ--GPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHMV  340 (342)
Q Consensus       264 ~~y~~~~Gi~~e~~Y~~~~~C~PY~~~~c~~~~~--~~~~~C~~~~~~~~p~C~~~C~~~~~~~~y~~d~~~~~~~y~~  340 (342)
                      |+||.++||++|.+|       ||++++|.|+..  +.+++|.... ..+|.|..+|.+    ..|..++++....|.|
T Consensus       149 ~~yi~~~Gi~~e~~y-------PY~~~~c~~~~~~~~~~~~C~~~~-~~~~~c~~~c~~----~~~~~~~~~~~~~y~v  215 (325)
T 3hhi_A          149 WAYFSSTGLVSDYCQ-------PYPFPHCSHHSKSKNGYPPCSQFN-FDTPKCDYTCDD----PTIPVVNYRSWTSYAL  215 (325)
T ss_dssp             HHHHHHTCBCBTTTS-------CCSSCCCBSSSCCTTCCCBGGGCC-CCCCCCCSSCSS----TTSCCCCBCEEEEEEE
T ss_pred             HHHHHHhCCCccccc-------CCccccccccccccccCCCCCCcc-cCCcchhhcccc----cccccceEEeecceEe
Confidence            999999999995555       999888998765  4567898322 278999999983    3455667776666654

>3pbh_A Procathepsin B; thiol protease, cysteine protease, proenzyme, papain; 2.50A {Homo sapiens} SCOP: d.3.1.1 PDB: 2pbh_A 1pbh_A 1mir_A

Probab=99.95  E-value=3.4e-28  Score=232.95  Aligned_cols=107  Identities=53%  Similarity=0.999  Sum_probs=95.4

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWND  139 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~  139 (342)
                      .+++..++.|+.++.  +++|+++|||+|+|+|+++|++|++|||..+++...++|||+|||||+++|.+||||+||||+
T Consensus       207 ~~~~~~~~~v~~~e~~i~~~i~~~GPV~v~i~~~~~f~~Y~~GVy~~~~~~~~~~HaV~iVGyG~~~g~~YWivkNSWG~  286 (317)
T 3pbh_A          207 KHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAIRILGWGVENGTPYWLVANSWNT  286 (317)
T ss_dssp             EECBCCCEEECSCHHHHHHHHHHHCCEEEEEEEEGGGGGEEEEEECCCSCCEEEEEEEEEEEEEEETTEEEEEEECSBCT
T ss_pred             eeeeeecccCCcHHHHHHHHHHHCCCEEEEEEecccccCCCCcEEccCCCCCCCCEEEEEEEEEEeCCeeEEEEEcCCCC
Confidence            345556678876554  778999999999999999999999999998877777799999999999999999999999999


Q ss_pred             CCCCCCceeeecCCcchhhcccccccccc
Q psy1911         140 HWGDHGTFKILRGENEADIEMGFNNRVEA  168 (342)
Q Consensus       140 ~WG~~Gy~~i~~~~~~~gi~~~~~~~v~~  168 (342)
                      .||++|||||+|+.|.|||+..+.++++.
T Consensus       287 ~WGe~GY~ri~rg~n~CgI~~~~~a~~p~  315 (317)
T 3pbh_A          287 DWGDNGFFKILRGQDHCGIESEVVAGIPR  315 (317)
T ss_dssp             TSTBTTEEEEECSSCGGGTTTSCEECCBC
T ss_pred             CcCCCcEEEEEcCCCcccCCCceEeeecC
Confidence            99999999999999999999999887653

>3tnx_A Papain; hydrolase, cytoplasm for recombinant expression; 2.62A {Carica papaya}

Probab=99.95  E-value=7.9e-28  Score=233.71  Aligned_cols=95  Identities=28%  Similarity=0.591  Sum_probs=87.6

Q ss_pred             cCCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchh
Q psy1911         182 QNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQ  261 (342)
Q Consensus       182 ~~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~  261 (342)
                      ....+||++||||+.    +.|+||||||.||||||||++++||++++|+++  ..+.||+|+||||+....||+||++.
T Consensus       147 ~~~~~lP~s~DWR~~----g~VtpVkdQG~CGSCWAFsa~~alE~~~~i~tg--~~~~LSeQ~LvdC~~~~~GC~GG~~~  220 (363)
T 3tnx_A          147 DGDVNIPEYVDWRQK----GAVTPVKNQGSCGSAWAFSAVSTIESIIKIRTG--NLNEYSEQELLDCDRRSYGCNGGYPW  220 (363)
T ss_dssp             CSCCCCCSCEEGGGG----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHH
T ss_pred             cccCCCCcceecccC----CCCCCCccCCcCCchhhhhhcccHHHHHHHHcC--CCCCcCHHHHhcccCCCCCCCCCChH
Confidence            345689999999998    889999999999999999999999999999998  47889999999998877799999999


Q ss_pred             hHHHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         262 LAWRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       262 ~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      .||.|+.++||++|.+|       ||..
T Consensus       221 ~a~~yi~~~Gi~~e~~y-------PY~~  241 (363)
T 3tnx_A          221 SALQLVAQYGIHYRNTY-------PYEG  241 (363)
T ss_dssp             HHHHHHHHTCBCBTTTS-------CCCS
T ss_pred             HHHhHHHhcCccccccC-------CCcC
Confidence            99999999999997777       8865

>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=99.94  E-value=1.2e-27  Score=223.68  Aligned_cols=105  Identities=53%  Similarity=0.998  Sum_probs=92.8

Q ss_pred             eeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCCCC
Q psy1911          64 YFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHW  141 (342)
Q Consensus        64 ~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~~W  141 (342)
                      ++..++.|+.++.  +++|+++|||+|+|+++++|++|++|||..+++...++|||+|||||+++|.+|||||||||+.|
T Consensus       152 ~~~~~~~v~~~~~~i~~~i~~~GPV~v~i~~~~~f~~Y~~Gvy~~~~~~~~~~HaV~iVGyg~~~g~~yWivkNSWG~~W  231 (266)
T 3cbj_A          152 YGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAIRILGWGVENGTPYWLVANSWNTDW  231 (266)
T ss_dssp             CBSCCEECCSCHHHHHHHHHHHCCEEEEEEEEGGGGGCCSSEECCCSSCEEEEEEEEEEEEEEETTEEEEEEECSBCTTS
T ss_pred             eeeeeEEeCCCHHHHHHHHHhcCCEEEEEEeccchhhcCCeEEecCCCCccCCeEEEEEEecccCCceEEEEEcCCCCcc
Confidence            3445677865544  78899999999999999899999999998877666679999999999998999999999999999


Q ss_pred             CCCCceeeecCCcchhhcccccccccc
Q psy1911         142 GDHGTFKILRGENEADIEMGFNNRVEA  168 (342)
Q Consensus       142 G~~Gy~~i~~~~~~~gi~~~~~~~v~~  168 (342)
                      |++|||||+|+.|.|||+..+.++++.
T Consensus       232 Ge~Gy~~i~rg~n~cgI~~~~~~~~p~  258 (266)
T 3cbj_A          232 GDNGFFKILRGQDHCGIESEVVAGIPR  258 (266)
T ss_dssp             TBTTEEEEECSSCGGGTTTSCEECCBC
T ss_pred             CCCCEEEEEcCCCcccccCceEEEEee
Confidence            999999999999999999998887654

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

Probab=99.94  E-value=9.8e-28  Score=217.35  Aligned_cols=90  Identities=29%  Similarity=0.635  Sum_probs=84.3

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~vtpVkdQg~cGsCWAfa~~~~le~~~~i~~~--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~~   74 (213)
T 3ioq_A            1 IPTSIDWRQK----GAVTPVRNQGGCGSCWTFSSVAAVEGINKIVTG--QLLSLSEQELLDCERRSYGCRGGFPLYALQY   74 (213)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCTTSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCCCCcccC----CCCCCCCcCCCChhHHHHHHHHHHHHHHHHHcC--CCcccCHHHhhhhcCCCCCCCCCCHHHHHHH
Confidence            7999999998    889999999999999999999999999999988  4689999999999876669999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCC
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +.++||++|.+|       ||..
T Consensus        75 ~~~~Gi~~e~~y-------PY~~   90 (213)
T 3ioq_A           75 VANSGIHLRQYY-------PYEG   90 (213)
T ss_dssp             HHHHCEEBGGGS-------CCCS
T ss_pred             HHHcCCCchhcc-------CcCC
Confidence            999999998877       8864

>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=99.94  E-value=1.7e-27  Score=215.62  Aligned_cols=90  Identities=32%  Similarity=0.656  Sum_probs=83.4

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~v~pVkdQg~CGsCWAfa~~~~le~~~~i~~g--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~y   74 (212)
T 2cio_A            1 IPEYVDWRQK----GAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTG--NLNQYSEQELLDCDRRSYGCNGGYPWSALQL   74 (212)
T ss_dssp             CCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCcccCCCC----CCCCCCccCCccchHHHHHHHHHHHHHHHHhcC--CccccCHHHHHHhCCCCCCCCCCCHHHHHHH
Confidence            7999999998    789999999999999999999999999999987  5789999999999865569999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCC
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++||++|.+|       ||..
T Consensus        75 i~~~Gi~~e~~y-------PY~~   90 (212)
T 2cio_A           75 VAQYGIHYRNTY-------PYEG   90 (212)
T ss_dssp             HHHTCBCBTTTS-------CCCS
T ss_pred             HHHhCcCccccc-------CCcC
Confidence            999999997777       8875

>3hhi_A Cathepsin B-like cysteine protease; occluding loop, hydrolase, THIO protease; HET: 074; 1.60A {Trypanosoma brucei} SCOP: d.3.1.0 PDB: 4hwy_A* 3mor_A*

Probab=99.94  E-value=2e-27  Score=228.20  Aligned_cols=104  Identities=42%  Similarity=0.861  Sum_probs=91.0

Q ss_pred             eeeeEEcCchHH-HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCCCCCC
Q psy1911          65 FKKAHMVPRCNA-MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGD  143 (342)
Q Consensus        65 i~~~~~v~~~~~-~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~~WG~  143 (342)
                      +..|. |...+. +++|+++|||+|+|+++++|++|++|||..+++...++|||+|||||+++|.+|||||||||+.||+
T Consensus       210 ~~~y~-v~~~~~i~~~i~~~GPV~v~i~~~~~f~~Y~~GVy~~~~~~~~~~HaV~iVGyG~~~g~~YWivkNSWG~~WGe  288 (325)
T 3hhi_A          210 WTSYA-LQGEDDYMRELFFRGPFEVAFDVYEDFIAYNSGVYHHVSGQYLGGHAVRLVGWGTSNGVPYWKIANSWNTEWGM  288 (325)
T ss_dssp             EEEEE-ECSHHHHHHHHHHHCCEEEEEEEEHHHHTCCSSEECCCSCCEEEEEEEEEEEEEEETTEEEEEEECSBCTTSTB
T ss_pred             ecceE-eCCHHHHHHHHHHCCCEEEEEEeccccccccCceecCCCCCCCCCEEEEEEEEEecCCceEEEEEeCCCCCccc
Confidence            34444 633333 7889999999999999989999999999888776677999999999999999999999999999999


Q ss_pred             CCceeeecCCcchhhccccccccccC
Q psy1911         144 HGTFKILRGENEADIEMGFNNRVEAN  169 (342)
Q Consensus       144 ~Gy~~i~~~~~~~gi~~~~~~~v~~~  169 (342)
                      +|||||+|+.|.|||+..+.++++..
T Consensus       289 ~GY~~i~rg~n~CGI~~~~~~g~p~~  314 (325)
T 3hhi_A          289 DGYFLIRRGSSECGIEDGGSAGIPLA  314 (325)
T ss_dssp             TTEEEEECSSCGGGTTSCEEEEEEC-
T ss_pred             CCEEEEEcCCCeecCccceEEeecCC
Confidence            99999999999999999998887653

>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=99.94  E-value=2.4e-27  Score=215.56  Aligned_cols=107  Identities=31%  Similarity=0.582  Sum_probs=94.1

Q ss_pred             ceeeeeeEEcCchHH---HHHHHHcCCeEEEEeeccccccccccccccCCCC-C--ccceEEEEeeecccCCccEEEEec
Q psy1911          62 SHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGD-S--IGLHAVRVLGWGVENDIPYWLVAN  135 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~-~--~~~Hav~ivGyg~~~g~~ywiikN  135 (342)
                      ..++.+++.|+..++   +++|+++|||+++|+++++|++|.+|||..+.+. .  .++|||+|||||++++.+||||||
T Consensus       107 ~~~i~~~~~v~~~~~~~ik~~l~~~gPV~~~~~~~~~f~~Y~~Giy~~~~~~~~~~~~~HaV~iVGyg~~~g~~yWivkN  186 (220)
T 8pch_A          107 IAFVKDVANITMNDEEAMVEAVALYNPVSFAFEVTNDFLMYRKGIYSSTSCHKTPDKVNHAVLAVGYGEENGIPYWIVKN  186 (220)
T ss_dssp             EECEEEEEECCTTCHHHHHHHHHHTCCEEEEECCCHHHHTCCSSEECCSSCCCSTTTCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             eEEeCCEEEeCCCCHHHHHHHHHhcCCEEEEEEeccchhhcCCCcccCCcCCCCCCcCCcEEEEEEEEccCCeeEEEEEC
Confidence            467889999975443   6788899999999999989999999999765432 2  579999999999999999999999


Q ss_pred             CCCCCCCCCCceeeecCCcchhhcccccccccc
Q psy1911         136 SWNDHWGDHGTFKILRGENEADIEMGFNNRVEA  168 (342)
Q Consensus       136 SWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v~~  168 (342)
                      |||+.||++|||||+|+.|.|||+..+.++++.
T Consensus       187 SWG~~WGe~Gy~~i~r~~n~cgi~~~~~~~~p~  219 (220)
T 8pch_A          187 SWGPQWGMNGYFLIERGKNMCGLAACASYPIPL  219 (220)
T ss_dssp             SBCTTSTBTTEEEEECSSCGGGTTTSCEEEEEC
T ss_pred             CCCcCcccCCEEEEEcCCCccccCCCceeEeec
Confidence            999999999999999999999999998887654

>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=99.94  E-value=4.6e-27  Score=213.22  Aligned_cols=104  Identities=22%  Similarity=0.512  Sum_probs=91.8

Q ss_pred             cceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          61 LSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ...++.+++.|+.++.  +++|+++|||+++|++ ++|++|++|||.. +....++|||+|||||++++.+|||||||||
T Consensus       108 ~~~~i~~~~~v~~~~~~ik~~l~~~gPV~v~~~~-~~f~~Y~~Giy~~-~~~~~~~HaV~iVGyg~~~g~~yWivkNSWG  185 (215)
T 3i06_A          108 VGATITGHVELPQDEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTS-CVSEQLDHGVLLVGYNDSAAVPYWIIKNSWT  185 (215)
T ss_dssp             EEEEEEEEEECCSCHHHHHHHHHHHCCEEEEECC-TTGGGCCSSEECS-CCCSCCCEEEEEEEEESSSSSCEEEEECSBC
T ss_pred             cceEecceEEeCChHHHHHHHHHHCCCEEEEEEc-hHHhcCCCCcccC-CCCCccCcEEEEEEEeccCCcEEEEEECCCC
Confidence            4578899999987655  6788899999999999 6899999999975 4445569999999999999999999999999


Q ss_pred             CCCCCCCceeeecCCcchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGENEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.|.|||+..+.+++
T Consensus       186 ~~WGe~Gy~~i~rg~n~cgi~~~~~~~~  213 (215)
T 3i06_A          186 TQWGEEGYIRIAKGSNQCLVKEEASSAV  213 (215)
T ss_dssp             TTSTBTTEEEEESSSCGGGTTSSEEEEE
T ss_pred             CCcccCceEEEecCCCeecCCCceeEEe
Confidence            9999999999999999999998887654

>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=99.94  E-value=2.3e-27  Score=215.01  Aligned_cols=90  Identities=31%  Similarity=0.610  Sum_probs=83.7

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||++    +.|+||+||+.||||||||++++||++++|+++  ..+.||+|+|++|+....||+||++..||+|
T Consensus         1 lP~~~Dwr~~----~~v~pvkdQg~cGsCWAfa~~~~~e~~~~~~~~--~~~~lS~q~l~dc~~~~~gC~GG~~~~a~~~   74 (215)
T 3kwz_A            1 APDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTG--KLLNLSPQNLVDCVSENDGCGGGYMTNAFQY   74 (215)
T ss_dssp             CTTCEETTTT----TCCCCCCBCTTSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCCCccCcC----CCCCCcccCCCCcHHHHHHHHHHHHHHHHHHcC--CCcccCHHHHHHhcCCCCCCCCCCHHHHHHH
Confidence            7999999998    789999999999999999999999999999998  5689999999999875669999999999999


Q ss_pred             hhhc-ccccCCCCCCCCCcccCCC
Q psy1911         267 WGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +.++ ||++|.+|       ||..
T Consensus        75 ~~~~~Gi~~e~~y-------PY~~   91 (215)
T 3kwz_A           75 VQKNRGIDSEDAY-------PYVG   91 (215)
T ss_dssp             HHHHTCEEBTTTS-------CCCS
T ss_pred             HHHhCCccccccC-------CCcc
Confidence            9888 99998877       8875

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

Probab=99.94  E-value=2.5e-27  Score=214.92  Aligned_cols=90  Identities=32%  Similarity=0.632  Sum_probs=83.6

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+..+.||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~vtpVkdQg~cGsCWAfa~~~~le~~~~i~~~--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~y   74 (214)
T 2bdz_A            1 YPESIDWREK----GAVTPVKNQNPCGSCWAFSTVATIEGINKIITG--QLISLSEQELLDCERRSHGCDGGYQTTSLQY   74 (214)
T ss_dssp             CCSCEETTTT----TCCCCCCBCTTSBCHHHHHHHHHHHHHHHHHHS--CBCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCcEeCCCC----CCCCCCccCCCCccHHHHHhHHHHHHHHHHhcC--CccccCHHHHHhhcCCCCCCCCCCHHHHHHH
Confidence            7999999998    789999999999999999999999999999988  4689999999999865569999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCC
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++||++|.+|       ||..
T Consensus        75 ~~~~Gi~~e~~y-------PY~~   90 (214)
T 2bdz_A           75 VVDNGVHTEREY-------PYEK   90 (214)
T ss_dssp             HHHHCEEBTTTS-------CCCS
T ss_pred             HHHhCCCccccC-------CCCC
Confidence            999999998887       8875

>3qsd_A Cathepsin B-like peptidase (C01 family); cysteine peptidase, digestive tract, hydrolase-hydrolase INH complex; HET: 074; 1.30A {Schistosoma mansoni} SCOP: d.3.1.0 PDB: 3s3q_A* 3s3r_A*

Probab=99.94  E-value=4e-27  Score=218.76  Aligned_cols=105  Identities=47%  Similarity=0.927  Sum_probs=92.9

Q ss_pred             eeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCCC
Q psy1911          63 HYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDH  140 (342)
Q Consensus        63 ~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~~  140 (342)
                      .+....+.|+.++.  +++|+++|||+|+|+++++|++|.+|||..+++...++|+|+|||||++++.+|||||||||+.
T Consensus       147 ~~~~~~~~~~~~~~~i~~~l~~~gPv~~~~~~~~~f~~y~~Gi~~~~~~~~~~~Hav~iVGyg~~~g~~ywivkNSWG~~  226 (254)
T 3qsd_A          147 HRGKSSYNVKNDEKAIQKEIMKYGPVEAGFTVYEDFLNYKSGIYKHITGETLGGHAIRIIGWGVENKAPYWLIANSWNED  226 (254)
T ss_dssp             BCCSEEEECCSCHHHHHHHHHHHCCEEEEEEEEGGGGGCCSSEECCCSSCEEEEEEEEEEEEEEETTEEEEEEECSBCTT
T ss_pred             eeeeeeEecCCcHHHHHHHHHHcCCEEEEEEeccccccccCCeeccCCCCCCCCeEEEEEEEeecCCeeEEEEEeCCCCC
Confidence            44455677776554  7889999999999999999999999999888776677999999999999999999999999999


Q ss_pred             CCCCCceeeecCCcchhhccccccccc
Q psy1911         141 WGDHGTFKILRGENEADIEMGFNNRVE  167 (342)
Q Consensus       141 WG~~Gy~~i~~~~~~~gi~~~~~~~v~  167 (342)
                      ||++|||||+|+.|.|||+..+.++++
T Consensus       227 WG~~Gy~~i~rg~n~CgI~~~~~~~~p  253 (254)
T 3qsd_A          227 WGENGYFRIVRGRDECSIESEVTAGRI  253 (254)
T ss_dssp             STBTTEEEEECSSCGGGTTSSEEEEEC
T ss_pred             cccCCeEEEEcCCCeecCCCceEeecc
Confidence            999999999999999999998877654

>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=99.94  E-value=3e-27  Score=213.55  Aligned_cols=90  Identities=32%  Similarity=0.619  Sum_probs=83.3

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~vtpVkdQg~cGsCWAfa~~~~le~~~~i~~g--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~y   74 (208)
T 1o0e_A            1 LPEQIDWRKK----GAVTPVKNQGSCGSCWAFSTVSTVESINQIRTG--NLISLSEQELVDCDKKNHGCLGGAFVFAYQY   74 (208)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCcCcCCCC----CCCCCCccCCCCccHHHHHHHHHHHHHHHHhcC--CceecCHHHhhhhcCCCCCCCCCCHHHHHHH
Confidence            7999999998    789999999999999999999999999999987  5789999999999865569999999999999


Q ss_pred             hhhc-ccccCCCCCCCCCcccCCC
Q psy1911         267 WGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++ ||++|.+|       ||..
T Consensus        75 ~~~~~Gi~~e~~y-------PY~~   91 (208)
T 1o0e_A           75 IINNGGIDTQANY-------PYKA   91 (208)
T ss_dssp             HHHHTCBCBTTTS-------CCCS
T ss_pred             HHHhCCcCccccc-------CccC
Confidence            9997 99998777       8865

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

Probab=99.94  E-value=3.2e-27  Score=214.50  Aligned_cols=90  Identities=33%  Similarity=0.682  Sum_probs=83.3

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~v~pVkdQg~cGsCWAfa~~~~le~~~~i~~g--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~y   74 (216)
T 1ppo_A            1 LPENVDWRKK----GAVTPVRHQGSCGSCWAFSAVATVEGINKIRTG--KLVELSEQELVDCERRSHGCKGGYPPYALEY   74 (216)
T ss_dssp             CCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCSSSCTTBCCCHHHHHHH
T ss_pred             CCCcCcCCCC----CCCCCCccCCcCccHHHHHHHHHHHHHHHHccC--CceecCHHHHHhccCCCCCCCCCCHHHHHHH
Confidence            7999999998    789999999999999999999999999999988  4689999999999865569999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCC
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++||++|.+|       ||..
T Consensus        75 i~~~Gi~~e~~y-------PY~~   90 (216)
T 1ppo_A           75 VAKNGIHLRSKY-------PYKA   90 (216)
T ss_dssp             HHHHCBCBTTTS-------CCCS
T ss_pred             HHHhCcCccccC-------CccC
Confidence            999999997777       8875

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

Probab=99.94  E-value=3.1e-27  Score=214.25  Aligned_cols=90  Identities=30%  Similarity=0.550  Sum_probs=83.2

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~vt~VkdQg~cGsCWAfa~~~~le~~~~i~~g--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~~   74 (214)
T 1m6d_A            1 APPEWDWRSK----GAVTKVKDQGMCGSCWAFSVTGNVEGQWFLNQG--TLLSLSEQELLDCDKMDKACMGGLPSNAYSA   74 (214)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCSSSCTTBCCCHHHHHHH
T ss_pred             CCCcCcCCCC----CCCCCCccCCCCchHHHHHHHHHHHHHHHHHcC--CCcccCHHHHHHhcCCCCCCCCCCHHHHHHH
Confidence            7999999998    889999999999999999999999999999987  5689999999999866669999999999999


Q ss_pred             hhhc-ccccCCCCCCCCCcccCCC
Q psy1911         267 WGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++ ||++|.+|       ||..
T Consensus        75 i~~~~Gi~~e~~y-------PY~~   91 (214)
T 1m6d_A           75 IKNLGGLETEDDY-------SYQG   91 (214)
T ss_dssp             HHHHTCBCBTTTS-------CCCS
T ss_pred             HHHhcCcccccCc-------CcCC
Confidence            9886 89998887       8864

>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=99.94  E-value=4e-27  Score=213.74  Aligned_cols=90  Identities=37%  Similarity=0.689  Sum_probs=83.4

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~v~~VkdQg~cGsCWAfa~~~~~e~~~~i~~g--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~~   74 (215)
T 1iwd_A            1 LPSFVDWRSK----GAVNSIKNQKQCGSCWAFSAVAAVESINKIRTG--QLISLSEQELVDCDTASHGCNGGWMNNAFQY   74 (215)
T ss_dssp             CCSCEEGGGG----TCSCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCcEeCCCC----CCCCCcccCCCCchHHHHHHHHHHHHHHHHhcC--CccccChhHeEECcCCCCCCCCCCHHHHHHH
Confidence            7999999998    889999999999999999999999999999987  4689999999999866669999999999999


Q ss_pred             hhhc-ccccCCCCCCCCCcccCCC
Q psy1911         267 WGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++ ||++|.+|       ||..
T Consensus        75 ~~~~~Gi~~e~~y-------PY~~   91 (215)
T 1iwd_A           75 IITNGGIDTQQNY-------PYSA   91 (215)
T ss_dssp             HHHHTCBCBTTTS-------CCCS
T ss_pred             HHHhCCccccccc-------CccC
Confidence            9987 99998877       8865

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

Probab=99.94  E-value=4.5e-27  Score=213.77  Aligned_cols=90  Identities=31%  Similarity=0.651  Sum_probs=83.1

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~v~pVkdQg~cGsCWAfa~~~~le~~~~i~~g--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~~   74 (218)
T 1yal_A            1 YPQSIDWRAK----GAVTPVKNQGACGSCWAFSTIATVEGINKIVTG--NLLELSEQELVDCDKHSYGCKGGYQTTSLQY   74 (218)
T ss_dssp             CCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCcCcCCCC----CCCCCCccCccchhHHHHHHHHHHHHHHHHhcC--CccccCHHHHHHhcCCCCCCCCCCHHHHHHH
Confidence            7999999998    789999999999999999999999999999988  4689999999999855569999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCC
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++||++|.+|       ||..
T Consensus        75 ~~~~Gi~~e~~y-------PY~~   90 (218)
T 1yal_A           75 VANNGVHTSKVY-------PYQA   90 (218)
T ss_dssp             HHHHCBCBTTTS-------CCCS
T ss_pred             HHHcCCCccccc-------cccC
Confidence            999999997777       8875

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

Probab=99.94  E-value=4.6e-27  Score=226.26  Aligned_cols=100  Identities=34%  Similarity=0.763  Sum_probs=90.0

Q ss_pred             CCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhH
Q psy1911         184 AKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLA  263 (342)
Q Consensus       184 ~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a  263 (342)
                      ..+||++||||+.    +.|+||+|||.||||||||++++||++++|+++....+.||+|+||||+..+.||+||++..|
T Consensus       113 ~~~lP~s~DwR~~----g~vtpVkdQg~CGSCWAFaa~~alE~~~~i~~g~~~~~~LSeQ~LvdC~~~~~GC~GG~~~~a  188 (331)
T 3qj3_A          113 SVRYPASFDWRDQ----GMVSPVKNQGSCGSSWAFSSTGAIESQMKIANGAGYDSSVSEQQLVDCVPNALGCSGGWMNDA  188 (331)
T ss_dssp             SCCCCSSEEGGGG----TCSCCCCBCCSSCCHHHHHHHHHHHHHHHHHHCTTSCCCBCHHHHHHHCTTSCGGGCCCHHHH
T ss_pred             ccCCCcceecccC----CccCCCccCcccchhhHHHHHHHHHHHHHHHhCCCcccCcCHHHHhhhccCCCCCCCCCHHHH
Confidence            3579999999999    789999999999999999999999999999998544789999999999877679999999999


Q ss_pred             HHHhhhc-ccccCCCCCCCCCcccCCC--CCCcc
Q psy1911         264 WRFWGHN-GVVTGGDYNSQEGCQPYTL--APCEH  294 (342)
Q Consensus       264 ~~y~~~~-Gi~~e~~Y~~~~~C~PY~~--~~c~~  294 (342)
                      |+||.++ ||++|.+|       ||..  ..|..
T Consensus       189 ~~yi~~~~Gi~~e~~y-------PY~~~~~~C~~  215 (331)
T 3qj3_A          189 FTYVAQNGGIDSEGAY-------PYEMADGNCHY  215 (331)
T ss_dssp             HHHHHHHTCEEBTTTS-------CCCSSCCCCCC
T ss_pred             HHHHHHcCCcCccccc-------CccCCCCCCCC
Confidence            9999998 99998888       8875  34543

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

Probab=99.94  E-value=4.5e-27  Score=221.22  Aligned_cols=106  Identities=25%  Similarity=0.503  Sum_probs=94.6

Q ss_pred             ceeeeeeEEcCchHH-HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCCC
Q psy1911          62 SHYFKKAHMVPRCNA-MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDH  140 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~-~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~~  140 (342)
                      .+.+.+|..|+..+. +++|+++|||+|+|+++++|++|++|||..+++...++|||+|||||++++.+|||||||||+.
T Consensus       161 ~~~i~~y~~v~~~~~i~~~i~~~GPV~v~i~~~~~f~~Y~~GIy~~~~~~~~~~HaV~iVGyg~~~g~~YWivkNSWG~~  240 (277)
T 1deu_A          161 LWRVGDYGSLSGREKMMAEIYANGPISCGIMATERLANYTGGIYAEYQDTTYINHVVSVAGWGISDGTEYWIVRNSWGEP  240 (277)
T ss_dssp             CBCEEEEEEECSHHHHHHHHHHHCCEEEEECCCHHHHTCCSSEECBCCSCCCCCEEEEEEEEEEETTEEEEEEECSBCTT
T ss_pred             eEEeceeEecCCHHHHHHHHHHcCCEEEEEecccccccCcCcEECCCCCCCcCCeEEEEEEecccCCccEEEEEeCCCCc
Confidence            357788888876555 7889999999999999989999999999887666668999999999998899999999999999


Q ss_pred             CCCCCceeeecCCc--------chhhccccccccc
Q psy1911         141 WGDHGTFKILRGEN--------EADIEMGFNNRVE  167 (342)
Q Consensus       141 WG~~Gy~~i~~~~~--------~~gi~~~~~~~v~  167 (342)
                      ||++|||||+|+.|        .|||+..+.++++
T Consensus       241 WGe~GY~~i~rg~n~~g~g~~~~cgIe~~~~~~~p  275 (277)
T 1deu_A          241 WGERGWLRIVTSTYKDGKGARYNLAIEEHCTFGDP  275 (277)
T ss_dssp             STBTTEEEEECTTHHHHTGGGTBTTTTSCEEEEEE
T ss_pred             cCCCcEEEEEcCCCcccccccccceeccccEeecc
Confidence            99999999999998        8899888877765

>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=99.94  E-value=5.4e-27  Score=213.70  Aligned_cols=91  Identities=35%  Similarity=0.670  Sum_probs=83.4

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHH
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWR  265 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~  265 (342)
                      +||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+
T Consensus         2 ~lP~~~DwR~~----~~v~~VkdQg~cGsCWAfa~~~~le~~~~i~~~--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~   75 (221)
T 1cqd_A            2 DLPDSIDWREN----GAVVPVKNQGGCGSCWAFSTVAAVEGINQIVTG--DLISLSEQQLVDCTTANHGCRGGWMNPAFQ   75 (221)
T ss_dssp             -CCSCEETTTT----TCCCCCCBCTTSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHH
T ss_pred             CCCCcCcCCCC----CCcCCcccCCCCccHHHHHHHHHHHHHHHHhcC--CeeeeccceeEECCCCCCCCCCCCHHHHHH
Confidence            58999999998    789999999999999999999999999999988  468999999999987666999999999999


Q ss_pred             Hhhhc-ccccCCCCCCCCCcccCCC
Q psy1911         266 FWGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       266 y~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      ||.++ ||++|.+|       ||..
T Consensus        76 y~~~~~Gi~~e~~y-------PY~~   93 (221)
T 1cqd_A           76 FIVNNGGINSEETY-------PYRG   93 (221)
T ss_dssp             HHHHHTSBCBTTTS-------CCCS
T ss_pred             HHHHhCCccccccC-------CccC
Confidence            99987 99998777       8864

>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=99.94  E-value=7.5e-27  Score=215.45  Aligned_cols=95  Identities=32%  Similarity=0.573  Sum_probs=86.3

Q ss_pred             cCCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchh
Q psy1911         182 QNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQ  261 (342)
Q Consensus       182 ~~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~  261 (342)
                      ....+||++||||+.    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|++|+....||+||++.
T Consensus        13 ~~~~~lP~~~DwR~~----~~vtpVkdQg~CGsCWAFaa~~alE~~~~i~~~--~~~~lSeq~l~dC~~~~~gC~GG~~~   86 (241)
T 2oul_A           13 GEENFDHAAYDWRLH----SGVTPVKDQKNCGSCWAFSSIGSVESQYAIRKN--KLITLSEQELVDCSFKNYGCNGGLIN   86 (241)
T ss_dssp             TTCCCCSSCEEGGGT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHC--CCCCBCHHHHHHHCTTSCTTBCBCHH
T ss_pred             cccccCCCccccCcC----CCCCCCccCccchHHHHHHHHHHHHHHHHHhcC--CCcccCHHHHHhhcCCCCCCCCCCHH
Confidence            345579999999998    789999999999999999999999999999988  46899999999998666699999999


Q ss_pred             hHHHHhhh-cccccCCCCCCCCCcccCCC
Q psy1911         262 LAWRFWGH-NGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       262 ~a~~y~~~-~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      .||+||.+ .||++|.+|       ||..
T Consensus        87 ~a~~yi~~~~Gi~~e~~y-------PY~~  108 (241)
T 2oul_A           87 NAFEDMIELGGICPDGDY-------PYVS  108 (241)
T ss_dssp             HHHHHHHHTTSBCBTTSS-------CCCT
T ss_pred             HHHHHHHHhCCcCccccC-------CCcC
Confidence            99999998 699998777       8875

>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=99.94  E-value=2.5e-27  Score=216.00  Aligned_cols=90  Identities=32%  Similarity=0.553  Sum_probs=79.2

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|++|+....||+||++..||+|
T Consensus         1 lP~~~DwR~~----~~vtpVkdQg~cGSCWAfa~~~~le~~~~i~~~--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~~   74 (222)
T 3u8e_A            1 APASIDWRKK----GAVTSVKDQGACGMCWAFGATGAIEGIDAITTG--RLISVSEQQIVDCDTXXXXXXGGDADDAFRW   74 (222)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCCSCSSCTTTTHHHHHHHHHHHHHS--CCCCBCHHHHHHHCC------CCCHHHHHHH
T ss_pred             CCCcCcCCcC----CCCCCcccCCCCccHHHHHHHHHHHHHHHHHcC--CCcccCHHHHHhccCcccccCCCCHHHHHHH
Confidence            7999999998    889999999999999999999999999999988  4689999999999877669999999999999


Q ss_pred             hhhc-ccccCCCCCCCCCcccCCC
Q psy1911         267 WGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++ ||++|.+|       ||..
T Consensus        75 ~~~~~Gi~~e~~y-------PY~~   91 (222)
T 3u8e_A           75 VITNGGIASDANY-------PYTG   91 (222)
T ss_dssp             HHHHTCBCBTTTS-------CCCS
T ss_pred             HHHcCCccchhcC-------CCcc
Confidence            9999 99998887       8875

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

Probab=99.94  E-value=5.5e-27  Score=217.04  Aligned_cols=91  Identities=29%  Similarity=0.586  Sum_probs=83.3

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHH
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWR  265 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~  265 (342)
                      +||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+
T Consensus         1 ~lP~~~DwR~~----g~vtpVkdQg~CGsCWAfa~~~~lE~~~~i~~g--~~~~LS~q~lvdC~~~~~gC~GG~~~~a~~   74 (246)
T 2b1m_A            1 DAPESWDWSKK----GVITKVKFQGQCGSGWAFSATGAIEAAHAIATG--NLVSLSEQELIDCVDESEGCYNGWHYQSFE   74 (246)
T ss_dssp             -CCSCEEGGGT----TCCCCCCBCCSSCCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSBTTTBCCHHHHHH
T ss_pred             CCCCcCCCCCC----CCCCCcccCCCCchHHHHHHHHHHHHHHHHHcC--CCcccCHHHHHhhcCCCCCCCCCCHHHHHH
Confidence            48999999998    789999999999999999999999999999988  568999999999986555999999999999


Q ss_pred             Hhhhc-ccccCCCCCCCCCcccCCC
Q psy1911         266 FWGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       266 y~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |+.++ ||++|.+|       ||..
T Consensus        75 y~~~~~Gi~~e~~y-------PY~~   92 (246)
T 2b1m_A           75 WVVKHGGIASEADY-------PYKA   92 (246)
T ss_dssp             HHHHTTCBCBTTTS-------CCCS
T ss_pred             HHHHhCCcCccccc-------cccC
Confidence            99998 99997777       8875

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

Probab=99.94  E-value=4e-27  Score=217.55  Aligned_cols=96  Identities=29%  Similarity=0.481  Sum_probs=86.9

Q ss_pred             ccCCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCch
Q psy1911         181 CQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWP  260 (342)
Q Consensus       181 ~~~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~  260 (342)
                      .....+||++||||+.    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|++|+....||+||++
T Consensus        14 ~~~~~~lP~~~DwR~~----~~vtpVkdQg~cGsCWAfa~~~alE~~~~i~~~--~~~~lSeq~lvdC~~~~~gC~GG~~   87 (243)
T 3bwk_A           14 PADAKLDRIAYDWRLH----GGVTPVKDQALCGSCWAFSSVGSVESQYAIRKK--ALFLFSEQELVDCSVKNNGCYGGYI   87 (243)
T ss_dssp             CTTCCCCCSCEEGGGT----TCCCCCCBCCSSCCHHHHHHHHHHHHHHHHHHC--SCCCBCHHHHHHHCTTSCGGGCCCH
T ss_pred             ccccccCCCceecCcC----CCCCCCccCCCCchHHHHHHHHHHHHHHHHhcC--CCcccCHHHHHHhcCCCCCCCCCCH
Confidence            3455679999999998    789999999999999999999999999999988  4689999999999866669999999


Q ss_pred             hhHHHHhhh-cccccCCCCCCCCCcccCCC
Q psy1911         261 QLAWRFWGH-NGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       261 ~~a~~y~~~-~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      ..||+||.+ .||++|.+|       ||..
T Consensus        88 ~~a~~y~~~~~Gi~~e~~y-------PY~~  110 (243)
T 3bwk_A           88 TNAFDDMIDLGGLCSQDDY-------PYVS  110 (243)
T ss_dssp             HHHHHHHHHTTSBCBTTTS-------CCCT
T ss_pred             HHHHHHHHHhCCccccccc-------CCcC
Confidence            999999998 699998777       8875

>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=99.94  E-value=3.8e-27  Score=213.76  Aligned_cols=90  Identities=30%  Similarity=0.579  Sum_probs=81.8

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+....||+||++..||+|
T Consensus         1 lP~~~Dwr~~----g~vtpVkdQg~cGsCWAfa~~~ale~~~~i~~~--~~~~lS~q~l~dC~~~~~gC~GG~~~~a~~y   74 (215)
T 3i06_A            1 APAAVDWRAR----GAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGH--PLTNLSEQMLVSCDKTDSGCSGGLMNNAFEW   74 (215)
T ss_dssp             CCSEEEGGGG----TCCCCCCBCCSSCCHHHHHHHHHHHHHHHHTTS--CCCCCCHHHHHHHCSSSCGGGCCCHHHHHHH
T ss_pred             CCCcccCCcC----CCCCCCCCCCCCccHHHHHHHHHHHHHHHHhCC--CCCccCHHHHhccCCCCCCCCCCCHHHHHHH
Confidence            7999999998    899999999999999999999999999999876  5789999999999876669999999999999


Q ss_pred             hhhc---ccccCCCCCCCCCcccCCC
Q psy1911         267 WGHN---GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~---Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |.++   ||++|.+|       ||..
T Consensus        75 ~~~~~~gGi~~e~~y-------PY~~   93 (215)
T 3i06_A           75 IVQENNGAVYTEDSY-------PYAS   93 (215)
T ss_dssp             HHHHSTTEEEC-CCS-------CCCC
T ss_pred             HHHhccccccccCcc-------CCcC
Confidence            9986   79997777       8873

>3pdf_A Cathepsin C, dipeptidyl peptidase 1; two domains, cystein protease, hydrolase-hydrolase inhibitor; HET: LXV NAG; 1.85A {Homo sapiens} PDB: 1jqp_A* 2djf_B* 1k3b_B* 2djg_B* 2djf_A* 1k3b_A* 2djg_A* 2djf_C* 1k3b_C* 2djg_C*

Probab=99.94  E-value=4.8e-27  Score=233.63  Aligned_cols=104  Identities=29%  Similarity=0.569  Sum_probs=89.3

Q ss_pred             CCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhh
Q psy1911         183 NAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQL  262 (342)
Q Consensus       183 ~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~  262 (342)
                      ...+||++||||+. +++++|+||||||.||||||||++++||++++|+++....+.||+|+||||+..+.||+||++..
T Consensus       203 ~~~~lP~s~DwR~~-~g~~~VtpVkdQG~CGSCWAFsa~~alE~~~~i~tg~~~~~~LSeQ~LvdC~~~~~GC~GG~~~~  281 (441)
T 3pdf_A          203 KILFLPTSWDWRNV-HGINFVSPVRNQASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEVVSCSQYAQGCEGGFPYL  281 (441)
T ss_dssp             ---CCCSCEETTCB-TTBCCSCCCCBCTTSBCHHHHHHHHHHHHHHHHHHTTSCCCCBCHHHHHHHCTTSCTTBCCCHHH
T ss_pred             ccccCCCCEECCcC-CCCCccCcccccCCCchHHHHHHHHHHHHHHHHhccCCCccccCHHHHHhhccCCCCCCCCchhH
Confidence            34579999999998 45678999999999999999999999999999999976567799999999987666999999999


Q ss_pred             H-HHHhhhcccccCCCCCCCCCcccCCC--CCCcc
Q psy1911         263 A-WRFWGHNGVVTGGDYNSQEGCQPYTL--APCEH  294 (342)
Q Consensus       263 a-~~y~~~~Gi~~e~~Y~~~~~C~PY~~--~~c~~  294 (342)
                      | |+|++++||++|.+|       ||++  ++|..
T Consensus       282 aa~~yi~~~Gi~tE~~y-------PY~~~~~~C~~  309 (441)
T 3pdf_A          282 IAGKYAQDFGLVEEACF-------PYTGTDSPCKM  309 (441)
T ss_dssp             HTTHHHHHTCBCBGGGS-------CCCSSCCCSCC
T ss_pred             HHHHHHHhcCCCcHHHe-------eecccCCCCCC
Confidence            7 899999999996666       8976  44543

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

Probab=99.93  E-value=6.3e-27  Score=224.59  Aligned_cols=97  Identities=32%  Similarity=0.669  Sum_probs=87.2

Q ss_pred             CCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhH
Q psy1911         184 AKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLA  263 (342)
Q Consensus       184 ~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a  263 (342)
                      ..+||++||||+.    +.|+||||||.||||||||++++||++++|+++  ..+.||+|+||||+....||+||++..|
T Consensus       104 ~~~lP~~~DwR~~----g~vt~VkdQg~CGSCWAFaa~~alE~~~~i~~g--~~~~lSeq~lvdC~~~~~gC~GG~~~~a  177 (322)
T 1pci_A          104 IVNLPENVDWRKK----GAVTPVRHQGSCGSCWAFSAVATVEGINKIRTG--KLVELSEQELVDCERRSHGCKGGYPPYA  177 (322)
T ss_dssp             CCCSCSCEETTTT----TCCCCCCBCTTSCCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHSCTTSCGGGCBCHHHH
T ss_pred             ccCCCCeEecccC----CCCCCccccccCCccHHHHHHHHHHHHHHHHcC--CccccCHHHHHhhcCCCCCCCCCCHHHH
Confidence            3579999999998    789999999999999999999999999999988  4789999999999864559999999999


Q ss_pred             HHHhhhcccccCCCCCCCCCcccCCC--CCCc
Q psy1911         264 WRFWGHNGVVTGGDYNSQEGCQPYTL--APCE  293 (342)
Q Consensus       264 ~~y~~~~Gi~~e~~Y~~~~~C~PY~~--~~c~  293 (342)
                      |+||.++||++|.+|       ||..  +.|.
T Consensus       178 ~~yi~~~Gi~~e~~y-------PY~~~~~~C~  202 (322)
T 1pci_A          178 LEYVAKNGIHLRSKY-------PYKAKQGTCR  202 (322)
T ss_dssp             HHHHHHHCBCBTTTS-------CCCSSCCCCT
T ss_pred             HHHHHHhCCCchhhC-------CCCCCCCCCC
Confidence            999999999997777       8875  3454

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

Probab=99.93  E-value=6.4e-27  Score=212.14  Aligned_cols=105  Identities=21%  Similarity=0.528  Sum_probs=91.5

Q ss_pred             cceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccC---CCCCccceEEEEeeecccCCccEEEEec
Q psy1911          61 LSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHN---FGDSIGLHAVRVLGWGVENDIPYWLVAN  135 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~---~~~~~~~Hav~ivGyg~~~g~~ywiikN  135 (342)
                      ...++.+++.|+.++.  +++|+++|||+|+|+++ +|++|++|||..+   |....++|||+|||||+++|.+||||||
T Consensus       103 ~~~~i~~~~~i~~~~~~ik~~l~~~GPV~v~i~~~-~f~~Y~~Giy~~~~~~c~~~~~~HaV~iVGyg~~~g~~yWivkN  181 (214)
T 1m6d_A          103 AKVYIQDSVELSQNEQKLAAWLAKRGPISVAINAF-GMQFYRHGISRPLRPLCSPWLIDHAVLLVGYGQRSDVPFWAIKN  181 (214)
T ss_dssp             CCBCCSEEEECCSCHHHHHHHHHHHCCEEEEECTH-HHHHCCSSEECCCGGGSCTTCCCEEEEEEEEEEETTEEEEEEEC
T ss_pred             ceEEecCEEEeChHHHHHHHHHHhCCCEEEEEEec-hhhhcCCceecCCCCcCCCCcCCEEEEEEEEeecCCcEEEEEEe
Confidence            3567888999986554  77899999999999987 5999999999753   4444679999999999998999999999


Q ss_pred             CCCCCCCCCCceeeecCCcchhhcccccccc
Q psy1911         136 SWNDHWGDHGTFKILRGENEADIEMGFNNRV  166 (342)
Q Consensus       136 SWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v  166 (342)
                      |||+.||++|||||+|+.|.|||+..+.+++
T Consensus       182 SWG~~WGe~Gy~~i~r~~n~Cgi~~~~~~~~  212 (214)
T 1m6d_A          182 SWGTDWGEKGYYYLHRGSGACGVNTMASSAV  212 (214)
T ss_dssp             SBCTTSTBTTEEEEESSSCGGGTTTTCEEEE
T ss_pred             CCCCCcccCcEEEEEcCCCccccCceeEEEE
Confidence            9999999999999999999999988877654

>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=99.93  E-value=9.3e-27  Score=213.25  Aligned_cols=91  Identities=35%  Similarity=0.662  Sum_probs=83.3

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCC-CCCCCCCCchhhHH
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTP-NCWGCNGGWPQLAW  264 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~-~~~GC~GG~~~~a~  264 (342)
                      +||++||||+.    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|++|+. ...||+||++..||
T Consensus         1 ~lP~~~DwR~~----~~vtpVkdQg~cGsCWAfa~~~~le~~~~i~~g--~~~~lS~q~l~dC~~~~~~gC~GG~~~~a~   74 (229)
T 1s4v_A            1 TVPASVDWRKK----GAVTSVKDQGQCGSCWAFSTIVAVEGINQIKTN--KLVSLSEQELVDCDTDQNQGCNGGLMDYAF   74 (229)
T ss_dssp             CCCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCCSSCCTTBCBCHHHHH
T ss_pred             CCCCCEeCCCC----CCCCCCccCccchHHHHHHHHHHHHHHHHHHcC--CCCCcCHHHHHhhCCCCCCCCCCCCHHHHH
Confidence            58999999998    789999999999999999999999999999987  468999999999986 34599999999999


Q ss_pred             HHhhhc-ccccCCCCCCCCCcccCCC
Q psy1911         265 RFWGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       265 ~y~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +||.++ ||++|.+|       ||..
T Consensus        75 ~y~~~~~Gi~~e~~y-------PY~~   93 (229)
T 1s4v_A           75 EFIKQRGGITTEANY-------PYEA   93 (229)
T ss_dssp             HHHHHHTCBCBTTTS-------CCCS
T ss_pred             HHHHHhCCccccccC-------CccC
Confidence            999997 99997777       8875

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

Probab=99.93  E-value=7.6e-27  Score=217.94  Aligned_cols=92  Identities=32%  Similarity=0.638  Sum_probs=83.8

Q ss_pred             CCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCC-CCCCCCCCchhhH
Q psy1911         185 KGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTP-NCWGCNGGWPQLA  263 (342)
Q Consensus       185 ~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~-~~~GC~GG~~~~a  263 (342)
                      .+||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+. ...||+||++..|
T Consensus         2 ~~lP~~~DwR~~----g~vtpVkdQg~CGSCWAFaa~~alE~~~~i~~g--~~~~LSeQ~lvdC~~~~~~GC~GG~~~~a   75 (262)
T 2fo5_A            2 SDLPPSVDWRQK----GAVTGVKDQGKCGSCWAFSTVVSVEGINAIRTG--SLVSLSEQELIDCDTADNDGCQGGLMDNA   75 (262)
T ss_dssp             -CCCSCEETTTT----TCCCCCCBCTTSCCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCCSSCCGGGCBCHHHH
T ss_pred             CCCCCcccCCCC----CCCCCCCCCCCCchHHHHHHHHHHHHHHHHHcC--CCCCcCHHHHHhhcCCCCCCCCCCCHHHH
Confidence            369999999998    789999999999999999999999999999988  478999999999986 3459999999999


Q ss_pred             HHHhhhc-ccccCCCCCCCCCcccCCC
Q psy1911         264 WRFWGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       264 ~~y~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |+||.++ ||++|.+|       ||..
T Consensus        76 ~~yi~~~~Gi~~e~~y-------PY~~   95 (262)
T 2fo5_A           76 FEYIKNNGGLITEAAY-------PYRA   95 (262)
T ss_dssp             HHHHHHTTCEEBTTTS-------CCCS
T ss_pred             HHHHHHcCCcCchhcC-------CCcC
Confidence            9999998 99997777       8875

>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=99.93  E-value=1.1e-26  Score=211.35  Aligned_cols=90  Identities=32%  Similarity=0.637  Sum_probs=82.4

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCchhhHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGWPQLAW  264 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~~~~a~  264 (342)
                      ||++||||++    +.|+|||||+.||||||||++++||++++|+++  ..+.||+|+|+||+..  ..||+||++..||
T Consensus         1 lP~~~DwR~~----~~v~pVkdQg~cGsCWAfa~~~~le~~~~i~~g--~~~~lS~q~l~dC~~~~g~~gC~GG~~~~a~   74 (220)
T 2xu3_A            1 APRSVDWREK----GYVTPVKNQGQCGSCWAFSATGALEGQMFRKTG--RLISLSEQNLVDCSGPQGNEGCNGGLMDYAF   74 (220)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTTTCCTTBCCCHHHHH
T ss_pred             CCCcEeCCCC----CCCCCCcccCcccHHHHHHhHHHHHHHHHHhcC--CceecCHHHHHhhccCCCCCCCCCCCHHHHH
Confidence            7999999998    789999999999999999999999999999987  4689999999999864  4599999999999


Q ss_pred             HHhh-hcccccCCCCCCCCCcccCCC
Q psy1911         265 RFWG-HNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       265 ~y~~-~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +||. ..||++|.+|       ||..
T Consensus        75 ~y~~~~~Gi~~e~~y-------PY~~   93 (220)
T 2xu3_A           75 QYVQDNGGLDSEESY-------PYEA   93 (220)
T ss_dssp             HHHHHHTCEEBTTTS-------CCCS
T ss_pred             HHHHHhCCccccccc-------CCcc
Confidence            9996 7899997777       8875

>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=99.93  E-value=1.4e-26  Score=210.72  Aligned_cols=106  Identities=26%  Similarity=0.475  Sum_probs=91.4

Q ss_pred             cceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccC-CCCCccceEEEEeeec----ccCCccEEE
Q psy1911          61 LSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHN-FGDSIGLHAVRVLGWG----VENDIPYWL  132 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~-~~~~~~~Hav~ivGyg----~~~g~~ywi  132 (342)
                      ...++.+|+.|+.++.  +++|+++|||+++|+++ ++|++|.+|||..+ |....++|||+|||||    ++++.+|||
T Consensus       105 ~~~~i~~~~~v~~~~~~ik~~l~~~GPV~v~~~~~~~~f~~Y~~Gvy~~~~c~~~~~~HaV~iVGygd~~~~~~g~~yWi  184 (220)
T 2xu3_A          105 SVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWL  184 (220)
T ss_dssp             EEECCSEEEECCSCHHHHHHHHHHTCCEEEEECCCSHHHHTCCSSEECCTTCCSSCCCEEEEEEEEEECCCSSSCCEEEE
T ss_pred             cceeeeeEEEeCCCHHHHHHHHHhcCCEEEEEeecCcccccccceEEcCCCCCCCCCCeEEEEEEcCCccccCCCCcEEE
Confidence            3467889999986333  78899999999999998 58999999999876 4445679999999999    667889999


Q ss_pred             EecCCCCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         133 VANSWNDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       133 ikNSWG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      ||||||+.||++|||||+|+. |.|||+..+.+++
T Consensus       185 vkNSWG~~WG~~Gy~~i~~~~~n~Cgi~~~~~~p~  219 (220)
T 2xu3_A          185 VKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPT  219 (220)
T ss_dssp             EECSBCTTSTBTTEEEEECSSSSGGGTTTSCEEEE
T ss_pred             EEeCCCCCcccCcEEEEecCCCCcCCccccceeee
Confidence            999999999999999999997 8899988876653

>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=99.93  E-value=1.1e-26  Score=210.48  Aligned_cols=105  Identities=24%  Similarity=0.454  Sum_probs=91.5

Q ss_pred             ceeeeeeEEcCchHH---HHHHHHcCCeEEEEeec-cccccccccccccCCC-CCccceEEEEeeecccCCccEEEEecC
Q psy1911          62 SHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFG-DSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~-~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ..++.+|+.|+..++   +++|+++|||+++|+++ ++|++|.+|||..+.+ ...++|||+|||||++++.+||||+||
T Consensus       104 ~~~i~~~~~v~~~~~~~ik~~l~~~gPV~v~~~~~~~~f~~y~~Giy~~~~~~~~~~~HaV~iVGyg~~~g~~yWivkNS  183 (215)
T 3kwz_A          104 AAKCRGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKNS  183 (215)
T ss_dssp             EECCCCEEECCTTCHHHHHHHHHHTCCEEEEECCCSHHHHTCCSSEECCTTCCTTCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             eeEecceEEeCCCCHHHHHHHHHHCCCEEEEEeechhhhhcccCCeECCCCCCCChhhCEEEEEEEeccCCceEEEEECC
Confidence            457788999985332   67888999999999998 6899999999976644 456799999999999989999999999


Q ss_pred             CCCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      ||+.||++|||||+|+. |.|||+..+.+++
T Consensus       184 WG~~WG~~Gy~~i~r~~~n~Cgi~~~~~~p~  214 (215)
T 3kwz_A          184 WGENWGNKGYILMARNKNNACGIANLASFPK  214 (215)
T ss_dssp             BCTTSTBTTEEEEESSSSSGGGTTSSCEEEC
T ss_pred             cCcccccCCEEEEecCCCCccCcCCceeeee
Confidence            99999999999999997 8999988877653

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

Probab=99.93  E-value=1.7e-26  Score=220.87  Aligned_cols=94  Identities=30%  Similarity=0.609  Sum_probs=85.2

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||++    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+....||+||++..||+|
T Consensus       100 lP~~~DwR~~----g~vtpVkdQg~CGSCWAFs~~~alE~~~~i~~g--~~~~LSeq~lvdC~~~~~gC~GG~~~~a~~y  173 (314)
T 1by8_A          100 APDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTG--KLLNLSPQNLVDCVSENDGCGGGYMTNAFQY  173 (314)
T ss_dssp             CCSCCBSTTT----TCSCCCCBCCSSSCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHTTCTTSCGGGCCCSHHHHHH
T ss_pred             CCCeEeCCCC----CCCCCcccCCCCCCcHHHHHHHHHHHHHHHhcC--CCcccCHHHHHHhcCCCCCCcCCCHHHHHHH
Confidence            9999999998    889999999999999999999999999999987  5789999999999875569999999999999


Q ss_pred             hh-hcccccCCCCCCCCCcccCCC--CCCc
Q psy1911         267 WG-HNGVVTGGDYNSQEGCQPYTL--APCE  293 (342)
Q Consensus       267 ~~-~~Gi~~e~~Y~~~~~C~PY~~--~~c~  293 (342)
                      |. ..||++|.+|       ||..  +.|.
T Consensus       174 i~~~~Gi~~e~~y-------PY~~~~~~C~  196 (314)
T 1by8_A          174 VQKNRGIDSEDAY-------PYVGQEESCM  196 (314)
T ss_dssp             HHHTTCBCBTTTS-------CCCSSCCCCC
T ss_pred             HHHcCCcCcHhhC-------CCCCCCCCcC
Confidence            98 5799998887       8875  3454

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

Probab=99.93  E-value=8.2e-27  Score=222.71  Aligned_cols=107  Identities=26%  Similarity=0.458  Sum_probs=93.4

Q ss_pred             cceeeeeeEEcCc-hHH--HHHHHHcCCeEEEEeeccccccccccccccC-CCCCccceEEEEeeecccCCccEEEEecC
Q psy1911          61 LSHYFKKAHMVPR-CNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHN-FGDSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        61 ~~~~i~~~~~v~~-~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~-~~~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ...++.+|+.|+. ++.  +++|+++|||+|+|+++++|++|.+|||..+ |....++|||+|||||+++|.+||||+||
T Consensus       195 ~~~~i~~~~~v~~~~~~~i~~~l~~~GPV~v~i~~~~~f~~Y~~Gvy~~~~c~~~~~~HaV~iVGyg~~~g~~yWivkNS  274 (310)
T 2o6x_A          195 GVAKVTGFYTVHSGSEVELKNLVGAEGPAAVAVDVESDFMMYRSGIYQSQTCSPLRVNHAVLAVGYGTQGGTDYWIVKNS  274 (310)
T ss_dssp             CCEEEEEEEEECSCCHHHHHHHHHHHCCEEEEECCCHHHHTEEEEEECCSSCCTTCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             CceEeCeEEEeCCCCHHHHHHHHHhcCCeEEEEecchhhhhCCCceecCCCCCCCCCCEEEEEEEEeccCCceEEEEEeC
Confidence            3478899999985 332  7889999999999999989999999999865 54456799999999999999999999999


Q ss_pred             CCCCCCCCCceeeecCC-cchhhccccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE-NEADIEMGFNNRVE  167 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v~  167 (342)
                      ||+.||++|||||+|+. |.|||+..+.+++.
T Consensus       275 WG~~WGe~GY~~i~r~~~n~Cgi~~~~~~p~~  306 (310)
T 2o6x_A          275 WGLSWGERGYIRMVRNRGNMCGIASLASLPMV  306 (310)
T ss_dssp             BCTTSTBTTEEEEECSSSSGGGTTTSEEEEEE
T ss_pred             CCCccCCCcEEEEEcCCCCcCCccceeeEEEe
Confidence            99999999999999997 89999988877653

>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=99.93  E-value=1.3e-26  Score=210.48  Aligned_cols=105  Identities=27%  Similarity=0.437  Sum_probs=92.2

Q ss_pred             ceeeeeeEEcCchHH---HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCC
Q psy1911          62 SHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSW  137 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSW  137 (342)
                      ..++.+|..|+..++   +++|+++|||+++|+++ ++|++|.+|||..+.+...++|||+|||||++++.+||||||||
T Consensus       108 ~~~i~~~~~~~~~~~~~ik~~l~~~gPV~v~~~~~~~~f~~y~~Giy~~~~~~~~~~HaV~iVGyg~~~g~~ywivkNSW  187 (218)
T 3ovx_A          108 AATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSW  187 (218)
T ss_dssp             EECCCEEEECCTTCHHHHHHHHHHTCCEEEEECCCSHHHHHCCSSEECCTTCCSCCCEEEEEEEEEEETTEEEEEEECSB
T ss_pred             eeeeccEEEeCCCCHHHHHHHHHhcCCEEEEEEecchhhhcccCceecCCCCCcccCcEEEEEEEeccCCceEEEEECCC
Confidence            456788999975333   78899999999999987 48999999999877666678999999999999999999999999


Q ss_pred             CCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         138 NDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      |+.||++|||||+|+. |.|||+..+.+++
T Consensus       188 G~~WG~~Gy~~i~~~~~n~cgi~~~~~~p~  217 (218)
T 3ovx_A          188 GHNFGEEGYIRMARNKGNHCGIASFPSYPE  217 (218)
T ss_dssp             CTTSTBTTEEEEECSSSSGGGTTTSCEEEE
T ss_pred             CCccccCCEEEEecCCCCcccccCceeeee
Confidence            9999999999999997 9999998877654

>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=99.93  E-value=1.1e-26  Score=221.83  Aligned_cols=90  Identities=28%  Similarity=0.476  Sum_probs=83.6

Q ss_pred             CCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCC-CCCCCCchhhH
Q psy1911         185 KGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC-WGCNGGWPQLA  263 (342)
Q Consensus       185 ~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~-~GC~GG~~~~a  263 (342)
                      .+||++||||+.    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+  + .||+||++..|
T Consensus        88 ~~lP~~~DwR~~----g~vtpVkdQg~CGSCWAFsa~~alE~~~~i~~g--~~~~LSeq~lvdC~--~~~GC~GG~~~~a  159 (312)
T 1xkg_A           88 GNAPAEIDLRQM----RTVTPIRMQGGCGSAWAFSGVAATESAYLAYRD--QSLDLAEQELVDCA--SQHGCHGDTIPRG  159 (312)
T ss_dssp             SCCCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHC--CCCCBCHHHHHHHT--CSSTTBCCCHHHH
T ss_pred             ccCCCccccccC----CCcCCccccCCCCccHHHHHHHHHHHHHHHHhC--CCCCcCHHHHHhcc--CCCCCCCCCHHHH
Confidence            379999999998    789999999999999999999999999999987  47899999999998  4 69999999999


Q ss_pred             HHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         264 WRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       264 ~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |+||.+.||++|.+|       ||..
T Consensus       160 ~~yi~~~Gi~~e~~y-------PY~~  178 (312)
T 1xkg_A          160 IEYIQHNGVVQESYY-------RYVA  178 (312)
T ss_dssp             HHHHHHHCEEBGGGS-------CCCS
T ss_pred             HHHHHHcCCCccccC-------CccC
Confidence            999999999997777       8875

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

Probab=99.93  E-value=1.4e-26  Score=222.54  Aligned_cols=106  Identities=22%  Similarity=0.448  Sum_probs=93.4

Q ss_pred             cceeeeeeEEcCchHH---HHHHHHcCCeEEEEeeccccccccccccccCCC-CCccceEEEEeeecccCCccEEEEecC
Q psy1911          61 LSHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFG-DSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~-~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ....+.+|..|+..++   +++|+++|||+|+|+++.+|++|.+|||..+.+ ...++|||+|||||+++|.+|||||||
T Consensus       218 ~~~~i~~~~~v~~~~e~~lk~al~~~GPV~v~i~a~~~f~~Y~~GVy~~~~c~~~~~~HaV~iVGyg~~~g~~yWivkNS  297 (329)
T 3qt4_A          218 SVTTLSGYYDLPSGDENSLADAVGQAGPVAVAIDATDELQFYSGGLFYDQTCNQSDLNHGVLVVGYGSDNGQDYWILKNS  297 (329)
T ss_dssp             CCBCCSEEEECCTTCHHHHHHHHHHTCCEEEEECCCGGGTTEEEEEECCSSCCSSCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             ceEEeceEEEecCCCHHHHHHHHHhCCCEEEEEecChhhhhccCceeecCCCCCCcCCEEEEEEEEEeeCCccEEEEEeC
Confidence            3467889999986433   678889999999999998999999999987644 456899999999999999999999999


Q ss_pred             CCCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      ||+.||++|||||+|+. |.|||++.+.+++
T Consensus       298 WG~~WGe~GY~~i~r~~~n~CgI~~~~~yp~  328 (329)
T 3qt4_A          298 WGSGWGESGYWRQVRNYGNNCGIATAASYPA  328 (329)
T ss_dssp             BCTTSTBTTEEEEESSSSSGGGTTTTCEEEE
T ss_pred             CCCcccCCcEEEEEeCCCCccCCCCceeEee
Confidence            99999999999999998 9999998887664

>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=99.93  E-value=1e-26  Score=211.54  Aligned_cols=104  Identities=28%  Similarity=0.547  Sum_probs=90.8

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ...+.+|..|+..++  |++++.+|||+++|+++ ++|++|++|||..++... ++|||+|||||++++.+|||||||||
T Consensus       107 ~~~i~~~~~v~~~~~~~l~~~l~~GPV~v~~~~~~~~f~~Y~~Giy~~~~~~~-~~HaV~iVGyg~~~g~~yWivkNSWG  185 (220)
T 3p5u_A          107 YVSIDTYENVPYNNEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCGTA-VDHAVTIVGYGTEGGIDYWIVKNSWG  185 (220)
T ss_dssp             SBCCCEEEECCTTCHHHHHHHHTTSCEEEEECCCSHHHHTCCSSEECCCCCCS-CCEEEEEEEEEEETTEEEEEEECSBC
T ss_pred             eEEEccEEEeCCCcHHHHHHHHhcCCEEEEEecCchhhccccCceECCCCCCc-cceEEEEEEEecCCCceEEEEECCCC
Confidence            356788999976544  66666899999999997 689999999998866554 69999999999999999999999999


Q ss_pred             CCCCCCCceeeecCCc---chhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGEN---EADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~~---~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.|   .|||+..+.+++
T Consensus       186 ~~WGe~Gy~~i~r~~~~~~~Cgi~~~~~~p~  216 (220)
T 3p5u_A          186 TTWGEEGYMRIQRNVGGVGQCGIAKKASYPV  216 (220)
T ss_dssp             TTSTBTTEEEEECCCCTTCGGGTTSSCEEEE
T ss_pred             CCcccCCEEEEECCCCCCCccCcccccceEE
Confidence            9999999999999986   899998887765

>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=99.93  E-value=4.1e-26  Score=207.96  Aligned_cols=106  Identities=23%  Similarity=0.445  Sum_probs=90.7

Q ss_pred             ceeeeeeEEcCchHH-HHHHHHcCCeEEEEeecc-ccccccc-ccccc-CCCC--CccceEEEEeeecccC-CccEEEEe
Q psy1911          62 SHYFKKAHMVPRCNA-MRQIYEHGPLVAIFSVYA-DFLQYKS-GVYQH-NFGD--SIGLHAVRVLGWGVEN-DIPYWLVA  134 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~-~~~i~~~GPV~v~i~v~~-~f~~y~~-Gi~~~-~~~~--~~~~Hav~ivGyg~~~-g~~ywiik  134 (342)
                      ..++.+|+.|+.++. |++++.+|||+|+|+++. +|++|++ |||.. .+..  ..++|||+|||||+++ +.+|||||
T Consensus       103 ~~~i~~~~~v~~~~~~i~~~l~~GPV~v~i~~~~~~f~~Y~~~Giy~~~~~~~~~~~~~HaV~iVGyg~~~~g~~yWivk  182 (222)
T 3u8e_A          103 AARIDGYTNVPNSSSALLDAVAKQPVSVNIYTSSTSFQLYTGPGIFAGSSCSDDPATVDHTVLIVGYGSNGTNADYWIVK  182 (222)
T ss_dssp             CBCCCEEEECCSCHHHHHHHHHHSCEEEEECCCSHHHHTCCCSSCBCCTTCCCCGGGCCEEEEEEEEEESSTTCEEEEEE
T ss_pred             eEEEccEEEeCCcHHHHHHHHhCCCEEEEEEecChhhhcEeCCceECCCcccCCCCcCCEEEEEEEEeecCCCCcEEEEE
Confidence            577889999974443 555558899999999985 8999999 99987 4443  2579999999999987 89999999


Q ss_pred             cCCCCCCCCCCceeeecCCc----chhhccccccccc
Q psy1911         135 NSWNDHWGDHGTFKILRGEN----EADIEMGFNNRVE  167 (342)
Q Consensus       135 NSWG~~WG~~Gy~~i~~~~~----~~gi~~~~~~~v~  167 (342)
                      ||||+.||++|||||+|+.|    .|||+..+.+++.
T Consensus       183 NSWG~~WGe~Gy~~i~r~~~~~~g~Cgi~~~~~~p~~  219 (222)
T 3u8e_A          183 NSWGTEWGIDGYILIRRNTNRPDGVCAIDAWGSYPTK  219 (222)
T ss_dssp             CSBCTTSTBTTEEEEECSCSCTTCGGGTTSSCEEEEC
T ss_pred             CCCCCCcccCCEEEEEcCCCCCCCcCCccccceEEEE
Confidence            99999999999999999987    8999998887753

>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=99.93  E-value=2.2e-26  Score=208.88  Aligned_cols=104  Identities=23%  Similarity=0.455  Sum_probs=89.1

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeecc-ccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYA-DFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~-~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ..++.+|..|+..++  +++++.+|||+++|+++. +|++|.+|||..++.. .++|||+|||||++++.+|||||||||
T Consensus       103 ~~~i~~~~~v~~~~~~~ik~~l~~GPV~v~i~~~~~~f~~Y~~Gvy~~~c~~-~~~HaV~iVGyg~~~g~~yWivkNSWG  181 (215)
T 1iwd_A          103 VVSINGFQRVTRNNESALQSAVASQPVSVTVEAAGAPFQHYSSGIFTGPCGT-AQNHGVVIVGYGTQSGKNYWIVRNSWG  181 (215)
T ss_dssp             CBCCCEEEECCTTCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCCCCC-CCCEEEEEEEEEEETTEEEEEEECSBC
T ss_pred             eEEeCcEEEeCCCcHHHHHHHHHhCCEEEEEecCCcchhhcCCceECCCCCC-cCCEEEEEEEEeccCCccEEEEEeCCC
Confidence            467888999976443  555455699999999986 7999999999876654 569999999999998999999999999


Q ss_pred             CCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.    |.|||+..+.+++
T Consensus       182 ~~WGe~Gy~~i~~~~~~~~~~Cgi~~~~~~p~  213 (215)
T 1iwd_A          182 QNWGNQGYIWMERNVASSAGLCGIAQLPSYPT  213 (215)
T ss_dssp             TTSTBTTEEEEECSCSSTTCGGGTTSSCEEEE
T ss_pred             CCcCCCcEEEEEcCCCCCCCCCCccccceeee
Confidence            999999999999986    8899988876654

>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=99.93  E-value=1.8e-26  Score=209.59  Aligned_cols=91  Identities=33%  Similarity=0.653  Sum_probs=82.3

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhC-C--CCCCCCCCchhh
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACT-P--NCWGCNGGWPQL  262 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~-~--~~~GC~GG~~~~  262 (342)
                      .||++||||+.    +.|+||+||+.||||||||++++||++++|+++  ..+.||+|+|++|+ .  ...||+||++..
T Consensus         1 ~lP~~~DwR~~----~~vtpVkdQg~cGsCWAfa~~~~le~~~~i~~~--~~~~lS~q~l~~c~~~~~~~~gC~GG~~~~   74 (218)
T 3ovx_A            1 ILPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTG--KLVSLSAQNLVDCSTEKYGNKGCNGGFMTT   74 (218)
T ss_dssp             -CCSCEEGGGG----TCCCCCCBCTTSCCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHSCGGGTCCGGGCCCHHH
T ss_pred             CCCCCCCcccC----CCCCCCccCCCCccHHHHHHHHHHHHHHHHHcC--CccccCHHHheeccCCcCCCCCCCCCCHHH
Confidence            38999999998    889999999999999999999999999999988  46899999999998 3  245999999999


Q ss_pred             HHHHhhh-cccccCCCCCCCCCcccCCC
Q psy1911         263 AWRFWGH-NGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       263 a~~y~~~-~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      ||.|+.+ .||++|.+|       ||..
T Consensus        75 a~~~~~~~~Gi~~e~~y-------PY~~   95 (218)
T 3ovx_A           75 AFQYIIDNKGIDSDASY-------PYKA   95 (218)
T ss_dssp             HHHHHHHHTCEEBTTTS-------CCCS
T ss_pred             HHHHHHHhCCcCccccc-------CccC
Confidence            9999976 699998887       8875

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

Probab=99.93  E-value=1.7e-26  Score=220.93  Aligned_cols=105  Identities=27%  Similarity=0.437  Sum_probs=91.6

Q ss_pred             ceeeeeeEEcCchHH---HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCC
Q psy1911          62 SHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSW  137 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSW  137 (342)
                      ...+.+|+.|+..++   +++|+++|||+|+|+++ ++|++|.+|||..+.+...++|||+|||||+++|.+||||+|||
T Consensus       205 ~~~i~~~~~v~~~~~~~i~~al~~~GPV~v~i~~~~~~f~~Y~~Gvy~~~~c~~~~~HaV~iVGyg~~~g~~yWivkNSW  284 (315)
T 2c0y_A          205 AATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSW  284 (315)
T ss_dssp             EECCCEEEECCTTCHHHHHHHHHHTCCEEEEECCCSHHHHTEEEEEECCTTCCSCCCEEEEEEEEEEETTEEEEEEECSB
T ss_pred             ccccCCeEEeCCCCHHHHHHHHHHcCCEEEEEecCchhhhccCCCcccCCCCCCcCCEEEEEEEEeecCCCcEEEEEcCC
Confidence            467889999985333   78899999999999998 68999999999876333367999999999998899999999999


Q ss_pred             CCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         138 NDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      |+.||++|||||+|+. |.|||+..+.+++
T Consensus       285 G~~WGe~GY~~i~r~~~n~CgI~~~~~~p~  314 (315)
T 2c0y_A          285 GHNFGEEGYIRMARNKGNHCGIASFPSYPE  314 (315)
T ss_dssp             CTTSTBTTEEEEECSSSSGGGTTTSCEEEE
T ss_pred             CCCcCCCcEEEEEcCCCCccCcCceeEEee
Confidence            9999999999999995 8999988877654

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

Probab=99.93  E-value=1.5e-26  Score=221.37  Aligned_cols=105  Identities=24%  Similarity=0.468  Sum_probs=91.9

Q ss_pred             ceeeeeeEEcCchHH---HHHHHHcCCeEEEEeec-cccccccccccccC-CCCCccceEEEEeeecccCCccEEEEecC
Q psy1911          62 SHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHN-FGDSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~-~~~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ...+.+|+.|+..++   +++|+++|||+|+|+++ ++|++|.+|||..+ |....++|||+|||||+++|.+||||+||
T Consensus       203 ~~~i~~~~~v~~~~~~~i~~al~~~GPV~v~i~~~~~~f~~Y~~Gvy~~~~c~~~~~~HaV~iVGyg~~~g~~yWivkNS  282 (314)
T 1by8_A          203 AAKCRGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKNS  282 (314)
T ss_dssp             CBCCSCEEECCSSCHHHHHHHHHHHCCEEEEECCCSHHHHTEEEECBCCTTCCSSCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             eeEECcEEEecCCCHHHHHHHHHHcCCEEEEEEeChHHhhhccCceecCCCCCCCCCCeEEEEEEEeccCCceEEEEEcC
Confidence            467888999985332   78899999999999998 68999999999876 55446899999999999889999999999


Q ss_pred             CCCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      ||+.||++|||||+|+. |.|||+..+.+++
T Consensus       283 WG~~WGe~GY~~i~r~~~n~CgI~~~~~~p~  313 (314)
T 1by8_A          283 WGENWGNKGYILMARNKNNACGIANLASFPK  313 (314)
T ss_dssp             BTTTSTBTTEEEECCSSSCGGGTTSSCEEEC
T ss_pred             CCCCcCcCCEEEEEcCCCCcCCccCeeEEee
Confidence            99999999999999995 8999988887654

>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=99.93  E-value=3.6e-26  Score=218.39  Aligned_cols=107  Identities=19%  Similarity=0.318  Sum_probs=93.6

Q ss_pred             cceeeeeeEEcCc-hHH--HHHHHH-cCCeEEEEeecc--ccccccccccccCCC--CCccceEEEEeeecccCCccEEE
Q psy1911          61 LSHYFKKAHMVPR-CNA--MRQIYE-HGPLVAIFSVYA--DFLQYKSGVYQHNFG--DSIGLHAVRVLGWGVENDIPYWL  132 (342)
Q Consensus        61 ~~~~i~~~~~v~~-~~~--~~~i~~-~GPV~v~i~v~~--~f~~y~~Gi~~~~~~--~~~~~Hav~ivGyg~~~g~~ywi  132 (342)
                      ..+.+.+|..|+. ++.  +++|++ +|||+|+|++++  +|++|.+|||..+.+  ... +|||+|||||+++|.+|||
T Consensus       189 ~~~~i~~y~~v~~~~~~~ik~al~~~~GPV~v~i~~~~~~~f~~Y~~GVy~~~~c~~~~~-~HaV~iVGyg~~~g~~yWi  267 (312)
T 1xkg_A          189 QRFGISNYCQIYPPNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPN-YHAVNIVGYSNAQGVDYWI  267 (312)
T ss_dssp             CEECCSEEEECCSCCHHHHHHHHHHHCCCEEEEEEESCHHHHHTCCSSSCBCCCCSSCCE-EEEEEEEEEEEETTEEEEE
T ss_pred             ceEEEeeEEEeCCCCHHHHHHHHHhcCCCEEEEEEecccccccccCCcEEcCCCCCCCcC-ceEEEEEEEeccCCceEEE
Confidence            3577889999985 332  788888 999999999997  899999999987543  336 9999999999999999999


Q ss_pred             EecCCCCCCCCCCceeeecCCcchhhcccccccccc
Q psy1911         133 VANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEA  168 (342)
Q Consensus       133 ikNSWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v~~  168 (342)
                      |+||||+.||++|||||+|+.|.|||+..+.++++.
T Consensus       268 vkNSWG~~WGe~GY~~i~r~~n~CgI~~~~~~~~~~  303 (312)
T 1xkg_A          268 VRNSWDTNWGDNGYGYFAANIDLMMIEEYPYVVILG  303 (312)
T ss_dssp             EECSBCTTSTBTTEEEEECSSCGGGTTTCCEEEECT
T ss_pred             EEeCCCCcccCCcEEEEEcCCCcccccceeEEeecc
Confidence            999999999999999999999999999998887654

>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=99.93  E-value=1.1e-26  Score=211.79  Aligned_cols=93  Identities=28%  Similarity=0.584  Sum_probs=85.0

Q ss_pred             CCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCchh
Q psy1911         184 AKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGWPQ  261 (342)
Q Consensus       184 ~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~~~  261 (342)
                      ..+||++||||++    +.|+||+||+.||||||||++++||++++|+++  ..+.||+|+|++|+..  ..||+||++.
T Consensus         4 ~~~lP~~~Dwr~~----~~v~pVkdQg~cGsCWAfa~~~~le~~~~i~~~--~~~~lS~q~l~~c~~~~~~~gC~GG~~~   77 (224)
T 3f75_A            4 PSELPAGVDWRSR----GCVTPVKDQRDCGSCWAFSTTGALEGAHCAKTG--KLVSLSEQELMDCSRAEGNQSCSGGEMN   77 (224)
T ss_dssp             GGGSCSCEEHHHH----TCCCCCCBCCSSSCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCGGGTCCGGGCBCHH
T ss_pred             ccCCCCceecccC----CCCCCCccCCCCccHHHHHHHHHHHHHHHHhcC--CCceeCHHHHhhcccCCCCCCCCCCCHH
Confidence            3469999999998    889999999999999999999999999999988  4789999999999875  4599999999


Q ss_pred             hHHHHhhh-cccccCCCCCCCCCcccCCC
Q psy1911         262 LAWRFWGH-NGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       262 ~a~~y~~~-~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      .||.|+.+ .||++|.+|       ||..
T Consensus        78 ~a~~~~~~~~Gi~~e~~y-------PY~~   99 (224)
T 3f75_A           78 DAFQYVLDSGGICSEDAY-------PYLA   99 (224)
T ss_dssp             HHHHHHHHHTCBCBTTTS-------CCCS
T ss_pred             HHHHHHHHhCCccccccC-------CCcC
Confidence            99999998 799998777       8875

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

Probab=99.93  E-value=2.8e-26  Score=208.23  Aligned_cols=104  Identities=22%  Similarity=0.375  Sum_probs=88.1

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ..++.+|..|+..++  +++++.+|||+++|+++ ++|++|++|||..++... ++|||+|||||+++|.+|||||||||
T Consensus       104 ~~~i~~y~~v~~~~~~~i~~~l~~GPV~v~~~~~~~~f~~Y~~Giy~~~~~~~-~~HaV~iVGyg~~~g~~ywivkNSWG  182 (216)
T 1ppo_A          104 IVKTSGVGRVQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEGPCGTK-VDHAVTAVGYGKSGGKGYILIKNSWG  182 (216)
T ss_dssp             CBCCCEEEECCSSCHHHHHHHHHHSCEEEEECCCSHHHHHCCSSEECCSCCSC-CCEEEEEEEEEEETTEEEEEEECSBC
T ss_pred             eEEeccEEEECCCCHHHHHHHHHhCCEEEEEecCChhhhhcCCceECCCCCCC-CCEEEEEEEeeccCCccEEEEEeCCC
Confidence            467888988986333  44444459999999996 789999999998766554 69999999999998999999999999


Q ss_pred             CCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.    |.|||+..+.+++
T Consensus       183 ~~WG~~Gy~~i~~~~~~~~n~Cgi~~~~~~p~  214 (216)
T 1ppo_A          183 TAWGEKGYIRIKRAPGNSPGVCGLYKSSYYPT  214 (216)
T ss_dssp             SSSTBTTEEEEECCCSSSSCGGGTTSCCEEEE
T ss_pred             CCcccCcEEEEEcCCCCCCCcCccccceeeEe
Confidence            999999999999985    8899988877654

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

Probab=99.93  E-value=2e-26  Score=220.07  Aligned_cols=91  Identities=31%  Similarity=0.580  Sum_probs=83.4

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCchhhH
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGWPQLA  263 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~~~~a  263 (342)
                      +||++||||+.    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+..  ..||+||++..|
T Consensus        91 ~lP~~~DwR~~----g~vtpVkdQg~CGSCWAfa~~~alE~~~~i~~g--~~~~LS~q~lvdC~~~~~~~gC~GG~~~~a  164 (310)
T 2o6x_A           91 AVPDKIDWRES----GYVTEVKDQGNCGSGWAFSTTGTMEGQYMKNER--TSISFSEQQLVDCSRPWGNNGCGGGLMENA  164 (310)
T ss_dssp             -CCSCEEGGGG----TCCCCCCBCCSSCCHHHHHHHHHHHHHHHHHHS--SCCCBCHHHHHHHCGGGTCCGGGCCCHHHH
T ss_pred             CCCCeEecCcC----CCCCCcccCCCCCccHHHHhHHHHHHHHHHHhC--CCcCcCHHHHHHhhhccCCCCCCCCCHHHH
Confidence            69999999998    889999999999999999999999999999998  4789999999999853  459999999999


Q ss_pred             HHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         264 WRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       264 ~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |+||...||++|.+|       ||..
T Consensus       165 ~~yi~~~Gi~~e~~y-------PY~~  183 (310)
T 2o6x_A          165 YQYLKQFGLETESSY-------PYTA  183 (310)
T ss_dssp             HHHHTTSCBCBTTTS-------CCCS
T ss_pred             HHHHHHCCcCchhcC-------CCCC
Confidence            999998899997777       8975

>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=99.93  E-value=1.1e-26  Score=211.20  Aligned_cols=90  Identities=32%  Similarity=0.686  Sum_probs=82.8

Q ss_pred             CCcccccCccCCCCC-CCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCchhhH
Q psy1911         187 LPRNFDAREKWPECP-SLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGWPQLA  263 (342)
Q Consensus       187 lP~sfD~R~~~~~c~-~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~~~~a  263 (342)
                      ||++||||+.    + +|+|||||+.||||||||++++||++++|+++  ..+.||+|+|++|+..  ..||+||++..|
T Consensus         1 lP~~~DwR~~----~~~vtpVkdQg~cGsCWAfa~~~~le~~~~i~~~--~~~~lS~q~l~dc~~~~~~~gC~GG~~~~a   74 (220)
T 8pch_A            1 YPPSMDWRKK----GNFVSPVKNQGSCGSCWTFSTTGALESAVAIATG--KMLSLAEQQLVDCAQNFNNHGCQGGLPSQA   74 (220)
T ss_dssp             CCSCEEHHHH----SSCSCCCCBCTTSCCHHHHHHHHHHHHHHHHHHC--CCCCBCHHHHHHHGGGGTCCGGGCCCHHHH
T ss_pred             CCCCEecCcC----CCcCCcccccCCCchHHHHHHHHHHHHHHHHHcC--CCCCCCHHHHhhCcCccCCCCCCCCCHHHH
Confidence            7999999998    5 79999999999999999999999999999998  5689999999999853  459999999999


Q ss_pred             HHHhhhc-ccccCCCCCCCCCcccCCC
Q psy1911         264 WRFWGHN-GVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       264 ~~y~~~~-Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      |+||.++ ||++|.+|       ||..
T Consensus        75 ~~~~~~~~Gi~~e~~y-------PY~~   94 (220)
T 8pch_A           75 FEYIRYNKGIMGEDTY-------PYKG   94 (220)
T ss_dssp             HHHHHHHTCEEBTTTS-------CCCS
T ss_pred             HHHHHHcCCcCccccc-------CccC
Confidence            9999988 99998888       8875

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

Probab=99.93  E-value=3.2e-26  Score=208.16  Aligned_cols=104  Identities=23%  Similarity=0.415  Sum_probs=89.2

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ..++.+|..|+..++  +++++.+|||+++|+++ ++|++|++|||..++... ++|+|+|||||+++|.+|||||||||
T Consensus       104 ~~~i~~y~~v~~~~~~~i~~~l~~GPV~v~i~~~~~~f~~Y~~Giy~~~~~~~-~~HaV~iVGyg~~~g~~yWivkNSWG  182 (218)
T 1yal_A          104 KVKITGYKRVPSNCETSFLGALANQPLSVLVEAGGKPFQLYKSGVFDGPCGTK-LDHAVTAVGYGTSDGKNYIIIKNSWG  182 (218)
T ss_dssp             CBCCSEEEECCSSBHHHHHHHHTTSCEEEEECCCSHHHHTCCSSEECCSCCSC-CCEEEEEEEEEEETTEEEEEEECSBC
T ss_pred             eEEEeeEEEeCCCCHHHHHHHHHhCCEEEEEeccchhccccCCceECCCCCCC-CCEEEEEEEeeccCCccEEEEEeCCC
Confidence            467888989986433  55555569999999996 789999999998766554 69999999999998999999999999


Q ss_pred             CCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.    |.|||+..+.+++
T Consensus       183 ~~WGe~Gy~~i~~~~~~~~~~Cgi~~~~~~p~  214 (218)
T 1yal_A          183 PNWGEKGYMRLKRQSGNSQGTCGVYKSSYYPF  214 (218)
T ss_dssp             TTSTBTTEEEEECCCSBSCCGGGTTSSCEEEE
T ss_pred             CCcccCcEEEEECCCCCCCCccccccceeeEE
Confidence            999999999999985    8899988887765

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

Probab=99.93  E-value=3e-26  Score=220.29  Aligned_cols=96  Identities=28%  Similarity=0.668  Sum_probs=86.2

Q ss_pred             CCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCchhh
Q psy1911         185 KGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGWPQL  262 (342)
Q Consensus       185 ~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~~~~  262 (342)
                      .+||++||||++     .|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+..  +.||+||++..
T Consensus       114 ~~lP~~~DwR~~-----~vtpVkdQg~CGSCWAFaa~~alE~~~~i~~g--~~~~LSeQ~LvdC~~~~g~~GC~GG~~~~  186 (329)
T 3qt4_A          114 KPLAASVDWRSN-----AVSEVKDQGQCGSSWSFSTTGAVEGQLALQRG--RLTSLSEQNLIDCSSSYGNAGCDGGWMDS  186 (329)
T ss_dssp             SCCCSCEECTTT-----SCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCGGGTCCTTBCCCHHH
T ss_pred             cCCCCCEEcccc-----ccCCCccCCCCcChHHHHHHHHHHHHHHHHcC--CcccCCHHHHHHhccccCCCCCCCCChhH
Confidence            479999999997     59999999999999999999999999999998  4789999999999864  45999999999


Q ss_pred             HHHHhhhcccccCCCCCCCCCcccCCC--CCCcc
Q psy1911         263 AWRFWGHNGVVTGGDYNSQEGCQPYTL--APCEH  294 (342)
Q Consensus       263 a~~y~~~~Gi~~e~~Y~~~~~C~PY~~--~~c~~  294 (342)
                      ||+||.++||++|.+|       ||..  +.|..
T Consensus       187 a~~yi~~~Gi~~e~~y-------PY~~~~~~C~~  213 (329)
T 3qt4_A          187 AFSYIHDYGIMSESAY-------PYEAQGDYCRF  213 (329)
T ss_dssp             HHHHHHHSCBCBTTTS-------CCCSSCCCCCC
T ss_pred             HHHHHHHcCCCcHHHe-------eeecCCCCCCC
Confidence            9999999999998888       8875  34543

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

Probab=99.93  E-value=2.9e-26  Score=220.76  Aligned_cols=106  Identities=30%  Similarity=0.492  Sum_probs=93.0

Q ss_pred             cceeeeeeEEcCchHH---HHHHHHcCCeEEEEeeccccccccccccccCCC-CCccceEEEEeeecccCCccEEEEecC
Q psy1911          61 LSHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFG-DSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~-~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ....+.+|..|+..++   +++|+++|||+|+|+++.+|++|.+|||..+.+ ...++|||+|||||+++|.+|||||||
T Consensus       220 ~~~~i~~~~~v~~~~e~~lk~al~~~GPV~v~i~a~~~f~~Y~~Gvy~~~~c~~~~~~HaV~iVGyg~~~g~~yWivkNS  299 (331)
T 3qj3_A          220 VAARLSGYVYLSGPDENMLADMVATKGPVAVAFDADDPFGSYSGGVYYNPTCETNKFTHAVLIVGYGNENGQDYWLVKNS  299 (331)
T ss_dssp             EEECCSEEEEESSCCHHHHHHHHHHHCCEEEEECCCTTGGGEEEEEECCTTCCSSCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             ceeEeeEEEEeCCCCHHHHHHHHHhCCCEEEEEEcccccccccCceEeCCCCCCCcCCEEEEEEEEeccCCceEEEEEcC
Confidence            3467889999986333   678889999999999987799999999987644 456899999999999999999999999


Q ss_pred             CCCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      ||+.||++|||||+|+. |.|||++.+.+++
T Consensus       300 WG~~WGe~GY~~i~r~~~n~CgI~~~~~~p~  330 (331)
T 3qj3_A          300 WGDGWGLDGYFKIARNANNHCGIAGVASVPT  330 (331)
T ss_dssp             BCTTSTBTTEEEEECSSSSGGGTTTSCEEEE
T ss_pred             CCCCcCCCCEEEEEcCCCCccCcCCceeeee
Confidence            99999999999999998 9999998887664

>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=99.93  E-value=2.4e-26  Score=220.05  Aligned_cols=93  Identities=31%  Similarity=0.598  Sum_probs=84.5

Q ss_pred             CCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCchh
Q psy1911         184 AKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGWPQ  261 (342)
Q Consensus       184 ~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~~~  261 (342)
                      ..+||++||||++    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+..  ..||+||++.
T Consensus        94 ~~~lP~~~DwR~~----g~vtpVkdQg~CGSCWAFsa~~alE~~~~i~~g--~~~~LSeq~lvdC~~~~g~~gC~GG~~~  167 (316)
T 1cs8_A           94 FYEAPRSVDWREK----GYVTPVKNQGQCGSCWAFSATGALEGQMFRKTG--RLISLSEQNLVDCSGPQGNEGCNGGLMD  167 (316)
T ss_dssp             TCCCCSCEEGGGG----TCCCCCCBCCSSSCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCGGGTCCGGGCBCHH
T ss_pred             ccCCCCcEecCCC----CCcCCCCcccCCccHHHHHHHHHHHHHHHHHcC--CCcCcCHHHHHHhccccCCCCCCCCCHH
Confidence            3479999999998    889999999999999999999999999999987  4789999999999863  4599999999


Q ss_pred             hHHHHhh-hcccccCCCCCCCCCcccCCC
Q psy1911         262 LAWRFWG-HNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       262 ~a~~y~~-~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      .||+||. ..||++|.+|       ||..
T Consensus       168 ~a~~yi~~~~Gi~~e~~y-------PY~~  189 (316)
T 1cs8_A          168 YAFQYVQDNGGLDSEESY-------PYEA  189 (316)
T ss_dssp             HHHHHHHHHTCEEBTTTS-------CCCS
T ss_pred             HHHHHHHHhCCcCchhcc-------CCCC
Confidence            9999996 6799997777       8875

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

Probab=99.93  E-value=2.9e-26  Score=219.42  Aligned_cols=92  Identities=32%  Similarity=0.616  Sum_probs=83.4

Q ss_pred             CCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhC-C--CCCCCCCCchh
Q psy1911         185 KGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACT-P--NCWGCNGGWPQ  261 (342)
Q Consensus       185 ~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~-~--~~~GC~GG~~~  261 (342)
                      .+||++||||++    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+ .  ...||+||++.
T Consensus        97 ~~lP~~~DwR~~----g~vtpVkdQg~CGSCWAfs~~~alE~~~~i~~g--~~~~LSeq~lvdC~~~~~~~~gC~GG~~~  170 (315)
T 2c0y_A           97 RILPDSVDWREK----GCVTEVKYQGSCGAAWAFSAVGALEAQLKLKTG--KLVSLSAQNLVDCSTEKYGNKGCNGGFMT  170 (315)
T ss_dssp             -CCCSCEETTTT----TCCCCCCBCTTSCCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHSCGGGTCCGGGCBCHH
T ss_pred             CCCCCeEecCCC----CCcCCCcCcccCCCcHHHHHHHHHHHHHHHHhC--CCcCcCHHHHHhhcccccCCCCCCCCCHH
Confidence            479999999998    889999999999999999999999999999987  57899999999998 3  24599999999


Q ss_pred             hHHHHhhh-cccccCCCCCCCCCcccCCC
Q psy1911         262 LAWRFWGH-NGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       262 ~a~~y~~~-~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      .||+||.+ .||++|.+|       ||..
T Consensus       171 ~a~~yi~~~~Gi~~e~~y-------PY~~  192 (315)
T 2c0y_A          171 TAFQYIIDNKGIDSDASY-------PYKA  192 (315)
T ss_dssp             HHHHHHHHHTCEEBTTTS-------CCCS
T ss_pred             HHHHHHHHhCCcCchhcC-------CCcc
Confidence            99999985 799998887       8875

>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=99.93  E-value=3.7e-26  Score=208.15  Aligned_cols=105  Identities=27%  Similarity=0.511  Sum_probs=89.9

Q ss_pred             cceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCC
Q psy1911          61 LSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSW  137 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSW  137 (342)
                      ..+.+.+|..|+..++  +++++.+|||+|+|+++ ++|++|.+|||..++.. .++|||+|||||++++.+||||||||
T Consensus       105 ~~~~i~~y~~v~~~~~~~i~~~l~~GPV~v~i~~~~~~f~~Y~~Giy~~~~~~-~~~HaV~iVGyg~~~g~~yWivkNSW  183 (221)
T 1cqd_A          105 PVVSIDSYENVPSHNEQSLQKAVANQPVSVTMDAAGRDFQLYRSGIFTGSCNI-SANHALTVVGYGTENDKDFWIVKNSW  183 (221)
T ss_dssp             CSBCCSEEEECCSSCHHHHHHHHTTSCEEEEECCCSHHHHTCCSSEECCCCCC-CCCEEEEEEEEEEETTEEEEEEECSB
T ss_pred             ceEEeccEEEeCCchHHHHHHHHHhCCEEEEEeccCcccccccCccccCCCCC-cCCeEEEEEEEcccCCCcEEEEEeCC
Confidence            3467888998986433  55555679999999998 68999999999876654 47999999999999899999999999


Q ss_pred             CCCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         138 NDHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      |+.||++|||||+|+.    |.|||+..+.+++
T Consensus       184 G~~WGe~Gy~~i~r~~~~~~~~Cgi~~~~~~p~  216 (221)
T 1cqd_A          184 GKNWGESGYIRAERNIENPDGKCGITRFASYPV  216 (221)
T ss_dssp             CTTSTBTTEEEEECSCSSTTCGGGTTSSCEEEE
T ss_pred             CCCcccCCEEEEEcCCCCCCcccceeeeeeEEE
Confidence            9999999999999973    7899988887765

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

Probab=99.93  E-value=3.9e-26  Score=219.09  Aligned_cols=104  Identities=21%  Similarity=0.351  Sum_probs=89.4

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ...|.+|+.|+..++  +++++.+|||+|+|+++ ++|++|.+|||..+|... ++|+|+|||||+++|.+||||+||||
T Consensus       210 ~~~i~~~~~v~~~~e~~l~~~l~~GPV~v~i~~~~~~f~~Y~~Gvy~~~c~~~-~~HaV~iVGyg~~~g~~yWivkNSWG  288 (322)
T 1pci_A          210 IVKTSGVGRVQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEGPCGTK-VDGAVTAVGYGKSGGKGYILIKNSWG  288 (322)
T ss_dssp             CBCCCCEEECCSSBHHHHHHHHHHSCEEEEECTTCHHHHTEEEEEECCSCCSC-CCEEEEEEEEEEETTEEEEEEECSBC
T ss_pred             eEEEeeEEEeCCCcHHHHHHHHHHCCEEEEEecccccccccCCeEeCCCCCCC-CCEEEEEEEEeccCCccEEEEEeCCC
Confidence            467889999986443  44444559999999997 689999999998776554 69999999999998999999999999


Q ss_pred             CCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.    |.|||+..+.+++
T Consensus       289 ~~WGe~GY~~i~r~~~~~~n~CgI~~~~~yp~  320 (322)
T 1pci_A          289 TAWGEKGYIRIKRAPGNSPGVCGLYKSSYYPT  320 (322)
T ss_dssp             SSSTBTTEEEEECCCSBSSCGGGGGGCCEEEC
T ss_pred             CcccCCeEEEEEcCCCCCCCcCCcccceeEEE
Confidence            999999999999986    8999998887764

>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=99.93  E-value=3.9e-26  Score=218.61  Aligned_cols=105  Identities=28%  Similarity=0.501  Sum_probs=91.7

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccC-CCCCccceEEEEeeec---cc-CCccEEEE
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHN-FGDSIGLHAVRVLGWG---VE-NDIPYWLV  133 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~-~~~~~~~Hav~ivGyg---~~-~g~~ywii  133 (342)
                      ..++.+|+.|+.++.  +++|+++|||+|+|+++ ++|++|.+|||..+ |....++|||+|||||   ++ +|.+||||
T Consensus       202 ~~~i~~~~~v~~~~~~ik~~l~~~GPV~v~i~~~~~~f~~Y~~Gvy~~~~c~~~~~~HaV~iVGygd~~~~~~g~~yWiv  281 (316)
T 1cs8_A          202 VANDAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWLV  281 (316)
T ss_dssp             EECCCCEEECCSCHHHHHHHHHHHCCEEEEECCCSHHHHTEEEEEECCTTCCSSCCCEEEEEEEEEEECCSSCCEEEEEE
T ss_pred             eeEeccEEEeCCCHHHHHHHHHhcCCEEEEEecCChhhccccCceECCCCCCCCCCCEEEEEEEecCCcccCCCCcEEEE
Confidence            577889999986333  78899999999999998 58999999999876 5444689999999999   66 78899999


Q ss_pred             ecCCCCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         134 ANSWNDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       134 kNSWG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      |||||+.||++|||||+|+. |.|||+..+.+++
T Consensus       282 kNSWG~~WGe~GY~~i~r~~~n~CgI~~~~~~p~  315 (316)
T 1cs8_A          282 KNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPT  315 (316)
T ss_dssp             ECSBCTTSTBTTEEEEECSSSSGGGTTTSCEEEC
T ss_pred             EcCCCCCcccCCEEEEECCCCCccCccceeeEee
Confidence            99999999999999999997 8999988877654

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

Probab=99.92  E-value=4.3e-26  Score=214.50  Aligned_cols=99  Identities=25%  Similarity=0.525  Sum_probs=86.5

Q ss_pred             CCCCCCcccccCccCCCCCCCccccccc---ccchHHHHHhhHHHHHHHHHHhCCcc-ccccCHHHHHhhCCCCCCCCCC
Q psy1911         183 NAKGLPRNFDAREKWPECPSLRHIADQS---NCGSCWAVSVANAISDRLCIASNGYF-TGQISAQHIVACTPNCWGCNGG  258 (342)
Q Consensus       183 ~~~~lP~sfD~R~~~~~c~~i~~v~dQg---~CGsCwAfa~~~~le~r~~i~~~~~~-~~~LS~Q~lldC~~~~~GC~GG  258 (342)
                      ...+||++||||+. ..++.|+|||||+   .||||||||++++||++++|++++.. .+.||+|+||||+.. .||+||
T Consensus        32 ~~~~lP~~~DwR~~-~~~~~vtpVkdQg~~~~CGSCWAfa~~~alE~~~~i~~~g~~~~~~LS~Q~lvdC~~~-~gC~GG  109 (277)
T 1deu_A           32 SPADLPKSWDWRNV-DGVNYASITRNQHIPQYCGSCWAHASTSAMADRINIKRKGAWPSTLLSVQNVIDCGNA-GSCEGG  109 (277)
T ss_dssp             CGGGSCSCEETTSB-TTBCCCCCCCBTTCSSCCBCHHHHHHHHHHHHHHHHHTTTCSSCCCBCHHHHHHHSSS-EETBEE
T ss_pred             ccccCCCceecccC-CCCCcCCccccCCCCCCCcchHHHHHHHHHHHHHHHHhCCCCCCcccCHHHHHhCcCC-CCCCCC
Confidence            45679999999998 3346799999999   99999999999999999999987543 479999999999853 699999


Q ss_pred             chhhHHHHhhhcccccCCCCCCCCCcccCCCC
Q psy1911         259 WPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLA  290 (342)
Q Consensus       259 ~~~~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~~  290 (342)
                      ++..||+||.++||++|.+|       ||.+.
T Consensus       110 ~~~~a~~yi~~~Gi~~e~~y-------PY~~~  134 (277)
T 1deu_A          110 NDLSVWDYAHQHGIPDETCN-------NYQAK  134 (277)
T ss_dssp             CHHHHHHHHHHTCBCBGGGS-------CCCSS
T ss_pred             CHHHHHHHHHHcCCCcCccC-------CCcCC
Confidence            99999999999999996655       99863

>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=99.92  E-value=7.4e-26  Score=207.28  Aligned_cols=105  Identities=25%  Similarity=0.509  Sum_probs=89.1

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEee-ccccccccccccccCCCCCccceEEEEeeecccC-CccEEEEecCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSV-YADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEN-DIPYWLVANSW  137 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v-~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~-g~~ywiikNSW  137 (342)
                      ..++.+|..|+..++  +++++.+|||+++|++ .++|++|.+|||..++... ++|||+|||||+++ |.+||||||||
T Consensus       107 ~~~i~~y~~v~~~~~~~i~~~l~~GPV~v~i~~~~~~f~~Y~~Giy~~~c~~~-~~HaV~iVGyg~~~~g~~yWivkNSW  185 (229)
T 1s4v_A          107 AVSIDGHENVPENDENALLKAVANQPVSVAIDAGGSDFQFYSEGVFTGSCGTE-LDHGVAIVGYGTTIDGTKYWTVKNSW  185 (229)
T ss_dssp             CBCCCEEEECCTTCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCCCCCC-CCEEEEEEEEEECTTSCEEEEEECSB
T ss_pred             EEEeeeEEEeCCccHHHHHHHHhcCCEEEEEEeCcHHHhhCCCcEECCCCCCC-CCeEEEEEEeccccCCCCEEEEEeCC
Confidence            356788889986443  5555566999999999 5789999999998766544 69999999999886 89999999999


Q ss_pred             CCCCCCCCceeeecCC----cchhhccccccccc
Q psy1911         138 NDHWGDHGTFKILRGE----NEADIEMGFNNRVE  167 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v~  167 (342)
                      |+.||++|||||+|+.    |.|||+..+.+++.
T Consensus       186 G~~WGe~Gy~~i~r~~~~~~~~Cgi~~~~~~p~~  219 (229)
T 1s4v_A          186 GPEWGEKGYIRMERGISDKEGLCGIAMEASYPIK  219 (229)
T ss_dssp             CTTSTBTTEEEEECSCSSTTCGGGTTSSCEEEEC
T ss_pred             CCCccCCcEEEEEcCCCCCCCcCcccccceeeEe
Confidence            9999999999999985    78999988877753

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

Probab=99.92  E-value=9.5e-26  Score=204.28  Aligned_cols=102  Identities=25%  Similarity=0.403  Sum_probs=89.3

Q ss_pred             ccceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecC
Q psy1911          60 PLSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        60 ~~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ....++.+|..|+.+++  +++++.+|||+++|+++ ++|++|++|||..++ ...++|+|+|||||+    +|||||||
T Consensus       102 ~~~~~i~~~~~v~~~~~~~~~~~~~~GPV~v~i~~~~~~f~~y~~Giy~~~~-~~~~~HaV~iVGyg~----~yWivkNS  176 (213)
T 3ioq_A          102 GPKVKTDGVGRVPRNNEQALIQRIAIQPVSIVVEAKGRAFQNYRGGIFAGPC-GTSIDHAVAAVGYGN----DYILIKNS  176 (213)
T ss_dssp             SCEECCCEEEECCSSCHHHHHHHHTTSCEEEEECCCSHHHHTCCSSEECCSC-CSCCCEEEEEEEEET----TEEEEECS
T ss_pred             CceEEeccEEEeCCchHHHHHHHHHhCCEEEEEEechhhhhhccCCeEcCCC-CCccCceEEEEecCC----CeEEEECC
Confidence            34567889999987654  78888999999999998 789999999998855 445699999999997    69999999


Q ss_pred             CCCCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      ||+.||++|||||+|+.    |.|||+..+.+++
T Consensus       177 WG~~WGe~Gy~~i~r~~~~~~~~Cgi~~~~~~p~  210 (213)
T 3ioq_A          177 WGTGWGEGGYIRIKRGSGNPQGACGVLSDSVFPT  210 (213)
T ss_dssp             BCTTSTBTTEEEEESSCSSTTCGGGTTSCCEEEE
T ss_pred             CCCCcccCCeEEEEcCCCCCCCcccccCcceEeE
Confidence            99999999999999987    8999998887765

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

Probab=99.92  E-value=7.4e-26  Score=209.44  Aligned_cols=105  Identities=21%  Similarity=0.451  Sum_probs=89.3

Q ss_pred             ceeeeee---EEcCchHH---HHHHHH---cCCeEEEEeecccccccccccccc-CCCCCc-cceEEEEeeecccCCccE
Q psy1911          62 SHYFKKA---HMVPRCNA---MRQIYE---HGPLVAIFSVYADFLQYKSGVYQH-NFGDSI-GLHAVRVLGWGVENDIPY  130 (342)
Q Consensus        62 ~~~i~~~---~~v~~~~~---~~~i~~---~GPV~v~i~v~~~f~~y~~Gi~~~-~~~~~~-~~Hav~ivGyg~~~g~~y  130 (342)
                      ..++.+|   +.|+..++   +++|++   +|||+++|++ ++|++|++|||.. .|.... ++|||+|||||+++|.+|
T Consensus       105 ~~~i~~y~~~~~v~~~~~~~ik~~l~~~~~~GPV~v~i~~-~~f~~Y~~Giy~~~~c~~~~~~~HaV~iVGyg~~~g~~y  183 (246)
T 2b1m_A          105 KVTIDNYGVQILSNESTESEAESSLQSFVLEQPISVSIDA-KDFHFYSGGIYDGGNCSSPYGINHFVLIVGYGSEDGVDY  183 (246)
T ss_dssp             CBCCSEEEEEECCTTSCHHHHHHHHHHHHHHSCEEEEECC-TTGGGCCSSEECCTTCCSSCCCCEEEEEEEEEEETTEEE
T ss_pred             ceeEcCcceeeecCCChHHHHHHHHHhhccCCCEEEEEEc-chhhcccceeecCCCCCCCCcCceEEEEEEEeccCCceE
Confidence            3567778   88875332   566777   5999999999 8999999999987 454443 799999999999889999


Q ss_pred             EEEecCCCCCCCCCCceeeecCC----cchhhccccccccc
Q psy1911         131 WLVANSWNDHWGDHGTFKILRGE----NEADIEMGFNNRVE  167 (342)
Q Consensus       131 wiikNSWG~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v~  167 (342)
                      ||||||||+.||++|||||+|+.    |.|||+..+.+++.
T Consensus       184 WivkNSWG~~WGe~Gy~~i~~~~~~~~n~CgI~~~~~~p~~  224 (246)
T 2b1m_A          184 WIAKNSWGEDWGIDGYIRIQRNTGNLLGVCGMNYFASYPII  224 (246)
T ss_dssp             EEEECSBCTTSTBTTEEEEECCSSCTTCGGGTTSEEEEEEC
T ss_pred             EEEEeCCCCcccCCcEEEEEcCCCCCCccccccceeeEEEe
Confidence            99999999999999999999997    89999988877654

>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=99.92  E-value=1.1e-25  Score=205.00  Aligned_cols=106  Identities=22%  Similarity=0.371  Sum_probs=90.0

Q ss_pred             cceeeeeeEEcCchHH---HHHHHH-cCCeEEEEee--cccccccccccccc-CCCCCccceEEEEeeecccCCccEEEE
Q psy1911          61 LSHYFKKAHMVPRCNA---MRQIYE-HGPLVAIFSV--YADFLQYKSGVYQH-NFGDSIGLHAVRVLGWGVENDIPYWLV  133 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~---~~~i~~-~GPV~v~i~v--~~~f~~y~~Gi~~~-~~~~~~~~Hav~ivGyg~~~g~~ywii  133 (342)
                      ...++.+|..|+..++   +++|++ +|||+|+|++  .++|++|++|||.. .++...++|||+|||||++++.+||||
T Consensus       109 ~~~~i~~~~~v~~~~~~~ik~~l~~~~gpV~v~~~~~~~~~f~~Y~~gi~~~~~~~~~~~~HaV~iVGyg~~~g~~ywiv  188 (222)
T 3f5v_A          109 QRFGISNYCQIYPPNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNAQGVDYWIV  188 (222)
T ss_dssp             CEECCSEEEECCSCCHHHHHHHHHHHCCCEEEEEEESCHHHHHTCCSSSCBCCCCSSSCEEEEEEEEEEEEETTEEEEEE
T ss_pred             cceeeccEEEeCCCCHHHHHHHHHhcCCCEEEEEEeccchhhhccCCCceecCCCCCCccCcEEEEEEEeccCCCEEEEE
Confidence            4567888999954333   677888 8999999998  46899999998754 344566899999999999999999999


Q ss_pred             ecCCCCCCCCCCceeeecCCcchhhcccccccc
Q psy1911         134 ANSWNDHWGDHGTFKILRGENEADIEMGFNNRV  166 (342)
Q Consensus       134 kNSWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v  166 (342)
                      |||||+.||++|||||+|+.|.|||+..+.+++
T Consensus       189 kNSWG~~WGe~Gy~~i~r~~n~cgi~~~~~~p~  221 (222)
T 3f5v_A          189 RNSWDTNWGDNGYGYFAANIDLMMIEEYPYVVI  221 (222)
T ss_dssp             ECSBCTTSTBTTEEEEECSSCGGGTTTSCEEEE
T ss_pred             EcCCCCCcccCCEEEEEcCCCeecCCCceeEEe
Confidence            999999999999999999999999988877653

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

Probab=99.92  E-value=1e-25  Score=210.30  Aligned_cols=106  Identities=25%  Similarity=0.503  Sum_probs=88.8

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeeccc-CCccEEEEecCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVE-NDIPYWLVANSW  137 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~-~g~~ywiikNSW  137 (342)
                      ...+.+|..|+..++  +++++.+|||+++|+++ ++|++|.+|||..+|... ++|+|+|||||++ +|.+||||||||
T Consensus       112 ~~~i~~y~~v~~~~e~~ik~al~~GPV~v~i~~~~~~f~~Y~sGVy~~~c~~~-~~HaV~IVGyg~~~~G~~YWivkNSW  190 (262)
T 2fo5_A          112 VVHIDGHQDVPANSEEDLARAVANQPVSVAVEASGKAFMFYSEGVFTGECGTE-LDHGVAVVGYGVAEDGKAYWTVKNSW  190 (262)
T ss_dssp             EECCCEEEECCTTCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCCCCCC-CCEEEEEEEEEECTTSCEEEEEECSB
T ss_pred             eEEeceEEEcCCchHHHHHHHHHhCCEEEEEecChHHHhccCCceECCCCCCc-CCEEEEEEEEcccCCCceEEEEEeCC
Confidence            467888999986443  55555559999999998 689999999998766554 6999999999987 588999999999


Q ss_pred             CCCCCCCCceeeecCC----cchhhcccccccccc
Q psy1911         138 NDHWGDHGTFKILRGE----NEADIEMGFNNRVEA  168 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v~~  168 (342)
                      |+.||++|||||+|+.    |.|||+..+.+++..
T Consensus       191 G~~WGe~GY~ri~r~~n~~~~~CgI~~~~~~p~~~  225 (262)
T 2fo5_A          191 GPSWGEQGYIRVEKDSGASGGLCGIAMEASYPVKT  225 (262)
T ss_dssp             CTTSTBTTEEEEESSCSCTTCGGGTTTSCEEEECC
T ss_pred             CCCCCCCeEEEEEcCCCCCCCccceeeeeeEEEec
Confidence            9999999999999986    459998888777643

>3pdf_A Cathepsin C, dipeptidyl peptidase 1; two domains, cystein protease, hydrolase-hydrolase inhibitor; HET: LXV NAG; 1.85A {Homo sapiens} PDB: 1jqp_A* 2djf_B* 1k3b_B* 2djg_B* 2djf_A* 1k3b_A* 2djg_A* 2djf_C* 1k3b_C* 2djg_C*

Probab=99.92  E-value=3e-25  Score=220.69  Aligned_cols=108  Identities=36%  Similarity=0.704  Sum_probs=91.1

Q ss_pred             ceeeeeeEEcCc-----hHH--HHHHHHcCCeEEEEeeccccccccccccccCCCC------CccceEEEEeeeccc--C
Q psy1911          62 SHYFKKAHMVPR-----CNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGD------SIGLHAVRVLGWGVE--N  126 (342)
Q Consensus        62 ~~~i~~~~~v~~-----~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~------~~~~Hav~ivGyg~~--~  126 (342)
                      ..++.+|..|+.     ++.  +++|+++|||+|+|+++++|++|++|||..+.+.      ..++|||+|||||++  +
T Consensus       315 ~~~~~~y~~v~~~~~~~~e~~ik~al~~~GPVsvai~a~~~F~~Y~sGVy~~~~~~~~~~~~~~~~HaV~iVGyG~~~~~  394 (441)
T 3pdf_A          315 RYYSSEYHYVGGFYGGCNEALMKLELVHHGPMAVAFEVYDDFLHYKKGIYHHTGLRDPFNPFELTNHAVLLVGYGTDSAS  394 (441)
T ss_dssp             CBCEEEEEETTSSTTCCCHHHHHHHHHHHCCEEEEECCCGGGGGCCSSEECCC---CCCCCCCCCCEEEEEEEEEECTTT
T ss_pred             eeeeccEEEeCCccCCCcHHHHHHHHHHCCCeEEEEEecccccccCCceEecCCCCcccCCCCcCCeEEEEEEecccCCC
Confidence            456778888852     332  7889999999999999999999999999866532      247999999999975  6


Q ss_pred             CccEEEEecCCCCCCCCCCceeeecCCcchhhccccccccccC
Q psy1911         127 DIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRVEAN  169 (342)
Q Consensus       127 g~~ywiikNSWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v~~~  169 (342)
                      |.+||||+||||+.||++|||||+|+.|.|||+..+.++++..
T Consensus       395 G~~YWIVkNSWG~~WGe~GYfri~rg~n~CGI~s~~~a~~P~~  437 (441)
T 3pdf_A          395 GMDYWIVKNSWGTGWGENGYFRIRRGTDECAIESIAVAATPIP  437 (441)
T ss_dssp             CCEEEEEECSBCTTSTBTTEEEEECSSCGGGTTSCCEEEEECC
T ss_pred             CceEEEEEcCCCCCcCCCeEEEEEcCCCccCCCCceEEeeccC
Confidence            8899999999999999999999999999999999988876553

>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=99.92  E-value=2.9e-25  Score=201.00  Aligned_cols=100  Identities=25%  Similarity=0.463  Sum_probs=84.9

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeecc-ccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYA-DFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~-~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ..++.+|..|+..++  +++++.+|||+++|+++. +|++|++|||..++.. .++|||+|||||+    +|||||||||
T Consensus       104 ~~~i~~~~~v~~~~~~~i~~~l~~GPV~v~i~~~~~~f~~Y~~Gvy~~~~~~-~~~HaV~iVGyg~----~yWivkNSWG  178 (212)
T 2cio_A          104 AAKTDGVRQVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGN-KVDHAVAAVGYGP----NYILIKNSWG  178 (212)
T ss_dssp             SBCCSEEEECCSSCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCCCCS-CCCEEEEEEEEET----TEEEEECSBC
T ss_pred             eEEEeeEEEeCCccHHHHHHHHHhCCEEEEEeccCcchhhcCCceecCCCCC-CCCEEEEEEEecC----CeEEEEeCCC
Confidence            467888999986433  555555699999999985 8999999999876655 4699999999998    6999999999


Q ss_pred             CCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.    |.|||+..+.+++
T Consensus       179 ~~WGe~Gy~~i~~~~~~~~~~Cgi~~~~~~p~  210 (212)
T 2cio_A          179 TGWGENGYIRIKRGTGNSYGVCGLYTSSFYPV  210 (212)
T ss_dssp             TTSTBTTEEEEECSSSCTTCGGGTTSCCEEEE
T ss_pred             CCcccCcEEEEEcCCCCCCCccCcccceeEEE
Confidence            999999999999986    8999988876654

>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=99.92  E-value=1.8e-25  Score=203.62  Aligned_cols=103  Identities=20%  Similarity=0.426  Sum_probs=87.5

Q ss_pred             eeeeeeEEcCchHH--HHHHHHcCCeEEEEeecc-ccccccccccccCCCCCccceEEEEeeeccc--CCccEEEEecCC
Q psy1911          63 HYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYA-DFLQYKSGVYQHNFGDSIGLHAVRVLGWGVE--NDIPYWLVANSW  137 (342)
Q Consensus        63 ~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~-~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~--~g~~ywiikNSW  137 (342)
                      ..+.+|..|+..++  +++++.+|||+++|+++. +|++|.+|||.+.+ ...++|||+|||||++  ++.+||||+|||
T Consensus       113 ~~i~~~~~~~~~~~~~l~~~l~~gPV~v~i~~~~~~f~~y~~Giy~~~~-~~~~~Hav~iVGyg~~~~~g~~ywivkNSW  191 (224)
T 3f75_A          113 VKILGFKDVPRRSEAAMKAALAKSPVSIAIEADQMPFQFYHEGVFDASC-GTDLDHGVLLVGYGTDKESKKDFWIMKNSW  191 (224)
T ss_dssp             BCCSEEEECCSSCHHHHHHHHHHSCEEEEECCCSHHHHTEEEEEECCCC-CCCCCEEEEEEEEEEETTTTEEEEEEECSB
T ss_pred             EEeccEEEeCCChHHHHHHHHcCCCEEEEEeccchhhhcCccceECCCC-CCccCeEEEEEEEecccCCCCCEEEEECCc
Confidence            45788999975443  544444999999999985 89999999998544 4567999999999987  788999999999


Q ss_pred             CCCCCCCCceeeecCC---cchhhcccccccc
Q psy1911         138 NDHWGDHGTFKILRGE---NEADIEMGFNNRV  166 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~---~~~gi~~~~~~~v  166 (342)
                      |+.||++|||||+|+.   |.|||+..+.+++
T Consensus       192 G~~WG~~Gy~~i~~~~~~~~~cgi~~~~~~p~  223 (224)
T 3f75_A          192 GTGWGRDGYMYMAMHKGEEGQCGLLLDASFPV  223 (224)
T ss_dssp             CTTSTBTTEEEEESCSCTTCGGGTTSSCEEEE
T ss_pred             CcchhhCCEEEEEcCCCCCCcCcccCceeeee
Confidence            9999999999999998   9999998887654

>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=99.92  E-value=1.3e-25  Score=207.09  Aligned_cols=103  Identities=26%  Similarity=0.491  Sum_probs=87.9

Q ss_pred             cceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccC----------Cc
Q psy1911          61 LSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEN----------DI  128 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~----------g~  128 (342)
                      ..+++.+|+.|+..++  +++++  |||+++|+++++|++|.+|||...|... ++|||+|||||++.          +.
T Consensus       121 ~~~~i~~~~~v~~~~~~~ik~~l--GPV~v~i~~~~~f~~Y~~Giy~~~c~~~-~~HaV~iVGyg~~~~~~~~~~~~~g~  197 (241)
T 2oul_A          121 EKYGIKNYLSVPDNKLKEALRFL--GPISISVAVSDDFAFYKEGIFDGECGDQ-LNHAVMLVGFGMKEIVNPLTKKGEKH  197 (241)
T ss_dssp             CCBCCSEEEECCTTCHHHHHHHT--CCEEEEECBCHHHHTCCSSBCCSCBCSS-CCEEEEEEEEEEEEEECTTTCSEEEE
T ss_pred             cceeeeeEEEeCCCCHHHHHHhh--CCEEEEEecCcchhhcCCcEEcCcCCCC-CCEEEEEEEeccccccccccccCCCC
Confidence            3577889999987443  44444  9999999998899999999998766554 79999999999875          78


Q ss_pred             cEEEEecCCCCCCCCCCceeeecCCcc----hhhcccccccc
Q psy1911         129 PYWLVANSWNDHWGDHGTFKILRGENE----ADIEMGFNNRV  166 (342)
Q Consensus       129 ~ywiikNSWG~~WG~~Gy~~i~~~~~~----~gi~~~~~~~v  166 (342)
                      +|||||||||+.||++|||||+|+.|.    |||+..+.+++
T Consensus       198 ~yWivkNSWG~~WGe~Gy~~i~~~~~~~~g~Cgi~~~~~~~~  239 (241)
T 2oul_A          198 YYYIIKNSWGQQWGERGFINIETDESGLMRKCGLGTDAFIPL  239 (241)
T ss_dssp             EEEEEECSBCTTSTBTTEEEEEECSSSCCCGGGTTSSEEEEE
T ss_pred             CEEEEEeCCCCCcccCCEEEEEcCCCCCCCcCCccceEEEEe
Confidence            999999999999999999999999876    99988887664

>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=99.92  E-value=3.2e-25  Score=200.22  Aligned_cols=100  Identities=27%  Similarity=0.496  Sum_probs=85.1

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeecc-ccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYA-DFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~-~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ..++.+|..|+..++  +++++.+|||+++|+++. +|++|++|||..++.. .++|+|+|||||+    +|||||||||
T Consensus       102 ~~~i~~~~~v~~~~~~~i~~~l~~GPV~v~i~~~~~~f~~Y~~Gvy~~~c~~-~~~HaV~iVGyg~----~yWivkNSWG  176 (208)
T 1o0e_A          102 VVSIDGYNGVPFCNEXALKQAVAVQPSTVAIDASSAQFQQYSSGIFSGPCGT-KLNHGVTIVGYQA----NYWIVRNSWG  176 (208)
T ss_dssp             CBCCCEEEECCTTCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCCCCS-CCCEEEEEEEECS----SEEEEECSBC
T ss_pred             eEEeCeEEEeCCCCHHHHHHHHHhCCEEEEEEccCcccccccCceECCCCCC-cCCEEEEEEEeCC----CeEEEEcCCC
Confidence            467888999986443  555555699999999985 8999999999877654 4699999999998    6999999999


Q ss_pred             CCCCCCCceeeecCC--cchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGE--NEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~--~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.  |.|||+..+.+++
T Consensus       177 ~~WGe~Gy~~i~~~~~~~~Cgi~~~~~~p~  206 (208)
T 1o0e_A          177 RYWGEKGYIRMLRVGGCGLCGIARLPYYPT  206 (208)
T ss_dssp             TTSTBTTEEEEECCSTTCGGGTTSSCEEEE
T ss_pred             CcccCCcEEEEEcCCCCCcCCCcccceeee
Confidence            999999999999996  8999988877664

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

Probab=99.91  E-value=1.7e-25  Score=206.58  Aligned_cols=103  Identities=24%  Similarity=0.486  Sum_probs=87.6

Q ss_pred             cceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccC----------Cc
Q psy1911          61 LSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVEN----------DI  128 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~----------g~  128 (342)
                      ..+++.+|+.|+..++  +++++  |||+++|+++++|++|.+|||...|... ++|||+|||||++.          +.
T Consensus       123 ~~~~i~~~~~v~~~~~~~ik~~l--GPV~v~i~~~~~f~~Y~~Giy~~~c~~~-~~HaV~iVGyg~~~~~~~~~~~~~g~  199 (243)
T 3bwk_A          123 ERYTIKSYVSIPDDKFKEALRYL--GPISISIAASDDFAFYRGGFYDGECGAA-PNHAVILVGYGMKDIYNEDTGRMEKF  199 (243)
T ss_dssp             SCBCCCEEEECCTTCHHHHHHHT--CCEEEEECCCHHHHTCCSSSCCCCCCSS-CCEEEEEEEEEEEEEECTTTCSEEEE
T ss_pred             cceeeeeEEEeCCCCHHHHHHhh--CCEEEEEecChhHHhcCCceecCCCCCc-CCeEEEEEEecCccccccccccCCCC
Confidence            3467889999986443  44444  9999999998899999999998755554 79999999999875          78


Q ss_pred             cEEEEecCCCCCCCCCCceeeecCCcc----hhhcccccccc
Q psy1911         129 PYWLVANSWNDHWGDHGTFKILRGENE----ADIEMGFNNRV  166 (342)
Q Consensus       129 ~ywiikNSWG~~WG~~Gy~~i~~~~~~----~gi~~~~~~~v  166 (342)
                      +|||||||||+.||++|||||+|+.|.    |||+..+.+++
T Consensus       200 ~yWivkNSWG~~WGe~Gy~~i~~~~~~~~g~Cgi~~~~~~~~  241 (243)
T 3bwk_A          200 YYYIIKNSWGSDWGEGGYINLETDENGYKKTCSIGTEAYVPL  241 (243)
T ss_dssp             EEEEEECSBCTTSTBTTEEEEEECSSSCCCSTTTTSSEEEEE
T ss_pred             CEEEEEeCCCCCcCCCcEEEEEcCCCCCCCcCCccceEEEEe
Confidence            999999999999999999999999876    99988887664

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

Probab=99.91  E-value=5.8e-25  Score=199.36  Aligned_cols=100  Identities=26%  Similarity=0.504  Sum_probs=85.3

Q ss_pred             cceeeeeeEEcCchHH---HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecC
Q psy1911          61 LSHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ...++.+|..|+..++   +++|+ +|||+++|+++ ++|++|++|||..++.. .++|||+|||||+    +|||||||
T Consensus       103 ~~~~i~~y~~v~~~~~~~i~~~l~-~gPV~v~i~~~~~~f~~Y~~Giy~~~~~~-~~~HaV~iVGyg~----~yWivkNS  176 (214)
T 2bdz_A          103 PKVYITGYKYVPANDEISLIQAIA-NQPVSVVTDSRGRGFQFYKGGIYEGPCGT-NTDHAVTAVGYGK----TYLLLKNS  176 (214)
T ss_dssp             CEECCCEEEEECSSBHHHHHHHHH-HSCEEEEECCCSHHHHTCCSSEECCSCCS-CCCEEEEEEEECS----SEEEEECS
T ss_pred             ceeeecCEEEeCCCcHHHHHHHHH-hCCEEEEEeeChhHhhcccCceecCCCCC-CCCeEEEEEEcCC----CeEEEEeC
Confidence            3567888988876443   55565 49999999998 68999999999887654 4799999999998    69999999


Q ss_pred             CCCCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      ||+.||++|||||+|+.    |.|||+..+.+++
T Consensus       177 WG~~WGe~Gy~~i~~~~~~~~~~Cgi~~~~~~p~  210 (214)
T 2bdz_A          177 WGPNWGEKGYIRIKRASGRSKGTCGVYTSSFFPI  210 (214)
T ss_dssp             BCTTSTBTTEEEEECCCSBSSCGGGTTSCEEEEE
T ss_pred             CCCCcccCCEEEEEcCCCCCCCcccccccceEEE
Confidence            99999999999999986    8899988887664

>3tnx_A Papain; hydrolase, cytoplasm for recombinant expression; 2.62A {Carica papaya}

Probab=99.90  E-value=2e-24  Score=209.77  Aligned_cols=102  Identities=25%  Similarity=0.488  Sum_probs=86.5

Q ss_pred             ccceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecC
Q psy1911          60 PLSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        60 ~~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      +....+..+..++..++  +++++.+|||+|+|++. .+|++|++|||..+++.. ++|||+|||||++    |||||||
T Consensus       253 ~~~~~~~~~~~~~~~~e~~l~~~v~~gPvsvai~a~~~~F~~Y~sGVy~~~~~~~-lnHaV~iVGyG~~----YWIVKNS  327 (363)
T 3tnx_A          253 PYAAKTDGVRQVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNK-VDHAVAAVGYGPN----YILIRNS  327 (363)
T ss_dssp             SCSBCCCEEEEECSSCHHHHHHHHTTSCEEEEECCCSHHHHTEEEEEECCCCCSC-CCEEEEEEEEETT----EEEEECS
T ss_pred             CceeeccceEEcchhhHHHHHHHHHcCCcEEEEEecchhhhCCCCCEECCCCCCC-CCeEEEEEEcCCC----cEEEEeC
Confidence            34455667777776665  77888899999999864 789999999998877654 6999999999864    9999999


Q ss_pred             CCCCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      ||+.||++|||||.|+.    |.|||.+.+.+|+
T Consensus       328 WGt~WGe~GY~rI~Rg~~~~~~~CGI~~~a~yPi  361 (363)
T 3tnx_A          328 WGTGWGENGYIRIKRGTGNSYGVCGLYTSSFYPV  361 (363)
T ss_dssp             BCTTSTBTTEEEEECCSCCSSCGGGTTSCEEEEE
T ss_pred             CCCccccCcEEEEEcCCCCCCCcCCccceeeecc
Confidence            99999999999999986    4599999988876

>2wbf_X Serine-repeat antigen protein; SERA, malaria, vacuole, protease, cathepsin, hydrolase, glycoprotein, thiol protease; HET: DMS; 1.60A {Plasmodium falciparum} PDB: 3ch3_X 3ch2_X

Probab=99.89  E-value=1.3e-23  Score=195.99  Aligned_cols=91  Identities=21%  Similarity=0.399  Sum_probs=76.3

Q ss_pred             cccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCc-hhhHHH
Q psy1911         189 RNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGW-PQLAWR  265 (342)
Q Consensus       189 ~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~-~~~a~~  265 (342)
                      ...|||+. ++|..|+|||||+.||||||||++++||++++|+++  ..+.||+|+||||+..  ..||+||+ +..++.
T Consensus         9 ~~~dWR~~-~~~~~it~VkdQg~CGSCWAFaa~~alE~~~~i~~~--~~~~LS~Q~lvdC~~~~~~~GC~GG~~~~~~~~   85 (265)
T 2wbf_X            9 YCNRLKDE-NNCISNLQVEDQGNCDTSWIFASKYHLETIRCMKGY--EPTKISALYVANCYKGEHKDRCDEGSSPMEFLQ   85 (265)
T ss_dssp             CBCGGGCT-TSTGGGSCCCBCTTSSCHHHHHHHHHHHHHHHHTTC--CCCCBCHHHHHHCCSSSCCCTTTCCCCHHHHHH
T ss_pred             HHHhhccC-CCCCCCCCCcCCCCChhHHHHHHHHHHHHHHHHhcC--CCCCcCHHHHHHhhcccCCCCCCCCCCHHHHHH
Confidence            45799997 778667799999999999999999999999999866  5689999999999864  45999996 445568


Q ss_pred             Hhhhcc-cccCCCCCCCCCcccCCC
Q psy1911         266 FWGHNG-VVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       266 y~~~~G-i~~e~~Y~~~~~C~PY~~  289 (342)
                      |+.++| |++|.+|       ||++
T Consensus        86 ~i~~~Ggi~~e~~y-------PY~~  103 (265)
T 2wbf_X           86 IIEDYGFLPAESNY-------PYNY  103 (265)
T ss_dssp             HHHHHCCCCBTTTS-------CCCG
T ss_pred             HHHHcCCCCCcccc-------CCcC
Confidence            888887 8885555       9975

>2wbf_X Serine-repeat antigen protein; SERA, malaria, vacuole, protease, cathepsin, hydrolase, glycoprotein, thiol protease; HET: DMS; 1.60A {Plasmodium falciparum} PDB: 3ch3_X 3ch2_X

Probab=99.88  E-value=5.5e-23  Score=191.76  Aligned_cols=102  Identities=25%  Similarity=0.462  Sum_probs=79.5

Q ss_pred             eeeeeeEEcCch----------HH-HHHHHHcCCeEEEEeecccccccc-cccc-ccCCCCCccceEEEEeeeccc---C
Q psy1911          63 HYFKKAHMVPRC----------NA-MRQIYEHGPLVAIFSVYADFLQYK-SGVY-QHNFGDSIGLHAVRVLGWGVE---N  126 (342)
Q Consensus        63 ~~i~~~~~v~~~----------~~-~~~i~~~GPV~v~i~v~~~f~~y~-~Gi~-~~~~~~~~~~Hav~ivGyg~~---~  126 (342)
                      .++.+|..++..          +. +++|+++|||+++|++. +|+.|. +|++ ...|....++|||+|||||++   +
T Consensus       136 ~~~~~y~~~~~~~~~~~~~~~~~~ik~~i~~~GPV~v~i~~~-~f~~y~~~g~~~~~~c~~~~~~HaV~iVGyG~~~~~~  214 (265)
T 2wbf_X          136 LDGKGYTAYESERFHDNMDAFVKIIKTEVMNKGSVIAYIKAE-NVMGYEFSGKKVKNLCGDDTADHAVNIVGYGNYVNSE  214 (265)
T ss_dssp             TCCSSEEEEEGGGGTTCHHHHHHHHHHHHHHHSCEEEEECGG-GGCSGGGGSSSEECCCCCSCCCEEEEEEEEEEEECTT
T ss_pred             eecCCceEeeccccccchhhHHHHHHHHHHhcCCEEEEEEcc-cccccccCCcEEcCCCCCCcCCEEEEEEEEeCCcccC
Confidence            456677777541          22 77899999999999985 587775 5554 334555568999999999984   5


Q ss_pred             C--ccEEEEecCCCCCCCCCCceeeec-CCcchhhccccccc
Q psy1911         127 D--IPYWLVANSWNDHWGDHGTFKILR-GENEADIEMGFNNR  165 (342)
Q Consensus       127 g--~~ywiikNSWG~~WG~~Gy~~i~~-~~~~~gi~~~~~~~  165 (342)
                      |  .+|||||||||+.||++|||||++ +.|.|||+.....+
T Consensus       215 g~~~~YWivkNSWG~~WGe~GY~ri~~~g~n~Cgi~~~~~~~  256 (265)
T 2wbf_X          215 GEKKSYWIVRNSWGPYWGDEGYFKVDMYGPTHCHFNFIHSVV  256 (265)
T ss_dssp             SCEEEEEEEECSBCTTSTBTTEEEEESSCCTTCSSCSCCEEE
T ss_pred             CCcCCEEEEEcCCCCccCCCCEEEEEecCCCccCcceeEEEE
Confidence            5  589999999999999999999986 56899987766554

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

Probab=99.85  E-value=4.6e-22  Score=188.19  Aligned_cols=89  Identities=19%  Similarity=0.200  Sum_probs=76.5

Q ss_pred             CCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHH--hhCC---CC-CCCCCC
Q psy1911         185 KGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV--ACTP---NC-WGCNGG  258 (342)
Q Consensus       185 ~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~ll--dC~~---~~-~GC~GG  258 (342)
                      .+||++||||+.   |    ||+|||.||||||||++++||+++++ ++  ..+.||+|+|+  +|..   .+ ++|+||
T Consensus        55 ~~lP~s~DwR~~---~----pVkdQG~CGSCWAFAa~~alE~~~~~-~g--~~~~lS~q~l~~~~c~~~~~~~~~~c~GG  124 (291)
T 3ois_A           55 AALPPKVDLTPP---F----QVYDQGRIGSCTANALAAAIQFERIH-DK--QSPEFIPSRLFIYYNERKIEGHVNYDSGA  124 (291)
T ss_dssp             HTCCSEEECCCS---S----CCCBCTTSSCHHHHHHHHHHHHHHHH-TT--CSSCCCBCHHHHHHHHHHHSSCTTSCCCE
T ss_pred             ccCCcceecccC---C----CcccCCCCccHHHHHHHHHHHHHHHH-hC--CCCCcCcCHHHHHhhhhhhhcCCCCCCCc
Confidence            479999999997   2    99999999999999999999999875 34  35689999999  6752   23 368999


Q ss_pred             chhhHHHHhhhcccccCCCCCCCCCcccCCCC
Q psy1911         259 WPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLA  290 (342)
Q Consensus       259 ~~~~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~~  290 (342)
                      ++..||+||.++||++|.+|       ||...
T Consensus       125 ~~~~A~~yi~~~Gi~~e~~y-------PY~~~  149 (291)
T 3ois_A          125 MIRDGIKVLHKLGVCPEKEW-------PYGDT  149 (291)
T ss_dssp             EHHHHHHHHHHTCCCBGGGS-------CCCCC
T ss_pred             CHHHHHHHHHHhCCCCHhhC-------CCCCC
Confidence            99999999999999998777       99864

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

Probab=99.85  E-value=1.1e-21  Score=185.53  Aligned_cols=89  Identities=22%  Similarity=0.267  Sum_probs=77.1

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccc--cccccCCCC--CccceEEEEeeecccCCccEEEEec
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKS--GVYQHNFGD--SIGLHAVRVLGWGVENDIPYWLVAN  135 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~--Gi~~~~~~~--~~~~Hav~ivGyg~~~g~~ywiikN  135 (342)
                      .+++.+|++|+.++.  +++|+++|||+++|+++++|+.|.+  |||..+.+.  ..++|||+|||||+  +.+||||+|
T Consensus       178 ~~~i~~y~~v~~~e~~i~~al~~~gPV~v~~~~~~~f~~y~~~~Gi~~~~~~~~~~~~~Hav~iVGy~~--~~~ywivkN  255 (291)
T 3ois_A          178 NYKITEYSRVAQDIDHLKACLAVGSPFVFGFSVYNSWVGNNSLPVRIPLPTKNDTLEGGHAVLCVGYDD--EIRHFRIRN  255 (291)
T ss_dssp             GGCCCEEEECCSCHHHHHHHHHTTCCEEEEEEEEHHHHGGGCCCSBCCCCCTTSCEEEEEEEEEEEEET--TTTEEEEEC
T ss_pred             cceeccEEEcCcCHHHHHHHHHcCCCEEEEEEeccchhhcCCCCeEEeCCCCCCCCcCCeEEEEEEEeC--CCCEEEEEe
Confidence            467889999986544  6789899999999999999999998  999876543  24699999999984  578999999


Q ss_pred             CCCCCCCCCCceeeecC
Q psy1911         136 SWNDHWGDHGTFKILRG  152 (342)
Q Consensus       136 SWG~~WG~~Gy~~i~~~  152 (342)
                      |||+.||++|||||+++
T Consensus       256 SWG~~WG~~Gy~~i~~~  272 (291)
T 3ois_A          256 SWGNNVGEDGYFWMPYE  272 (291)
T ss_dssp             SBCTTSTBTTEEEEEHH
T ss_pred             CCCCCCCCCcEEEEEHH
Confidence            99999999999999986

>3pw3_A Aminopeptidase C; bleomycin, cysteine proteinase fold, structural genomics, JO center for structural genomics, JCSG; HET: MSE; 2.23A {Parabacteroides distasonis}

Probab=99.72  E-value=1.7e-18  Score=168.52  Aligned_cols=75  Identities=19%  Similarity=0.172  Sum_probs=68.7

Q ss_pred             CcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCC------------CCCCCCCCchhhHHHHhhhc
Q psy1911         203 LRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTP------------NCWGCNGGWPQLAWRFWGHN  270 (342)
Q Consensus       203 i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~------------~~~GC~GG~~~~a~~y~~~~  270 (342)
                      ++||+||+.||||||||++++||++++++++  ..+.||+|+|++|+.            .+.||+||+...|+.||.++
T Consensus        22 vtpVknQg~cGsCWaFSa~~~lE~~~~~k~~--~~~~LSeq~Lvdcd~~ekan~~l~~~g~~~gcdGG~~~~a~~~i~k~   99 (383)
T 3pw3_A           22 ITSVKNQNRAGTCWCYSSYSFLESELLRMGK--GEYDLSEMFTVYNTYLDRADAAVRTHGDVSFSQGGSFYDALYGMETF   99 (383)
T ss_dssp             CCCCCBCCBSSCHHHHHHHHHHHHHHHHTTC--CCCCBCHHHHHHHHHHHHHHHHHHTTTCSCCCSCCCHHHHHHHHHHT
T ss_pred             CCCcccCCCCcHHHHHHhHHHHHHHHHHHcC--CCCccChHHHHhhchhhhhhhhhhhccCCCCCCCCCHHHHHHHHHHc
Confidence            7999999999999999999999999999876  578999999999973            13599999999999999999


Q ss_pred             ccccCCCCC
Q psy1911         271 GVVTGGDYN  279 (342)
Q Consensus       271 Gi~~e~~Y~  279 (342)
                      ||+++..||
T Consensus       100 Givpe~~YP  108 (383)
T 3pw3_A          100 GLVPEEEMR  108 (383)
T ss_dssp             CCCBGGGSC
T ss_pred             CcCcHHhCC
Confidence            999998884

>2e01_A Cysteine proteinase 1; bleomycin hydrolase, thiol protease, C1 protease, hydrolase; 1.73A {Saccharomyces cerevisiae} PDB: 2e02_A 2e03_A 2dzy_A 1a6r_A 2e00_A 2dzz_A 3gcb_A 1gcb_A

Probab=99.72  E-value=3.2e-18  Score=170.00  Aligned_cols=88  Identities=17%  Similarity=0.237  Sum_probs=65.2

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCH----------------HHHHhhC
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISA----------------QHIVACT  249 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~----------------Q~lldC~  249 (342)
                      ..|..|+++..    ..++||+||+.||||||||++++||++++++.++ ..+.||+                |+||+|.
T Consensus        52 ~~~~~F~~~~~----~~vtpVknQg~cGsCWaFs~~~~lE~~~~~~~~~-~~~~LSe~yl~~~dklEkan~flq~lvdc~  126 (457)
T 2e01_A           52 QDNRVFNTVVS----TDSTPVTNQKSSGRCWLFAATNQLRLNVLSELNL-KEFELSQAYLFFYDKLEKANYFLDQIVSSA  126 (457)
T ss_dssp             HCCCCCSEECC----------------CCHHHHHHHHHHHHHHHHHTTC-SSCCBCHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CCCCceEEEec----CCccCcccCCCCccchhHHhHHHHHHHHHHHhCC-CceeeCChhhhhhhHHHHHHHHHHHHHHhc
Confidence            45667887766    5689999999999999999999999999998333 5689999                7889997


Q ss_pred             C------------CCCCCCCCchhhHHHHhhhcccccCCCC
Q psy1911         250 P------------NCWGCNGGWPQLAWRFWGHNGVVTGGDY  278 (342)
Q Consensus       250 ~------------~~~GC~GG~~~~a~~y~~~~Gi~~e~~Y  278 (342)
                      .            .+.||+||+...|+.|+.+.||+++..|
T Consensus       127 ~~~~~~r~v~~l~~~~gcdGG~~~~a~~~i~kyGivpe~~y  167 (457)
T 2e01_A          127 DQDIDSRLVQYLLAAPTEDGGQYSMFLNLVKKYGLIPKDLY  167 (457)
T ss_dssp             TSCTTSHHHHHHHHCTTCSCBCHHHHHHHHHHHCCCBGGGS
T ss_pred             CCcccchhhhhhccCCCCCCCCHHHHHHHHHHcCccchhhc
Confidence            5            2459999999999999999999997777

>2e01_A Cysteine proteinase 1; bleomycin hydrolase, thiol protease, C1 protease, hydrolase; 1.73A {Saccharomyces cerevisiae} PDB: 2e02_A 2e03_A 2dzy_A 1a6r_A 2e00_A 2dzz_A 3gcb_A 1gcb_A

Probab=99.72  E-value=7.7e-18  Score=167.25  Aligned_cols=85  Identities=18%  Similarity=0.249  Sum_probs=72.2

Q ss_pred             eeEEcCchHH----HHHHHHcCCeEEEEeeccccccccccccccCC--------------------CCCccceEEEEeee
Q psy1911          67 KAHMVPRCNA----MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNF--------------------GDSIGLHAVRVLGW  122 (342)
Q Consensus        67 ~~~~v~~~~~----~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~--------------------~~~~~~Hav~ivGy  122 (342)
                      .|++|+.++.    +.+|.+.|||+++++|+. |++|++|||...+                    +....+|||+||||
T Consensus       302 ~y~Nvp~d~l~~~~~~aL~~g~PV~~~~Dv~~-~~~~~~GI~~~~~~~~~~fg~~~~m~KaeRl~~~~s~~~HAmlivGy  380 (457)
T 2e01_A          302 IYLNVDNETLSKLVVKRLQNNKAVFFGSHTPK-FMDKKTGVMDIELWNYPAIGYNLPQQKASRIRYHESLMTAAMLITGC  380 (457)
T ss_dssp             EEEECCHHHHHHHHHHHHHTTCCEEEEECTTT-TEETTTTEECTTSBCGGGGTCCCCCCHHHHHHTTSCCCCEEEEEEEE
T ss_pred             eEEEcCHHHHHHHHHHHHHhCCCEEEEEEcCH-hHcccCceecccccchhhcCcccccCHHHhhccCCCCCCeEEEEEEE
Confidence            3889998764    456788899999999975 8888999996554                    23457999999999


Q ss_pred             ccc-CCc--cEEEEecCCCCCCCCCCceeeecC
Q psy1911         123 GVE-NDI--PYWLVANSWNDHWGDHGTFKILRG  152 (342)
Q Consensus       123 g~~-~g~--~ywiikNSWG~~WG~~Gy~~i~~~  152 (342)
                      |.+ +|.  .||+|+||||+.||++|||+|+++
T Consensus       381 g~d~~G~~p~yW~VkNSWG~~wG~~GY~~ms~~  413 (457)
T 2e01_A          381 HVDETSKLPLRYRVENSWGKDSGKDGLYVMTQK  413 (457)
T ss_dssp             EECTTTCCEEEEEEECSSCTTSTBTTEEEEEHH
T ss_pred             EeccCCCccCEEEEEeCccCCcCCCceEEeehh
Confidence            975 777  899999999999999999999985

>2cb5_A Protein (bleomycin hydrolase); aminopeptidase, cysteine protease, SELF- compartmentalizing, cylinase; 1.85A {Homo sapiens} SCOP: d.3.1.1 PDB: 1cb5_A

Probab=99.71  E-value=5.9e-18  Score=167.87  Aligned_cols=92  Identities=16%  Similarity=0.151  Sum_probs=80.7

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCH----------------HHHHhhC
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISA----------------QHIVACT  249 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~----------------Q~lldC~  249 (342)
                      ..|..|+++..    ..++||+||+.||+|||||++++||+.++++.++ ..+.||+                |+||||+
T Consensus        47 ~~~~~F~~~~~----~~~tpVknQg~cGsCWaFs~~~~le~~~~~k~~~-~~~~lSe~yl~fwDKlEkan~flq~lidc~  121 (453)
T 2cb5_A           47 RAQHVFQHAVP----QEGKPITNQKSSGRSWIFSCLNVMRLPFMKKLNI-EEFEFSQSYLFFWDKVERCYFFLSAFVDTA  121 (453)
T ss_dssp             HCCCCCSEECS----CCCSSCCBCCBSSCHHHHHHHHHHHHHHHHHTTC-SCCCBCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCceeeeec----cCCCCcccCCCccchHhhhhHHHHHHHHHHHhcC-CeEeeChHHHHHHHHHHHhhHHHHHHHHHH
Confidence            45778888877    5689999999999999999999999999998543 5689999                9999997


Q ss_pred             CC--------------CCCCCCCchhhHHHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         250 PN--------------CWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       250 ~~--------------~~GC~GG~~~~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      ..              +.||+||....|+.|+.+.||+++..|       ||++
T Consensus       122 ~~~~~~d~R~v~~l~~~~gcdGG~~~~a~~~i~kyGl~p~~~y-------P~~~  168 (453)
T 2cb5_A          122 QRKEPEDGRLVQFLLMNPANDGGQWDMLVNIVEKYGVIPKKCF-------PESY  168 (453)
T ss_dssp             HTTCCTTSHHHHHHHHCTTCSCBCHHHHHHHHHHHCCCBGGGS-------CCCT
T ss_pred             hccCCcchhhHHHhcCCCCCCCCChHHHHHHHHHcCccchhhc-------cccc
Confidence            44              459999999999999999999997777       9985

>2cb5_A Protein (bleomycin hydrolase); aminopeptidase, cysteine protease, SELF- compartmentalizing, cylinase; 1.85A {Homo sapiens} SCOP: d.3.1.1 PDB: 1cb5_A

Probab=99.69  E-value=2.6e-17  Score=163.33  Aligned_cols=84  Identities=19%  Similarity=0.218  Sum_probs=70.0

Q ss_pred             eEEcCchHH----HHHHHHcCCeEEEEeeccccccccccccccCCC----------------------CCccceEEEEee
Q psy1911          68 AHMVPRCNA----MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFG----------------------DSIGLHAVRVLG  121 (342)
Q Consensus        68 ~~~v~~~~~----~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~----------------------~~~~~Hav~ivG  121 (342)
                      |++|+.++.    +.+|.+.|||+++++|+. +.++++|||...++                      ....+|||+|||
T Consensus       299 y~Nvp~~~l~~~~~~al~~g~PV~~~~Dv~~-~~~~k~GI~~~~~~~~~~~fg~~~~~m~KaeRl~~~~s~~~HAmlivG  377 (453)
T 2cb5_A          299 YNNQPIDFLKKMVAASIKDGEAVWFGCDVGK-HFNSKLGLSDMNLYDHELVFGVSLKNMNKAERLTFGESLMTHAMTFTA  377 (453)
T ss_dssp             EEECCHHHHHHHHHHHHHTTCCEEEEECTTT-TEETTTTEECTTSBCHHHHHSCCSCSSCHHHHHHTTSCCCCEEEEEEE
T ss_pred             ccccCHHHHHHHHHHHHHcCCCEEEEEEeCh-hhccCCcEEcCccccchhhcCccccccCHHHHhhccCCCCCeEEEEEE
Confidence            778888764    367788899999999976 45569999976543                      245799999999


Q ss_pred             ec--cc-CCc-cEEEEecCCCCCCCCCCceeeecC
Q psy1911         122 WG--VE-NDI-PYWLVANSWNDHWGDHGTFKILRG  152 (342)
Q Consensus       122 yg--~~-~g~-~ywiikNSWG~~WG~~Gy~~i~~~  152 (342)
                      ||  .+ +|. .||||+||||+.||++|||+|+++
T Consensus       378 yg~~~d~~G~~~yWiVkNSWG~~wG~~GY~~ms~~  412 (453)
T 2cb5_A          378 VSEKDDQDGAFTKWRVENSWGEDHGHKGYLCMTDE  412 (453)
T ss_dssp             EEECTTSCSCEEEEEEECSBCTTSTBTTEEEEEHH
T ss_pred             eccccccCCCccEEEEEcCcCCCcCcCceEEechh
Confidence            99  65 677 899999999999999999999975

>3pw3_A Aminopeptidase C; bleomycin, cysteine proteinase fold, structural genomics, JO center for structural genomics, JCSG; HET: MSE; 2.23A {Parabacteroides distasonis}

Probab=99.44  E-value=1.2e-13  Score=134.33  Aligned_cols=90  Identities=14%  Similarity=0.186  Sum_probs=67.9

Q ss_pred             ceeeeeeEEcCchHH---HHHHHHcC-CeEEEEeeccccccccccccccCC-----------------------------
Q psy1911          62 SHYFKKAHMVPRCNA---MRQIYEHG-PLVAIFSVYADFLQYKSGVYQHNF-----------------------------  108 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~---~~~i~~~G-PV~v~i~v~~~f~~y~~Gi~~~~~-----------------------------  108 (342)
                      ++....+++||-++.   +.+.+..| ||..+-+|.+.+.. ..||...+.                             
T Consensus       216 N~~~g~~~Nvp~d~l~~~~~~~Lk~G~~V~fg~DV~~~~f~-~~Gi~~~~~~~~~~~~~g~~~~~~~~~~kaer~~~~~~  294 (383)
T 3pw3_A          216 NWRHGMSYNLPLDEFMEVFDNAINTGYTIAWGSDVSESGFT-RDGVAVMPDDEKVQELSGSDMAHWLKLKPEEKKLNTKP  294 (383)
T ss_dssp             CTTCCEEEECCHHHHHHHHHHHHHTTCCEEEEEECCSTTBC-TTSEECCBCHHHHHHHSSCCHHHHHTSCHHHHCTTTSC
T ss_pred             CccCCccCCcCHHHHHHHHHHHHHcCCcEEEEcccCccccC-CCceeeCcchhhHHHhcCcchhhhccCCHHHhhhccCC
Confidence            334455899999887   33444556 99999999864433 777662210                             


Q ss_pred             -----------------CCCccceEEEEeeecc-cCCccEEEEecCCCCCCCCCCceeeecC
Q psy1911         109 -----------------GDSIGLHAVRVLGWGV-ENDIPYWLVANSWNDHWGDHGTFKILRG  152 (342)
Q Consensus       109 -----------------~~~~~~Hav~ivGyg~-~~g~~ywiikNSWG~~WG~~Gy~~i~~~  152 (342)
                                       ..+..+|||+|||||. ++|.+||+|+||||+.||++||++|+++
T Consensus       295 ~~e~~~tk~~R~~~~d~~~t~~~Ha~~ivG~~~d~~g~~yw~vkNSWg~~~g~~Gy~~m~~~  356 (383)
T 3pw3_A          295 QPQKWCTQAERQLAYDNYETTDDHGMQIYGIAKDQEGNEYYMVKNSWGTNSKYNGIWYASKA  356 (383)
T ss_dssp             CCBCCCCHHHHHHHHHTTSSCCEEEEEEEEEEECTTCCEEEEEECSBCSCSTTTTEEEEEHH
T ss_pred             CcccCCCHHHHHHHhhhccCcCCeEEEEEEEEEcCCCceEEEEEeCCCCCCCcCCeEEecHH
Confidence                             1234589999999996 5788999999999999999999999974

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	342
d1gmya_	254	d.3.1.1 (A:) (Pro)cathepsin B {Human (Homo sapiens	1e-34
d1gmya_	254	d.3.1.1 (A:) (Pro)cathepsin B {Human (Homo sapiens	2e-24
d1cqda_	216	d.3.1.1 (A:) Proline-specific cysteine protease {G	1e-18
d1cqda_	216	d.3.1.1 (A:) Proline-specific cysteine protease {G	1e-13
d1deua_	275	d.3.1.1 (A:) (Pro)cathepsin X {Human (Homo sapiens	1e-18
d1deua_	275	d.3.1.1 (A:) (Pro)cathepsin X {Human (Homo sapiens	5e-14
d1m6da_	214	d.3.1.1 (A:) Cathepsin F {Human (Homo sapiens) [Ta	1e-17
d1m6da_	214	d.3.1.1 (A:) Cathepsin F {Human (Homo sapiens) [Ta	3e-16
g8pch.1	228	d.3.1.1 (P:,A:) Cathepsin H {Pig (Sus scrofa) [Tax	2e-17
g8pch.1	228	d.3.1.1 (P:,A:) Cathepsin H {Pig (Sus scrofa) [Tax	5e-17
d1iwda_	215	d.3.1.1 (A:) Ervatamin B {Adam's apple (Ervatamia	5e-17
d1iwda_	215	d.3.1.1 (A:) Ervatamin B {Adam's apple (Ervatamia	3e-12
g1k3b.1	233	d.3.1.1 (B:,C:) Cathepsin C (dipeptidyl peptidase	4e-16
g1k3b.1	233	d.3.1.1 (B:,C:) Cathepsin C (dipeptidyl peptidase	2e-14
d1s4va_	224	d.3.1.1 (A:) Vignain (bean endopeptidase) {Castor	5e-16
d1s4va_	224	d.3.1.1 (A:) Vignain (bean endopeptidase) {Castor	4e-15
d1cs8a_	316	d.3.1.1 (A:) (Pro)cathepsin L {Human (Homo sapiens	5e-16
d1cs8a_	316	d.3.1.1 (A:) (Pro)cathepsin L {Human (Homo sapiens	1e-08
d1yala_	218	d.3.1.1 (A:) Chymopapain {Papaya (Carica papaya) [	6e-16
d1yala_	218	d.3.1.1 (A:) Chymopapain {Papaya (Carica papaya) [	4e-14
d1fh0a_	221	d.3.1.1 (A:) (Pro)cathepsin V {Human (Homo sapiens	1e-15
d1fh0a_	221	d.3.1.1 (A:) (Pro)cathepsin V {Human (Homo sapiens	6e-13
d2r6na1	215	d.3.1.1 (A:1-215) (Pro)cathepsin K {Human (Homo sa	1e-15
d2r6na1	215	d.3.1.1 (A:1-215) (Pro)cathepsin K {Human (Homo sa	8e-13
d2h7ja1	217	d.3.1.1 (A:1-217) (Pro)cathepsin S {Human (Homo sa	1e-15
d2h7ja1	217	d.3.1.1 (A:1-217) (Pro)cathepsin S {Human (Homo sa	3e-15
d1xkga1	302	d.3.1.1 (A:4-305) Major mite fecal allergen der p	3e-15
d1xkga1	302	d.3.1.1 (A:4-305) Major mite fecal allergen der p	3e-06
d2oula1	241	d.3.1.1 (A:-16-224) Falcipain 2 {Plasmodium falcip	3e-15
d2oula1	241	d.3.1.1 (A:-16-224) Falcipain 2 {Plasmodium falcip	1e-14
d1aeca_	218	d.3.1.1 (A:) Actinidin {Chinese gooseberry or kiwi	4e-15
d1aeca_	218	d.3.1.1 (A:) Actinidin {Chinese gooseberry or kiwi	2e-14
d1o0ea_	208	d.3.1.1 (A:) Ervatamin C {East indian rosebay (Erv	6e-15
d1o0ea_	208	d.3.1.1 (A:) Ervatamin C {East indian rosebay (Erv	4e-11
d1ppoa_	216	d.3.1.1 (A:) Caricain (protease omega) {Papaya (Ca	2e-14
d1ppoa_	216	d.3.1.1 (A:) Caricain (protease omega) {Papaya (Ca	6e-14
d1me4a_	215	d.3.1.1 (A:) Cruzain {Trypanosoma cruzi [TaxId: 56	8e-14
d1me4a_	215	d.3.1.1 (A:) Cruzain {Trypanosoma cruzi [TaxId: 56	3e-12
d1khqa_	212	d.3.1.1 (A:) Papain {Papaya (Carica papaya) [TaxId	3e-13
d1khqa_	212	d.3.1.1 (A:) Papain {Papaya (Carica papaya) [TaxId	2e-10
d1v9da_	332	a.207.1.1 (A:) Diaphanous protein homolog 1, dia1	2e-04
d1v9da_	332	a.207.1.1 (A:) Diaphanous protein homolog 1, dia1	0.002
d1y2oa1	248	a.238.1.3 (A:1-248) BAP2/IRSp53 N-terminal domain	0.001
d1y2oa1	248	a.238.1.3 (A:1-248) BAP2/IRSp53 N-terminal domain	0.002
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	0.003
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	0.004

>d1gmya_ d.3.1.1 (A:) (Pro)cathepsin B {Human (Homo sapiens) [TaxId: 9606]} Length = 254

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]

 Score =  125 bits (313), Expect = 1e-34
 Identities = 71/155 (45%), Positives = 100/155 (64%), Gaps = 5/155 (3%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP +FDARE+WP+CP+++ I DQ +CGSCWA     AISDR+CI +N + + ++SA+ ++
Sbjct: 2   LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 61

Query: 247 AC--TPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C  +    GCNGG+P  AW FW   G+V+GG Y S  GC+PY++ PCEHHV G    CT
Sbjct: 62  TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCT 121

Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHM 339
             G+  TP+C + C  P Y  TY+ D   G  ++ 
Sbjct: 122 --GEGDTPKCSKIC-EPGYSPTYKQDKHYGYNSYS 153

>d1gmya_ d.3.1.1 (A:) (Pro)cathepsin B {Human (Homo sapiens) [TaxId: 9606]} Length = 254

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]

 Score = 97.7 bits (242), Expect = 2e-24
 Identities = 62/144 (43%), Positives = 81/144 (56%), Gaps = 2/144 (1%)

Query: 19  KEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYLPTSIPLSHYFKKAHMVPRC--NA 76
           +       +            +    K  K  +  Y PT     HY   ++ V     + 
Sbjct: 102 RPYSIPPCEHHVNGSRPPCTGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDI 161

Query: 77  MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANS 136
           M +IY++GP+   FSVY+DFL YKSGVYQH  G+ +G HA+R+LGWGVEN  PYWLVANS
Sbjct: 162 MAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAIRILGWGVENGTPYWLVANS 221

Query: 137 WNDHWGDHGTFKILRGENEADIEM 160
           WN  WGD+G FKILRG++   IE 
Sbjct: 222 WNTDWGDNGFFKILRGQDHCGIES 245

>d1cqda_ d.3.1.1 (A:) Proline-specific cysteine protease {Ginger rhizome (Zingiber officinale) [TaxId: 94328]} Length = 216

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]

 Score = 80.8 bits (198), Expect = 1e-18
 Identities = 34/135 (25%), Positives = 49/135 (36%), Gaps = 6/135 (4%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D RE     P    + +Q  CGSCWA S   A+     I +       +S Q +V
Sbjct: 1   LPDSIDWRENGAVVP----VKNQGGCGSCWAFSTVAAVEGINQIVTGDLI--SLSEQQLV 54

Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLL 306
            CT    GC GGW   A++F  +NG +   +     G      +     V        + 
Sbjct: 55  DCTTANHGCRGGWMNPAFQFIVNNGGINSEETYPYRGQDGICNSTVNAPVVSIDSYENVP 114

Query: 307 GKLKTPECKQNCYNP 321
              +    K     P
Sbjct: 115 SHNEQSLQKAVANQP 129

>d1cqda_ d.3.1.1 (A:) Proline-specific cysteine protease {Ginger rhizome (Zingiber officinale) [TaxId: 94328]} Length = 216

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]

 Score = 67.3 bits (163), Expect = 1e-13
 Identities = 22/105 (20%), Positives = 39/105 (37%)

Query: 62  SHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLG 121
           S    +        ++++   + P+           Q           +    HA+ V+G
Sbjct: 106 SIDSYENVPSHNEQSLQKAVANQPVSVTMDAAGRDFQLYRSGIFTGSCNISANHALTVVG 165

Query: 122 WGVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRV 166
           +G END  +W+V NSW  +WG+ G  +  R     D + G     
Sbjct: 166 YGTENDKDFWIVKNSWGKNWGESGYIRAERNIENPDGKCGITRFA 210

>d1deua_ d.3.1.1 (A:) (Pro)cathepsin X {Human (Homo sapiens) [TaxId: 9606]} Length = 275

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]

 Score = 82.0 bits (201), Expect = 1e-18
 Identities = 26/97 (26%), Positives = 43/97 (44%)

Query: 75  NAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVA 134
             M +IY +GP+            Y  G+Y      +   H V V GWG+ +   YW+V 
Sbjct: 173 KMMAEIYANGPISCGIMATERLANYTGGIYAEYQDTTYINHVVSVAGWGISDGTEYWIVR 232

Query: 135 NSWNDHWGDHGTFKILRGENEADIEMGFNNRVEANSS 171
           NSW + WG+ G  +I+    +      +N  +E + +
Sbjct: 233 NSWGEPWGERGWLRIVTSTYKDGKGARYNLAIEEHCT 269

>d1deua_ d.3.1.1 (A:) (Pro)cathepsin X {Human (Homo sapiens) [TaxId: 9606]} Length = 275

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]

 Score = 68.9 bits (167), Expect = 5e-14
 Identities = 26/115 (22%), Positives = 42/115 (36%), Gaps = 2/115 (1%)

Query: 183 NAKGLPRNFDAREKW--PECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQI 240
           +   LP+++D R           R+      CGSCWA +  +A++DR+ I   G +   +
Sbjct: 30  SPADLPKSWDWRNVDGVNYASITRNQHIPQYCGSCWAHASTSAMADRINIKRKGAWPSTL 89

Query: 241 SAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHH 295
            +   V    N   C GG     W +   +G+      N Q   Q          
Sbjct: 90  LSVQNVIDCGNAGSCEGGNDLSVWDYAHQHGIPDETCNNYQAKDQECDKFNQCGT 144

>d1m6da_ d.3.1.1 (A:) Cathepsin F {Human (Homo sapiens) [TaxId: 9606]} Length = 214

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]

 Score = 78.1 bits (191), Expect = 1e-17
 Identities = 30/155 (19%), Positives = 57/155 (36%), Gaps = 9/155 (5%)

Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P  +D    W    ++  + DQ  CGSCWA SV   +  +  +         +S Q ++ 
Sbjct: 2   PPEWD----WRSKGAVTKVKDQGMCGSCWAFSVTGNVEGQWFLNQGTLL--SLSEQELLD 55

Query: 248 CTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQP---YTLAPCEHHVQGPLQNCT 304
           C      C GG P  A+    + G +   D  S +G      ++    + ++Q  ++   
Sbjct: 56  CDKMDKACMGGLPSNAYSAIKNLGGLETEDDYSYQGHMQSCQFSAEKAKVYIQDSVELSQ 115

Query: 305 LLGKLKTPECKQNCYNPSYESTYRFDLKKGKKAHM 339
              KL     K+   + +  +      + G    +
Sbjct: 116 NEQKLAAWLAKRGPISVAINAFGMQFYRHGISRPL 150

>d1m6da_ d.3.1.1 (A:) Cathepsin F {Human (Homo sapiens) [TaxId: 9606]} Length = 214

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]

 Score = 74.2 bits (181), Expect = 3e-16
 Identities = 18/94 (19%), Positives = 36/94 (38%), Gaps = 2/94 (2%)

Query: 69  HMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSG--VYQHNFGDSIGLHAVRVLGWGVEN 126
                      + + GP+    + +             +      +  HAV ++G+G  +
Sbjct: 113 LSQNEQKLAAWLAKRGPISVAINAFGMQFYRHGISRPLRPLCSPWLIDHAVLLVGYGQRS 172

Query: 127 DIPYWLVANSWNDHWGDHGTFKILRGENEADIEM 160
           D+P+W + NSW   WG+ G + + RG     +  
Sbjct: 173 DVPFWAIKNSWGTDWGEKGYYYLHRGSGACGVNT 206

>d1iwda_ d.3.1.1 (A:) Ervatamin B {Adam's apple (Ervatamia coronaria) [TaxId: 52861]} Length = 215

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]

 Score = 76.6 bits (187), Expect = 5e-17
 Identities = 30/111 (27%), Positives = 41/111 (36%), Gaps = 6/111 (5%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP   D    W    ++  I +Q  CGSCWA S   A+     I +       +S Q +V
Sbjct: 1   LPSFVD----WRSKGAVNSIKNQKQCGSCWAFSAVAAVESINKIRTGQLI--SLSEQELV 54

Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQ 297
            C     GCNGGW   A+++   NG +           Q          V 
Sbjct: 55  DCDTASHGCNGGWMNNAFQYIITNGGIDTQQNYPYSAVQGSCKPYRLRVVS 105

>d1iwda_ d.3.1.1 (A:) Ervatamin B {Adam's apple (Ervatamia coronaria) [TaxId: 52861]} Length = 215

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]

 Score = 63.1 bits (152), Expect = 3e-12
 Identities = 19/90 (21%), Positives = 35/90 (38%)

Query: 75  NAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVA 134
           +A++      P+           Q+ S         +   H V ++G+G ++   YW+V 
Sbjct: 118 SALQSAVASQPVSVTVEAAGAPFQHYSSGIFTGPCGTAQNHGVVIVGYGTQSGKNYWIVR 177

Query: 135 NSWNDHWGDHGTFKILRGENEADIEMGFNN 164
           NSW  +WG+ G   + R    +    G   
Sbjct: 178 NSWGQNWGNQGYIWMERNVASSAGLCGIAQ 207

>d1s4va_ d.3.1.1 (A:) Vignain (bean endopeptidase) {Castor bean (Ricinus communis) [TaxId: 3988]} Length = 224

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]

 Score = 73.9 bits (180), Expect = 5e-16
 Identities = 29/118 (24%), Positives = 44/118 (37%), Gaps = 7/118 (5%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P + D    W +  ++  + DQ  CGSCWA S   A+     I +N      +S Q +V
Sbjct: 2   VPASVD----WRKKGAVTSVKDQGQCGSCWAFSTIVAVEGINQIKTNKLV--SLSEQELV 55

Query: 247 ACTPNCWG-CNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNC 303
            C  +    CNGG    A+ F    G +T       E          E+     +   
Sbjct: 56  DCDTDQNQGCNGGLMDYAFEFIKQRGGITTEANYPYEAYDGTCDVSKENAPAVSIDGH 113

>d1s4va_ d.3.1.1 (A:) Vignain (bean endopeptidase) {Castor bean (Ricinus communis) [TaxId: 3988]} Length = 224

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]

 Score = 71.2 bits (173), Expect = 4e-15
 Identities = 25/105 (23%), Positives = 44/105 (41%), Gaps = 2/105 (1%)

Query: 63  HYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGW 122
              +          ++ +      VAI +  +DF  Y  GV+  + G  +  H V ++G+
Sbjct: 111 DGHENVPENDENALLKAVANQPVSVAIDAGGSDFQFYSEGVFTGSCGTELD-HGVAIVGY 169

Query: 123 GVE-NDIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRV 166
           G   +   YW V NSW   WG+ G  ++ RG ++ +   G     
Sbjct: 170 GTTIDGTKYWTVKNSWGPEWGEKGYIRMERGISDKEGLCGIAMEA 214

>d1cs8a_ d.3.1.1 (A:) (Pro)cathepsin L {Human (Homo sapiens) [TaxId: 9606]} Length = 316

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]

 Score = 75.4 bits (184), Expect = 5e-16
 Identities = 32/105 (30%), Positives = 46/105 (43%), Gaps = 7/105 (6%)

Query: 63  HYFKKAHMVPRCNAMRQIYEHGPL-VAIFSVYADFLQYKSGVYQHNFGDSIGL-HAVRVL 120
                         M+ +   GP+ VAI + +  FL YK G+Y      S  + H V V+
Sbjct: 205 DAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVV 264

Query: 121 GWGVE----NDIPYWLVANSWNDHWGDHGTFKILRG-ENEADIEM 160
           G+G E    ++  YWLV NSW + WG  G  K+ +   N   I  
Sbjct: 265 GYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIAS 309

>d1cs8a_ d.3.1.1 (A:) (Pro)cathepsin L {Human (Homo sapiens) [TaxId: 9606]} Length = 316

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]

 Score = 53.1 bits (126), Expect = 1e-08
 Identities = 28/120 (23%), Positives = 48/120 (40%), Gaps = 8/120 (6%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
            PR+ D    W E   +  + +Q  CGSCWA S   A+  ++   +       +S Q++V
Sbjct: 97  APRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLI--SLSEQNLV 150

Query: 247 ACTPNCW--GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
            C+      GCNGG    A+++   NG +   +    E  +       ++ V        
Sbjct: 151 DCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDAGFVD 210

>d1yala_ d.3.1.1 (A:) Chymopapain {Papaya (Carica papaya) [TaxId: 3649]} Length = 218

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

 Score = 73.8 bits (180), Expect = 6e-16
 Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 2/89 (2%)

Query: 74  CNAMRQIYEHGPLV-AIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWL 132
             +      + PL   + +    F  YKSGV+    G  +  HAV  +G+G  +   Y +
Sbjct: 118 ETSFLGALANQPLSVLVEAGGKPFQLYKSGVFDGPCGTKLD-HAVTAVGYGTSDGKNYII 176

Query: 133 VANSWNDHWGDHGTFKILRGENEADIEMG 161
           + NSW  +WG+ G  ++ R    +    G
Sbjct: 177 IKNSWGPNWGEKGYMRLKRQSGNSQGTCG 205

>d1yala_ d.3.1.1 (A:) Chymopapain {Papaya (Carica papaya) [TaxId: 3649]} Length = 218

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

 Score = 68.5 bits (166), Expect = 4e-14
 Identities = 25/108 (23%), Positives = 42/108 (38%), Gaps = 13/108 (12%)

Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P++ D R K    P    + +Q  CGSCWA S    +     I +      ++S Q +V 
Sbjct: 2   PQSIDWRAKGAVTP----VKNQGACGSCWAFSTIATVEGINKIVTGNLL--ELSEQELVD 55

Query: 248 CTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHH 295
           C  + +GC GG+   + ++  +N               PY     +  
Sbjct: 56  CDKHSYGCKGGYQTTSLQYVANN-------GVHTSKVYPYQAKQYKCR 96

>d1fh0a_ d.3.1.1 (A:) (Pro)cathepsin V {Human (Homo sapiens) [TaxId: 9606]} Length = 221

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

 Score = 72.7 bits (177), Expect = 1e-15
 Identities = 24/109 (22%), Positives = 42/109 (38%), Gaps = 4/109 (3%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP++ D R+K    P    + +Q  CGSCWA S   A+  ++   +    +         
Sbjct: 1   LPKSVDWRKKGYVTP----VKNQKQCGSCWAFSATGALEGQMFRKTGKLVSLSEQNLVDC 56

Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHH 295
           +      GCNGG+   A+++   NG +   +               E+ 
Sbjct: 57  SRPQGNQGCNGGFMARAFQYVKENGGLDSEESYPYVAVDEICKYRPENS 105

>d1fh0a_ d.3.1.1 (A:) (Pro)cathepsin V {Human (Homo sapiens) [TaxId: 9606]} Length = 221

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

 Score = 65.0 bits (157), Expect = 6e-13
 Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 6/98 (6%)

Query: 63  HYFKKAHMVPRCNAMRQIYEHGPLV-AIFSVYADFLQYKSGV-YQHNFGDSIGLHAVRVL 120
             F           M+ +   GP+  A+ + ++ F  YKSG+ ++ +       H V V+
Sbjct: 110 TGFTVVAPGKEKALMKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDCSSKNLDHGVLVV 169

Query: 121 GWGVE----NDIPYWLVANSWNDHWGDHGTFKILRGEN 154
           G+G E    ++  YWLV NSW   WG +G  KI + +N
Sbjct: 170 GYGFEGANSDNSKYWLVKNSWGPEWGSNGYVKIAKDKN 207

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

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]

 Score = 72.3 bits (176), Expect = 1e-15
 Identities = 26/110 (23%), Positives = 42/110 (38%), Gaps = 6/110 (5%)

Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P + D R+K    P    + +Q  CGSCWA S   A+  +L   +          Q++V 
Sbjct: 2   PDSVDYRKKGYVTP----VKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLSP--QNLVD 55

Query: 248 CTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQ 297
           C     GC GG+   A+++   N  +   D     G +   +        
Sbjct: 56  CVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMYNPTGKAA 105

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

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]

 Score = 64.6 bits (156), Expect = 8e-13
 Identities = 24/94 (25%), Positives = 41/94 (43%), Gaps = 1/94 (1%)

Query: 62  SHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLH-AVRVL 120
             Y +      +             VAI +    F  Y  GVY     +S  L+ AV  +
Sbjct: 108 RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAV 167

Query: 121 GWGVENDIPYWLVANSWNDHWGDHGTFKILRGEN 154
           G+G++    +W++ NSW ++WG+ G   + R +N
Sbjct: 168 GYGIQKGNKHWIIKNSWGENWGNKGYILMARNKN 201

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

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]

 Score = 72.3 bits (176), Expect = 1e-15
 Identities = 21/112 (18%), Positives = 40/112 (35%), Gaps = 5/112 (4%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP + D    W E   +  +  Q +CG+CWA S   A+  +L + +    +         
Sbjct: 1   LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56

Query: 247 ACTPNCW-GCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQ 297
           +       GCNGG+   A+++   N  +        +          ++   
Sbjct: 57  STEKYGNKGCNGGFMTTAFQYIIDNKGIDSDASYPYKAMDQKCQYDSKYRAA 108

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

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]

 Score = 71.5 bits (174), Expect = 3e-15
 Identities = 26/99 (26%), Positives = 41/99 (41%), Gaps = 1/99 (1%)

Query: 63  HYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGW 122
            Y +  +            +    V + + +  F  Y+SGVY          H V V+G+
Sbjct: 112 KYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGY 171

Query: 123 GVENDIPYWLVANSWNDHWGDHGTFKILRGE-NEADIEM 160
           G  N   YWLV NSW  ++G+ G  ++ R + N   I  
Sbjct: 172 GDLNGKEYWLVKNSWGHNFGEEGYIRMARNKGNHCGIAS 210

>d1xkga1 d.3.1.1 (A:4-305) Major mite fecal allergen der p 1 {House-dust mite (Dermatophagoides pteronyssinus) [TaxId: 6956]} Length = 302

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]

 Score = 73.2 bits (178), Expect = 3e-15
 Identities = 20/83 (24%), Positives = 35/83 (42%)

Query: 77  MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANS 136
            +       ++ I  + A        + Q + G     HAV ++G+     + YW+V NS
Sbjct: 209 AQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNAQGVDYWIVRNS 268

Query: 137 WNDHWGDHGTFKILRGENEADIE 159
           W+ +WGD+G        +   IE
Sbjct: 269 WDTNWGDNGYGYFAANIDLMMIE 291

>d1xkga1 d.3.1.1 (A:4-305) Major mite fecal allergen der p 1 {House-dust mite (Dermatophagoides pteronyssinus) [TaxId: 6956]} Length = 302

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]

 Score = 45.8 bits (107), Expect = 3e-06
 Identities = 32/164 (19%), Positives = 44/164 (26%), Gaps = 7/164 (4%)

Query: 160 MGFNNRVEANSSEDDDLETMGCQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVS 219
           M         +  D + ET  C      P   D R+     P    I  Q  CGS WA S
Sbjct: 60  MSAEAFEHLKTQFDLNAETNACSINGNAPAEIDLRQMRTVTP----IRMQGGCGSAWAFS 115

Query: 220 VANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYN 279
              A         +      ++ Q +V C      C+G        +  HNGVV    Y 
Sbjct: 116 GVAATESAYLAYRDQSL--DLAEQELVDCASQHG-CHGDTIPRGIEYIQHNGVVQESYYR 172

Query: 280 SQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSY 323
                Q       +                K  E     ++   
Sbjct: 173 YVAREQSCRRPNAQRFGISNYCQIYPPNANKIREALAQTHSAIA 216

>d2oula1 d.3.1.1 (A:-16-224) Falcipain 2 {Plasmodium falciparum [TaxId: 5833]} Length = 241

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Falcipain 2
species: Plasmodium falciparum [TaxId: 5833]

 Score = 71.9 bits (175), Expect = 3e-15
 Identities = 29/128 (22%), Positives = 47/128 (36%), Gaps = 9/128 (7%)

Query: 183 NAKGLPRNFDAREK-------WPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGY 235
           N + + + +   E        W     +  + DQ NCGSCWA S   ++  +  I  N  
Sbjct: 3   NYEEVIKKYRGEENFDHAAYDWRLHSGVTPVKDQKNCGSCWAFSSIGSVESQYAIRKNKL 62

Query: 236 FTGQISAQHIVACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHH 295
            T  +S Q +V C+   +GCNGG    A+      G +            P         
Sbjct: 63  IT--LSEQELVDCSFKNYGCNGGLINNAFEDMIELGGICPDGDYPYVSDAPNLCNIDRCT 120

Query: 296 VQGPLQNC 303
            +  ++N 
Sbjct: 121 EKYGIKNY 128

>d2oula1 d.3.1.1 (A:-16-224) Falcipain 2 {Plasmodium falciparum [TaxId: 5833]} Length = 241

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Falcipain 2
species: Plasmodium falciparum [TaxId: 5833]

 Score = 70.4 bits (171), Expect = 1e-14
 Identities = 28/114 (24%), Positives = 46/114 (40%), Gaps = 11/114 (9%)

Query: 63  HYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGW 122
           +  K    VP       +   GP+    +V  DF  YK G++    GD +  HAV ++G+
Sbjct: 123 YGIKNYLSVPDNKLKEALRFLGPISISVAVSDDFAFYKEGIFDGECGDQLN-HAVMLVGF 181

Query: 123 GVEN----------DIPYWLVANSWNDHWGDHGTFKILRGENEADIEMGFNNRV 166
           G++              Y+++ NSW   WG+ G   I   E+    + G     
Sbjct: 182 GMKEIVNPLTKKGEKHYYYIIKNSWGQQWGERGFINIETDESGLMRKCGLGTDA 235

>d1aeca_ d.3.1.1 (A:) Actinidin {Chinese gooseberry or kiwifruit (Actinidia chinensis) [TaxId: 3625]} Length = 218

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]

 Score = 71.2 bits (173), Expect = 4e-15
 Identities = 25/102 (24%), Positives = 40/102 (39%), Gaps = 3/102 (2%)

Query: 62  SHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLG 121
           +    +        A++    + P+        D  +  S         +   HAV ++G
Sbjct: 109 TIDTYENVPYNNEWALQTAVTYQPVSVALDAAGDAFKQYSSGIFTGPCGTAIDHAVTIVG 168

Query: 122 WGVENDIPYWLVANSWNDHWGDHGTFKILR---GENEADIEM 160
           +G E  I YW+V NSW+  WG+ G  +ILR   G     I  
Sbjct: 169 YGTEGGIDYWIVKNSWDTTWGEEGYMRILRNVGGAGTCGIAT 210

>d1aeca_ d.3.1.1 (A:) Actinidin {Chinese gooseberry or kiwifruit (Actinidia chinensis) [TaxId: 3625]} Length = 218

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]

 Score = 69.3 bits (168), Expect = 2e-14
 Identities = 23/118 (19%), Positives = 37/118 (31%), Gaps = 4/118 (3%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP   D    W    ++  I  Q  CG CWA S    +     I +    +         
Sbjct: 1   LPSYVD----WRSAGAVVDIKSQGECGGCWAFSAIATVEGINKIVTGVLISLSEQELIDC 56

Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCT 304
             T N  GCNGG+    ++F  +NG +   +               ++     +    
Sbjct: 57  GRTQNTRGCNGGYITDGFQFIINNGGINTEENYPYTAQDGECNVDLQNEKYVTIDTYE 114

>d1o0ea_ d.3.1.1 (A:) Ervatamin C {East indian rosebay (Ervatamia coronaria) [TaxId: 52861]} Length = 208

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]

 Score = 70.4 bits (171), Expect = 6e-15
 Identities = 28/109 (25%), Positives = 45/109 (41%), Gaps = 6/109 (5%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP   D R+K    P    + +Q +CGSCWA S  + +     I +    +  +S Q +V
Sbjct: 1   LPEQIDWRKKGAVTP----VKNQGSCGSCWAFSTVSTVESINQIRTGNLIS--LSEQELV 54

Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHH 295
            C     GC GG    A+++  +NG +        +  Q    A  +  
Sbjct: 55  DCDKKNHGCLGGAFVFAYQYIINNGGIDTQANYPYKAVQGPCQAASKVV 103

>d1o0ea_ d.3.1.1 (A:) Ervatamin C {East indian rosebay (Ervatamia coronaria) [TaxId: 52861]} Length = 208

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]

 Score = 59.6 bits (143), Expect = 4e-11
 Identities = 26/100 (26%), Positives = 41/100 (41%), Gaps = 7/100 (7%)

Query: 63  HYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGW 122
             +            + +      VAI +  A F QY SG++    G  +  H V ++G+
Sbjct: 106 DGYNGVPFCNEXALKQAVAVQPSTVAIDASSAQFQQYSSGIFSGPCGTKLN-HGVTIVGY 164

Query: 123 GVENDIPYWLVANSWNDHWGDHGTFKILR--GENEADIEM 160
                  YW+V NSW  +WG+ G  ++LR  G     I  
Sbjct: 165 ----QANYWIVRNSWGRYWGEKGYIRMLRVGGCGLCGIAR 200

>d1ppoa_ d.3.1.1 (A:) Caricain (protease omega) {Papaya (Carica papaya) [TaxId: 3649]} Length = 216

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]

 Score = 69.6 bits (169), Expect = 2e-14
 Identities = 24/94 (25%), Positives = 38/94 (40%), Gaps = 1/94 (1%)

Query: 62  SHYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLG 121
           +    +       N +  I +    V + S    F  YK G+++   G  +  HAV  +G
Sbjct: 107 TSGVGRVQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEGPCGTKVD-HAVTAVG 165

Query: 122 WGVENDIPYWLVANSWNDHWGDHGTFKILRGENE 155
           +G      Y L+ NSW   WG+ G  +I R    
Sbjct: 166 YGKSGGKGYILIKNSWGTAWGEKGYIRIKRAPGN 199

>d1ppoa_ d.3.1.1 (A:) Caricain (protease omega) {Papaya (Carica papaya) [TaxId: 3649]} Length = 216

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]

 Score = 67.7 bits (164), Expect = 6e-14
 Identities = 29/109 (26%), Positives = 41/109 (37%), Gaps = 6/109 (5%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           LP N D R+K    P    +  Q +CGSCWA S    +     I +      ++S Q +V
Sbjct: 1   LPENVDWRKKGAVTP----VRHQGSCGSCWAFSAVATVEGINKIRTGKLV--ELSEQELV 54

Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHH 295
            C     GC GG+P  A  +   NG+     Y  +              
Sbjct: 55  DCERRSHGCKGGYPPYALEYVAKNGIHLRSKYPYKAKQGTCRAKQVGGP 103

>d1me4a_ d.3.1.1 (A:) Cruzain {Trypanosoma cruzi [TaxId: 5693]} Length = 215

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

 Score = 67.4 bits (163), Expect = 8e-14
 Identities = 20/98 (20%), Positives = 38/98 (38%)

Query: 63  HYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGW 122
                   +P+  A    +         +V A      +G    +       H V ++G+
Sbjct: 110 ATITGHVELPQDEAQIAAWLAVNGPVAVAVDASSWMTYTGGVMTSCVSEQLDHGVLLVGY 169

Query: 123 GVENDIPYWLVANSWNDHWGDHGTFKILRGENEADIEM 160
                +PYW++ NSW   WG+ G  +I +G N+  ++ 
Sbjct: 170 NDSAAVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKE 207

>d1me4a_ d.3.1.1 (A:) Cruzain {Trypanosoma cruzi [TaxId: 5693]} Length = 215

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

 Score = 63.1 bits (152), Expect = 3e-12
 Identities = 19/108 (17%), Positives = 30/108 (27%), Gaps = 4/108 (3%)

Query: 188 PRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVA 247
           P   D    W    ++  + DQ  CGSCWA S    +  +  +A +              
Sbjct: 2   PAAVD----WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCD 57

Query: 248 CTPNCWGCNGGWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHH 295
            T +            W    +NG V   D       +  +       
Sbjct: 58  KTDSGCSGGLMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSG 105

>d1khqa_ d.3.1.1 (A:) Papain {Papaya (Carica papaya) [TaxId: 3649]} Length = 212

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

 Score = 65.5 bits (158), Expect = 3e-13
 Identities = 31/150 (20%), Positives = 52/150 (34%), Gaps = 13/150 (8%)

Query: 187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV 246
           +P   D R+K    P    + +Q +CGSCWA S    I   + I +      + S Q ++
Sbjct: 1   IPEYVDWRQKGAVTP----VKNQGSCGSCWAFSAVVTIEGIIKIRTGNLN--EYSEQELL 54

Query: 247 ACTPNCWGCNGGWPQLAWRFWGHNGVV-------TGGDYNSQEGCQPYTLAPCEHHVQGP 299
            C    +GCNGG+P  A +     G+         G     +   +    A  +   Q  
Sbjct: 55  DCDRRSYGCNGGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQ 114

Query: 300 LQNCTLLGKLKTPECKQNCYNPSYESTYRF 329
             N   L      +        + +    +
Sbjct: 115 PYNEGALLYSIANQPVSVVLEAAGKDFQLY 144

>d1khqa_ d.3.1.1 (A:) Papain {Papaya (Carica papaya) [TaxId: 3649]} Length = 212

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

 Score = 57.7 bits (138), Expect = 2e-10
 Identities = 20/93 (21%), Positives = 32/93 (34%), Gaps = 4/93 (4%)

Query: 63  HYFKKAHMVPRCNAMRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGW 122
               +        A+     + P+  +        Q   G        +   HAV  +G+
Sbjct: 107 TDGVRQVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVDHAVAAVGY 166

Query: 123 GVENDIPYWLVANSWNDHWGDHGTFKILRGENE 155
           G      Y L+ NSW   WG++G  +I RG   
Sbjct: 167 GPN----YILIKNSWGTGWGENGYIRIKRGTGN 195

>d1v9da_ a.207.1.1 (A:) Diaphanous protein homolog 1, dia1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 332

class: All alpha proteins
fold: Formin homology 2 domain (FH2 domain)
superfamily: Formin homology 2 domain (FH2 domain)
family: Formin homology 2 domain (FH2 domain)
domain: Diaphanous protein homolog 1, dia1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.3 bits (94), Expect = 2e-04
 Identities = 11/32 (34%), Positives = 22/32 (68%)

Query: 22  KKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRL 53
            +  K+ +K++E E+K ++ K  K+K +K+RL
Sbjct: 301 LQAVKENQKRRETEEKMRRAKLAKEKAEKERL 332

>d1v9da_ a.207.1.1 (A:) Diaphanous protein homolog 1, dia1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 332

class: All alpha proteins
fold: Formin homology 2 domain (FH2 domain)
superfamily: Formin homology 2 domain (FH2 domain)
family: Formin homology 2 domain (FH2 domain)
domain: Diaphanous protein homolog 1, dia1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.9 bits (85), Expect = 0.002
 Identities = 9/31 (29%), Positives = 21/31 (67%)

Query: 21  EKKKKKKKKKKKEEEKKKKKKKKKKKKKKKK 51
            +  K+ +K+++ EEK ++ K  K+K +K++
Sbjct: 301 LQAVKENQKRRETEEKMRRAKLAKEKAEKER 331

>d1y2oa1 a.238.1.3 (A:1-248) BAP2/IRSp53 N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 248

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: IMD domain
domain: BAP2/IRSp53 N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (87), Expect = 0.001
 Identities = 13/50 (26%), Positives = 22/50 (44%)

Query: 3   LEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
           +E   +      KK + E++ K     K + E KK +KK +  K  +K  
Sbjct: 109 VELDSRYLSAALKKYQTEQRSKGDALDKCQAELKKLRKKSQGSKNPQKYS 158

>d1y2oa1 a.238.1.3 (A:1-248) BAP2/IRSp53 N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 248

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: IMD domain
domain: BAP2/IRSp53 N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (84), Expect = 0.002
 Identities = 11/51 (21%), Positives = 24/51 (47%)

Query: 2   SLEGRLKTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
            L  +L+ K +   +      KK + +++ K +   K + + KK +KK + 
Sbjct: 100 ELLTQLEQKVELDSRYLSAALKKYQTEQRSKGDALDKCQAELKKLRKKSQG 150

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 35.6 bits (82), Expect = 0.003
 Identities = 9/46 (19%), Positives = 22/46 (47%)

Query: 10 KKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKRLYL 55
            ++++K ++ E  K   +K++ E E  +K  ++     K  +  L
Sbjct: 53 AAEERRKYQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKL 98

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 34.9 bits (80), Expect = 0.004
 Identities = 9/45 (20%), Positives = 22/45 (48%)

Query: 8   KTKKKKKKKKKKEEKKKKKKKKKKKEEEKKKKKKKKKKKKKKKKR 52
             K  K+K  +K E  K+ ++       ++ ++K K  ++ +K +
Sbjct: 90  FIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAEEVRKNK 134

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	342
d1gmya_	254	(Pro)cathepsin B {Human (Homo sapiens) [TaxId: 960	99.95
d1gmya_	254	(Pro)cathepsin B {Human (Homo sapiens) [TaxId: 960	99.92
d1xkga1	302	Major mite fecal allergen der p 1 {House-dust mite	99.92
g8pch.1	228	Cathepsin H {Pig (Sus scrofa) [TaxId: 9823]}	99.92
d1deua_	275	(Pro)cathepsin X {Human (Homo sapiens) [TaxId: 960	99.91
d1cqda_	216	Proline-specific cysteine protease {Ginger rhizome	99.91
d1ppoa_	216	Caricain (protease omega) {Papaya (Carica papaya)	99.9
d1me4a_	215	Cruzain {Trypanosoma cruzi [TaxId: 5693]}	99.9
g1k3b.1	233	Cathepsin C (dipeptidyl peptidase I), catalytic do	99.9
d1cs8a_	316	(Pro)cathepsin L {Human (Homo sapiens) [TaxId: 960	99.9
d1yala_	218	Chymopapain {Papaya (Carica papaya) [TaxId: 3649]}	99.89
d2oula1	241	Falcipain 2 {Plasmodium falciparum [TaxId: 5833]}	99.89
d2h7ja1	217	(Pro)cathepsin S {Human (Homo sapiens) [TaxId: 960	99.89
d1khqa_	212	Papain {Papaya (Carica papaya) [TaxId: 3649]}	99.89
g1k3b.1	233	Cathepsin C (dipeptidyl peptidase I), catalytic do	99.89
d1m6da_	214	Cathepsin F {Human (Homo sapiens) [TaxId: 9606]}	99.88
d1yala_	218	Chymopapain {Papaya (Carica papaya) [TaxId: 3649]}	99.88
d1cs8a_	316	(Pro)cathepsin L {Human (Homo sapiens) [TaxId: 960	99.88
d1fh0a_	221	(Pro)cathepsin V {Human (Homo sapiens) [TaxId: 960	99.88
d1m6da_	214	Cathepsin F {Human (Homo sapiens) [TaxId: 9606]}	99.87
d2oula1	241	Falcipain 2 {Plasmodium falciparum [TaxId: 5833]}	99.87
d1iwda_	215	Ervatamin B {Adam's apple (Ervatamia coronaria) [T	99.87
d2r6na1	215	(Pro)cathepsin K {Human (Homo sapiens) [TaxId: 960	99.87
d1deua_	275	(Pro)cathepsin X {Human (Homo sapiens) [TaxId: 960	99.87
d1aeca_	218	Actinidin {Chinese gooseberry or kiwifruit (Actini	99.87
d2r6na1	215	(Pro)cathepsin K {Human (Homo sapiens) [TaxId: 960	99.87
d1ppoa_	216	Caricain (protease omega) {Papaya (Carica papaya)	99.87
d1o0ea_	208	Ervatamin C {East indian rosebay (Ervatamia corona	99.87
d2h7ja1	217	(Pro)cathepsin S {Human (Homo sapiens) [TaxId: 960	99.86
d1aeca_	218	Actinidin {Chinese gooseberry or kiwifruit (Actini	99.86
d1s4va_	224	Vignain (bean endopeptidase) {Castor bean (Ricinus	99.86
d1s4va_	224	Vignain (bean endopeptidase) {Castor bean (Ricinus	99.86
d1khqa_	212	Papain {Papaya (Carica papaya) [TaxId: 3649]}	99.85
d1cqda_	216	Proline-specific cysteine protease {Ginger rhizome	99.85
d1iwda_	215	Ervatamin B {Adam's apple (Ervatamia coronaria) [T	99.85
d1o0ea_	208	Ervatamin C {East indian rosebay (Ervatamia corona	99.85
d1xkga1	302	Major mite fecal allergen der p 1 {House-dust mite	99.85
d1fh0a_	221	(Pro)cathepsin V {Human (Homo sapiens) [TaxId: 960	99.84
g8pch.1	228	Cathepsin H {Pig (Sus scrofa) [TaxId: 9823]}	99.84
d1me4a_	215	Cruzain {Trypanosoma cruzi [TaxId: 5693]}	99.83
d3gcba_	458	Bleomycin hydrolase {Baker's yeast (Saccharomyces	98.87
d2cb5a_	453	Bleomycin hydrolase {Human (Homo sapiens) [TaxId:	98.63
d3gcba_	458	Bleomycin hydrolase {Baker's yeast (Saccharomyces	97.37
d2cb5a_	453	Bleomycin hydrolase {Human (Homo sapiens) [TaxId:	97.24

>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=99.95  E-value=4.6e-29  Score=227.79  Aligned_cols=146  Identities=49%  Similarity=1.094  Sum_probs=125.9

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCchhhH
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGWPQLA  263 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~~~~a  263 (342)
                      .||++||||+.|++|+.|+||+||+.||||||||++++||++++|+++......||+|+|++|+..  +.||.||++..|
T Consensus         1 ~lP~~~D~R~~w~~~~~vtpV~dQg~cGsCwAfA~~~~lEs~~~i~~~~~~~~~lS~~~l~~~~~~~~~~gc~gg~~~~a   80 (254)
T d1gmya_           1 KLPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLLTCCGSMCGDGCNGGYPAEA   80 (254)
T ss_dssp             CCCSSEEHHHHSTTCGGGGCCCBCCSSCCHHHHHHHHHHHHHHHHHTTTSSCCCBCHHHHHHHSGGGGBCGGGCBCHHHH
T ss_pred             CCCcCCcchhhcCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHCCCCccccchHHHHhhccccCCCCCCCCcHHHH
Confidence            489999999999999999999999999999999999999999999988777789999999999753  349999999999


Q ss_pred             HHHhhhcccccCCCCCCCCCcccCCCCCCccCCCCCCccCCCCCccccccccccccccccccccccccccc
Q psy1911         264 WRFWGHNGVVTGGDYNSQEGCQPYTLAPCEHHVQGPLQNCTLLGKLKTPECKQNCYNPSYESTYRFDLKKG  334 (342)
Q Consensus       264 ~~y~~~~Gi~~e~~Y~~~~~C~PY~~~~c~~~~~~~~~~C~~~~~~~~p~C~~~C~~~~~~~~y~~d~~~~  334 (342)
                      +.++.+.|+++|..|++...|.+|..+.|........++|....  .+|.....|. ......+...++..
T Consensus        81 ~~~~~~~G~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~  148 (254)
T d1gmya_          81 WNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCTGEG--DTPKCSKICE-PGYSPTYKQDKHYG  148 (254)
T ss_dssp             HHHHHHTCBCBCCSTTCCCSSSCCCSCCCBSSSCCSSCBCCSCC--CCCCCCCSCC-TTCCSCHHHHCBCB
T ss_pred             HHHHHHcCccccccccccccccccccccccccccCccCcccccc--CCcccccccc-CCcccceeeeeeee
Confidence            99999999999999999999999999888887777888888765  6677777776 55555554444433

>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=99.92  E-value=9.5e-26  Score=205.56  Aligned_cols=92  Identities=59%  Similarity=1.126  Sum_probs=86.3

Q ss_pred             HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCCCCCCCCceeeecCCcch
Q psy1911          77 MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRGENEA  156 (342)
Q Consensus        77 ~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~~WG~~Gy~~i~~~~~~~  156 (342)
                      +++|+.+|||+++|.++++|+.|.+||+..++....++|||+|||||++++.+|||||||||+.||++|||||+|+.|.|
T Consensus       162 k~~l~~~gpv~~~~~~~~~f~~y~~gi~~~~~~~~~~~Hav~IVGyg~~~g~~ywIvkNSWG~~WGd~GYf~i~~~~n~c  241 (254)
T d1gmya_         162 MAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGEMMGGHAIRILGWGVENGTPYWLVANSWNTDWGDNGFFKILRGQDHC  241 (254)
T ss_dssp             HHHHHHHCCEEEEEEEEGGGTTCCSSEECCCSCCEEEEEEEEEEEEEEETTEEEEEEECSBCTTSTBTTEEEEECSSCGG
T ss_pred             HHHHHHcCCEEEEEEeechhhhccCCccccccccccccEEEEEEEEeccCCceEEEEEcCCCCCcCCCceEEEEcCCCcc
Confidence            78899999999999999999999999998887777789999999999999999999999999999999999999999999


Q ss_pred             hhcccccccccc
Q psy1911         157 DIEMGFNNRVEA  168 (342)
Q Consensus       157 gi~~~~~~~v~~  168 (342)
                      ||++.+.++++.
T Consensus       242 gi~~~~~~~~p~  253 (254)
T d1gmya_         242 GIESEVVAGIPR  253 (254)
T ss_dssp             GTTTSCEECCBC
T ss_pred             CcCCceEeccCC
Confidence            999999887653

>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=99.92  E-value=1.4e-25  Score=210.98  Aligned_cols=94  Identities=27%  Similarity=0.438  Sum_probs=85.9

Q ss_pred             cCCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchh
Q psy1911         182 QNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQ  261 (342)
Q Consensus       182 ~~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~  261 (342)
                      ....+||++||||+.    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+. ..||.||++.
T Consensus        82 ~~~~~~P~~~DwR~~----g~vtpVkdQG~CGsCwAfa~~~~lE~~~~i~~~--~~~~lS~q~lvdC~~-~~~C~gG~~~  154 (302)
T d1xkga1          82 SINGNAPAEIDLRQM----RTVTPIRMQGGCGSAWAFSGVAATESAYLAYRD--QSLDLAEQELVDCAS-QHGCHGDTIP  154 (302)
T ss_dssp             CCCSCCCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHC--CCCCBCHHHHHHHTC-SSTTBCCCHH
T ss_pred             ccCCCCCcceecccc----CccccceeccccceehhhhhHHhHHHHHHHhcC--CcccchhHHHHhccc-cCccCCCccc
Confidence            455689999999998    789999999999999999999999999999998  577899999999974 4699999999


Q ss_pred             hHHHHhhhcccccCCCCCCCCCcccCCC
Q psy1911         262 LAWRFWGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       262 ~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      .|++|+.++||+++.+|       ||..
T Consensus       155 ~a~~~~~~~Gi~~e~~y-------PY~~  175 (302)
T d1xkga1         155 RGIEYIQHNGVVQESYY-------RYVA  175 (302)
T ss_dssp             HHHHHHHHHCEEBGGGS-------CCCS
T ss_pred             hhhhhhccCcccchhhc-------cccc
Confidence            99999999999998888       8865

>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=99.91  E-value=2.8e-25  Score=205.41  Aligned_cols=97  Identities=25%  Similarity=0.559  Sum_probs=88.1

Q ss_pred             ceeeeeeEEcCchHH-HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCCC
Q psy1911          62 SHYFKKAHMVPRCNA-MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDH  140 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~-~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~~  140 (342)
                      ...+.++..+...+. |++|+++|||+++|.++++|++|.+|||...++...++|||+|||||++++.+|||||||||++
T Consensus       159 ~~~i~~~~~~~~~e~ik~~l~~~GPv~v~~~~~~~f~~y~~Gi~~~~~~~~~~~HAV~IVGyg~~~g~~ywivrNSWG~~  238 (275)
T d1deua_         159 LWRVGDYGSLSGREKMMAEIYANGPISCGIMATERLANYTGGIYAEYQDTTYINHVVSVAGWGISDGTEYWIVRNSWGEP  238 (275)
T ss_dssp             CBCEEEEEEECSHHHHHHHHHHHCCEEEEECCCHHHHTCCSSEECBCCSCCCCCEEEEEEEEEEETTEEEEEEECSBCTT
T ss_pred             EEEeCceeecCcHHHHHHHHHhCCCcEEEEEeccchhccCCCcccCccccccCCeEEEEEEEeccCCcEEEEEECCCCCC
Confidence            456777888887776 8899999999999999999999999999888777778999999999999999999999999999


Q ss_pred             CCCCCceeeecCCcchhh
Q psy1911         141 WGDHGTFKILRGENEADI  158 (342)
Q Consensus       141 WG~~Gy~~i~~~~~~~gi  158 (342)
                      ||++|||||.++.+.||.
T Consensus       239 WGd~Gyf~I~~~~~~~~~  256 (275)
T d1deua_         239 WGERGWLRIVTSTYKDGK  256 (275)
T ss_dssp             STBTTEEEEECTTHHHHT
T ss_pred             cccCCEEEEECCCCCCCc
Confidence            999999999999887774

>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=99.91  E-value=5.6e-25  Score=195.52  Aligned_cols=91  Identities=35%  Similarity=0.643  Sum_probs=81.3

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    ++|+||+|||.||||||||++++||++++|+++  ..+.||+|+|++|+....||.||++..|++|
T Consensus         1 LP~~~DwR~~----~~itpV~dQg~cgsCwAfa~~~~le~~~~~~~~--~~~~lS~q~l~~c~~~~~gc~Gg~~~~a~~y   74 (216)
T d1cqda_           1 LPDSIDWREN----GAVVPVKNQGGCGSCWAFSTVAAVEGINQIVTG--DLISLSEQQLVDCTTANHGCRGGWMNPAFQF   74 (216)
T ss_dssp             CCSCEETTTT----TCCCCCCBCTTSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCcccCCcC----CCCCCcccCCCCchHHHHHHHHHHHHHHHHHhC--CCccccHHHhhhcccccCCCCCcchHHHHHH
Confidence            8999999998    889999999999999999999999999999998  4678999999999877779999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCC
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +.++|+++.      +.|.||..
T Consensus        75 ~~~~g~~~~------e~~~p~~~   91 (216)
T d1cqda_          75 IVNNGGINS------EETYPYRG   91 (216)
T ss_dssp             HHHHTSBCB------TTTSCCCS
T ss_pred             HHhcCCccc------cccCCccc
Confidence            999987652      34457764

>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=99.90  E-value=9.1e-25  Score=194.53  Aligned_cols=86  Identities=33%  Similarity=0.658  Sum_probs=81.3

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    +.|+||||||.||||||||++++||++++|+++  ..+.||+|+|++|.....+|.||++..++.+
T Consensus         1 LP~~~Dwr~~----~~vtpV~dQg~cGsCwAfa~~~~~e~~~~~~~~--~~~~lS~q~l~~~~~~~~~~~G~~~~~~~~~   74 (216)
T d1ppoa_           1 LPENVDWRKK----GAVTPVRHQGSCGSCWAFSAVATVEGINKIRTG--KLVELSEQELVDCERRSHGCKGGYPPYALEY   74 (216)
T ss_dssp             CCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCSSSCTTBCCCHHHHHHH
T ss_pred             CCCcccCCcC----CCCCCcccCCcCchHHHHHHHHHHHHHHHHHhC--CCCCccHHHHhhhhhccCccccccccccccc
Confidence            8999999998    789999999999999999999999999999998  5678999999999887779999999999999


Q ss_pred             hhhcccccCCCC
Q psy1911         267 WGHNGVVTGGDY  278 (342)
Q Consensus       267 ~~~~Gi~~e~~Y  278 (342)
                      ++..|+++|.+|
T Consensus        75 ~~~~G~~~e~~y   86 (216)
T d1ppoa_          75 VAKNGIHLRSKY   86 (216)
T ss_dssp             HHHHCBCBTTTS
T ss_pred             ccccCccccccC
Confidence            999999997777

>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=99.90  E-value=2.8e-24  Score=191.20  Aligned_cols=103  Identities=22%  Similarity=0.509  Sum_probs=89.2

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWND  139 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~  139 (342)
                      ...+..+..+..+.+  +++|+++|||++++.+. .|+.|.+++|..... ...+|||+|||||++.+.+|||||||||+
T Consensus       109 ~~~~~~~~~~~~~~~~ik~~i~~~gpv~~~~~~~-~~~~~~~~~~~~~~~-~~~~Hav~IVGyg~~~~~~ywivrNSWG~  186 (215)
T d1me4a_         109 GATITGHVELPQDEAQIAAWLAVNGPVAVAVDAS-SWMTYTGGVMTSCVS-EQLDHGVLLVGYNDSAAVPYWIIKNSWTT  186 (215)
T ss_dssp             EEECCEEEECCSCHHHHHHHHHHHCCEEEEECCT-TGGGCCSSEECSCCC-SCCCEEEEEEEEESSSSSCEEEEECSBCT
T ss_pred             ceEeeeeeeccccHHHHHHHHHhcCceeEEEEee-eecccccccccCCcc-ccceeEEEEEEccccCCceEEEEEcCCCC
Confidence            445667777766555  78899999999999986 588899998866544 44699999999999999999999999999


Q ss_pred             CCCCCCceeeecCCcchhhcccccccc
Q psy1911         140 HWGDHGTFKILRGENEADIEMGFNNRV  166 (342)
Q Consensus       140 ~WG~~Gy~~i~~~~~~~gi~~~~~~~v  166 (342)
                      .||++|||||+|+.|.|||+..+.+++
T Consensus       187 ~WGd~Gy~~i~~g~n~cgI~~~~~~~~  213 (215)
T d1me4a_         187 QWGEEGYIRIAKGSNQCLVKEEASSAV  213 (215)
T ss_dssp             TSTBTTEEEEESSSCGGGTTSSEEEEE
T ss_pred             CcccCCEEEEECCCCccccCCceeeEe
Confidence            999999999999999999999988775

>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=99.90  E-value=1.9e-24  Score=204.30  Aligned_cols=104  Identities=28%  Similarity=0.490  Sum_probs=87.0

Q ss_pred             eeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCC-CCccceEEEEeeeccc----CCccEEEEe
Q psy1911          63 HYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFG-DSIGLHAVRVLGWGVE----NDIPYWLVA  134 (342)
Q Consensus        63 ~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~-~~~~~Hav~ivGyg~~----~g~~ywiik  134 (342)
                      ..+..+..+..++.  +++|+.+|||+++|++. .+|++|.+|||..+.+ ...++|+|+|||||.+    ++.+|||||
T Consensus       203 ~~~~~~~~~~~~~~~l~~~l~~~gpv~v~i~~~~~~f~~y~~Gi~~~~~c~~~~~nHaV~iVGyG~d~~~~~g~~YWIik  282 (316)
T d1cs8a_         203 ANDAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWLVK  282 (316)
T ss_dssp             ECCCCEEECCSCHHHHHHHHHHHCCEEEEECCCSHHHHTEEEEEECCTTCCSSCCCEEEEEEEEEEECCSSCCEEEEEEE
T ss_pred             ccccccccccCcHHHHHHHHHHhCCeEEEEEeccchhccccCCcccCCCCCCCcCCEEEEEEEEcccccCCCCCeEEEEE
Confidence            44455666665555  78999999999999986 6799999999976544 4567999999999964    578999999


Q ss_pred             cCCCCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         135 NSWNDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       135 NSWG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      ||||+.||++|||||+|+. |.|||...+.+|+
T Consensus       283 NSWG~~WGe~GY~ri~r~~~n~CGI~~~~~yP~  315 (316)
T d1cs8a_         283 NSWGEEWGMGGYVKMAKDRRNHCGIASAASYPT  315 (316)
T ss_dssp             CSBCTTSTBTTEEEEECSSSSGGGTTTSCEEEC
T ss_pred             eCCCCCcccCCEEEEeeCCCCcCccCCeeeeee
Confidence            9999999999999999985 8999998887764

>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=99.89  E-value=4.6e-24  Score=190.31  Aligned_cols=106  Identities=23%  Similarity=0.400  Sum_probs=91.0

Q ss_pred             cceeeeeeEEcCchHH--HHHHHHcCCeEEEEeecc-ccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCC
Q psy1911          61 LSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYA-DFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSW  137 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~-~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSW  137 (342)
                      ....+..++.++..++  +++++.+|||++++.+.. .|+.|.+|||..+++. .++|||+|||||++++.+||||||||
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~pv~~~~~~~~~~~~~y~~Giy~~~~~~-~~~Hav~IVGyg~~~g~~ywivkNSW  181 (218)
T d1yala_         103 PKVKITGYKRVPSNCETSFLGALANQPLSVLVEAGGKPFQLYKSGVFDGPCGT-KLDHAVTAVGYGTSDGKNYIIIKNSW  181 (218)
T ss_dssp             CCBCCSEEEECCSSBHHHHHHHHTTSCEEEEECCCSHHHHTCCSSEECCSCCS-CCCEEEEEEEEEEETTEEEEEEECSB
T ss_pred             cceeeccceEeCCccHHHHHHHHHhCCceEEEEecccchhhcccceeeecccc-cCCcEEEEEEeeccCCceEEEEECCC
Confidence            3455667888877665  789999999999999864 5788999999876654 46999999999999999999999999


Q ss_pred             CCCCCCCCceeeecCC----cchhhccccccccc
Q psy1911         138 NDHWGDHGTFKILRGE----NEADIEMGFNNRVE  167 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v~  167 (342)
                      |+.||++|||||+|+.    |.|||+..+.+|+.
T Consensus       182 G~~WGd~Gy~~I~~~~~~~~~~CGI~~~~~~p~~  215 (218)
T d1yala_         182 GPNWGEKGYMRLKRQSGNSQGTCGVYKSSYYPFK  215 (218)
T ss_dssp             CTTSTBTTEEEEECCCSBSCCGGGTTSSCEEEEC
T ss_pred             CCCcccCCEEEEEccCCCCCCcCCccceeeeccC
Confidence            9999999999999975    57999999988764

>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=99.89  E-value=6.8e-24  Score=188.57  Aligned_cols=104  Identities=27%  Similarity=0.429  Sum_probs=88.7

Q ss_pred             eeeeeeEEcCchHH---HHHHHHcCCeEEEEe-eccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          63 HYFKKAHMVPRCNA---MRQIYEHGPLVAIFS-VYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        63 ~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~-v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ..+..+..+....+   +++|++.|||++++. +..+|+.|.+|||..+.+...++|||+|||||++.+.+||||+||||
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~g~v~~~~~~~~~~f~~~~~gi~~~~~~~~~~~Hav~iVGy~~~~~~~ywivrNSWG  187 (217)
T d2h7ja1         108 ATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYYEPSCTQNVNHGVLVVGYGDLNGKEYWLVKNSWG  187 (217)
T ss_dssp             ECCCEEEECCTTCHHHHHHHHHHTCCEEEEECCCSHHHHTCCSSCBCCTTCCSCCCEEEEEEEEEEETTEEEEEEECSBC
T ss_pred             ceeeeeeccCccHHHHHHHHhhcCceEEEEEeeehhhhcccCCcceeCCCCCCCCCeEEEEEecccCCCceEEEEEcCCC
Confidence            44555666655443   788999999999986 44679999999998887777789999999999999999999999999


Q ss_pred             CCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+. |.|||+..+.++.
T Consensus       188 ~~WG~~Gy~~i~~~~~n~cgi~~~~~~p~  216 (217)
T d2h7ja1         188 HNFGEEGYIRMARNKGNHCGIASFPSYPE  216 (217)
T ss_dssp             TTSTBTTEEEEECSSSSGGGTTTSCEEEE
T ss_pred             CCcccCCEEEEecCCCCcCCcccccccee
Confidence            999999999999986 8999998877653

>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=99.89  E-value=6.2e-24  Score=187.80  Aligned_cols=86  Identities=30%  Similarity=0.641  Sum_probs=80.6

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    +.|+||+|||.||||||||++++||++++|+++  ....||+|++++|+....||.||.+..|+.|
T Consensus         1 LP~~~D~R~~----~~v~pV~dQg~cGsCwAfa~~~~~e~~~~i~~~--~~~~~S~q~~~~c~~~~~g~~g~~~~~a~~~   74 (212)
T d1khqa_           1 IPEYVDWRQK----GAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTG--NLNEYSEQELLDCDRRSYGCNGGYPWSALQL   74 (212)
T ss_dssp             CCSCEETTTT----TCCCCCCBCTTSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCBCHHHHHHH
T ss_pred             CCCCeeCCCC----CCCCCcccCCcCchHHHHHHHHHHHHHHHHHcC--CCcccCHHHhhccccccCccccccccccccc
Confidence            8999999998    789999999999999999999999999999998  4678999999999887779999999999999


Q ss_pred             hhhcccccCCCC
Q psy1911         267 WGHNGVVTGGDY  278 (342)
Q Consensus       267 ~~~~Gi~~e~~Y  278 (342)
                      +.+.|++++..|
T Consensus        75 ~~~~g~~~~~~~   86 (212)
T d1khqa_          75 VAQYGIHYRNTY   86 (212)
T ss_dssp             HHHTCBCBTTTS
T ss_pred             cccccccccccC
Confidence            999999997666

>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=99.88  E-value=1.4e-23  Score=186.61  Aligned_cols=103  Identities=21%  Similarity=0.531  Sum_probs=81.9

Q ss_pred             eeeeeeEEcCchHH--HHHHHHcCCeEEEEeecccccccccccc--c-cCCCCCccceEEEEeeecccCCccEEEEecCC
Q psy1911          63 HYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYADFLQYKSGVY--Q-HNFGDSIGLHAVRVLGWGVENDIPYWLVANSW  137 (342)
Q Consensus        63 ~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~f~~y~~Gi~--~-~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSW  137 (342)
                      ..+..+........  +++|+.+|||+++|.+. +|+++..|++  . ..+....++|||+|||||++.+.+||||||||
T Consensus       105 ~~~~~~~~~~~~~~~ik~~i~~~gpv~~~~~~~-~~~~~~~g~~~~~~~~~~~~~~~HaV~iVGyg~~~~~~ywivkNSW  183 (214)
T d1m6da_         105 VYIQDSVELSQNEQKLAAWLAKRGPISVAINAF-GMQFYRHGISRPLRPLCSPWLIDHAVLLVGYGQRSDVPFWAIKNSW  183 (214)
T ss_dssp             BCCSEEEECCSCHHHHHHHHHHHCCEEEEECTH-HHHHCCSSEECCCGGGSCTTCCCEEEEEEEEEEETTEEEEEEECSB
T ss_pred             eeeecccccccCHHHHHHHHHhcCCeEEEEEEE-ehhhccCCccccccCCCCCcccceeEEEEcccccCCceEEEEECCC
Confidence            34444555544443  78899999999999986 4555555543  2 23344568999999999999999999999999


Q ss_pred             CCCCCCCCceeeecCCcchhhcccccccc
Q psy1911         138 NDHWGDHGTFKILRGENEADIEMGFNNRV  166 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~~~~gi~~~~~~~v  166 (342)
                      |+.||++|||||+++.|.|||+..+.+++
T Consensus       184 G~~WGd~Gy~~i~~g~n~cgI~~~~~~~~  212 (214)
T d1m6da_         184 GTDWGEKGYYYLHRGSGACGVNTMASSAV  212 (214)
T ss_dssp             CTTSTBTTEEEEESSSCGGGTTTTCEEEE
T ss_pred             CCccccCCEEEEEcCCCcccccceeeEEe
Confidence            99999999999999999999999887765

>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=99.88  E-value=1.8e-23  Score=186.51  Aligned_cols=90  Identities=31%  Similarity=0.651  Sum_probs=82.5

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      .|++||||++    ++|+||||||.||||||||++++||++++|+++  ..+.||+|+|++|.....||.||.+..++.|
T Consensus         1 ~P~~~DwR~~----~~vtpV~dQg~cGsCwAfa~~~~~e~~~~~~~~--~~~~lS~q~l~~c~~~~~g~~g~~~~~~~~~   74 (218)
T d1yala_           1 YPQSIDWRAK----GAVTPVKNQGACGSCWAFSTIATVEGINKIVTG--NLLELSEQELVDCDKHSYGCKGGYQTTSLQY   74 (218)
T ss_dssp             CCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCCEeCCCC----CCCCCCccCCCCchHHHHHHHHHHHHHHHHHcC--CCcccchhhhhccccccCCCcccccchhhhh
Confidence            4999999998    789999999999999999999999999999988  4678999999999887779999999999999


Q ss_pred             hhhcccccCCCCCCCCCcccCCC
Q psy1911         267 WGHNGVVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~Gi~~e~~Y~~~~~C~PY~~  289 (342)
                      +.+.|+++|..|       ||..
T Consensus        75 ~~~~g~~~e~~~-------py~~   90 (218)
T d1yala_          75 VANNGVHTSKVY-------PYQA   90 (218)
T ss_dssp             HHHHCBCBTTTS-------CCCS
T ss_pred             hhhhcccccccC-------Cccc
Confidence            999999985555       8875

>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=99.88  E-value=1.4e-23  Score=198.22  Aligned_cols=92  Identities=30%  Similarity=0.540  Sum_probs=81.3

Q ss_pred             ccCCCCCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCC
Q psy1911         181 CQNAKGLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGG  258 (342)
Q Consensus       181 ~~~~~~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG  258 (342)
                      .+...+||++||||+.    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+||||+..  +.||.||
T Consensus        91 ~~~~~~lP~s~Dwr~~----g~vtpVkdQG~CGsCwAfa~~~~~E~~~~i~~~--~~~~lS~Q~lvdC~~~~~~~~c~gg  164 (316)
T d1cs8a_          91 EPLFYEAPRSVDWREK----GYVTPVKNQGQCGSCWAFSATGALEGQMFRKTG--RLISLSEQNLVDCSGPQGNEGCNGG  164 (316)
T ss_dssp             CCTTCCCCSCEEGGGG----TCCCCCCBCCSSSCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCGGGTCCGGGCB
T ss_pred             CcccccCCCceECCcC----CcccccccCCCCceeeehhhhHHHHHHHHhhcC--CcccchhhhhhhccccccCCCCCCC
Confidence            4556789999999998    899999999999999999999999999999998  5678999999999864  3489999


Q ss_pred             chhhHHHHhhhcccc-cCCCC
Q psy1911         259 WPQLAWRFWGHNGVV-TGGDY  278 (342)
Q Consensus       259 ~~~~a~~y~~~~Gi~-~e~~Y  278 (342)
                      ++..||.|+..+|++ ++..|
T Consensus       165 ~~~~a~~y~~~~g~~~~e~~~  185 (316)
T d1cs8a_         165 LMDYAFQYVQDNGGLDSEESY  185 (316)
T ss_dssp             CHHHHHHHHHHHTCEEBTTTS
T ss_pred             chHHHHHHHHhcCcccccccc
Confidence            999999999999754 54444

>d1fh0a_ d.3.1.1 (A:) (Pro)cathepsin V {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.88  E-value=1.5e-23  Score=186.58  Aligned_cols=86  Identities=31%  Similarity=0.641  Sum_probs=76.9

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC--CCCCCCCchhhHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN--CWGCNGGWPQLAW  264 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~--~~GC~GG~~~~a~  264 (342)
                      ||++||||++    ++|+||+|||.||||||||++++||++++++++  ....||+|+|++|...  +.||+||++..|+
T Consensus         1 LP~~~DwR~~----~~vtpV~dQG~cGsCwAfA~~~~~e~~~~~~~~--~~~~lS~~~~~~~~~~~~~~~~~gg~~~~a~   74 (221)
T d1fh0a_           1 LPKSVDWRKK----GYVTPVKNQKQCGSCWAFSATGALEGQMFRKTG--KLVSLSEQNLVDCSRPQGNQGCNGGFMARAF   74 (221)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCCSSCCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCGGGTCCGGGCCCHHHHH
T ss_pred             CCCCeeCCcC----CCCCCCccCCCCchHHHHHHHHHHHHHHHHHcC--CCcccccceeEEeccccCCcccCCCchhhhh
Confidence            8999999998    789999999999999999999999999999988  4678999999999754  3389999999999


Q ss_pred             HHhhhcc-cccCCCC
Q psy1911         265 RFWGHNG-VVTGGDY  278 (342)
Q Consensus       265 ~y~~~~G-i~~e~~Y  278 (342)
                      .|+.+.| ++++..|
T Consensus        75 ~~~~~~g~~~~~~~~   89 (221)
T d1fh0a_          75 QYVKENGGLDSEESY   89 (221)
T ss_dssp             HHHHHHTCEEBTTTS
T ss_pred             hhhhhcCccccccCc
Confidence            9999987 5665555

>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=99.87  E-value=4e-23  Score=183.67  Aligned_cols=90  Identities=30%  Similarity=0.550  Sum_probs=80.3

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      -|++||||+.    ++|+||+||+.||||||||++++||++++|+++  ..+.||+|+|++|.....||.||.+..+++|
T Consensus         1 ~P~~~D~R~~----~~vtpV~dQg~cGsCwAfa~~~~le~~~~~~~~--~~~~~S~q~~~~c~~~~~gc~G~~~~~~~~~   74 (214)
T d1m6da_           1 APPEWDWRSK----GAVTKVKDQGMCGSCWAFSVTGNVEGQWFLNQG--TLLSLSEQELLDCDKMDKACMGGLPSNAYSA   74 (214)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCSSSCTTBCCCHHHHHHH
T ss_pred             CCCceeCCCC----CCCCCCccCCcCccHHHHHHHHHHHHHHHHHcC--CCcccCHHHhccccccCCccCCCcchhhHHH
Confidence            3999999998    889999999999999999999999999999987  4678999999999887779999999999999


Q ss_pred             hhhcc-cccCCCCCCCCCcccCCC
Q psy1911         267 WGHNG-VVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       267 ~~~~G-i~~e~~Y~~~~~C~PY~~  289 (342)
                      +.+.| +++|..|       ||..
T Consensus        75 ~~~~g~~~~e~~~-------py~~   91 (214)
T d1m6da_          75 IKNLGGLETEDDY-------SYQG   91 (214)
T ss_dssp             HHHHTCBCBTTTS-------CCCS
T ss_pred             HHhCCcccccccc-------cccC
Confidence            99987 5554444       8864

>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=99.87  E-value=7.8e-23  Score=181.73  Aligned_cols=85  Identities=34%  Similarity=0.621  Sum_probs=78.4

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||+.    +.|+||+||+.||||||||++++||++++|+++  ..+.||+|+|++|.....||.||....|++|
T Consensus         1 LP~s~Dwr~~----~~v~pV~dQg~cGsCwAfA~~~~le~~~~~~~~--~~~~lS~q~l~~c~~~~~~~~G~~~~~a~~~   74 (215)
T d1iwda_           1 LPSFVDWRSK----GAVNSIKNQKQCGSCWAFSAVAAVESINKIRTG--QLISLSEQELVDCDTASHGCNGGWMNNAFQY   74 (215)
T ss_dssp             CCSCEEGGGG----TCSCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCceeCCcC----CCCCCCccCCCCchHHHHHHHHHHHHHHHHhcC--CCcccChhhheecccCCCCCCCcchhhHHHH
Confidence            8999999998    889999999999999999999999999999988  5679999999999887779999999999999


Q ss_pred             hhhcccccCCC
Q psy1911         267 WGHNGVVTGGD  277 (342)
Q Consensus       267 ~~~~Gi~~e~~  277 (342)
                      +.++|.+++..
T Consensus        75 ~~~~g~~~~~~   85 (215)
T d1iwda_          75 IITNGGIDTQQ   85 (215)
T ss_dssp             HHHHTCBCBTT
T ss_pred             HHhcCeecccc
Confidence            99998776443

>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=99.87  E-value=7.8e-23  Score=181.86  Aligned_cols=105  Identities=24%  Similarity=0.467  Sum_probs=86.2

Q ss_pred             ceeeeeeEEcCchHH---HHHHHHcCCeEEEEee-ccccccccccccccCC-CCCccceEEEEeeecccCCccEEEEecC
Q psy1911          62 SHYFKKAHMVPRCNA---MRQIYEHGPLVAIFSV-YADFLQYKSGVYQHNF-GDSIGLHAVRVLGWGVENDIPYWLVANS  136 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~---~~~i~~~GPV~v~i~v-~~~f~~y~~Gi~~~~~-~~~~~~Hav~ivGyg~~~g~~ywiikNS  136 (342)
                      ...+..+..++..+.   +++|+++|||++.+.+ .++|+.|.+||+.... ....++|+|+|||||++.+.+|||||||
T Consensus       104 ~~~~~~~~~~~~~~~~~ik~~~~~~g~v~~~~~~~~~~f~~y~~gi~~~~~~~~~~~~Hav~iVGy~~~~~~~ywivrNS  183 (215)
T d2r6na1         104 AAKCRGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKNS  183 (215)
T ss_dssp             EECCCEEEECCTTCHHHHHHHHHHTCCEEEEECCCSHHHHTCCSSEECCTTCCTTCCCEEEEEEEEEEETTEEEEEEECS
T ss_pred             ceeecceeeccccHHHHHHHhhcccccEEEEEEeeechhcccCCCcccCCCCCCCCCCeeEEEEEeeccCCCcEEEEEcC
Confidence            344556666654443   6789999999988764 4679999999997644 4456899999999999888899999999


Q ss_pred             CCCCCCCCCceeeecCC-cchhhcccccccc
Q psy1911         137 WNDHWGDHGTFKILRGE-NEADIEMGFNNRV  166 (342)
Q Consensus       137 WG~~WG~~Gy~~i~~~~-~~~gi~~~~~~~v  166 (342)
                      ||+.||++|||||+++. |.|||++.+.+++
T Consensus       184 WG~~WGe~Gy~~i~~~~~n~Cgi~~~~~~p~  214 (215)
T d2r6na1         184 WGENWGNKGYILMARNKNNACGIANLASFPK  214 (215)
T ss_dssp             BCTTSTBTTEEEEESSSSSGGGTTSSCEEEE
T ss_pred             CCCCcccCCeEEEEeCCCCcCcccCcccccc
Confidence            99999999999999996 7999998887653

>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=99.87  E-value=3.2e-23  Score=191.36  Aligned_cols=100  Identities=25%  Similarity=0.502  Sum_probs=85.9

Q ss_pred             cCCCCCCcccccCccCCCCCCCccccccc---ccchHHHHHhhHHHHHHHHHHhCCcc-ccccCHHHHHhhCCCCCCCCC
Q psy1911         182 QNAKGLPRNFDAREKWPECPSLRHIADQS---NCGSCWAVSVANAISDRLCIASNGYF-TGQISAQHIVACTPNCWGCNG  257 (342)
Q Consensus       182 ~~~~~lP~sfD~R~~~~~c~~i~~v~dQg---~CGsCwAfa~~~~le~r~~i~~~~~~-~~~LS~Q~lldC~~~~~GC~G  257 (342)
                      ....+||++||||+.+ ..+.++||+|||   .||||||||++++||++++|++++.. ...||+|+|++|.. .+||.|
T Consensus        29 ~~~~~LP~~~DwR~~~-~~~~~tpvkdQG~~~~CGsCWAfAa~~~lE~~~~i~~~~~~~~~~lS~q~l~~~~~-~~~c~G  106 (275)
T d1deua_          29 LSPADLPKSWDWRNVD-GVNYASITRNQHIPQYCGSCWAHASTSAMADRINIKRKGAWPSTLLSVQNVIDCGN-AGSCEG  106 (275)
T ss_dssp             CCGGGSCSCEETTSBT-TBCCCCCCCBTTCSSCCBCHHHHHHHHHHHHHHHHHTTTCSSCCCBCHHHHHHHSS-SEETBE
T ss_pred             CCcccCCCccccCcCC-CcCCCCCcccCCCCCCCcCHHHHHHHHHHHHHHHHHcCCcccccccchhheecccc-ccccCC
Confidence            3456899999999984 446789999999   69999999999999999999987643 46799999999963 459999


Q ss_pred             CchhhHHHHhhhcccccCCCCCCCCCcccCCCC
Q psy1911         258 GWPQLAWRFWGHNGVVTGGDYNSQEGCQPYTLA  290 (342)
Q Consensus       258 G~~~~a~~y~~~~Gi~~e~~Y~~~~~C~PY~~~  290 (342)
                      |++..+++|+.++|+++|..|       ||...
T Consensus       107 G~~~~a~~~~~~~G~~~e~~~-------PY~~~  132 (275)
T d1deua_         107 GNDLSVWDYAHQHGIPDETCN-------NYQAK  132 (275)
T ss_dssp             ECHHHHHHHHHHTCBCBGGGS-------CCCSS
T ss_pred             cccccccchhhcccccccccc-------ccccc
Confidence            999999999999999997666       88753

>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=99.87  E-value=6.7e-23  Score=182.38  Aligned_cols=90  Identities=30%  Similarity=0.616  Sum_probs=76.8

Q ss_pred             HHHHHHHcCCeEEEEeecccccc-ccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCCCCCCCCceeeecC--
Q psy1911          76 AMRQIYEHGPLVAIFSVYADFLQ-YKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWNDHWGDHGTFKILRG--  152 (342)
Q Consensus        76 ~~~~i~~~GPV~v~i~v~~~f~~-y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~~WG~~Gy~~i~~~--  152 (342)
                      .+++|+++|||+++|.++.+|.. +.+|++..+. ....+|||+|||||++.+.+||||+||||+.||++|||||+|+  
T Consensus       123 ~~~~~~~~gpv~v~~~~~~~~~~~~~~g~~~~~~-~~~~~Hav~iVGyg~~~~~~ywivrNSWG~~WGd~Gy~~i~~~~~  201 (218)
T d1aeca_         123 ALQTAVTYQPVSVALDAAGDAFKQYSSGIFTGPC-GTAIDHAVTIVGYGTEGGIDYWIVKNSWDTTWGEEGYMRILRNVG  201 (218)
T ss_dssp             HHHHHHHHSCEEEEECCCSHHHHHCCSSEECCSC-CSSCCEEEEEEEEEEETTEEEEEEECSBCTTSTBTTEEEEECCCS
T ss_pred             HHHHHhhcCCceeEEEecchhhhcCCCCcccccc-cccCCceeEEEEEeccCCeEEEEEEcCCCCCcccCCEEEEEeCCC
Confidence            38899999999999998876555 5566665544 4446999999999999999999999999999999999999985  


Q ss_pred             -Ccchhhcccccccc
Q psy1911         153 -ENEADIEMGFNNRV  166 (342)
Q Consensus       153 -~~~~gi~~~~~~~v  166 (342)
                       .|.|||++.+.++|
T Consensus       202 ~~~~Cgi~~~~~~~~  216 (218)
T d1aeca_         202 GAGTCGIATMPSYPV  216 (218)
T ss_dssp             TTCGGGTTSSCEEEE
T ss_pred             CCcccccCCcceecc
Confidence             48899999888775

>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=99.87  E-value=6.7e-23  Score=182.32  Aligned_cols=86  Identities=29%  Similarity=0.567  Sum_probs=78.4

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      -|++||||++    ++|+||+|||.||||||||++++||++++|+++  ..+.||+|+|++|.....+|.||+...|++|
T Consensus         1 ~P~~~DwR~~----~~vtpV~dQG~cGsCwAfa~~~~~e~~~~~~~~--~~~~lS~q~l~~c~~~~~~c~G~~~~~a~~~   74 (215)
T d2r6na1           1 APDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTG--KLLNLSPQNLVDCVSENDGCGGGYMTNAFQY   74 (215)
T ss_dssp             CCSCEETTTT----TCCCCCCBCTTSCCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCGGGCCCHHHHHHH
T ss_pred             CCCCEeCccC----CCCCCCccCccChhHHHHHHHHHHHHHHHHHhC--CCccchhhhhhhcccccCccCCcchhhHHHH
Confidence            3999999998    889999999999999999999999999999998  4678999999999887779999999999999


Q ss_pred             hhhcc-cccCCCC
Q psy1911         267 WGHNG-VVTGGDY  278 (342)
Q Consensus       267 ~~~~G-i~~e~~Y  278 (342)
                      +...| +.++..|
T Consensus        75 ~~~~g~~~~~~~y   87 (215)
T d2r6na1          75 VQKNRGIDSEDAY   87 (215)
T ss_dssp             HHHHTCEEBTTTS
T ss_pred             HHhcCccccccCC
Confidence            99987 5665555

>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=99.87  E-value=8.5e-23  Score=181.59  Aligned_cols=103  Identities=22%  Similarity=0.384  Sum_probs=84.2

Q ss_pred             eeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCC
Q psy1911          63 HYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWND  139 (342)
Q Consensus        63 ~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~  139 (342)
                      ..+.....+....+  +++++.+|||+++|.+. ..|+.|.+|+|..+.... ++|||+|||||++.+.+|||||||||+
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~l~~gpv~~~~~~~~~~~~~y~~g~~~~~~~~~-~~Hav~iVGyg~~~~~~ywivrNSWG~  183 (216)
T d1ppoa_         105 VKTSGVGRVQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEGPCGTK-VDHAVTAVGYGKSGGKGYILIKNSWGT  183 (216)
T ss_dssp             BCCCEEEECCSSCHHHHHHHHHHSCEEEEECCCSHHHHHCCSSEECCSCCSC-CCEEEEEEEEEEETTEEEEEEECSBCS
T ss_pred             eeeccceeecccHHHHHHHHHhhCCCceeeeeccccceecCCcccccccccc-CCcEEEEEeccccCCCceEEEECCCCC
Confidence            33444555555443  78888999999999976 456789999997766544 699999999999888999999999999


Q ss_pred             CCCCCCceeeecCC----cchhhcccccccc
Q psy1911         140 HWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       140 ~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      .||++|||||+++.    |.|||+..+.+|+
T Consensus       184 ~WGd~Gy~~i~~~~~~~~~~Cgi~~~~~~p~  214 (216)
T d1ppoa_         184 AWGEKGYIRIKRAPGNSPGVCGLYKSSYYPT  214 (216)
T ss_dssp             SSTBTTEEEEECCCSSSSCGGGTTSCCEEEE
T ss_pred             CcccCCEEEEEcCCCCCCCcCccccEeeeee
Confidence            99999999999986    4599988877664

>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=99.87  E-value=1.2e-22  Score=179.45  Aligned_cols=82  Identities=30%  Similarity=0.571  Sum_probs=75.6

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      ||++||||++    ++|+||+|||.||||||||++++||++++++++  ..+.||+|+|++|.....+|.||.+..++.|
T Consensus         1 LP~~~D~R~~----~~vtpV~dQg~cGsCwAfA~~~~le~~~~~~~~--~~~~lS~q~l~~c~~~~~~~~g~~~~~~~~~   74 (208)
T d1o0ea_           1 LPEQIDWRKK----GAVTPVKNQGSCGSCWAFSTVSTVESINQIRTG--NLISLSEQELVDCDKKNHGCLGGAFVFAYQY   74 (208)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCTTSCTTBCCCHHHHHHH
T ss_pred             CCCcccCccC----CCCCCcccCCCCccHHHHHHHHHHHHHHHHHhC--CCCCcCHHHhhhhccCCCCCCCccchhhhhh
Confidence            8999999998    789999999999999999999999999999988  4678999999999877779999999999999


Q ss_pred             hhhccccc
Q psy1911         267 WGHNGVVT  274 (342)
Q Consensus       267 ~~~~Gi~~  274 (342)
                      +...|++.
T Consensus        75 ~~~~g~~~   82 (208)
T d1o0ea_          75 IINNGGID   82 (208)
T ss_dssp             HHHHTCBC
T ss_pred             hhhcCccc
Confidence            98887543

>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=99.86  E-value=1.2e-22  Score=180.37  Aligned_cols=86  Identities=34%  Similarity=0.677  Sum_probs=76.2

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCC---CCCCCCCchhhH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPN---CWGCNGGWPQLA  263 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~---~~GC~GG~~~~a  263 (342)
                      ||++||||+.    ++|+||+|||.||||||||++++||++++|+++.  ...||+|+|++|...   ..||+||++..|
T Consensus         1 LP~~~Dwr~~----~~vtpV~dQG~cGsCwAfA~~~~~e~~~~i~~~~--~~~~S~~~~~~~~~~~~~~~gc~gg~~~~a   74 (217)
T d2h7ja1           1 LPDSVDWREK----GCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGK--LVSLSAQNLVDCSTEKYGNKGCNGGFMTTA   74 (217)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCTTSBCHHHHHHHHHHHHHHHHHHSC--CCCBCHHHHHHHSCGGGTCCTTBCCCHHHH
T ss_pred             CCCcccCCcC----CCCCCCccCCCchHHHHHHHHHHHHHHHHHHhCC--CCcccHHHhhhhhcccccCCCCCCCcccce
Confidence            8999999998    7899999999999999999999999999999984  578999999999863   349999999999


Q ss_pred             HHHhhhc-ccccCCCC
Q psy1911         264 WRFWGHN-GVVTGGDY  278 (342)
Q Consensus       264 ~~y~~~~-Gi~~e~~Y  278 (342)
                      +.++... |++++..|
T Consensus        75 ~~~~~~~~g~~~~~~~   90 (217)
T d2h7ja1          75 FQYIIDNKGIDSDASY   90 (217)
T ss_dssp             HHHHHHHTCEEBTTTS
T ss_pred             eeehhhcccccccccC
Confidence            9886554 78876666

>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=99.86  E-value=1.5e-22  Score=180.04  Aligned_cols=90  Identities=32%  Similarity=0.617  Sum_probs=79.8

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCC--CCCCCCchhhHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNC--WGCNGGWPQLAW  264 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~--~GC~GG~~~~a~  264 (342)
                      ||++||||+.    +.|+||+|||.||||||||++++||++++|+++  ..+.||+|+|++|+...  .+|.||....++
T Consensus         1 LP~~~Dwr~~----~~itpV~dQg~cGsCwAfA~~~~~e~~~~~~~~--~~~~lS~q~~~~c~~~~~~~~~~G~~~~~~~   74 (218)
T d1aeca_           1 LPSYVDWRSA----GAVVDIKSQGECGGCWAFSAIATVEGINKIVTG--VLISLSEQELIDCGRTQNTRGCNGGYITDGF   74 (218)
T ss_dssp             CCSCEEGGGG----TCCCCCCBCTTSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCCBTTBCTTBCCCHHHHH
T ss_pred             CCCceeCCCC----CCCCCCccCCCChhHHHHHHHHHHHHHHHHhcC--CCcchhhhhhhhhccccCCcccCCCcccccc
Confidence            8999999998    889999999999999999999999999999998  46789999999998643  388999999999


Q ss_pred             HHhhhcc-cccCCCCCCCCCcccCCC
Q psy1911         265 RFWGHNG-VVTGGDYNSQEGCQPYTL  289 (342)
Q Consensus       265 ~y~~~~G-i~~e~~Y~~~~~C~PY~~  289 (342)
                      .++.+.| |.+|..|       ||..
T Consensus        75 ~~~~~~g~v~~e~~y-------p~~~   93 (218)
T d1aeca_          75 QFIINNGGINTEENY-------PYTA   93 (218)
T ss_dssp             HHHHHHTCBCBTTTS-------CCCS
T ss_pred             eeehhCceecCcccc-------Cccc
Confidence            9999987 6665555       8864

>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=99.86  E-value=1.6e-22  Score=180.41  Aligned_cols=105  Identities=25%  Similarity=0.525  Sum_probs=84.8

Q ss_pred             eeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeeccc-CCccEEEEecCCCC
Q psy1911          64 YFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVE-NDIPYWLVANSWND  139 (342)
Q Consensus        64 ~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~-~g~~ywiikNSWG~  139 (342)
                      .+..+..+...+.  +++++..+||++++.+. ++|+.|.+|+|..... ...+|||+|||||++ ++.+|||||||||+
T Consensus       109 ~~~~~~~~~~~~~~~~k~~l~~~pv~~~~~~~~~~~~~y~~g~~~~~~~-~~~~Hav~iVGy~~~~~g~~ywiikNSWG~  187 (224)
T d1s4va_         109 SIDGHENVPENDENALLKAVANQPVSVAIDAGGSDFQFYSEGVFTGSCG-TELDHGVAIVGYGTTIDGTKYWTVKNSWGP  187 (224)
T ss_dssp             CCCEEEECCTTCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCCCC-CCCCEEEEEEEEEECTTSCEEEEEECSBCT
T ss_pred             eecccccccCccHHHHHHHHhcCCceEEEEecchhhhhccCCCccCccc-ccCCcceEEEecccccCCceEEEEEcCCCC
Confidence            3445555555444  77777789998888765 6799999999976443 446999999999976 67899999999999


Q ss_pred             CCCCCCceeeecCC----cchhhccccccccccC
Q psy1911         140 HWGDHGTFKILRGE----NEADIEMGFNNRVEAN  169 (342)
Q Consensus       140 ~WG~~Gy~~i~~~~----~~~gi~~~~~~~v~~~  169 (342)
                      .||++|||||+|+.    |.|||+..+.+|++..
T Consensus       188 ~WG~~Gy~~i~~g~~~~~n~CgI~~~~~yp~~~~  221 (224)
T d1s4va_         188 EWGEKGYIRMERGISDKEGLCGIAMEASYPIKKS  221 (224)
T ss_dssp             TSTBTTEEEEECSCSSTTCGGGTTSSCEEEECCS
T ss_pred             ccccCceEEEECCCCCCCCcCCccceeeeeeccC
Confidence            99999999999974    6799999988887654

>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=99.86  E-value=3e-22  Score=178.66  Aligned_cols=83  Identities=35%  Similarity=0.617  Sum_probs=74.8

Q ss_pred             CCCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCC-CCCCCchhhHH
Q psy1911         186 GLPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCW-GCNGGWPQLAW  264 (342)
Q Consensus       186 ~lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~-GC~GG~~~~a~  264 (342)
                      .||++||||+.    ++|+||+|||.||||||||++++||++++|+++  ....||+|+|++|+.... +|.||....|+
T Consensus         1 ~lP~~~Dwr~~----~~itpV~dQG~cGsCwAfA~~~~~e~~~~~~~~--~~~~~S~q~l~~c~~~~~~~~~G~~~~~a~   74 (224)
T d1s4va_           1 TVPASVDWRKK----GAVTSVKDQGQCGSCWAFSTIVAVEGINQIKTN--KLVSLSEQELVDCDTDQNQGCNGGLMDYAF   74 (224)
T ss_dssp             CCCSCEETTTT----TCCCCCCBCCSSBCHHHHHHHHHHHHHHHHHHS--CCCCBCHHHHHHHCCSSCCTTBCBCHHHHH
T ss_pred             CCCCceeCCCC----CCCCCCccCCcCchHHHHHHHHHHHHHHHHhcC--CCCccchhhhhhccccccccCCCCchhhHh
Confidence            48999999997    899999999999999999999999999999987  567899999999986544 88999999999


Q ss_pred             HHhhhccccc
Q psy1911         265 RFWGHNGVVT  274 (342)
Q Consensus       265 ~y~~~~Gi~~  274 (342)
                      .++.+.|.++
T Consensus        75 ~~~~~~g~~~   84 (224)
T d1s4va_          75 EFIKQRGGIT   84 (224)
T ss_dssp             HHHHHHTCBC
T ss_pred             hhHhhcCcee
Confidence            9998886554

>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=99.85  E-value=5.1e-22  Score=175.32  Aligned_cols=101  Identities=25%  Similarity=0.461  Sum_probs=83.3

Q ss_pred             cceeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCC
Q psy1911          61 LSHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSW  137 (342)
Q Consensus        61 ~~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSW  137 (342)
                      ....+..+......+.  +++++.+|||++++.+. +.|..|.+|+|..+.+. .++|||+|||||++    ||||||||
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~pv~~~~~~~~~~f~~~~~g~~~~~~~~-~~~Hav~iVGyg~~----ywivrNSW  177 (212)
T d1khqa_         103 YAAKTDGVRQVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGN-KVDHAVAAVGYGPN----YILIKNSW  177 (212)
T ss_dssp             CSBCCCEEEECCTTCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCSCCS-CCCEEEEEEEEETT----EEEEECSB
T ss_pred             ceeeeeeeeeeccccHHHHHHHHhcCCcEEEEEeecchhcccccCcccccccc-ccCeEEEecccCCc----EEEEEcCC
Confidence            3445556666666555  88899999999888755 67999999999776654 46999999999864    99999999


Q ss_pred             CCCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         138 NDHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       138 G~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      |+.||++|||||+++.    |.|||++.+.+|+
T Consensus       178 G~~WGd~Gy~~i~~~~~~~~~~Cgi~~~~~~p~  210 (212)
T d1khqa_         178 GTGWGENGYIRIKRGTGNSYGVCGLYTSSFYPV  210 (212)
T ss_dssp             CTTSTBTTEEEEECCSCCTTCGGGTTSCCEEEE
T ss_pred             CCCcccCCEEEEEcCCCCCCCcCCcccEeeeec
Confidence            9999999999999986    5699999887765

>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=99.85  E-value=4.9e-22  Score=176.27  Aligned_cols=104  Identities=27%  Similarity=0.542  Sum_probs=87.0

Q ss_pred             eeeeeeEEcCchHH--HHHHHHcCCeEEEEeec-cccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCC
Q psy1911          63 HYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWND  139 (342)
Q Consensus        63 ~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~  139 (342)
                      ..+..+..+...++  ++.|+..+||++++.+. .+|..|.+|||.... ...++|||+|||||++.+.+||||+||||+
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~pv~~~~~~~~~~~~~y~~gi~~~~~-~~~~~Hav~iVGyg~~~~~~~wiv~NSWG~  183 (216)
T d1cqda_         105 VSIDSYENVPSHNEQSLQKAVANQPVSVTMDAAGRDFQLYRSGIFTGSC-NISANHALTVVGYGTENDKDFWIVKNSWGK  183 (216)
T ss_dssp             BCCSEEEECCSSCHHHHHHHHTTSCEEEEECCCSHHHHTCCSSEECCCC-CCCCCEEEEEEEEEEETTEEEEEEECSBCT
T ss_pred             eEeeeEEecCCcchhhHHHHhhcCCcceeeeeecccccccccCcccccc-cccCCcceeeeccccccCCceEEEECCCCC
Confidence            44556666666655  78888999999998876 578999999997644 455799999999999999999999999999


Q ss_pred             CCCCCCceeeecCC----cchhhccccccccc
Q psy1911         140 HWGDHGTFKILRGE----NEADIEMGFNNRVE  167 (342)
Q Consensus       140 ~WG~~Gy~~i~~~~----~~~gi~~~~~~~v~  167 (342)
                      .||++|||||+++.    +.|||+..+.++++
T Consensus       184 ~WGd~Gy~~i~~~~~~~~~~Cgi~~~~~~p~~  215 (216)
T d1cqda_         184 NWGESGYIRAERNIENPDGKCGITRFASYPVK  215 (216)
T ss_dssp             TSTBTTEEEEECSCSSTTCGGGTTSSCEEEEC
T ss_pred             ccccCCEEEEEcCCCCCCCCCCccceeeeeec
Confidence            99999999999975    57999988887754

>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=99.85  E-value=4.2e-22  Score=176.91  Aligned_cols=104  Identities=23%  Similarity=0.463  Sum_probs=86.4

Q ss_pred             ceeeeeeEEcCchHH--HHHHHHcCCeEEEEeeccc-cccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCC
Q psy1911          62 SHYFKKAHMVPRCNA--MRQIYEHGPLVAIFSVYAD-FLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWN  138 (342)
Q Consensus        62 ~~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~v~~~-f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG  138 (342)
                      ...+.+|+.+....+  +++|+..|||++++.+..+ |..+.+|+|..+++.. .+|+|+|||||++.+.+|||||||||
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~pv~~~~~~~~~~~~~~~~g~~~~~~~~~-~~Hav~iVGyg~~~~~~ywiirNSWG  181 (215)
T d1iwda_         103 VVSINGFQRVTRNNESALQSAVASQPVSVTVEAAGAPFQHYSSGIFTGPCGTA-QNHGVVIVGYGTQSGKNYWIVRNSWG  181 (215)
T ss_dssp             CBCCCEEEECCTTCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCCCCCC-CCEEEEEEEEEEETTEEEEEEECSBC
T ss_pred             eeEeccccccCccHHHHHHHHHhcCCccceeeecchhhhccccCccccccccc-ccceEEEEEeecCCCceEEEEECCCC
Confidence            355667778776655  8889999999999987754 5556788887766544 69999999999999999999999999


Q ss_pred             CCCCCCCceeeecCC----cchhhcccccccc
Q psy1911         139 DHWGDHGTFKILRGE----NEADIEMGFNNRV  166 (342)
Q Consensus       139 ~~WG~~Gy~~i~~~~----~~~gi~~~~~~~v  166 (342)
                      +.||++|||||+|+.    |.|||...+.++.
T Consensus       182 ~~WGd~Gy~~I~~~~~~~~~~CGi~~~~~~p~  213 (215)
T d1iwda_         182 QNWGNQGYIWMERNVASSAGLCGIAQLPSYPT  213 (215)
T ss_dssp             TTSTBTTEEEEECSCSSTTCGGGTTSSCEEEE
T ss_pred             cccccCCEEEEECCCCCCCCcCCccccceeec
Confidence            999999999999985    5799988877664

>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=99.85  E-value=5.8e-22  Score=174.96  Aligned_cols=100  Identities=28%  Similarity=0.502  Sum_probs=83.0

Q ss_pred             eeeeeeEEcCchHH--HHHHHHcCCeEEEEe-eccccccccccccccCCCCCccceEEEEeeecccCCccEEEEecCCCC
Q psy1911          63 HYFKKAHMVPRCNA--MRQIYEHGPLVAIFS-VYADFLQYKSGVYQHNFGDSIGLHAVRVLGWGVENDIPYWLVANSWND  139 (342)
Q Consensus        63 ~~i~~~~~v~~~~~--~~~i~~~GPV~v~i~-v~~~f~~y~~Gi~~~~~~~~~~~Hav~ivGyg~~~g~~ywiikNSWG~  139 (342)
                      ..+..+..++..++  +++++..|||++++. +...|..|.+|||..+.+. ..+|||+|||||++    |||||||||+
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~pv~~~~~~~~~~f~~~~~gi~~~~~~~-~~~Hav~iVGy~~~----ywiirNSWG~  177 (208)
T d1o0ea_         103 VSIDGYNGVPFCNEXALKQAVAVQPSTVAIDASSAQFQQYSSGIFSGPCGT-KLNHGVTIVGYQAN----YWIVRNSWGR  177 (208)
T ss_dssp             BCCCEEEECCTTCHHHHHHHHHHSCEEEEECCCSHHHHTCCSSEECCCCCS-CCCEEEEEEEECSS----EEEEECSBCT
T ss_pred             cccccccccccchhhHHHHHhhcCCceEEEEecchhhcccccCcccccccc-cCCcEEEEEeeecc----eEEEECCCCC
Confidence            45566777777665  788888899988887 5578999999999776554 45999999999764    9999999999


Q ss_pred             CCCCCCceeeecC--Ccchhhccccccccc
Q psy1911         140 HWGDHGTFKILRG--ENEADIEMGFNNRVE  167 (342)
Q Consensus       140 ~WG~~Gy~~i~~~--~~~~gi~~~~~~~v~  167 (342)
                      .||++|||||+|+  .|.|||+..+.+++.
T Consensus       178 ~WGd~Gy~~I~~~~~~~~Cgi~~~~~~p~~  207 (208)
T d1o0ea_         178 YWGEKGYIRMLRVGGCGLCGIARLPYYPTK  207 (208)
T ss_dssp             TSTBTTEEEEECCSTTCGGGTTSSCEEEEC
T ss_pred             CcccCCeEEEEccCCCCccCccccceeccC
Confidence            9999999999994  478999999887764

>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=99.85  E-value=4.8e-22  Score=186.58  Aligned_cols=104  Identities=20%  Similarity=0.328  Sum_probs=80.3

Q ss_pred             eeeeeeEEcCchHH---HHHHHHcC-CeEEEEee--ccccccccccccccCCC-CCccceEEEEeeecccCCccEEEEec
Q psy1911          63 HYFKKAHMVPRCNA---MRQIYEHG-PLVAIFSV--YADFLQYKSGVYQHNFG-DSIGLHAVRVLGWGVENDIPYWLVAN  135 (342)
Q Consensus        63 ~~i~~~~~v~~~~~---~~~i~~~G-PV~v~i~v--~~~f~~y~~Gi~~~~~~-~~~~~Hav~ivGyg~~~g~~ywiikN  135 (342)
                      +.+.++..+...+.   +++++..+ ||++.+.+  ...|+.|.+||+....+ ...++|||+|||||+++|.+||||||
T Consensus       188 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~y~~gi~~~~~~~~~~~~HaV~iVGyg~~~g~~YWivkN  267 (302)
T d1xkga1         188 FGISNYCQIYPPNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNAQGVDYWIVRN  267 (302)
T ss_dssp             ECCSEEEECCSCCHHHHHHHHHHHCCCEEEEEEESCHHHHHTCCSSSCBCCCCSSCCEEEEEEEEEEEEETTEEEEEEEC
T ss_pred             ceeeeeeeecCchHHHHHHhhhhcccccceeecccccchhhccccceeecCCCCCCcCCEEEEEEEEeccCCeEEEEEEc
Confidence            44666766644333   56666655 55555443  35688899998865544 44568999999999999999999999


Q ss_pred             CCCCCCCCCCceeeecCCcchhhcccccccc
Q psy1911         136 SWNDHWGDHGTFKILRGENEADIEMGFNNRV  166 (342)
Q Consensus       136 SWG~~WG~~Gy~~i~~~~~~~gi~~~~~~~v  166 (342)
                      |||+.||++|||||+|+.|.|||+..+..++
T Consensus       268 SWG~~WGe~GY~~i~~~~n~cgi~~~~~~~~  298 (302)
T d1xkga1         268 SWDTNWGDNGYGYFAANIDLMMIEEYPYVVI  298 (302)
T ss_dssp             SBCTTSTBTTEEEEECSSCGGGTTTCCEEEE
T ss_pred             CCCCchhcCCEEEEECCCCeeccCCCcEEEE
Confidence            9999999999999999999999988776654

>d1fh0a_ d.3.1.1 (A:) (Pro)cathepsin V {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.84  E-value=1.7e-21  Score=173.23  Aligned_cols=89  Identities=33%  Similarity=0.614  Sum_probs=77.6

Q ss_pred             HHHHHHcCCeEEEEeec-cccccccccccccCC-CCCccceEEEEeeeccc----CCccEEEEecCCCCCCCCCCceeee
Q psy1911          77 MRQIYEHGPLVAIFSVY-ADFLQYKSGVYQHNF-GDSIGLHAVRVLGWGVE----NDIPYWLVANSWNDHWGDHGTFKIL  150 (342)
Q Consensus        77 ~~~i~~~GPV~v~i~v~-~~f~~y~~Gi~~~~~-~~~~~~Hav~ivGyg~~----~g~~ywiikNSWG~~WG~~Gy~~i~  150 (342)
                      +++|+.+|||+++|.+. ..|+.|.+|++..+. .....+|+|+|||||.+    ++.+|||||||||+.||++|||||+
T Consensus       124 ~~~~~~~~pv~~~~~~~~~~~~~y~~g~~~~~~~~~~~~~ha~~ivG~g~~~~~~~~~~ywivrNSWG~~WGd~Gy~~i~  203 (221)
T d1fh0a_         124 MKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDCSSKNLDHGVLVVGYGFEGANSDNSKYWLVKNSWGPEWGSNGYVKIA  203 (221)
T ss_dssp             HHHHHHTCCEEEEECCCSHHHHTCCSSEECCTTCCSSCCCEEEEEEEEEESSSCTTSSEEEEEECSBCTTSTBTTEEEEE
T ss_pred             HHHHHhcCCceEEEEeccccccccCCCccccccccccCCcccEEEeeEeccCcCCCCceEEEEEeCCCCCcccCCEEEEE
Confidence            89999999999999886 579999999986654 34457999999999853    5778999999999999999999999


Q ss_pred             cCC-cchhhccccccc
Q psy1911         151 RGE-NEADIEMGFNNR  165 (342)
Q Consensus       151 ~~~-~~~gi~~~~~~~  165 (342)
                      |+. |.|||+..+.+|
T Consensus       204 ~~~~n~CgI~~~~~yp  219 (221)
T d1fh0a_         204 KDKNNHCGIATAASYP  219 (221)
T ss_dssp             CSSSSGGGTTTSCEEE
T ss_pred             eCCCCccccCCCcccc
Confidence            985 899999888765

>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=99.83  E-value=3e-21  Score=171.36  Aligned_cols=86  Identities=29%  Similarity=0.553  Sum_probs=75.9

Q ss_pred             CCcccccCccCCCCCCCcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhhCCCCCCCCCCchhhHHHH
Q psy1911         187 LPRNFDAREKWPECPSLRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVACTPNCWGCNGGWPQLAWRF  266 (342)
Q Consensus       187 lP~sfD~R~~~~~c~~i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC~~~~~GC~GG~~~~a~~y  266 (342)
                      -|++||||+.    ++|+||+||+.||||||||++++||++++|+++  ....||+|+|++|.....+|.|+....++.+
T Consensus         1 ~P~~~DwR~~----~~vtpV~dQg~cGsCwAfa~~~~le~~~~i~~~--~~~~ls~q~l~~c~~~~~~~~g~~~~~~~~~   74 (215)
T d1me4a_           1 APAAVDWRAR----GAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGH--PLTNLSEQMLVSCDKTDSGCSGGLMNNAFEW   74 (215)
T ss_dssp             CCSEEEGGGT----TCCCCCCBCTTSSCHHHHHHHHHHHHHHHHTTS--CCCCBCHHHHHHHCTTSCGGGCCCHHHHHHH
T ss_pred             CCCCeeCCCC----CCCCCCccCCcCccHHHHHHHHHHHHHHHHhcC--CCcccchhhhhhhhcCCCCCCCCccccccee
Confidence            3999999998    899999999999999999999999999999988  4678999999999877668999988888888


Q ss_pred             hhhc---ccccCCCC
Q psy1911         267 WGHN---GVVTGGDY  278 (342)
Q Consensus       267 ~~~~---Gi~~e~~Y  278 (342)
                      +...   |++++.+|
T Consensus        75 ~~~~~~~~~~~~~~y   89 (215)
T d1me4a_          75 IVQENNGAVYTEDSY   89 (215)
T ss_dssp             HHHHSTTEEEBTTTS
T ss_pred             eeeccCCccccCccc
Confidence            7443   68887777

>d3gcba_ d.3.1.1 (A:) Bleomycin hydrolase {Baker's yeast (Saccharomyces cerevisiae), Gal6 [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Bleomycin hydrolase
species: Baker's yeast (Saccharomyces cerevisiae), Gal6 [TaxId: 4932]

Probab=98.87  E-value=1.9e-09  Score=104.81  Aligned_cols=85  Identities=19%  Similarity=0.288  Sum_probs=63.6

Q ss_pred             eeEEcCchHH----HHHHHHcCCeEEEEeeccccccccccccccC--------------------CCCCccceEEEEeee
Q psy1911          67 KAHMVPRCNA----MRQIYEHGPLVAIFSVYADFLQYKSGVYQHN--------------------FGDSIGLHAVRVLGW  122 (342)
Q Consensus        67 ~~~~v~~~~~----~~~i~~~GPV~v~i~v~~~f~~y~~Gi~~~~--------------------~~~~~~~Hav~ivGy  122 (342)
                      .|++|+-++.    +.+|...-||.++-+|.. ++....||....                    ...+..+|||+|+|+
T Consensus       303 ~y~Nvp~d~lk~~~~~sL~~g~pVwfgcDV~k-~f~~k~Gi~d~~~~~~~~~~~~~~~~K~~Rl~~~es~~tHAM~ltGv  381 (458)
T d3gcba_         303 IYLNVDNETLSKLVVKRLQNNKAVFFGSHTPK-FMDKKTGVMDIELWNYPAIGYNLPQQKASRIRYHESLMTHAMLITGC  381 (458)
T ss_dssp             EEEECCHHHHHHHHHHHHHTTCCEEEEECTTT-TEETTTTEECTTSBCGGGGTCCCCCCHHHHHHTTSCCCCEEEEEEEE
T ss_pred             EEeecCHHHHHHHHHHHHhcCCcEEEEecccc-cccccccccccccccccccCCCcccCHHHHHHhCCCCCCeeEEEEEE
Confidence            5889999887    334544449999999985 566666765321                    112457999999999


Q ss_pred             ccc-CCc--cEEEEecCCCCCCCCCCceeeecC
Q psy1911         123 GVE-NDI--PYWLVANSWNDHWGDHGTFKILRG  152 (342)
Q Consensus       123 g~~-~g~--~ywiikNSWG~~WG~~Gy~~i~~~  152 (342)
                      +.+ .|.  .+|+|+||||+.+|++||+.++..
T Consensus       382 ~~D~~g~~~~~w~VeNSWG~~~g~~Gy~~msd~  414 (458)
T d3gcba_         382 HVDETSKLPLRYRVENSWGKDSGKDGLYVMTQK  414 (458)
T ss_dssp             EECTTTCSEEEEEEECSBCTTSTBTTEEEEEHH
T ss_pred             EEcCCCCccceEEEEeccCCCCCCCceEEecHH
Confidence            853 443  599999999999999999999853

>d2cb5a_ d.3.1.1 (A:) Bleomycin hydrolase {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.63  E-value=3.5e-08  Score=95.45  Aligned_cols=84  Identities=20%  Similarity=0.288  Sum_probs=61.3

Q ss_pred             eEEcCchHH---HHHHHHcC-CeEEEEeeccccccccccccc-----------cCC-----------CCCccceEEEEee
Q psy1911          68 AHMVPRCNA---MRQIYEHG-PLVAIFSVYADFLQYKSGVYQ-----------HNF-----------GDSIGLHAVRVLG  121 (342)
Q Consensus        68 ~~~v~~~~~---~~~i~~~G-PV~v~i~v~~~f~~y~~Gi~~-----------~~~-----------~~~~~~Hav~ivG  121 (342)
                      |++||-++.   +.+.+..| ||-.+-+|...| ....||..           ...           .....+|||+|+|
T Consensus       299 y~Nvp~d~l~~~~~~sL~~g~~VwfgcDV~k~~-~~k~Gv~d~~~~d~~~~fg~~~~~m~K~~Rl~y~es~~tHAM~ltG  377 (453)
T d2cb5a_         299 YNNQPIDFLKKMVAASIKDGEAVWFGCDVGKHF-NSKLGLSDMNLYDHELVFGVSLKNMNKAERLTFGESLMTHAMTFTA  377 (453)
T ss_dssp             EEECCHHHHHHHHHHHHHTTCCEEEEECTTTTE-ETTTTEECTTSBCHHHHHSCCSCSSCHHHHHHTTSCCCCEEEEEEE
T ss_pred             EEecCHHHHHHHHHHHHhcCCcEEEEcccchhc-chhccccccccccccccccCCcccCCHHHHHHhcCcCCCceEEEEE
Confidence            999999887   23334455 999999998544 44444431           111           1345689999999


Q ss_pred             ecc---cCCc-cEEEEecCCCCCCCCCCceeeecC
Q psy1911         122 WGV---ENDI-PYWLVANSWNDHWGDHGTFKILRG  152 (342)
Q Consensus       122 yg~---~~g~-~ywiikNSWG~~WG~~Gy~~i~~~  152 (342)
                      ++.   ++|. .+|+|+||||+..|.+||+.++..
T Consensus       378 v~l~dd~~G~~~~w~VENSWG~~~g~kGy~~Msd~  412 (453)
T d2cb5a_         378 VSEKDDQDGAFTKWRVENSWGEDHGHKGYLCMTDE  412 (453)
T ss_dssp             EEECTTSCSCEEEEEEECSBCTTSTBTTEEEEEHH
T ss_pred             EecccccCCCEeEEEEEccccCcCCCCceEEecHH
Confidence            973   4555 689999999999999999999853

>d3gcba_ d.3.1.1 (A:) Bleomycin hydrolase {Baker's yeast (Saccharomyces cerevisiae), Gal6 [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Papain-like
domain: Bleomycin hydrolase
species: Baker's yeast (Saccharomyces cerevisiae), Gal6 [TaxId: 4932]

Probab=97.37  E-value=7e-05  Score=72.07  Aligned_cols=77  Identities=13%  Similarity=0.157  Sum_probs=60.9

Q ss_pred             CcccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHHhh----------------CC------------CCCC
Q psy1911         203 LRHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIVAC----------------TP------------NCWG  254 (342)
Q Consensus       203 i~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~lldC----------------~~------------~~~G  254 (342)
                      .+||.||+.-|-||.||++.+|+..+....+. ....||+.+|+--                ..            ...-
T Consensus        66 ~~~vtnQ~~SGrCW~FA~ln~lr~~~~~~~~~-~~felSq~Yl~f~dklEKan~fL~~ii~~~~~~~~~R~v~~ll~~~~  144 (458)
T d3gcba_          66 STPVTNQKSSGRAWLFAATNQLRLNVLSELNL-KEFELSQAYLFFYDKLEKANYFLDQIVSSADQDIDSRLVQYLLAAPT  144 (458)
T ss_dssp             CCSCCBCCBSSCHHHHHHHHHHHHHHHHHTTC-SSCCBCHHHHHHHHHHHHHHHHHHHHHHTTTSCTTSHHHHHHHHCTT
T ss_pred             CCCcccCCCCcccHHHhChHHHHHHHHHHcCC-CCeeecHHHHHHhhHHHHHHHHHHHHHHhcCCCcchHHHHHHhhccc
Confidence            47899999999999999999999988776554 4689998654332                11            0125


Q ss_pred             CCCCchhhHHHHhhhcccccCCCCCC
Q psy1911         255 CNGGWPQLAWRFWGHNGVVTGGDYNS  280 (342)
Q Consensus       255 C~GG~~~~a~~y~~~~Gi~~e~~Y~~  280 (342)
                      .+||.-..+..-+.++|||+.+.||.
T Consensus       145 ~DGG~w~m~~nli~KYG~VPk~~ype  170 (458)
T d3gcba_         145 EDGGQYSMFLNLVKKYGLIPKDLYGD  170 (458)
T ss_dssp             CSCBCHHHHHHHHHHHCCCBGGGSCS
T ss_pred             CCCccHHHHHHHHHHcCCCcHhhcCC
Confidence            79999999999999999999888843

>d2cb5a_ d.3.1.1 (A:) Bleomycin hydrolase {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.24  E-value=0.00023  Score=68.10  Aligned_cols=75  Identities=17%  Similarity=0.193  Sum_probs=60.1

Q ss_pred             cccccccccchHHHHHhhHHHHHHHHHHhCCccccccCHHHHH----------------hh----CCC----------CC
Q psy1911         204 RHIADQSNCGSCWAVSVANAISDRLCIASNGYFTGQISAQHIV----------------AC----TPN----------CW  253 (342)
Q Consensus       204 ~~v~dQg~CGsCwAfa~~~~le~r~~i~~~~~~~~~LS~Q~ll----------------dC----~~~----------~~  253 (342)
                      +||.||+.-|-||.||++.+|+..+....+. ....||+.+|+                +.    ...          ..
T Consensus        61 ~~vtnQk~SGrCW~Fa~LN~lR~~~~k~~~~-~~felSq~Yl~f~dklEKaN~fL~~ii~~~~~~~~~d~R~v~~ll~~p  139 (453)
T d2cb5a_          61 KPITNQKSSGRSWIFSCLNVMRLPFMKKLNI-EEFEFSQSYLFFWDKVERCYFFLSAFVDTAQRKEPEDGRLVQFLLMNP  139 (453)
T ss_dssp             SSCCBCCBSSCHHHHHHHHHHHHHHHHHTTC-SCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHTTCCTTSHHHHHHHHCT
T ss_pred             CccccCCCCcccHHHhChHHHHHHHHHHcCC-CCeehhhHHHHHHHHHHHHHHHHHHHHHHHhcCCCcchHHHHHHhhCC
Confidence            6899999999999999999999988877664 46899986654                21    111          12


Q ss_pred             CCCCCchhhHHHHhhhcccccCCCCC
Q psy1911         254 GCNGGWPQLAWRFWGHNGVVTGGDYN  279 (342)
Q Consensus       254 GC~GG~~~~a~~y~~~~Gi~~e~~Y~  279 (342)
                      -.+||.-..+..-+.++|||+...||
T Consensus       140 ~~DGGqw~m~~nli~KYGvVPk~~~p  165 (453)
T d2cb5a_         140 ANDGGQWDMLVNIVEKYGVIPKKCFP  165 (453)
T ss_dssp             TCSCBCHHHHHHHHHHHCCCBGGGSC
T ss_pred             CCCCcchHHHHHHHHHcCcccHhhCC
Confidence            57999999999999999999977773