Citrus Sinensis ID: 026627

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-----
Protein Sequence
MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE
Secondary Structure (PSIPRED)
cccccccccccEEcccccHHHHHHHHHHHHccccEEEEEcccEEEEEEEccccccccccccccEEEEccccEEEEEcccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccccEEEEEEEEEccccEEEEEcccccccccEEEEEccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccEEEEEEEEccccEEEccHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccHcccccccccccccccHHHHHHHHHHHccccEEEEEcccEEEEEEEEEcccccEccccccccEEEcccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccEccccEEEEEEEEEccEEEEEEEcccccEEEEcEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccccccccEEEEEEcccccEEEccHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mgdsqysfslttfspsgklVQIEHALTAvgsgqtslgikasngvviatekklpsilvdessvhkiqsltpnigvvysgmgpdFRVLVRKSRKQAEQYHRlykepipvtQLVRETAAVMQEFtqsggvrpfGVSLLVagyddkgpqlyqvdpsgsyfswkasamgknvSNAKTFLEKRYVEEMELDDAVHTAILTLKegfegqiseknieigiigekkefrvltPNEIRDYLAEVE
Flexible Loop (DISEMBL)
MGDSQYSFSLTTFSPSGKLVQIEHALTAvgsgqtslgikASNGVVIATEKKLPSILVDESSVHKIQSltpnigvvysGMGPDFRVLVRKSRKQAEQyhrlykepipvtQLVRETAAVMQEFtqsggvrpFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTlkegfegqiseknieigiigekkefrvltpneirdylaeve
Low Complexity Region (SEG)
MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISeknieigiigekkeFRVLTPNEIRDYLAEVE
Disordered region (IsUnstruct)
****************GKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDY*****
Disordered Region (DISOPRED)
***SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE
Disordered Region (DISEMBL)
********SLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE
Disordered Region (DISPRO)
******SFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE
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	235	2.2.26 [Sep-21-2011]
O23708	235	Proteasome subunit alpha	yes	no	1.0	1.0	0.931	1e-124
Q8L4A7	235	Proteasome subunit alpha	yes	no	1.0	1.0	0.927	1e-124
Q10KF0	235	Proteasome subunit alpha	yes	no	1.0	1.0	0.897	1e-122
A2YVR7	235	Proteasome subunit alpha	N/A	no	1.0	1.0	0.897	1e-122
Q54DM7	232	Proteasome subunit alpha	yes	no	0.970	0.982	0.681	2e-92
P17220	234	Proteasome subunit alpha	yes	no	0.991	0.995	0.670	3e-91
P49722	234	Proteasome subunit alpha	yes	no	0.991	0.995	0.670	3e-91
P25787	234	Proteasome subunit alpha	yes	no	0.991	0.995	0.666	1e-90
Q3T0Y5	234	Proteasome subunit alpha	yes	no	0.991	0.995	0.666	1e-90
O73672	234	Proteasome subunit alpha	N/A	no	0.991	0.995	0.683	4e-88

>sp|O23708|PSA2A_ARATH Proteasome subunit alpha type-2-A OS=Arabidopsis thaliana GN=PAB1 PE=1 SV=1

 Score =  445 bits (1145), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 219/235 (93%), Positives = 223/235 (94%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDEA 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIGVVYSGMGPDFRVLVRKSRKQAEQY RLYKEPIPVTQLVRETA VMQE
Sbjct: 61  SVQKIQHLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYLRLYKEPIPVTQLVRETATVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY E
Sbjct: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDA+HTAILTLKEGFEG+IS KNIEIG IG  K FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAIHTAILTLKEGFEGEISSKNIEIGKIGADKVFRVLTPAEIDDYLAEVE 235

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|Q8L4A7|PSA2B_ARATH Proteasome subunit alpha type-2-B OS=Arabidopsis thaliana GN=PAB2 PE=1 SV=1

 Score =  444 bits (1141), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 218/235 (92%), Positives = 222/235 (94%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDEA 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIG VYSGMGPDFRVLVRKSRKQAEQY RLYKEPIPVTQLVRETA VMQE
Sbjct: 61  SVQKIQHLTPNIGTVYSGMGPDFRVLVRKSRKQAEQYLRLYKEPIPVTQLVRETATVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY E
Sbjct: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDA+HTAILTLKEGFEG+IS KNIEIG IG  K FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAIHTAILTLKEGFEGEISSKNIEIGKIGTDKVFRVLTPAEIDDYLAEVE 235

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q10KF0|PSA2_ORYSJ Proteasome subunit alpha type-2 OS=Oryza sativa subsp. japonica GN=PAB1 PE=2 SV=1

 Score =  438 bits (1127), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 211/235 (89%), Positives = 224/235 (95%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDET 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQA+QY+RLYKE IPVTQLVRETAAVMQE
Sbjct: 61  SVQKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAQQYYRLYKETIPVTQLVRETAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLL+AGYDD GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY E
Sbjct: 121 FTQSGGVRPFGVSLLIAGYDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDA+HTAILTLKEG+EGQIS  NIEIGII   +EF+VL+P EI+D+L EVE
Sbjct: 181 DMELDDAIHTAILTLKEGYEGQISANNIEIGIIRSDREFKVLSPAEIKDFLEEVE 235

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|A2YVR7|PSA2_ORYSI Proteasome subunit alpha type-2 OS=Oryza sativa subsp. indica GN=PAB1 PE=2 SV=2

 Score =  438 bits (1127), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 211/235 (89%), Positives = 224/235 (95%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDET 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQA+QY+RLYKE IPVTQLVRETAAVMQE
Sbjct: 61  SVQKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAQQYYRLYKETIPVTQLVRETAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLL+AGYDD GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY E
Sbjct: 121 FTQSGGVRPFGVSLLIAGYDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDA+HTAILTLKEG+EGQIS  NIEIGII   +EF+VL+P EI+D+L EVE
Sbjct: 181 DMELDDAIHTAILTLKEGYEGQISANNIEIGIIRSDREFKVLSPAEIKDFLEEVE 235

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity.

Oryza sativa subsp. indica (taxid: 39946)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q54DM7|PSA2_DICDI Proteasome subunit alpha type-2 OS=Dictyostelium discoideum GN=psmA2 PE=3 SV=1

 Score =  338 bits (868), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 156/229 (68%), Positives = 201/229 (87%), Gaps = 1/229 (0%)

Query: 3   DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSV 62
           DS YSFSLTTFSPSGKLVQIEHAL A  SG +++GIKA NGVV+ TEKKL S LVD +SV
Sbjct: 2   DSDYSFSLTTFSPSGKLVQIEHALQAAASGGSAIGIKAKNGVVLITEKKLHS-LVDVTSV 60

Query: 63  HKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFT 122
            KI  +T NIG+VY+GMGPD RVL++K+RK++E+Y++ YKE IPV QLVRE A++MQEFT
Sbjct: 61  QKISMITENIGLVYAGMGPDSRVLIKKARKESEKYYKQYKEKIPVLQLVRELASIMQEFT 120

Query: 123 QSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM 182
           QSGGVRPFGVSLLVAG+D+KGP LYQVDPSGSYF+WKA+A+GKN+ ++KTFLEKRY +++
Sbjct: 121 QSGGVRPFGVSLLVAGFDEKGPHLYQVDPSGSYFAWKATAIGKNMVSSKTFLEKRYSDDL 180

Query: 183 ELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYL 231
           E++DA+ TA++T+KEGFE Q++E N+E+ IIG+ +EF++LTP +I+DYL
Sbjct: 181 EIEDAIQTALITIKEGFETQLTEFNMELAIIGKNQEFKILTPAQIKDYL 229

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity.

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P17220|PSA2_RAT Proteasome subunit alpha type-2 OS=Rattus norvegicus GN=Psma2 PE=1 SV=3

 Score =  334 bits (856), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 157/234 (67%), Positives = 194/234 (82%), Gaps = 1/234 (0%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct: 1   MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SVHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct: 61  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct: 121 YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
           ++EL+DA+HTAILTLKE FEGQ++E NIE+GI  E   FR LTP E+RDYLA +
Sbjct: 181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVRDYLAAI 233

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. PSMA2 may have a potential regulatory effect on another component(s) of the proteasome complex through tyrosine phosphorylation.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P49722|PSA2_MOUSE Proteasome subunit alpha type-2 OS=Mus musculus GN=Psma2 PE=1 SV=3

 Score =  334 bits (856), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 157/234 (67%), Positives = 194/234 (82%), Gaps = 1/234 (0%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct: 1   MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SVHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct: 61  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct: 121 YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
           ++EL+DA+HTAILTLKE FEGQ++E NIE+GI  E   FR LTP E+RDYLA +
Sbjct: 181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVRDYLAAI 233

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. PSMA2 may have a potential regulatory effect on another component(s) of the proteasome complex through tyrosine phosphorylation.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P25787|PSA2_HUMAN Proteasome subunit alpha type-2 OS=Homo sapiens GN=PSMA2 PE=1 SV=2

 Score =  332 bits (852), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 156/234 (66%), Positives = 194/234 (82%), Gaps = 1/234 (0%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct: 1   MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SVHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct: 61  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct: 121 YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
           ++EL+DA+HTAILTLKE FEGQ++E NIE+GI  E   FR LTP E++DYLA +
Sbjct: 181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAI 233

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. PSMA2 may have a potential regulatory effect on another component(s) of the proteasome complex through tyrosine phosphorylation.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q3T0Y5|PSA2_BOVIN Proteasome subunit alpha type-2 OS=Bos taurus GN=PSMA2 PE=1 SV=3

 Score =  332 bits (852), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 156/234 (66%), Positives = 194/234 (82%), Gaps = 1/234 (0%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct: 1   MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SVHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct: 61  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct: 121 YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
           ++EL+DA+HTAILTLKE FEGQ++E NIE+GI  E   FR LTP E++DYLA +
Sbjct: 181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAI 233

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. PSMA2 may have a potential regulatory effect on another component(s) of the proteasome complex through tyrosine phosphorylation.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O73672|PSA2_CARAU Proteasome subunit alpha type-2 OS=Carassius auratus GN=psma2 PE=2 SV=3

 Score =  323 bits (829), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 160/234 (68%), Positives = 197/234 (84%), Gaps = 1/234 (0%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M D  YSFSLTTFSPSGKLVQIE+AL AV +G  S+GIKASNGVV+ATEKK  SIL DE 
Sbjct: 1   MADRGYSFSLTTFSPSGKLVQIEYALAAVAAGAPSVGIKASNGVVLATEKKQKSILYDEQ 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SVHKI+ +T +IG+VYSGMGPD+RVLVR++RK A+QY  +Y+EPIP  QLV+  A+VMQE
Sbjct: 61  SVHKIEPITKHIGMVYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQSGGVRPFGVSLL+AG+D+  P L+Q DPSG+YF+WKA+AMGK+  N KTFLEKRY E
Sbjct: 121 YTQSGGVRPFGVSLLIAGWDEDRPYLFQSDPSGAYFAWKATAMGKSYVNGKTFLEKRYNE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
           ++EL+DA+HTAILTLKE FEGQ++E+NIE+GI  E   FR L+P E++DYLA +
Sbjct: 181 DLELEDAIHTAILTLKESFEGQMTEENIEVGICNEAG-FRRLSPAEVKDYLAAI 233

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. PSMA2 may have a potential regulatory effect on another component(s) of the proteasome complex through tyrosine phosphorylation.

Carassius auratus (taxid: 7957)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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	235
255544626	235	proteasome subunit alpha type, putative	1.0	1.0	0.944	1e-126
449455401	235	PREDICTED: proteasome subunit alpha type	1.0	1.0	0.940	1e-125
224122692	235	predicted protein [Populus trichocarpa]	1.0	1.0	0.940	1e-125
359806098	235	uncharacterized protein LOC100799108 [Gl	1.0	1.0	0.931	1e-124
356557004	235	PREDICTED: proteasome subunit alpha type	1.0	1.0	0.927	1e-123
388490478	235	unknown [Lotus japonicus] gi|388501838|g	1.0	1.0	0.927	1e-123
356496096	235	PREDICTED: proteasome subunit alpha type	1.0	1.0	0.927	1e-123
297844574	235	hypothetical protein ARALYDRAFT_471845 [	1.0	1.0	0.931	1e-123
15219257	235	proteasome subunit alpha type-2-A [Arabi	1.0	1.0	0.931	1e-123
225423722	235	PREDICTED: proteasome subunit alpha type	1.0	1.0	0.923	1e-122

>gi|255544626|ref|XP_002513374.1| proteasome subunit alpha type, putative [Ricinus communis] gi|223547282|gb|EEF48777.1| proteasome subunit alpha type, putative [Ricinus communis]

 Score =  455 bits (1171), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 222/235 (94%), Positives = 228/235 (97%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDEA 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ+LTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE
Sbjct: 61  SVQKIQTLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY +
Sbjct: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTD 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDAVHTAILTLKEGFEGQIS KNIEIGIIG  K+FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAVHTAILTLKEGFEGQISGKNIEIGIIGADKKFRVLTPAEIDDYLAEVE 235

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455401|ref|XP_004145441.1| PREDICTED: proteasome subunit alpha type-2-B-like [Cucumis sativus] gi|449487656|ref|XP_004157735.1| PREDICTED: proteasome subunit alpha type-2-B-like [Cucumis sativus]

 Score =  454 bits (1167), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 221/235 (94%), Positives = 227/235 (96%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDET 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE
Sbjct: 61  SVQKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAG+DD GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY +
Sbjct: 121 FTQSGGVRPFGVSLLVAGFDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTD 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDAVHTAILTLKEGFEGQIS KNIEIGIIG  K+FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAVHTAILTLKEGFEGQISSKNIEIGIIGTDKKFRVLTPAEIDDYLAEVE 235

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122692|ref|XP_002318902.1| predicted protein [Populus trichocarpa] gi|224134414|ref|XP_002321818.1| predicted protein [Populus trichocarpa] gi|118482898|gb|ABK93363.1| unknown [Populus trichocarpa] gi|118484736|gb|ABK94237.1| unknown [Populus trichocarpa] gi|118484885|gb|ABK94309.1| unknown [Populus trichocarpa] gi|118485354|gb|ABK94535.1| unknown [Populus trichocarpa] gi|118487820|gb|ABK95733.1| unknown [Populus trichocarpa] gi|222859575|gb|EEE97122.1| predicted protein [Populus trichocarpa] gi|222868814|gb|EEF05945.1| predicted protein [Populus trichocarpa]

 Score =  454 bits (1167), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 221/235 (94%), Positives = 228/235 (97%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSP+GKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDES
Sbjct: 1   MGDSQYSFSLTTFSPTGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDES 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ+LTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE
Sbjct: 61  SVQKIQNLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAG+DDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY +
Sbjct: 121 FTQSGGVRPFGVSLLVAGFDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTD 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDAVHTAILTLKEGFEGQIS KNIEIGIIG  K+FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAVHTAILTLKEGFEGQISGKNIEIGIIGADKQFRVLTPAEIDDYLAEVE 235

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806098|ref|NP_001240931.1| uncharacterized protein LOC100799108 [Glycine max] gi|255641784|gb|ACU21161.1| unknown [Glycine max]

 Score =  448 bits (1152), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 219/235 (93%), Positives = 225/235 (95%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDEA 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRE AAVMQE
Sbjct: 61  SVQKIQLLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVREVAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAG+DD GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY +
Sbjct: 121 FTQSGGVRPFGVSLLVAGFDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTD 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDAVHTAILTLKEGFEGQIS KNIEIGIIG  K+FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAVHTAILTLKEGFEGQISGKNIEIGIIGADKKFRVLTPAEIDDYLAEVE 235

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356557004|ref|XP_003546808.1| PREDICTED: proteasome subunit alpha type-2-A-like [Glycine max]

 Score =  447 bits (1150), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 218/235 (92%), Positives = 225/235 (95%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDEA 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRE AAVMQE
Sbjct: 61  SVQKIQLLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVREVAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAG+DD GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY +
Sbjct: 121 FTQSGGVRPFGVSLLVAGFDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTD 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDAVHTA+LTLKEGFEGQIS KNIEIGIIG  K+FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAVHTAMLTLKEGFEGQISGKNIEIGIIGADKKFRVLTPAEIDDYLAEVE 235

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388490478|gb|AFK33305.1| unknown [Lotus japonicus] gi|388501838|gb|AFK38985.1| unknown [Medicago truncatula]

 Score =  447 bits (1150), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 218/235 (92%), Positives = 224/235 (95%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDEA 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRE AAVMQE
Sbjct: 61  SVQKIQLLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVREVAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAG+DD GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY +
Sbjct: 121 FTQSGGVRPFGVSLLVAGFDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTD 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDAVHTAILTLKEGFEGQIS KNIEIGIIG  K+FRVLTP EI DYL EVE
Sbjct: 181 DMELDDAVHTAILTLKEGFEGQISAKNIEIGIIGADKKFRVLTPAEIDDYLGEVE 235

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356496096|ref|XP_003516906.1| PREDICTED: proteasome subunit alpha type-2-A-like [Glycine max]

 Score =  447 bits (1149), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 218/235 (92%), Positives = 225/235 (95%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDET 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRE AAVMQE
Sbjct: 61  SVQKIQLLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVREVAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAG+DD GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY +
Sbjct: 121 FTQSGGVRPFGVSLLVAGFDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTD 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDAVHT+ILTLKEGFEGQIS KNIEIGIIG  K+FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAVHTSILTLKEGFEGQISGKNIEIGIIGADKKFRVLTPAEIDDYLAEVE 235

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297844574|ref|XP_002890168.1| hypothetical protein ARALYDRAFT_471845 [Arabidopsis lyrata subsp. lyrata] gi|297336010|gb|EFH66427.1| hypothetical protein ARALYDRAFT_471845 [Arabidopsis lyrata subsp. lyrata]

 Score =  445 bits (1145), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 219/235 (93%), Positives = 223/235 (94%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDET 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIGVVYSGMGPDFRVLVRKSRKQAEQY RLYKEPIPVTQLVRETA VMQE
Sbjct: 61  SVQKIQHLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYLRLYKEPIPVTQLVRETATVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY E
Sbjct: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDA+HTAILTLKEGFEG+IS KNIEIG IG  K FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAIHTAILTLKEGFEGEISSKNIEIGKIGADKVFRVLTPAEIDDYLAEVE 235

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15219257|ref|NP_173096.1| proteasome subunit alpha type-2-A [Arabidopsis thaliana] gi|79318062|ref|NP_001031057.1| proteasome subunit alpha type-2-A [Arabidopsis thaliana] gi|6093778|sp|O23708.1|PSA2A_ARATH RecName: Full=Proteasome subunit alpha type-2-A; AltName: Full=20S proteasome alpha subunit B; AltName: Full=Proteasome component 3 gi|4966368|gb|AAD34699.1|AC006341_27 Identical to gb|Y13176 Arabidopsis thaliana mRNA for proteasome subunit prc3. ESTs gb|H36972, gb|T22551 and gb|T13800 come from this gene [Arabidopsis thaliana] gi|12083342|gb|AAG48830.1|AF332467_1 putative multicatalytic endopeptidase [Arabidopsis thaliana] gi|2511574|emb|CAA73619.1| multicatalytic endopeptidase [Arabidopsis thaliana] gi|3421075|gb|AAC32056.1| 20S proteasome subunit PAB1 [Arabidopsis thaliana] gi|21617900|gb|AAM66950.1| multicatalytic endopeptidase [Arabidopsis thaliana] gi|222423615|dbj|BAH19776.1| AT1G16470 [Arabidopsis thaliana] gi|222424243|dbj|BAH20079.1| AT1G16470 [Arabidopsis thaliana] gi|332191336|gb|AEE29457.1| proteasome subunit alpha type-2-A [Arabidopsis thaliana] gi|332191337|gb|AEE29458.1| proteasome subunit alpha type-2-A [Arabidopsis thaliana]

 Score =  445 bits (1145), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 219/235 (93%), Positives = 223/235 (94%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDEA 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIGVVYSGMGPDFRVLVRKSRKQAEQY RLYKEPIPVTQLVRETA VMQE
Sbjct: 61  SVQKIQHLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYLRLYKEPIPVTQLVRETATVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY E
Sbjct: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTE 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDA+HTAILTLKEGFEG+IS KNIEIG IG  K FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAIHTAILTLKEGFEGEISSKNIEIGKIGADKVFRVLTPAEIDDYLAEVE 235

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225423722|ref|XP_002278126.1| PREDICTED: proteasome subunit alpha type-2-B [Vitis vinifera] gi|297737956|emb|CBI27157.3| unnamed protein product [Vitis vinifera]

 Score =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 217/235 (92%), Positives = 224/235 (95%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKA+NGVVIATEKKLPSILVDE+
Sbjct: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDEA 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SV KIQ LTPNIGVVYSGMGPD RVLVRKSRKQAEQYHRLYKE IPVTQLVRETAAVMQE
Sbjct: 61  SVQKIQVLTPNIGVVYSGMGPDSRVLVRKSRKQAEQYHRLYKESIPVTQLVRETAAVMQE 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           FTQSGGVRPFGVSLLVAG+DD GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY +
Sbjct: 121 FTQSGGVRPFGVSLLVAGFDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTD 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +MELDDAVHTAILTLKEGFEGQIS KNIEIGIIG  ++FRVLTP EI DYLAEVE
Sbjct: 181 DMELDDAVHTAILTLKEGFEGQISSKNIEIGIIGTDRKFRVLTPAEIDDYLAEVE 235

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	235
TAIR|locus:2032820	235	PAB1 "proteasome subunit PAB1"	1.0	1.0	0.893	1.1e-105
TAIR|locus:2207340	235	AT1G79210 [Arabidopsis thalian	1.0	1.0	0.889	2.8e-105
DICTYBASE|DDB_G0292122	232	psmA2 "proteasome subunit alph	0.970	0.982	0.650	2.3e-78
ZFIN|ZDB-GENE-050522-479	234	psma2 "proteasome (prosome, ma	0.991	0.995	0.653	3.8e-78
UNIPROTKB|O73672	234	psma2 "Proteasome subunit alph	0.991	0.995	0.653	1e-77
ZFIN|ZDB-GENE-060503-941	234	si:rp71-45k5.4 "si:rp71-45k5.4	0.991	0.995	0.649	1e-77
UNIPROTKB|P24495	234	psma2 "Proteasome subunit alph	0.991	0.995	0.641	1.6e-77
MGI|MGI:104885	234	Psma2 "proteasome (prosome, ma	0.991	0.995	0.641	4.3e-77
RGD|61842	234	Psma2 "proteasome (prosome, ma	0.991	0.995	0.641	4.3e-77
UNIPROTKB|Q3T0Y5	234	PSMA2 "Proteasome subunit alph	0.991	0.995	0.636	9e-77

TAIR|locus:2032820 PAB1 "proteasome subunit PAB1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1046 (373.3 bits), Expect = 1.1e-105, P = 1.1e-105
 Identities = 210/235 (89%), Positives = 214/235 (91%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE+
Sbjct:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDEA 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             SV KIQ LTPNIGVVYSGMGPDFRVLVRKSRKQAEQY RLYKEPIPVTQLVRETA VMQE
Sbjct:    61 SVQKIQHLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYLRLYKEPIPVTQLVRETATVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY E
Sbjct:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEVE 235
             +MELDDA+HTAILTLKEGFEG+IS              FRVLTP EI DYLAEVE
Sbjct:   181 DMELDDAIHTAILTLKEGFEGEISSKNIEIGKIGADKVFRVLTPAEIDDYLAEVE 235

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0004298 "threonine-type endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA;TAS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;TAS

GO:0008233 "peptidase activity" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0051603 "proteolysis involved in cellular protein catabolic process" evidence=IEA

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0010043 "response to zinc ion" evidence=IEP

GO:0000502 "proteasome complex" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2207340 AT1G79210 [Arabidopsis thaliana (taxid:3702)]

 Score = 1042 (371.9 bits), Expect = 2.8e-105, P = 2.8e-105
 Identities = 209/235 (88%), Positives = 213/235 (90%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE+
Sbjct:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDEA 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             SV KIQ LTPNIG VYSGMGPDFRVLVRKSRKQAEQY RLYKEPIPVTQLVRETA VMQE
Sbjct:    61 SVQKIQHLTPNIGTVYSGMGPDFRVLVRKSRKQAEQYLRLYKEPIPVTQLVRETATVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY E
Sbjct:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEVE 235
             +MELDDA+HTAILTLKEGFEG+IS              FRVLTP EI DYLAEVE
Sbjct:   181 DMELDDAIHTAILTLKEGFEGEISSKNIEIGKIGTDKVFRVLTPAEIDDYLAEVE 235

GO:0004175 "endopeptidase activity" evidence=IEA;ISS

GO:0004298 "threonine-type endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0051603 "proteolysis involved in cellular protein catabolic process" evidence=IEA

GO:0042742 "defense response to bacterium" evidence=IEP

GO:0000502 "proteasome complex" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

GO:0080129 "proteasome core complex assembly" evidence=RCA

DICTYBASE|DDB_G0292122 psmA2 "proteasome subunit alpha type 2" [Dictyostelium discoideum (taxid:44689)]

 Score = 788 (282.4 bits), Expect = 2.3e-78, P = 2.3e-78
 Identities = 149/229 (65%), Positives = 190/229 (82%)

Query:     3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSV 62
             DS YSFSLTTFSPSGKLVQIEHAL A  SG +++GIKA NGVV+ TEKKL S LVD +SV
Sbjct:     2 DSDYSFSLTTFSPSGKLVQIEHALQAAASGGSAIGIKAKNGVVLITEKKLHS-LVDVTSV 60

Query:    63 HKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFT 122
              KI  +T NIG+VY+GMGPD RVL++K+RK++E+Y++ YKE IPV QLVRE A++MQEFT
Sbjct:    61 QKISMITENIGLVYAGMGPDSRVLIKKARKESEKYYKQYKEKIPVLQLVRELASIMQEFT 120

Query:   123 QSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM 182
             QSGGVRPFGVSLLVAG+D+KGP LYQVDPSGSYF+WKA+A+GKN+ ++KTFLEKRY +++
Sbjct:   121 QSGGVRPFGVSLLVAGFDEKGPHLYQVDPSGSYFAWKATAIGKNMVSSKTFLEKRYSDDL 180

Query:   183 ELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
             E++DA+ TA++T+KEGFE Q++              F++LTP +I+DYL
Sbjct:   181 EIEDAIQTALITIKEGFETQLTEFNMELAIIGKNQEFKILTPAQIKDYL 229

GO:0008233 "peptidase activity" evidence=IEA;IDA

GO:0006508 "proteolysis" evidence=IEA;IDA

GO:0005737 "cytoplasm" evidence=IEA;IPI

GO:0005634 "nucleus" evidence=IEA;IPI

GO:0051603 "proteolysis involved in cellular protein catabolic process" evidence=IEA

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

GO:0004298 "threonine-type endopeptidase activity" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

ZFIN|ZDB-GENE-050522-479 psma2 "proteasome (prosome, macropain) subunit, alpha type, 2" [Danio rerio (taxid:7955)]

 Score = 786 (281.7 bits), Expect = 3.8e-78, P = 3.8e-78
 Identities = 153/234 (65%), Positives = 188/234 (80%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             M +  YSFSLTTFSPSGKLVQIE+AL AV +G  S+GIKASNGVV+ATEKK  SIL DE 
Sbjct:     1 MAERGYSFSLTTFSPSGKLVQIEYALAAVAAGAPSVGIKASNGVVLATEKKQKSILYDEQ 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             SVHK++ +T +IG+VYSGMGPD+RVLVR++RK A+QY  +Y+EPIP  QLV+  A+VMQE
Sbjct:    61 SVHKVEPITKHIGMVYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             +TQSGGVRPFGVSLL+AG+D+  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct:   121 YTQSGGVRPFGVSLLIAGWDEDRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
             ++EL+DA+HTAILTLKE FEGQ++              FR LTP E++DYLA +
Sbjct:   181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPAEVKDYLAAI 233

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0004298 "threonine-type endopeptidase activity" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0051603 "proteolysis involved in cellular protein catabolic process" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

UNIPROTKB|O73672 psma2 "Proteasome subunit alpha type-2" [Carassius auratus (taxid:7957)]

 Score = 782 (280.3 bits), Expect = 1.0e-77, P = 1.0e-77
 Identities = 153/234 (65%), Positives = 188/234 (80%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             M D  YSFSLTTFSPSGKLVQIE+AL AV +G  S+GIKASNGVV+ATEKK  SIL DE 
Sbjct:     1 MADRGYSFSLTTFSPSGKLVQIEYALAAVAAGAPSVGIKASNGVVLATEKKQKSILYDEQ 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             SVHKI+ +T +IG+VYSGMGPD+RVLVR++RK A+QY  +Y+EPIP  QLV+  A+VMQE
Sbjct:    61 SVHKIEPITKHIGMVYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             +TQSGGVRPFGVSLL+AG+D+  P L+Q DPSG+YF+WKA+AMGK+  N KTFLEKRY E
Sbjct:   121 YTQSGGVRPFGVSLLIAGWDEDRPYLFQSDPSGAYFAWKATAMGKSYVNGKTFLEKRYNE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
             ++EL+DA+HTAILTLKE FEGQ++              FR L+P E++DYLA +
Sbjct:   181 DLELEDAIHTAILTLKESFEGQMTEENIEVGICNEAG-FRRLSPAEVKDYLAAI 233

GO:0005839 "proteasome core complex" evidence=ISS

ZFIN|ZDB-GENE-060503-941 si:rp71-45k5.4 "si:rp71-45k5.4" [Danio rerio (taxid:7955)]

 Score = 782 (280.3 bits), Expect = 1.0e-77, P = 1.0e-77
 Identities = 152/234 (64%), Positives = 188/234 (80%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             M +  YSFSLTTFSPSGKLVQIE+AL AV +G  S+GIKASNGVV+ATEKK  SIL DE 
Sbjct:     1 MAERGYSFSLTTFSPSGKLVQIEYALAAVAAGAPSVGIKASNGVVLATEKKQKSILYDEQ 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             SVHK++ +T +IG+VYSGMGPD+RVLVR++RK A+QY  +Y+EPIP  QLV+  A+VMQE
Sbjct:    61 SVHKVEPITKHIGMVYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             +TQSGGVRPFGVSLL+AG+D+  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct:   121 YTQSGGVRPFGVSLLIAGWDEDRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
             ++EL+DA+HTAILTLKE FEGQ++              FR L+P E++DYLA +
Sbjct:   181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLSPAEVKDYLAAI 233

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0004298 "threonine-type endopeptidase activity" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0051603 "proteolysis involved in cellular protein catabolic process" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

UNIPROTKB|P24495 psma2 "Proteasome subunit alpha type-2" [Xenopus laevis (taxid:8355)]

 Score = 780 (279.6 bits), Expect = 1.6e-77, P = 1.6e-77
 Identities = 150/234 (64%), Positives = 188/234 (80%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             M +  YSFSLTTFSPSGKLVQIE+AL AV +G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct:     1 MAERGYSFSLTTFSPSGKLVQIEYALAAVAAGAPSVGIKATNGVVLATEKKQKSILYDEQ 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             S HK++ +T +IG+VYSGMGPD+RVLVR++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct:    61 SAHKVEPITKHIGMVYSGMGPDYRVLVRRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             +TQSGGVRPFGVSLL+AG+D+  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct:   121 YTQSGGVRPFGVSLLIAGWDEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
             ++EL+DA+HTAILTLKE FEGQ++              F+ LTP E++DYLA +
Sbjct:   181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FKRLTPAEVKDYLAAI 233

GO:0005839 "proteasome core complex" evidence=ISS

MGI|MGI:104885 Psma2 "proteasome (prosome, macropain) subunit, alpha type 2" [Mus musculus (taxid:10090)]

 Score = 776 (278.2 bits), Expect = 4.3e-77, P = 4.3e-77
 Identities = 150/234 (64%), Positives = 186/234 (79%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             M +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct:     1 MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             SVHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct:    61 SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             +TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct:   121 YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
             ++EL+DA+HTAILTLKE FEGQ++              FR LTP E+RDYLA +
Sbjct:   181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVRDYLAAI 233

GO:0000502 "proteasome complex" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0004298 "threonine-type endopeptidase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IDA

GO:0006508 "proteolysis" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0051603 "proteolysis involved in cellular protein catabolic process" evidence=IEA

RGD|61842 Psma2 "proteasome (prosome, macropain) subunit, alpha type 2" [Rattus norvegicus (taxid:10116)]

 Score = 776 (278.2 bits), Expect = 4.3e-77, P = 4.3e-77
 Identities = 150/234 (64%), Positives = 186/234 (79%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             M +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct:     1 MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             SVHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct:    61 SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             +TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct:   121 YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
             ++EL+DA+HTAILTLKE FEGQ++              FR LTP E+RDYLA +
Sbjct:   181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVRDYLAAI 233

GO:0000932 "cytoplasmic mRNA processing body" evidence=ISS

GO:0004298 "threonine-type endopeptidase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005839 "proteasome core complex" evidence=ISO;ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0009615 "response to virus" evidence=IEA;ISO

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

UNIPROTKB|Q3T0Y5 PSMA2 "Proteasome subunit alpha type-2" [Bos taurus (taxid:9913)]

 Score = 773 (277.2 bits), Expect = 9.0e-77, P = 9.0e-77
 Identities = 149/234 (63%), Positives = 186/234 (79%)

Query:     1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
             M +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct:     1 MAERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60

Query:    61 SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
             SVHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct:    61 SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120

Query:   121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
             +TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct:   121 YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

Query:   181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
             ++EL+DA+HTAILTLKE FEGQ++              FR LTP E++DYLA +
Sbjct:   181 DLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAI 233

GO:0000932 "cytoplasmic mRNA processing body" evidence=ISS

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005634 "nucleus" evidence=IEA

GO:0004298 "threonine-type endopeptidase activity" evidence=IEA

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8X077	PSA2_NEUCR	3, ., 4, ., 2, 5, ., 1	0.608	0.9914	0.9357	N/A	no
Q9U793	PSA2_TRYBB	3, ., 4, ., 2, 5, ., 1	0.5454	0.9787	0.9956	N/A	no
Q8TYB7	PSA_METKA	3, ., 4, ., 2, 5, ., 1	0.3852	0.9787	0.9349	yes	no
O59219	PSA_PYRHO	3, ., 4, ., 2, 5, ., 1	0.4342	0.9489	0.8576	yes	no
Q18K08	PSA_HALWD	3, ., 4, ., 2, 5, ., 1	0.3580	0.9702	0.912	yes	no
P40301	PSA2_DROME	3, ., 4, ., 2, 5, ., 1	0.6410	0.9914	0.9957	yes	no
Q9V122	PSA_PYRAB	3, ., 4, ., 2, 5, ., 1	0.4342	0.9489	0.8576	yes	no
P17220	PSA2_RAT	3, ., 4, ., 2, 5, ., 1	0.6709	0.9914	0.9957	yes	no
P25787	PSA2_HUMAN	3, ., 4, ., 2, 5, ., 1	0.6666	0.9914	0.9957	yes	no
O23708	PSA2A_ARATH	3, ., 4, ., 2, 5, ., 1	0.9319	1.0	1.0	yes	no
P24495	PSA2_XENLA	3, ., 4, ., 2, 5, ., 1	0.6709	0.9914	0.9957	N/A	no
A2YVR7	PSA2_ORYSI	3, ., 4, ., 2, 5, ., 1	0.8978	1.0	1.0	N/A	no
C5A2C2	PSA_THEGJ	3, ., 4, ., 2, 5, ., 1	0.4052	0.9531	0.8615	yes	no
Q8L4A7	PSA2B_ARATH	3, ., 4, ., 2, 5, ., 1	0.9276	1.0	1.0	yes	no
O26782	PSA_METTH	3, ., 4, ., 2, 5, ., 1	0.3739	0.9744	0.9233	yes	no
Q54DM7	PSA2_DICDI	3, ., 4, ., 2, 5, ., 1	0.6812	0.9702	0.9827	yes	no
Q5JIU9	PSA_PYRKO	3, ., 4, ., 2, 5, ., 1	0.4043	0.9659	0.8730	yes	no
Q27488	PSA2_CAEEL	3, ., 4, ., 2, 5, ., 1	0.5550	0.9744	0.9913	yes	no
Q10KF0	PSA2_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.8978	1.0	1.0	yes	no
O29760	PSA_ARCFU	3, ., 4, ., 2, 5, ., 1	0.3656	0.9574	0.9146	yes	no
Q3T0Y5	PSA2_BOVIN	3, ., 4, ., 2, 5, ., 1	0.6666	0.9914	0.9957	yes	no
Q469M6	PSA_METBF	3, ., 4, ., 2, 5, ., 1	0.3739	0.9744	0.9196	yes	no
Q8PTU1	PSA_METMA	3, ., 4, ., 2, 5, ., 1	0.3739	0.9744	0.9196	yes	no
B6YSH9	PSA_THEON	3, ., 4, ., 2, 5, ., 1	0.4052	0.9531	0.8615	yes	no
C6A459	PSA_THESM	3, ., 4, ., 2, 5, ., 1	0.4148	0.9617	0.8692	yes	no
A5UJS2	PSA_METS3	3, ., 4, ., 2, 5, ., 1	0.3620	0.9829	0.924	yes	no
O73672	PSA2_CARAU	3, ., 4, ., 2, 5, ., 1	0.6837	0.9914	0.9957	N/A	no
P49722	PSA2_MOUSE	3, ., 4, ., 2, 5, ., 1	0.6709	0.9914	0.9957	yes	no
P23639	PSA2_YEAST	3, ., 4, ., 2, 5, ., 1	0.5983	0.9659	0.908	yes	no
Q8TPX5	PSA_METAC	3, ., 4, ., 2, 5, ., 1	0.3782	0.9744	0.9271	yes	no
O94579	PSA2_SCHPO	3, ., 4, ., 2, 5, ., 1	0.6280	0.9787	0.9387	yes	no
Q8U0L6	PSA_PYRFU	3, ., 4, ., 2, 5, ., 1	0.4254	0.9574	0.8653	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.993
3rd Layer	3.4.25	0.998

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	235
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	1e-161
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-112
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	3e-83
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	3e-78
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	5e-75
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	1e-71
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	2e-65
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	2e-64
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	3e-63
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	5e-57
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	6e-57
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	1e-54
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	2e-52
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	8e-52
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	2e-48
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	9e-43
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	8e-25
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	1e-23
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	3e-22
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	2e-12
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	2e-08
pfam10584	23	pfam10584, Proteasome_A_N, Proteasome subunit A N-	4e-07
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	6e-07
smart00948	23	smart00948, Proteasome_A_N, Proteasome subunit A N	2e-06
TIGR03691	228	TIGR03691, 20S_bact_alpha, proteasome, alpha subun	4e-06
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	1e-05
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	2e-05

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  444 bits (1145), Expect = e-161
 Identities = 176/227 (77%), Positives = 209/227 (92%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           YSFSLTTFSPSGKLVQIE+AL AV SG  S+GIKA+NGVV+ATEKK+PS L+DESSVHK+
Sbjct: 1   YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKV 60

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
           + +TP+IG+VYSGMGPDFRVLV+K+RK A+QY+ +Y EPIPV+QLVRE A+VMQE+TQSG
Sbjct: 61  EQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSG 120

Query: 126 GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD 185
           GVRPFGVSLL+AG+D+ GP LYQVDPSGSYF+WKA+A+GKN SNAKTFLEKRY E++EL+
Sbjct: 121 GVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELE 180

Query: 186 DAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLA 232
           DA+HTAILTLKEGFEGQ++EKNIEIGI GE K FR+LTP EI+DYLA
Sbjct: 181 DAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYLA 227

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 227

>gnl|CDD|238892 cd01911, proteasome_alpha, proteasome alpha subunit

 Score =  319 bits (821), Expect = e-112
 Identities = 111/209 (53%), Positives = 148/209 (70%), Gaps = 1/209 (0%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  S+TTFSP G+L Q+E+AL AV +G T++GIK  +GVV+A EKK+ S L+D SSV KI
Sbjct: 1   YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKI 60

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
             +  +IG   +G+  D RVLV ++R +A+ Y   Y EPIPV  LV+  A + Q +TQ G
Sbjct: 61  FKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYG 120

Query: 126 GVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMEL 184
           GVRPFGVSLL+AGYD + GPQLYQ DPSG+YF +KA+A+GK    AKTFLEKRY +++ L
Sbjct: 121 GVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLTL 180

Query: 185 DDAVHTAILTLKEGFEGQISEKNIEIGII 213
           ++A+  A+  LKE  E     KNIEI ++
Sbjct: 181 EEAIKLALKALKEVLEEDKKAKNIEIAVV 209

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 different alpha and 10 different beta proteasome subunit genes while archaea have one of each. Length = 209

>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional

 Score =  247 bits (634), Expect = 3e-83
 Identities = 96/231 (41%), Positives = 149/231 (64%), Gaps = 1/231 (0%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G+L Q+E+A  AV  G T++G+K  +GVV+A +K++ S L++ SS+ KI
Sbjct: 10  YDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKI 69

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
             +  +IG   +G+  D RVL+ ++R +A+     Y EPI V  L ++     Q++TQ G
Sbjct: 70  FKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHG 129

Query: 126 GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD 185
           GVRPFGV+LL+AG DD GP+L++ DPSG+Y  +KA+A+G        FLEK Y E++ L+
Sbjct: 130 GVRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYKEDLSLE 189

Query: 186 DAVHTAILTLKEGFEGQISEKNIEIGIIG-EKKEFRVLTPNEIRDYLAEVE 235
           +A+  A+  L +  EG++  +N+EI  I  E K+FR L+  EI  YL ++ 
Sbjct: 190 EAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKLL 240

Length = 241

>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits [Posttranslational modification, protein turnover, chaperones]

 Score =  234 bits (600), Expect = 3e-78
 Identities = 99/235 (42%), Positives = 147/235 (62%), Gaps = 5/235 (2%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQ-TSLGIKASNGVVIATEKKLPS-ILVDESS 61
           + Y  ++T FSP G+L Q+E+AL AV  G  T++GIK  +GVV+A +K+  S +L+  S+
Sbjct: 1   AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSN 60

Query: 62  VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEF 121
           V KI  +  +IG+  +G+  D +VLVR +R +A+ Y   Y EPI V  L +  + ++QE+
Sbjct: 61  VEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEY 120

Query: 122 TQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           TQS   RP+GVSLLVAG DD GP+LY  DPSGSY  +KA+A+G     A  FLEK Y E+
Sbjct: 121 TQS--GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYRED 178

Query: 182 MELDDAVHTAILTLKEGFE-GQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           + L++A+  A+  L+   E    S   IE+ +I + + FR L   EI+  L ++ 
Sbjct: 179 LSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLS 233

Length = 236

>gnl|CDD|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex, archaeal, alpha subunit

 Score =  226 bits (578), Expect = 5e-75
 Identities = 93/222 (41%), Positives = 143/222 (64%), Gaps = 1/222 (0%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G+L Q+E+A  AV  G T++GIK  +GVV+A +K++ S LV+ SS+ KI
Sbjct: 3   YDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKI 62

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
             +  +IG   SG+  D RVL+ ++R +A+     Y EPI V  L ++   + Q++TQ G
Sbjct: 63  FKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHG 122

Query: 126 GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD 185
           GVRPFGV+LL+AG DD GP+L++ DPSG+   +KA+A+G        FLEK Y E++ LD
Sbjct: 123 GVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLD 182

Query: 186 DAVHTAILTLKEGFEGQISEKNIEIGIIGEK-KEFRVLTPNE 226
           +A+  A+  L    E +++ +N+E+  I  + K+FR L+  E
Sbjct: 183 EAIELALKALYSAVEDKLTPENVEVAYITVEDKKFRKLSVEE 224

This protein family describes the archaeal proteasome alpha subunit, homologous to both the beta subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 224

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score =  217 bits (554), Expect = 1e-71
 Identities = 89/208 (42%), Positives = 134/208 (64%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G+L Q+E+A  AV  G T+LGIK   GVV+A +K++ S LV+  S+ KI
Sbjct: 2   YDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKI 61

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
             +  ++G   SG+  D RVL+ ++R +A+ +   Y EPI V  LV++   + Q++TQ G
Sbjct: 62  YKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHG 121

Query: 126 GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD 185
           GVRPFGV+LL+AG DD GP+L++ DPSG+Y  +KA+A+G        FLEK Y E+M L+
Sbjct: 122 GVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLE 181

Query: 186 DAVHTAILTLKEGFEGQISEKNIEIGII 213
           +A+  A+  L    E   + +N+EI  +
Sbjct: 182 EAIELALKALYAALEENETPENVEIAYV 209

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 211

>gnl|CDD|215805 pfam00227, Proteasome, Proteasome subunit

 Score =  200 bits (512), Expect = 2e-65
 Identities = 78/186 (41%), Positives = 114/186 (61%), Gaps = 5/186 (2%)

Query: 32  GQTSLGIKASNGVVIATEKKLP--SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRK 89
           G T +GIK  +GVV+A +K+    S L+ + +V KI  +  +IG+ ++G+  D + LV  
Sbjct: 4   GTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLVDY 63

Query: 90  SRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQ 148
           +R +A+ Y   Y  PI V +L +  A  +Q +TQ  G RP+GVSLL+AGYD+ G P LY 
Sbjct: 64  ARAEAQLYRLRYGRPISV-ELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHLYS 122

Query: 149 VDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQ-ISEKN 207
           +DPSGS   +KA+A+G     A  FLEK Y  +M L++AV  A+  LKE  E   +S  N
Sbjct: 123 IDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDALSGGN 182

Query: 208 IEIGII 213
           IE+ +I
Sbjct: 183 IEVAVI 188

The proteasome is a multisubunit structure that degrades proteins. Protein degradation is an essential component of regulation because proteins can become misfolded, damaged, or unnecessary. Proteasomes and their homologues vary greatly in complexity: from HslV (heat shock locus v), which is encoded by 1 gene in bacteria, to the eukaryotic 20S proteasome, which is encoded by more than 14 genes. Recently evidence of two novel groups of bacterial proteasomes was proposed. The first is Anbu, which is sparsely distributed among cyanobacteria and proteobacteria. The second is call beta-proteobacteria proteasome homologue (BPH). Length = 188

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score =  198 bits (506), Expect = 2e-64
 Identities = 85/209 (40%), Positives = 130/209 (62%), Gaps = 3/209 (1%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G L Q+E+A  AV  G T++G++  + VV+  EKK  + L D  +V KI
Sbjct: 1   YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKI 60

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
             L  ++ + ++G+  D RVL+ ++R + + +    ++P+ V  + R  A + Q +TQSG
Sbjct: 61  CMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSG 120

Query: 126 GVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMEL 184
           GVRPFG+S L+ G+D D  P+LYQ DPSG+Y +WKA+A+G+N    + FLEK Y EEM  
Sbjct: 121 GVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTR 180

Query: 185 DDAVHTAILTLKEGFEGQISEKNIEIGII 213
           DD +  AI  L E  +     KNIE+ ++
Sbjct: 181 DDTIKLAIKALLEVVQS--GSKNIELAVM 207

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 207

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  195 bits (497), Expect = 3e-63
 Identities = 82/183 (44%), Positives = 116/183 (63%), Gaps = 5/183 (2%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T +GIK  +GVV+A +K++ S +LV  S+V KI  +  +IG  ++G+  D + LV + RK
Sbjct: 2   TIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRK 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYD-DKGPQLYQVDP 151
           +A+ Y   Y EPIPV  L +  A ++ E+TQS  +RP GVSLLVAG D + GPQLY VDP
Sbjct: 62  EAQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDP 119

Query: 152 SGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
           SGSY  +KA+A+G     A   LEK Y  +M L++A+  A+  LK   E  + S  NIE+
Sbjct: 120 SGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIEV 179

Query: 211 GII 213
            +I
Sbjct: 180 AVI 182

This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins, the breakdown of regulatory proteins, and the processing of proteins such as the preparation of peptides for immune presentation. Two main proteasomal types are distinguished by their different tertiary structures: the eukaryotic/archeal 20S proteasome and the prokaryotic proteasome-like heat shock protein encoded by heat shock locus V, hslV. The proteasome core particle is a highly conserved cylindrical structure made up of non-identical subunits that have their active sites on the inner walls of a large central cavity. The proteasome subunits of bacteria, archaea, and eukaryotes all share a conserved Ntn (N terminal nucleophile) hydrolase fold and a catalytic mechanism involving an N-terminal nucleophilic threonine that is exposed by post-translational processing of an inactive propeptide. Length = 182

>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score =  179 bits (457), Expect = 5e-57
 Identities = 75/185 (40%), Positives = 110/185 (59%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y  S +TFSP G++ Q+E+A  AV +  T++GI+  +GVV+A EK + S L +  S  
Sbjct: 2   TGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNK 61

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           +I ++  +IG+  +G+  D R LV ++R++AE Y   Y  PIPV  L    A  M  +T 
Sbjct: 62  RIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTL 121

Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEME 183
              VRPFG S+L+ GYD  GPQLY ++PSG  + +   A+GK    AKT LEK    E+ 
Sbjct: 122 YSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELT 181

Query: 184 LDDAV 188
             +AV
Sbjct: 182 CREAV 186

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 212

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  179 bits (457), Expect = 6e-57
 Identities = 88/214 (41%), Positives = 132/214 (61%), Gaps = 5/214 (2%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES-SV 62
            +Y    T FSP G+L Q+E+A+ A+    T LGI A +G+V+A EKK+ S L+D+S S 
Sbjct: 1   RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSS 60

Query: 63  HKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFT 122
            KI  +  +I    +G+  D  +L+  +R  A++Y   Y+EPIPV QLV+    + Q +T
Sbjct: 61  EKIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYT 120

Query: 123 QSGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           Q GG+RPFGVS L AG+D   G QLYQ DPSG+Y  WKA+A+G N   A++ L++ Y ++
Sbjct: 121 QYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDD 180

Query: 182 MELDDAVHTAILTLKEGFEGQI--SEKNIEIGII 213
           M L++A+  A+  L +  +     SEK +E   +
Sbjct: 181 MTLEEALALAVKVLSKTMDSTKLTSEK-LEFATL 213

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 213

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score =  174 bits (442), Expect = 1e-54
 Identities = 75/207 (36%), Positives = 126/207 (60%), Gaps = 5/207 (2%)

Query: 12  TFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPN 71
           TFSP G+L Q+E+A+ A+  G T++GIK   GVV+A EK++ S L++ SSV KI  +  +
Sbjct: 7   TFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDH 66

Query: 72  IGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGV---- 127
           IG   SG+  D R L+  +R +A+ +   Y EP+ V  + +  + +  +F +        
Sbjct: 67  IGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAM 126

Query: 128 -RPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDD 186
            RPFGV+LL+AG D+ GPQL+  DPSG++    A A+G     A++ L+++Y ++M L++
Sbjct: 127 SRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEE 186

Query: 187 AVHTAILTLKEGFEGQISEKNIEIGII 213
           A   A+  LK+  E +++  N+E+  +
Sbjct: 187 AEKLALSILKQVMEEKLNSTNVELATV 213

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 213

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score =  168 bits (428), Expect = 2e-52
 Identities = 73/210 (34%), Positives = 117/210 (55%), Gaps = 6/210 (2%)

Query: 10  LTTFSPSGKLVQIEHALTAVG-SGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL 68
           +T FSP G+L Q+E+A  AV  +G TS+ ++  +  V+ T+KK+P  L+D S+V  +  +
Sbjct: 6   ITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRI 65

Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVR 128
           T  IG V +GM  D R  V+++R +A ++   Y   +PV  L +  A + Q +TQ   +R
Sbjct: 66  TDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMR 125

Query: 129 PFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY----VEEME 183
           P GVS+++ G D+  GPQLY+ DP+G +  +KA+A G     A  FLEK+          
Sbjct: 126 PLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIES 185

Query: 184 LDDAVHTAILTLKEGFEGQISEKNIEIGII 213
            ++ V  AI  L+           IE+G++
Sbjct: 186 YEETVELAISCLQTVLSTDFKATEIEVGVV 215

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 215

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score =  166 bits (423), Expect = 8e-52
 Identities = 81/209 (38%), Positives = 128/209 (61%), Gaps = 8/209 (3%)

Query: 11  TTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH-KIQSLT 69
           TT+SP G+L Q+E+A+ AV  G  ++G+K+    V+   K+  S L   SS   KI  + 
Sbjct: 6   TTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL---SSYQKKIFKVD 62

Query: 70  PNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRP 129
            +IG+  +G+  D RVL R  R++   Y  +Y  PIPV++LV + A   Q  TQ  G RP
Sbjct: 63  DHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRP 122

Query: 130 FGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV--EEMELDDA 187
           +GV LL+AGYD+ GP L+Q  PSG+YF +KA+++G    +A+T+LE+ +   E+  L++ 
Sbjct: 123 YGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEEL 182

Query: 188 VHTAILTLKEGF--EGQISEKNIEIGIIG 214
           +  A+  L+E    E +++ KN+ I I+G
Sbjct: 183 IKHALRALRETLPGEQELTIKNVSIAIVG 211

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 211

>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional

 Score =  159 bits (403), Expect = 2e-48
 Identities = 84/238 (35%), Positives = 136/238 (57%), Gaps = 8/238 (3%)

Query: 5   QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES-SVH 63
           +Y    TTFSP G+L Q+E+AL A+ +   ++GI    GV++  +K + S L+D      
Sbjct: 4   RYDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINE 63

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  +I    +G+  D  +L+ + R  A++Y   Y EP PV QLV +   + Q +TQ
Sbjct: 64  KIYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQ 123

Query: 124 SGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM 182
            GG+RPFGVS L AGYD+  G QLY  DPSG+Y  WKA+A+G+N   A++ L++ + E++
Sbjct: 124 FGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDL 183

Query: 183 ELDDAVHTAILTLKEGFEGQISEKN-IEIGIIGEKKE-----FRVLTPNEIRDYLAEV 234
            L+  +  A   L +  +    + + IE+GI+   +       ++L+  EI + L +V
Sbjct: 184 TLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAELLKKV 241

Length = 253

>gnl|CDD|238884 cd01901, Ntn_hydrolase, The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid

 Score =  142 bits (359), Expect = 9e-43
 Identities = 68/166 (40%), Positives = 92/166 (55%), Gaps = 5/166 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           TS+ IK   GVV+A +K+L S + V  S V KI      I    +G+  D + LVR+ R+
Sbjct: 2   TSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLRE 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
             + Y   Y EPI V  L +E A ++Q +TQ    RPFGV+L+VAG D+ G  LY +DPS
Sbjct: 62  ALQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDEGGGNLYYIDPS 118

Query: 153 GSYFSW-KASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKE 197
           G       A A G     AK+ LEK Y  +M L++AV  A+  LK 
Sbjct: 119 GPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALKS 164

N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-layered alpha, beta, beta, alpha core structure. This family of hydrolases includes penicillin acylase, the 20S proteasome alpha and beta subunits, and glutamate synthase. The mechanism of activation of these proteins is conserved, although they differ in their substrate specificities. All known members catalyze the hydrolysis of amide bonds in either proteins or small molecules, and each one of them is synthesized as a preprotein. For each, an autocatalytic endoproteolytic process generates a new N-terminal residue. This mature N-terminal residue is central to catalysis and acts as both a polarizing base and a nucleophile during the reaction. The N-terminal amino group acts as the proton acceptor and activates either the nucleophilic hydroxyl in a Ser or Thr residue or the nucleophilic thiol in a Cys residue. The position of the N-terminal nucleophile in the active site and the mechanism of catalysis are conserved in this family, despite considerable variation in the protein sequences. Length = 164

>gnl|CDD|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit

 Score = 96.6 bits (241), Expect = 8e-25
 Identities = 55/191 (28%), Positives = 90/191 (47%), Gaps = 7/191 (3%)

Query: 34  TSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T++GI   +GVV+A +K+      +   +V KI  +   I +  +G   D + LVR  + 
Sbjct: 2   TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKA 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           +A  Y      P+ +    +  A ++     S    P+ V LL+ G D++GP LY +DP 
Sbjct: 62  EARLYELRRGRPMSI----KALATLLSNILNSSKYFPYIVQLLIGGVDEEGPHLYSLDPL 117

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIG 211
           GS    K +A G     A   LE  Y E+M +++A   AI  +K   E    S   I++ 
Sbjct: 118 GSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGIDVV 177

Query: 212 IIGEKKEFRVL 222
           +I  K  ++ L
Sbjct: 178 VIT-KDGYKEL 187

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme for non-lysosomal protein degradation in both the cytosol and the nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are both members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 188

>gnl|CDD|234287 TIGR03634, arc_protsome_B, proteasome endopeptidase complex, archaeal, beta subunit

 Score = 93.4 bits (233), Expect = 1e-23
 Identities = 55/188 (29%), Positives = 91/188 (48%), Gaps = 8/188 (4%)

Query: 32  GQTSLGIKASNGVVIATEKKLPSI--LVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRK 89
           G T++GIK  +GVV+A +K+  S+   V   +  K+  +   I +  +G   D + LVR 
Sbjct: 1   GTTTVGIKCKDGVVLAADKRA-SMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRI 59

Query: 90  SRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQV 149
            + +A+ Y      P+ V    +  A ++     S    PF V LLV G D++GP LY +
Sbjct: 60  LKAEAKLYELRRGRPMSV----KALATLLSNILNSNRFFPFIVQLLVGGVDEEGPHLYSL 115

Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNI 208
           DP+G       +A G     A   LE  Y E+M +++A   A+  +K   E  + S   I
Sbjct: 116 DPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNGI 175

Query: 209 EIGIIGEK 216
           ++ +I + 
Sbjct: 176 DVAVITKD 183

This protein family describes the archaeal proteasome beta subunit, homologous to both the alpha subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 185

>gnl|CDD|238893 cd01912, proteasome_beta, proteasome beta subunit

 Score = 89.4 bits (223), Expect = 3e-22
 Identities = 48/187 (25%), Positives = 81/187 (43%), Gaps = 7/187 (3%)

Query: 34  TSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T +GIK  +GVV+A + +     LV   +  KI  ++ NI +  +G   D + L R  ++
Sbjct: 2   TIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKR 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDP 151
               Y       + V       + ++  + +     P+ VSL+V G D   GP LY VDP
Sbjct: 62  NLRLYELRNGRELSVKAAANLLSNILYSY-RGF---PYYVSLIVGGVDKGGGPFLYYVDP 117

Query: 152 SGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
            GS       A G     A   L++ Y  +M L++AV      +    E  + S   +++
Sbjct: 118 LGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVDV 177

Query: 211 GIIGEKK 217
            +I +  
Sbjct: 178 AVITKDG 184

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 189

>gnl|CDD|239732 cd03763, proteasome_beta_type_7, proteasome beta type-7 subunit

 Score = 63.0 bits (154), Expect = 2e-12
 Identities = 45/165 (27%), Positives = 66/165 (40%), Gaps = 24/165 (14%)

Query: 34  TSLGIKASNGVVI-----ATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVR 88
           T +G+   +GVV+     ATE      +V + +  KI  + PNI    +G   D   +  
Sbjct: 2   TIVGVVFKDGVVLGADTRATE----GPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTN 57

Query: 89  KSRKQAEQYHRLYKEPIP-----VTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG 143
                 E  HRL     P     +T L +        F   G +   G +L++ G D  G
Sbjct: 58  MISSNLE-LHRLNTGRKPRVVTALTMLKQHL------FRYQGHI---GAALVLGGVDYTG 107

Query: 144 PQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAV 188
           P LY + P GS        MG     A + LE RY  +M  ++A 
Sbjct: 108 PHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAK 152

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 189

>gnl|CDD|239727 cd03758, proteasome_beta_type_2, proteasome beta type-2 subunit

 Score = 52.6 bits (127), Expect = 2e-08
 Identities = 45/177 (25%), Positives = 81/177 (45%), Gaps = 26/177 (14%)

Query: 34  TSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPD---FRVLVRK 89
           T +GIK  + V++A +     SILV +    KI  L+ +  +  SG   D   F   ++K
Sbjct: 3   TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQK 62

Query: 90  SRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ---SGGVR---PFGVSLLVAGYDDK- 142
           +     Q ++  +    ++   +  A     FT+   +  +R   P+ V+LL+AGYD   
Sbjct: 63  NI----QLYK-MRNGYELS--PKAAA----NFTRRELAESLRSRTPYQVNLLLAGYDKVE 111

Query: 143 GPQLYQVDPSGSYFS--WKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKE 197
           GP LY +D  G+     + A   G     +   L++ Y  +M +++A+      +KE
Sbjct: 112 GPSLYYIDYLGTLVKVPYAAHGYGAYFCLS--ILDRYYKPDMTVEEALELMKKCIKE 166

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis.Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 193

>gnl|CDD|204518 pfam10584, Proteasome_A_N, Proteasome subunit A N-terminal signature

 Score = 44.7 bits (107), Expect = 4e-07
 Identities = 14/23 (60%), Positives = 18/23 (78%)

Query: 6  YSFSLTTFSPSGKLVQIEHALTA 28
          Y  SLTTFSP G+L Q+E+A+ A
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMKA 23

This domain is conserved in the A subunits of the proteasome complex proteins. Length = 23

>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional

 Score = 48.4 bits (115), Expect = 6e-07
 Identities = 36/159 (22%), Positives = 67/159 (42%), Gaps = 9/159 (5%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G T+L  K   G++IA + K  +   +   SV K+  + P +    +G   D     R+ 
Sbjct: 39  GTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL 98

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSL--LVAGYDDKGPQLYQ 148
             Q   Y     E I V    +  A ++  +      +  G+S+  ++ G+D KGP L+ 
Sbjct: 99  AMQCRLYELRNGELISVAAASKILANIVWNY------KGMGLSMGTMICGWDKKGPGLFY 152

Query: 149 VDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDA 187
           VD  G+       + G   + A   L+  +  ++  ++A
Sbjct: 153 VDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEA 191

Length = 247

>gnl|CDD|198016 smart00948, Proteasome_A_N, Proteasome subunit A N-terminal signature Add an annotation

 Score = 43.3 bits (103), Expect = 2e-06
 Identities = 14/23 (60%), Positives = 18/23 (78%)

Query: 6  YSFSLTTFSPSGKLVQIEHALTA 28
          Y  SLTTFSP G+L Q+E+A+ A
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMEA 23

This domain is conserved in the A subunits of the proteasome complex proteins. Length = 23

>gnl|CDD|163403 TIGR03691, 20S_bact_alpha, proteasome, alpha subunit, bacterial type

 Score = 45.9 bits (109), Expect = 4e-06
 Identities = 52/220 (23%), Positives = 92/220 (41%), Gaps = 20/220 (9%)

Query: 23  EHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD 82
           E A   +  G++ + +  ++G++   E   PS      S+HKI  L   IG    G   +
Sbjct: 18  ELARKGIARGRSVVVLTYADGILFVAEN--PS-----RSLHKISELYDRIGFAAVGKYNE 70

Query: 83  FRVLVRKSRKQAEQYHRLY-KEPIPVTQLVRETAAVMQE-FTQSGGVRPFGVSLLVA--G 138
           F  L R   + A+     Y +  +    L    A  +   FT+    +P+ V + VA  G
Sbjct: 71  FENLRRAGIRYADMRGYSYDRRDVTGRGLANAYAQTLGTIFTEQ--QKPYEVEICVAEVG 128

Query: 139 YDDKGPQLYQVDPSGSYFSWKAS-AMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKE 197
                 QLY++   GS    +    MG       T L++ Y + + L DA+  A+  L+ 
Sbjct: 129 ETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADALGLAVQALRA 188

Query: 198 GFEGQISE---KNIEIGIIGE---KKEFRVLTPNEIRDYL 231
           G  G+  E    ++E+ ++     ++ FR +T   +   L
Sbjct: 189 GGNGEKRELDAASLEVAVLDRSRPRRAFRRITGEALERLL 228

Members of this family are the alpha subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In most Actinobacteria (an exception is Propionibacterium acnes), the proteasome is accompanied by a system of tagging proteins for degradation with Pup [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 228

>gnl|CDD|239730 cd03761, proteasome_beta_type_5, proteasome beta type-5 subunit

 Score = 44.5 bits (106), Expect = 1e-05
 Identities = 36/163 (22%), Positives = 72/163 (44%), Gaps = 19/163 (11%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPD----FRVLVR 88
           T+L      GV++A + +  +   +   +V K+  + P +    +G   D     RVL R
Sbjct: 2   TTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGR 61

Query: 89  KSRKQAEQYHRL-YKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSL--LVAGYDDKGPQ 145
           + R      + L  KE I V    +  + ++ ++      +  G+S+  ++ G+D  GP 
Sbjct: 62  ECR-----LYELRNKERISVAAASKLLSNMLYQY------KGMGLSMGTMICGWDKTGPG 110

Query: 146 LYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAV 188
           LY VD  G+       ++G   + A   L+  Y  ++ +++A 
Sbjct: 111 LYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAY 153

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 188

>gnl|CDD|239731 cd03762, proteasome_beta_type_6, proteasome beta type-6 subunit

 Score = 43.4 bits (103), Expect = 2e-05
 Identities = 29/158 (18%), Positives = 62/158 (39%), Gaps = 9/158 (5%)

Query: 34  TSLGIKASNGVVIATEKKLP--SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSR 91
           T + ++   GVV+  + +    S + +  +  K+  L   I    SG   D + +    R
Sbjct: 2   TIIAVEYDGGVVLGADSRTSTGSYVANRVT-DKLTQLHDRIYCCRSGSAADTQAIADYVR 60

Query: 92  KQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVD 150
              + +     EP     LV+  A++ +    +         ++VAG+D+  G Q+Y + 
Sbjct: 61  YYLDMHSIELGEPP----LVKTAASLFKNLCYNYKEM-LSAGIIVAGWDEQNGGQVYSIP 115

Query: 151 PSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAV 188
             G       +  G   +    +++  Y   M L++ +
Sbjct: 116 LGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECI 153

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 188

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	235
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
KOG0178	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0181	233	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	100.0
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	100.0
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.97
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.97
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	99.97
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.97
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.59
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	99.58
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.33
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	97.19
COG4079	293	Uncharacterized protein conserved in archaea [Func	96.72
KOG3361	157	consensus Iron binding protein involved in Fe-S cl	84.42

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=9.4e-64  Score=412.86  Aligned_cols=226  Identities=77%  Similarity=1.203  Sum_probs=220.4

Q ss_pred             CCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHH
Q 026627            6 YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRV   85 (235)
Q Consensus         6 yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (235)
                      ||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|++.+++++.+++.+||++|++|++|+++|..+|++.
T Consensus         1 yd~~~t~fsp~Grl~QveyA~~av~~G~t~igik~~dgVvlaad~~~~~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (227)
T cd03750           1 YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGMVYSGMGPDFRV   80 (227)
T ss_pred             CCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecCCccccCCCCcceEEEEcCCEEEEEeEcHHhHHH
Confidence            89999999999999999999999999999999999999999999999888888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCC
Q 026627           86 LVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGK  165 (235)
Q Consensus        86 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~  165 (235)
                      +.+.++.+++.|++.++++++++.+++++++.+|.|+++++.|||+|++|++|||++||+||.+||.|++.+++++|+|+
T Consensus        81 l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~g~~Ly~~d~~G~~~~~~~~a~G~  160 (227)
T cd03750          81 LVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGK  160 (227)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCCCCEEEEECCCCCEEeeeEEEECC
Confidence            99999999999999999999999999999999999999999999999999999998899999999999999999999999


Q ss_pred             CchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHH
Q 026627          166 NVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYL  231 (235)
Q Consensus       166 ~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l  231 (235)
                      |++.++++|++.|+++|+++||++++++||+.+.++++++.+++|++++++++++.++++||++++
T Consensus       161 g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l~~~~iev~iv~~~~~~~~~~~~ei~~~~  226 (227)
T cd03750         161 NYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYL  226 (227)
T ss_pred             CCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCEEECCHHHHHHHh
Confidence            999999999999999999999999999999999988889999999999987679999999999986

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>KOG0176 consensus 20S proteasome, regulatory subunit alpha type PSMA5/PUP2 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=9.4e-64  Score=385.01  Aligned_cols=233  Identities=36%  Similarity=0.653  Sum_probs=224.3

Q ss_pred             CCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChh
Q 026627            2 GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         2 ~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      -++.||+.+++|||||||||||||++|++.|+|.|||+.++|||||+++|.+++|+.++..+||++|++||+|++||+.+
T Consensus         4 trseydrgVNTfSpEGRlfQVEYaieAikLGsTaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgca~SGl~a   83 (241)
T KOG0176|consen    4 TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGCAMSGLIA   83 (241)
T ss_pred             cHHHhcccccccCCCceeeehhhHHHHHhcCCceeeeeccceEEEEEeccccCcccCchhhhhheehhhceeeecccccc
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC-----cccceeEEEEEEEeCCCCeEEEECCCCcEE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGG-----VRPFGVSLLVAGYDDKGPQLYQVDPSGSYF  156 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~-----~rP~~~~~il~G~d~~gp~Ly~id~~G~~~  156 (235)
                      |++.+++..|.++++|++.||++++++.+.+.+|.+...|.....     .|||||++|+||+|++||+||+.||+|+++
T Consensus        84 DarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~gpqL~h~dPSGtf~  163 (241)
T KOG0176|consen   84 DARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDETGPQLYHLDPSGTFI  163 (241)
T ss_pred             chHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCCCceEEEeCCCCceE
Confidence            999999999999999999999999999999999999987765522     599999999999999999999999999999


Q ss_pred             eeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          157 SWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       157 ~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      ++++-|||+|++-+...|++.|+++|+++||+.+++..|+.+++..++..++++.++++.+.|++++++|+++++.++
T Consensus       164 ~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMeeKl~~~Nvev~~vt~e~~f~~~t~EE~~~~i~~~  241 (241)
T KOG0176|consen  164 RYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVMEEKLNSNNVEVAVVTPEGEFHIYTPEEVEQVIKRL  241 (241)
T ss_pred             EecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHhcCccceEEEEEcccCceEecCHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999998899999999999999889999999999998654

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=3.8e-62  Score=409.34  Aligned_cols=234  Identities=36%  Similarity=0.626  Sum_probs=221.9

Q ss_pred             CCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCcccc-CCceeEEEecCcEEEEEecCh
Q 026627            2 GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE-SSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         2 ~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~-~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      |.++||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|+|.+++++.. ++.+||++|++|++|+++|..
T Consensus         1 ~~~~yd~~~~~fsp~Grl~QvEYA~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~   80 (253)
T PTZ00246          1 MSRRYDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLT   80 (253)
T ss_pred             CCCccCCCCceECCCCEEhHHHHHHHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcH
Confidence            4679999999999999999999999999999999999999999999999998876554 468999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeee
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWK  159 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~  159 (235)
                      +|++.+.+.+|.+++.|++.++.+++++.+++.++..+|.|+++++.|||+|++|++|||+ .||+||.+||.|++.+++
T Consensus        81 ~D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~~~~~  160 (253)
T PTZ00246         81 ADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWK  160 (253)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECCCCCEecce
Confidence            9999999999999999999999999999999999999999999999999999999999995 789999999999999999


Q ss_pred             EEeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC-----cEEEcCHHHHHHHHHH
Q 026627          160 ASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK-----EFRVLTPNEIRDYLAE  233 (235)
Q Consensus       160 ~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~-----~~~~l~~~ei~~~l~~  233 (235)
                      ++|+|.++++++++|++.|+++|+++||++++++||+.+..++. ++..++|+++++++     .|++|+++||+++|..
T Consensus       161 ~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l~~~ei~~~l~~  240 (253)
T PTZ00246        161 ATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAELLKK  240 (253)
T ss_pred             EEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEECCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999874 88999999999863     3899999999999987


Q ss_pred             cC
Q 026627          234 VE  235 (235)
Q Consensus       234 ~~  235 (235)
                      ++
T Consensus       241 ~~  242 (253)
T PTZ00246        241 VT  242 (253)
T ss_pred             Hh
Confidence            63

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=6.5e-62  Score=405.39  Aligned_cols=232  Identities=41%  Similarity=0.711  Sum_probs=223.9

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      .++||+++|+|||||||+|+|||.||+++|+|+|||+++||||||+|++.+++++..++.+||++|++|++|++||..+|
T Consensus         7 ~~~y~~~~~~fsp~Gr~~Q~eya~~av~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   86 (241)
T PRK03996          7 QMGYDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAASAGLVAD   86 (241)
T ss_pred             ccccCCCCceECCCCeEhHHHHHHHHHHhCCCEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEcccHHH
Confidence            57999999999999999999999999999999999999999999999999988877789999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEe
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      ++.+.+.++.+++.|++.++++++++.++++++..+|.|+++++.|||+|++||||+|++||+||.+||.|++.+++++|
T Consensus        87 ~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~gp~Ly~id~~G~~~~~~~~a  166 (241)
T PRK03996         87 ARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATA  166 (241)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCCcCEEEEECCCCCeecceEEE
Confidence            99999999999999999999999999999999999999999999999999999999999899999999999999999999


Q ss_pred             eCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC-cEEEcCHHHHHHHHHHc
Q 026627          163 MGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKK-EFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       163 ~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~-~~~~l~~~ei~~~l~~~  234 (235)
                      +|.+++.++++|++.|+++|+++||++++++||+.+.+++.++..++|+++++++ +++.++++||+++++++
T Consensus       167 ~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~~~~~~~i~i~ii~~~~~~~~~~~~~ei~~~~~~~  239 (241)
T PRK03996        167 IGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKL  239 (241)
T ss_pred             ECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCcEEECCHHHHHHHHHHh
Confidence            9999999999999999999999999999999999998876789999999999985 59999999999999875

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=3.4e-60  Score=391.11  Aligned_cols=223  Identities=41%  Similarity=0.703  Sum_probs=213.6

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhH
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDF   83 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~   83 (235)
                      .+||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|+++++|++||..+|+
T Consensus         1 ~~~~~~~~~f~p~Grl~Qieya~~av~~G~tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   80 (224)
T TIGR03633         1 MGYDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVADA   80 (224)
T ss_pred             CCCCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCccccCCCccceEEEECCCEEEEEeecHHhH
Confidence            48999999999999999999999999999999999999999999999998887777899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEee
Q 026627           84 RVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAM  163 (235)
Q Consensus        84 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~  163 (235)
                      +.+.+.++.++..|++.++++++++.+++++++.+|.+++.++.|||+|++||||+|+.+|+||.+||.|++.+++++|+
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~~~~~Ly~~D~~G~~~~~~~~a~  160 (224)
T TIGR03633        81 RVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAI  160 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeCCcCEEEEECCCCCeecceEEEE
Confidence            99999999999999999999999999999999999999999889999999999999998999999999999999999999


Q ss_pred             CCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC-cEEEcCHHH
Q 026627          164 GKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKK-EFRVLTPNE  226 (235)
Q Consensus       164 G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~-~~~~l~~~e  226 (235)
                      |.++.+++++|++.|+++|+++||++++++||+.+.++..++..++|++|++++ +|++++++|
T Consensus       161 G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~~d~~~~~~i~i~ii~~~g~~~~~~~~~~  224 (224)
T TIGR03633       161 GAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAVEDKLTPENVEVAYITVEDKKFRKLSVEE  224 (224)
T ss_pred             CCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEEcCCCcEEECCCCC
Confidence            999999999999999999999999999999999988833689999999999975 499999875

This protein family describes the archaeal proteasome alpha subunit, homologous to both the beta subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated.

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=5.2e-60  Score=386.24  Aligned_cols=211  Identities=36%  Similarity=0.572  Sum_probs=203.4

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      +++||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|++.+++++..++.+||++|++|++|+++|..+|
T Consensus         1 ~~~yd~~~t~fsp~Grl~Qveya~~a~~~G~tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (212)
T cd03751           1 GTGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLAD   80 (212)
T ss_pred             CCCccCCCceECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEEccccccccCcchhcceeEecCcEEEEEEEChHh
Confidence            37999999999999999999999999999999999999999999999999888777778999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEe
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      ++.+.+.++.+++.|++.++.+++++.+++++++.+|.|+++++.|||+|++|++|+|++||+||.+||.|++.+++++|
T Consensus        81 ~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~gp~Ly~~D~~Gs~~~~~~~a  160 (212)
T cd03751          81 GRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCA  160 (212)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCCcCEEEEECCCCCEEeeEEEE
Confidence            99999999999999999999999999999999999999999989999999999999998899999999999999999999


Q ss_pred             eCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEE
Q 026627          163 MGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGII  213 (235)
Q Consensus       163 ~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i  213 (235)
                      +|+++..++++||+.|+++||++||+++++++|+.+++.. ....++||.++
T Consensus       161 ~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         161 IGKGKQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             ECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            9999999999999999999999999999999999999854 68899999874

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=5.4e-59  Score=381.11  Aligned_cols=210  Identities=40%  Similarity=0.691  Sum_probs=201.7

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCcccc-CCceeEEEecCcEEEEEecChhh
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE-SSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~-~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      ++||+++|+|||||||+|+|||.||+++|+|+||++++||||||+|+|.+++++.. ++.+||++|++|++|++||..+|
T Consensus         1 ~~yd~~~~~fsp~Grl~Qveya~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (213)
T cd03752           1 RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSD   80 (213)
T ss_pred             CCcCCCCceECCCCEEhHHHhHHHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHh
Confidence            48999999999999999999999999999999999999999999999998876554 49999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEE
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~  161 (235)
                      ++.+.+.+|.+++.|+++++++++++.++++++..+|.|+++++.|||+|++|++|||+ .||+||.+||.|++.+++++
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d~~G~~~~~~~~  160 (213)
T cd03752          81 ANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKAT  160 (213)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEECCCCCeeeeeEE
Confidence            99999999999999999999999999999999999999999999999999999999995 78999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEE
Q 026627          162 AMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGII  213 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i  213 (235)
                      |+|+++..++++||+.|+++|+++||++++++||+.+.+|+ ..+.++||.++
T Consensus       161 a~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         161 AIGNNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             EECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            99999999999999999999999999999999999999987 58899999875

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.5e-60  Score=367.96  Aligned_cols=231  Identities=38%  Similarity=0.662  Sum_probs=221.5

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      .++||+-+|+|||||+|+|||||++|+.+|+|.||++++|+|||+.+++...+|...+...||..+++|++++++|+.+|
T Consensus         1 msrydraltvFSPDGhL~QVEYAqEAvrkGstaVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld~hV~mafaGl~aD   80 (249)
T KOG0183|consen    1 MSRYDRALTVFSPDGHLFQVEYAQEAVRKGSTAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLDDHVVMAFAGLTAD   80 (249)
T ss_pred             CCccccceEEECCCCCEEeeHhHHHHHhcCceEEEeccCceEEEEEeecchhhhhhhhhhhhheeecceeeEEecCCCcc
Confidence            36899999999999999999999999999999999999999999999998889998899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCC-CeEEEECCCCcEEeeeEE
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~g-p~Ly~id~~G~~~~~~~~  161 (235)
                      ++.+++.+|.+|+.|+++.+.+++++.++++++.+.|.||+++|.||||++++|+|+|++| |+||.+||+|.+.+|.+.
T Consensus        81 ArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePsG~f~ewka~  160 (249)
T KOG0183|consen   81 ARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPSGIFSEWKAN  160 (249)
T ss_pred             ceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCCcchhhhhcc
Confidence            9999999999999999999999999999999999999999999999999999999999966 999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccCC--CCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          162 AMGKNVSNAKTFLEKRYVEE--MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~~--~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      |+|.+++.+..+||+.|.++  .+..++++|++++|-++...  .+.++|++++++.+.++.|+.++|+.++..||
T Consensus       161 aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvqs--~~~nie~aVm~~~~~~~~l~~~~I~~~v~~ie  234 (249)
T KOG0183|consen  161 AIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQS--GGKNIEVAVMKRRKDLKMLESEEIDDIVKEIE  234 (249)
T ss_pred             ccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhhc--CCCeeEEEEEecCCceeecCHHHHHHHHHHHH
Confidence            99999999999999999876  78899999999999998764  78899999999987799999999999988764

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=1.9e-58  Score=377.42  Aligned_cols=210  Identities=42%  Similarity=0.714  Sum_probs=204.5

Q ss_pred             CCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHH
Q 026627            5 QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFR   84 (235)
Q Consensus         5 ~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~   84 (235)
                      +||+++|+|||||||+|+|||.||+++|+|+||++++||||||+|++.+++++..++.+||++|+++++|++||..+|++
T Consensus         1 ~y~~~~~~fsp~G~l~Q~eya~~av~~G~t~igik~~dgvvla~d~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   80 (211)
T cd03756           1 GYDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGAATSGLVADAR   80 (211)
T ss_pred             CCCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            69999999999999999999999999999999999999999999999988777778999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeC
Q 026627           85 VLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMG  164 (235)
Q Consensus        85 ~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G  164 (235)
                      .+.+.++.+++.|+++++++++++.++++++..++.+++.++.|||++++||+|||+.||+||.+||.|++.+++++++|
T Consensus        81 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~~~ly~vd~~G~~~~~~~~a~G  160 (211)
T cd03756          81 VLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIG  160 (211)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCCCCEEEEECCCCCeeeeEEEEEC
Confidence            99999999999999999999999999999999999999998999999999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEe
Q 026627          165 KNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIG  214 (235)
Q Consensus       165 ~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~  214 (235)
                      ++++.++++|++.|+++|+++||++++++||+.+.+++.++.+++|++++
T Consensus       161 ~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~~~~~~~~~~~~v~ii~  210 (211)
T cd03756         161 SGRQAVTEFLEKEYKEDMSLEEAIELALKALYAALEENETPENVEIAYVT  210 (211)
T ss_pred             CCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEe
Confidence            99999999999999999999999999999999999888899999999986

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=100.00  E-value=2.9e-58  Score=375.19  Aligned_cols=206  Identities=41%  Similarity=0.697  Sum_probs=199.0

Q ss_pred             CCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHH
Q 026627            6 YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRV   85 (235)
Q Consensus         6 yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (235)
                      ||+++|+|||||||+|+|||.+|+++|+|+|||+++||||||+|++.+..++.++..+||++|++|++|++||..+|++.
T Consensus         1 ~d~~~~~fsp~Gr~~Qveya~~av~~G~t~Igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (207)
T cd03755           1 YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADARV   80 (207)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCCCCcccCCCccCcEEEECCCEEEEEecchhhHHH
Confidence            89999999999999999999999999999999999999999999998777777778999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeC
Q 026627           86 LVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMG  164 (235)
Q Consensus        86 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G  164 (235)
                      +.+.++.+++.|++.++++++++.+++++++++|.|+++++.|||+|++|++|||+ .||+||.+||.|++.+++++|+|
T Consensus        81 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~a~G  160 (207)
T cd03755          81 LINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIG  160 (207)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCcCEEcceEEEEC
Confidence            99999999999999999999999999999999999999999999999999999996 58999999999999999999999


Q ss_pred             CCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 026627          165 KNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGII  213 (235)
Q Consensus       165 ~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i  213 (235)
                      ++++.++++|++.|+++|+++||++++++||+.+.+  .++.++||+++
T Consensus       161 ~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~--~~~~~~e~~~~  207 (207)
T cd03755         161 RNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVVQ--SGSKNIELAVM  207 (207)
T ss_pred             CCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhC--CCCCeEEEEEC
Confidence            999999999999999999999999999999999886  78899999875

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>COG0638 PRE1 20S proteasome, alpha and beta subunits [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=8.6e-58  Score=378.16  Aligned_cols=230  Identities=43%  Similarity=0.703  Sum_probs=219.1

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcCC-CcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChh
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGSG-QTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~G-~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      .+||+.+++||||||++|+|||.+++.+| +|+||++++||||||+|+|.+++ ++..++.+|||+|+|||+|++||..+
T Consensus         1 ~~~~~~~~~fsp~g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~a   80 (236)
T COG0638           1 AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAA   80 (236)
T ss_pred             CCCcCcceeECCCCchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcH
Confidence            47999999999999999999999999976 99999999999999999999986 55566799999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~  161 (235)
                      |++.+.++++.+++.|++.++++++++.+++++++++|.++++  .|||++++|+||+|+++|+||++||+|++.++++.
T Consensus        81 Da~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~rP~gv~~iiaG~d~~~p~Ly~~Dp~G~~~~~~~~  158 (236)
T COG0638          81 DAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKAT  158 (236)
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--cccceEEEEEEEEcCCCCeEEEECCCCceeecCEE
Confidence            9999999999999999999999999999999999999999987  79999999999999978999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          162 AMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      |+|+|++.++++||+.|+++|+.|||++++++||+.+.+||. ++.+++|+++++++++++++++++..++++++
T Consensus       159 a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~~~~~~~~  233 (236)
T COG0638         159 AIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLS  233 (236)
T ss_pred             EEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999986 88899999999976799999999999988753

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=6.5e-58  Score=374.04  Aligned_cols=207  Identities=39%  Similarity=0.697  Sum_probs=198.9

Q ss_pred             CCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHH
Q 026627            6 YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRV   85 (235)
Q Consensus         6 yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (235)
                      ||+++|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.++++.  ++.+||++|++|++|++||..+|++.
T Consensus         1 yd~~~t~fsp~Grl~Qveya~~av~~G~t~IgIk~~dgVvlaad~r~~~~l~--~~~~KI~~I~~~i~~~~sG~~~D~~~   78 (211)
T cd03749           1 YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELS--SYQKKIFKVDDHIGIAIAGLTADARV   78 (211)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccCccccC--CccccEEEeCCCEEEEEEeChHhHHH
Confidence            8999999999999999999999999999999999999999999999877753  46699999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCC
Q 026627           86 LVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGK  165 (235)
Q Consensus        86 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~  165 (235)
                      +.++++.+++.|+++++++++++.+++.++..+|.++++.+.|||+|++||+|||+.||+||.+||+|++.+++++|+|+
T Consensus        79 l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~gp~Ly~~Dp~G~~~~~~~~a~G~  158 (211)
T cd03749          79 LSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGA  158 (211)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCCCeEEEECCCcCEeeeeEEEECC
Confidence            99999999999999999999999999999999999999988999999999999998899999999999999999999999


Q ss_pred             CchHHHHHHHHhcc--CCCCHHHHHHHHHHHHHhhccCC--CCCCcEEEEEEe
Q 026627          166 NVSNAKTFLEKRYV--EEMELDDAVHTAILTLKEGFEGQ--ISEKNIEIGIIG  214 (235)
Q Consensus       166 ~s~~~~~~L~~~~~--~~~s~~ea~~l~~~~l~~~~~~~--~~~~~iei~~i~  214 (235)
                      +++.++++||+.|+  ++|+++|++++++++|+.+++++  +++.+|||++++
T Consensus       159 g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         159 RSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             CcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            99999999999998  59999999999999999999975  789999999984

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=9.3e-58  Score=374.00  Aligned_cols=209  Identities=35%  Similarity=0.610  Sum_probs=200.5

Q ss_pred             CCCCcccccCCCCccchhhcHHHhhcC-CCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhH
Q 026627            5 QYSFSLTTFSPSGKLVQIEHALTAVGS-GQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDF   83 (235)
Q Consensus         5 ~yd~~~~~fsp~Grl~Q~eya~ka~~~-G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~   83 (235)
                      +||+++|+|||||||+|+|||.||+++ |+|+||++++||||||+|+|.+++++..+..+||++|+++++|++||..+|+
T Consensus         1 ~yd~~~~~fsp~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~~Ki~~I~~~i~~~~sG~~~D~   80 (215)
T cd03754           1 GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIGCVMTGMIADS   80 (215)
T ss_pred             CCCCCCeeECCCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCcccCceEEEcCCEEEEEEechhhH
Confidence            699999999999999999999999985 7899999999999999999998877766788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEe
Q 026627           84 RVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        84 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      +.+.+++|.++..|+++++++++++.+++.++.++|.|+++.+.|||++++|+||+|+ +||+||.+||+|++.+++++|
T Consensus        81 ~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~~~~a  160 (215)
T cd03754          81 RSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATA  160 (215)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCccEEeEEEEE
Confidence            9999999999999999999999999999999999999999998999999999999996 789999999999999999999


Q ss_pred             eCCCchHHHHHHHHhccCC--C--CHHHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 026627          163 MGKNVSNAKTFLEKRYVEE--M--ELDDAVHTAILTLKEGFEGQISEKNIEIGII  213 (235)
Q Consensus       163 ~G~~s~~~~~~L~~~~~~~--~--s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i  213 (235)
                      +|++++.++++||+.|+++  |  +++||++++++||+.+.++++.+..+||+|+
T Consensus       161 ~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~~~~~ei~~~  215 (215)
T cd03754         161 AGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFKATEIEVGVV  215 (215)
T ss_pred             ECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            9999999999999999985  7  9999999999999999999988999999885

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=2.4e-57  Score=371.47  Aligned_cols=208  Identities=37%  Similarity=0.650  Sum_probs=199.7

Q ss_pred             CCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHH
Q 026627            6 YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRV   85 (235)
Q Consensus         6 yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (235)
                      ||+++|+|||||||+|+|||.+|+++|+|+||++++||||||+|++.+++++..++.+||++|++|++|+++|..+|++.
T Consensus         1 ~~~~~~~f~p~G~~~Q~eya~~a~~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (213)
T cd03753           1 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGCAMSGLIADART   80 (213)
T ss_pred             CCCCCccCCCCCeEhHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccCCcCcCCCccceEEEEcCCEEEEEecCHHHHHH
Confidence            89999999999999999999999999999999999999999999999887777788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcC-----CcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeE
Q 026627           86 LVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG-----GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        86 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~-----~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~  160 (235)
                      +.+.++.+++.|+++++++++++.+++++++.+|.|++..     ..|||+|++|++|+|+.||+||.+||.|++.++++
T Consensus        81 l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~gp~Ly~vd~~G~~~~~~~  160 (213)
T cd03753          81 LIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDA  160 (213)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCCCCEEEEECCCCCeecccE
Confidence            9999999999999999999999999999999999998753     36999999999999999999999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGII  213 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i  213 (235)
                      +|+|++++.++++|++.|+++|+++||++++++||+.+.+++++++++||+++
T Consensus       161 ~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~~~~~~~ei~~~  213 (213)
T cd03753         161 KAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEKLNSTNVELATV  213 (213)
T ss_pred             EEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            99999999999999999999999999999999999998887789999999975

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=5.3e-57  Score=368.45  Aligned_cols=208  Identities=53%  Similarity=0.861  Sum_probs=201.4

Q ss_pred             CCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHH
Q 026627            6 YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRV   85 (235)
Q Consensus         6 yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (235)
                      ||+++|+|||||||+|+|||+|++++|+|+||++++||||+|+|++.+.+++..++.+||++|+++++++++|..+|++.
T Consensus         1 ~~~~~~~f~~~G~~~q~eya~~~~~~G~tvigi~~~dgVvlaaD~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   80 (209)
T cd01911           1 YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADARV   80 (209)
T ss_pred             CCCCCccCCCCCEEeHHHHHHHHHHcCCCEEEEEECCEEEEEEEecCCccccCCcccceEEEecCCeEEEeccCcHhHHH
Confidence            89999999999999999999999999999999999999999999999887776789999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCC-CCeEEEECCCCcEEeeeEEeeC
Q 026627           86 LVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMG  164 (235)
Q Consensus        86 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~-gp~Ly~id~~G~~~~~~~~a~G  164 (235)
                      +.+.++..+..|+..++++++++.++++++++++.|+++.+.|||+|++||+|+|++ ||+||.+||.|++.+++++++|
T Consensus        81 l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~a~G  160 (209)
T cd01911          81 LVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIG  160 (209)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCCCeeeeeEEEeC
Confidence            999999999999999999999999999999999999999889999999999999975 8999999999999999999999


Q ss_pred             CCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 026627          165 KNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGII  213 (235)
Q Consensus       165 ~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i  213 (235)
                      .++..++++|++.|+++|+.+||++++++||+.+.++|.++..++|+++
T Consensus       161 ~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~~~~~~~i~i~  209 (209)
T cd01911         161 KGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDKKAKNIEIAVV  209 (209)
T ss_pred             CCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEEC
Confidence            9999999999999999999999999999999999999888889999875

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 different alpha and 10 different beta proteasome subunit genes while archaea have one of each.

>KOG0178 consensus 20S proteasome, regulatory subunit alpha type PSMA4/PRE9 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1e-56  Score=349.24  Aligned_cols=233  Identities=38%  Similarity=0.603  Sum_probs=221.6

Q ss_pred             CCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCcccc-CCceeEEEecCcEEEEEecCh
Q 026627            2 GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE-SSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         2 ~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~-~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      |..+||...|+|||||||+|||||++++.+.+|+||+..+||||||+++|.+++|+.. .+.+||++|+|||+|+++|+.
T Consensus         1 msr~ydsrttiFspEGRLyQVEyAmeais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt   80 (249)
T KOG0178|consen    1 MSRRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLT   80 (249)
T ss_pred             CCcCcCCcccccCCCcchHHHHHHHHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEeccc
Confidence            5678999999999999999999999999999999999999999999999999988764 589999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeee
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWK  159 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~  159 (235)
                      +|+..+.+.+|..+++|.++|++++|++.|++.+++..|.|||++|.|||||++|.+|||+ .|.+||+.||+|++..|+
T Consensus        81 ~DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gWk  160 (249)
T KOG0178|consen   81 SDANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGWK  160 (249)
T ss_pred             ccHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCccccc
Confidence            9999999999999999999999999999999999999999999999999999999999998 679999999999999999


Q ss_pred             EEeeCCCchHHHHHHHHhccCCC-CHHHHHHHHHHHHHhhccCC-CCCCcEEEEEEecCC---cEEEcCHHHHHHHHHHc
Q 026627          160 ASAMGKNVSNAKTFLEKRYVEEM-ELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEKK---EFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       160 ~~a~G~~s~~~~~~L~~~~~~~~-s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~---~~~~l~~~ei~~~l~~~  234 (235)
                      +.++|.++..++..|+..|+++. +++||..++++.|..+.++. +...++|+..++++.   .++.++++||.++|++.
T Consensus       161 a~ciG~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k~v~~i~~~~ev~kll~k~  240 (249)
T KOG0178|consen  161 ATCIGANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNKTVLKILKKDEVLKLLEKY  240 (249)
T ss_pred             eeeeccchHHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCceEEEecCHHHHHHHHHHh
Confidence            99999999999999999998765 59999999999999999876 689999999999873   47899999999999875

>KOG0181 consensus 20S proteasome, regulatory subunit alpha type PSMA2/PRE8 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5.4e-57  Score=346.87  Aligned_cols=233  Identities=76%  Similarity=1.131  Sum_probs=227.6

Q ss_pred             CCCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecCh
Q 026627            1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         1 ~~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      |+..+|.+++|+|||+|+|.|+|||..|+.+|.+.||++-.||||||++++..+.|.......|++.|.++|+|..||..
T Consensus         1 m~d~~y~fslTtFSpsGKL~QieyAL~Av~~G~~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~~~IG~vYSGmg   80 (233)
T KOG0181|consen    1 MGDFGYSFSLTTFSPSGKLVQIEYALTAVVNGQTSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKITPHIGCVYSGMG   80 (233)
T ss_pred             CCCcccceeeEEEcCCCceehHHHHHHHHhCCCCceeeeecCceEEEeccCCCCccchhhhhhhHhhccCCcceEEecCC
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeE
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~  160 (235)
                      +|++.+++..|+.++.|...|++++++..++..++..+|.|||++|.||||+++++||||+++|.||.+||+|++..|++
T Consensus        81 pD~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~~p~LyQvdPSGsyf~wka  160 (233)
T KOG0181|consen   81 PDYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEGGPLLYQVDPSGSYFAWKA  160 (233)
T ss_pred             CceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCCceeEEEECCccceeehhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+|.+...++++||++|+++|.+++++..++..|++..+-....+++||.++..+ +|++|+++||+++|+.+
T Consensus       161 tA~Gkn~v~aktFlEkR~~edleldd~ihtailtlkE~fege~~~~nieigv~~~~-~F~~lt~~eI~d~l~~l  233 (233)
T KOG0181|consen  161 TAMGKNYVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEGEMTAKNIEIGVCGEN-GFRRLTPAEIEDYLASL  233 (233)
T ss_pred             hhhccCcchHHHHHHHHhccccccchHHHHHHHHHHHHhccccccCceEEEEecCC-ceeecCHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999988899999999999965 69999999999999864

>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1e-55  Score=346.18  Aligned_cols=228  Identities=37%  Similarity=0.602  Sum_probs=214.6

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhH
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDF   83 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~   83 (235)
                      ++||++.++||||||+||+|||+||+++|+|+|||+|+||||+++|+..+|+|+.++..+||+.|++||+|+++|+.+|.
T Consensus         6 tGyDls~s~fSpdGrvfQveYA~KAven~~T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~r~iG~avaGl~~Dg   85 (254)
T KOG0184|consen    6 TGYDLSASTFSPDGRVFQVEYAQKAVENSGTCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVDRHIGMAVAGLIPDG   85 (254)
T ss_pred             ccccccceeeCCCCceehHHHHHHHHhcCCcEEEEecCCeEEEEEeeeecccccccCCCCceEeecccccEEEeccccch
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEee
Q 026627           84 RVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAM  163 (235)
Q Consensus        84 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~  163 (235)
                      +.+...+|.++.+|+.+|+.++|...+++.++.+.|.||.++..||||+++++++||.+||+||+++|+|..+.++++|+
T Consensus        86 ~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~~g~~LymiepSG~~~~Y~~aai  165 (254)
T KOG0184|consen   86 RHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDDEGPQLYMIEPSGSSYGYKGAAI  165 (254)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeCCCceEEEEcCCCCccceeeeec
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEEecC-CcEEEcCHHHHHHHH
Q 026627          164 GKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEK-KEFRVLTPNEIRDYL  231 (235)
Q Consensus       164 G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~-~~~~~l~~~ei~~~l  231 (235)
                      |.|.+.+++.||+.--++|+.+|+++.+.+.|+.+.+.. .....+|+.|+... ++.++.-|+|+-+..
T Consensus       166 GKgrq~aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eTnG~h~~vp~el~~ea  235 (254)
T KOG0184|consen  166 GKGRQAAKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEETNGLHEKVPSELLEEA  235 (254)
T ss_pred             cchhHHHHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEeecCCccccCcHHHHHHH
Confidence            999999999999999999999999999999999877654 36678999999975 456666666765543

>KOG0863 consensus 20S proteasome, regulatory subunit alpha type PSMA1/PRE5 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.2e-54  Score=340.32  Aligned_cols=231  Identities=35%  Similarity=0.608  Sum_probs=220.8

Q ss_pred             CCCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecCh
Q 026627            1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         1 ~~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      ||+.+||.++|+|||+|||+|||||++|++.|++.||+|.++..||++-+|..+.|  ++.++||++||+|+++.++|++
T Consensus         1 Mfrnqyd~d~t~wsPqGrl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~seL--ss~QkKi~~iD~h~g~siAGLt   78 (264)
T KOG0863|consen    1 MFRNQYDNDVTTWSPQGRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSEL--SSHQKKIFKIDDHIGISIAGLT   78 (264)
T ss_pred             CCcccccCceeEECCcceehHHHHHHHHHhcccceEeecccceEEEeeeccchhHH--HHhhheeEecccccceEEeccC
Confidence            99999999999999999999999999999999999999999999999999887766  3578999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeE
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~  160 (235)
                      +|++.+.+++|.+|..+++.|++++++..|+..+++..|..||+.+.|||||.++++|||+.||+||.++|+|++.++++
T Consensus        79 ~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~G~hl~e~~Psg~v~e~~g  158 (264)
T KOG0863|consen   79 ADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDESGPHLYEFCPSGNVFECKG  158 (264)
T ss_pred             cchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCCCceeEEEcCCccEEEEee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhcc--CCCCHHHHHHHHHHHHHhhccC--CCCCCcEEEEEEecCCcEEEcCHHHHHHHHHH
Q 026627          161 SAMGKNVSNAKTFLEKRYV--EEMELDDAVHTAILTLKEGFEG--QISEKNIEIGIIGEKKEFRVLTPNEIRDYLAE  233 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~--~~~s~~ea~~l~~~~l~~~~~~--~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~  233 (235)
                      .+||+.|+.++++||+...  ++++.||.+..++.||+.++..  ++.+.+++|+|+.++.+|+.++.+++.+++.-
T Consensus       159 ~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~~~d~~~~~k~~~~  235 (264)
T KOG0863|consen  159 MSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFTILDQKDVAKYVDL  235 (264)
T ss_pred             eecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceEeecHHHHHHHHHH
Confidence            9999999999999999886  5899999999999999999874  36899999999999999999999999877653

>KOG0182 consensus 20S proteasome, regulatory subunit alpha type PSMA6/SCL1 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=7.3e-53  Score=327.94  Aligned_cols=232  Identities=33%  Similarity=0.621  Sum_probs=223.7

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcC-CCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGS-GQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~-G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      ..+||+++|+|||||||+|||||.||+++ |-|.||++++|++|+++.++.+.+|+++++..-+|+|..+|+|+++|..+
T Consensus         6 ~agfDrhitIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~itk~ig~v~tG~~a   85 (246)
T KOG0182|consen    6 SAGFDRHITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRITKKIGCVITGMIA   85 (246)
T ss_pred             cCCccceEEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEeeccceEEEecCCc
Confidence            46899999999999999999999999998 66999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~  160 (235)
                      |++...+++|.++.++++.||.++|++.|++.++++.|.|+|+..+||+||.+++.|+|+ .||.+|.+||.|.+..+++
T Consensus        86 Dar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~vYk~DpAGyy~g~kA  165 (246)
T KOG0182|consen   86 DARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSVYKTDPAGYYYGFKA  165 (246)
T ss_pred             chHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcceEeecCcccccccee
Confidence            999999999999999999999999999999999999999999999999999999999998 6899999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCC--CCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCc-EEEcCHHHHHHHHHHc
Q 026627          161 SAMGKNVSNAKTFLEKRYVEE--MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKE-FRVLTPNEIRDYLAEV  234 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~--~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~-~~~l~~~ei~~~l~~~  234 (235)
                      ++.|.....+..+||++++++  ++.+|++++++.||..++.-|.....+||.+++++.+ |+.|+.+||++.|.+|
T Consensus       166 taaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~se~EVgvv~~~~p~f~~Ls~~eie~hL~~I  242 (246)
T KOG0182|consen  166 TAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFKSSELEVGVVTVDNPEFRILSAEEIEEHLQAI  242 (246)
T ss_pred             eecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccCCcceEEEEEEcCCcceeeccHHHHHHHHHHh
Confidence            999999999999999999987  6799999999999999999889999999999999854 9999999999999876

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=6.8e-47  Score=311.21  Aligned_cols=211  Identities=22%  Similarity=0.357  Sum_probs=190.8

Q ss_pred             cCCCCccch-hhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHHHHHHH
Q 026627           13 FSPSGKLVQ-IEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSR   91 (235)
Q Consensus        13 fsp~Grl~Q-~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~   91 (235)
                      .+|+.-+-| -|||+||+++|+|+|||+++||||||+|++.       ++.+|||+|+|||+|+++|..+|++.+++.++
T Consensus         7 ~~~~~~~~~~~EYA~kav~~g~T~VGIk~kdgVVLaaek~~-------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r   79 (228)
T TIGR03691         7 VSPEQIMRDRAELARKGIARGRSVVVLTYADGILFVAENPS-------RSLHKISELYDRIGFAAVGKYNEFENLRRAGI   79 (228)
T ss_pred             cCHHHHHhhHHHHHHHHHHcCCcEEEEEeCCeEEEEEecCC-------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHH
Confidence            478877754 4999999999999999999999999999973       46799999999999999999999999999999


Q ss_pred             HHHHHHHHHhC-CCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC--CCCeEEEECCCCcEEeee-EEeeCCCc
Q 026627           92 KQAEQYHRLYK-EPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD--KGPQLYQVDPSGSYFSWK-ASAMGKNV  167 (235)
Q Consensus        92 ~~~~~~~~~~~-~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~--~gp~Ly~id~~G~~~~~~-~~a~G~~s  167 (235)
                      .+++.|++.++ .+++++.+++.+++....++ +++.|||+|++|++|||+  .||+||.+||+|++.+++ ++|+|+++
T Consensus        80 ~~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~-~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs  158 (228)
T TIGR03691        80 RYADMRGYSYDRRDVTGRGLANAYAQTLGTIF-TEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTT  158 (228)
T ss_pred             HHHHHHhhhcCCCCccHHHHHHHHHhhccccc-ccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCCh
Confidence            99999999998 78999999988877776655 455799999999999984  689999999999999976 89999999


Q ss_pred             hHHHHHHHHhccCCCCHHHHHHHHHHHHHhhcc--CC-CCCCcEEEEEEecCC---cEEEcCHHHHHHHH
Q 026627          168 SNAKTFLEKRYVEEMELDDAVHTAILTLKEGFE--GQ-ISEKNIEIGIIGEKK---EFRVLTPNEIRDYL  231 (235)
Q Consensus       168 ~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~--~~-~~~~~iei~~i~~~~---~~~~l~~~ei~~~l  231 (235)
                      +.++++||+.|+++||++||++++++||+.+.+  ++ +++.++||.++++++   +|++|+++||+.+|
T Consensus       159 ~~a~~~Lek~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~~l~~~ei~~~l  228 (228)
T TIGR03691       159 EPIATALKESYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRITGEALERLL  228 (228)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceEECCHHHHHhhC
Confidence            999999999999999999999999999999864  43 689999999999743   59999999999864

Members of this family are the alpha subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In most Actinobacteria (an exception is Propionibacterium acnes), the proteasome is accompanied by a system of tagging proteins for degradation with Pup.

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=4.5e-46  Score=309.79  Aligned_cols=202  Identities=18%  Similarity=0.275  Sum_probs=189.3

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPV  107 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  107 (235)
                      +.+|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++++++|..+|++.+.+.+|.+++.|++++++++++
T Consensus        36 ~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~isv  115 (247)
T PTZ00488         36 FAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELISV  115 (247)
T ss_pred             cCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCCH
Confidence            47899999999999999999999885 78888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHH
Q 026627          108 TQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDA  187 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea  187 (235)
                      +.+++++++++|.++    ..|+.+++|+||||++||+||.+||.|++.+++++|+|+|+.+++++|++.|+++|+.+||
T Consensus       116 ~~la~~ls~~l~~~R----~~~~~v~~iiaG~D~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~eEa  191 (247)
T PTZ00488        116 AAASKILANIVWNYK----GMGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEA  191 (247)
T ss_pred             HHHHHHHHHHHHhcC----CCCeeEEEEEEEEeCCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCCCHHHH
Confidence            999999999998773    2245556899999998999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhccCC-CCCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          188 VHTAILTLKEGFEGQ-ISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       188 ~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      ++++++||+.+.+|| .++.+++|++|+++ ++++++++||+++++.++
T Consensus       192 i~l~~kal~~~~~Rd~~sg~~~ei~iI~k~-g~~~l~~~ei~~~l~~~~  239 (247)
T PTZ00488        192 QDLGRRAIYHATFRDAYSGGAINLYHMQKD-GWKKISADDCFDLHQKYA  239 (247)
T ss_pred             HHHHHHHHHHHHHhccccCCCeEEEEEcCC-ccEECCHHHHHHHHHHHh
Confidence            999999999999998 59999999999987 499999999999998764

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=9.9e-46  Score=303.69  Aligned_cols=203  Identities=20%  Similarity=0.290  Sum_probs=187.6

Q ss_pred             CCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 026627           31 SGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQ  109 (235)
Q Consensus        31 ~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~  109 (235)
                      +|+|+|||+++||||||+|+|.++ +++.+++.+|||+|++|++|+++|..+|++.+.++++.+++.|++.++++++++.
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~   80 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDG   80 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            489999999999999999999996 7888889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCcccceeEEEEEEEeC--CCCeEEEECCCCc-EEeeeEEeeCCCchHHHHHHHHhccCCCCHHH
Q 026627          110 LVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD--KGPQLYQVDPSGS-YFSWKASAMGKNVSNAKTFLEKRYVEEMELDD  186 (235)
Q Consensus       110 l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~--~gp~Ly~id~~G~-~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~e  186 (235)
                      +++++++++|.+++ ..+|||++++||||||+  ++|+||.+||.|+ +..++++|+|+|++.++++|++.|+++||.+|
T Consensus        81 la~~ls~~~~~~~~-~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~ee  159 (219)
T TIGR03690        81 KANRLAAMVRGNLP-AAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDD  159 (219)
T ss_pred             HHHHHHHHHHhhhh-hccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHH
Confidence            99999999988774 34899999999999995  5799999999995 66779999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccCCC-CCCc-------EEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          187 AVHTAILTLKEGFEGQI-SEKN-------IEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       187 a~~l~~~~l~~~~~~~~-~~~~-------iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      |++++.+||+.+.++|. +++.       ++|++++++ ++++++++||+.++.+++
T Consensus       160 ai~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~-g~~~l~~~ei~~~~~~~~  215 (219)
T TIGR03690       160 ALRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITAD-GARRVPESELEELARAIV  215 (219)
T ss_pred             HHHHHHHHHHHHHhcccccCCcccccccccEEEEEccC-ceEEcCHHHHHHHHHHHH
Confidence            99999999999999885 4442       399999876 599999999999998763

Members of this family are the beta subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In Streptomyces, maturation during proteasome assembly was shown to remove a 53-amino acid propeptide. Most of the length of the propeptide is not included in this model.

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=5.2e-45  Score=292.98  Aligned_cols=185  Identities=19%  Similarity=0.327  Sum_probs=176.1

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.++ .++.+++.+|||+|++|++++++|..+|++.+.+++|.+++.|++.++++++++.++
T Consensus         1 tT~igi~~kdgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la   80 (188)
T cd03761           1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAAS   80 (188)
T ss_pred             CcEEEEEECCEEEEEEcCCccCCcEEEcCCcceEEEccCcEEEEeCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            5899999999999999999997 677778999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++++|.+++    .||++++|+||||++||+||.+||.|++.+++++|+|+|+++++++||+.|+++|+.+||++++
T Consensus        81 ~~ls~~l~~~~~----~~~~v~~li~G~D~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  156 (188)
T cd03761          81 KLLSNMLYQYKG----MGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLA  156 (188)
T ss_pred             HHHHHHHHhcCC----CCeEEEEEEEEEeCCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHH
Confidence            999999999874    5899999999999989999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEc
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVL  222 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l  222 (235)
                      .+||+.+.+||. ++.+++|++|++++ ++++
T Consensus       157 ~~~l~~~~~rd~~sg~~~~v~ii~~~g-~~~~  187 (188)
T cd03761         157 RRAIYHATHRDAYSGGNVNLYHVREDG-WRKI  187 (188)
T ss_pred             HHHHHHHHHhcccCCCCeEEEEEcCCc-eEEc
Confidence            999999999884 99999999999875 6665

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=5.1e-45  Score=294.16  Aligned_cols=187  Identities=25%  Similarity=0.322  Sum_probs=176.9

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+||++++||||||+|+|.++ .++.+++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
T Consensus         2 ~t~igi~~~dgVvlaad~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la   81 (193)
T cd03758           2 ETLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAA   81 (193)
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEecCcccEEEeCCCeEEEEccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            6899999999999999999985 668888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++++|.+++..  |||++++|++|||+ .||+||.+||.|++.+++++|+|+|+++++++||+.|+++||.+||+++
T Consensus        82 ~~l~~~~~~~~~~~--rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l  159 (193)
T cd03758          82 NFTRRELAESLRSR--TPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALEL  159 (193)
T ss_pred             HHHHHHHHHHhhcC--CCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHH
Confidence            99999999887653  89999999999996 7899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCcEEEc
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVL  222 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l  222 (235)
                      +++||+.+.+||. ++.+++|++|+++| ++++
T Consensus       160 ~~~a~~~~~~rd~~~~~~i~i~ii~~~g-~~~~  191 (193)
T cd03758         160 MKKCIKELKKRFIINLPNFTVKVVDKDG-IRDL  191 (193)
T ss_pred             HHHHHHHHHHhccccCCceEEEEEcCCC-eEeC
Confidence            9999999999884 89999999999875 6654

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis.Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=1.4e-44  Score=292.50  Aligned_cols=188  Identities=19%  Similarity=0.210  Sum_probs=175.8

Q ss_pred             CCCcEEEEEeCCEEEEEEeecCC-CCccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHH-HHHHHhCCCCCHH
Q 026627           31 SGQTSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAE-QYHRLYKEPIPVT  108 (235)
Q Consensus        31 ~G~tivgi~~~dgvvla~d~~~~-~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~-~~~~~~~~~i~~~  108 (235)
                      +|+|+|||+++||||||+|+|.+ ++++.+++.+|||+|++|++++++|..+|++.+.+++|.+++ .+++.++.+++++
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   80 (197)
T cd03760           1 TGTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPK   80 (197)
T ss_pred             CCceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            58999999999999999999998 588888899999999999999999999999999999999987 4667889999999


Q ss_pred             HHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccC--CCCHH
Q 026627          109 QLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE--EMELD  185 (235)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~--~~s~~  185 (235)
                      .+++++++++  |+++++.|||+|++|+||||+ .||+||.+||.|++.+++++|+|+|+.+++++||+.|++  +||++
T Consensus        81 ~la~~i~~~~--y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~e  158 (197)
T cd03760          81 EIHSYLTRVL--YNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEE  158 (197)
T ss_pred             HHHHHHHHHH--HHHhhcCCCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHH
Confidence            9999999975  566667899999999999997 789999999999999999999999999999999999999  99999


Q ss_pred             HHHHHHHHHHHhhccCC-CCCCcEEEEEEecCCcEEE
Q 026627          186 DAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEKKEFRV  221 (235)
Q Consensus       186 ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~~~~~  221 (235)
                      ||++++.+||+.+.+|| .++.+++|++|++++ +++
T Consensus       159 ea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g-~~~  194 (197)
T cd03760         159 EARALIEECMKVLYYRDARSINKYQIAVVTKEG-VEI  194 (197)
T ss_pred             HHHHHHHHHHHHHHHhccccCCceEEEEECCCC-EEe
Confidence            99999999999999998 589999999999975 554

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis.Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=2.3e-44  Score=288.62  Aligned_cols=182  Identities=29%  Similarity=0.477  Sum_probs=174.6

Q ss_pred             CCcEEEEEeCCEEEEEEeecCC-CCccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 026627           32 GQTSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQL  110 (235)
Q Consensus        32 G~tivgi~~~dgvvla~d~~~~-~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  110 (235)
                      |+|+|||+++||||||+|+|.+ ++++..++.+|||+|+++++++++|..+|++.+.++++.+++.|+..++.+++++.+
T Consensus         1 G~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (185)
T TIGR03634         1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKAL   80 (185)
T ss_pred             CCcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            7899999999999999999998 477888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          111 VRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       111 ~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      ++++++.+|.+    ++|||+|++|+||+|++||+||.+||.|++.+++++++|.++++++++|++.|+++||++||+++
T Consensus        81 a~~l~~~~~~~----~~rP~~v~~ivaG~d~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l  156 (185)
T TIGR03634        81 ATLLSNILNSN----RFFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKL  156 (185)
T ss_pred             HHHHHHHHHhc----CCCCeEEEEEEEEEeCCCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHH
Confidence            99999999876    37999999999999998999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCC-CCCCcEEEEEEecCC
Q 026627          191 AILTLKEGFEGQ-ISEKNIEIGIIGEKK  217 (235)
Q Consensus       191 ~~~~l~~~~~~~-~~~~~iei~~i~~~~  217 (235)
                      +++||+.+.+++ .++.+++|++++++|
T Consensus       157 ~~~~l~~~~~r~~~~~~~~~v~ii~~~g  184 (185)
T TIGR03634       157 AVRAIKSAIERDVASGNGIDVAVITKDG  184 (185)
T ss_pred             HHHHHHHHHHhcccCCCCEEEEEEcCCC
Confidence            999999999988 489999999999875

This protein family describes the archaeal proteasome beta subunit, homologous to both the alpha subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated.

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=3.5e-44  Score=289.79  Aligned_cols=183  Identities=19%  Similarity=0.218  Sum_probs=171.3

Q ss_pred             CCCcEEEEEeCCEEEEEEeecCCCCccc-cCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 026627           31 SGQTSLGIKASNGVVIATEKKLPSILVD-ESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQ  109 (235)
Q Consensus        31 ~G~tivgi~~~dgvvla~d~~~~~~l~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~  109 (235)
                      +|+|+|||+++||||||+|++.+++++. .++.+||++|++|++++++|..+|++.+.+.++.+++.|+++++.+++++.
T Consensus         2 ~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   81 (195)
T cd03759           2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKT   81 (195)
T ss_pred             CCceEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            6999999999999999999999887655 557899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeee-EEeeCCCchHHHHHHHHhccCCCCHHHH
Q 026627          110 LVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWK-ASAMGKNVSNAKTFLEKRYVEEMELDDA  187 (235)
Q Consensus       110 l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~-~~a~G~~s~~~~~~L~~~~~~~~s~~ea  187 (235)
                      +++++++.++..  +  .+||+|++|+||||+ .||+||.+||.|++..+. ++|+|+|++.++++|++.|+++|+.+||
T Consensus        82 la~~l~~~ly~~--r--~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  157 (195)
T cd03759          82 FSSLISSLLYEK--R--FGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDEL  157 (195)
T ss_pred             HHHHHHHHHHHh--c--CCCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHH
Confidence            999999988653  2  579999999999996 569999999999998876 9999999999999999999999999999


Q ss_pred             HHHHHHHHHhhccCC-CCCCcEEEEEEecCC
Q 026627          188 VHTAILTLKEGFEGQ-ISEKNIEIGIIGEKK  217 (235)
Q Consensus       188 ~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~  217 (235)
                      ++++++||+.+.+|| .++.+++|++|++++
T Consensus       158 ~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g  188 (195)
T cd03759         158 FETISQALLSAVDRDALSGWGAVVYIITKDK  188 (195)
T ss_pred             HHHHHHHHHHHHhhCcccCCceEEEEEcCCc
Confidence            999999999999998 489999999999875

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=9.5e-44  Score=285.78  Aligned_cols=186  Identities=28%  Similarity=0.462  Sum_probs=177.0

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+||++++||||||+|+|.++ +++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|++.++++++++.++
T Consensus         1 tt~iai~~~dgvvia~d~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (188)
T cd03764           1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALA   80 (188)
T ss_pred             CcEEEEEeCCEEEEEEccccccCCEEecCCcccEEEccCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            5899999999999999999986 777788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++.+|.++    +|||+|++|+||+|+++|+||.+||.|++.+++++|+|+|+++++++|++.|+++|+++||++++
T Consensus        81 ~~i~~~~~~~~----~~P~~~~~lvaG~d~~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~  156 (188)
T cd03764          81 TLLSNILNSSK----YFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLA  156 (188)
T ss_pred             HHHHHHHHhcC----CCCcEEEEEEEEEeCCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHH
Confidence            99999998863    79999999999999988999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcC
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLT  223 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~  223 (235)
                      ++||+.+.+||. ++.+++|+++++++ +++|.
T Consensus       157 ~~~l~~~~~rd~~~~~~i~i~iv~~~g-~~~~~  188 (188)
T cd03764         157 IRAIKSAIERDSASGDGIDVVVITKDG-YKELE  188 (188)
T ss_pred             HHHHHHHHhhcCCCCCcEEEEEECCCC-eEeCC
Confidence            999999999984 89999999999875 88763

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme for non-lysosomal protein degradation in both the cytosol and the nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are both members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=3.7e-43  Score=287.19  Aligned_cols=185  Identities=22%  Similarity=0.274  Sum_probs=173.6

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCCCc-cccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPSIL-VDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPV  107 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~~l-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  107 (235)
                      +++|+|+|||+++||||||+|++.++++ +..++.+||++|++|++++++|..+|++.+.+.++.+++.|++.++.++++
T Consensus         5 ~~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~   84 (212)
T cd03757           5 TDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMST   84 (212)
T ss_pred             cCCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCH
Confidence            4689999999999999999999999765 557799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhcc-------
Q 026627          108 TQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV-------  179 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~-------  179 (235)
                      +.++++++..++..+    .+||++++|+||||+ .+|+||.+||.|++.+++++|+|+|+.+++++|++.|+       
T Consensus        85 ~~la~~ls~~ly~~R----~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~  160 (212)
T cd03757          85 EAIAQLLSTILYSRR----FFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNV  160 (212)
T ss_pred             HHHHHHHHHHHHhhc----CCCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcC
Confidence            999999999987542    479999999999996 46999999999999999999999999999999999985       


Q ss_pred             --CCCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEEecCC
Q 026627          180 --EEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEKK  217 (235)
Q Consensus       180 --~~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~  217 (235)
                        ++||++||++++.+||+.+.+|| .++.+++|++|++++
T Consensus       161 ~~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g  201 (212)
T cd03757         161 ERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDG  201 (212)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCC
Confidence              89999999999999999999998 599999999999986

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=5.9e-43  Score=281.35  Aligned_cols=186  Identities=22%  Similarity=0.328  Sum_probs=174.9

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.++ .++..++.+|||+|+++++++++|..+|++.+.+.++.+++.|+++++++++++.++
T Consensus         1 tt~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (189)
T cd03763           1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTAL   80 (189)
T ss_pred             CeEEEEEECCeEEEEEcCCcccCceEEcCCccceEEecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            5899999999999999999997 567778999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++.+|.++     .||+|++|+||||++||+||.+||.|++.+++++|+|.++..++++|++.|+++||++||++++
T Consensus        81 ~~l~~~l~~~~-----~p~~v~~ivaG~d~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l~  155 (189)
T cd03763          81 TMLKQHLFRYQ-----GHIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLV  155 (189)
T ss_pred             HHHHHHHHHcC-----CccceeEEEEeEcCCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHHH
Confidence            99999988663     3999999999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCH
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTP  224 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~  224 (235)
                      ++||+.+.+||. ++.+++|++|++++ ++...|
T Consensus       156 ~~~l~~~~~rd~~~~~~~~v~ii~~~g-~~~~~~  188 (189)
T cd03763         156 CEAIEAGIFNDLGSGSNVDLCVITKDG-VEYLRN  188 (189)
T ss_pred             HHHHHHHHHhcCcCCCceEEEEEcCCc-EEEecC
Confidence            999999999985 89999999999985 665543

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=1.6e-42  Score=285.65  Aligned_cols=184  Identities=15%  Similarity=0.241  Sum_probs=169.4

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEec----CcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCC-CCCH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLT----PNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKE-PIPV  107 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~----~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~-~i~~  107 (235)
                      +-+|||+++||||||+|+|++++++..++.+|||+|+    +||+|++||..+|++.+.+++|.+++.|+++++. ++++
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~l~~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v   80 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAGVDNISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPTM   80 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCCCccccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCH
Confidence            3489999999999999999988876666899999998    8999999999999999999999999999999999 8999


Q ss_pred             HHHHHHHHHHHH-HHhhcCC-----cccceeEEEEEEEeC-CCCeEEEECCCCcEEee----eEEeeCCCchHHHHHHHH
Q 026627          108 TQLVRETAAVMQ-EFTQSGG-----VRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSW----KASAMGKNVSNAKTFLEK  176 (235)
Q Consensus       108 ~~l~~~l~~~~~-~~~~~~~-----~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~----~~~a~G~~s~~~~~~L~~  176 (235)
                      +.++++++++++ .+++..+     .|||+|++|+||||+ .||+||.+||+|++.++    +++|+|. +.+++++||+
T Consensus        81 ~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek  159 (236)
T cd03765          81 FDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDR  159 (236)
T ss_pred             HHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHH
Confidence            999999999864 4555554     489999999999994 78999999999999998    5689996 7999999999


Q ss_pred             hccCCCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEEecCC
Q 026627          177 RYVEEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEKK  217 (235)
Q Consensus       177 ~~~~~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~  217 (235)
                      .|+++||++||++++++||+.++++| .++.+|+|++|+++|
T Consensus       160 ~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~G  201 (236)
T cd03765         160 VITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERDS  201 (236)
T ss_pred             hcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECCC
Confidence            99999999999999999999999998 589999999999985

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=1.7e-42  Score=278.50  Aligned_cols=180  Identities=18%  Similarity=0.251  Sum_probs=171.9

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.++ .++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+..++++++++.++
T Consensus         1 ~t~igi~~~dgVvla~D~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a   80 (188)
T cd03762           1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAA   80 (188)
T ss_pred             CeEEEEEECCeEEEEEcccccCCceEEcCCcccEEEccCCEEEEecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHH
Confidence            5899999999999999999987 677778999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++++|.++     |||++++||||+|+ +||+||.+||.|++.+++++++|+++++++++|++.|+++|+++||+++
T Consensus        81 ~~l~~~~~~~~-----~~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l  155 (188)
T cd03762          81 SLFKNLCYNYK-----EMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKF  155 (188)
T ss_pred             HHHHHHHHhcc-----ccceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHH
Confidence            99999998774     78999999999996 7899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCC
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKK  217 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~  217 (235)
                      +++||+.+.+||. ++..++|++|++++
T Consensus       156 ~~~al~~~~~rd~~~~~~~~i~~i~~~g  183 (188)
T cd03762         156 VKNALSLAMSRDGSSGGVIRLVIITKDG  183 (188)
T ss_pred             HHHHHHHHHHhccccCCCEEEEEECCCC
Confidence            9999999999985 89999999999875

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>PF00227 Proteasome: Proteasome subunit; InterPro: IPR001353 ATP-dependent protease complexes are present in all three kingdoms of life, where they rid the cell of misfolded or damaged proteins and control the level of certain regulatory proteins

Probab=100.00  E-value=3.2e-42  Score=277.07  Aligned_cols=185  Identities=41%  Similarity=0.722  Sum_probs=174.7

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCC--CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPS--ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIP  106 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~--~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  106 (235)
                      +++|+|+||++++||||||+|++.+.  .+..+++.+|||+|++|++++++|..+|++.+.++++.++..|++.++.+++
T Consensus         1 v~~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~   80 (190)
T PF00227_consen    1 VNNGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPIS   80 (190)
T ss_dssp             HHTSBEEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTC
T ss_pred             CCCCeEEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCcccc
Confidence            47899999999999999999999983  3444555799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCC-CeEEEECCCCcEEee-eEEeeCCCchHHHHHHHHhccCCCCH
Q 026627          107 VTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSW-KASAMGKNVSNAKTFLEKRYVEEMEL  184 (235)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~g-p~Ly~id~~G~~~~~-~~~a~G~~s~~~~~~L~~~~~~~~s~  184 (235)
                      ++.+++.++.+++.++++.++||+++++|+||+|+++ |+||.+||.|++.++ +++|+|+|++.++++|++.|+++|++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~  160 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLSL  160 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSSH
T ss_pred             chhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhccCCCCH
Confidence            9999999999999999998899999999999999865 999999999999999 79999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccCC-CCCCcEEEEEE
Q 026627          185 DDAVHTAILTLKEGFEGQ-ISEKNIEIGII  213 (235)
Q Consensus       185 ~ea~~l~~~~l~~~~~~~-~~~~~iei~~i  213 (235)
                      +||++++++||+.+.++| .++.+++|++|
T Consensus       161 ~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  161 EEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            999999999999999988 59999999986

They include the proteasome in Eukaryotes, Archaea, and Actinomycetales and the HslVU (ClpQY, clpXP) complex in other eubacteria. Genes homologous to eubacterial HslV (ClpQ) and HslU (ClpY, clpX) have also been demonstrated in to be present in the genome of trypanosomatid protozoa []. The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). The prokaryotic ATP-dependent proteasome is coded for by the heat-shock locus VU (HslVU). It consists of HslV, the protease (MEROPS peptidase subfamily T1B), and HslU, IPR004491 from INTERPRO, the ATPase and chaperone belonging to the AAA/Clp/Hsp100 family. The crystal structure of Thermotoga maritima HslV has been determined to 2.1-A resolution. The structure of the dodecameric enzyme is well conserved compared to those from Escherichia coli and Haemophilus influenzae [, ]. This entry contains threonine peptidases and non-peptidase homologs belong to MEROPS peptidase family T1 (proteasome family, clan PB(T)). The family consists of the protease components of the archaeal and bacterial proteasomes and the alpha and beta subunits of the eukaryotic proteasome. ; GO: 0004298 threonine-type endopeptidase activity, 0051603 proteolysis involved in cellular protein catabolic process, 0005839 proteasome core complex; PDB: 3KRD_1 3H6F_M 2FHH_F 3HF9_F 2FHG_D 3HFA_B 3H6I_K 3MI0_A 3MFE_1 3MKA_F ....

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=8.7e-42  Score=274.53  Aligned_cols=184  Identities=25%  Similarity=0.385  Sum_probs=174.1

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCCccc-cCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSILVD-ESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~l~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+||++++||||||+|++.++++.. .++.+|||+|+++++++++|..+|++.+.++++.+++.|+..++++++++.++
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAA   80 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCcCcEEEccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            58999999999999999999986544 78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++.+|.+++    |||++++|+||+|+ ++|+||.+||.|++.+++++++|.++++++++|++.|+++|+++||+++
T Consensus        81 ~~l~~~~~~~~~----~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~  156 (189)
T cd01912          81 NLLSNILYSYRG----FPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVEL  156 (189)
T ss_pred             HHHHHHHHhcCC----CCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHH
Confidence            999999988875    89999999999997 7899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCcEEE
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRV  221 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~  221 (235)
                      +.+||+.+.+++. ++.+++|+++++++ ++.
T Consensus       157 ~~~~l~~~~~~d~~~~~~~~v~vi~~~g-~~~  187 (189)
T cd01912         157 VKKAIDSAIERDLSSGGGVDVAVITKDG-VEE  187 (189)
T ss_pred             HHHHHHHHHHhcCccCCcEEEEEECCCC-EEE
Confidence            9999999999885 89999999999885 543

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=7.2e-41  Score=267.41  Aligned_cols=179  Identities=45%  Similarity=0.734  Sum_probs=170.7

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCCccc-cCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSILVD-ESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~l~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+||++++||||||+|++.++.+.. .++.+|||+|+++++++++|..+|++.+.+.++.++..|++.++.+++++.++
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALA   80 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCcceEEEECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            58999999999999999999876544 78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++++|.+++.  .|||++++|+||+|+ .+|+||.+||.|++.+++++++|+++++++++|++.|+++||.+||+++
T Consensus        81 ~~l~~~~~~~~~~--~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l  158 (182)
T cd01906          81 KLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIEL  158 (182)
T ss_pred             HHHHHHHHHhCCC--ccChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHH
Confidence            9999999999876  799999999999997 7899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEE
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGII  213 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i  213 (235)
                      +++||+.+.+++. ++..++|.++
T Consensus       159 ~~~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         159 ALKALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             HHHHHHHHHcccCCCCCCEEEEEC
Confidence            9999999999985 8899999875

This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins, the breakdown of regulatory proteins, and the processing of proteins such as the preparation of peptides for immune presentation. Two main proteasomal types are distinguished by their different tertiary structures: the eukaryotic/archeal 20S proteasome and the prokaryotic proteasome-like heat shock protein encoded by heat shock locus V, hslV. The proteasome core particle is a highly conserved cylindrical structure made up of non-identical subunits that have their active sites on the inner walls of a large central cavity. The proteasome subunits of bacteria, archaea, and eukaryotes all share a conserved Ntn (N terminal nucleophile) hydrolase fold and a catalytic mechanism involving an N-terminal nucleo

>KOG0175 consensus 20S proteasome, regulatory subunit beta type PSMB5/PSMB8/PRE2 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=5.2e-39  Score=257.06  Aligned_cols=197  Identities=19%  Similarity=0.306  Sum_probs=188.7

Q ss_pred             cCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 026627           30 GSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVT  108 (235)
Q Consensus        30 ~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  108 (235)
                      .+|||++|++++.|||+|+|+|+++ .+|..+..+||.+|+++.+-.++|-++|++.+.+.+.++|..|++++++.|++.
T Consensus        69 ~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVs  148 (285)
T KOG0175|consen   69 AHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVS  148 (285)
T ss_pred             cCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehH
Confidence            6999999999999999999999996 788899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHH
Q 026627          109 QLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAV  188 (235)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~  188 (235)
                      ..++.++.+++.|+..    -+.+.++|+|||+.||.||.+|..|+...-+.+++|+|+.+++.+|++.|+++|+.+||.
T Consensus       149 aASKllsN~~y~YkGm----GLsmGtMi~G~Dk~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~eEA~  224 (285)
T KOG0175|consen  149 AASKLLSNMVYQYKGM----GLSMGTMIAGWDKKGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDEEAY  224 (285)
T ss_pred             HHHHHHHHHHhhccCc----chhheeeEeeccCCCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCCHHHHH
Confidence            9999999999988744    378899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHH
Q 026627          189 HTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYL  231 (235)
Q Consensus       189 ~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l  231 (235)
                      .|+++|+.+|..||. +++-+.++.|+.+ +|.+++..++.++.
T Consensus       225 ~L~rrAI~hAThRDaySGG~vnlyHv~ed-GW~~v~~~Dv~~L~  267 (285)
T KOG0175|consen  225 DLARRAIYHATHRDAYSGGVVNLYHVKED-GWVKVSNTDVSELH  267 (285)
T ss_pred             HHHHHHHHHHHhcccccCceEEEEEECCc-cceecCCccHHHHH
Confidence            999999999999995 9999999999998 49999999998884

>KOG0177 consensus 20S proteasome, regulatory subunit beta type PSMB2/PRE1 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.5e-36  Score=231.85  Aligned_cols=188  Identities=24%  Similarity=0.311  Sum_probs=176.5

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      .+++||++.|+|++|+|+.... -++..++.+|++.+++++.++++|..+|+..+.+++.+.++.|+.++|.++|++.++
T Consensus         2 e~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aa   81 (200)
T KOG0177|consen    2 ETLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAA   81 (200)
T ss_pred             ceEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHH
Confidence            3789999999999999998775 466788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++.+.+..+.++  .+||.|++++||+|+ .||.||++|..|+..+.++++.|.++.+..++|++.|+|+||.+||+.+
T Consensus        82 hFtR~~La~~LRs--r~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~l  159 (200)
T KOG0177|consen   82 HFTRRELAESLRS--RTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDL  159 (200)
T ss_pred             HHHHHHHHHHHhc--CCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHH
Confidence            9999999988876  689999999999998 6799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCC-CCCCcEEEEEEecCCcEEEcC
Q 026627          191 AILTLKEGFEGQ-ISEKNIEIGIIGEKKEFRVLT  223 (235)
Q Consensus       191 ~~~~l~~~~~~~-~~~~~iei~~i~~~~~~~~l~  223 (235)
                      ..+|+.++.+|- .+-++|.|.+|+|+| .+.++
T Consensus       160 mkKCv~El~kRlvin~~~f~v~IVdkdG-ir~~~  192 (200)
T KOG0177|consen  160 MKKCVLELKKRLVINLPGFIVKIVDKDG-IRKLD  192 (200)
T ss_pred             HHHHHHHHHHhcccCCCCcEEEEEcCCC-ceecc
Confidence            999999998886 488999999999985 66554

>KOG0173 consensus 20S proteasome, regulatory subunit beta type PSMB7/PSMB10/PUP1 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.5e-36  Score=242.44  Aligned_cols=190  Identities=22%  Similarity=0.364  Sum_probs=178.6

Q ss_pred             hcHHHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHh
Q 026627           23 EHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLY  101 (235)
Q Consensus        23 eya~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~  101 (235)
                      +-+.++.+.|+|++|+.++||||+++|+|++. +++..++.+||+.|.++|+||.+|.++|...+.+.+..+...|.+.+
T Consensus        28 ~k~p~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t  107 (271)
T KOG0173|consen   28 LKAPKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNT  107 (271)
T ss_pred             CCCCcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhcc
Confidence            34677888999999999999999999999996 67778899999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCC
Q 026627          102 KEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE  181 (235)
Q Consensus       102 ~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~  181 (235)
                      ++.+.+-...+++.+.+..|..     ..++.+|++|+|+.|||||.+-|.|+....+|.++|+|+..+.++||.+|+++
T Consensus       108 ~R~~rVv~A~~mlkQ~LFrYqG-----~IgA~LiiGGvD~TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k~d  182 (271)
T KOG0173|consen  108 GRKPRVVTALRMLKQHLFRYQG-----HIGAALILGGVDPTGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWKPD  182 (271)
T ss_pred             CCCCceeeHHHHHHHHHHHhcC-----cccceeEEccccCCCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcCcc
Confidence            9999999999999998877753     48999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC
Q 026627          182 MELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK  217 (235)
Q Consensus       182 ~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~  217 (235)
                      |++|||.+|+.+|+...+..|+ ++.++++|+|++.+
T Consensus       183 lt~eea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~  219 (271)
T KOG0173|consen  183 LTKEEAIKLVCEAIAAGIFNDLGSGSNVDLCVITKKG  219 (271)
T ss_pred             cCHHHHHHHHHHHHHhhhccccCCCCceeEEEEeCCC
Confidence            9999999999999999999997 99999999999653

>KOG0179 consensus 20S proteasome, regulatory subunit beta type PSMB1/PRE7 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.1e-35  Score=228.36  Aligned_cols=186  Identities=23%  Similarity=0.317  Sum_probs=174.0

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPV  107 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  107 (235)
                      ..+|+|+|||++.|++|+|+|+|.++. .+.++..+|||+++|+++++.+|..+|+..+...++.....|+..++..+++
T Consensus        26 ~~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~  105 (235)
T KOG0179|consen   26 EDNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSI  105 (235)
T ss_pred             ccCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccH
Confidence            579999999999999999999999874 5778899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCC-CeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhcc-------
Q 026627          108 TQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV-------  179 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~-------  179 (235)
                      ..+|++|+..+|..+    +.||.+..+++|+|++| +.+|+.||-|++.+..+.|-|+++..++|+|++...       
T Consensus       106 ~s~A~lls~~LY~kR----FFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e  181 (235)
T KOG0179|consen  106 HSAAQLLSTILYSKR----FFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLE  181 (235)
T ss_pred             HHHHHHHHHHHhhcc----cccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCcCcccc
Confidence            999999999998665    78999999999999955 999999999999999999999999999999998653       


Q ss_pred             ----CCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCc
Q 026627          180 ----EEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKE  218 (235)
Q Consensus       180 ----~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~  218 (235)
                          ..+++|+|++++.+++..|.+|++ .+..++|+++++++.
T Consensus       182 ~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~gV  225 (235)
T KOG0179|consen  182 NAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKDGV  225 (235)
T ss_pred             cCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecCCE
Confidence                358999999999999999999997 899999999999863

>KOG0174 consensus 20S proteasome, regulatory subunit beta type PSMB6/PSMB9/PRE3 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.3e-35  Score=228.64  Aligned_cols=198  Identities=20%  Similarity=0.301  Sum_probs=183.0

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPV  107 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  107 (235)
                      +..|+|++|+++++||||++|+|++. .++.++-.+|+.+|.|+|+||-||.++|.|.+.+.++.++..|....+.++++
T Consensus        16 vstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v   95 (224)
T KOG0174|consen   16 VSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPLV   95 (224)
T ss_pred             cccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCchH
Confidence            57999999999999999999999996 67888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHH
Q 026627          108 TQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDD  186 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~e  186 (235)
                      ...++.++++.|+|+..     +.+.+|+||||+ .|.++|.|--.|...+.++..-|+||.+++.+++..|+++|++||
T Consensus        96 ~~aA~l~r~~~Y~~re~-----L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE  170 (224)
T KOG0174|consen   96 HTAASLFREICYNYREM-----LSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTLEE  170 (224)
T ss_pred             HHHHHHHHHHHHhCHHh-----hhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCCCHHH
Confidence            99999999999988643     789999999998 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccCC-CCCCcEEEEEEecCCc-EEEcCHHHHHHHH
Q 026627          187 AVHTAILTLKEGFEGQ-ISEKNIEIGIIGEKKE-FRVLTPNEIRDYL  231 (235)
Q Consensus       187 a~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~~-~~~l~~~ei~~~l  231 (235)
                      ++++..+|+..++.|| .+++-|.+.+|+++|. .+.+.++++.++.
T Consensus       171 ~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~~~~  217 (224)
T KOG0174|consen  171 CVRFVKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLGQFA  217 (224)
T ss_pred             HHHHHHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCcccccc
Confidence            9999999999999998 5899999999999974 3456677665543

>KOG0185 consensus 20S proteasome, regulatory subunit beta type PSMB4/PRE4 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.2e-33  Score=223.56  Aligned_cols=215  Identities=20%  Similarity=0.241  Sum_probs=185.9

Q ss_pred             ccccCCCCccchh--hc----HHHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhh
Q 026627           10 LTTFSPSGKLVQI--EH----ALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus        10 ~~~fsp~Grl~Q~--ey----a~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      .++|.|.|...--  +|    .+..+.+|+++||++++||||+|+|+..+. ++.+.++.++|++++||+++|+||..+|
T Consensus        13 ~~~f~~~~~~m~~a~~~~~qrt~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD   92 (256)
T KOG0185|consen   13 PGTFYPSGSLMENAGDYPIQRTLNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISD   92 (256)
T ss_pred             CCcCcCccchhhhccCCCcccccCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHH
Confidence            4678888654221  12    233455799999999999999999999996 7888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHH-HHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeE
Q 026627           83 FRVLVRKSRKQAEQYH-RLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~-~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~  160 (235)
                      +|.|.+.+........ +..++.+.|+.+++++.+.+|..+  +++.|+..++++||+++ ..|.|..+|..|..++.+.
T Consensus        93 ~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvlY~rR--sKmnPlwntlvVgGv~~~g~~~lg~V~~~G~~Y~~~~  170 (256)
T KOG0185|consen   93 FQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVLYARR--SKMNPLWNTLVVGGVDNTGEPFLGYVDLLGVAYESPV  170 (256)
T ss_pred             HHHHHHHHHHHHhcccccccccccChHHHHHHHHHHHHHhh--hccCchhhheeEeeecCCCCeeEEEEeeccccccCch
Confidence            9999999988877743 555689999999999999997554  56999999999999999 4599999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhcc---CCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHH
Q 026627          161 SAMGKNVSNAKTFLEKRYV---EEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEI  227 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~---~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei  227 (235)
                      .|+|.|..++.++|++.|.   ++++.+||..++.+||+...+||. +.++|+|++|+.+| +..-.|..|
T Consensus       171 vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~eG-v~i~~p~qv  240 (256)
T KOG0185|consen  171 VATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDEEG-VTISKPYQV  240 (256)
T ss_pred             hhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEcccc-eEecCceee
Confidence            9999999999999999997   579999999999999999999997 88999999999964 655444443

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=100.00  E-value=1.8e-31  Score=210.04  Aligned_cols=165  Identities=19%  Similarity=0.187  Sum_probs=142.0

Q ss_pred             CCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 026627           32 GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSL-TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQ  109 (235)
Q Consensus        32 G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~  109 (235)
                      |+|+||++++||||||+|+|++. .++.+++.+||++| +++++|+++|..+|+|.|.+.++.+++.|+.  +  . .+.
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~--~--~-~~~   75 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQG--N--L-LRA   75 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccC--c--c-HHH
Confidence            78999999999999999999985 67888999999999 9999999999999999999999999999872  2  1 455


Q ss_pred             HHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEee--eEEeeCCCchHHHHHHHHhcc-CCCCHHH
Q 026627          110 LVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSW--KASAMGKNVSNAKTFLEKRYV-EEMELDD  186 (235)
Q Consensus       110 l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~--~~~a~G~~s~~~~~~L~~~~~-~~~s~~e  186 (235)
                      +++.+..+    +.....+|+.+++|++  |.  |+||.+||.|+..+.  ++.++|+|+.++.++|++.|+ ++|   |
T Consensus        76 ~a~l~~~l----~~~~~~~~l~~~~lv~--d~--~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---e  144 (172)
T PRK05456         76 AVELAKDW----RTDRYLRRLEAMLIVA--DK--EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---S  144 (172)
T ss_pred             HHHHHHHH----HhccCCCccEEEEEEE--cC--CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---C
Confidence            55544332    1112246888999984  43  799999999999776  799999999999999999999 999   9


Q ss_pred             HHHHHHHHHHhhccCCC-CCCcEEEEE
Q 026627          187 AVHTAILTLKEGFEGQI-SEKNIEIGI  212 (235)
Q Consensus       187 a~~l~~~~l~~~~~~~~-~~~~iei~~  212 (235)
                      |++++++|++.+.+||. ++++|+|-.
T Consensus       145 A~~la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        145 AEEIAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             HHHHHHHHHHHHHHhCeeCCCcEEEEE
Confidence            99999999999999996 899988754

>cd01901 Ntn_hydrolase The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid

Probab=99.97  E-value=1.2e-29  Score=197.55  Aligned_cols=161  Identities=42%  Similarity=0.601  Sum_probs=154.0

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCCccc-cCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSILVD-ESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~l~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+||++++||||+|+|++.+..+.. ..+..||+.++++++++++|..+|++.+.++++.+++.|++.++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            58999999999999999999876544 67899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEee-eEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSW-KASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~-~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +.+++.++.+++   .||+++++|++|+|+++|+||.+||.|++.++ +++++|.++..+.++|++.|+++++.+|++++
T Consensus        81 ~~~~~~~~~~~~---~~p~~~~~iiag~~~~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~  157 (164)
T cd01901          81 KELAKLLQVYTQ---GRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVEL  157 (164)
T ss_pred             HHHHHHHHHhcC---CCCcceEEEEEEEcCCCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHH
Confidence            999999999887   79999999999999988999999999999999 99999999999999999999999999999999


Q ss_pred             HHHHHH
Q 026627          191 AILTLK  196 (235)
Q Consensus       191 ~~~~l~  196 (235)
                      +.+||+
T Consensus       158 ~~~~l~  163 (164)
T cd01901         158 ALKALK  163 (164)
T ss_pred             HHHHHh
Confidence            999986

N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-layered alpha, beta, beta, alpha core structure. This family of hydrolases includes penicillin acylase, the 20S proteasome alpha and beta subunits, and glutamate synthase. The mechanism of activation of these proteins is conserved, although they differ in their substrate specificities. All known members catalyze the hydrolysis of amide bonds in either proteins or small molecules, and each one of them is synthesized as a preprotein. For each, an autocatalytic endoproteolytic process generates a new N-terminal residue. This mature N-terminal residue is central to catalysis and acts as both a polarizing base and a nucleophile during the reaction. The N-terminal amino group acts as the proton acceptor and activates either t

>cd01913 protease_HslV Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome

Probab=99.97  E-value=4e-30  Score=201.01  Aligned_cols=163  Identities=18%  Similarity=0.118  Sum_probs=138.2

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecC-cEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTP-NIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQL  110 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  110 (235)
                      +|+||++++||||||+|+|++. .++.+++.+||++|++ |++|+++|..+|++.|.++++.+++.|+.+.++     .+
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~a   75 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HH
Confidence            6899999999999999999885 6788899999999999 999999999999999999999999999888663     44


Q ss_pred             HHHHHHHHHHHhhcCCcccce-eEEEEEEEeCCCCeEEEECCCCcEEee--eEEeeCCCchHHHHHHHHhccCC-CCHHH
Q 026627          111 VRETAAVMQEFTQSGGVRPFG-VSLLVAGYDDKGPQLYQVDPSGSYFSW--KASAMGKNVSNAKTFLEKRYVEE-MELDD  186 (235)
Q Consensus       111 ~~~l~~~~~~~~~~~~~rP~~-~~~il~G~d~~gp~Ly~id~~G~~~~~--~~~a~G~~s~~~~~~L~~~~~~~-~s~~e  186 (235)
                      ++.+..++ .+    ..+|+. +.++++++    ++||.+||.|...+.  ++.++|+|+++++++|+..|+++ |+   
T Consensus        76 a~l~~~l~-~~----~~~~~l~a~~iv~~~----~~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms---  143 (171)
T cd01913          76 VELAKDWR-TD----RYLRRLEAMLIVADK----EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLS---  143 (171)
T ss_pred             HHHHHHHH-hc----cCcCceEEEEEEeCC----CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC---
Confidence            55433332 11    245655 55665534    489999999999998  49999999999999999999995 99   


Q ss_pred             HHHHHHHHHHhhccCCC-CCCcEEEEE
Q 026627          187 AVHTAILTLKEGFEGQI-SEKNIEIGI  212 (235)
Q Consensus       187 a~~l~~~~l~~~~~~~~-~~~~iei~~  212 (235)
                      +.+++.+|++.|.+||. ++++|+|-.
T Consensus       144 ~~~la~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         144 AEEIARKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             HHHHHHHHHHHHHhhCcccCCCEEEEe
Confidence            55999999999999996 899988754

HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the interior walls of the cavity. HslV shares significant sequence and structural similarity with the proteasomal beta-subunit and both are members of the Ntn-family of hydrolases. HslV has a nucleophilic threonine residue at its N-terminus that is exposed after processing of the propeptide and is directly involved in active site catalysis.

>KOG0180 consensus 20S proteasome, regulatory subunit beta type PSMB3/PUP3 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=8.7e-30  Score=192.97  Aligned_cols=184  Identities=20%  Similarity=0.225  Sum_probs=173.3

Q ss_pred             cCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 026627           30 GSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVT  108 (235)
Q Consensus        30 ~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  108 (235)
                      -+|+++||+++++||.||+|.|... ......+++|||+++|++++|.+|++.|+|.+.+.++...+.|+++.++++-++
T Consensus         6 ynGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~   85 (204)
T KOG0180|consen    6 YNGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPE   85 (204)
T ss_pred             ecCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcH
Confidence            4799999999999999999999875 445577999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEe-eeEEeeCCCchHHHHHHHHhccCCCCHHH
Q 026627          109 QLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFS-WKASAMGKNVSNAKTFLEKRYVEEMELDD  186 (235)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~-~~~~a~G~~s~~~~~~L~~~~~~~~s~~e  186 (235)
                      .+++++|..+|..+    .-||-+..++||+|+ +.|++...|..|.... .+|++.|.+++..++..|..|+|+|..|+
T Consensus        86 ~~s~mvS~~lYekR----fgpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~  161 (204)
T KOG0180|consen   86 TFSSMVSSLLYEKR----FGPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDE  161 (204)
T ss_pred             HHHHHHHHHHHHhh----cCCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHH
Confidence            99999999998876    679999999999998 4599999999999986 49999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccCCC-CCCcEEEEEEecCC
Q 026627          187 AVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK  217 (235)
Q Consensus       187 a~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~  217 (235)
                      ..+.+..+|-++.+||. ++....|.+|+|++
T Consensus       162 LFetisQa~Lna~DRDalSGwGa~vyiI~kdk  193 (204)
T KOG0180|consen  162 LFETISQALLNAVDRDALSGWGAVVYIITKDK  193 (204)
T ss_pred             HHHHHHHHHHhHhhhhhhccCCeEEEEEccch
Confidence            99999999999999995 99999999999986

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.97  E-value=1.9e-29  Score=197.21  Aligned_cols=163  Identities=18%  Similarity=0.163  Sum_probs=136.4

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSL-TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQL  110 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  110 (235)
                      +|+||++++||||||+|+|++. .++.+++.+||++| ++|++|+++|..+|++.|.++++.+++.|+...     .+.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~   75 (171)
T TIGR03692         1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEYQGNL-----TRAA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHHHHHHHHccCch-----HHHH
Confidence            6899999999999999999885 67888999999999 599999999999999999999999999887642     3666


Q ss_pred             HHHHHHHHHHHhhcCCccc-ceeEEEEEEEeCCCCeEEEECCCCcEEee--eEEeeCCCchHHHHHHHHhcc-CCCCHHH
Q 026627          111 VRETAAVMQEFTQSGGVRP-FGVSLLVAGYDDKGPQLYQVDPSGSYFSW--KASAMGKNVSNAKTFLEKRYV-EEMELDD  186 (235)
Q Consensus       111 ~~~l~~~~~~~~~~~~~rP-~~~~~il~G~d~~gp~Ly~id~~G~~~~~--~~~a~G~~s~~~~~~L~~~~~-~~~s~~e  186 (235)
                      ++.++.+    ..+ ..+| +.+.++++++    ++||.+||.|...+.  ++.++|+||++++++|+..|+ ++|+   
T Consensus        76 a~l~~~~----~~~-~~~~~l~a~~iv~~~----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s---  143 (171)
T TIGR03692        76 VELAKDW----RTD-RYLRRLEAMLIVADK----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS---  143 (171)
T ss_pred             HHHHHHH----hhc-ccccccEEEEEEEcC----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC---
Confidence            6655442    111 1233 4466666543    499999999999996  699999999999999999994 6677   


Q ss_pred             HHHHHHHHHHhhccCCC-CCCcEEEEE
Q 026627          187 AVHTAILTLKEGFEGQI-SEKNIEIGI  212 (235)
Q Consensus       187 a~~l~~~~l~~~~~~~~-~~~~iei~~  212 (235)
                      |++++.++++.|.++|. ++.+|+|-.
T Consensus       144 a~~la~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       144 AEEIAREALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             HHHHHHHHHHHHHhhCccCCCCEEEEe
Confidence            99999999999999996 899988754

The ATP-dependent protease HslVU, a complex of hexameric HslU active as a protein-unfolding ATPase and dodecameric HslV, the catalytic threonine protease.

>COG3484 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]

Probab=99.59  E-value=1.6e-14  Score=113.06  Aligned_cols=184  Identities=13%  Similarity=0.192  Sum_probs=142.5

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEe---cC-cEEEEEecChhhHHHHHHHHHHHHHHHHHHhC-CCCCH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL---TP-NIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYK-EPIPV  107 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i---~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~~  107 (235)
                      +-|||++...|.|+++|+|++..+-.-...+|+|..   ++ -++++.+|+.+-.|.+++.+.+..+.-+-..- ...+.
T Consensus         2 TYCv~l~l~~GlVf~sDsRTNAGvD~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~sm   81 (255)
T COG3484           2 TYCVGLILDFGLVFGSDSRTNAGVDYISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPSM   81 (255)
T ss_pred             ceEEEEEeccceEEecccccccCchHHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcchhH
Confidence            459999999999999999998776555678888755   33 46778899999999999999776652211111 22344


Q ss_pred             HHHHHHHHHHHHHHhhcCC------cccceeEEEEEEEeC-CCCeEEEECCCCcEEe----eeEEeeCCCchHHHHHHHH
Q 026627          108 TQLVRETAAVMQEFTQSGG------VRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFS----WKASAMGKNVSNAKTFLEK  176 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~------~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~----~~~~a~G~~s~~~~~~L~~  176 (235)
                      -+.+..++.....-..+..      .--|.|++|++|.=. +.|.||.|.|.|++.+    .+|..+|. +.+.+++|++
T Consensus        82 ~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPildR  160 (255)
T COG3484          82 YEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPILDR  160 (255)
T ss_pred             HHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEccc-cccCchhhhh
Confidence            5555555554432221110      124889999999755 3489999999999996    38999997 7789999999


Q ss_pred             hccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC
Q 026627          177 RYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK  217 (235)
Q Consensus       177 ~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~  217 (235)
                      .+..+++++|+.+.++.++...+++++ .+-++++.++.+|.
T Consensus       161 ~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds  202 (255)
T COG3484         161 TITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADS  202 (255)
T ss_pred             hhhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccc
Confidence            999999999999999999999999986 78999999999984

>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3

Probab=99.58  E-value=7e-16  Score=78.95  Aligned_cols=23  Identities=57%  Similarity=0.879  Sum_probs=22.3

Q ss_pred             CCCcccccCCCCccchhhcHHHh
Q 026627            6 YSFSLTTFSPSGKLVQIEHALTA   28 (235)
Q Consensus         6 yd~~~~~fsp~Grl~Q~eya~ka   28 (235)
                      ||+++|+|||||||+|||||.||
T Consensus         1 YD~~~t~FSp~Grl~QVEYA~~A   23 (23)
T PF10584_consen    1 YDRSITTFSPDGRLFQVEYAMKA   23 (23)
T ss_dssp             TSSSTTSBBTTSSBHHHHHHHHH
T ss_pred             CCCCceeECCCCeEEeeEeeecC
Confidence            89999999999999999999987

4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....

>COG5405 HslV ATP-dependent protease HslVU (ClpYQ), peptidase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.33  E-value=1.5e-11  Score=93.26  Aligned_cols=167  Identities=20%  Similarity=0.185  Sum_probs=118.8

Q ss_pred             CCCcEEEEEeCCEEEEEEeecCC-CCccccCCceeEEEecC-cEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 026627           31 SGQTSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTP-NIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVT  108 (235)
Q Consensus        31 ~G~tivgi~~~dgvvla~d~~~~-~~l~~~~~~~KI~~i~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  108 (235)
                      +++||++++-++.+++++|.+++ ++.+...+..|+.+|.. +++.|++|.++|+..+.+.+..+++.|.-.      +.
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g~------L~   76 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQGD------LF   76 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccCc------HH
Confidence            68999999999999999999988 46666777777777655 899999999999999999999988876411      11


Q ss_pred             HHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEee--eEEeeCCCchHHHHHHHHhccC-CCCHH
Q 026627          109 QLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSW--KASAMGKNVSNAKTFLEKRYVE-EMELD  185 (235)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~--~~~a~G~~s~~~~~~L~~~~~~-~~s~~  185 (235)
                      ..+-.+++-++   .-...|.+.+-++++  |+  -.++-+.-.|-..+.  +.++||+|-.++.+.-...+.. +++  
T Consensus        77 raavelaKdwr---~Dk~lr~LEAmllVa--d~--~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~ls--  147 (178)
T COG5405          77 RAAVELAKDWR---TDKYLRKLEAMLLVA--DK--THILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELS--  147 (178)
T ss_pred             HHHHHHHHhhh---hhhHHHHHhhheeEe--CC--CcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCC--
Confidence            22233333332   222245677777775  43  457888889988864  6999999999999888777653 554  


Q ss_pred             HHHHHHHHHHHhhccCC-CCCCcEEEEEE
Q 026627          186 DAVHTAILTLKEGFEGQ-ISEKNIEIGII  213 (235)
Q Consensus       186 ea~~l~~~~l~~~~~~~-~~~~~iei~~i  213 (235)
                       |.+++.++|..+.+-. .++.++.|-.+
T Consensus       148 -A~eIa~~sl~iA~eiciyTN~ni~ve~l  175 (178)
T COG5405         148 -AREIAEKSLKIAGDICIYTNHNIVVEEL  175 (178)
T ss_pred             -HHHHHHHHHhhhheEEEecCCcEEEEEe
Confidence             5567778887654422 24444444433

>PF09894 DUF2121: Uncharacterized protein conserved in archaea (DUF2121); InterPro: IPR016754 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=97.19  E-value=0.057  Score=42.89  Aligned_cols=151  Identities=20%  Similarity=0.231  Sum_probs=92.0

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVR  112 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~  112 (235)
                      +.+||..+++|.|+|.|+|.                     +++-|.-.....|.+.|         -.|.--+-++|.+
T Consensus         2 SLII~y~GknGaViaGDkR~---------------------I~F~G~~~~re~LEeeL---------YsG~IktdeEL~k   51 (194)
T PF09894_consen    2 SLIIAYYGKNGAVIAGDKRN---------------------IAFRGDEEKREKLEEEL---------YSGKIKTDEELLK   51 (194)
T ss_pred             eEEEEEecCCCcEEecccee---------------------eeecCCHHHHHHHHHHH---------hCCccCCHHHHHH
Confidence            56899999999999999874                     34556666565555533         1234444566666


Q ss_pred             HHHHHHHHHhhcC---CcccceeEEEEEEEeC------CCCeEEEECCCCcEE-------eeeEEeeCCCc---------
Q 026627          113 ETAAVMQEFTQSG---GVRPFGVSLLVAGYDD------KGPQLYQVDPSGSYF-------SWKASAMGKNV---------  167 (235)
Q Consensus       113 ~l~~~~~~~~~~~---~~rP~~~~~il~G~d~------~gp~Ly~id~~G~~~-------~~~~~a~G~~s---------  167 (235)
                      ...++=-...-..   .-+-.+- +++|.+-.      ..-.+|.+  .|++.       +..-...|.++         
T Consensus        52 kA~Elgv~i~I~D~r~KV~~~~~-vlvGEV~s~~g~~skRRRiY~t--~g~~~Ivei~~~~i~~~~~g~~sgiIVfGNk~  128 (194)
T PF09894_consen   52 KAEELGVKIKITDDREKVRKIGD-VLVGEVTSISGKDSKRRRIYAT--KGKYAIVEIENDEITNKSRGEGSGIIVFGNKF  128 (194)
T ss_pred             HHHHcCCEEEEecCchheEEeCC-EEEEEEEEEcCccceeeEEEec--CCCEEEEEecCCeEEEEecCCceeEEEECCHH
Confidence            5444221110000   1111222 44443432      22346553  23322       11223334443         


Q ss_pred             --hHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEEecC
Q 026627          168 --SNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEK  216 (235)
Q Consensus       168 --~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~  216 (235)
                        +.+...|.+.|++.|+++++..+..++|..+.... ..+..+++...++.
T Consensus       129 ~K~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~  180 (194)
T PF09894_consen  129 TKEIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKK  180 (194)
T ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEeccc
Confidence              78889999999999999999999999999986653 57788998888764

They do show distant similarity to NTPases and to nucleic acid binding enzymes.

>COG4079 Uncharacterized protein conserved in archaea [Function unknown]

Probab=96.72  E-value=0.077  Score=43.63  Aligned_cols=167  Identities=19%  Similarity=0.230  Sum_probs=104.3

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVR  112 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~  112 (235)
                      +.+|+..++||.|+|.|+|.                     +.+-|.-.|.+.+.+.+         -.|.-.+-++|++
T Consensus         2 tLviay~gknGaviaGDrR~---------------------i~frgdee~re~lEekL---------YsGeIkteEEL~r   51 (293)
T COG4079           2 TLVIAYIGKNGAVIAGDRRE---------------------ITFRGDEEDREKLEEKL---------YSGEIKTEEELAR   51 (293)
T ss_pred             eEEEEEecCCCcEEeccceE---------------------EEEecChhHHHHHHHHh---------hcCccccHHHHHH
Confidence            56899999999999999873                     23456666666665543         2356666778877


Q ss_pred             HHHHHHHHHhhc---CCcccceeEEEEEEEeCCC------CeEEEECCCCcEE--e-----e---------eEEeeCC--
Q 026627          113 ETAAVMQEFTQS---GGVRPFGVSLLVAGYDDKG------PQLYQVDPSGSYF--S-----W---------KASAMGK--  165 (235)
Q Consensus       113 ~l~~~~~~~~~~---~~~rP~~~~~il~G~d~~g------p~Ly~id~~G~~~--~-----~---------~~~a~G~--  165 (235)
                      ...++--+++-.   ..-|...-+++++.+...+      -.+|.+  .|++.  +     .         ...+-|.  
T Consensus        52 ~aeel~Vki~vtDdr~KVrk~~d~VvvGEV~s~~~~~vkRRRvYAT--~Ga~aIvel~gs~vts~~~g~g~aiIv~Gnk~  129 (293)
T COG4079          52 KAEELGVKITVTDDRNKVRKRNDGVVVGEVSSVERGIVKRRRVYAT--AGAYAIVELRGSEVTSTSQGKGSAIIVFGNKF  129 (293)
T ss_pred             HHHHcCCEEEEEcchHhhhcccCcEEEEEeecccccceeeeEEeec--CCceEEEEecCCeeEeeecCCCceEEEECcHH
Confidence            766544222211   1122233344444454322      234442  23322  0     1         1222231  


Q ss_pred             CchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccC-CCCCCcEEEEEEecC-CcEEEcCHHHHHHHH
Q 026627          166 NVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEG-QISEKNIEIGIIGEK-KEFRVLTPNEIRDYL  231 (235)
Q Consensus       166 ~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~-~~~~~~iei~~i~~~-~~~~~l~~~ei~~~l  231 (235)
                      -.+.+..+|.+.|.+.++++++..++..+|..+... ...+..++++.+++. .++.+|-+.+|+.+.
T Consensus       130 ~Ke~aneflk~~l~~k~~lqd~~dal~elfe~vss~tpsVskeydiy~vs~~~d~~~rl~kkDie~L~  197 (293)
T COG4079         130 TKEVANEFLKDNLTKKSKLQDAVDALMELFETVSSKTPSVSKEYDIYQVSSNVDPVLRLVKKDIETLR  197 (293)
T ss_pred             HHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHhhcCCCcccceeEEEEecCCcCHHHHHHHHHHHHHH
Confidence            126778889999999999999999999999987743 457889999999876 346666667766543

>KOG3361 consensus Iron binding protein involved in Fe-S cluster formation [Energy production and conversion]

Probab=84.42  E-value=2.1  Score=32.05  Aligned_cols=45  Identities=27%  Similarity=0.300  Sum_probs=40.5

Q ss_pred             EEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          147 YQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       147 y~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      ..+|-+|.....+|-..|.||.-+.+-+-..|-..+++||+..+-
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~kIk  115 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALKIK  115 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHhcc
Confidence            367889999999999999999999999999999999999987653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	235
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		4e-86
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		3e-85
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		1e-68
1vsy_B	231	Proteasome Activator Complex Length = 231		1e-60
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		3e-44
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		3e-44
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		2e-43
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		1e-42
1vsy_C	232	Proteasome Activator Complex Length = 232		2e-41
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		1e-40
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		2e-40
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		7e-40
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		9e-40
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		3e-39
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		3e-39
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		6e-39
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		2e-38
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		2e-38
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		3e-38
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		6e-38
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		5e-37
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		1e-36
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		2e-36
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		2e-36
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		4e-36
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		7e-36
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		4e-35
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		4e-35
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		4e-35
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		4e-35
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		4e-35
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		5e-35
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		2e-34
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		8e-33
1vsy_D	227	Proteasome Activator Complex Length = 227		2e-32
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		4e-32
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		5e-30
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		2e-29
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		2e-28
1vsy_E	250	Proteasome Activator Complex Length = 250		4e-28
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		4e-28
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		4e-28
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		4e-28
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		5e-28
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		6e-28
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		4e-27
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		1e-21
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		1e-21
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		2e-21
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		2e-21
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		3e-21
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		3e-21
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		3e-21
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		9e-11
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		1e-09
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		2e-07
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		2e-07
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		8e-07
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		1e-06
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		1e-06
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		1e-06
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		5e-06
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		5e-05
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		6e-05
1g0u_L	241	A Gated Channel Into The Proteasome Core Particle L		7e-05
1ryp_K	198	Crystal Structure Of The 20s Proteasome From Yeast		9e-05
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		1e-04
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		1e-04

>pdb|3UNB|A Chain A, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 234

Iteration: 1
 Score =  313 bits (803), Expect = 4e-86,   Method: Compositional matrix adjust.
 Identities = 150/234 (64%), Positives = 185/234 (79%), Gaps = 1/234 (0%)
Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M    YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE 
Sbjct: 1   MAKRGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60
Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           SVHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE
Sbjct: 61  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120
Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E
Sbjct: 121 YTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180
Query: 181 EMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
           ++EL+DA+HTAILTLKE FEGQ++              FR LTP E+RDYLA +
Sbjct: 181 DLELEDAIHTAILTLKESFEGQMT-EDNIEVGICNEAGFRRLTPTEVRDYLAAI 233

>pdb|1IRU|B Chain B, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 233

Iteration: 1
 Score =  310 bits (795), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 148/229 (64%), Positives = 184/229 (80%), Gaps = 1/229 (0%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE SVHK+
Sbjct: 5   YSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKV 64
Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
           + +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE+TQSG
Sbjct: 65  EPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 124
Query: 126 GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD 185
           GVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E++EL+
Sbjct: 125 GVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELE 184
Query: 186 DAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
           DA+HTAILTLKE FEGQ++              FR LTP E++DYLA +
Sbjct: 185 DAIHTAILTLKESFEGQMT-EDNIEVGICNEAGFRRLTPTEVKDYLAAI 232

>pdb|1RYP|B Chain B, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 250

Iteration: 1
 Score =  256 bits (653), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 133/202 (65%), Positives = 157/202 (77%), Gaps = 2/202 (0%)
Query: 5   QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHK 64
           +YSFSLTTFSPSGKL QI++ALTAV  G TSLGIKA+NGVVIATEKK  S L    ++ K
Sbjct: 4   RYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSK 63
Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAE-QYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           +  LTP+IG VYSGMGPD+RVLV KSRK A   Y R+Y E  P   LV E A +MQE TQ
Sbjct: 64  VSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQ 123
Query: 124 SGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM 182
           SGGVRPFGVSLL+AG+D+  G  LYQVDPSGSYF WKA+A+GK    AKTFLEKR+ +E+
Sbjct: 124 SGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDEL 183
Query: 183 ELDDAVHTAILTLKEGFEGQIS 204
           EL+DA+H A+LTLKE  EG+ +
Sbjct: 184 ELEDAIHIALLTLKESVEGEFN 205

>pdb|1VSY|B Chain B, Proteasome Activator Complex Length = 231

Iteration: 1
 Score =  229 bits (583), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 119/186 (63%), Positives = 142/186 (76%), Gaps = 2/186 (1%)
Query: 21  QIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG 80
           QI++ALTAV  G TSLGIKA+NGVVIATEKK  S L    ++ K+  LTP+IG VYSGMG
Sbjct: 1   QIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMG 60
Query: 81  PDFRVLVRKSRKQAE-QYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGY 139
           PD+RVLV KSRK A   Y R+Y E  P   LV E A +MQE TQSGGVRPFGVSLL+AG+
Sbjct: 61  PDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGH 120
Query: 140 DD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEG 198
           D+  G  LYQVDPSGSYF WKA+A+GK    AKTFLEKR+ +E+EL+DA+H A+LTLKE 
Sbjct: 121 DEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKES 180
Query: 199 FEGQIS 204
            EG+ +
Sbjct: 181 VEGEFN 186

>pdb|1G0U|B Chain B, A Gated Channel Into The Proteasome Core Particle Length = 245

Iteration: 1
 Score =  174 bits (441), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 85/199 (42%), Positives = 129/199 (64%), Gaps = 2/199 (1%)
Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVD-E 59
           MG  +Y    T FSP G+L Q+E+AL ++    T++GI AS+G+V+A E+K+ S L++ +
Sbjct: 1   MGSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQD 60
Query: 60  SSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQ 119
           +S  K+  L   I V  +G+  D  +L+  +R  A+ Y + Y E IPV  LVR  + + Q
Sbjct: 61  TSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQ 120
Query: 120 EFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY 178
            +TQ GG+RPFGVS + AGYDD+ G QLY  +PSG+Y  WKA ++G N S A+T L+  Y
Sbjct: 121 GYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY 180
Query: 179 VEEMELDDAVHTAILTLKE 197
            ++M++DDA+  A+ TL +
Sbjct: 181 KDDMKVDDAIELALKTLSK 199

>pdb|1Z7Q|C Chain C, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 258

Iteration: 1
 Score =  174 bits (441), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 85/197 (43%), Positives = 128/197 (64%), Gaps = 2/197 (1%)
Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVD-E 59
           MG  +Y    T FSP G+L Q+E+AL ++    T++GI AS+G+V+A E+K+ S L++ +
Sbjct: 1   MGSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQD 60
Query: 60  SSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQ 119
           +S  K+  L   I V  +G+  D  +L+  +R  A+ Y + Y E IPV  LVR  + + Q
Sbjct: 61  TSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQ 120
Query: 120 EFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY 178
            +TQ GG+RPFGVS + AGYDD+ G QLY  +PSG+Y  WKA ++G N S A+T L+  Y
Sbjct: 121 GYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY 180
Query: 179 VEEMELDDAVHTAILTL 195
            ++M++DDA+  A+ TL
Sbjct: 181 KDDMKVDDAIELALKTL 197

>pdb|1RYP|C Chain C, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 244

Iteration: 1
 Score =  172 bits (435), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 84/198 (42%), Positives = 128/198 (64%), Gaps = 2/198 (1%)
Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVD-ES 60
           G  +Y    T FSP G+L Q+E+AL ++    T++GI AS+G+V+A E+K+ S L++ ++
Sbjct: 1   GSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDT 60
Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           S  K+  L   I V  +G+  D  +L+  +R  A+ Y + Y E IPV  LVR  + + Q 
Sbjct: 61  STEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQG 120
Query: 121 FTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV 179
           +TQ GG+RPFGVS + AGYDD+ G QLY  +PSG+Y  WKA ++G N S A+T L+  Y 
Sbjct: 121 YTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK 180
Query: 180 EEMELDDAVHTAILTLKE 197
           ++M++DDA+  A+ TL +
Sbjct: 181 DDMKVDDAIELALKTLSK 198

>pdb|3OEU|B Chain B, Structure Of Yeast 20s Open-Gate Proteasome With Compound 24 Length = 235

Iteration: 1
 Score =  169 bits (428), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 82/189 (43%), Positives = 125/189 (66%), Gaps = 2/189 (1%)
Query: 11  TTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVD-ESSVHKIQSLT 69
           T FSP G+L Q+E+AL ++    T++GI AS+G+V+A E+K+ S L++ ++S  K+  L 
Sbjct: 1   TIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLN 60
Query: 70  PNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRP 129
             I V  +G+  D  +L+  +R  A+ Y + Y E IPV  LVR  + + Q +TQ GG+RP
Sbjct: 61  DKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRP 120
Query: 130 FGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAV 188
           FGVS + AGYDD+ G QLY  +PSG+Y  WKA ++G N S A+T L+  Y ++M++DDA+
Sbjct: 121 FGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAI 180
Query: 189 HTAILTLKE 197
             A+ TL +
Sbjct: 181 ELALKTLSK 189

>pdb|1VSY|C Chain C, Proteasome Activator Complex Length = 232

Iteration: 1
 Score =  165 bits (418), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 80/184 (43%), Positives = 122/184 (66%), Gaps = 2/184 (1%)
Query: 14  SPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVD-ESSVHKIQSLTPNI 72
           SP G+L Q+E+AL ++    T++GI AS+G+V+A E+K+ S L++ ++S  K+  L   I
Sbjct: 1   SPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKI 60
Query: 73  GVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGV 132
            V  +G+  D  +L+  +R  A+ Y + Y E IPV  LVR  + + Q +TQ GG+RPFGV
Sbjct: 61  AVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGV 120
Query: 133 SLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA 191
           S + AGYDD+ G QLY  +PSG+Y  WKA ++G N S A+T L+  Y ++M++DDA+  A
Sbjct: 121 SFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELA 180
Query: 192 ILTL 195
           + TL
Sbjct: 181 LKTL 184

>pdb|3UNE|C Chain C, Mouse Constitutive 20s Proteasome Length = 248

Iteration: 1
 Score =  162 bits (411), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 83/233 (35%), Positives = 133/233 (57%), Gaps = 11/233 (4%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G L Q+E+A  AV  G T++G++  + VV+  EKK  + L DE +V KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
            +L  N+ + ++G+  D R+++ ++R + + +    ++P+ V  + R  A++ Q +TQS 
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 126 GVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMEL 184
           G RPFG+S L+ G+D D  P+LYQ DPSG+Y +WKA+A+G+   + + FLEK Y      
Sbjct: 123 GRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYT----- 177
Query: 185 DDAVHTAILTLKEGFEG-----QISXXXXXXXXXXXXXXFRVLTPNEIRDYLA 232
           DDA+ T  LT+K   +      Q                 ++L P EI  Y+A
Sbjct: 178 DDAIETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQPLKILNPEEIEKYVA 230

>pdb|1IRU|D Chain D, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 248

Iteration: 1
 Score =  162 bits (409), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 84/230 (36%), Positives = 134/230 (58%), Gaps = 5/230 (2%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G L Q+E+A  AV  G T++G++  + VV+  EKK  + L DE +V KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
            +L  N+ + ++G+  D R+++ ++R + + +    ++P+ V  + R  A++ Q +TQS 
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 126 GVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE-ME 183
           G RPFG+S L+ G+D D  P+LYQ DPSG+Y +WKA+A+G+   + + FLEK Y +E +E
Sbjct: 123 GRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIE 182
Query: 184 LDDAVHTAILTLKEGFE-GQISXXXXXXXXXXXXXXFRVLTPNEIRDYLA 232
            DD   T  L +K   E  Q                 ++L P EI  Y+A
Sbjct: 183 TDDL--TIKLVIKALLEVVQSGGKNIELAVMRRDQSLKILNPEEIEKYVA 230

>pdb|3UNB|C Chain C, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 248

Iteration: 1
 Score =  160 bits (404), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 82/233 (35%), Positives = 132/233 (56%), Gaps = 11/233 (4%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G L Q+E+A  AV  G T++G++  + VV+   KK  + L DE +V KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVAKKSVAKLQDERTVRKI 62
Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
            +L  N+ + ++G+  D R+++ ++R + + +    ++P+ V  + R  A++ Q +TQS 
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 126 GVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMEL 184
           G RPFG+S L+ G+D D  P+LYQ DPSG+Y +WKA+A+G+   + + FLEK Y      
Sbjct: 123 GRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYT----- 177
Query: 185 DDAVHTAILTLKEGFEG-----QISXXXXXXXXXXXXXXFRVLTPNEIRDYLA 232
           DDA+ T  LT+K   +      Q                 ++L P EI  Y+A
Sbjct: 178 DDAIETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQPLKILNPEEIEKYVA 230

>pdb|1YAR|A Chain A, Structure Of Archeabacterial 20s Proteasome Mutant D9s- Pa26 Complex Length = 233

Iteration: 1
 Score =  159 bits (403), Expect = 9e-40,   Method: Compositional matrix adjust.
 Identities = 85/230 (36%), Positives = 131/230 (56%)
Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESS 61
           G   YS ++T FSP G+L Q+E+A  AV  G T+LG+K +NGV++ ++KK+ S L++++S
Sbjct: 4   GQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNS 63
Query: 62  VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEF 121
           + KIQ +   +  V SG+  D RVLV  +R  A+Q    Y   + +  LV+  A  MQ++
Sbjct: 64  IEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY 123
Query: 122 TQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           TQ GGVRP+GVSL+ AG D  GP+L+  DP+G+   +KA+A+G       +FLE+ Y E 
Sbjct: 124 TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 183
Query: 182 MELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
           +   +AV   I  LK   E                  +R+    E++ +L
Sbjct: 184 LPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

>pdb|1PMA|A Chain A, Proteasome From Thermoplasma Acidophilum Length = 233

Iteration: 1
 Score =  158 bits (399), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 84/230 (36%), Positives = 130/230 (56%)
Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESS 61
           G   Y  ++T FSP G+L Q+E+A  AV  G T+LG+K +NGV++ ++KK+ S L++++S
Sbjct: 4   GQMAYDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNS 63
Query: 62  VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEF 121
           + KIQ +   +  V SG+  D RVLV  +R  A+Q    Y   + +  LV+  A  MQ++
Sbjct: 64  IEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY 123
Query: 122 TQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           TQ GGVRP+GVSL+ AG D  GP+L+  DP+G+   +KA+A+G       +FLE+ Y E 
Sbjct: 124 TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 183
Query: 182 MELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
           +   +AV   I  LK   E                  +R+    E++ +L
Sbjct: 184 LPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

>pdb|2KU1|A Chain A, Dynamic Regulation Of Archaeal Proteasome Gate Opening As Studied By Trosy-Nmr Length = 237

Iteration: 1
 Score =  158 bits (399), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 84/230 (36%), Positives = 130/230 (56%)
Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESS 61
           G   Y  ++T FSP G+L Q+E+A  AV  G T+LG+K +NGV++ ++KK+ S L++++S
Sbjct: 8   GQMAYDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNS 67
Query: 62  VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEF 121
           + KIQ +   +  V SG+  D RVLV  +R  A+Q    Y   + +  LV+  A  MQ++
Sbjct: 68  IEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY 127
Query: 122 TQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           TQ GGVRP+GVSL+ AG D  GP+L+  DP+G+   +KA+A+G       +FLE+ Y E 
Sbjct: 128 TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 187
Query: 182 MELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
           +   +AV   I  LK   E                  +R+    E++ +L
Sbjct: 188 LPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 237

>pdb|3JRM|A Chain A, Crystal Structure Of Archaeal 20s Proteasome In Complex With Mutated P26 Activator Length = 227

Iteration: 1
 Score =  157 bits (396), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 83/226 (36%), Positives = 129/226 (57%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G+L Q+E+A  AV  G T+LG+K +NGV++ ++KK+ S L++++S+ KI
Sbjct: 2   YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 61
Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
           Q +   +  V SG+  D RVLV  +R  A+Q    Y   + +  LV+  A  MQ++TQ G
Sbjct: 62  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 121
Query: 126 GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD 185
           GVRP+GVSL+ AG D  GP+L+  DP+G+   +KA+A+G       +FLE+ Y E +   
Sbjct: 122 GVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEK 181
Query: 186 DAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
           +AV   I  LK   E                  +R+    E++ +L
Sbjct: 182 EAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 227

>pdb|1YAU|A Chain A, Structure Of Archeabacterial 20s Proteasome- Pa26 Complex Length = 233

Iteration: 1
 Score =  155 bits (392), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 82/223 (36%), Positives = 128/223 (57%)
Query: 9   SLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL 68
           ++T FSP G+L Q+E+A  AV  G T+LG+K +NGV++ ++KK+ S L++++S+ KIQ +
Sbjct: 11  AITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLI 70
Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVR 128
              +  V SG+  D RVLV  +R  A+Q    Y   + +  LV+  A  MQ++TQ GGVR
Sbjct: 71  DDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVR 130
Query: 129 PFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAV 188
           P+GVSL+ AG D  GP+L+  DP+G+   +KA+A+G       +FLE+ Y E +   +AV
Sbjct: 131 PYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAV 190
Query: 189 HTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
              I  LK   E                  +R+    E++ +L
Sbjct: 191 TLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

>pdb|2KU2|A Chain A, Dynamic Regulation Of Archaeal Proteasome Gate Opening As Studied By Trosy-Nmr Length = 237

Iteration: 1
 Score =  155 bits (392), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 82/223 (36%), Positives = 128/223 (57%)
Query: 9   SLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL 68
           ++T FSP G+L Q+E+A  AV  G T+LG+K +NGV++ ++KK+ S L++++S+ KIQ +
Sbjct: 15  AITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLI 74
Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVR 128
              +  V SG+  D RVLV  +R  A+Q    Y   + +  LV+  A  MQ++TQ GGVR
Sbjct: 75  DDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVR 134
Query: 129 PFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAV 188
           P+GVSL+ AG D  GP+L+  DP+G+   +KA+A+G       +FLE+ Y E +   +AV
Sbjct: 135 PYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAV 194
Query: 189 HTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
              I  LK   E                  +R+    E++ +L
Sbjct: 195 TLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 237

>pdb|1J2Q|A Chain A, 20s Proteasome In Complex With Calpain-inhibitor I From Archaeoglobus Fulgidus Length = 237

Iteration: 1
 Score =  154 bits (390), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 78/224 (34%), Positives = 131/224 (58%), Gaps = 2/224 (0%)
Query: 9   SLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL 68
           ++T FSP G+L Q+E+A  AV  G T++GIK   GV++  +K++ S L++  ++ KI  +
Sbjct: 2   AITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEADTIEKIYKI 61
Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVR 128
             +I    SG+  D RVL+ ++R +A+     Y EPI V +L ++     Q++TQ GGVR
Sbjct: 62  DEHICAATSGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQYTQYGGVR 121
Query: 129 PFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAV 188
           PFGVSLL+AG D+  P+LY+ DPSG+   +KA+A+G   +    F EK Y +++  DDA+
Sbjct: 122 PFGVSLLIAGVDEV-PKLYETDPSGALLEYKATAIGMGRNAVTEFFEKEYRDDLSFDDAM 180
Query: 189 HTAILTLKEGFEGQ-ISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
              ++ +    E + +               F+ ++P E++ Y+
Sbjct: 181 VLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYV 224

>pdb|3H4P|A Chain A, Proteasome 20s Core Particle From Methanocaldococcus Jannaschii Length = 264

Iteration: 1
 Score =  154 bits (388), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 76/197 (38%), Positives = 118/197 (59%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           S Y  ++T FSP G+L Q+E+A  AV  G T++GI   +GVV+A ++++ S LV   S+ 
Sbjct: 10  SAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIE 69
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  ++    SG+  D RVL+ ++R +A+ Y   Y E I +  L ++   + Q +TQ
Sbjct: 70  KIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQ 129
Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEME 183
            GGVRPFGVSLL+AG D    +L++ DPSG+   +KA+A+G         LEK Y +++ 
Sbjct: 130 HGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDIT 189
Query: 184 LDDAVHTAILTLKEGFE 200
           LD+ +  AI  L +  E
Sbjct: 190 LDEGLELAITALTKANE 206

>pdb|1J2P|A Chain A, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus Length = 246

Iteration: 1
 Score =  150 bits (380), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 77/227 (33%), Positives = 131/227 (57%), Gaps = 2/227 (0%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G+L Q+E+A  AV  G T++GIK   GV++  +K++ S L+++ ++ KI
Sbjct: 8   YDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKI 67
Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
             +  +I    SG+  D RVL+ ++R +A+     Y  PI V +L ++     Q++TQ G
Sbjct: 68  YKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYG 127
Query: 126 GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD 185
           GVRPFGVSLL+AG ++  P+LY+ DPSG+   +KA+A+G        F EK Y +++  D
Sbjct: 128 GVRPFGVSLLIAGVNEV-PKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFD 186
Query: 186 DAVHTAILTLKEGFEGQ-ISXXXXXXXXXXXXXXFRVLTPNEIRDYL 231
           DA+   ++ +    E + +               F+ ++P E++ Y+
Sbjct: 187 DAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYV 233

>pdb|1G0U|C Chain C, A Gated Channel Into The Proteasome Core Particle Length = 243

Iteration: 1
 Score =  149 bits (375), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 77/181 (42%), Positives = 110/181 (60%), Gaps = 9/181 (4%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEK----KLPSILVDE 59
           S Y  +L+ FSP G + Q+E+AL AV  G  ++G+K  N VV+  E+    KL    +  
Sbjct: 2   SGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITP 61
Query: 60  SSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQ 119
           S V KI S   ++ + +SG+  D R+L+ K+R +A+ +    ++P+ V  L R  A V Q
Sbjct: 62  SKVSKIDS---HVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQ 118
Query: 120 EFTQSGGVRPFGVSLLVAGYD--DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKR 177
            +TQSGGVRPFGVS L+AG+D  D  P+LYQ +PSG Y SW A  +G+N    + FLEK 
Sbjct: 119 RYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKN 178
Query: 178 Y 178
           Y
Sbjct: 179 Y 179

>pdb|1FNT|D Chain D, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 254

Iteration: 1
 Score =  149 bits (375), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 77/181 (42%), Positives = 110/181 (60%), Gaps = 9/181 (4%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEK----KLPSILVDE 59
           S Y  +L+ FSP G + Q+E+AL AV  G  ++G+K  N VV+  E+    KL    +  
Sbjct: 2   SGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITP 61
Query: 60  SSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQ 119
           S V KI S   ++ + +SG+  D R+L+ K+R +A+ +    ++P+ V  L R  A V Q
Sbjct: 62  SKVSKIDS---HVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQ 118
Query: 120 EFTQSGGVRPFGVSLLVAGYD--DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKR 177
            +TQSGGVRPFGVS L+AG+D  D  P+LYQ +PSG Y SW A  +G+N    + FLEK 
Sbjct: 119 RYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKN 178
Query: 178 Y 178
           Y
Sbjct: 179 Y 179

>pdb|1RYP|D Chain D, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 241

Iteration: 1
 Score =  149 bits (375), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 76/179 (42%), Positives = 109/179 (60%), Gaps = 9/179 (5%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEK----KLPSILVDESS 61
           Y  +L+ FSP G + Q+E+AL AV  G  ++G+K  N VV+  E+    KL    +  S 
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61
Query: 62  VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEF 121
           V KI S   ++ + +SG+  D R+L+ K+R +A+ +    ++P+ V  L R  A V Q +
Sbjct: 62  VSKIDS---HVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY 118
Query: 122 TQSGGVRPFGVSLLVAGYD--DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY 178
           TQSGGVRPFGVS L+AG+D  D  P+LYQ +PSG Y SW A  +G+N    + FLEK Y
Sbjct: 119 TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNY 177

>pdb|1IRU|C Chain C, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 261

Iteration: 1
 Score =  147 bits (372), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 83/199 (41%), Positives = 117/199 (58%), Gaps = 3/199 (1%)
Query: 5   QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSV-H 63
           +Y    T FSP G+L Q+E+A+ A+G   T LGI A++GV++A E++    L+DE     
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSE 63
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  L  ++    +G+  D  VL  + R  A++Y   Y+EPIP  QLV     + Q +TQ
Sbjct: 64  KIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQ 123
Query: 124 SGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE-E 181
            GG RPFGVSLL  G+D   G QLYQ DPSG+Y  WKA+ +G N + A + L++ Y E E
Sbjct: 124 FGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGE 183
Query: 182 MELDDAVHTAILTLKEGFE 200
           M L  A+  AI  L +  +
Sbjct: 184 MTLKSALALAIKVLNKTMD 202

>pdb|3UNB|B Chain B, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 261

Iteration: 1
 Score =  147 bits (370), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 82/199 (41%), Positives = 117/199 (58%), Gaps = 3/199 (1%)
Query: 5   QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSV-H 63
           +Y    T FSP G+L Q+E+A+ A+G   T LGI A++GV++A E++    L+DE     
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSE 63
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  L  ++    +G+  D  VL  + R  A++Y   Y+EPIP  QLV     + Q +TQ
Sbjct: 64  KIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQ 123
Query: 124 SGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE-E 181
            GG RPFGVSLL  G+D   G QLYQ DPSG+Y  WKA+ +G N + A + L++ Y E E
Sbjct: 124 FGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGE 183
Query: 182 MELDDAVHTAILTLKEGFE 200
           M L  A+  A+  L +  +
Sbjct: 184 MTLKSALALAVKVLNKTMD 202

>pdb|1FNT|G Chain G, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 287

Iteration: 1
 Score =  144 bits (363), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 77/172 (44%), Positives = 107/172 (62%), Gaps = 2/172 (1%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHK 64
           Y  S + FSP G+  Q+E+A+ AV +G TS+GIK ++GVV A EK + S +LV + +V K
Sbjct: 7   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-K 65
Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           IQ +  +IG VYSG+ PD R LV + R++A  + +LYK PIP+          +Q  T  
Sbjct: 66  IQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLY 125
Query: 125 GGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
             VRPFGVS +  G D  G  LY ++PSGSY+ +K +A GK   +AK  LEK
Sbjct: 126 NSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 177

>pdb|1Z7Q|G Chain G, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 288

Iteration: 1
 Score =  144 bits (363), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 77/172 (44%), Positives = 107/172 (62%), Gaps = 2/172 (1%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHK 64
           Y  S + FSP G+  Q+E+A+ AV +G TS+GIK ++GVV A EK + S +LV + +V K
Sbjct: 8   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-K 66
Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           IQ +  +IG VYSG+ PD R LV + R++A  + +LYK PIP+          +Q  T  
Sbjct: 67  IQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLY 126
Query: 125 GGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
             VRPFGVS +  G D  G  LY ++PSGSY+ +K +A GK   +AK  LEK
Sbjct: 127 NSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 178

>pdb|3UNB|D Chain D, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 241

Iteration: 1
 Score =  144 bits (363), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 73/236 (30%), Positives = 133/236 (56%), Gaps = 5/236 (2%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           S+Y   + TFSP G+L Q+E+A+ A+  G T++GI+ S GV +A EK++ S L++ SS+ 
Sbjct: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIE 65
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  +IG   SG+  D + L+ K+R + + +   Y E + V  + +  + +  +F +
Sbjct: 66  KIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGE 125
Query: 124 SGG-----VRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY 178
                    RPFGV+LL  G D+KGPQL+ +DPSG++    A A+G     A++ L++ Y
Sbjct: 126 EDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQEVY 185
Query: 179 VEEMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
            + M L +A+ ++++ LK+  E +++              F + T  E+ + + ++
Sbjct: 186 HKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 241

>pdb|1G0U|F Chain F, A Gated Channel Into The Proteasome Core Particle Length = 248

Iteration: 1
 Score =  144 bits (363), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 77/172 (44%), Positives = 107/172 (62%), Gaps = 2/172 (1%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHK 64
           Y  S + FSP G+  Q+E+A+ AV +G TS+GIK ++GVV A EK + S +LV + +V K
Sbjct: 8   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-K 66
Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           IQ +  +IG VYSG+ PD R LV + R++A  + +LYK PIP+          +Q  T  
Sbjct: 67  IQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLY 126
Query: 125 GGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
             VRPFGVS +  G D  G  LY ++PSGSY+ +K +A GK   +AK  LEK
Sbjct: 127 NSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 178

>pdb|3OEU|F Chain F, Structure Of Yeast 20s Open-Gate Proteasome With Compound 24 Length = 242

Iteration: 1
 Score =  144 bits (363), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 77/172 (44%), Positives = 107/172 (62%), Gaps = 2/172 (1%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHK 64
           Y  S + FSP G+  Q+E+A+ AV +G TS+GIK ++GVV A EK + S +LV + +V K
Sbjct: 2   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-K 60
Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           IQ +  +IG VYSG+ PD R LV + R++A  + +LYK PIP+          +Q  T  
Sbjct: 61  IQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLY 120
Query: 125 GGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
             VRPFGVS +  G D  G  LY ++PSGSY+ +K +A GK   +AK  LEK
Sbjct: 121 NSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 172

>pdb|1RYP|G Chain G, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 244

Iteration: 1
 Score =  144 bits (363), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 77/172 (44%), Positives = 107/172 (62%), Gaps = 2/172 (1%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHK 64
           Y  S + FSP G+  Q+E+A+ AV +G TS+GIK ++GVV A EK + S +LV + +V K
Sbjct: 4   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-K 62
Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           IQ +  +IG VYSG+ PD R LV + R++A  + +LYK PIP+          +Q  T  
Sbjct: 63  IQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLY 122
Query: 125 GGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
             VRPFGVS +  G D  G  LY ++PSGSY+ +K +A GK   +AK  LEK
Sbjct: 123 NSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 174

>pdb|1IRU|E Chain E, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 241

Iteration: 1
 Score =  142 bits (358), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 72/236 (30%), Positives = 132/236 (55%), Gaps = 5/236 (2%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           S+Y   + TFSP G+L Q+E+ + A+  G T++GI+ S GV +A EK++ S L++ SS+ 
Sbjct: 6   SEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIE 65
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  +IG   SG+  D + L+ K+R + + +   Y E + V  + +  + +  +F +
Sbjct: 66  KIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGE 125
Query: 124 SGG-----VRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY 178
                    RPFGV+LL  G D+KGPQL+ +DPSG++    A A+G     A++ L++ Y
Sbjct: 126 EDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELY 185
Query: 179 VEEMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
            + M L +A+ ++++ LK+  E +++              F + T  E+ + + ++
Sbjct: 186 HKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 241

>pdb|1IRU|A Chain A, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 246

Iteration: 1
 Score =  137 bits (344), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 70/190 (36%), Positives = 114/190 (60%), Gaps = 4/190 (2%)
Query: 10  LTTFSPSGKLVQIEHALTAVGSG-QTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL 68
           +T FSP G+L Q+E+A  A+  G  TS+ ++  +  VI T+KK+P  L+D S+V  +  +
Sbjct: 13  ITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKI 72
Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVR 128
           T NIG V +GM  D R  V+++R +A  +   Y   IPV  L +  A + Q +TQ+  +R
Sbjct: 73  TENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMR 132
Query: 129 PFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEME--LD 185
           P G  +++ G D ++GPQ+Y+ DP+G Y  +KA+A G   + + +FLEK+  ++ +   +
Sbjct: 133 PLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFE 192
Query: 186 DAVHTAILTL 195
             V TAI  L
Sbjct: 193 QTVETAITCL 202

>pdb|1VSY|D Chain D, Proteasome Activator Complex Length = 227

Iteration: 1
 Score =  135 bits (341), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 70/166 (42%), Positives = 101/166 (60%), Gaps = 9/166 (5%)
Query: 19  LVQIEHALTAVGSGQTSLGIKASNGVVIATEK----KLPSILVDESSVHKIQSLTPNIGV 74
           + Q+E+AL AV  G  ++G+K  N VV+  E+    KL    +  S V KI S   ++ +
Sbjct: 1   IFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDS---HVVL 57
Query: 75  VYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSL 134
            +SG+  D R+L+ K+R +A+ +    ++P+ V  L R  A V Q +TQSGGVRPFGVS 
Sbjct: 58  SFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVST 117
Query: 135 LVAGYD--DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY 178
           L+AG+D  D  P+LYQ +PSG Y SW A  +G+N    + FLEK Y
Sbjct: 118 LIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNY 163

>pdb|3UNB|G Chain G, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 246

Iteration: 1
 Score =  134 bits (337), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 69/190 (36%), Positives = 114/190 (60%), Gaps = 4/190 (2%)
Query: 10  LTTFSPSGKLVQIEHALTAVGSG-QTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL 68
           +T FSP G+L Q+E+A  A+  G  TS+ ++  +  VI T+KK+P  L+D S+V  +  +
Sbjct: 13  ITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKI 72
Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVR 128
           T +IG V +GM  D R  V+++R +A  +   Y   IPV  L +  A + Q +TQ+  +R
Sbjct: 73  TESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMR 132
Query: 129 PFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEME--LD 185
           P G  +++ G D ++GPQ+Y+ DP+G Y  +KA+A G   + + +FLEK+  ++ +   +
Sbjct: 133 PLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFE 192
Query: 186 DAVHTAILTL 195
             V TAI  L
Sbjct: 193 QTVETAITCL 202

>pdb|3UNB|E Chain E, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 263

Iteration: 1
 Score =  127 bits (319), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 70/199 (35%), Positives = 113/199 (56%), Gaps = 4/199 (2%)
Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M  +QY   +T +SP G++ QIE+A+ AV  G  ++G+K+    V+   K+  S L   +
Sbjct: 1   MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--A 58
Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
              KI  +  +IG+  +G+  D R+L    R++      ++  P+PV++LV    +  Q 
Sbjct: 59  HQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQI 118
Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
            TQ  G RP+GV LL+AGYDD GP ++Q  PS +YF  +A ++G    +A+T+LE+   E
Sbjct: 119 PTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSE 178
Query: 181 EME--LDDAVHTAILTLKE 197
            ME  LD+ V   +  L+E
Sbjct: 179 FMECNLDELVKHGLRALRE 197

>pdb|1IRU|F Chain F, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 263

Iteration: 1
 Score =  125 bits (314), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 69/199 (34%), Positives = 112/199 (56%), Gaps = 4/199 (2%)
Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M  +QY   +T +SP G++ QIE+A+ AV  G  ++G+K+    V+   K+  S L    
Sbjct: 1   MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAHQ 60
Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
              KI  +  +IG+  +G+  D R+L    R++      ++  P+PV++LV    +  Q 
Sbjct: 61  K--KILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQI 118
Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
            TQ  G RP+GV LL+AGYDD GP ++Q  PS +YF  +A ++G    +A+T+LE+   E
Sbjct: 119 PTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSE 178
Query: 181 EME--LDDAVHTAILTLKE 197
            ME  L++ V   +  L+E
Sbjct: 179 FMECNLNELVKHGLRALRE 197

>pdb|1G0U|D Chain D, A Gated Channel Into The Proteasome Core Particle Length = 241

Iteration: 1
 Score =  122 bits (305), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 68/201 (33%), Positives = 111/201 (55%), Gaps = 4/201 (1%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           S+Y   ++TFSP G+L Q+E++L A+  G T++GI    GVV+  EK+  S L++  S+ 
Sbjct: 6   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 65
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  +IG   SG+  D R ++  +R  A  ++  Y E I V  L   T +V      
Sbjct: 66  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESL---TQSVCDLAAA 122
Query: 124 SGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM 182
           +   RPFGV+LL+AG+D D G QL+  +PSG+++ + A A+G     A+  L   +   +
Sbjct: 123 AAMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSL 182
Query: 183 ELDDAVHTAILTLKEGFEGQI 203
            L +A    +  LK+  E ++
Sbjct: 183 TLKEAELLVLKILKQVMEEKL 203

>pdb|1VSY|E Chain E, Proteasome Activator Complex Length = 250

Iteration: 1
 Score =  121 bits (303), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 67/207 (32%), Positives = 111/207 (53%), Gaps = 7/207 (3%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           S+Y   ++TFSP G+L Q+E++L A+  G T++GI    GVV+  EK+  S L++  S+ 
Sbjct: 6   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 65
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  +IG   SG+  D R ++  +R  A  ++  Y E I V  L +    +   F +
Sbjct: 66  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGE 125
Query: 124 SGG------VRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
                     RPFGV+LL+AG+D D G QL+  +PSG+++ + A A+G     A+  L  
Sbjct: 126 GASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLN 185
Query: 177 RYVEEMELDDAVHTAILTLKEGFEGQI 203
            +   + L +A    +  LK+  E ++
Sbjct: 186 EWHSSLTLKEAELLVLKILKQVMEEKL 212

>pdb|4G4S|E Chain E, Structure Of Proteasome-Pba1-Pba2 Complex Length = 261

Iteration: 1
 Score =  121 bits (303), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 67/207 (32%), Positives = 111/207 (53%), Gaps = 7/207 (3%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           S+Y   ++TFSP G+L Q+E++L A+  G T++GI    GVV+  EK+  S L++  S+ 
Sbjct: 7   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 66
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  +IG   SG+  D R ++  +R  A  ++  Y E I V  L +    +   F +
Sbjct: 67  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGE 126
Query: 124 SGG------VRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
                     RPFGV+LL+AG+D D G QL+  +PSG+++ + A A+G     A+  L  
Sbjct: 127 GASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLN 186
Query: 177 RYVEEMELDDAVHTAILTLKEGFEGQI 203
            +   + L +A    +  LK+  E ++
Sbjct: 187 EWHSSLTLKEAELLVLKILKQVMEEKL 213

>pdb|1FNT|E Chain E, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 260

Iteration: 1
 Score =  121 bits (303), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 67/207 (32%), Positives = 111/207 (53%), Gaps = 7/207 (3%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           S+Y   ++TFSP G+L Q+E++L A+  G T++GI    GVV+  EK+  S L++  S+ 
Sbjct: 6   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 65
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  +IG   SG+  D R ++  +R  A  ++  Y E I V  L +    +   F +
Sbjct: 66  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGE 125
Query: 124 SGG------VRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
                     RPFGV+LL+AG+D D G QL+  +PSG+++ + A A+G     A+  L  
Sbjct: 126 GASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLN 185
Query: 177 RYVEEMELDDAVHTAILTLKEGFEGQI 203
            +   + L +A    +  LK+  E ++
Sbjct: 186 EWHSSLTLKEAELLVLKILKQVMEEKL 212

>pdb|2Z5C|C Chain C, Crystal Structure Of A Novel Chaperone Complex For Yeast 20s Proteasome Assembly Length = 262

Iteration: 1
 Score =  121 bits (303), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 69/238 (28%), Positives = 119/238 (50%), Gaps = 7/238 (2%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           S+Y   ++TFSP G+L Q+E++L A+  G T++GI    GVV+  EK+  S L++  S+ 
Sbjct: 8   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 67
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI  +  +IG   SG+  D R ++  +R  A  ++  Y E I V  L +    +   F +
Sbjct: 68  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGE 127
Query: 124 SGG------VRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
                     RPFGV+LL+AG+D D G QL+  +PSG+++ + A A+G     A+  L  
Sbjct: 128 GASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLN 187
Query: 177 RYVEEMELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
            +   + L +A    +  LK+  E ++               F++    +  + + E+
Sbjct: 188 EWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKEL 245

>pdb|3UNB|F Chain F, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 255

Iteration: 1
 Score =  120 bits (302), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 63/184 (34%), Positives = 103/184 (55%), Gaps = 1/184 (0%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  S +TFSP G++ Q+E+A+ AV +  T++GI+  +GVV   EK + S L +E S  ++
Sbjct: 8   YDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRL 67
Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
            ++  ++G+  +G+  D R L   +R++A  +   +   IP+  L    A  +  +T   
Sbjct: 68  FNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYS 127
Query: 126 GVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMEL 184
            VRPFG S ++  Y  + G QLY +DPSG  + +   A+GK    AKT +EK  ++EM  
Sbjct: 128 AVRPFGCSFMLGSYSANDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTC 187
Query: 185 DDAV 188
            D V
Sbjct: 188 RDVV 191

>pdb|1IRU|G Chain G, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 254

Iteration: 1
 Score =  120 bits (301), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 63/184 (34%), Positives = 103/184 (55%), Gaps = 1/184 (0%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  S +TFSP G++ Q+E+A+ AV +  T++GI+  +GVV   EK + S L +E S  ++
Sbjct: 7   YDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRL 66
Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
            ++  ++G+  +G+  D R L   +R++A  +   +   IP+  L    A  +  +T   
Sbjct: 67  FNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYS 126
Query: 126 GVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMEL 184
            VRPFG S ++  Y  + G QLY +DPSG  + +   A+GK    AKT +EK  ++EM  
Sbjct: 127 AVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTC 186
Query: 185 DDAV 188
            D V
Sbjct: 187 RDIV 190

>pdb|1RYP|E Chain E, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 242

Iteration: 1
 Score =  117 bits (294), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 67/232 (28%), Positives = 116/232 (50%), Gaps = 7/232 (3%)
Query: 10  LTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLT 69
           ++TFSP G+L Q+E++L A+  G T++GI    GVV+  EK+  S L++  S+ KI  + 
Sbjct: 4   VSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEID 63
Query: 70  PNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGG--- 126
            +IG   SG+  D R ++  +R  A  ++  Y E I V  L +    +   F +      
Sbjct: 64  RHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEE 123
Query: 127 ---VRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM 182
               RPFGV+LL+AG+D D G QL+  +PSG+++ + A A+G     A+  L   +   +
Sbjct: 124 RLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSL 183
Query: 183 ELDDAVHTAILTLKEGFEGQISXXXXXXXXXXXXXXFRVLTPNEIRDYLAEV 234
            L +A    +  LK+  E ++               F++    +  + + E+
Sbjct: 184 TLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKEL 235

>pdb|1G0U|E Chain E, A Gated Channel Into The Proteasome Core Particle Length = 234

Iteration: 1
 Score =  100 bits (248), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 58/185 (31%), Positives = 94/185 (50%), Gaps = 2/185 (1%)
Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M  + Y     TFSP+G+L Q+E+AL A+  G  ++G++++   V+   K+    L   S
Sbjct: 1   MFRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SS 58
Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
              KI     ++G+  +G+ PD RVL    R+Q      ++   + V +         Q+
Sbjct: 59  YQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQK 118
Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
            TQS G RP+GV LL+ GYD  G  L +  PSG+      +A+G     AKT+LE+    
Sbjct: 119 NTQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDT 178
Query: 181 EMELD 185
            +++D
Sbjct: 179 FIKID 183

>pdb|3SDI|E Chain E, Structure Of Yeast 20s Open-Gate Proteasome With Compound 20 Length = 233

Iteration: 1
 Score = 99.8 bits (247), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 57/182 (31%), Positives = 93/182 (51%), Gaps = 2/182 (1%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y     TFSP+G+L Q+E+AL A+  G  ++G++++   V+   K+    L   S   
Sbjct: 3   NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQK 60
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI     ++G+  +G+ PD RVL    R+Q      ++   + V +         Q+ TQ
Sbjct: 61  KIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQ 120
Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEME 183
           S G RP+GV LL+ GYD  G  L +  PSG+      +A+G     AKT+LE+     ++
Sbjct: 121 SAGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIK 180
Query: 184 LD 185
           +D
Sbjct: 181 ID 182

>pdb|1G0U|G Chain G, A Gated Channel Into The Proteasome Core Particle Length = 252

Iteration: 1
 Score = 99.0 bits (245), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 56/175 (32%), Positives = 94/175 (53%), Gaps = 2/175 (1%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVG-SGQTSLGIKASNGVVIATEKKLPSILVDESSVHK 64
           Y   +T FSP G+L Q+E+A  A   +   SL ++  +  V+ ++KK+P  L+D ++V  
Sbjct: 12  YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 71
Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           I  ++  IG+V +G  PD R    +++ +A ++   Y   +P   L +  A + Q +TQ 
Sbjct: 72  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQR 131
Query: 125 GGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY 178
             +RP GV L     D++ GP +Y+ DP+G Y  +KA+A G       T LE  +
Sbjct: 132 AYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHF 186

>pdb|1RYP|A Chain A, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 243

Iteration: 1
 Score = 99.0 bits (245), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 56/175 (32%), Positives = 94/175 (53%), Gaps = 2/175 (1%)
Query: 6   YSFSLTTFSPSGKLVQIEHALTAVG-SGQTSLGIKASNGVVIATEKKLPSILVDESSVHK 64
           Y   +T FSP G+L Q+E+A  A   +   SL ++  +  V+ ++KK+P  L+D ++V  
Sbjct: 3   YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 62
Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           I  ++  IG+V +G  PD R    +++ +A ++   Y   +P   L +  A + Q +TQ 
Sbjct: 63  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQR 122
Query: 125 GGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY 178
             +RP GV L     D++ GP +Y+ DP+G Y  +KA+A G       T LE  +
Sbjct: 123 AYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHF 177

>pdb|1FNT|F Chain F, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 234

Iteration: 1
 Score = 98.6 bits (244), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 57/176 (32%), Positives = 90/176 (51%), Gaps = 2/176 (1%)
Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M  + Y     TFSP+G+L Q+E+AL A+  G  ++G++++   V+   K+    L   S
Sbjct: 1   MFRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SS 58
Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
              KI     ++G+  +G+ PD RVL    R+Q      ++   + V +         Q+
Sbjct: 59  YQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQK 118
Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
            TQS G RP+GV LL+ GYD  G  L +  PSG+      +A+G     AKT+LE+
Sbjct: 119 NTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 174

>pdb|4G4S|F Chain F, Structure Of Proteasome-Pba1-Pba2 Complex Length = 235

Iteration: 1
 Score = 98.6 bits (244), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 57/176 (32%), Positives = 90/176 (51%), Gaps = 2/176 (1%)
Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M  + Y     TFSP+G+L Q+E+AL A+  G  ++G++++   V+   K+    L   S
Sbjct: 2   MFRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SS 59
Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
              KI     ++G+  +G+ PD RVL    R+Q      ++   + V +         Q+
Sbjct: 60  YQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQK 119
Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK 176
            TQS G RP+GV LL+ GYD  G  L +  PSG+      +A+G     AKT+LE+
Sbjct: 120 NTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 175

>pdb|1RYP|F Chain F, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 233

Iteration: 1
 Score = 98.2 bits (243), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 57/182 (31%), Positives = 93/182 (51%), Gaps = 2/182 (1%)
Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y     TFSP+G+L Q+E+AL A+  G  ++G++++   V+   K+    L   S   
Sbjct: 3   NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQK 60
Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI     ++G+  +G+ PD RVL    R+Q      ++   + V +         Q+ TQ
Sbjct: 61  KIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQ 120
Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEME 183
           S G RP+GV LL+ GYD  G  L +  PSG+      +A+G     AKT+LE+     ++
Sbjct: 121 SYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIK 180
Query: 184 LD 185
           +D
Sbjct: 181 ID 182

>pdb|3UNF|H Chain H, Mouse 20s Immunoproteasome In Complex With Pr-957 Length = 234

Iteration: 1
 Score = 63.5 bits (153), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 76/159 (47%), Gaps = 14/159 (8%)
Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T  G+   +GV++  + +  +  +V + S  KI  + P I    +G+  D  +  R +  
Sbjct: 2   TIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAAS 61
Query: 93  QAEQYHRLY--KEP--IPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQ 148
           + E  H L   +EP    VT+++R+T      F   G V   G SL+V G D  GPQLY+
Sbjct: 62  KME-LHALSTGREPRVATVTRILRQTL-----FRYQGHV---GASLVVGGVDLNGPQLYE 112
Query: 149 VDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDA 187
           V P GSY     +A+G     A   LE R+   M L+ A
Sbjct: 113 VHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAA 151

>pdb|1J2Q|H Chain H, 20s Proteasome In Complex With Calpain-inhibitor I From Archaeoglobus Fulgidus Length = 202

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 74/161 (45%), Gaps = 6/161 (3%)
Query: 34  TSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T++G+   +GVV+ATEK+      +   +  KI  +   + +  +G   D + L R  + 
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61
Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           +A  Y  + +E  P    VR  A +      S    P+ V LL+ G D +G  +Y +DP 
Sbjct: 62  EANLYE-IRRERKPT---VRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPI 117
Query: 153 GSYFSWK-ASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAI 192
           G     K   A G     A   LE R+  E+ +D+AV  A+
Sbjct: 118 GGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAV 158

>pdb|1YA7|H Chain H, Implications For Interactions Of Proteasome With Pan And Pa700 From The 1.9 A Structure Of A Proteasome-11s Activator Complex Length = 217

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/163 (23%), Positives = 74/163 (45%), Gaps = 6/163 (3%)
Query: 31  SGQTSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRK 89
           +G T++GI   + V++ATE+++     +   +  K+  +    G+  +G+  D +VLVR 
Sbjct: 7   TGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRY 66
Query: 90  SRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQV 149
            + + E Y    +  +P    +   A ++          P+ V LLV G  D  P ++ +
Sbjct: 67  MKAELELYRLQRRVNMP----IEAVATLLSNMLNQVKYMPYMVQLLVGGI-DTAPHVFSI 121
Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAI 192
           D +G       ++ G         LE +Y E+M +D+ V   I
Sbjct: 122 DAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVI 164

>pdb|1PMA|B Chain B, Proteasome From Thermoplasma Acidophilum Length = 211

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/163 (23%), Positives = 74/163 (45%), Gaps = 6/163 (3%)
Query: 31  SGQTSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRK 89
           +G T++GI   + V++ATE+++     +   +  K+  +    G+  +G+  D +VLVR 
Sbjct: 7   TGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRY 66
Query: 90  SRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQV 149
            + + E Y    +  +P    +   A ++          P+ V LLV G  D  P ++ +
Sbjct: 67  MKAELELYRLQRRVNMP----IEAVATLLSNMLNQVKYMPYMVQLLVGGI-DTAPHVFSI 121
Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAI 192
           D +G       ++ G         LE +Y E+M +D+ V   I
Sbjct: 122 DAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVI 164

>pdb|3UNF|K Chain K, Mouse 20s Immunoproteasome In Complex With Pr-957 Length = 204

Iteration: 1
 Score = 50.4 bits (119), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 36/157 (22%), Positives = 75/157 (47%), Gaps = 9/157 (5%)
Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T+L  K  +GV++A + +  +   +    ++K+  + P +    SG   D +   R   K
Sbjct: 2   TTLAFKFQHGVIVAVDSRATAGSYISSLRMNKVIEINPYLLGTMSGCAADCQYWERLLAK 61
Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSL--LVAGYDDKGPQLYQVD 150
           +   Y+    E I V+   +  + +M ++      R  G+S+  ++ G+D KGP LY VD
Sbjct: 62  ECRLYYLRNGERISVSAASKLLSNMMLQY------RGMGLSMGSMICGWDKKGPGLYYVD 115
Query: 151 PSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDA 187
            +G+  S +  + G   + A   ++  Y +++  ++A
Sbjct: 116 DNGTRLSGQMFSTGSGNTYAYGVMDSGYRQDLSPEEA 152

>pdb|3C91|H Chain H, Thermoplasma Acidophilum 20s Proteasome With An Open Gate Length = 203

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 38/160 (23%), Positives = 72/160 (45%), Gaps = 6/160 (3%)
Query: 34  TSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T++GI   + V++ATE+++     +   +  K+  +    G+  +G+  D +VLVR  + 
Sbjct: 2   TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61
Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           + E Y    +  +P    +   A ++          P+ V LLV G  D  P ++ +D +
Sbjct: 62  ELELYRLQRRVNMP----IEAVATLLSNMLNQVKYMPYMVQLLVGGI-DTAPHVFSIDAA 116
Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAI 192
           G       ++ G         LE +Y E+M +D+ V   I
Sbjct: 117 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVI 156

>pdb|3UNB|K Chain K, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 205

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/159 (22%), Positives = 72/159 (45%), Gaps = 5/159 (3%)
Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T+L  K  +GV++A + +  +   +   +V K+  + P +    +G   D     R   +
Sbjct: 2   TTLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61
Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           Q   Y    KE I V    +  A ++ ++   G      +  ++ G+D +GP LY VD  
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQYKGMG----LSMGTMICGWDKRGPGLYYVDSE 117
Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA 191
           G+  S  A ++G     A   +++ Y  ++++++A   A
Sbjct: 118 GNRISGTAFSVGSGSVYAYGVMDRGYSYDLKVEEAYDLA 156

>pdb|1IRU|L Chain L, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 204

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/159 (22%), Positives = 70/159 (44%), Gaps = 5/159 (3%)
Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T+L  K  +GV++A + +  +   +   +V K+  + P +    +G   D     R   +
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61
Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           Q   Y    KE I V    +  A ++ ++   G      +  ++ G+D +GP LY VD  
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQYKGMG----LSMGTMICGWDKRGPGLYYVDSE 117
Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA 191
           G+  S    ++G     A   +++ Y  ++E++ A   A
Sbjct: 118 GNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLA 156

>pdb|3NZJ|H Chain H, Crystal Structure Of Yeast 20s Proteasome In Complex With Ligand 2a Length = 261

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 43/177 (24%), Positives = 79/177 (44%), Gaps = 14/177 (7%)
Query: 28  AVGSGQTSLGIKASNGVVIATE-KKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVL 86
           A  +G T +G+K +NGVVIA + +     +V + +  K+  ++P I    +G   D   +
Sbjct: 25  ATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAV 84
Query: 87  VRKSRKQAEQYHRLY--KEP--IPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK 142
            +      E  H LY  +EP  +   Q++++       F   G +   G  L+VAG D  
Sbjct: 85  TQLIGSNIE-LHSLYTSREPRVVSALQMLKQ-----HLFKYQGHI---GAYLIVAGVDPT 135
Query: 143 GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGF 199
           G  L+ +   GS       ++G     A   LE  + +++  ++A+  A   ++ G 
Sbjct: 136 GSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGI 192

>pdb|1RYP|I Chain I, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 222

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 41/171 (23%), Positives = 76/171 (44%), Gaps = 14/171 (8%)
Query: 34  TSLGIKASNGVVIATE-KKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T +G+K +NGVVIA + +     +V + +  K+  ++P I    +G   D   + +    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61
Query: 93  QAEQYHRLY--KEP--IPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQ 148
             E  H LY  +EP  +   Q++++       F   G +   G  L+VAG D  G  L+ 
Sbjct: 62  NIE-LHSLYTSREPRVVSALQMLKQ-----HLFKYQGHI---GAYLIVAGVDPTGSHLFS 112
Query: 149 VDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGF 199
           +   GS       ++G     A   LE  + +++  ++A+  A   ++ G 
Sbjct: 113 IHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGI 163

>pdb|1FNT|I Chain I, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 232

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 41/171 (23%), Positives = 76/171 (44%), Gaps = 14/171 (8%)
Query: 34  TSLGIKASNGVVIATE-KKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T +G+K +NGVVIA + +     +V + +  K+  ++P I    +G   D   + +    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61
Query: 93  QAEQYHRLY--KEP--IPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQ 148
             E  H LY  +EP  +   Q++++       F   G +   G  L+VAG D  G  L+ 
Sbjct: 62  NIE-LHSLYTSREPRVVSALQMLKQ-----HLFKYQGHI---GAYLIVAGVDPTGSHLFS 112
Query: 149 VDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGF 199
           +   GS       ++G     A   LE  + +++  ++A+  A   ++ G 
Sbjct: 113 IHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGI 163

>pdb|1G0U|L Chain L, A Gated Channel Into The Proteasome Core Particle Length = 241

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 40/170 (23%), Positives = 69/170 (40%), Gaps = 6/170 (3%)
Query: 11  TTFSPSGKLVQIEHALTAVG-SGQTSLGIKASNGVVIATE-KKLPSILVDESSVHKIQSL 68
           + +S       IEH     G +G T LGI   +  V+A + + +    ++     K+   
Sbjct: 6   SEYSSEASNTPIEHQFNPYGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDC 65
Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVR 128
             NI +  +G   D   LV++ +   + YH  + +       +   A  +Q         
Sbjct: 66  GDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDK---KLSINSAARNIQHLLYGKRFF 122
Query: 129 PFGVSLLVAGYDDKGP-QLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKR 177
           P+ V  ++AG D+ G   +Y  DP GSY   +  A G   S    FL+ +
Sbjct: 123 PYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQ 172

>pdb|1RYP|K Chain K, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 198

Iteration: 1
 Score = 43.5 bits (101), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 78/169 (46%), Gaps = 13/169 (7%)
Query: 36  LGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQA 94
           LGI+  + V++A+ K +   I V + S  K + L+P+  + ++G   D        +   
Sbjct: 5   LGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANI 64
Query: 95  EQY--HRLYK-EPIPVTQLVRETAAVMQEFTQS-GGVRPFGVSLLVAGYDDK--GPQLYQ 148
           + Y     Y+  P  V+  VR      QE  +S    RP+ V++L+ GYD K   P+LYQ
Sbjct: 65  QLYSIREDYELSPQAVSSFVR------QELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQ 118
Query: 149 VDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKE 197
           +D  G+       A G +     + L+  Y  +M  ++ +    L ++E
Sbjct: 119 IDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQE 167

>pdb|3UNB|H Chain H, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 234

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 38/155 (24%), Positives = 66/155 (42%), Gaps = 6/155 (3%)
Query: 34  TSLGIKASNGVVI-ATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T  G+   +G+V+ A  +    ++V + +  KI  ++PNI    +G   D  +  +    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61
Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
             E  H L    +P  ++V     + Q   +  G    G +L++ G D  GP LY + P 
Sbjct: 62  NLE-LHSLTTGRLP--RVVTANRMLKQMLFRYQGY--IGAALVLGGVDVTGPHLYSIYPH 116
Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDA 187
           GS        MG     A    E ++  +ME ++A
Sbjct: 117 GSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEA 151

>pdb|1IRU|I Chain I, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 234

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 38/155 (24%), Positives = 66/155 (42%), Gaps = 6/155 (3%)
Query: 34  TSLGIKASNGVVI-ATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T  G+   +G+V+ A  +    ++V + +  KI  ++PNI    +G   D  +  +    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61
Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
             E  H L    +P  ++V     + Q   +  G    G +L++ G D  GP LY + P 
Sbjct: 62  NLE-LHSLSTGRLP--RVVTANRMLKQMLFRYRGY--IGAALVLGGVDVTGPHLYSIYPH 116
Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDA 187
           GS        MG     A    E ++  +ME ++A
Sbjct: 117 GSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEA 151

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	235
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-119
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-118
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	1e-115
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	1e-113
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-113
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	1e-111
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-111
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	1e-111
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	1e-111
1iru_F	263	20S proteasome; cell cycle, immune response, prote	1e-110
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	1e-110
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-110
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	1e-109
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	1e-107
1iru_C	261	20S proteasome; cell cycle, immune response, prote	1e-106
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-105
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	1e-103
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	1e-101
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	2e-59
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-56
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	1e-48
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	1e-47
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	4e-42
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	2e-38
1iru_I	234	20S proteasome; cell cycle, immune response, prote	3e-35
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	2e-28
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	1e-27
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	2e-27
1iru_L	204	20S proteasome; cell cycle, immune response, prote	5e-27
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	6e-27
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	7e-27
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	3e-25
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	4e-24
1iru_K	201	20S proteasome; cell cycle, immune response, prote	6e-24
1iru_K	201	20S proteasome; cell cycle, immune response, prote	1e-22
1iru_N	219	20S proteasome; cell cycle, immune response, prote	9e-22
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	1e-21
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	3e-20
1iru_H	205	20S proteasome; cell cycle, immune response, prote	5e-20
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	1e-19
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-19
1iru_M	213	20S proteasome; cell cycle, immune response, prote	4e-18
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	5e-18
1iru_J	205	20S proteasome; cell cycle, immune response, prote	2e-17
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	1e-16
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D Length = 241

 Score =  339 bits (871), Expect = e-119
 Identities = 75/239 (31%), Positives = 139/239 (58%), Gaps = 5/239 (2%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           +  S+Y   + TFSP G+L Q+E+ + A+  G T++GI+ S GV +A EK++ S L++ S
Sbjct: 3   LTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPS 62

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           S+ KI  +  +IG   SG+  D + L+ K+R + + +   Y E + V  + +  + +  +
Sbjct: 63  SIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQ 122

Query: 121 FTQSGG-----VRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLE 175
           F +         RPFGV+LL  G D+KGPQL+ +DPSG++    A A+G     A++ L+
Sbjct: 123 FGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQ 182

Query: 176 KRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
           + Y + M L +A+ ++++ LK+  E +++  NIE+  +   + F + T  E+ + + ++
Sbjct: 183 ELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 241

>1iru_B 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_A* 3une_A 3unf_A* 3unh_A Length = 233

 Score =  335 bits (861), Expect = e-118
 Identities = 155/233 (66%), Positives = 193/233 (82%), Gaps = 1/233 (0%)

Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESS 61
            +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE S
Sbjct: 1   AERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERS 60

Query: 62  VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEF 121
           VHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE+
Sbjct: 61  VHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEY 120

Query: 122 TQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E+
Sbjct: 121 TQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNED 180

Query: 182 MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
           +EL+DA+HTAILTLKE FEGQ++E NIE+GI  E   FR LTP E++DYLA +
Sbjct: 181 LELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAI 232

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A Length = 233

 Score =  328 bits (843), Expect = e-115
 Identities = 89/230 (38%), Positives = 136/230 (59%)

Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESS 61
           G   YS ++T FSP G+L Q+E+A  AV  G T+LG+K +NGV++ ++KK+ S L++++S
Sbjct: 4   GQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNS 63

Query: 62  VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEF 121
           + KIQ +   +  V SG+  D RVLV  +R  A+Q    Y   + +  LV+  A  MQ++
Sbjct: 64  IEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY 123

Query: 122 TQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           TQ GGVRP+GVSL+ AG D  GP+L+  DP+G+   +KA+A+G       +FLE+ Y E 
Sbjct: 124 TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 183

Query: 182 MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYL 231
           +   +AV   I  LK   E     K  EI  I    ++R+    E++ +L
Sbjct: 184 LPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B 1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A* 2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A* 3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ... Length = 250

 Score =  323 bits (830), Expect = e-113
 Identities = 144/248 (58%), Positives = 172/248 (69%), Gaps = 17/248 (6%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
            +YSFSLTTFSPSGKL QI++ALTAV  G TSLGIKA+NGVVIATEKK  S L    ++ 
Sbjct: 3   DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLS 62

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRL-YKEPIPVTQLVRETAAVMQEFT 122
           K+  LTP+IG VYSGMGPD+RVLV KSRK A   ++  Y E  P   LV E A +MQE T
Sbjct: 63  KVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEAT 122

Query: 123 QSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           QSGGVRPFGVSLL+AG+D+  G  LYQVDPSGSYF WKA+A+GK    AKTFLEKR+ +E
Sbjct: 123 QSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDE 182

Query: 182 MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGE---------------KKEFRVLTPNE 226
           +EL+DA+H A+LTLKE  EG+ +   IE+ IIG+                  FR LT  E
Sbjct: 183 LELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQE 242

Query: 227 IRDYLAEV 234
           I D L  +
Sbjct: 243 INDRLEAL 250

>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii} Length = 264

 Score =  323 bits (829), Expect = e-113
 Identities = 85/236 (36%), Positives = 138/236 (58%), Gaps = 2/236 (0%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           +  S Y  ++T FSP G+L Q+E+A  AV  G T++GI   +GVV+A ++++ S LV   
Sbjct: 7   VPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIR 66

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           S+ KI  +  ++    SG+  D RVL+ ++R +A+ Y   Y E I +  L ++   + Q 
Sbjct: 67  SIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQA 126

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQ GGVRPFGVSLL+AG D    +L++ DPSG+   +KA+A+G         LEK Y +
Sbjct: 127 YTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRD 186

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKE-FRVLTPNEIRDYLAEVE 235
           ++ LD+ +  AI  L +  E  I  +N+++ II  K   F+ +   EI+  + +V+
Sbjct: 187 DITLDEGLELAITALTKANE-DIKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVK 241

>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A {Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A* Length = 246

 Score =  319 bits (820), Expect = e-111
 Identities = 81/236 (34%), Positives = 141/236 (59%), Gaps = 2/236 (0%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           +    Y  ++T FSP G+L Q+E+A  AV  G T++GIK   GV++  +K++ S L+++ 
Sbjct: 3   LPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKD 62

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           ++ KI  +  +I    SG+  D RVL+ ++R +A+     Y  PI V +L ++     Q+
Sbjct: 63  TIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQ 122

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQ GGVRPFGVSLL+AG ++  P+LY+ DPSG+   +KA+A+G        F EK Y +
Sbjct: 123 YTQYGGVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRD 181

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIG-EKKEFRVLTPNEIRDYLAEVE 235
           ++  DDA+   ++ +    E ++  +NIE+G +  + + F+ ++P E++ Y+    
Sbjct: 182 DLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERAN 237

>1iru_A 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_G* 3une_G 3unf_G* 3unh_G Length = 246

 Score =  319 bits (819), Expect = e-111
 Identities = 81/237 (34%), Positives = 133/237 (56%), Gaps = 5/237 (2%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVG-SGQTSLGIKASNGVVIATEKKLPSILVDESSV 62
           + +   +T FSP G+L Q+E+A  A+   G TS+ ++  +  VI T+KK+P  L+D S+V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query: 63  HKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFT 122
             +  +T NIG V +GM  D R  V+++R +A  +   Y   IPV  L +  A + Q +T
Sbjct: 67  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query: 123 QSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE- 180
           Q+  +RP G  +++ G D ++GPQ+Y+ DP+G Y  +KA+A G   + + +FLEK+  + 
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query: 181 -EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIG-EKKEFRVLTPNEIRDYLAEVE 235
            +   +  V TAI  L            IE+G++  E  +FR+LT  EI  +L  + 
Sbjct: 187 FDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVALA 243

>1ryp_C 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_B* 1g65_B 2f16_B* 2fak_B* 2fny_B* 2gpl_B* 3d29_B* 3dy3_B* 3dy4_B* 3e47_B* 3gpj_B* 3gpt_B* 3gpw_B* 3hye_B* 3mg0_B* 3mg4_B* 3okj_B* 3shj_B* 3tdd_B* 3nzj_B* ... Length = 244

 Score =  317 bits (815), Expect = e-111
 Identities = 91/242 (37%), Positives = 145/242 (59%), Gaps = 8/242 (3%)

Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVD-ES 60
           G  +Y    T FSP G+L Q+E+AL ++    T++GI AS+G+V+A E+K+ S L++ ++
Sbjct: 1   GSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDT 60

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           S  K+  L   I V  +G+  D  +L+  +R  A+ Y + Y E IPV  LVR  + + Q 
Sbjct: 61  STEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQG 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV 179
           +TQ GG+RPFGVS + AGYDD+ G QLY  +PSG+Y  WKA ++G N S A+T L+  Y 
Sbjct: 121 YTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK 180

Query: 180 EEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGE-----KKEFRVLTPNEIRDYLAE 233
           ++M++DDA+  A+ TL +  +   ++   +E   I +     +   ++  P EI+D L +
Sbjct: 181 DDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVK 240

Query: 234 VE 235
             
Sbjct: 241 TG 242

>1ryp_A 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_G* 1g65_G 1vsy_A 2f16_G* 2fak_G* 2fny_G* 2gpl_G* 3d29_G* 3dy3_G* 3dy4_G* 3e47_G* 3gpj_G* 3gpt_G* 3gpw_G* 3hye_G* 3l5q_A 3mg0_G* 3mg4_G* 3oeu_G* 3oev_G* ... Length = 243

 Score =  316 bits (813), Expect = e-111
 Identities = 68/241 (28%), Positives = 120/241 (49%), Gaps = 10/241 (4%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVG-SGQTSLGIKASNGVVIATEKKLPSILVDESSV 62
           + Y   +T FSP G+L Q+E+A  A   +   SL ++  +  V+ ++KK+P  L+D ++V
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 63  HKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFT 122
             I  ++  IG+V +G  PD R    +++ +A ++   Y   +P   L +  A + Q +T
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120

Query: 123 QSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY--- 178
           Q   +RP GV L     D + GP +Y+ DP+G Y  +KA+A G       T LE  +   
Sbjct: 121 QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKS 180

Query: 179 ----VEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
               + E   +  V  AI  + +    + S+ ++E+G+   K +F  L+   I + L  +
Sbjct: 181 KIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVAT-KDKFFTLSAENIEERLVAI 239

Query: 235 E 235
            
Sbjct: 240 A 240

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E Length = 263

 Score =  316 bits (812), Expect = e-110
 Identities = 79/239 (33%), Positives = 134/239 (56%), Gaps = 6/239 (2%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M  +QY   +T +SP G++ QIE+A+ AV  G  ++G+K+    V+   K+  S L    
Sbjct: 1   MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA-- 58

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
              KI  +  +IG+  +G+  D R+L    R++      ++  P+PV++LV    +  Q 
Sbjct: 59  HQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQI 118

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
            TQ  G RP+GV LL+AGYDD GP ++Q  PS +YF  +A ++G    +A+T+LE+   E
Sbjct: 119 PTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSE 178

Query: 181 EME--LDDAVHTAILTLKEGFEGQ--ISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
            ME  L++ V   +  L+E    +  ++ KN+ IGI+G+  EF +   +++  +L  +E
Sbjct: 179 FMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLE 237

>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E* 1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E* 3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E* 3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ... Length = 233

 Score =  314 bits (807), Expect = e-110
 Identities = 62/233 (26%), Positives = 111/233 (47%), Gaps = 7/233 (3%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y     TFSP+G+L Q+E+AL A+  G  ++G++++   V+   K+    L       
Sbjct: 3   NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS--YQK 60

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI     ++G+  +G+ PD RVL    R+Q      ++   + V +         Q+ TQ
Sbjct: 61  KIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQ 120

Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEME 183
           S G RP+GV LL+ GYD  G  L +  PSG+      +A+G     AKT+LE+     ++
Sbjct: 121 SYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIK 180

Query: 184 ----LDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEKKEFRVLTPNEIRDYL 231
                D+ +   +  + +    + ++  N+ I I+G+   F +     +  Y+
Sbjct: 181 IDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>1iru_D 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unf_C* 3une_C* 3unh_C 3unb_C* Length = 248

 Score =  314 bits (808), Expect = e-110
 Identities = 88/238 (36%), Positives = 142/238 (59%), Gaps = 8/238 (3%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           M    Y  ++T FSP G L Q+E+A  AV  G T++G++  + VV+  EKK  + L DE 
Sbjct: 1   MS---YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDER 57

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           +V KI +L  N+ + ++G+  D R+++ ++R + + +    ++P+ V  + R  A++ Q 
Sbjct: 58  TVRKICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQR 117

Query: 121 FTQSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV 179
           +TQS G RPFG+S L+ G+D D  P+LYQ DPSG+Y +WKA+A+G+   + + FLEK Y 
Sbjct: 118 YTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYT 177

Query: 180 EEM--ELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +E     D  +   I  L E    Q   KNIE+ ++   +  ++L P EI  Y+AE+E
Sbjct: 178 DEAIETDDLTIKLVIKALLE--VVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIE 233

>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D* 1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D* 3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 3mg0_D* 3mg4_D* 3okj_D* 3shj_D* 3tdd_D* 2z5c_C ... Length = 242

 Score =  314 bits (806), Expect = e-109
 Identities = 70/234 (29%), Positives = 124/234 (52%), Gaps = 7/234 (2%)

Query: 9   SLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL 68
            ++TFSP G+L Q+E++L A+  G T++GI    GVV+  EK+  S L++  S+ KI  +
Sbjct: 3   GVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEI 62

Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG--- 125
             +IG   SG+  D R ++  +R  A  ++  Y E I V  L +    +   F +     
Sbjct: 63  DRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGE 122

Query: 126 ---GVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
                RPFGV+LL+AG+D D G QL+  +PSG+++ + A A+G     A+  L   +   
Sbjct: 123 ERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS 182

Query: 182 MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           + L +A    +  LK+  E ++ E N ++  I ++  F++    +  + + E++
Sbjct: 183 LTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELK 236

>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C* 1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C* 3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C* 3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ... Length = 241

 Score =  308 bits (792), Expect = e-107
 Identities = 85/236 (36%), Positives = 134/236 (56%), Gaps = 8/236 (3%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES-SVHK 64
           Y  +L+ FSP G + Q+E+AL AV  G  ++G+K  N VV+  E++    L D   +  K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61

Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           +  +  ++ + +SG+  D R+L+ K+R +A+ +    ++P+ V  L R  A V Q +TQS
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 121

Query: 125 GGVRPFGVSLLVAGYD--DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE-- 180
           GGVRPFGVS L+AG+D  D  P+LYQ +PSG Y SW A  +G+N    + FLEK Y    
Sbjct: 122 GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKE 181

Query: 181 -EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
               +++ V   + +L E  +     KNIEI ++    +   L+  EI  Y+ ++E
Sbjct: 182 PPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQIE 235

>1iru_C 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_B* 3une_B 3unf_B* 3unh_B Length = 261

 Score =  305 bits (784), Expect = e-106
 Identities = 92/239 (38%), Positives = 134/239 (56%), Gaps = 7/239 (2%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSV- 62
            +Y    T FSP G+L Q+E+A+ A+G   T LGI A++GV++A E++    L+DE    
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62

Query: 63  HKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFT 122
            KI  L  ++    +G+  D  VL  + R  A++Y   Y+EPIP  QLV     + Q +T
Sbjct: 63  EKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYT 122

Query: 123 QSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE- 180
           Q GG RPFGVSLL  G+D   G QLYQ DPSG+Y  WKA+ +G N + A + L++ Y E 
Sbjct: 123 QFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEG 182

Query: 181 EMELDDAVHTAILTLKEGFE-GQISEKNIEIGIIGE---KKEFRVLTPNEIRDYLAEVE 235
           EM L  A+  AI  L +  +  ++S + +EI  +     K   RVL   E+   + + E
Sbjct: 183 EMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHE 241

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F Length = 254

 Score =  303 bits (778), Expect = e-105
 Identities = 69/234 (29%), Positives = 119/234 (50%), Gaps = 3/234 (1%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y  S +TFSP G++ Q+E+A+ AV +  T++GI+  +GVV   EK + S L +E S  
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           ++ ++  ++G+  +G+  D R L   +R++A  +   +   IP+  L    A  +  +T 
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTL 124

Query: 124 SGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM 182
              VRPFG S ++  Y  + G QLY +DPSG  + +   A+GK    AKT +EK  ++EM
Sbjct: 125 YSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEM 184

Query: 183 ELDDAVHTAILTLKE-GFEGQISEKNIEIGIIG-EKKEFRVLTPNEIRDYLAEV 234
              D V      +     E +     +E+  +G        + P +IR+   + 
Sbjct: 185 TCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKY 238

>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F* 1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F* 3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F* 3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ... Length = 244

 Score =  298 bits (764), Expect = e-103
 Identities = 82/239 (34%), Positives = 125/239 (52%), Gaps = 7/239 (2%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y  S + FSP G+  Q+E+A+ AV +G TS+GIK ++GVV A EK + S L+      
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KIQ +  +IG VYSG+ PD R LV + R++A  + +LYK PIP+          +Q  T 
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 121

Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK---RYVE 180
              VRPFGVS +  G D  G  LY ++PSGSY+ +K +A GK   +AK  LEK    + E
Sbjct: 122 YNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE 181

Query: 181 EMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIG---EKKEFRVLTPNEIRDYLAEVE 235
            +   +AV  A   +    E     +  +EI            + +  + +++ +   +
Sbjct: 182 GLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFAQ 240

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 3bdm_F* 1fnt_G* 2zcy_F* Length = 288

 Score =  295 bits (758), Expect = e-101
 Identities = 81/239 (33%), Positives = 126/239 (52%), Gaps = 7/239 (2%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y  S + FSP G+  Q+E+A+ AV +G TS+GIK ++GVV A EK + S L+      
Sbjct: 6   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 65

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KIQ +  +IG VYSG+ PD R LV + R++A  + +LYK PIP+          +Q  T 
Sbjct: 66  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 125

Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK---RYVE 180
              VRPFGVS +  G D  G  LY ++PSGSY+ +K +A GK   +AK  LEK    + E
Sbjct: 126 YNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE 185

Query: 181 EMELDDAVHTAILTLKEGF-EGQISEKNIEIGIIG---EKKEFRVLTPNEIRDYLAEVE 235
            +   +AV  A   +     + +  +  +EI            + +  + +++ +   +
Sbjct: 186 GLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFAQ 244

>3mi0_A Proteasome subunit alpha; enzyme inhibitors, lactones, proteasome endopeptidase comple mycobacterium tuberculosis, hydrolase; HET: SA6; 2.20A {Mycobacterium tuberculosis} PDB: 3h6f_A 3krd_A* 3h6i_A* 3mka_A 2fhh_A* 2fhg_A 3hfa_D 3hf9_A 3mfe_D Length = 248

 Score =  187 bits (475), Expect = 2e-59
 Identities = 47/238 (19%), Positives = 89/238 (37%), Gaps = 23/238 (9%)

Query: 14  SPSGKLVQ-IEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNI 72
           SP   + +  E A   +   ++ + +  + GV+   E           S+ KI  L   +
Sbjct: 8   SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENP-------SRSLQKISELYDRV 60

Query: 73  GVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGV 132
           G   +G   +F  L R   + A+     Y       + +    A       +   +P+ V
Sbjct: 61  GFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEV 120

Query: 133 SLLVAGY----DDKGPQLYQVDPSGSYF-SWKASAMGKNVSNAKTFLEKRYVEEMELDDA 187
            L VA      + K P+LY++   GS         MG         L++ Y E   L DA
Sbjct: 121 ELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDA 180

Query: 188 VHTAILTLKEGFEGQ-------ISEKNIEIGII---GEKKEFRVLTPNEIRDYLAEVE 235
           +  A+  L+ G           +   ++E+ ++     ++ FR +T + ++  L + E
Sbjct: 181 LRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLVDQE 238

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A Length = 259

 Score =  179 bits (456), Expect = 2e-56
 Identities = 43/230 (18%), Positives = 91/230 (39%), Gaps = 24/230 (10%)

Query: 21  QIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG 80
           + E A   +  G++ + +   +GV+   E          +++HK+  L   +G    G  
Sbjct: 16  RSELARKGIARGRSVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGKY 68

Query: 81  PDFRVLVRKSRKQAE-QYHRLYKEPIPVTQLVRETAAVM-QEFTQSGGVRPFGVSLLVAG 138
            +F  L R     A+ + +   +  +    L    A  +   FT+    +P+ V + VA 
Sbjct: 69  NEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--QPKPYEVEICVAE 126

Query: 139 ----YDDKGPQLYQVDPSGSYFSWK-ASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAIL 193
                  K PQLY++   GS    +    MG       T + + Y  +++L+ AV  A+ 
Sbjct: 127 VGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVN 186

Query: 194 TLKE-----GFEGQISEKNIEIGII---GEKKEFRVLTPNEIRDYLAEVE 235
            L++     G +  +   ++E+ ++     ++ FR +    +   +    
Sbjct: 187 ALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAEP 236

>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_H* 3nzx_H* Length = 261

 Score =  159 bits (404), Expect = 1e-48
 Identities = 44/231 (19%), Positives = 91/231 (39%), Gaps = 8/231 (3%)

Query: 8   FSLTTFSPSGKLVQIEHALT-AVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKI 65
            S   +  +  L +  H    A  +G T +G+K +NGVVIA + +     +V + +  K+
Sbjct: 4   LSFDNYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKL 63

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
             ++P I    +G   D   + +      E +         V   ++     + ++    
Sbjct: 64  HRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG-- 121

Query: 126 GVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD 185
                G  L+VAG D  G  L+ +   GS       ++G     A   LE  + +++  +
Sbjct: 122 ---HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKE 178

Query: 186 DAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +A+  A   ++ G    + S  N+++ ++   K+   L      +   E +
Sbjct: 179 EAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREEKQ 229

>3unf_H Proteasome subunit beta type-10; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_H Length = 234

 Score =  156 bits (396), Expect = 1e-47
 Identities = 50/198 (25%), Positives = 82/198 (41%), Gaps = 10/198 (5%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T  G+   +GV++  + +  +  +V + S  KI  + P I    +G+  D  +  R +  
Sbjct: 2   TIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAAS 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           + E +         V  + R     +  +         G SL+V G D  GPQLY+V P 
Sbjct: 62  KMELHALSTGREPRVATVTRILRQTLFRYQG-----HVGASLVVGGVDLNGPQLYEVHPH 116

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEG-FEGQISEKNIEIG 211
           GSY     +A+G     A   LE R+   M L+ A    +  +  G      S  N++  
Sbjct: 117 GSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDAC 176

Query: 212 II---GEKKEFRVLTPNE 226
           +I   G K +  + TP E
Sbjct: 177 VITAGGAKLQRALSTPTE 194

>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H* 1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H* 2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H* 3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ... Length = 222

 Score =  141 bits (358), Expect = 4e-42
 Identities = 39/204 (19%), Positives = 82/204 (40%), Gaps = 7/204 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T +G+K +NGVVIA + +     +V + +  K+  ++P I    +G   D   + +    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
             E +         V   ++     + ++         G  L+VAG D  G  L+ +   
Sbjct: 62  NIELHSLYTSREPRVVSALQMLKQHLFKYQG-----HIGAYLIVAGVDPTGSHLFSIHAH 116

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIG 211
           GS       ++G     A   LE  + +++  ++A+  A   ++ G    + S  N+++ 
Sbjct: 117 GSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVC 176

Query: 212 IIGEKKEFRVLTPNEIRDYLAEVE 235
           ++   K+   L      +   E +
Sbjct: 177 VMEIGKDAEYLRNYLTPNVREEKQ 200

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H Length = 217

 Score =  131 bits (333), Expect = 2e-38
 Identities = 44/210 (20%), Positives = 93/210 (44%), Gaps = 7/210 (3%)

Query: 28  AVGSGQTSLGIKASNGVVIATEKKL-PSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVL 86
            + +G T++GI   + V++ATE+++     +   +  K+  +    G+  +G+  D +VL
Sbjct: 4   TLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVL 63

Query: 87  VRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQL 146
           VR  + + E Y    +  +P+  +    + ++ +        P+ V LLV G D   P +
Sbjct: 64  VRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKY----MPYMVQLLVGGID-TAPHV 118

Query: 147 YQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEG-FEGQISE 205
           + +D +G       ++ G         LE +Y E+M +D+ V   I  +         S 
Sbjct: 119 FSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASG 178

Query: 206 KNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
             I++ +I  K  +  L  ++I   + ++ 
Sbjct: 179 GMIDVAVITRKDGYVQLPTDQIESRIRKLG 208

>1iru_I 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_H* 3une_H Length = 234

 Score =  124 bits (313), Expect = 3e-35
 Identities = 39/186 (20%), Positives = 74/186 (39%), Gaps = 7/186 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T  G+   +G+V+  + +    ++V + +  KI  ++PNI    +G   D  +  +    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
             E +         V    R    ++  +         G +L++ G D  GP LY + P 
Sbjct: 62  NLELHSLSTGRLPRVVTANRMLKQMLFRYRG-----YIGAALVLGGVDVTGPHLYSIYPH 116

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIG 211
           GS        MG     A    E ++  +ME ++A +     +  G    + S  NI++ 
Sbjct: 117 GSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLC 176

Query: 212 IIGEKK 217
           +I + K
Sbjct: 177 VISKNK 182

>1q5r_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, hydrolase; 3.10A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_H Length = 294

 Score =  107 bits (269), Expect = 2e-28
 Identities = 38/245 (15%), Positives = 84/245 (34%), Gaps = 17/245 (6%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHK 64
               +   S S +      +      G T + +    GV++A +++     L+    V  
Sbjct: 39  PENRIGHRSHSTRGGDGMESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEA 98

Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           +           +G       LVR    + E Y ++   P+         A++++     
Sbjct: 99  VYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGN-LG 157

Query: 125 GGVRPFGVSLLVAGYD------DKGPQLYQVDPSGSYFSWKAS--AMGKNVSNAKTFLEK 176
             ++   V  L+ GYD       +  ++   D  G  +  +A   A+G     AK+ L+K
Sbjct: 158 AAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKK 217

Query: 177 RYVEEMELDDAVHTAILTLKEGFE------GQISEKNIEIGIIGEKKE-FRVLTPNEIRD 229
            Y  + + + A+  AI +L +  +      G    + I    +   +     ++     +
Sbjct: 218 IYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSE 277

Query: 230 YLAEV 234
               +
Sbjct: 278 LARRI 282

>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K 1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J* 2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J* 3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ... Length = 198

 Score =  103 bits (259), Expect = 1e-27
 Identities = 40/199 (20%), Positives = 85/199 (42%), Gaps = 7/199 (3%)

Query: 34  TSLGIKASNGVVIATEKKL-PSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
             LGI+  + V++A+ K +   I V + S  K + L+P+  + ++G   D        + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK--GPQLYQVD 150
             + Y       +    +       + +  +S    P+ V++L+ GYD K   P+LYQ+D
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQELAKSIRSRR--PYQVNVLIGGYDKKKNKPELYQID 120

Query: 151 PSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEG-QISEKNIE 209
             G+       A G +     + L+  Y  +M  ++ +    L ++E  +   +  K + 
Sbjct: 121 YLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVI 180

Query: 210 IGIIGEKKEFRVLTPNEIR 228
           + I+ +K   R +   + +
Sbjct: 181 VKIV-DKDGIRQVDDFQAQ 198

>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 Length = 235

 Score =  104 bits (260), Expect = 2e-27
 Identities = 36/216 (16%), Positives = 77/216 (35%), Gaps = 15/216 (6%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T + +    GV++A +++     L+    V K+           +G       LVR    
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEF----TQSGGVRPFGVSLLVAGYDDK-GPQLY 147
           + E Y ++   P+         A++++       Q   V P  V   +   D+    ++ 
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 148 QVDPSGSYFSWKAS--AMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFE----- 200
             D  G  +  +A   A+G     AK+ L+K Y  + + + A+  AI +L +  +     
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSAT 181

Query: 201 -GQISEKNIEIGIIGEKKE-FRVLTPNEIRDYLAEV 234
            G    + I    +   +     ++     +    +
Sbjct: 182 GGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRI 217

>1iru_L 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_K* 3une_K 3unf_K* 3unh_K Length = 204

 Score =  101 bits (255), Expect = 5e-27
 Identities = 38/203 (18%), Positives = 83/203 (40%), Gaps = 7/203 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T+L  K  +GV++A + +  +   +   +V K+  + P +    +G   D     R   +
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           Q   Y    KE I V    +  A ++ ++          +  ++ G+D +GP LY VD  
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDKRGPGLYYVDSE 117

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIG 211
           G+  S    ++G     A   +++ Y  ++E++ A   A   + +       S   + + 
Sbjct: 118 GNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLY 177

Query: 212 IIGEKKEFRVLTPNEIRDYLAEV 234
            + E   +  ++ + + D   + 
Sbjct: 178 HVREDG-WIRVSSDNVADLHEKY 199

>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4 Length = 202

 Score =  101 bits (255), Expect = 6e-27
 Identities = 50/205 (24%), Positives = 90/205 (43%), Gaps = 8/205 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T++G+   +GVV+ATEK+      +   +  KI  +   + +  +G   D + L R  + 
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           +A  Y    +    V  +   T+ ++  +       P+ V LL+ G D +G  +Y +DP 
Sbjct: 62  EANLYEIRRERKPTVRAIATLTSNLLNSYRY----FPYLVQLLIGGIDSEGKSIYSIDPI 117

Query: 153 G-SYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
           G +       A G     A   LE R+  E+ +D+AV  A+  +    +    S   I++
Sbjct: 118 GGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDV 177

Query: 211 GIIGEKKEFRVLTPNEIRDYLAEVE 235
             I  + EF   +P E+   LA+  
Sbjct: 178 VKI-TEDEFYQYSPEEVEQILAKFR 201

>3nzj_K Proteasome component PRE2; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_K* 3nzx_K* Length = 287

 Score =  103 bits (259), Expect = 7e-27
 Identities = 34/207 (16%), Positives = 82/207 (39%), Gaps = 8/207 (3%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G T+L  +   G+++A + +  +   V   +V K+  + P +    +G   D +      
Sbjct: 75  GTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWL 134

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQV 149
             Q   +    KE I V    +  + ++ ++          +  ++ GY  K GP +Y V
Sbjct: 135 GSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYV 190

Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEG-FEGQISEKNI 208
           D  G+        +G   + A   L+  Y  ++ ++DA++    ++         S  ++
Sbjct: 191 DSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSV 250

Query: 209 EIGIIGEKKEFRVLTPNEIRDYLAEVE 235
            +  + E   +     +++ +   +V+
Sbjct: 251 NLYHVTEDG-WIYHGNHDVGELFWKVK 276

>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L 1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K* 2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K* 3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ... Length = 212

 Score = 97.7 bits (244), Expect = 3e-25
 Identities = 32/205 (15%), Positives = 81/205 (39%), Gaps = 8/205 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T+L  +   G+++A + +  +   V   +V ++  + P +    +G   D +        
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDP 151
           Q   +    KE I V    +  + ++ ++          +  ++ GY  K GP +Y VD 
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDS 117

Query: 152 SGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEG-FEGQISEKNIEI 210
            G+        +G   + A   L+  Y  ++ ++DA++    ++         S  ++ +
Sbjct: 118 DGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNL 177

Query: 211 GIIGEKKEFRVLTPNEIRDYLAEVE 235
             + E   +     +++ +   +V+
Sbjct: 178 YHVTEDG-WIYHGNHDVGELFWKVK 201

>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB: 3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H* 3h6i_C 3h6f_C 3hf9_H 3mfe_H Length = 291

 Score = 96.5 bits (240), Expect = 4e-24
 Identities = 35/219 (15%), Positives = 77/219 (35%), Gaps = 17/219 (7%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G T + +K   GVV+A +++     ++    V K+           +G         R  
Sbjct: 57  GTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLY 116

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYD------DKGP 144
             + E Y +L   P+     +   A +++    +   +      L+AGYD          
Sbjct: 117 AVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAM-QGLLALPLLAGYDIHASDPQSAG 175

Query: 145 QLYQVDPSGSYFSWKA--SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFE-- 200
           ++   D +G +   +    A+G     AK+ ++K Y +  + D  +  A+  L +  +  
Sbjct: 176 RIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDD 235

Query: 201 ----GQISEKNIEIGIIGEKKE-FRVLTPNEIRDYLAEV 234
               G    + I    +    +    +  + I +    +
Sbjct: 236 SATGGPDLVRGIFPTAVIIDADGAVDVPESRIAELARAI 274

>1iru_K 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_J* 3une_J 3unf_J* 3unh_J Length = 201

 Score = 93.8 bits (234), Expect = 6e-24
 Identities = 38/187 (20%), Positives = 77/187 (41%), Gaps = 5/187 (2%)

Query: 34  TSLGIKASNGVVIATEKKL-PSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
             +GI+  + V++A+++    +I+  +    K+  ++  I ++  G   D        +K
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDP 151
             + Y       +  T     T   + +  +S    P+ V+LL+AGYD+  GP LY +D 
Sbjct: 63  NVQLYKMRNGYELSPTAAANFTRRNLADCLRSRT--PYHVNLLLAGYDEHEGPALYYMDY 120

Query: 152 SGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
             +      +A G       + L++ Y   +  + AV      L+E  +  I +     +
Sbjct: 121 LAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSV 180

Query: 211 GIIGEKK 217
            II +  
Sbjct: 181 RIIDKNG 187

>1iru_N 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_M* 3une_M 3unf_M* 3unh_M Length = 219

 Score = 88.4 bits (220), Expect = 9e-22
 Identities = 34/190 (17%), Positives = 64/190 (33%), Gaps = 7/190 (3%)

Query: 32  GQTSLGIKASNGVVIATEKKL-PSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G + LG+K   GVVIA +       L    ++ +I  +  +  +  SG   DF+ L +  
Sbjct: 8   GTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL 67

Query: 91  RKQAEQYHRLY-KEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQV 149
            +       L          +       M          P   ++++ GY D    L  V
Sbjct: 68  GQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMN--PLWNTMVIGGYADGESFLGYV 125

Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE--MELDDAVHTAILTLKEGFEG-QISEK 206
           D  G  +   + A G     A+  L +   ++  +   +A       ++  +     S  
Sbjct: 126 DMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYN 185

Query: 207 NIEIGIIGEK 216
             +   + EK
Sbjct: 186 RFQTATVTEK 195

>3unf_N Proteasome subunit beta type-9; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_N Length = 199

 Score = 87.6 bits (218), Expect = 1e-21
 Identities = 33/203 (16%), Positives = 68/203 (33%), Gaps = 8/203 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T + ++   GVV+ ++ ++ +   V      K+  L   I    SG   D + +   +  
Sbjct: 2   TIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAY 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           Q E +    +EP  V         +  ++ +          L+VAG+D +          
Sbjct: 62  QLELHGLELEEPPLVLAAANVVKNISYKYRE-----DLLAHLIVAGWDQREGGQVYGTMG 116

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEG-FEGQISEKNIEIG 211
           G       +  G   S    +++  Y   M  ++        +         S   I + 
Sbjct: 117 GMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLV 176

Query: 212 IIGEKK-EFRVLTPNEIRDYLAE 233
            I     + RV+  +E+  +  E
Sbjct: 177 TITAAGVDHRVILGDELPKFYDE 199

>1ryp_H 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 3nzj_N* 3nzw_N* 3nzx_N* 1vsy_H 3l5q_B 1g65_N* 1fnt_H 1g0u_N* 1jd2_N* 1z7q_H 2f16_N* 2fak_N* 2fny_N* 2gpl_N* 2zcy_N* 3bdm_N* 3d29_N* 3dy3_N* 3dy4_N* 3e47_N* ... Length = 205

 Score = 84.2 bits (209), Expect = 3e-20
 Identities = 36/200 (18%), Positives = 73/200 (36%), Gaps = 10/200 (5%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G + + +   +GV++  + +  +   +      K+  +   I    SG   D + +    
Sbjct: 9   GASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQV 149
           +   E Y   Y  P         TAA + +             ++VAGYDDK   ++Y +
Sbjct: 69  QYHLELYTSQYGTPSTE------TAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTI 122

Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNI 208
              GS      +  G   +    + +K + E M  ++ V     +L +  +    S   I
Sbjct: 123 PLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVI 182

Query: 209 EIGIIGEKK-EFRVLTPNEI 227
            + ++     E  +  P+E 
Sbjct: 183 RMVVLTAAGVERLIFYPDEY 202

>1iru_H 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_N* 3une_N Length = 205

 Score = 83.4 bits (207), Expect = 5e-20
 Identities = 36/198 (18%), Positives = 69/198 (34%), Gaps = 9/198 (4%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T + ++   GVV+  + +  +   +      K+  +   I    SG   D + +      
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDP 151
           Q   +     EP  V         +   + +          +++AG+D + G Q+Y V  
Sbjct: 62  QLGFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPM 116

Query: 152 SGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
            G       +  G   S    +++  Y E M  ++ +      L    E    S   I +
Sbjct: 117 GGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRL 176

Query: 211 GIIGEKK-EFRVLTPNEI 227
             I E   E +VL  ++I
Sbjct: 177 AAIAESGVERQVLLGDQI 194

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M* Length = 266

 Score = 84.0 bits (208), Expect = 1e-19
 Identities = 36/234 (15%), Positives = 77/234 (32%), Gaps = 15/234 (6%)

Query: 5   QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVH 63
            Y+  +     S       +    + +G + + +K  NGV+IA +       L+  + V 
Sbjct: 18  AYNTQIANAGASPM----VNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVE 73

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQY-HRLYKEPIPVTQLVRETAAVMQE-- 120
           ++  +  N  V  SG   D + + R  +    +  +                   +    
Sbjct: 74  RLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM 133

Query: 121 FTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY- 178
           + +   + P   +++VAG    G   L  V+  G  +S    A G     A   L K   
Sbjct: 134 YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVD 193

Query: 179 ----VEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEI 227
               + +  +  A    +  ++  +     S +N  + II +          ++
Sbjct: 194 RESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQV 247

>1ryp_M 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_M* 1jd2_L* 1g65_L 1vsy_M 1z7q_M 2f16_L* 2fak_L* 2fny_L* 2gpl_L* 3d29_L* 3dy3_L* 3dy4_L* 3e47_L* 3gpj_L* 3gpt_L* 3gpw_L* 3hye_L* 3l5q_Q 3mg0_L* 3mg4_L* ... Length = 222

 Score = 82.4 bits (204), Expect = 2e-19
 Identities = 40/215 (18%), Positives = 77/215 (35%), Gaps = 27/215 (12%)

Query: 32  GQTSLGIKASNGVVIATEKKL-PSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G T LGI   +  V+A + +      ++     K+     NI +  +G   D   LV++ 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 91  RKQAEQY-HRLYKEPIPVTQLVRETAAVM-QEFTQSGGVRPFGVSLLVAGYDDKG-PQLY 147
           +   + Y      + + +      +AA   Q         P+ V  ++AG D+ G   +Y
Sbjct: 69  KNSVKWYHFDHNDKKLSI-----NSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVY 123

Query: 148 QVDPSGSYFSWKASAMGKNVSNAKTFLEKRY-----------------VEEMELDDAVHT 190
             DP GSY   +  A G   S    FL+ +                  ++ + +++ +  
Sbjct: 124 SFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKL 183

Query: 191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTP 224
              +     E  I     +EI I+ +    +    
Sbjct: 184 VRDSFTSATERHIQVGDGLEILIVTKDGVRKEFYE 218

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L Length = 213

 Score = 78.8 bits (195), Expect = 4e-18
 Identities = 34/198 (17%), Positives = 71/198 (35%), Gaps = 16/198 (8%)

Query: 32  GQTSLGIKASNGVVIATEKKL-PSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G T L I   +  ++A++ +L     +      K   LT    +  SG   D   L +  
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQV 149
             + + Y     + +    +    + ++  +++     P+ V  ++ G D++G   +Y  
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTIL--YSRRFF--PYYVYNIIGGLDEEGKGAVYSF 124

Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLE---------KRYVEEMELDDAVHTAILTLKEGFE 200
           DP GSY      A G   +  +  L+               + LD A+           E
Sbjct: 125 DPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAE 184

Query: 201 GQI-SEKNIEIGIIGEKK 217
             + +   + I I+ ++ 
Sbjct: 185 RDVYTGDALRICIVTKEG 202

>1ryp_N 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_N* 1jd2_M* 1g65_M 1vsy_N 1z7q_N 2f16_M* 2fak_M* 2fny_M* 2gpl_M* 3d29_M* 3dy3_M* 3dy4_M* 3e47_M* 3gpj_M* 3gpt_M* 3gpw_M* 3hye_M* 3l5q_R 3mg0_M* 3mg4_M* ... Length = 233

 Score = 78.9 bits (195), Expect = 5e-18
 Identities = 34/207 (16%), Positives = 70/207 (33%), Gaps = 11/207 (5%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G + + +K  NGV+IA +       L+  + V ++  +  N  V  SG   D + + R  
Sbjct: 8   GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67

Query: 91  RKQAEQY-HRLYKEPIPVTQLVRETAAVMQE--FTQSGGVRPFGVSLLVAGYDDKG-PQL 146
           +    +  +                   +    + +   + P   +++VAG    G   L
Sbjct: 68  KDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFL 127

Query: 147 YQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY-----VEEMELDDAVHTAILTLKEGFEG 201
             V+  G  +S    A G     A   L K       + +  +  A    +  ++  +  
Sbjct: 128 RYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYR 187

Query: 202 QI-SEKNIEIGIIGEKKEFRVLTPNEI 227
              S +N  + II +          ++
Sbjct: 188 DARSSRNFSLAIIDKNTGLTFKKNLQV 214

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I Length = 205

 Score = 76.8 bits (190), Expect = 2e-17
 Identities = 28/173 (16%), Positives = 59/173 (34%), Gaps = 8/173 (4%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G   + +K  N V IA +++      +  +   KI  +   + +  +G+  D + + ++ 
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK--GPQLYQ 148
           + +   Y       I    L+   A ++ E        P+    ++AG D K   P +  
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFG----PYYTEPVIAGLDPKTFKPFICS 123

Query: 149 VDPSG-SYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFE 200
           +D  G    +      G          E  +   M+ D    T    +    +
Sbjct: 124 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVD 176

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ... Length = 204

 Score = 74.6 bits (184), Expect = 1e-16
 Identities = 32/194 (16%), Positives = 60/194 (30%), Gaps = 16/194 (8%)

Query: 32  GQTSLGIKASNGVVIATEKKL---PSIL-VDESSVHKIQSLTPNIGVVYSGMGPDFRVLV 87
           G   + +   + V IA + +L      +      +        ++ +  +G+  D   L 
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY----GHVFLGITGLATDVTTLN 63

Query: 88  RKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG--PQ 145
              R +   Y    +  I      +  ++ + E        P+ V  +VAG + K   P 
Sbjct: 64  EMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFG----PYFVGPVVAGINSKSGKPF 119

Query: 146 LYQVDPSGSYFSWKA-SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI- 203
           +   D  G     K     G          E  Y   +E +D   T    L    +    
Sbjct: 120 IAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDAL 179

Query: 204 SEKNIEIGIIGEKK 217
           S     + II + +
Sbjct: 180 SGWGAVVYIIKKDE 193

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.8 bits (105), Expect = 1e-05
 Identities = 24/202 (11%), Positives = 57/202 (28%), Gaps = 65/202 (32%)

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETA---AVMQE 120
            +  L P   V+  G+          S K                 +  +      V  +
Sbjct: 143 ALLELRPAKNVLIDGVL--------GSGKTW---------------VALDVCLSYKVQCK 179

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQL--------YQVDPSGSYFSWKASAMGKNVSNAKT 172
                    F +  L     +    +        YQ+DP+ +  S  +S +   + + + 
Sbjct: 180 M-------DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232

Query: 173 FLEKRYVEEME-------LDDAVHTAILTLKEGFEGQ----ISEKNIEIG-IIGEKKEFR 220
            L +R ++          L +  +         F       ++ +  ++   +       
Sbjct: 233 EL-RRLLKSKPYENCLLVLLNVQNAKAW---NAFNLSCKILLTTRFKQVTDFLSAATTTH 288

Query: 221 V--------LTPNEIRDYLAEV 234
           +        LTP+E++  L + 
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKY 310

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	235
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	100.0
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	100.0
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	100.0

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A

Probab=100.00  E-value=1.8e-65  Score=423.81  Aligned_cols=231  Identities=39%  Similarity=0.620  Sum_probs=215.1

Q ss_pred             CCCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecCh
Q 026627            1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         1 ~~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      |++++||+++|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..
T Consensus         3 m~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~~~i~~~~aG~~   82 (233)
T 1yar_A            3 QGQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLV   82 (233)
T ss_dssp             ----------CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBH
T ss_pred             cccccCCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEeccCCcccccccccCeEEEecCCEEEEEeeCH
Confidence            67789999999999999999999999999999999999999999999999999888888899999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeE
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~  160 (235)
                      +|++.+.++++.+++.|+++++++++++.+++++++++|.++++.+.|||++++|+||||++||+||.+||.|++.++++
T Consensus        83 aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~  162 (233)
T 1yar_A           83 ADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKA  162 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeCCCCEEEEECCCCCEEeeeE
Confidence            99999999999999999999999999999999999999999999889999999999999998999999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHH
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYL  231 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l  231 (235)
                      +|+|+|+++++++|++.|+++|+++||++++++||+.+.++|.++.+++|++|++++++++++++||+++|
T Consensus       163 ~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~s~~~i~v~vi~~~~~~~~~~~~ei~~~l  233 (233)
T 1yar_A          163 TAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL  233 (233)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             EEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCEEECCHHHHHhhC
Confidence            99999999999999999999999999999999999999999888999999999998779999999998763

>1iru_B 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_A* 3une_A 3unf_A* 3unh_A

Probab=100.00  E-value=6.9e-65  Score=420.36  Aligned_cols=232  Identities=67%  Similarity=1.066  Sum_probs=225.7

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      +++||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++.+++.+||++|++|++|+++|..+|
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   81 (233)
T 1iru_B            2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPD   81 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHH
T ss_pred             CCCccCCceeECCCCeEehhHhHHHHHHcCCcEEEEEeCCEEEEEEEecCCccccccccCCeEEEECCCEEEEEEEccHH
Confidence            68999999999999999999999999999999999999999999999999988888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEe
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      ++.+.++++.+++.|+++++.+++++.+++++++++|.|+++.+.|||++++|+||||++||+||.+||.|++.++++++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~a  161 (233)
T 1iru_B           82 YRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATA  161 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCCCCeEEEECCCCCEEEeeEEE
Confidence            99999999999999999999999999999999999999999988999999999999998899999999999999999999


Q ss_pred             eCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          163 MGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       163 ~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      +|+|+++++++|++.|+++|+++||++++++||+.+.++|.++.+++|++|++++ +++++++||+++++.++
T Consensus       162 iG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~sg~~i~v~vi~~~g-~~~l~~~ei~~~~~~~~  233 (233)
T 1iru_B          162 MGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAIA  233 (233)
T ss_dssp             ESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETTE-EEECCHHHHHHHHTTCC
T ss_pred             ECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCC-EEECCHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999998889999999999985 99999999999998764

>1ryp_A 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_G* 1g65_G 1vsy_A 2f16_G* 2fak_G* 2fny_G* 2gpl_G* 3d29_G* 3dy3_G* 3dy4_G* 3e47_G* 3gpj_G* 3gpt_G* 3gpw_G* 3hye_G* 3l5q_A 3mg0_G* 3mg4_G* 3oeu_G* 3oev_G* ...

Probab=100.00  E-value=7.5e-65  Score=422.57  Aligned_cols=231  Identities=29%  Similarity=0.521  Sum_probs=224.3

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcC-CCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGS-GQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~-G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      ++||+++|+|||||||+|||||.||+++ |+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+|
T Consensus         1 ~~yd~~~t~fsp~Grl~QvEYA~~av~~~Gtt~vgi~~~dgVvlaad~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   80 (243)
T 1ryp_A            1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             CGGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCCceECCCCeeHHHHHHHHHHhcCCCcEEEEEeCCEEEEEEEecCCccccCCCcCCceEEECCCEEEEEEecHHH
Confidence            5899999999999999999999999999 999999999999999999999988888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEE
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~  161 (235)
                      ++.+.+.++.+++.|+++++++++++.+++++++++|.|+++++.|||+|++||||||+ +||+||.+||.|++.+++++
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~~~~~~~  160 (243)
T 1ryp_A           81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKAT  160 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcCCCCEEEEEEE
Confidence            99999999999999999999999999999999999999999988999999999999997 78999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccC-------CCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          162 AMGKNVSNAKTFLEKRYVE-------EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~-------~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      |+|++++.++++|++.|++       +|+++||++++++||..+.++|.++.+++|++|++++ +++++++||+++++.+
T Consensus       161 a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd~s~~~iev~vi~~~g-~~~l~~~ei~~~~~~~  239 (243)
T 1ryp_A          161 ATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK-FFTLSAENIEERLVAI  239 (243)
T ss_dssp             EESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETTE-EEECCHHHHHHHHHHH
T ss_pred             EECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCC-eEECCHHHHHHHHHHh
Confidence            9999999999999999999       9999999999999999999998889999999999986 9999999999999886


Q ss_pred             C
Q 026627          235 E  235 (235)
Q Consensus       235 ~  235 (235)
                      +
T Consensus       240 ~  240 (243)
T 1ryp_A          240 A  240 (243)
T ss_dssp             T
T ss_pred             h
Confidence            4

>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A {Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A*

Probab=100.00  E-value=2.3e-64  Score=420.32  Aligned_cols=233  Identities=35%  Similarity=0.658  Sum_probs=224.4

Q ss_pred             CCCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecCh
Q 026627            1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         1 ~~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      ||+++||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..
T Consensus         3 ~~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~   82 (246)
T 1j2p_A            3 LPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLV   82 (246)
T ss_dssp             -CCTTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECH
T ss_pred             ccccCcCCCCceECCCCeehHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCccccccCccCcEEEECCCEEEEEeEcc
Confidence            67899999999999999999999999999999999999999999999999999888778899999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeE
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~  160 (235)
                      +|++.+.++++.+++.|+++++.+++++.+++++++.+|.|+++.+.|||++++|+|||| +||+||.+||.|++.++++
T Consensus        83 aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~  161 (246)
T 1j2p_A           83 ADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLYETDPSGALLEYKA  161 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-SSEEEEEECTTCCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-CCCEEEEECCCceEEeeeE
Confidence            999999999999999999999999999999999999999999998899999999999999 8999999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEe-cCCcEEEcCHHHHHHHHHHc
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIG-EKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~-~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+|+|+++++++|++.|+++|+++||++++++||..+.++..++.+++|++|+ +++++++++++||+++++.+
T Consensus       162 ~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~l~~~ei~~~~~~~  236 (246)
T 1j2p_A          162 TAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERA  236 (246)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHHHH
T ss_pred             EEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCceEECCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999985589999999999 76689999999999998865

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D

Probab=100.00  E-value=1.1e-64  Score=420.99  Aligned_cols=234  Identities=32%  Similarity=0.616  Sum_probs=221.3

Q ss_pred             CCCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecCh
Q 026627            1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         1 ~~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      |++++||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..
T Consensus         3 m~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~   82 (241)
T 1iru_E            3 LTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLI   82 (241)
T ss_dssp             -----CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECH
T ss_pred             CccCCCCCCCceECCCCccHHHHHHHHHHHcCCcEEEEEcCCEEEEEEecccCCcCcCccccceEEEEcCCEEEEEeeCh
Confidence            56789999999999999999999999999999999999999999999999999877668899999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC-----cccceeEEEEEEEeCCCCeEEEECCCCcE
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGG-----VRPFGVSLLVAGYDDKGPQLYQVDPSGSY  155 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~-----~rP~~~~~il~G~d~~gp~Ly~id~~G~~  155 (235)
                      +|++.+.+.++.+++.|+.+++++++++.+++++++++|.|+++.+     .|||++++|+||||++||+||.+||.|++
T Consensus        83 aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~  162 (241)
T 1iru_E           83 ADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTF  162 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCE
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCCCCEEEEECCCCcE
Confidence            9999999999999999999999999999999999999999998887     89999999999999888999999999999


Q ss_pred             EeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          156 FSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       156 ~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      .+++++|+|+|+++++++|++.|+++|+++||++++++||..+.++..++.+++|++|++++.+++++++||+++++++
T Consensus       163 ~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~~  241 (241)
T 1iru_E          163 VQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI  241 (241)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHHHHHTTC
T ss_pred             EecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCCCeEECCHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999998668999999999999779999999999999764

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E

Probab=100.00  E-value=2.5e-64  Score=423.53  Aligned_cols=232  Identities=33%  Similarity=0.599  Sum_probs=221.7

Q ss_pred             CCCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecCh
Q 026627            1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         1 ~~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      |++++||+++|+|||||||+|||||.||+++|+|+|||+++||||||+|+|.++++.  ++.+||++|++||+|+++|..
T Consensus         1 m~~~~yd~~~t~fsP~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl~--~~~~KI~~i~~~i~~~~aG~~   78 (263)
T 1iru_F            1 MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--AHQKKILHVDNHIGISIAGLT   78 (263)
T ss_dssp             ---CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECH
T ss_pred             CCcCCCCCCCccCCCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEecccccccc--cchhcEEEEcCCEEEEEeCCH
Confidence            899999999999999999999999999999999999999999999999999998864  478999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeE
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~  160 (235)
                      +|++.+.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||||||++||+||.+||.|++.++++
T Consensus        79 aD~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~  158 (263)
T 1iru_F           79 ADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRA  158 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESE
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcCCCCEEEEECCCCCEEEeeE
Confidence            99999999999999999999999999999999999999999999889999999999999998999999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccC--CCCHHHHHHHHHHHHHhhccCC--CCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          161 SAMGKNVSNAKTFLEKRYVE--EMELDDAVHTAILTLKEGFEGQ--ISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~--~~s~~ea~~l~~~~l~~~~~~~--~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+|+|+++++++|++.|++  +|+++||++++++||+.+.++|  .++.+++|++|++++++++++++||++++..+
T Consensus       159 ~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~~~ei~~~~~~~  236 (263)
T 1iru_F          159 MSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGL  236 (263)
T ss_dssp             EEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTC
T ss_pred             EEcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECCHHHHHHHHHHH
Confidence            99999999999999999998  9999999999999999999988  58999999999998679999999999999876

>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii}

Probab=100.00  E-value=4.8e-65  Score=427.63  Aligned_cols=234  Identities=36%  Similarity=0.631  Sum_probs=218.2

Q ss_pred             CCCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecCh
Q 026627            1 MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG   80 (235)
Q Consensus         1 ~~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~   80 (235)
                      |..++||+++|+|||||||+|||||.||+++|+|+|||+++||||||+|+|.+++++..++.+||++|++||+|+++|..
T Consensus         7 ~~~~~yd~~~t~fSp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~d~i~~~~aG~~   86 (264)
T 3h4p_A            7 VPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLV   86 (264)
T ss_dssp             ---------CCCCCSSSSCHHHHHHHHHHHHSCCEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEETTEEEEEEECS
T ss_pred             CCccccCCCcceECCCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEecCccCCccccCccccEEEecCcEEEEeccch
Confidence            44688999999999999999999999999999999999999999999999999888888999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeE
Q 026627           81 PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        81 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~  160 (235)
                      +|++.+.+.++.+++.|++.++.+++++.++++++.++|.|+++++.|||+|++||||||++||+||.+||.|++.++++
T Consensus        87 aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~gp~Ly~iDp~G~~~~~~~  166 (264)
T 3h4p_A           87 ADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKA  166 (264)
T ss_dssp             HHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETTEEEEEEECTTCCCEEESE
T ss_pred             HHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCCcCEEEEECCCceEEecCe
Confidence            99999999999999999999999999999999999999999999899999999999999998999999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecC-CcEEEcCHHHHHHHHHHcC
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEK-KEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~-~~~~~l~~~ei~~~l~~~~  235 (235)
                      +|+|+|+++++++|++.|+++|+++||++++++||+.+.++ .++.+++|++|+++ .+|++|+++||+++++.++
T Consensus       167 ~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~-~sg~~iev~vi~~~~~~~~~l~~~ei~~~~~~~~  241 (264)
T 3h4p_A          167 TAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED-IKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVK  241 (264)
T ss_dssp             EEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS-CCTTSEEEEEEETTTTEEEECCTTTTGGGTTTTT
T ss_pred             EEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc-cCCCeEEEEEEEeCCCcEEECCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999988 89999999999986 4799999999999987763

>1ryp_C 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_B* 1g65_B 2f16_B* 2fak_B* 2fny_B* 2gpl_B* 3d29_B* 3dy3_B* 3dy4_B* 3e47_B* 3gpj_B* 3gpt_B* 3gpw_B* 3hye_B* 3mg0_B* 3mg4_B* 3okj_B* 3shj_B* 3tdd_B* 3nzj_B* ...

Probab=100.00  E-value=2.5e-63  Score=413.70  Aligned_cols=231  Identities=39%  Similarity=0.686  Sum_probs=223.4

Q ss_pred             CCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccc-cCCceeEEEecCcEEEEEecChhhH
Q 026627            5 QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVD-ESSVHKIQSLTPNIGVVYSGMGPDF   83 (235)
Q Consensus         5 ~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~-~~~~~KI~~i~~~i~~~~sG~~~D~   83 (235)
                      +||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++. +++.+||++|++|++|+++|..+|+
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~   83 (244)
T 1ryp_C            4 RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADA   83 (244)
T ss_dssp             GGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHH
T ss_pred             ccCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHHH
Confidence            899999999999999999999999999999999999999999999999987766 7899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEe-CCCCeEEEECCCCcEEeeeEEe
Q 026627           84 RVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        84 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d-~~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      +.+.++++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++|+|||| ++||+||.+||.|++.+++++|
T Consensus        84 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~a  163 (244)
T 1ryp_C           84 EILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAIS  163 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCCccEEeeeEEE
Confidence            999999999999999999999999999999999999999998899999999999999 6889999999999999999999


Q ss_pred             eCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccC-CCCCCcEEEEEEe--cCCc---EEEcCHHHHHHHHHHcC
Q 026627          163 MGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEG-QISEKNIEIGIIG--EKKE---FRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       163 ~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~-~~~~~~iei~~i~--~~~~---~~~l~~~ei~~~l~~~~  235 (235)
                      +|+|+++++++|++.|+++|+++||++++++||+.+.++ +.++.+++|++|+  +++.   +++|+++||+++++.++
T Consensus       164 iGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l~~~ei~~~~~~~~  242 (244)
T 1ryp_C          164 VGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVKTG  242 (244)
T ss_dssp             ESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHHHHT
T ss_pred             ECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEECCHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999998 5789999999999  8865   99999999999999875

>1iru_A 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_G* 3une_G 3unf_G* 3unh_G

Probab=100.00  E-value=1.3e-63  Score=415.74  Aligned_cols=231  Identities=35%  Similarity=0.610  Sum_probs=223.9

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcC-CCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGS-GQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~-G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      ++||+++|+|||||||+|||||.+|+++ |+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+|
T Consensus         7 ~~yd~~~t~fsp~Grl~QvEya~~av~~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   86 (246)
T 1iru_A            7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGMTAD   86 (246)
T ss_dssp             CTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEECHHH
T ss_pred             CCcCCCCccCCCCCeehHHHHHHHHHhcCCCCEEEEEeCCEEEEEEeecCCCcccCCCccCceEEECCCEEEEEeccHHH
Confidence            5899999999999999999999999999 999999999999999999999988888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEE
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~  161 (235)
                      ++.+.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||||||+ +||+||.+||.|++.+++++
T Consensus        87 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~  166 (246)
T 1iru_A           87 SRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKAT  166 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCeeEEEeeEE
Confidence            99999999999999999999999999999999999999999888999999999999997 78999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccC--CCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCc-EEEcCHHHHHHHHHHc
Q 026627          162 AMGKNVSNAKTFLEKRYVE--EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKE-FRVLTPNEIRDYLAEV  234 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~--~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~-~~~l~~~ei~~~l~~~  234 (235)
                      |+|+|+++++++|++.|++  +|+++||++++++||+.+.++|.++.+++|++|++++. |++++++||+++++.+
T Consensus       167 aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~~~~  242 (246)
T 1iru_A          167 AAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVAL  242 (246)
T ss_dssp             EEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHHHHHHH
T ss_pred             EECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCeEEECCHHHHHHHHHHh
Confidence            9999999999999999999  99999999999999999999888899999999999864 8999999999999876

>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C* 1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C* 3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C* 3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ...

Probab=100.00  E-value=7.3e-63  Score=410.10  Aligned_cols=229  Identities=37%  Similarity=0.652  Sum_probs=220.2

Q ss_pred             CCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCcccc-CCceeEEEecCcEEEEEecChhhH
Q 026627            5 QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE-SSVHKIQSLTPNIGVVYSGMGPDF   83 (235)
Q Consensus         5 ~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~-~~~~KI~~i~~~i~~~~sG~~~D~   83 (235)
                      +||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|+|.+++++.. ++.+||++|++|++|+++|..+|+
T Consensus         1 ~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~   80 (241)
T 1ryp_D            1 GYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADS   80 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCceeECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHH
Confidence            6999999999999999999999999999999999999999999999999876554 489999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC--CCCeEEEECCCCcEEeeeEE
Q 026627           84 RVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD--KGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        84 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~--~gp~Ly~id~~G~~~~~~~~  161 (235)
                      +.+.+.++.+++.|+++++++++++.+++++++++|.++++++.|||++++||||||+  +||+||.+||.|++.+++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~  160 (241)
T 1ryp_D           81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQ  160 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCCCCEEEeeeE
Confidence            9999999999999999999999999999999999999999988999999999999998  78999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhc---cCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          162 AMGKNVSNAKTFLEKRY---VEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~---~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      |+|+|+++++++|++.|   +++|+++||++++++||..+.+  .++.+++|++|++++++++++++||+++++.++
T Consensus       161 aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~--~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~~~  235 (241)
T 1ryp_D          161 TIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQIE  235 (241)
T ss_dssp             EESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC--SCSTTEEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             EECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc--CCCCcEEEEEEECCCcEEECCHHHHHHHHHHHh
Confidence            99999999999999999   9999999999999999999887  789999999999987799999999999998764

>1iru_C 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_B* 3une_B 3unf_B* 3unh_B

Probab=100.00  E-value=7.3e-63  Score=414.43  Aligned_cols=232  Identities=39%  Similarity=0.615  Sum_probs=221.2

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCcccc-CCceeEEEecCcEEEEEecChh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDE-SSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~-~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      .++||+++|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.++++... ++.+||++|++|++|+++|..+
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~a   81 (261)
T 1iru_C            2 SRRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITS   81 (261)
T ss_dssp             CTTTCCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHH
T ss_pred             CCccCCCCccCCCCCeehHHHhHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHH
Confidence            459999999999999999999999999999999999999999999999999866544 4599999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~  160 (235)
                      |++.+.++++.+++.|+++++.+++++.+++++++++|.+++..+.|||++++||||||+ +||+||.+||.|++.++++
T Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~  161 (261)
T 1iru_C           82 DANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKA  161 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSE
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECCCceEEeeee
Confidence            999999999999999999999999999999999999999999988999999999999995 7899999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccC-CCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCc---EEEcCHHHHHHHHHHc
Q 026627          161 SAMGKNVSNAKTFLEKRYVE-EMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKE---FRVLTPNEIRDYLAEV  234 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~-~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~---~~~l~~~ei~~~l~~~  234 (235)
                      +|+|+|+++++++|++.|++ +|+++||++++++||..+.++|. ++.+++|++|+++++   |++|+++||++++..+
T Consensus       162 ~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~~~ei~~~l~~~  240 (261)
T 1iru_C          162 TCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKH  240 (261)
T ss_dssp             EEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHHHH
T ss_pred             EEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECCHHHHHHHHHHH
Confidence            99999999999999999999 99999999999999999999874 889999999999863   8999999999999876

>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B 1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A* 2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A* 3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ...

Probab=100.00  E-value=9e-63  Score=411.59  Aligned_cols=232  Identities=63%  Similarity=0.939  Sum_probs=222.7

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      .++||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+|
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   81 (250)
T 1ryp_B            2 TDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPD   81 (250)
T ss_dssp             CCCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHH
T ss_pred             CCcccCCceeECCCCccHHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCCccccCcccCceEEECCCEEEEeeeCHHH
Confidence            35999999999999999999999999999999999999999999999999888888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHH-HHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeE
Q 026627           83 FRVLVRKSRKQAEQ-YHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        83 ~~~l~~~~~~~~~~-~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~  160 (235)
                      ++.+.++++.+++. |+..++.+++++.+++.++++++.+++..++|||++++|+||||+ +||+||.+||.|++.++++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~  161 (250)
T 1ryp_B           82 YRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKA  161 (250)
T ss_dssp             HHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEECCCCCEEeece
Confidence            99999999999999 999999999999999999999999999888999999999999997 6899999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecC---------------CcEEEcCHH
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEK---------------KEFRVLTPN  225 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~---------------~~~~~l~~~  225 (235)
                      +|+|+|+++++++|++.|+++|+++||++++++||+.+.+++.++.+++|++|+++               ++|++|+++
T Consensus       162 ~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~~~~~~~~~~~~l~~~  241 (250)
T 1ryp_B          162 TAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQ  241 (250)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEECCHH
T ss_pred             eEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhccccCCCCEEEEEEEccccccccccccccCCCCCeEECCHH
Confidence            99999999999999999999999999999999999999998788999999999985               259999999


Q ss_pred             HHHHHHHHc
Q 026627          226 EIRDYLAEV  234 (235)
Q Consensus       226 ei~~~l~~~  234 (235)
                      ||+++++.+
T Consensus       242 ei~~~l~~~  250 (250)
T 1ryp_B          242 EINDRLEAL  250 (250)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHHhC
Confidence            999999764

>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E* 1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E* 3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E* 3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ...

Probab=100.00  E-value=1.1e-63  Score=413.15  Aligned_cols=227  Identities=28%  Similarity=0.488  Sum_probs=217.5

Q ss_pred             CCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChh
Q 026627            2 GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         2 ~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      |+++||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|+|.++++.  ++.+||++|++|++|+++|..+
T Consensus         1 ~~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~--~~~~Ki~~i~~~i~~~~aG~~a   78 (233)
T 1ryp_F            1 FRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAP   78 (233)
T ss_dssp             CHHHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHH
T ss_pred             CCCcccCCCccCCCCCeehHHHHHHHHHHcCCCEEEEEcCCEEEEEEEeccccccc--cccCcEEEEcCCEEEEEEechH
Confidence            56789999999999999999999999999999999999999999999999998865  4789999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~  161 (235)
                      |++.+.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++|+||||++||+||.+||.|++.+++++
T Consensus        79 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~  158 (233)
T 1ryp_F           79 DARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGT  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCCcCEEEEECCCCCeeeeeEE
Confidence            99999999999999999999999999999999999999999998899999999999999989999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccC--CC--CHHHHHHHHHHHHHhhccCC--CCCCcEEEEEEecCCcEEEcCHHHHHHHH
Q 026627          162 AMGKNVSNAKTFLEKRYVE--EM--ELDDAVHTAILTLKEGFEGQ--ISEKNIEIGIIGEKKEFRVLTPNEIRDYL  231 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~--~~--s~~ea~~l~~~~l~~~~~~~--~~~~~iei~~i~~~~~~~~l~~~ei~~~l  231 (235)
                      |+|+|++.++++|++.|++  +|  +++||+++++++|+.+. +|  .++.+++|++|+++++|++++++||+++|
T Consensus       159 aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~~~~~~~l~~~ei~~~l  233 (233)
T 1ryp_F          159 AIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI  233 (233)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEETTEEEEEEEGGGGGGGC
T ss_pred             EECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEECCCCEEECCHHHHHhhC
Confidence            9999999999999999998  99  99999999999999999 55  48999999999998679999999998763

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F

Probab=100.00  E-value=9.4e-63  Score=412.22  Aligned_cols=233  Identities=28%  Similarity=0.463  Sum_probs=222.3

Q ss_pred             CCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChh
Q 026627            2 GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         2 ~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      +.++||+++|+|||||||+|||||.||+++|+|+|||+++||||||+|+|.+++++..++.+||++|++||+|+++|..+
T Consensus         3 ~~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~a   82 (254)
T 1iru_G            3 IGTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLA   82 (254)
T ss_dssp             CCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHH
T ss_pred             cccccCCCCccCCcCCccHHHHhHHHHHhcCCCEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEECCCEEEEEecChH
Confidence            35789999999999999999999999999999999999999999999999998766668899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEe-CCCCeEEEECCCCcEEeeeE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d-~~gp~Ly~id~~G~~~~~~~  160 (235)
                      |++.+.+.++.+++.|+++++++++++.+++++++++|.|++++++|||++++|||||| ++||+||.+||.|++.++++
T Consensus        83 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~  162 (254)
T 1iru_G           83 DARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWG  162 (254)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCCCEEeeee
Confidence            99999999999999999999999999999999999999999998899999999999999 68899999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecC--CcEEEcCHHHHHHHHHHc
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEK--KEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~--~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+|+|+++++++|++.|+++|+++||++++++||+.+.+++. ++.+++|++|+++  ++++++++++++++++..
T Consensus       163 ~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~~~~i~~~~~~~  239 (254)
T 1iru_G          163 CAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKYA  239 (254)
T ss_dssp             EEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHHHH
T ss_pred             EEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988875 7889999999987  459999999999998753

>1iru_D 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unf_C* 3une_C* 3unh_C 3unb_C*

Probab=100.00  E-value=5.2e-63  Score=412.51  Aligned_cols=227  Identities=37%  Similarity=0.677  Sum_probs=220.0

Q ss_pred             CCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHH
Q 026627            6 YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRV   85 (235)
Q Consensus         6 yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (235)
                      ||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+|++.
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~   82 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADARI   82 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHHH
T ss_pred             ccCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEcCCEEEEEeecHHHHHH
Confidence            99999999999999999999999999999999999999999999999988887889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEe-CCCCeEEEECCCCcEEeeeEEeeC
Q 026627           86 LVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMG  164 (235)
Q Consensus        86 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d-~~gp~Ly~id~~G~~~~~~~~a~G  164 (235)
                      +.+.++.+++.|+++++++++++.+++++++++|.|+++++.|||++++|||||| ++||+||.+||.|++.+++++++|
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  162 (248)
T 1iru_D           83 VINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIG  162 (248)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeEEEEC
Confidence            9999999999999999999999999999999999999998899999999999999 688999999999999999999999


Q ss_pred             CCchHHHHHHHHhccCCC--CHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          165 KNVSNAKTFLEKRYVEEM--ELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       165 ~~s~~~~~~L~~~~~~~~--s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +++++++++|++.|+++|  +++||++++++||+.+.+  .++.+++|++|++++++++++++||+++++.+
T Consensus       163 ~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~--~sg~~i~v~vi~~~g~~~~l~~~ei~~~~~~~  232 (248)
T 1iru_D          163 RGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEI  232 (248)
T ss_dssp             TTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC--TTSTTCCEEEEESSSCEECCCHHHHHHHTTTT
T ss_pred             CCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc--CCCCcEEEEEEECCCcEEECCHHHHHHHHHHH
Confidence            999999999999999999  999999999999999887  57899999999998779999999999998765

>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D* 1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D* 3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 3mg0_D* 3mg4_D* 3okj_D* 3shj_D* 3tdd_D* 2z5c_C ...

Probab=100.00  E-value=3.6e-62  Score=406.19  Aligned_cols=228  Identities=31%  Similarity=0.560  Sum_probs=220.0

Q ss_pred             CCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHH
Q 026627            7 SFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVL   86 (235)
Q Consensus         7 d~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l   86 (235)
                      |+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+|++.+
T Consensus         1 d~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l   80 (242)
T 1ryp_E            1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARSM   80 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHHH
T ss_pred             CCCCceECCCCcChHHHhHHHHHHcCCCEEEEEECCEEEEEEeecCCCcCccCccCCceEEEcCCEEEEEeecHHHHHHH
Confidence            78999999999999999999999999999999999999999999999877667889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC------cccceeEEEEEEEe-CCCCeEEEECCCCcEEeee
Q 026627           87 VRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGG------VRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWK  159 (235)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~------~rP~~~~~il~G~d-~~gp~Ly~id~~G~~~~~~  159 (235)
                      .++++.+++.|+++++++++++.+++++++++|.|+++.+      .|||++++|+|||| ++||+||.+||.|++.+++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~  160 (242)
T 1ryp_E           81 IEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYN  160 (242)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEeccC
Confidence            9999999999999999999999999999999999999888      89999999999999 6789999999999999999


Q ss_pred             EEeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          160 ASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       160 ~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      ++|+|+|+++++++|++.|+++|+++||++++++||+.+.+++.++.+++|++|++++.+++++++||+++++.+
T Consensus       161 ~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~ei~~~~~~~  235 (242)
T 1ryp_E          161 AKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKEL  235 (242)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             EEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCeEECCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999998668999999999998779999999999999875

>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F* 1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F* 3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F* 3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ...

Probab=100.00  E-value=5.4e-61  Score=399.34  Aligned_cols=229  Identities=36%  Similarity=0.552  Sum_probs=215.8

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhH
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDF   83 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~   83 (235)
                      ++||+++|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+|+
T Consensus         2 ~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD~   81 (244)
T 1ryp_G            2 TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPDG   81 (244)
T ss_dssp             CCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHHH
T ss_pred             CCccCCcccCCcCCchHHHHhHHHHHHCCCCEEEEEECCEEEEEEecccCCCCccccccCceEEecCCEEEEEcccHHHH
Confidence            68999999999999999999999999999999999999999999999999876666666999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEee
Q 026627           84 RVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAM  163 (235)
Q Consensus        84 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~  163 (235)
                      +.+.++++.+++.|+++++++++++.+++++++++|.|+++++.|||++++||||||++||+||.+||.|++.+++++|+
T Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~ai  161 (244)
T 1ryp_G           82 RHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAAT  161 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeCCcCEEEEECCCCCEEEeeEEEE
Confidence            99999999999999999999999999999999999999998889999999999999998999999999999999999999


Q ss_pred             CCCchHHHHHHHHh---ccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEec-C-CcEEEcCHHHHHHHHH
Q 026627          164 GKNVSNAKTFLEKR---YVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGE-K-KEFRVLTPNEIRDYLA  232 (235)
Q Consensus       164 G~~s~~~~~~L~~~---~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~-~-~~~~~l~~~ei~~~l~  232 (235)
                      |+|+++++++|++.   |+++|+++||++++++||+.+.+++. ++.+++|++|++ + ++++++.++++.+..+
T Consensus       162 G~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~~~~~~~~~~~~  236 (244)
T 1ryp_G          162 GKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAI  236 (244)
T ss_dssp             STTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHH
T ss_pred             CCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeeeeChHHHHHHHH
Confidence            99999999999997   99999999999999999999999886 789999999997 1 2588888888766544

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 4b4t_G 4g4s_G* 3bdm_F* 1fnt_G* 2zcy_F*

Probab=100.00  E-value=5.1e-61  Score=406.74  Aligned_cols=227  Identities=36%  Similarity=0.568  Sum_probs=213.2

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      .++||+++|+|||||||+|||||.||+++|+|+|||+++||||||+|+|.+++++..++.+||++|++||+|+++|..+|
T Consensus         5 ~~~yd~~~t~fSP~Grl~QvEYA~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~d~i~~~~aG~~aD   84 (288)
T 3nzj_F            5 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPD   84 (288)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEETTTEEEEEEECHHH
T ss_pred             cCCccCCcccCCCCCchHHHHHHHHHHhcCCcEEEEEECCEEEEEEcCCcccCCccccccceEEEEcCCEEEEecCcHHH
Confidence            68999999999999999999999999999999999999999999999999987766668899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEe
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      ++.|.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||+|++||||||++||+||.+||.|++.+++++|
T Consensus        85 ~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~Gp~Ly~iDp~G~~~~~~~~a  164 (288)
T 3nzj_F           85 GRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAA  164 (288)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCCCEEEEECCCCCEEEcCEEE
Confidence            99999999999999999999999999999999999999999989999999999999999999999999999999999999


Q ss_pred             eCCCchHHHHHHHHh---ccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEec-C-CcEE-EcCHHHHHH
Q 026627          163 MGKNVSNAKTFLEKR---YVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGE-K-KEFR-VLTPNEIRD  229 (235)
Q Consensus       163 ~G~~s~~~~~~L~~~---~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~-~-~~~~-~l~~~ei~~  229 (235)
                      +|++++.++++|++.   |+++|+++||++++++||..+.+++. ++..++|++|++ + ++++ .++.+++++
T Consensus       165 iGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~~~~~~~~~~vp~~~~~~  238 (288)
T 3nzj_F          165 TGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQE  238 (288)
T ss_dssp             ESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEETTTSTTCCEECCHHHHHH
T ss_pred             EcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEecCCCceEEECCHHHHHH
Confidence            999999999999999   99999999999999999999999864 788999999999 3 4454 555555443

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A

Probab=100.00  E-value=7.7e-53  Score=352.83  Aligned_cols=216  Identities=21%  Similarity=0.338  Sum_probs=196.4

Q ss_pred             ccccCCCCcc-chhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHHHH
Q 026627           10 LTTFSPSGKL-VQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVR   88 (235)
Q Consensus        10 ~~~fsp~Grl-~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~   88 (235)
                      +..|||||+| .|+|||.+|+++|+|+|||+++||||||+|+|       +++.+||++|++||+|+++|..+|++.|.+
T Consensus         4 p~~~sPe~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r-------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~   76 (259)
T 1q5q_A            4 PYYASAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGKYNEFENLRR   76 (259)
T ss_dssp             -----CHHHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS-------CSSSCSEEEEETTEEEEEEECHHHHHHHHH
T ss_pred             CcccCHHHHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC-------CCCcCcEEEeCCCEEEEEccCHHHHHHHHH
Confidence            4468999999 59999999999999999999999999999998       367899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCCHHHHHHHHHH-HHHHHhhcCCcccceeEEEEEEEe----CCCCeEEEECCCCcEE-eeeEE
Q 026627           89 KSRKQAEQYHRLYK-EPIPVTQLVRETAA-VMQEFTQSGGVRPFGVSLLVAGYD----DKGPQLYQVDPSGSYF-SWKAS  161 (235)
Q Consensus        89 ~~~~~~~~~~~~~~-~~i~~~~l~~~l~~-~~~~~~~~~~~rP~~~~~il~G~d----~~gp~Ly~id~~G~~~-~~~~~  161 (235)
                      .++.+++.+++.++ .+++++.+++++++ +.|.|+.  +.|||+|++||||||    ++||+||.+||.|++. +++++
T Consensus        77 ~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~--~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~~~~  154 (259)
T 1q5q_A           77 AGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--QPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFV  154 (259)
T ss_dssp             HHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHH--SSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEE
T ss_pred             HHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhcc--CCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCCCEE
Confidence            99999999999998 49999999999999 6677773  579999999999999    6889999999999999 78999


Q ss_pred             eeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhc-----cCCCCCCcEEEEEEecCC---cEEEcCHHHHHHHHHH
Q 026627          162 AMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGF-----EGQISEKNIEIGIIGEKK---EFRVLTPNEIRDYLAE  233 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~-----~~~~~~~~iei~~i~~~~---~~~~l~~~ei~~~l~~  233 (235)
                      ++|++++.++++|++.|+++|+++||++++++||+.+.     ++|+++.+++|++|++++   +|++++++||++++.+
T Consensus       155 aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~sg~~iev~vi~~~~~~~~~~~l~~~ei~~~~~~  234 (259)
T 1q5q_A          155 VMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPA  234 (259)
T ss_dssp             EESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSCC
T ss_pred             EECCChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccCCCCcEEEEEEECCCCcCCeEECCHHHHHHHHHH
Confidence            99999999999999999999999999999999999998     788889999999999985   7999999999998765


Q ss_pred             c
Q 026627          234 V  234 (235)
Q Consensus       234 ~  234 (235)
                      +
T Consensus       235 ~  235 (259)
T 1q5q_A          235 E  235 (259)
T ss_dssp             C
T ss_pred             h
Confidence            5

>3mi0_A Proteasome subunit alpha; enzyme inhibitors, lactones, proteasome endopeptidase comple mycobacterium tuberculosis, hydrolase; HET: SA6; 2.20A {Mycobacterium tuberculosis} SCOP: d.153.1.4 PDB: 3h6f_A 3krd_A* 3h6i_A* 3mka_A 2fhh_A* 2fhg_A 3hfa_D 3hf9_A 3mfe_D

Probab=100.00  E-value=2.6e-51  Score=340.81  Aligned_cols=213  Identities=24%  Similarity=0.377  Sum_probs=193.2

Q ss_pred             CCCCcc-chhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHH
Q 026627           14 SPSGKL-VQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK   92 (235)
Q Consensus        14 sp~Grl-~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~   92 (235)
                      |||+-+ .++|||.||+++|+|+|||+++||||||+|+|       +++.+|||+|++||+|+++|..+|++.+.+.++.
T Consensus         8 ~p~~~~~~r~EYA~~av~~GtT~vgi~~kdgVVlaadkr-------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~   80 (248)
T 3mi0_A            8 SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENP-------SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQ   80 (248)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSCCEEEEEETTEEEEEEECC-------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHH
T ss_pred             CHHHhcccchHHHHHHHhCCCcEEEEEeCCEEEEEEeCC-------CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHH
Confidence            677777 58999999999999999999999999999998       3578999999999999999999999999999999


Q ss_pred             HHHHHHHHhC-CCCCHHHHHHHHH-HHHHHHhhcCCcccceeEEEEEEEeC----CCCeEEEECCCCcEEe-eeEEeeCC
Q 026627           93 QAEQYHRLYK-EPIPVTQLVRETA-AVMQEFTQSGGVRPFGVSLLVAGYDD----KGPQLYQVDPSGSYFS-WKASAMGK  165 (235)
Q Consensus        93 ~~~~~~~~~~-~~i~~~~l~~~l~-~~~~~~~~~~~~rP~~~~~il~G~d~----~gp~Ly~id~~G~~~~-~~~~a~G~  165 (235)
                      +++.|++.++ .+++++.|+++++ .+.|.|++  +.|||+|++||||||+    +||+||.+||+|++.+ +++.|+|+
T Consensus        81 ~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~--~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gs  158 (248)
T 3mi0_A           81 FADTRGYAYDRRDVTGRQLANVYAQTLGTIFTE--QAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGG  158 (248)
T ss_dssp             HHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHH--SSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEEEESS
T ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhcc--CCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEEEECc
Confidence            9999999999 9999999999999 66788887  5899999999999998    7899999999999995 99999999


Q ss_pred             CchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhc-------cCCCCCCcEEEEEEecCC---cEEEcCHHHHHHHHHHcC
Q 026627          166 NVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGF-------EGQISEKNIEIGIIGEKK---EFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       166 ~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~-------~~~~~~~~iei~~i~~~~---~~~~l~~~ei~~~l~~~~  235 (235)
                      |++.++++|++.|+++|+++||++++++||+.+.       ++++++.+++|++|++++   .|++|+++||+++++.++
T Consensus       159 gs~~a~~~Le~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~~~~~~iev~vv~~~g~~~~f~~l~~~ei~~~l~~~~  238 (248)
T 3mi0_A          159 TTEPIANALKESYAENASLTDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLVDQE  238 (248)
T ss_dssp             CHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC------------CCTTEEEEEEETTSSSCCEEECCHHHHHHTC----
T ss_pred             cHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcccCcccccCCCcEEEEEEECCCCcccEEECCHHHHHHHHHHcC
Confidence            9999999999999999999999999999999998       566789999999999985   499999999999988753

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H

Probab=100.00  E-value=1.8e-48  Score=318.63  Aligned_cols=204  Identities=22%  Similarity=0.392  Sum_probs=189.3

Q ss_pred             HhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCC
Q 026627           27 TAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPI  105 (235)
Q Consensus        27 ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i  105 (235)
                      .++.+|+|+|||+++||||||+|+|.++ +++.+++.+||++|+++++|+++|..+|++.+.++++.+++.|++++++++
T Consensus         3 ~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T 1yar_H            3 QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNM   82 (217)
T ss_dssp             ------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CCCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            4678999999999999999999999986 788889999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHH
Q 026627          106 PVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD  185 (235)
Q Consensus       106 ~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~  185 (235)
                      +++.+++++++.+|.++    .|||++++|+|||| +||+||.+||.|++.+++++|+|+|+++++++|++.|+++|+++
T Consensus        83 ~v~~la~~l~~~~~~~r----~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~e  157 (217)
T 1yar_H           83 PIEAVATLLSNMLNQVK----YMPYMVQLLVGGID-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVD  157 (217)
T ss_dssp             CHHHHHHHHHHHHHHTT----TSCCCEEEEEEEES-SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHH
T ss_pred             CHHHHHHHHHHHHHhcC----CCCceEEEEEEEEC-CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCCCHH
Confidence            99999999999998753    78999999999999 89999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          186 DAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       186 ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      ||++++++||+.+.++|. ++.+++|++|+++.++++++++||++++++++
T Consensus       158 ea~~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei~~~~~~~~  208 (217)
T 1yar_H          158 EGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKLG  208 (217)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHHHHHHHHHH
Confidence            999999999999999985 88999999999944699999999999998764

>3h4p_a Proteasome subunit beta; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii}

Probab=100.00  E-value=2.8e-48  Score=317.91  Aligned_cols=199  Identities=23%  Similarity=0.383  Sum_probs=190.0

Q ss_pred             CCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 026627           32 GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQL  110 (235)
Q Consensus        32 G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  110 (235)
                      |+|+|||+++||||||+|+|.++ .++..++.+||++|++||+|+++|..+|++.+.++++.+++.|+++++.+++++.+
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLAC   80 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHH
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            79999999999999999999986 57778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeee-EEeeCCCchHHHHHHHHhccCCCCHHHHH
Q 026627          111 VRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWK-ASAMGKNVSNAKTFLEKRYVEEMELDDAV  188 (235)
Q Consensus       111 ~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~-~~a~G~~s~~~~~~L~~~~~~~~s~~ea~  188 (235)
                      ++++++++|.++    .|||++++||||||+ +||+||.+||.|++.+++ +.|+|+|+++++++|++.|+++|+++||+
T Consensus        81 a~~l~~~~~~~~----~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~  156 (219)
T 3h4p_a           81 ATLLSNILHSSR----MFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGI  156 (219)
T ss_dssp             HHHHHHHHHHTT----TTTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHH
T ss_pred             HHHHHHHHHHhc----CCCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHH
Confidence            999999998874    689999999999998 789999999999999998 99999999999999999999999999999


Q ss_pred             HHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          189 HTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       189 ~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      +++++||..+.++|. ++.+++|++|+++ ++++++++||+++|++++
T Consensus       157 ~la~~al~~~~~rd~~sg~~i~v~vi~~~-g~~~l~~~ei~~~l~~~~  203 (219)
T 3h4p_a          157 KLALNALKSAMERDTFSGNGISLAVITKD-GVKIFEDEEIEKILDSMK  203 (219)
T ss_dssp             HHHHHHHHHHHTSCSSCCSCCCEEEEETT-EEEECCHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CeEEcCHHHHHHHHHHhh
Confidence            999999999999985 8899999999998 599999999999999875

>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4

Probab=100.00  E-value=1.3e-47  Score=310.46  Aligned_cols=198  Identities=26%  Similarity=0.424  Sum_probs=189.7

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T 1j2q_H            1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEECCCcCcCCEEeeccccCEEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            6899999999999999999986 788888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeee-EEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWK-ASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~-~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++.+|.++    .|||++++|+||||++||+||.+||.|++.+++ ++|+|+|+++++++|++.|+++|+++||+++
T Consensus        81 ~~l~~~~~~~r----~rp~~~~~lvaG~D~~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l  156 (202)
T 1j2q_H           81 TLTSNLLNSYR----YFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL  156 (202)
T ss_dssp             HHHHHHHHHTT----TSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhC----CCCceEEEEEEEEeCCCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHH
Confidence            99999998753    789999999999999899999999999999999 9999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      +++||+.+.++|. ++.+++|++|+++ ++++++++|+++++++++
T Consensus       157 a~~al~~~~~~d~~s~~~i~v~vi~~~-g~~~l~~~ei~~~~~~~~  201 (202)
T 1j2q_H          157 AVRAIYSAMKRDSASGDGIDVVKITED-EFYQYSPEEVEQILAKFR  201 (202)
T ss_dssp             HHHHHHHHHTTCTTSCSCEEEEEECSS-CEEECHHHHHHHHGGGTT
T ss_pred             HHHHHHHHHhcCCCCCCcEEEEEEeCC-CeEEeCHHHHHHHHHHhh
Confidence            9999999999985 8899999999998 599999999999998875

>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB: 3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H* 3h6i_C 3h6f_C 3hf9_H 3mfe_H

Probab=100.00  E-value=5.9e-47  Score=321.25  Aligned_cols=228  Identities=17%  Similarity=0.189  Sum_probs=175.1

Q ss_pred             CCCCCcccccCCCCcc-----ch--hhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEE
Q 026627            4 SQYSFSLTTFSPSGKL-----VQ--IEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVV   75 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl-----~Q--~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~   75 (235)
                      ++|+..+...+||..-     +|  +|||.+ +.+|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++|+
T Consensus        23 ~~f~~~~~~~~~~~l~~~~~~~~~~~~ya~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~~  101 (291)
T 2jay_A           23 SSFTDFLRRQAPELLPASISGGAPLAGGDAQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATG  101 (291)
T ss_dssp             ------------------------------------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEEE
T ss_pred             ccHHHHhhhcChhhccccccccCcCcccccc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEEE
Confidence            6777778888887543     33  689999 99999999999999999999999997 477788999999999999999


Q ss_pred             EecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCC-C-----CeEEEE
Q 026627           76 YSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-G-----PQLYQV  149 (235)
Q Consensus        76 ~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~-g-----p~Ly~i  149 (235)
                      ++|..+|++.+.+.++.+++.|++.++.+++++.+++.+++++|.+++ ..+|||+|++||||||++ +     |+||.+
T Consensus       102 ~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~-~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~i  180 (291)
T 2jay_A          102 IAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLA-AAMQGLLALPLLAGYDIHASDPQSAGRIVSF  180 (291)
T ss_dssp             EESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHH-HHHHTCCCEEEEEEECTTCSCSTTCEEEEEE
T ss_pred             EcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhh-hhccccceeEEEEEEeCCCCcCCCCCEEEEE
Confidence            999999999999999999999999999999999999999999998875 347899999999999985 4     899999


Q ss_pred             CCCCcEE--eeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcE--------EEEEEecCCcE
Q 026627          150 DPSGSYF--SWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNI--------EIGIIGEKKEF  219 (235)
Q Consensus       150 d~~G~~~--~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~i--------ei~~i~~~~~~  219 (235)
                      ||.|++.  ++++.|+|+|+++++++|++.|+++|+++||++++++||+.+.++|...+++        +|++|+++ ++
T Consensus       181 Dp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~v~vi~~d-g~  259 (291)
T 2jay_A          181 DAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIIDAD-GA  259 (291)
T ss_dssp             CTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC----------------CCEEEEEETT-EE
T ss_pred             CCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCEEEEEECC-Ce
Confidence            9999999  7899999999999999999999999999999999999999999998743344        69999998 59


Q ss_pred             EEcCHHHHHHHHHHc
Q 026627          220 RVLTPNEIRDYLAEV  234 (235)
Q Consensus       220 ~~l~~~ei~~~l~~~  234 (235)
                      ++++++||+++++.+
T Consensus       260 ~~l~~~ei~~~~~~~  274 (291)
T 2jay_A          260 VDVPESRIAELARAI  274 (291)
T ss_dssp             EECCHHHHHHHHHHC
T ss_pred             EEcCHHHHHHHHHHH
Confidence            999999999999876

>3nzj_K Proteasome component PRE2; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_K* 3nzx_K* 4b4t_5

Probab=100.00  E-value=2.6e-47  Score=322.66  Aligned_cols=217  Identities=17%  Similarity=0.261  Sum_probs=188.3

Q ss_pred             cCCCCccchhh------cHHHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHH
Q 026627           13 FSPSGKLVQIE------HALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRV   85 (235)
Q Consensus        13 fsp~Grl~Q~e------ya~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (235)
                      =||+.-|-+..      ++.+++.+|+|+|||+++||||||+|+|.++ +++..++.+||++|++|++|+++|..+|++.
T Consensus        50 ~~p~~~~~~~~~~~~~~~~~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~  129 (287)
T 3nzj_K           50 ASPQQFLRAHTDDSRNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQF  129 (287)
T ss_dssp             --------------------------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHH
T ss_pred             CCHHHHHHHhcccccccchhhheccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHH
Confidence            46777665442      7899999999999999999999999999986 7788899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEe-CCCCeEEEECCCCcEEeeeEEeeC
Q 026627           86 LVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMG  164 (235)
Q Consensus        86 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d-~~gp~Ly~id~~G~~~~~~~~a~G  164 (235)
                      +.++++.+++.|+++++++++++.+++++++++|.+++    +||++++|||||| ++||+||.+||.|++.++++.|+|
T Consensus       130 l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~----~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~~~~~AiG  205 (287)
T 3nzj_K          130 WETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVG  205 (287)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTT----SCCCEEEEEEEEETTTEEEEEEEETTCCEEECSEEEES
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcC----CCceEEEEEEEEcCCCCCEEEEECCCceEEEcCeEEEe
Confidence            99999999999999999999999999999999998874    4999999999999 578999999999999999999999


Q ss_pred             CCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          165 KNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       165 ~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+++++++|++.|+++|+++||++++++||..+.++|. ++.+++|++|+++ +|++++++||++++.++
T Consensus       206 sgs~~a~~~Le~~y~~dms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkd-g~~~l~~~ev~~~l~~~  275 (287)
T 3nzj_K          206 SGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTED-GWIYHGNHDVGELFWKV  275 (287)
T ss_dssp             TTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETT-EEEEEEEEEHHHHHHHH
T ss_pred             cchHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCC-CEEEeCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999985 8899999999998 59999999999987654

>1q5r_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, hydrolase; 3.10A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_H

Probab=100.00  E-value=1.9e-46  Score=318.40  Aligned_cols=209  Identities=16%  Similarity=0.190  Sum_probs=195.0

Q ss_pred             HHHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCC
Q 026627           25 ALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKE  103 (235)
Q Consensus        25 a~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~  103 (235)
                      |.||+++|+|+|||+++||||||+|+|.++ +++..++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++.
T Consensus        58 a~~Av~~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g~  137 (294)
T 1q5r_H           58 SGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGV  137 (294)
T ss_dssp             --CCSCBCCCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHhcCceEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhCC
Confidence            899999999999999999999999999996 7888899999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCC-C-----CeEEEECCCCcEEee--eEEeeCCCchHHHHHHH
Q 026627          104 PIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-G-----PQLYQVDPSGSYFSW--KASAMGKNVSNAKTFLE  175 (235)
Q Consensus       104 ~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~-g-----p~Ly~id~~G~~~~~--~~~a~G~~s~~~~~~L~  175 (235)
                      +++++.+++.+++++|.+++.. +|||++++||||||++ |     |+||.+||.|++.++  +++|+|+|+++++++|+
T Consensus       138 ~isv~~la~~la~~l~~~~~~~-~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~Le  216 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALK  216 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHH-TTTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhh-cCCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHHH
Confidence            9999999999999999988754 7999999999999985 6     999999999999999  89999999999999999


Q ss_pred             HhccCCCCHHHHHHHHHHHHHhhccCCC-CCC--cE-----EEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          176 KRYVEEMELDDAVHTAILTLKEGFEGQI-SEK--NI-----EIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       176 ~~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~--~i-----ei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      +.|+++|+++||++++++||+.+.++|. ++.  .+     +|++|+++ ++++++++|+++++++++
T Consensus       217 ~~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~~~-g~~~l~~~ei~~~l~~i~  283 (294)
T 1q5r_H          217 KIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQA-GAVHVSEETTSELARRIV  283 (294)
T ss_dssp             HHCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETT-EEEECCHHHHHHHHHHHC
T ss_pred             HhccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEECC-CEEEcCHHHHHHHHHHHH
Confidence            9999999999999999999999999986 443  25     99999987 599999999999998763

>1iru_L 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_K* 3une_K 3unf_K* 3unh_K

Probab=100.00  E-value=1e-46  Score=305.56  Aligned_cols=198  Identities=19%  Similarity=0.321  Sum_probs=189.2

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+||++++||||||+|+|.++ +++..++.+||++|++|++++++|..+|++.+.+.++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (204)
T 1iru_L            1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (204)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCCEEEcCcccceEEcCCCEEEEccCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            6899999999999999999987 688888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++.+|.+++    +||++++|+||||++||+||.+||.|++.+++++|+|+|+++++++|++.|+++|+++||++++
T Consensus        81 ~~l~~~~~~~r~----~~~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~  156 (204)
T 1iru_L           81 KLLANMVYQYKG----MGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLA  156 (204)
T ss_dssp             HHHHHHHHTTTT----SCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHhCC----CCeeEEEEEEEEeCCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHHH
Confidence            999999998863    5899999999999989999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      ++||+.+.++|. ++.+++|++|+++ ++++++++|++++++.++
T Consensus       157 ~~al~~~~~rd~~s~~~i~v~vi~~~-g~~~l~~~ei~~~~~~~~  200 (204)
T 1iru_L          157 RRAIYQATYRDAYSGGAVNLYHVRED-GWIRVSSDNVADLHEKYS  200 (204)
T ss_dssp             HHHHHHHHHHBTTCCSEEEEEEECSS-CEEEEEEEEHHHHHHHHT
T ss_pred             HHHHHHHHHhCccCCCceEEEEEeCC-ceEEeCHHHHHHHHHHhc
Confidence            999999999885 8999999999987 599999999999998764

>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L 1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K* 2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K* 3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ...

Probab=100.00  E-value=1e-45  Score=301.39  Aligned_cols=197  Identities=16%  Similarity=0.269  Sum_probs=187.8

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (212)
T 1ryp_L            1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCCeEecCcccceeeeCCcEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            6899999999999999999987 788888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEe-CCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d-~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++.+|.+++    .||++++|+|||| ++||+||.+||.|++.+++++|+|+|+++++++|++.|+++||++||+++
T Consensus        81 ~~l~~~~~~~~~----~p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l  156 (212)
T 1ryp_L           81 KILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  156 (212)
T ss_dssp             HHHHHHHHHTTT----SCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhCC----CCceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHH
Confidence            999999999985    3899999999999 57899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +++||+.+.++|. ++.+++|++|+++ ++++++++|+++++.++
T Consensus       157 a~~al~~~~~rd~~s~~~i~v~vi~~~-g~~~~~~~ei~~~~~~~  200 (212)
T 1ryp_L          157 GKRSILAAAHRDAYSGGSVNLYHVTED-GWIYHGNHDVGELFWKV  200 (212)
T ss_dssp             HHHHHHHHHHHBTTCCSEEEEEEEETT-EEEEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCceEEEEEcCC-ceEEECHHHHHHHHHHH
Confidence            9999999999885 8999999999987 59999999999998764

>1iru_N 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_M* 3une_M 3unf_M* 3unh_M

Probab=100.00  E-value=2.4e-46  Score=306.51  Aligned_cols=201  Identities=17%  Similarity=0.144  Sum_probs=188.8

Q ss_pred             HHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHH-HhCC
Q 026627           26 LTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHR-LYKE  103 (235)
Q Consensus        26 ~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-~~~~  103 (235)
                      ++|+.+|+|+|||+++||||||+|+|.++ +++.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|++ +++.
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (219)
T 1iru_N            2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (219)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            46889999999999999999999999986 788888999999999999999999999999999999999999998 8999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccC--C
Q 026627          104 PIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE--E  181 (235)
Q Consensus       104 ~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~--~  181 (235)
                      +++++.+++++++.++.+  +.+.|||++++|+||+|++||+||.+||.|++.+++++++|+|+++++++|++.|++  +
T Consensus        82 ~~~v~~la~~l~~~ly~~--r~~~~P~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~  159 (219)
T 1iru_N           82 SYSPRAIHSWLTRAMYSR--RSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPV  159 (219)
T ss_dssp             CCCHHHHHHHHHHHHHHH--HHTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSC
T ss_pred             CCCHHHHHHHHHHHHHHh--cccCCCceEEEEEEEEECCCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCCC
Confidence            999999999999998754  345899999999999999899999999999999999999999999999999999999  9


Q ss_pred             CCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHH
Q 026627          182 MELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRD  229 (235)
Q Consensus       182 ~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~  229 (235)
                      |+++||++++++||..+.++|. ++.+++|++|++++ ++.++++||+.
T Consensus       160 mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g-~~~~~~~~i~~  207 (219)
T 1iru_N          160 LSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKG-VEIEGPLSTET  207 (219)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTE-EEEEEEECCCC
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCC-EEEcCCeeccc
Confidence            9999999999999999999985 89999999999974 99999888754

>1iru_H 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_N* 3une_N

Probab=100.00  E-value=4.3e-46  Score=302.14  Aligned_cols=195  Identities=18%  Similarity=0.237  Sum_probs=185.2

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (205)
T 1iru_H            1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (205)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEecCCcCceEEcCCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999975 88888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++.+|.+++     ||++++|+||||+ +||+||.+||.|++.+++++++|+|+++++++|++.|+++|+++||+++
T Consensus        81 ~~l~~~~~~~~~-----p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l  155 (205)
T 1iru_H           81 SLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQF  155 (205)
T ss_dssp             HHHHHHHHHTTT-----TCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhcCc-----CccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            999999998874     9999999999998 7899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCc-EEEcCHHHHHHHHH
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKE-FRVLTPNEIRDYLA  232 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~-~~~l~~~ei~~~l~  232 (235)
                      +++||+.+.++|. ++.+++|++|++++. ++.++++||+++++
T Consensus       156 ~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~~  199 (205)
T 1iru_H          156 TANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAV  199 (205)
T ss_dssp             HHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCCC
T ss_pred             HHHHHHHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHHh
Confidence            9999999999984 899999999999864 78899999987664

>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_H* 3nzx_H* 4b4t_2

Probab=100.00  E-value=3.2e-45  Score=306.25  Aligned_cols=206  Identities=20%  Similarity=0.312  Sum_probs=176.4

Q ss_pred             cCCCCccchhhc-HHHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHH
Q 026627           13 FSPSGKLVQIEH-ALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS   90 (235)
Q Consensus        13 fsp~Grl~Q~ey-a~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~   90 (235)
                      +..+-.|.+--+ ..||+++|+|+|||+++||||||+|+|.++ .++..++.+||++|++|++|+++|..+|++.+.+.+
T Consensus         9 ~~rn~~~~~~~~~~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~l   88 (261)
T 3nzj_H            9 YQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLI   88 (261)
T ss_dssp             ---------------------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHH
T ss_pred             hhhHHHHHhcCCCCCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHH
Confidence            344444544333 678999999999999999999999999986 677788999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHH
Q 026627           91 RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNA  170 (235)
Q Consensus        91 ~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~  170 (235)
                      +.+++.|+++++++++++.+++++++.++.+     .+||++++||||||++||+||.+||.|++.++++.|+|+|++.+
T Consensus        89 r~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~-----~~~~gv~llvaG~D~~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a  163 (261)
T 3nzj_H           89 GSNIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAA  163 (261)
T ss_dssp             HHHHHHHHHHHTSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHH
T ss_pred             HHHHHHhHHhhCCCCCHHHHHHHHHHHHHHh-----cCcccEEEEEEEEeCCCCEEEEECCCccEEecCeEEeccchHHH
Confidence            9999999999999999999999999988765     47999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcC
Q 026627          171 KTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLT  223 (235)
Q Consensus       171 ~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~  223 (235)
                      +++||+.|+++|+++||++++++||..+.++|. ++.+++|++|++++.++.+.
T Consensus       164 ~~~Le~~~~~~ms~eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~~~~~  217 (261)
T 3nzj_H          164 MAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLR  217 (261)
T ss_dssp             HHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEE
T ss_pred             HHHHHHHhccCCCHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcEEEec
Confidence            999999999999999999999999999999986 89999999999997566544

>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4

Probab=100.00  E-value=5.5e-45  Score=301.36  Aligned_cols=200  Identities=17%  Similarity=0.215  Sum_probs=187.8

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|+++++|+++|..+|++.+.++++.+++.|+++++.+++++.++
T Consensus         1 tT~vgi~~~dgVVlaaD~r~~~g~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (235)
T 1q5q_H            1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (235)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCCcCCEEecCCcCcEEEeCCcEEEEcCCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHH
Confidence            6899999999999999999996 788889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCC-C-----CeEEEECCCCcEEee--eEEeeCCCchHHHHHHHHhccCCCC
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-G-----PQLYQVDPSGSYFSW--KASAMGKNVSNAKTFLEKRYVEEME  183 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~-g-----p~Ly~id~~G~~~~~--~~~a~G~~s~~~~~~L~~~~~~~~s  183 (235)
                      +.+++++|.+++.. .|||++++||||||++ |     |+||.+||.|++.++  +++|+|+|+++++++|++.|+++|+
T Consensus        81 ~~l~~~~~~~~~~~-~rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms  159 (235)
T 1q5q_H           81 NRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSD  159 (235)
T ss_dssp             HHHHHHHHTTHHHH-TTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHHHHhh-hcccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCC
Confidence            99999999887764 7999999999999985 7     999999999999999  9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccCCC-CCC-c-E-----EEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          184 LDDAVHTAILTLKEGFEGQI-SEK-N-I-----EIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       184 ~~ea~~l~~~~l~~~~~~~~-~~~-~-i-----ei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      ++||++++++||..+.++|. +++ . +     +|++|+++ ++++++++|++++++++
T Consensus       160 ~eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~~~-g~~~l~~~ei~~~~~~~  217 (235)
T 1q5q_H          160 EETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQA-GAVHVSEETTSELARRI  217 (235)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETT-EEEECCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEeCC-CeEEeCHHHHHHHHHHH
Confidence            99999999999999999886 443 2 2     99999987 59999999999999875

>1ryp_N 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_N* 1jd2_M* 1g65_M 1vsy_N 1z7q_N 2f16_M* 2fak_M* 2fny_M* 2gpl_M* 3d29_M* 3dy3_M* 3dy4_M* 3e47_M* 3gpj_M* 3gpt_M* 3gpw_M* 3hye_M* 3l5q_R 3mg0_M* 3mg4_M* ...

Probab=100.00  E-value=3e-46  Score=308.64  Aligned_cols=203  Identities=18%  Similarity=0.206  Sum_probs=189.7

Q ss_pred             HHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHH-----
Q 026627           26 LTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHR-----   99 (235)
Q Consensus        26 ~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-----   99 (235)
                      ++|+.+|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++     
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (233)
T 1ryp_N            2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             cccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchh
Confidence            46789999999999999999999999986 678888999999999999999999999999999999999999999     


Q ss_pred             HhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCC-CCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhc
Q 026627          100 LYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY  178 (235)
Q Consensus       100 ~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~-gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~  178 (235)
                      +++.+++++.+++++++.++.+  +.+.|||++++|+||+|++ ||+||.+||.|++.++++.++|+|+++++++|++.|
T Consensus        82 ~~~~~~~v~~la~~l~~~ly~~--r~~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~  159 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVMYQR--RSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHH--HHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             hcCCCCCHHHHHHHHHHHHHHh--cCCCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhh
Confidence            8999999999999999998654  4457999999999999985 899999999999999999999999999999999999


Q ss_pred             cC-----CCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHH
Q 026627          179 VE-----EMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDY  230 (235)
Q Consensus       179 ~~-----~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~  230 (235)
                      ++     +|+++||++++++||+.+.++|. ++.+++|++|+++++++.++++||+.+
T Consensus       160 ~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~~~~~~~~i~~~  217 (233)
T 1ryp_N          160 DRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM  217 (233)
T ss_dssp             SSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSC
T ss_pred             ccccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCeEEcChHhcccc
Confidence            99     99999999999999999999985 899999999999846999999887654

>1ryp_H 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 3nzj_N* 3nzw_N* 3nzx_N* 1vsy_H 3l5q_B 1g65_N* 1fnt_H 1g0u_N* 1jd2_N* 1z7q_H 2f16_N* 2fak_N* 2fny_N* 2gpl_N* 2zcy_N* 3bdm_N* 3d29_N* 3dy3_N* 3dy4_N* 3e47_N* ...

Probab=100.00  E-value=7.7e-45  Score=294.75  Aligned_cols=187  Identities=16%  Similarity=0.246  Sum_probs=178.4

Q ss_pred             HHHhhcCCCcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCC
Q 026627           25 ALTAVGSGQTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKE  103 (235)
Q Consensus        25 a~ka~~~G~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~  103 (235)
                      ..||+++|+|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|+++|..+|++.+.++++.+++.|++++++
T Consensus         2 ~~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   81 (205)
T 1ryp_H            2 KKGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT   81 (205)
T ss_dssp             CTTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            3578999999999999999999999999975 787889999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCC
Q 026627          104 PIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM  182 (235)
Q Consensus       104 ~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~  182 (235)
                       ++++.+++++++.+|.+++.     |++++|+||||+ +||+||.+||.|++.++++.++|+|+++++++|++.|+++|
T Consensus        82 -~~v~~la~~l~~~~~~~~~~-----~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~  155 (205)
T 1ryp_H           82 -PSTETAASVFKELCYENKDN-----LTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENM  155 (205)
T ss_dssp             -CCHHHHHHHHHHHHHHTTTT-----CCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTC
T ss_pred             -CCHHHHHHHHHHHHHhhhcC-----ceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCC
Confidence             99999999999999998752     999999999997 78999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC
Q 026627          183 ELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK  217 (235)
Q Consensus       183 s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~  217 (235)
                      +++||++++++||+.+.++|. ++.+++|++|++++
T Consensus       156 s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g  191 (205)
T 1ryp_H          156 SKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAG  191 (205)
T ss_dssp             CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTE
T ss_pred             CHHHHHHHHHHHHHHHHHhCCccCCeEEEEEEcCCC
Confidence            999999999999999999985 89999999999986

>3unf_H Proteasome subunit beta type-10; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_H

Probab=100.00  E-value=8.7e-45  Score=299.53  Aligned_cols=190  Identities=24%  Similarity=0.357  Sum_probs=179.7

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+|||+++||||||+|+|.+++ ++..++.+||++|++|++|+++|..+|++.+.+.++.+++.|+++++++++++.++
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVT   80 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEecCCEEEEecccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHH
Confidence            68999999999999999999875 45678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++.++.+     .+||++++|+||+|++||+||.+||.|++.++++.|+|+|+++++++|++.|+++|+++||++++
T Consensus        81 ~~l~~~l~~~-----~~p~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la  155 (234)
T 3unf_H           81 RILRQTLFRY-----QGHVGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELL  155 (234)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHH
T ss_pred             HHHHHHHHhc-----CCCccEEEEEEEEeCCCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHHH
Confidence            9999998865     36999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHH
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIR  228 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~  228 (235)
                      ++||+.+..+|. ++.+++|++|+++ +++.+++.+++
T Consensus       156 ~~al~~~~~~D~~sg~~iev~vi~~d-g~~~l~~~~i~  192 (234)
T 3unf_H          156 VEAITAGILSDLGSGGNVDACVITAG-GAKLQRALSTP  192 (234)
T ss_dssp             HHHHHHHHHHBTTCCSCEEEEEEESS-CEEEEEEEECC
T ss_pred             HHHHHHHHhhcCCCCCcEEEEEEECC-CEEEeCceecc
Confidence            999999999986 8999999999998 59998887764

>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K 1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J* 2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J* 3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ...

Probab=100.00  E-value=3.5e-44  Score=289.33  Aligned_cols=189  Identities=20%  Similarity=0.291  Sum_probs=177.4

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.+++ ++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   81 (198)
T 1ryp_K            2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVS   81 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             ceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            68999999999999999999865 45567999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC--CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD--KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVH  189 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~--~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~  189 (235)
                      +++++.+|.+++.  ++||++++|+||||+  +||+||.+||.|++.+++++|+|+|+++++++|++.|+++|+++||++
T Consensus        82 ~~l~~~l~~~~~~--r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~  159 (198)
T 1ryp_K           82 SFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLD  159 (198)
T ss_dssp             HHHHHHHHHHTTS--SSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHHhccc--CCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHH
Confidence            9999999988753  359999999999996  789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCH
Q 026627          190 TAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTP  224 (235)
Q Consensus       190 l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~  224 (235)
                      ++++||..+.++|. ++.+++|++|+++ +++++++
T Consensus       160 l~~~al~~~~~~d~~s~~~i~v~vi~~~-g~~~~~~  194 (198)
T 1ryp_K          160 LLKLCVQELEKRMPMDFKGVIVKIVDKD-GIRQVDD  194 (198)
T ss_dssp             HHHHHHHHHHHHCSBCCCCEEEEEEETT-EEEEECC
T ss_pred             HHHHHHHHHHHhCccCCCceEEEEEcCC-CEEEecc
Confidence            99999999999884 8999999999997 5888875

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=1.5e-45  Score=309.87  Aligned_cols=207  Identities=18%  Similarity=0.206  Sum_probs=191.0

Q ss_pred             hhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHH-
Q 026627           22 IEHALTAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHR-   99 (235)
Q Consensus        22 ~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-   99 (235)
                      .+-+.+++.+|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++|+++|..+|++.|.+.++.+++.|++ 
T Consensus        31 ~~~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~  110 (266)
T 1g0u_M           31 MVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYD  110 (266)
T ss_dssp             ---CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhhhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhc
Confidence            466778899999999999999999999999986 678888999999999999999999999999999999999999998 


Q ss_pred             ----HhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCC-CCeEEEECCCCcEEeeeEEeeCCCchHHHHHH
Q 026627          100 ----LYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFL  174 (235)
Q Consensus       100 ----~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~-gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L  174 (235)
                          .++.+++++.+++++++.++.+  +.+.|||++++||||+|++ ||+||.+||.|++.++++.++|+|+++++++|
T Consensus       111 ~~~~~~~~~~~v~~la~~l~~~ly~~--r~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~L  188 (266)
T 1g0u_M          111 NPLADAEEALEPSYIFEYLATVMYQR--RSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLL  188 (266)
T ss_dssp             CTTTTTTTSCCHHHHHHHHHHHHHHH--HHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHHHHH
T ss_pred             cchhhcCCCCCHHHHHHHHHHHHHHh--ccCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHHHHH
Confidence                8999999999999999998654  3457999999999999985 89999999999999999999999999999999


Q ss_pred             HHhccC-----CCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHH
Q 026627          175 EKRYVE-----EMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDY  230 (235)
Q Consensus       175 ~~~~~~-----~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~  230 (235)
                      ++.|++     +|+++||++++++||+.+.++|. ++.+++|++|+++++++.++++||+.+
T Consensus       189 e~~~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~~~~~~~ei~~~  250 (266)
T 1g0u_M          189 RKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM  250 (266)
T ss_dssp             TTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCCC
T ss_pred             HHhhcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCeEEcCHHHhhhh
Confidence            999999     99999999999999999999985 899999999999846999998887654

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L

Probab=100.00  E-value=2.1e-43  Score=287.96  Aligned_cols=187  Identities=19%  Similarity=0.288  Sum_probs=174.7

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCCCc-cccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPSIL-VDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPV  107 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~~l-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  107 (235)
                      +++|+|+|||+++||||||+|+|.++++ +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++++++++++
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   85 (213)
T 1iru_M            6 VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             cCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCCH
Confidence            5799999999999999999999999754 556799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCC-CeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHh---------
Q 026627          108 TQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKR---------  177 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~---------  177 (235)
                      +.+++++++.++  +++  .|||++++|+||||++| |+||.+||.|++.+++++|+|+|+++++++|++.         
T Consensus        86 ~~la~~l~~~~y--~~r--~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~  161 (213)
T 1iru_M           86 GAIAAMLSTILY--SRR--FFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNV  161 (213)
T ss_dssp             HHHHHHHHHHHH--HTT--TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSC
T ss_pred             HHHHHHHHHHHH--hhC--CCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhcccccccccc
Confidence            999999999985  443  68999999999999755 9999999999999999999999999999999999         


Q ss_pred             ccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEE
Q 026627          178 YVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFR  220 (235)
Q Consensus       178 ~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~  220 (235)
                      |+++|+++||++++++||..+.++|. ++.+++|++|++++ ++
T Consensus       162 ~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g-~~  204 (213)
T 1iru_M          162 EHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEG-IR  204 (213)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTE-EE
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCC-eE
Confidence            88999999999999999999999985 89999999999985 44

>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H* 1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H* 2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H* 3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ...

Probab=100.00  E-value=2e-43  Score=289.71  Aligned_cols=187  Identities=20%  Similarity=0.303  Sum_probs=175.7

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEecCCEEEEecccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            68999999999999999999875 46677999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++.++.+     .|||++++|+||+|++||+||.+||.|++.++++.|+|+|+++++++|++.|+++|+++||++++
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la  155 (222)
T 1ryp_I           81 QMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLA  155 (222)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHH
T ss_pred             HHHHHHHhhc-----CCCCCeeEEEEEEeCCCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHHH
Confidence            9999998766     47999999999999989999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCH
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTP  224 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~  224 (235)
                      ++||+.+.++|. ++.+++|++++++++++.+.+
T Consensus       156 ~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~  189 (222)
T 1ryp_I          156 SDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRN  189 (222)
T ss_dssp             HHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEE
T ss_pred             HHHHHHHHhccccCCCcEEEEEEECCCCEEEEec
Confidence            999999999986 799999999999854776543

>1ryp_M 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_M* 1jd2_L* 1g65_L 1vsy_M 1z7q_M 2f16_L* 2fak_L* 2fny_L* 2gpl_L* 3d29_L* 3dy3_L* 3dy4_L* 3e47_L* 3gpj_L* 3gpt_L* 3gpw_L* 3hye_L* 3l5q_Q 3mg0_L* 3mg4_L* ...

Probab=100.00  E-value=5.6e-43  Score=287.07  Aligned_cols=187  Identities=21%  Similarity=0.314  Sum_probs=174.7

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCCCc-cccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhC-CCCC
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPSIL-VDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYK-EPIP  106 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~~l-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~  106 (235)
                      +++|+|+|||+++||||||+|+|.++++ +..++.+||++|++|++|+++|..+|++.+.+.++.+++.|+++++ ++++
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T 1ryp_M            6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             ccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence            6799999999999999999999999754 5678999999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCC-CeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHh--------
Q 026627          107 VTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKR--------  177 (235)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~--------  177 (235)
                      ++.+++++++.++..  +  .+||++++||||||++| |+||.+||.|++.++++.|+|+|+++++++|++.        
T Consensus        86 v~~la~~l~~~ly~~--r--~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~  161 (222)
T 1ryp_M           86 INSAARNIQHLLYGK--R--FFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYE  161 (222)
T ss_dssp             HHHHHHHHHHHHHTT--T--TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBC
T ss_pred             HHHHHHHHHHHHHhc--C--CCCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhcccccccccc
Confidence            999999999988543  2  67999999999999755 9999999999999999999999999999999998        


Q ss_pred             ---------ccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEE
Q 026627          178 ---------YVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFR  220 (235)
Q Consensus       178 ---------~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~  220 (235)
                               |+++|+++||++++++||..+.++|. ++.+++|++|++++ ++
T Consensus       162 ~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi~~~g-~~  213 (222)
T 1ryp_M          162 PGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDG-VR  213 (222)
T ss_dssp             TTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTE-EE
T ss_pred             cccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEcCCC-eE
Confidence                     88999999999999999999999985 89999999999985 44

>1iru_K 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_J* 3une_J 3unf_J* 3unh_J

Probab=100.00  E-value=1.1e-42  Score=281.32  Aligned_cols=188  Identities=21%  Similarity=0.273  Sum_probs=173.9

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.++ +++..++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   81 (201)
T 1iru_K            2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAA   81 (201)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            6899999999999999999987 688888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++.+....+.  .|||++++|+||||+ +||+||.+||.|++.+++++|+|+|+++++++|++.|+++|+++||+++
T Consensus        82 ~~~~~~l~~~~~~--~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l  159 (201)
T 1iru_K           82 NFTRRNLADCLRS--RTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVEL  159 (201)
T ss_dssp             HHHHHHHHHHHTS--SSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHhc--CCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHH
Confidence            9988765222221  379999999999997 6899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcC
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLT  223 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~  223 (235)
                      +++||+.+.++|. ++.+++|++|+++ +++++.
T Consensus       160 ~~~al~~a~~rd~~sg~~i~v~vi~~~-g~~~~~  192 (201)
T 1iru_K          160 LRKCLEELQKRFILNLPTFSVRIIDKN-GIHDLD  192 (201)
T ss_dssp             HHHHHHHHHHTBCBCCCCEEEEEEETT-EEECCC
T ss_pred             HHHHHHHHHhhccccCCceEEEEEcCC-CeEEee
Confidence            9999999999986 8999999999998 477665

>3unf_N Proteasome subunit beta type-9; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_N

Probab=100.00  E-value=7.9e-44  Score=287.52  Aligned_cols=193  Identities=18%  Similarity=0.239  Sum_probs=179.4

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+|||+++||||||+|+|.+++ ++..++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (199)
T 3unf_N            1 TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAA   80 (199)
T ss_dssp             CEEEEEECSSCEEEEECCCEEETTEEEESSCCCEEEEETTEEEEECSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             CeEEEEEeCCeEEEEECCcccCCceeEccccCceEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999974 78889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEee-eEEeeCCCchHHHHHHHHhccCCCCHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSW-KASAMGKNVSNAKTFLEKRYVEEMELDDAVH  189 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~-~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~  189 (235)
                      +++++.+|.+     .|||++++|+||+|+ +||+||.  |.|++.++ ++.++|+|+++++++|++.|+++|+++||++
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~  153 (199)
T 3unf_N           81 NVVKNISYKY-----REDLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRR  153 (199)
T ss_dssp             HHHHHHHHHT-----TTTCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHhc-----CCCceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHH
Confidence            9999999876     469999999999998 6799999  99998766 5666799999999999999999999999999


Q ss_pred             HHHHHHHhhccCCC-CCCcEEEEEEecCC-cEEEcCHHHHHHHHH
Q 026627          190 TAILTLKEGFEGQI-SEKNIEIGIIGEKK-EFRVLTPNEIRDYLA  232 (235)
Q Consensus       190 l~~~~l~~~~~~~~-~~~~iei~~i~~~~-~~~~l~~~ei~~~l~  232 (235)
                      ++++||+.+.++|. ++.+++|++|++++ .++.|+++||+++++
T Consensus       154 la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~~  198 (199)
T 3unf_N          154 FTTNAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPKFYD  198 (199)
T ss_dssp             HHHHHHHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSCCCCC
T ss_pred             HHHHHHHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCccccc
Confidence            99999999999986 88999999999986 588899999987653

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I

Probab=100.00  E-value=1.2e-42  Score=281.86  Aligned_cols=185  Identities=16%  Similarity=0.234  Sum_probs=171.9

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCCCc-cccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPSIL-VDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPV  107 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~~l-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  107 (235)
                      +.+|+|+|||+++||||||+|+|.++++ +..++.+||++|++|++|+++|..+|++.+.++++.+++.|++++++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   84 (205)
T 1iru_J            5 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   84 (205)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             cCCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCH
Confidence            4689999999999999999999999765 445689999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC--CCCeEEEECCCCcEEee-eEEeeCCCchHHHHHHHHhccCCCCH
Q 026627          108 TQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD--KGPQLYQVDPSGSYFSW-KASAMGKNVSNAKTFLEKRYVEEMEL  184 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~--~gp~Ly~id~~G~~~~~-~~~a~G~~s~~~~~~L~~~~~~~~s~  184 (235)
                      +.+++++++.+  |+++  ..||++++|+||||+  +||+||.+||.|++.++ .++++|+|+++++++|++.|+++|++
T Consensus        85 ~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~  160 (205)
T 1iru_J           85 YTLMSMVANLL--YEKR--FGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDP  160 (205)
T ss_dssp             HHHHHHHHHHH--HTTT--TSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHH--HHhc--CCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCH
Confidence            99999999998  4544  349999999999995  78999999999999765 67999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC
Q 026627          185 DDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK  217 (235)
Q Consensus       185 ~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~  217 (235)
                      +||++++++||+.+.++|. ++.+++|++|++++
T Consensus       161 eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g  194 (205)
T 1iru_J          161 DHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDK  194 (205)
T ss_dssp             HHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSB
T ss_pred             HHHHHHHHHHHHHHHHhCcccCCceEEEEEcCCC
Confidence            9999999999999999986 79999999999985

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ...

Probab=100.00  E-value=3e-42  Score=279.30  Aligned_cols=184  Identities=17%  Similarity=0.164  Sum_probs=171.4

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCCCc-cccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPSIL-VDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPV  107 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~~l-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  107 (235)
                      +.+|+|+|||+++||||||+|+|.++++ +..++.+||++|+ |++|+++|..+|++.+.++++.+++.|++++++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   83 (204)
T 1ryp_J            5 SINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEP   83 (204)
T ss_dssp             GSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             CCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCH
Confidence            5789999999999999999999999765 4456999999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC--CCCeEEEECCCCcEEee-eEEeeCCCchHHHHHHHHhccCCCCH
Q 026627          108 TQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD--KGPQLYQVDPSGSYFSW-KASAMGKNVSNAKTFLEKRYVEEMEL  184 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~--~gp~Ly~id~~G~~~~~-~~~a~G~~s~~~~~~L~~~~~~~~s~  184 (235)
                      +.+++++++.+  |+++.  .||++++|+||||+  +||+||.+||.|++.++ .++++|+|+++++++|++.|+++|++
T Consensus        84 ~~la~~l~~~~--y~~~~--~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~  159 (204)
T 1ryp_J           84 ETFTQLVSSSL--YERRF--GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEP  159 (204)
T ss_dssp             HHHHHHHHHHH--HTTTT--SCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHH--HHhcC--CCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCCCcCH
Confidence            99999999988  45543  39999999999996  78999999999999766 67999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC
Q 026627          185 DDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK  217 (235)
Q Consensus       185 ~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~  217 (235)
                      +||++++++||..+.++|. ++.+++|++|++++
T Consensus       160 eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g  193 (204)
T 1ryp_J          160 EDLFETISQALLNAADRDALSGWGAVVYIIKKDE  193 (204)
T ss_dssp             HHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSC
T ss_pred             HHHHHHHHHHHHHHHHhCcccCCcEEEEEEcCCC
Confidence            9999999999999999985 89999999999986

>1iru_I 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_H* 3une_H

Probab=100.00  E-value=2e-42  Score=285.75  Aligned_cols=186  Identities=22%  Similarity=0.334  Sum_probs=174.7

Q ss_pred             CcEEEEEeCCEEEEEEeecCCCCc-cccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPSIL-VDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~~l-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.++++ +..++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 TTivgi~~~dgVVlaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 1iru_I            1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (234)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCceeccCcccceEEecCCEEEEecCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            689999999999999999999754 5567899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++.++.++     +||++++|+||||++||+||.+||.|++.+++++|+|+|++.++++|++.|+++|+++||++++
T Consensus        81 ~~l~~~l~~~~-----~~~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la  155 (234)
T 1iru_I           81 RMLKQMLFRYR-----GYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLV  155 (234)
T ss_dssp             HHHHHHHHHTT-----TCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHH
T ss_pred             HHHHHHHHhcC-----CCCceeEEEEEEcCCCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHHH
Confidence            99999888763     5999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCH
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTP  224 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~  224 (235)
                      ++||+.+..+|. ++.+++|++|+++ +++.+.+
T Consensus       156 ~~al~~a~~~d~~sg~~i~v~vi~k~-g~~~~~~  188 (234)
T 1iru_I          156 SEAIAAGIFNDLGSGSNIDLCVISKN-KLDFLRP  188 (234)
T ss_dssp             HHHHHHHHHHCTTCCSCEEEEEEETT-EEECCSE
T ss_pred             HHHHHHHHHhcccCCCCEEEEEEECC-cEEEEcc
Confidence            999999999986 7999999999997 4776654

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=100.00  E-value=1e-35  Score=236.37  Aligned_cols=168  Identities=16%  Similarity=0.160  Sum_probs=148.9

Q ss_pred             cCCCcEEEEEeCCEEEEEEeecCCC-Cc-cccCCceeEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q 026627           30 GSGQTSLGIKASNGVVIATEKKLPS-IL-VDESSVHKIQSL-TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIP  106 (235)
Q Consensus        30 ~~G~tivgi~~~dgvvla~d~~~~~-~l-~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  106 (235)
                      .+|+|+|||+++||||||+|+|.++ .+ +.+++.+||++| ++|++++++|..+|++.+.++++.+++.|+   +   +
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g---~   76 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G---N   76 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T---C
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C---C
Confidence            5799999999999999999999986 67 888999999999 999999999999999999999999999877   3   2


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEe--eeEEeeCCCchHHHHHHHHhccC---C
Q 026627          107 VTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFS--WKASAMGKNVSNAKTFLEKRYVE---E  181 (235)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~--~~~~a~G~~s~~~~~~L~~~~~~---~  181 (235)
                         +.+.++++.+.+++....|||++++|++    +||+||.+||.|++.+  +++.|+|+|+++++++|++.|++   +
T Consensus        77 ---~~~~~~~l~~~~~~~~~~rp~~~~~lva----d~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~  149 (180)
T 2z3b_A           77 ---LKRAAVELAKEWRSDKVLRKLEAMLIVM----NQDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGES  149 (180)
T ss_dssp             ---HHHHHHHHHHHHHHCTTGGGCCCCEEEE----CSSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGG
T ss_pred             ---hHHHHHHHHHHHHhhhCcCcceEEEEEE----cCCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCC
Confidence               2333333445556666789999999999    4799999999999998  49999999999999999999998   9


Q ss_pred             CCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEE
Q 026627          182 MELDDAVHTAILTLKEGFEGQI-SEKNIEIGII  213 (235)
Q Consensus       182 ~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i  213 (235)
                      |+.+|   ++.+||+.+.++|. ++.+++|.+|
T Consensus       150 mt~ee---l~~~al~~a~~rd~~sg~~i~v~~i  179 (180)
T 2z3b_A          150 MSASE---IARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             CCHHH---HHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             CCHHH---HHHHHHHHHHHhcCccCCeEEEEEE
Confidence            99999   46799999999985 9999999987

>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine residue, hydrolase; 2.10A {Thermotoga maritima} SCOP: d.153.1.4

Probab=100.00  E-value=3.8e-35  Score=231.27  Aligned_cols=165  Identities=16%  Similarity=0.166  Sum_probs=145.0

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSL-TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQL  110 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  110 (235)
                      +|+|||+++||||||+|+|.++ .++.+++.+||++| ++|++++++|..+|++.+.+.++.+++.|+.+     .++.+
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~   75 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc-----HHHHH
Confidence            6899999999999999999986 68888899999999 99999999999999999999999999987643     24444


Q ss_pred             HHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeee--EEeeCCCchHHHHHHHHhcc-CCCCHHHH
Q 026627          111 VRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWK--ASAMGKNVSNAKTFLEKRYV-EEMELDDA  187 (235)
Q Consensus       111 ~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~--~~a~G~~s~~~~~~L~~~~~-~~~s~~ea  187 (235)
                      ++.    .+.+++..+.|||++++|++  |  ||+||.+||.|++.+++  +.|+|+|+++++++||+.|+ ++|+.   
T Consensus        76 ~~l----~~~~~~~~~~~~~~~~~lv~--D--~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---  144 (171)
T 1m4y_A           76 VEL----AKDWRTDRVLRRLEALLLVA--D--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---  144 (171)
T ss_dssp             HHH----HHHHHHCTTGGGCCCEEEEE--C--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---
T ss_pred             HHH----HHHHHHhCCCCceEEEEEEE--c--CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---
Confidence            444    33445555578999998888  5  89999999999999987  99999999999999999999 99997   


Q ss_pred             HHHHHHHHHhhccCCC-CCCcEEEEEE
Q 026627          188 VHTAILTLKEGFEGQI-SEKNIEIGII  213 (235)
Q Consensus       188 ~~l~~~~l~~~~~~~~-~~~~iei~~i  213 (235)
                      ++++.+||+.+.++|. ++.+++|.++
T Consensus       145 ~~l~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          145 REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHHHHHHHHHHhCcccCCeEEEEEC
Confidence            6789999999999985 8999999864

>1g3k_A ATP-dependent protease HSLV; hydrolase; 1.90A {Haemophilus influenzae} SCOP: d.153.1.4 PDB: 1g3i_G 1jjw_A 1kyi_G* 1ofh_G* 1ofi_G* 1e94_A* 1g4a_B* 1g4b_M 1hqy_A* 1ht1_C* 1ht2_A* 1ned_A

Probab=100.00  E-value=1e-34  Score=229.36  Aligned_cols=166  Identities=13%  Similarity=0.130  Sum_probs=144.9

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSL-TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQL  110 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  110 (235)
                      +|+|||+++||||||+|+|.++ .++.+++.+||++| ++|++++++|..+|++.+.++++.+++.|+.      ++...
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~~~~~   74 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG------HLLKS   74 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------CHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------cHHHH
Confidence            6899999999999999999986 57888999999999 9999999999999999999999999998874      33333


Q ss_pred             HHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeee---EEeeCCCchHHHHHHHHhcc-CCCCHHH
Q 026627          111 VRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWK---ASAMGKNVSNAKTFLEKRYV-EEMELDD  186 (235)
Q Consensus       111 ~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~---~~a~G~~s~~~~~~L~~~~~-~~~s~~e  186 (235)
                      +..   +.+.++++.+.||+  .++++|+|  ||+||.+||.|++.+++   +.|+|+|+++++++||+.|+ ++|+.+ 
T Consensus        75 ~~~---l~~~~~~~~~~r~~--~~~l~g~d--~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~~-  146 (174)
T 1g3k_A           75 AVE---LAKDWRTDRALRKL--EAMLIVAD--EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAH-  146 (174)
T ss_dssp             HHH---HHHHHHHSTTGGGC--CCEEEEEC--SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHH-
T ss_pred             HHH---HHHHHHhccCcCcc--eEEEEEEC--CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHH-
Confidence            334   44445555557786  46777887  79999999999999988   99999999999999999999 999955 


Q ss_pred             HHHHHHHHHHhhccCCC-CCCcEEEEEEe
Q 026627          187 AVHTAILTLKEGFEGQI-SEKNIEIGIIG  214 (235)
Q Consensus       187 a~~l~~~~l~~~~~~~~-~~~~iei~~i~  214 (235)
                        +++.+||+.+.++|. ++++++|.+|+
T Consensus       147 --~l~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          147 --EIVEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             --HHHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             --HHHHHHHHHHHHhccccCCceEEEEec
Confidence              799999999999985 89999999986

---

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	235
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	6e-78
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-74
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	5e-74
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-73
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	3e-73
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	1e-72
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	2e-72
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	5e-72
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	7e-72
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	9e-71
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-70
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-70
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	4e-70
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-69
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-67
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	2e-67
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-52
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-40
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	2e-39
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-39
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	5e-37
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	8e-37
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	4e-36
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-36
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-35
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-35
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-35
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	7e-33
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	6e-32
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-31
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-31
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-29
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	4e-27
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	7e-22
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	1e-07
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	2e-05

>d1irue_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 234

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  232 bits (593), Expect = 6e-78
 Identities = 74/234 (31%), Positives = 136/234 (58%), Gaps = 5/234 (2%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y   + TFSP G+L Q+E+ + A+  G T++GI+ S GV +A EK++ S L++ SS+ KI
Sbjct: 1   YDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKI 60

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
             +  +IG   SG+  D + L+ K+R + + +   Y E + V  + +  + +  +F +  
Sbjct: 61  VEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEED 120

Query: 126 G-----VRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
                  RPFGV+LL  G D+KGPQL+ +DPSG++    A A+G     A++ L++ Y +
Sbjct: 121 ADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHK 180

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
            M L +A+ ++++ LK+  E +++  NIE+  +   + F + T  E+ + + ++
Sbjct: 181 SMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 234

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 250

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  224 bits (571), Expect = 2e-74
 Identities = 146/248 (58%), Positives = 174/248 (70%), Gaps = 17/248 (6%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
            +YSFSLTTFSPSGKL QI++ALTAV  G TSLGIKA+NGVVIATEKK  S L    ++ 
Sbjct: 3   DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLS 62

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAE-QYHRLYKEPIPVTQLVRETAAVMQEFT 122
           K+  LTP+IG VYSGMGPD+RVLV KSRK A   Y R+Y E  P   LV E A +MQE T
Sbjct: 63  KVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEAT 122

Query: 123 QSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           QSGGVRPFGVSLL+AG+D+  G  LYQVDPSGSYF WKA+A+GK    AKTFLEKR+ +E
Sbjct: 123 QSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDE 182

Query: 182 MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKK---------------EFRVLTPNE 226
           +EL+DA+H A+LTLKE  EG+ +   IE+ IIG++                 FR LT  E
Sbjct: 183 LELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQE 242

Query: 227 IRDYLAEV 234
           I D L  +
Sbjct: 243 INDRLEAL 250

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 233

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  222 bits (567), Expect = 5e-74
 Identities = 62/233 (26%), Positives = 109/233 (46%), Gaps = 7/233 (3%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y     TFSP+G+L Q+E+AL A+  G  ++G++++   V+   K+    L       
Sbjct: 3   NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS--YQK 60

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KI     ++G+  +G+ PD RVL    R+Q      ++   + V +         Q+ TQ
Sbjct: 61  KIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQ 120

Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE-- 181
           S G RP+GV LL+ GYD  G  L +  PSG+      +A+G     AKT+LE+       
Sbjct: 121 SYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIK 180

Query: 182 --MELDDAVHTAILTLKEGF-EGQISEKNIEIGIIGEKKEFRVLTPNEIRDYL 231
                D+ +   +  + +   +  ++  N+ I I+G+   F +     +  Y+
Sbjct: 181 IDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 244

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  221 bits (565), Expect = 1e-73
 Identities = 81/235 (34%), Positives = 132/235 (56%), Gaps = 5/235 (2%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVG-SGQTSLGIKASNGVVIATEKKLPSILVDESSVHK 64
           +   +T FSP G+L Q+E+A  A+   G TS+ ++  +  VI T+KK+P  L+D S+V  
Sbjct: 8   FDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTH 67

Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           +  +T NIG V +GM  D R  V+++R +A  +   Y   IPV  L +  A + Q +TQ+
Sbjct: 68  LFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQN 127

Query: 125 GGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE-- 181
             +RP G  +++ G D ++GPQ+Y+ DP+G Y  +KA+A G   + + +FLEK+  ++  
Sbjct: 128 AEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFD 187

Query: 182 MELDDAVHTAILTLKEGFEGQISEKNIEIGIIG-EKKEFRVLTPNEIRDYLAEVE 235
              +  V TAI  L            IE+G++  E  +FR+LT  EI  +L  + 
Sbjct: 188 WTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVALA 242

>d1iruf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 238

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  220 bits (562), Expect = 3e-73
 Identities = 78/235 (33%), Positives = 131/235 (55%), Gaps = 6/235 (2%)

Query: 5   QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHK 64
           QY   +T +SP G++ QIE+A+ AV  G  ++G+K+    V+   K+  S L       K
Sbjct: 2   QYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA--HQKK 59

Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           I  +  +IG+  +G+  D R+L    R++      ++  P+PV++LV    +  Q  TQ 
Sbjct: 60  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQR 119

Query: 125 GGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMEL 184
            G RP+GV LL+AGYDD GP ++Q  PS +YF  +A ++G    +A+T+LE+   E ME 
Sbjct: 120 YGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMEC 179

Query: 185 D--DAVHTAILTLKE--GFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           +  + V   +  L+E    E  ++ KN+ IGI+G+  EF +   +++  +L  +E
Sbjct: 180 NLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLE 234

>d1yara1 d.153.1.4 (A:13-233) Proteasome alpha subunit (non-catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Length = 221

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

 Score =  218 bits (556), Expect = 1e-72
 Identities = 86/221 (38%), Positives = 131/221 (59%)

Query: 11  TTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTP 70
           T FSP G+L Q+E+A  AV  G T+LG+K +NGV++ ++KK+ S L++++S+ KIQ +  
Sbjct: 1   TVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDD 60

Query: 71  NIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPF 130
            +  V SG+  D RVLV  +R  A+Q    Y   + +  LV+  A  MQ++TQ GGVRP+
Sbjct: 61  YVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPY 120

Query: 131 GVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT 190
           GVSL+ AG D  GP+L+  DP+G+   +KA+A+G       +FLE+ Y E +   +AV  
Sbjct: 121 GVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTL 180

Query: 191 AILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYL 231
            I  LK   E     K  EI  I    ++R+    E++ +L
Sbjct: 181 GIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 221

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 244

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  218 bits (557), Expect = 2e-72
 Identities = 83/236 (35%), Positives = 122/236 (51%), Gaps = 6/236 (2%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y  S + FSP G+  Q+E+A+ AV +G TS+GIK ++GVV A EK + S L+      
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           KIQ +  +IG VYSG+ PD R LV + R++A  + +LYK PIP+          +Q  T 
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 121

Query: 124 SGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEK---RYVE 180
              VRPFGVS +  G D  G  LY ++PSGSY+ +K +A GK   +AK  LEK    + E
Sbjct: 122 YNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE 181

Query: 181 EMELDDAVHTAILTLKEGFE-GQISEKNIEIGIIG--EKKEFRVLTPNEIRDYLAE 233
            +   +AV  A   +    E  +  +  +EI      E          ++     +
Sbjct: 182 GLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAID 237

>d1irug_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 245

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  217 bits (555), Expect = 5e-72
 Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 3/233 (1%)

Query: 4   SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVH 63
           + Y  S +TFSP G++ Q+E+A+ AV +  T++GI+  +GVV   EK + S L +E S  
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64

Query: 64  KIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQ 123
           ++ ++  ++G+  +G+  D R L   +R++A  +   +   IP+  L    A  +  +T 
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTL 124

Query: 124 SGGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM 182
              VRPFG S ++  Y  + G QLY +DPSG  + +   A+GK    AKT +EK  ++EM
Sbjct: 125 YSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEM 184

Query: 183 ELDDAVHTAILTLKEGF-EGQISEKNIEIGIIG-EKKEFRVLTPNEIRDYLAE 233
              D V      +     E +     +E+  +G        + P +IR+   +
Sbjct: 185 TCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEK 237

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 243

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  217 bits (554), Expect = 7e-72
 Identities = 86/233 (36%), Positives = 140/233 (60%), Gaps = 5/233 (2%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKI 65
           Y  ++T FSP G L Q+E+A  AV  G T++G++  + VV+  EKK  + L DE +V KI
Sbjct: 2   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 61

Query: 66  QSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG 125
            +L  N+ + ++G+  D R+++ ++R + + +    ++P+ V  + R  A++ Q +TQS 
Sbjct: 62  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 121

Query: 126 GVRPFGVSLLVAGYDDK-GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMEL 184
           G RPFG+S L+ G+D    P+LYQ DPSG+Y +WKA+A+G+   + + FLEK Y +E   
Sbjct: 122 GRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIE 181

Query: 185 DD--AVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
            D   +   I  L E    Q   KNIE+ ++   +  ++L P EI  Y+AE+E
Sbjct: 182 TDDLTIKLVIKALLE--VVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIE 232

>d1rypc_ d.153.1.4 (C:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 244

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  214 bits (546), Expect = 9e-71
 Identities = 89/240 (37%), Positives = 141/240 (58%), Gaps = 8/240 (3%)

Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESS 61
           G  +Y    T FSP G+L Q+E+AL ++    T++GI AS+G+V+A E+K+ S L+++ +
Sbjct: 1   GSRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDT 60

Query: 62  -VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
              K+  L   I V  +G+  D  +L+  +R  A+ Y + Y E IPV  LVR  + + Q 
Sbjct: 61  STEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQG 120

Query: 121 FTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV 179
           +TQ GG+RPFGVS + AGYDD+   QLY  +PSG+Y  WKA ++G N S A+T L+  Y 
Sbjct: 121 YTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK 180

Query: 180 EEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIG-----EKKEFRVLTPNEIRDYLAE 233
           ++M++DDA+  A+ TL +  +    +   +E   I       +   ++  P EI+D L +
Sbjct: 181 DDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVK 240

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 243

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score =  214 bits (545), Expect = 1e-70
 Identities = 83/236 (35%), Positives = 142/236 (60%), Gaps = 5/236 (2%)

Query: 1   MGDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES 60
           MG   Y  ++T FSP G+L Q+E+A  AV  G T++GIK   GV++  +K++ S L+++ 
Sbjct: 3   MG---YDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKD 59

Query: 61  SVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQE 120
           ++ KI  +  +I    SG+  D RVL+ ++R +A+     Y  PI V +L ++     Q+
Sbjct: 60  TIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQ 119

Query: 121 FTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE 180
           +TQ GGVRPFGVSLL+AG ++  P+LY+ DPSG+   +KA+A+G        F EK Y +
Sbjct: 120 YTQYGGVRPFGVSLLIAGVNEV-PKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRD 178

Query: 181 EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIG-EKKEFRVLTPNEIRDYLAEVE 235
           ++  DDA+   ++ +    E ++  +NIE+G +  + + F+ ++P E++ Y+    
Sbjct: 179 DLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERAN 234

>d1irub_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 233

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  213 bits (542), Expect = 2e-70
 Identities = 155/233 (66%), Positives = 193/233 (82%), Gaps = 1/233 (0%)

Query: 2   GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESS 61
            +  YSFSLTTFSPSGKLVQIE+AL AV  G  S+GIKA+NGVV+ATEKK  SIL DE S
Sbjct: 1   AERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERS 60

Query: 62  VHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEF 121
           VHK++ +T +IG+VYSGMGPD+RVLV ++RK A+QY+ +Y+EPIP  QLV+  A+VMQE+
Sbjct: 61  VHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEY 120

Query: 122 TQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
           TQSGGVRPFGVSLL+ G+++  P L+Q DPSG+YF+WKA+AMGKN  N KTFLEKRY E+
Sbjct: 121 TQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNED 180

Query: 182 MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV 234
           +EL+DA+HTAILTLKE FEGQ++E NIE+GI  E   FR LTP E++DYLA +
Sbjct: 181 LELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAI 232

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 243

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  212 bits (541), Expect = 4e-70
 Identities = 67/239 (28%), Positives = 118/239 (49%), Gaps = 10/239 (4%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAV-GSGQTSLGIKASNGVVIATEKKLPSILVDESSVHK 64
           Y   +T FSP G+L Q+E+A  A   +   SL ++  +  V+ ++KK+P  L+D ++V  
Sbjct: 3   YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 62

Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           I  ++  IG+V +G  PD R    +++ +A ++   Y   +P   L +  A + Q +TQ 
Sbjct: 63  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQR 122

Query: 125 GGVRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEM- 182
             +RP GV L     D + GP +Y+ DP+G Y  +KA+A G       T LE  + +   
Sbjct: 123 AYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKI 182

Query: 183 ------ELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
                   +  V  AI  + +    + S+ ++E+G+   K +F  L+   I + L  + 
Sbjct: 183 DHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVAT-KDKFFTLSAENIEERLVAIA 240

>d1rypd_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 241

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  211 bits (537), Expect = 2e-69
 Identities = 84/236 (35%), Positives = 134/236 (56%), Gaps = 8/236 (3%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDES-SVHK 64
           Y  +L+ FSP G + Q+E+AL AV  G  ++G+K  N VV+  E++    L D   +  K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61

Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           +  +  ++ + +SG+  D R+L+ K+R +A+ +    ++P+ V  L R  A V Q +TQS
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 121

Query: 125 GGVRPFGVSLLVAGYDDK--GPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE-- 180
           GGVRPFGVS L+AG+D +   P+LYQ +PSG Y SW A  +G+N    + FLEK Y    
Sbjct: 122 GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKE 181

Query: 181 -EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
               +++ V   + +L E  +     KNIEI ++    +   L+  EI  Y+ ++E
Sbjct: 182 PPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQIE 235

>d1iruc_ d.153.1.4 (C:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 250

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  207 bits (527), Expect = 1e-67
 Identities = 92/237 (38%), Positives = 133/237 (56%), Gaps = 7/237 (2%)

Query: 6   YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESS-VHK 64
           Y    T FSP G+L Q+E+A+ A+G   T LGI A++GV++A E++    L+DE     K
Sbjct: 4   YDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEK 63

Query: 65  IQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQS 124
           I  L  ++    +G+  D  VL  + R  A++Y   Y+EPIP  QLV     + Q +TQ 
Sbjct: 64  IYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQF 123

Query: 125 GGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVE-EM 182
           GG RPFGVSLL  G+D   G QLYQ DPSG+Y  WKA+ +G N + A + L++ Y E EM
Sbjct: 124 GGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEM 183

Query: 183 ELDDAVHTAILTLKEGFE-GQISEKNIEIGII---GEKKEFRVLTPNEIRDYLAEVE 235
            L  A+  AI  L +  +  ++S + +EI  +     K   RVL   E+   + + E
Sbjct: 184 TLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHE 240

>d1rype_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 242

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  206 bits (524), Expect = 2e-67
 Identities = 70/234 (29%), Positives = 124/234 (52%), Gaps = 7/234 (2%)

Query: 9   SLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSL 68
            ++TFSP G+L Q+E++L A+  G T++GI    GVV+  EK+  S L++  S+ KI  +
Sbjct: 3   GVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEI 62

Query: 69  TPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGG-- 126
             +IG   SG+  D R ++  +R  A  ++  Y E I V  L +    +   F +     
Sbjct: 63  DRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGE 122

Query: 127 ----VRPFGVSLLVAGYD-DKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEE 181
                RPFGV+LL+AG+D D G QL+  +PSG+++ + A A+G     A+  L   +   
Sbjct: 123 ERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS 182

Query: 182 MELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE 235
           + L +A    +  LK+  E ++ E N ++  I ++  F++    +  + + E++
Sbjct: 183 LTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELK 236

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]} Length = 227

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

 Score =  167 bits (425), Expect = 1e-52
 Identities = 40/224 (17%), Positives = 87/224 (38%), Gaps = 20/224 (8%)

Query: 21  QIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMG 80
           + E A   +  G++ + +   +GV+   E          +++HK+  L   +G    G  
Sbjct: 8   RSELARKGIARGRSVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGKY 60

Query: 81  PDFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYD 140
            +F  L R     A+     Y       + +    A       +   +P+ V + VA   
Sbjct: 61  NEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVG 120

Query: 141 ----DKGPQLYQVDPSGSYFSWKASAMG-KNVSNAKTFLEKRYVEEMELDDAVHTAILTL 195
                K PQLY++   GS    +   +         T + + Y  +++L+ AV  A+  L
Sbjct: 121 RVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNAL 180

Query: 196 KEGFEGQISEK-----NIEIGII---GEKKEFRVLTPNEIRDYL 231
           ++G  G+  ++     ++E+ ++     ++ FR +    +   +
Sbjct: 181 RQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLV 224

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 201

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  135 bits (340), Expect = 2e-40
 Identities = 38/204 (18%), Positives = 83/204 (40%), Gaps = 7/204 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T+L  K  +GV++A + +  +   +   +V K+  + P +    +G   D     R   +
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           Q   Y    KE I V    +  A ++ ++          +  ++ G+D +GP LY VD  
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDKRGPGLYYVDSE 117

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFE-GQISEKNIEIG 211
           G+  S    ++G     A   +++ Y  ++E++ A   A   + +       S   + + 
Sbjct: 118 GNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLY 177

Query: 212 IIGEKKEFRVLTPNEIRDYLAEVE 235
            + E   +  ++ + + D   +  
Sbjct: 178 HVREDG-WIRVSSDNVADLHEKYS 200

>d1yarh1 d.153.1.4 (H:1-203) Proteasome beta subunit (catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Length = 203

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

 Score =  133 bits (335), Expect = 2e-39
 Identities = 44/204 (21%), Positives = 89/204 (43%), Gaps = 7/204 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T++GI   + V++ATE+++     +   +  K+  +    G+  +G+  D +VLVR  + 
Sbjct: 2   TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           + E Y    +  +P+       A ++          P+ V LLV G D   P ++ +D +
Sbjct: 62  ELELYRLQRRVNMPI----EAVATLLSNMLNQVKYMPYMVQLLVGGIDT-APHVFSIDAA 116

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIG 211
           G       ++ G         LE +Y E+M +D+ V   I  +    +    S   I++ 
Sbjct: 117 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVA 176

Query: 212 IIGEKKEFRVLTPNEIRDYLAEVE 235
           +I  K  +  L  ++I   + ++ 
Sbjct: 177 VITRKDGYVQLPTDQIESRIRKLG 200

>d1j2qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 202

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score =  133 bits (335), Expect = 2e-39
 Identities = 51/205 (24%), Positives = 87/205 (42%), Gaps = 8/205 (3%)

Query: 34  TSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T++G+   +GVV+ATEK+      +   +  KI  +   + +  +G   D + L R  + 
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
           +A  Y    +    V  +      +      S    P+ V LL+ G D +G  +Y +DP 
Sbjct: 62  EANLYEIRRERKPTVRAIAT----LTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPI 117

Query: 153 GSYFSWK-ASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
           G     K   A G     A   LE R+  E+ +D+AV  A+  +    +    S   I++
Sbjct: 118 GGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDV 177

Query: 211 GIIGEKKEFRVLTPNEIRDYLAEVE 235
             I  + EF   +P E+   LA+  
Sbjct: 178 VKIT-EDEFYQYSPEEVEQILAKFR 201

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 222

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  127 bits (319), Expect = 5e-37
 Identities = 40/213 (18%), Positives = 78/213 (36%), Gaps = 23/213 (10%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G T LGI   +  V+A + +  +   ++     K+     NI +  +G   D   LV++ 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQV 149
           +   + YH  + +       +   A  +Q         P+ V  ++AG D+ G   +Y  
Sbjct: 69  KNSVKWYHFDHNDKKLS---INSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSF 125

Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLEKRY-----------------VEEMELDDAVHTAI 192
           DP GSY   +  A G   S    FL+ +                  ++ + +++ +    
Sbjct: 126 DPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVR 185

Query: 193 LTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTP 224
            +     E  I     +EI I+ +    +    
Sbjct: 186 DSFTSATERHIQVGDGLEILIVTKDGVRKEFYE 218

>d1rypi_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 222

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  126 bits (318), Expect = 8e-37
 Identities = 39/204 (19%), Positives = 82/204 (40%), Gaps = 7/204 (3%)

Query: 34  TSLGIKASNGVVIATEKKL-PSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T +G+K +NGVVIA + +     +V + +  K+  ++P I    +G   D   + +    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
             E +         V   ++     + ++         G  L+VAG D  G  L+ +   
Sbjct: 62  NIELHSLYTSREPRVVSALQMLKQHLFKYQG-----HIGAYLIVAGVDPTGSHLFSIHAH 116

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIG 211
           GS       ++G     A   LE  + +++  ++A+  A   ++ G    + S  N+++ 
Sbjct: 117 GSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVC 176

Query: 212 IIGEKKEFRVLTPNEIRDYLAEVE 235
           ++   K+   L      +   E +
Sbjct: 177 VMEIGKDAEYLRNYLTPNVREEKQ 200

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 202

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  124 bits (312), Expect = 4e-36
 Identities = 36/205 (17%), Positives = 70/205 (34%), Gaps = 9/205 (4%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T + ++   GVV+  + +  +   +      K+  +   I    SG   D + +      
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQLYQVDP 151
           Q   +     EP  V         +   + +          +++AG+D + G Q+Y V  
Sbjct: 62  QLGFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPM 116

Query: 152 SGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
            G       +  G   S    +++  Y E M  ++ +      L    E    S   I +
Sbjct: 117 GGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRL 176

Query: 211 GIIGEKK-EFRVLTPNEIRDYLAEV 234
             I E   E +VL  ++I  +    
Sbjct: 177 AAIAESGVERQVLLGDQIPKFAVAT 201

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 233

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  125 bits (314), Expect = 5e-36
 Identities = 35/213 (16%), Positives = 72/213 (33%), Gaps = 11/213 (5%)

Query: 28  AVGSGQTSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVL 86
            + +G + + +K  NGV+IA +       L+  + V ++  +  N  V  SG   D + +
Sbjct: 4   PIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHI 63

Query: 87  VRKSRKQAEQYHRLYKEPIPVTQLVRETAAVM---QEFTQSGGVRPFGVSLLVAGYDDKG 143
            R  +    +             L             + +   + P   +++VAG    G
Sbjct: 64  ERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNG 123

Query: 144 P-QLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY-----VEEMELDDAVHTAILTLKE 197
              L  V+  G  +S    A G     A   L K       + +  +  A    +  ++ 
Sbjct: 124 DQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRV 183

Query: 198 GFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRD 229
            +     S +N  + II +          ++ +
Sbjct: 184 LYYRDARSSRNFSLAIIDKNTGLTFKKNLQVEN 216

>d1irui_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 220

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  123 bits (309), Expect = 2e-35
 Identities = 44/202 (21%), Positives = 78/202 (38%), Gaps = 8/202 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T  G+   +G+V+  + +    ++V + +  KI  ++PNI    +G   D  +  +    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
             E +         V      TA  M +          G +L++ G D  GP LY + P 
Sbjct: 62  NLELHSLSTGRLPRV-----VTANRMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPH 116

Query: 153 GSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEG-FEGQISEKNIEIG 211
           GS        MG     A    E ++  +ME ++A +     +  G F    S  NI++ 
Sbjct: 117 GSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLC 176

Query: 212 IIGEKKEFRVLTPNEIRDYLAE 233
           +I + K    L P  + +    
Sbjct: 177 VISKNK-LDFLRPYTVPNKKGT 197

>d1rypl_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 212

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  122 bits (308), Expect = 2e-35
 Identities = 31/205 (15%), Positives = 81/205 (39%), Gaps = 8/205 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T+L  +   G+++A + +  +   V   +V ++  + P +    +G   D +        
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGY-DDKGPQLYQVDP 151
           Q   +    KE I V    +  + ++ ++          +  ++ GY   +GP +Y VD 
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDS 117

Query: 152 SGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
            G+        +G   + A   L+  Y  ++ ++DA++    ++         S  ++ +
Sbjct: 118 DGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNL 177

Query: 211 GIIGEKKEFRVLTPNEIRDYLAEVE 235
             + E   +     +++ +   +V+
Sbjct: 178 YHVTEDG-WIYHGNHDVGELFWKVK 201

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 198

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  122 bits (307), Expect = 2e-35
 Identities = 41/198 (20%), Positives = 84/198 (42%), Gaps = 7/198 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
             LGI+  + V++A+ K +   I V + S  K + L+P+  + ++G   D        + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK--GPQLYQVD 150
             + Y       +    +       + +  +S   RP+ V++L+ GYD K   P+LYQ+D
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQELAKSIRSR--RPYQVNVLIGGYDKKKNKPELYQID 120

Query: 151 PSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEG-QISEKNIE 209
             G+       A G +     + L+  Y  +M  ++ +    L ++E  +   +  K + 
Sbjct: 121 YLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVI 180

Query: 210 IGIIGEKKEFRVLTPNEI 227
           + I+  K   R +   + 
Sbjct: 181 VKIVD-KDGIRQVDDFQA 197

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 217

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  116 bits (292), Expect = 7e-33
 Identities = 34/205 (16%), Positives = 70/205 (34%), Gaps = 8/205 (3%)

Query: 28  AVGSGQTSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVL 86
            + +G + LG+K   GVVIA +       L    ++ +I  +  +  +  SG   DF+ L
Sbjct: 4   PMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYL 63

Query: 87  VRKSRKQAEQYHRLY-KEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQ 145
            +   +       L          +       M  +++   + P   ++++ GY D    
Sbjct: 64  KQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYADGESF 121

Query: 146 LYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV--EEMELDDAVHTAILTLKEGFEGQI 203
           L  VD  G  +   + A G     A+  L +       +   +A       ++  +    
Sbjct: 122 LGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDA 181

Query: 204 -SEKNIEIGIIGEKKEFRVLTPNEI 227
            S    +   +  +K   +  P   
Sbjct: 182 RSYNRFQTATVT-EKGVEIEGPLST 205

>d1ryph_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 205

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  113 bits (284), Expect = 6e-32
 Identities = 38/203 (18%), Positives = 74/203 (36%), Gaps = 10/203 (4%)

Query: 29  VGSGQTSLGIKASNGVVIATEKKL-PSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLV 87
           V  G + + +   +GV++  + +      +      K+  +   I    SG   D + + 
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 88  RKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK-GPQL 146
              +   E Y   Y  P        ETAA + +             ++VAGYDDK   ++
Sbjct: 66  DIVQYHLELYTSQYGTPST------ETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEV 119

Query: 147 YQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SE 205
           Y +   GS      +  G   +    + +K + E M  ++ V     +L +  +    S 
Sbjct: 120 YTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSG 179

Query: 206 KNIEIGIIGEKK-EFRVLTPNEI 227
             I + ++     E  +  P+E 
Sbjct: 180 GVIRMVVLTAAGVERLIFYPDEY 202

>d1iruj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 204

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  113 bits (283), Expect = 1e-31
 Identities = 32/197 (16%), Positives = 67/197 (34%), Gaps = 10/197 (5%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G   + +K  N V IA +++      +  +   KI  +   + +  +G+  D + + ++ 
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGP--QLYQ 148
           + +   Y       I    L+   A ++ E        P+    ++AG D K     +  
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRF----GPYYTEPVIAGLDPKTFKPFICS 122

Query: 149 VDPSGSYFSWKASAMGKNVSN-AKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEK 206
           +D  G         +    +       E  +   M+ D    T    +    +    S  
Sbjct: 123 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGM 182

Query: 207 NIEIGIIGEKK-EFRVL 222
            + + II + K   R L
Sbjct: 183 GVIVHIIEKDKITTRTL 199

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]} Length = 224

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

 Score =  113 bits (284), Expect = 1e-31
 Identities = 35/217 (16%), Positives = 76/217 (35%), Gaps = 15/217 (6%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T + +    GV++A +++     L+    V K+           +G       LVR    
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSG----GVRPFGVSLLVAGYDDK-GPQLY 147
           + E Y ++   P+         A++++    +      V P  V   +   D+    ++ 
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 148 QVDPSGSYFSWKAS--AMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFE----- 200
             D  G  +  +A   A+G     AK+ L+K Y  + + + A+  AI +L +  +     
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSAT 181

Query: 201 -GQISEKNIEIGI-IGEKKEFRVLTPNEIRDYLAEVE 235
            G    + I        +     ++     +    + 
Sbjct: 182 GGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIV 218

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 204

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  107 bits (269), Expect = 1e-29
 Identities = 34/197 (17%), Positives = 66/197 (33%), Gaps = 8/197 (4%)

Query: 32  GQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSR 91
           G   + +   + V IA + +L S  +  S+  +      ++ +  +G+  D   L    R
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLGITGLATDVTTLNEMFR 67

Query: 92  KQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG--PQLYQV 149
            +   Y    +  I      +  ++ + E        P+ V  +VAG + K   P +   
Sbjct: 68  YKTNLYKLKEERAIEPETFTQLVSSSLYERRF----GPYFVGPVVAGINSKSGKPFIAGF 123

Query: 150 DPSGSYFSWKASAMGKNVSN-AKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKN 207
           D  G     K   +    S+      E  Y   +E +D   T    L    +    S   
Sbjct: 124 DLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWG 183

Query: 208 IEIGIIGEKKEFRVLTP 224
             + II + +  +    
Sbjct: 184 AVVYIIKKDEVVKRYLK 200

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 199

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  101 bits (251), Expect = 4e-27
 Identities = 40/198 (20%), Positives = 78/198 (39%), Gaps = 6/198 (3%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
             +GI+  + V++A+++   S I+  +    K+  ++  I ++  G   D        +K
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYD-DKGPQLYQVDP 151
             + Y       +  T     T   + +  +S    P+ V+LL+AGYD  +GP LY +D 
Sbjct: 63  NVQLYKMRNGYELSPTAAANFTRRNLADCLRSRT--PYHVNLLLAGYDEHEGPALYYMDY 120

Query: 152 SGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEI 210
             +      +A G       + L++ Y   +  + AV      L+E  +  I +     +
Sbjct: 121 LAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSV 180

Query: 211 GIIGEKKEFRVLTPNEIR 228
            II +      L      
Sbjct: 181 RIIDKNG-IHDLDNISFP 197

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 213

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 87.6 bits (216), Expect = 7e-22
 Identities = 34/198 (17%), Positives = 67/198 (33%), Gaps = 16/198 (8%)

Query: 32  GQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS 90
           G T L I   +  ++A++ +L     +      K   LT    +  SG   D   L +  
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 91  RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQL-YQV 149
             + + Y     + +    +    + ++          P+ V  ++ G D++G    Y  
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRF----FPYYVYNIIGGLDEEGKGAVYSF 124

Query: 150 DPSGSYFSWKASAMGKNVSNAKTFLE---------KRYVEEMELDDAVHTAILTLKEGFE 200
           DP GSY      A G   +  +  L+               + LD A+           E
Sbjct: 125 DPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAE 184

Query: 201 GQI-SEKNIEIGIIGEKK 217
             + +   + I I+ ++ 
Sbjct: 185 RDVYTGDALRICIVTKEG 202

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]} Length = 180

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

 Score = 47.9 bits (113), Expect = 1e-07
 Identities = 23/168 (13%), Positives = 48/168 (28%), Gaps = 14/168 (8%)

Query: 32  GQTSLGIKASNGVVIATEKK--LPSILVDESSVHKIQSLTPNIGVV-YSGMGPDFRVLVR 88
             T   ++      ++ + +      +V + +  K++ L     +  ++G   D   L  
Sbjct: 5   ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

Query: 89  KSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQ 148
           K   + E+Y+   K                +E+     +R     L+V   +     L  
Sbjct: 65  KFEAKLEEYNGNLKRAAVEL---------AKEWRSDKVLRKLEAMLIVM--NQDTLLLVS 113

Query: 149 VDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLK 196
                        A+G   + A            E   A   A   L+
Sbjct: 114 GTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASEIARAALE 161

>d1m4ya_ d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga maritima [TaxId: 2336]} Length = 171

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Thermotoga maritima [TaxId: 2336]

 Score = 41.3 bits (96), Expect = 2e-05
 Identities = 15/161 (9%), Positives = 45/161 (27%), Gaps = 12/161 (7%)

Query: 34  TSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRK 92
           T L ++ +   V+  + ++     V + +  K++ L     +          + +    +
Sbjct: 2   TILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFE 61

Query: 93  QAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPS 152
              +          V          +    ++          L+   D +   +   +  
Sbjct: 62  AKLREWGGNLTKAAVELAKDWRTDRVLRRLEA----------LLLVADKENIFIISGNGE 111

Query: 153 GSYFSWKASAMGKNVSNAKTFLEK-RYVEEMELDDAVHTAI 192
                  A+A+G     A    +      ++   + V  A+
Sbjct: 112 VIQPDDDAAAIGSGGPYALAAAKALLRNTDLSAREIVEKAM 152

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	235
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.92
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.9
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.89
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	80.11

>d1irue_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2e-64  Score=415.79  Aligned_cols=229  Identities=32%  Similarity=0.622  Sum_probs=221.1

Q ss_pred             CCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHH
Q 026627            6 YSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRV   85 (235)
Q Consensus         6 yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (235)
                      ||+++|+|||||||+|||||+||+++|+|+||++++||||||+|++.+++++..++.+||++|++|++|+++|..+|++.
T Consensus         1 yd~~~t~fsp~G~l~QvEYa~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (234)
T d1irue_           1 YDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAKT   80 (234)
T ss_dssp             CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHHH
T ss_pred             CCCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCccCCCcccCcccCEEEccCcEEEEEeeccchHHH
Confidence            99999999999999999999999999999999999999999999998888777888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC-----cccceeEEEEEEEeCCCCeEEEECCCCcEEeeeE
Q 026627           86 LVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGG-----VRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        86 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~-----~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~  160 (235)
                      +.+.++.++..|++.++.+++++.+++.++.++|.|+++.+     .|||+|++|+||+|++||+||.+||.|++.++++
T Consensus        81 l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~gp~Ly~idp~G~~~~~~~  160 (234)
T d1irue_          81 LIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDA  160 (234)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCCCEEEEEecCcccceeee
Confidence            99999999999999999999999999999999999988865     6999999999999999999999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+|+|++.++++|++.|+++|+++||++++++||+.+.+++.++.++||++|++++++++|+++||++++++|
T Consensus       161 ~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~~~~~~iei~ii~~~~~~k~l~~~ei~~~l~~i  234 (234)
T d1irue_         161 RAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI  234 (234)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHHHHHTTC
T ss_pred             EEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEECCCCEEECCHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999888888889999999998789999999999999875

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=4.8e-64  Score=417.35  Aligned_cols=233  Identities=63%  Similarity=0.932  Sum_probs=222.5

Q ss_pred             CCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChh
Q 026627            2 GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         2 ~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      |.++||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+
T Consensus         1 m~~~yd~~~t~fsp~G~l~QvEyA~kav~~G~tvvgi~~~dgVvlaad~r~~~~~~~~~~~~ki~~I~~~i~~~~sG~~~   80 (250)
T d1rypb_           1 MTDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGP   80 (250)
T ss_dssp             CCCCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHH
T ss_pred             CCccccCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCccccccccceeEeccCCEEEEeeeccc
Confidence            45889999999999999999999999999999999999999999999999888777778899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHH-HHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeee
Q 026627           82 DFRVLVRKSRKQAEQ-YHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWK  159 (235)
Q Consensus        82 D~~~l~~~~~~~~~~-~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~  159 (235)
                      |++.+.+.++.++.. |+..++.+++++.+++.++++++.++++.+.|||++++||+|+|+ +||+||.+||.|++.+++
T Consensus        81 D~~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id~~G~~~~~~  160 (250)
T d1rypb_          81 DYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWK  160 (250)
T ss_dssp             HHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEcCcEEEEEee
Confidence            999999999999875 899999999999999999999999999999999999999999997 679999999999999999


Q ss_pred             EEeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC---------------cEEEcCH
Q 026627          160 ASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKK---------------EFRVLTP  224 (235)
Q Consensus       160 ~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~---------------~~~~l~~  224 (235)
                      ++|+|+|++++.++|++.|+++|+++||++++++||+.+..+|.++.++||++|++++               .|++|++
T Consensus       161 ~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~vi~~~~~~~~~~~~v~~~~~~~fr~ls~  240 (250)
T d1rypb_         161 ATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTS  240 (250)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEECCH
T ss_pred             EEecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEeCCCcccccccccccccCCceEECCH
Confidence            9999999999999999999999999999999999999999998888999999998764               4899999


Q ss_pred             HHHHHHHHHc
Q 026627          225 NEIRDYLAEV  234 (235)
Q Consensus       225 ~ei~~~l~~~  234 (235)
                      +||+++|++|
T Consensus       241 eei~~~l~~l  250 (250)
T d1rypb_         241 QEINDRLEAL  250 (250)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHHhC
Confidence            9999999875

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.8e-64  Score=414.62  Aligned_cols=228  Identities=28%  Similarity=0.481  Sum_probs=217.9

Q ss_pred             CCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChh
Q 026627            2 GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         2 ~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      |+++||+++|+|||||||+|||||.||+++|+|+||++++||||||+|++.++++.  .+.+||+.|++|++|++||..+
T Consensus         1 ~~~~yd~~~t~FspdGrl~QvEyA~kav~~g~t~igi~~~dgvvlaad~~~~~~l~--~~~~KI~~I~~~i~~~~sG~~~   78 (233)
T d1rypf_           1 FRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAP   78 (233)
T ss_dssp             CHHHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHH
T ss_pred             CCccccCCCceECCCCcChHHHHHHHHHHcCCCEEEEEECCeEEEEEeccccccCC--cchheEEEcCCCEEEEEeeccc
Confidence            57899999999999999999999999999999999999999999999999988763  5678999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~  161 (235)
                      |++.+.++++.+++.|++.++++++++.+++.+++++|.++++.+.|||++++|++|+|++||+||.+||+|++.+++++
T Consensus        79 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~g~~Ly~idp~G~~~~~~~~  158 (233)
T d1rypf_          79 DARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGT  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSCEEEESEE
T ss_pred             cHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCCCCEEEEEccccceecccEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhc----cCCCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEEecCCcEEEcCHHHHHHHH
Q 026627          162 AMGKNVSNAKTFLEKRY----VEEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEKKEFRVLTPNEIRDYL  231 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~----~~~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~~~~~l~~~ei~~~l  231 (235)
                      |+|.|++.++++|++.|    +++|+++||++++++||+.+.+++ .++..+||++++++++|++++++||++++
T Consensus       159 aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l~~~ei~~~i  233 (233)
T d1rypf_         159 AIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI  233 (233)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGGGGC
T ss_pred             EecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEECCHHHHHhhC
Confidence            99999999999999865    579999999999999999999887 58999999999999889999999998763

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.3e-63  Score=411.72  Aligned_cols=232  Identities=34%  Similarity=0.604  Sum_probs=221.4

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCC-cEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQ-TSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~-tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      .+|||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|+|.+++++..++.+||++|++|++|++||..+
T Consensus         5 ~~gyd~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   84 (244)
T d1irua_           5 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGMTA   84 (244)
T ss_dssp             CCTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEECHH
T ss_pred             CCCcCCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEecCCcEEEEecchH
Confidence            5799999999999999999999999999975 899999999999999999988877778899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~  160 (235)
                      |++.+.+.++.+++.|++.++++++++.+++.++.++|.++++++.|||+|++||+|||+ +||+||.+||+|++.++++
T Consensus        85 D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~  164 (244)
T d1irua_          85 DSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKA  164 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCccEEecce
Confidence            999999999999999999999999999999999999999999999999999999999997 5799999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhcc--CCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC-cEEEcCHHHHHHHHHHc
Q 026627          161 SAMGKNVSNAKTFLEKRYV--EEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKK-EFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~--~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~-~~~~l~~~ei~~~l~~~  234 (235)
                      +|+|+++..++++|++.|+  ++|+++||++++++||+.+..+|.++.++||+++++++ ++|+|+++||+++|..+
T Consensus       165 ~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~~~~iev~ii~~~~~~~~~l~~~ei~~~l~~~  241 (244)
T d1irua_         165 TAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVAL  241 (244)
T ss_dssp             EEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHHHHHHH
T ss_pred             EeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEeCCCcEEECCHHHHHHHHHHH
Confidence            9999999999999999995  58999999999999999999998877889999999885 58999999999999876

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=3.3e-63  Score=410.53  Aligned_cols=231  Identities=35%  Similarity=0.658  Sum_probs=222.0

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      ..|||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|+|.+++++..++.+|||+|+++++|++||..+|
T Consensus         2 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   81 (243)
T d1j2pa_           2 QMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVAD   81 (243)
T ss_dssp             CTTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHH
T ss_pred             CCCcCCCCccCCCCCcchHHHHHHHHHHcCCCEEEEEECCEEEEEEecCccccCccccccccEeecCCcEEEEeeecccH
Confidence            46999999999999999999999999999999999999999999999999987776778899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEe
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      ++.+.+.++.++..|++.++.+++++.+++.++..+|.++++.+.|||++++|++|+|+ +|+||.+||.|++.+++++|
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~-~p~Ly~~Dp~G~~~~~~~~a  160 (243)
T d1j2pa_          82 ARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYKATA  160 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS-SEEEEEECTTCCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC-CceEEEEeccCceeeeeEEE
Confidence            99999999999999999999999999999999999999999999999999999999986 69999999999999999999


Q ss_pred             eCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecC-CcEEEcCHHHHHHHHHHc
Q 026627          163 MGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEK-KEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       163 ~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~-~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+|++.++++|++.|+++|+++||++++++||+.+.++|+++.+|||++++++ .++|+++++||++++.++
T Consensus       161 ~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~l~~~ei~~~~~~~  233 (243)
T d1j2pa_         161 IGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERA  233 (243)
T ss_dssp             ESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHHHH
T ss_pred             eCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhcccCCCceEEEEEEeCCCcEEECCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999988889999999976 479999999999998875

>d1iruc_ d.153.1.4 (C:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.7e-63  Score=411.93  Aligned_cols=231  Identities=38%  Similarity=0.606  Sum_probs=220.1

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCc-cccCCceeEEEecCcEEEEEecChhh
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSIL-VDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l-~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      .+||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.++++ +.+++.+|||+|++|++|+++|..+|
T Consensus         2 ~~yd~~~t~fsp~Grl~QvEyA~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   81 (250)
T d1iruc_           2 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSD   81 (250)
T ss_dssp             TTTCCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHH
T ss_pred             CccCCCCeeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccch
Confidence            58999999999999999999999999999999999999999999999998754 55678899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEE
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~  161 (235)
                      ++.+.+.++.++..|++.++.+++++.+++.++.++|.+++..++|||++++||+|+|+ .||+||.+||.|++.+++++
T Consensus        82 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~~~~~~~  161 (250)
T d1iruc_          82 ANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKAT  161 (250)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSEE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEcccccEeeeeEE
Confidence            99999999999999999999999999999999999999999999999999999999997 57999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccC-CCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEEecCCc---EEEcCHHHHHHHHHHc
Q 026627          162 AMGKNVSNAKTFLEKRYVE-EMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEKKE---FRVLTPNEIRDYLAEV  234 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~-~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~~~---~~~l~~~ei~~~l~~~  234 (235)
                      |+|+|++.++++|++.|++ +|+++||++++++||+.+.++| .++.++||++|+++++   ++.++++||++++.++
T Consensus       162 a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~~~Ei~~~l~~~  239 (250)
T d1iruc_         162 CIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKH  239 (250)
T ss_dssp             EESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHHHH
T ss_pred             EeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECCHHHHHHHHHHH
Confidence            9999999999999999985 8999999999999999999887 5899999999999853   8999999999998875

>d1irug_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4.6e-63  Score=409.84  Aligned_cols=232  Identities=30%  Similarity=0.487  Sum_probs=217.5

Q ss_pred             CCCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChh
Q 026627            2 GDSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         2 ~~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      +.++||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++++..++.+||++|++|++|++||..+
T Consensus         3 ~~~~yd~~~t~Fsp~Grl~QvEYa~~av~~G~t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~   82 (245)
T d1irug_           3 IGTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLA   82 (245)
T ss_dssp             CCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHH
T ss_pred             CccccCCCCceECCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEeccccccccccCccceEEEcCCCEEEEeccCch
Confidence            56899999999999999999999999999999999999999999999999888877788899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~  160 (235)
                      |++.+.+.++.++..|++.++.+++++.+++.++.++|.|+++++.|||+|++||+|+|+ +||+||.+||.|++.++++
T Consensus        83 D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~~~~~~~  162 (245)
T d1irug_          83 DARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWG  162 (245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSE
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCceEEeeeE
Confidence            999999999999999999999999999999999999999999999999999999999996 6799999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCC-CCCCcEEEEEEecC-CcEEEcCHHHHHHHHHH
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQ-ISEKNIEIGIIGEK-KEFRVLTPNEIRDYLAE  233 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~-~~~~~iei~~i~~~-~~~~~l~~~ei~~~l~~  233 (235)
                      +|+|++++.++++|++.|+++||.+||++++++||+.+.+++ ..+.++||.+|+++ ++++++.++|+.+.+++
T Consensus       163 ~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~~~~e~~~~~~~  237 (245)
T d1irug_         163 CAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEK  237 (245)
T ss_dssp             EEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHH
T ss_pred             EEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEEChHHHHHHHHH
Confidence            999999999999999999999999999999999999888775 47779999999886 45677777777665543

>d1iruf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=5.9e-63  Score=407.86  Aligned_cols=230  Identities=33%  Similarity=0.599  Sum_probs=219.1

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhH
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDF   83 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~   83 (235)
                      .+||+++|+|||||||+|||||.||+++|+|+|||+++||||||+|++.++.+..  +.+||++|+++++|++||..+|+
T Consensus         1 ~~yd~~~tiFsp~Grl~QvEYA~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~--~~~KI~~I~~~i~~~~sG~~~D~   78 (238)
T d1iruf_           1 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA--HQKKILHVDNHIGISIAGLTADA   78 (238)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTBC--CCCCEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccccCCCC--ccceEEEeCCceEEEEeccchHH
Confidence            4799999999999999999999999999999999999999999999999887653  55899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEee
Q 026627           84 RVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAM  163 (235)
Q Consensus        84 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~  163 (235)
                      +.+.+.++.++..|++.++.+++++.+++.++...|.|+++.+.|||++++|+||||++||+||.+||+|++.+++++|+
T Consensus        79 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~gp~Ly~~D~~G~~~~~~~~a~  158 (238)
T d1iruf_          79 RLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSI  158 (238)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEEEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCCCceEEEEcCCCCEEeeeeEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHhccCC--CCHHHHHHHHHHHHHhhccCC--CCCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          164 GKNVSNAKTFLEKRYVEE--MELDDAVHTAILTLKEGFEGQ--ISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       164 G~~s~~~~~~L~~~~~~~--~s~~ea~~l~~~~l~~~~~~~--~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      |++++.++++|++.|+++  ++++||++++++||+.++.++  +++.+|||+++++++++++++++||++++..++
T Consensus       159 G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~~~ei~~~l~~i~  234 (238)
T d1iruf_         159 GARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLE  234 (238)
T ss_dssp             STTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTCC
T ss_pred             CCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECCHHHHHHHHHHHH
Confidence            999999999999999985  589999999999999988754  588999999999987899999999999998875

>d1yara1 d.153.1.4 (A:13-233) Proteasome alpha subunit (non-catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=1.2e-62  Score=401.84  Aligned_cols=221  Identities=39%  Similarity=0.625  Sum_probs=214.9

Q ss_pred             cccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHHHHHH
Q 026627           11 TTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKS   90 (235)
Q Consensus        11 ~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~   90 (235)
                      |+|||||||+|||||+||+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++++++|..+|++.+.+.+
T Consensus         1 t~fsp~G~l~QvEYa~~av~~G~t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~   80 (221)
T d1yara1           1 TVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFA   80 (221)
T ss_dssp             CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHH
T ss_pred             CeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCccceEEEecCCceEEeeeccchHHHHHHHH
Confidence            79999999999999999999999999999999999999999988888888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHH
Q 026627           91 RKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNA  170 (235)
Q Consensus        91 ~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~  170 (235)
                      +.+++.|++.++++++++.+++.++.+++.++++.++|||++++|++|+|++||+||.+||.|++.+++++|+|+|++.+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~  160 (221)
T d1yara1          81 RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAV  160 (221)
T ss_dssp             HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEEEESTTHHHH
T ss_pred             HHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecCCCeEEEEcCCccEEEeeEEEECCchHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHH
Q 026627          171 KTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYL  231 (235)
Q Consensus       171 ~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l  231 (235)
                      +++|++.|+++|+++||++++++||+.+.+++.+..+++|+++++++++|+|+++||+++|
T Consensus       161 ~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~~~~~ei~~i~~~~~~r~l~~~ei~~~l  221 (221)
T d1yara1         161 VSFLEREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL  221 (221)
T ss_dssp             HHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCCEEECCHHHHHHhC
Confidence            9999999999999999999999999999888888889999999998889999999999864

>d1irub_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.2e-62  Score=402.41  Aligned_cols=231  Identities=67%  Similarity=1.071  Sum_probs=223.6

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      ..|||+++|+|||||||+|||||+||+++|+|+||++++||||||+|+|.+++++..++.+|||+|++|++|+++|..+|
T Consensus         2 ~~gyd~~~t~fsp~Gr~~Qveya~kav~~G~tvigik~~dgVvlaaD~r~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D   81 (233)
T d1irub_           2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPD   81 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHH
T ss_pred             CCCcCCCCCeECCCCcChHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCcccCCccccccceEEEecCceEEEEeccchH
Confidence            36999999999999999999999999999999999999999999999999887777889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEe
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      ++.+.+.++.+++.++.+++.+++++.+++.++..++.+++....||++++++++|+|++||+||.+||.|++.+++++|
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~~~~ly~id~~G~~~~~~~~a  161 (233)
T d1irub_          82 YRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATA  161 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccCCceEEEEcCCcceEecccee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          163 MGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       163 ~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+++.+++++|++.|+++|+++||++++++||+.+.++++++++|||++++++ ++|+++++||++++.+|
T Consensus       162 ~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~~~~~vev~ii~~~-g~~~l~~~eI~~~l~~i  232 (233)
T d1irub_         162 MGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEA-GFRRLTPTEVKDYLAAI  232 (233)
T ss_dssp             ESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETT-EEEECCHHHHHHHHTTC
T ss_pred             cCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccCCCCcEEEEEEeCC-CeEECCHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999888889999999987 59999999999999876

>d1rypc_ d.153.1.4 (C:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=7e-62  Score=402.91  Aligned_cols=231  Identities=39%  Similarity=0.678  Sum_probs=220.5

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCC-ccccCCceeEEEecCcEEEEEecChh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSI-LVDESSVHKIQSLTPNIGVVYSGMGP   81 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~-l~~~~~~~KI~~i~~~i~~~~sG~~~   81 (235)
                      .++||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++ ++..++.+||++|++|++++++|..+
T Consensus         2 ~~~yd~~~t~fsp~G~~~Qveya~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~   81 (244)
T d1rypc_           2 SRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTA   81 (244)
T ss_dssp             CGGGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHH
T ss_pred             CCccCCCceeECCCCcChHHHHHHHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccC
Confidence            46899999999999999999999999999999999999999999999999875 56677899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeE
Q 026627           82 DFRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKA  160 (235)
Q Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~  160 (235)
                      |++.+.+.++.+++.|+..++.+++++.+++.++.+++.++++.++|||++++||+|+|+ +||+||.+||.|++.++++
T Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~~~~  161 (244)
T d1rypc_          82 DAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKA  161 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSE
T ss_pred             cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEecCCCcEeeeee
Confidence            999999999999999999999999999999999999999999999999999999999997 5799999999999999999


Q ss_pred             EeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC-----cEEEcCHHHHHHHHHH
Q 026627          161 SAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK-----EFRVLTPNEIRDYLAE  233 (235)
Q Consensus       161 ~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~-----~~~~l~~~ei~~~l~~  233 (235)
                      +|+|+|+.+++++|++.|+++|+++||++++++||+.+.++|. ++.++||++|++++     .+|.++++||++++.+
T Consensus       162 ~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~~~~~~~~~~~~~Ei~~~l~k  240 (244)
T d1rypc_         162 ISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVK  240 (244)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHHH
T ss_pred             eeccchhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCcccceeEEECCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999885 88899999999875     2789999999999875

>d1rypd_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.2e-61  Score=400.80  Aligned_cols=229  Identities=36%  Similarity=0.645  Sum_probs=217.6

Q ss_pred             CCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCcc-ccCCceeEEEecCcEEEEEecChhhH
Q 026627            5 QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILV-DESSVHKIQSLTPNIGVVYSGMGPDF   83 (235)
Q Consensus         5 ~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~-~~~~~~KI~~i~~~i~~~~sG~~~D~   83 (235)
                      |||+++|+|||||||+|||||.||+++|+|+|||+++||||||+|++.+++++ ...+.+||++|++|++|++||..+|+
T Consensus         1 gyd~~~t~fsp~Grl~QvEya~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   80 (241)
T d1rypd_           1 GYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADS   80 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCCceECCCCcEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchH
Confidence            79999999999999999999999999999999999999999999999998654 45688999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC--CCCeEEEECCCCcEEeeeEE
Q 026627           84 RVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD--KGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        84 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~--~gp~Ly~id~~G~~~~~~~~  161 (235)
                      +.+.+.++.++..|+++++.+++++.+++.++.++|.++++.++|||+|++|+||+|+  +||+||.+||+|++.+++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~~~~  160 (241)
T d1rypd_          81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQ  160 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEEEEeeCeE
Confidence            9999999999999999999999999999999999999999999999999999999996  57999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccC---CCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          162 AMGKNVSNAKTFLEKRYVE---EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~---~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      |+|+|++.++++|++.|++   +|+.+|+++++++||+.+.++  ++.++||+++++++++++|+++||++++..|+
T Consensus       161 a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~--~~~~iei~ii~~d~~~~~l~~~ei~~~l~~i~  235 (241)
T d1rypd_         161 TIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQT--GAKNIEITVVKPDSDIVALSSEEINQYVTQIE  235 (241)
T ss_dssp             EESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCS--CSTTEEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             EECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcC--CCCcEEEEEEECCCCEEECCHHHHHHHHHHHH
Confidence            9999999999999999965   699999999999999988754  57799999999988899999999999998875

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.7e-62  Score=405.10  Aligned_cols=229  Identities=37%  Similarity=0.664  Sum_probs=217.3

Q ss_pred             CCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHH
Q 026627            5 QYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFR   84 (235)
Q Consensus         5 ~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~   84 (235)
                      +||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++++.+++.+||++|+++++|++||..+|++
T Consensus         1 ~yd~~~t~Fsp~Grl~QvEya~kav~~G~Tvvgik~~dgVvla~d~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   80 (243)
T d1irud_           1 SYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADAR   80 (243)
T ss_dssp             CCCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             CCCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccccCcccCCCccccEEECCCCEEEEEEEchhhHH
Confidence            59999999999999999999999999999999999999999999999888888888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEee
Q 026627           85 VLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAM  163 (235)
Q Consensus        85 ~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~  163 (235)
                      .+.+.++.++..|+++++.+++++.++++++.++|.|+++++.|||++++|++|+|+ +||+||.+||.|++.+++++|+
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~~~a~  160 (243)
T d1irud_          81 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI  160 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcEEEEeccEEEE
Confidence            999999999999999999999999999999999999999999999999999999997 4799999999999999999999


Q ss_pred             CCCchHHHHHHHHhccCCC--CHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          164 GKNVSNAKTFLEKRYVEEM--ELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       164 G~~s~~~~~~L~~~~~~~~--s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      |+|+..++++|++.|+++|  +.++++++++++|.....  .++.+++|+++++++++++++++||++++..++
T Consensus       161 G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~~~--~~~~~vei~ii~k~~~~~~l~~~eI~~~l~~i~  232 (243)
T d1irud_         161 GRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEIE  232 (243)
T ss_dssp             STTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC--TTSTTCCEEEEESSSCEECCCHHHHHHHTTTTT
T ss_pred             CCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHHhc--CCCCcEEEEEEECCCCEEECCHHHHHHHHHHHH
Confidence            9999999999999999988  667799999999886554  367789999999987899999999999998764

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=4.1e-62  Score=404.08  Aligned_cols=230  Identities=29%  Similarity=0.520  Sum_probs=219.8

Q ss_pred             CCCCCcccccCCCCccchhhcHHHhhcC-CCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            4 SQYSFSLTTFSPSGKLVQIEHALTAVGS-GQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         4 ~~yd~~~~~fsp~Grl~Q~eya~ka~~~-G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      .|||+++|+|||||||+|||||+||+++ |+|+|||+++||||||+|+|.+++++..++.+||++|++|++|++||..+|
T Consensus         1 ~gyd~~~t~fsp~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   80 (243)
T d1rypa_           1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             CGGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCCCeECCCCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccccccccCcccceEecCCCEEEEEecCcHH
Confidence            3899999999999999999999999997 558999999999999999999888888888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEE
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKAS  161 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~  161 (235)
                      ++.+.+.++.+++.|++.++.+++++.+++.++..+|.+++..+.|||++++|++|||+ .||+||.+||.|++.+++++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~  160 (243)
T d1rypa_          81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKAT  160 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCCEEEEecceE
Confidence            99999999999999999999999999999999999999999999999999999999996 57999999999999999999


Q ss_pred             eeCCCchHHHHHHHHhccC-------CCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          162 AMGKNVSNAKTFLEKRYVE-------EMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~-------~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      |+|+|+..++++|++.|++       +++.+||++++++||+.+..++.++.+++|++++++ ++++++++||++++..|
T Consensus       161 a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~~~~~iei~iitk~-g~~~l~~eeI~~~l~~i  239 (243)
T d1rypa_         161 ATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKD-KFFTLSAENIEERLVAI  239 (243)
T ss_dssp             EESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETT-EEEECCHHHHHHHHHHH
T ss_pred             EeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-ceEEeCHHHHHHHHHHH
Confidence            9999999999999999975       468999999999999999999988899999999997 59999999999999876

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.3e-61  Score=401.10  Aligned_cols=232  Identities=35%  Similarity=0.547  Sum_probs=216.9

Q ss_pred             CCCCCCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhh
Q 026627            3 DSQYSFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPD   82 (235)
Q Consensus         3 ~~~yd~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (235)
                      .++||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.++++...++.+||++|++|++|+++|..+|
T Consensus         1 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (244)
T d1rypg_           1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPD   80 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHH
T ss_pred             CCCcCCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCCCccccccceEEEccCceEEEEccchhh
Confidence            37999999999999999999999999999999999999999999999999987766667789999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEe
Q 026627           83 FRVLVRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASA  162 (235)
Q Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a  162 (235)
                      ++.+.+.++.+++.|++.++++++++.+++.++..+|.|+++++.|||++++|++|||++||+||.+||.|++.+++++|
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~gp~Ly~idp~Gs~~~~~~~a  160 (244)
T d1rypg_          81 GRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAA  160 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCCCCEEEEEcCCccEEecCeEe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eCCCchHHHHHHHH---hccCCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecC---CcEEEcCHHHHHHHHHHc
Q 026627          163 MGKNVSNAKTFLEK---RYVEEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEK---KEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       163 ~G~~s~~~~~~L~~---~~~~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~---~~~~~l~~~ei~~~l~~~  234 (235)
                      +|+|+..++++|++   .|+++|+++||++++++||+.+.+++. .+.+++|.+++.+   +.++.++.|+++++++..
T Consensus       161 ~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~~~~~~~~~~~~e~~~~~~~~~  239 (244)
T d1rypg_         161 TGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFA  239 (244)
T ss_dssp             ESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHHHHH
T ss_pred             cCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEEcCCCeEEECCHHHHHHHHHHH
Confidence            99999999999996   699999999999999999999988764 6778999999753   346777778888887653

>d1rype_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.8e-61  Score=398.87  Aligned_cols=228  Identities=30%  Similarity=0.553  Sum_probs=217.5

Q ss_pred             CCcccccCCCCccchhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHH
Q 026627            7 SFSLTTFSPSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVL   86 (235)
Q Consensus         7 d~~~~~fsp~Grl~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l   86 (235)
                      |+++|+|||||||+|||||+||+++|+|+||++++||||||+|+|.+++++..++.+||++|+++++|++||..+|++.+
T Consensus         1 d~~~t~fsp~G~l~Qveya~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   80 (242)
T d1rype_           1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARSM   80 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHHH
T ss_pred             CCCcceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCccCcCcccCccceEEEcCCCEEEEEeecchhHHHH
Confidence            88999999999999999999999999999999999999999999998888777889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC------cccceeEEEEEEEeC-CCCeEEEECCCCcEEeee
Q 026627           87 VRKSRKQAEQYHRLYKEPIPVTQLVRETAAVMQEFTQSGG------VRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWK  159 (235)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~~~~~~~------~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~  159 (235)
                      .++++.+++.|++.++++++++.+++.+++++|.|++..+      +|||++++||+|+|+ ++|+||.+||.|++.+++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~~~  160 (242)
T d1rype_          81 IEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYN  160 (242)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceeccc
Confidence            9999999999999999999999999999999998877643      699999999999996 559999999999999999


Q ss_pred             EEeeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          160 ASAMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTLKEGFEGQISEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       160 ~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      ++|+|+|++.++++|++.|+++|+++||++++++||+.+.+++.+.++++|++++++.++++++++||++++.++
T Consensus       161 ~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~~~~~~v~~i~~~~g~~~l~~~~i~~~~~~i  235 (242)
T d1rype_         161 AKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKEL  235 (242)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             eeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCceEEEEEECCCCeEECCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999998888778999999987789999999999998876

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=1.9e-48  Score=318.42  Aligned_cols=205  Identities=21%  Similarity=0.367  Sum_probs=182.4

Q ss_pred             chhhcHHHhhcCCCcEEEEEeCCEEEEEEeecCCCCccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHH
Q 026627           20 VQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHR   99 (235)
Q Consensus        20 ~Q~eya~ka~~~G~tivgi~~~dgvvla~d~~~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~   99 (235)
                      .|+|||.||+++|+|+|||+++||||||+|+|.       ++.+||++|++||+|+++|..+|++.|.++++.+++.|++
T Consensus         7 ~q~eyA~~av~~GtT~vgi~~~~GVvlaad~r~-------~s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~   79 (227)
T d1q5qa_           7 DRSELARKGIARGRSVVVLTFRDGVLFVAENPS-------TALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGY   79 (227)
T ss_dssp             HHHHHHHHHHHTSCCEEEEECSSEEEEEECCSC-------SSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhcCCCEEEEEECCEEEEEEccCC-------CCcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHH
Confidence            499999999999999999999999999999986       3568999999999999999999999999999999999999


Q ss_pred             HhC-CCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC----CCCeEEEECCCCcEEeee-EEeeCCCchHHHHH
Q 026627          100 LYK-EPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD----KGPQLYQVDPSGSYFSWK-ASAMGKNVSNAKTF  173 (235)
Q Consensus       100 ~~~-~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~----~gp~Ly~id~~G~~~~~~-~~a~G~~s~~~~~~  173 (235)
                      .++ .+++++.+++.++..++..... +.|||+|++|+||||.    +||+||.+||+|++.+++ +++.|++++.++++
T Consensus        80 ~~~~~~~~~~~la~~~~~~~~~~~~~-~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~  158 (227)
T d1q5qa_          80 SYDRRDVTGRSLANAYAQTLGTIFTE-QPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATA  158 (227)
T ss_dssp             HSCGGGCCHHHHHHHHHHHHHHHHHH-SSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHH
T ss_pred             HhCCCCCcHHHHHHHHHHHHHHHHHh-cCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHHHHH
Confidence            998 5689999999999886543332 4799999999999986    469999999999998875 56677788999999


Q ss_pred             HHHhccCCCCHHHHHHHHHHHHHhhccCC-----CCCCcEEEEEEecCC---cEEEcCHHHHHHHHH
Q 026627          174 LEKRYVEEMELDDAVHTAILTLKEGFEGQ-----ISEKNIEIGIIGEKK---EFRVLTPNEIRDYLA  232 (235)
Q Consensus       174 L~~~~~~~~s~~ea~~l~~~~l~~~~~~~-----~~~~~iei~~i~~~~---~~~~l~~~ei~~~l~  232 (235)
                      |++.|+++||++||++++++||+.+..++     +.+.++||+++++++   .|++|+++||+++|+
T Consensus       159 Le~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~~~fr~l~~~ei~~~l~  225 (227)
T d1q5qa_         159 MRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP  225 (227)
T ss_dssp             HHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSC
T ss_pred             HHHhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCccceEEcCHHHHHHHhc
Confidence            99999999999999999999999998865     356789999999875   599999999999875

>d1yarh1 d.153.1.4 (H:1-203) Proteasome beta subunit (catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=5.4e-47  Score=305.01  Aligned_cols=197  Identities=22%  Similarity=0.391  Sum_probs=187.3

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+||++++||||||+|+|.+. +++.+++.+|||+|++|++||+||..+|++.+.+.++.+++.++..++.+++++.++
T Consensus         1 TT~igi~~kdgVvia~D~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (203)
T d1yarh1           1 TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVA   80 (203)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCEeecCCcccEEEecCCeeeecCCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            6999999999999999999874 677889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      ++++++.+.++    .|||++++|+||+|+ +|+||.+||.|++.+++++|+|+|++.++++|++.|+++||++||++++
T Consensus        81 ~~l~~~~~~~~----~~p~~~~~lvaG~d~-~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~  155 (203)
T d1yarh1          81 TLLSNMLNQVK----YMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLV  155 (203)
T ss_dssp             HHHHHHHHHTT----TSCCCEEEEEEEESS-SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHhhc----cCCccceeEEEEEcC-CCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHH
Confidence            99999888765    589999999999986 6999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      ++||+.+.++|. ++.+++|+++++++++++++++||++++.++
T Consensus       156 ~~~l~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei~~~~~~~  199 (203)
T d1yarh1         156 IRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKL  199 (203)
T ss_dssp             HHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCCeEEEEEEECCCCEEECCHHHHHHHHHHh
Confidence            999999999885 8899999999987789999999999999875

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=6.5e-47  Score=304.14  Aligned_cols=198  Identities=19%  Similarity=0.317  Sum_probs=188.5

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+|||+++||||||+|++.+. .++..++.+|||+|+++++|+++|..+|++.+.+.++.+++.|+..++.+++++.++
T Consensus         1 TT~igi~~~dgVvlaaD~~~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (201)
T d1irul_           1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (201)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCCEeecCCcccEEEeCCcEEEEEcCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHH
Confidence            6999999999999999999885 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++++|.++    .+||+++++++|+|++||+||.+||.|++.+++++|+|+|+++++++|++.|+++||.+||++++
T Consensus        81 ~~l~~~~~~~~----~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~  156 (201)
T d1irul_          81 KLLANMVYQYK----GMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLA  156 (201)
T ss_dssp             HHHHHHHHTTT----TSCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHH
T ss_pred             HHHHHHhhhcc----CCCceEEEEEEEEecCCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHH
Confidence            99999998776    57999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      ++||+.+.++|. ++.+++|++++++| +++++++||.++.++.+
T Consensus       157 ~~~l~~~~~~d~~sg~~~~v~~i~~~G-~~~i~~~ev~~~~~~~~  200 (201)
T d1irul_         157 RRAIYQATYRDAYSGGAVNLYHVREDG-WIRVSSDNVADLHEKYS  200 (201)
T ss_dssp             HHHHHHHHHHBTTCCSEEEEEEECSSC-EEEEEEEEHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCCCCceEEEEEeCCc-eEEECHHHHHHHHHhhc
Confidence            999999999985 99999999999985 99999999999988764

>d1j2qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=8.9e-46  Score=297.45  Aligned_cols=198  Identities=26%  Similarity=0.419  Sum_probs=187.6

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+|||+++||||||+|+|.+. +++.+++.+|||+|+++++|+++|..+|++.+.++++.+++.|++.++.+++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~s~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1j2qh_           1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCeeccCccceEEEecCcEEEEecCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHH
Confidence            6999999999999999999874 778888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEee-eEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSW-KASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~-~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++++|.++    .+||++++|+||+|++||+||.+||+|++.++ +++|+|+|+++++++|++.|+++|+++||+++
T Consensus        81 ~~~~~~~~~~~----~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l  156 (202)
T d1j2qh_          81 TLTSNLLNSYR----YFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL  156 (202)
T ss_dssp             HHHHHHHHHTT----TSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHhhhc----ccceeeEEEEEEEcCCCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHH
Confidence            99999999887    47999999999999999999999999998775 58999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHcC
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEVE  235 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~~  235 (235)
                      +++||+.+.++|. ++.+++|++|+++ ++++++++||++++.+++
T Consensus       157 ~~~al~~~~~~d~~~g~~v~v~~i~~~-g~~~~~~~ei~~~l~~~~  201 (202)
T d1j2qh_         157 AVRAIYSAMKRDSASGDGIDVVKITED-EFYQYSPEEVEQILAKFR  201 (202)
T ss_dssp             HHHHHHHHHTTCTTSCSCEEEEEECSS-CEEECHHHHHHHHGGGTT
T ss_pred             HHHHHHHHHHhcCCCCCeEEEEEEECC-CEEEeCHHHHHHHHHHhh
Confidence            9999999999885 8889999999998 499999999999998874

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=6.2e-46  Score=297.71  Aligned_cols=192  Identities=20%  Similarity=0.297  Sum_probs=181.0

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      +|+|||+++||||||+|+|.+. .++..++.+||++|++|++|+++|..+|++.+.+.++.+++.|+++++.+++++.++
T Consensus         2 ~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   81 (198)
T d1rypk_           2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVS   81 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             eEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHH
Confidence            6899999999999999999886 566678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC--CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD--KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVH  189 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~--~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~  189 (235)
                      +++++.++.+++.  .|||++++|+||||+  +||+||.+||.|++.+++++++|+|+.+++++|++.|+++|+++||++
T Consensus        82 ~~i~~~~~~~~~~--~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~  159 (198)
T d1rypk_          82 SFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLD  159 (198)
T ss_dssp             HHHHHHHHHHTTS--SSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHHHHhc--ccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHHHHHH
Confidence            9999999877654  699999999999996  479999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHH
Q 026627          190 TAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEI  227 (235)
Q Consensus       190 l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei  227 (235)
                      ++++||+.+.++|. ++.+++|++|+++ ++++++++|+
T Consensus       160 l~~~~l~~~~~~d~~s~~~~~v~vi~~d-G~~~~~~~~~  197 (198)
T d1rypk_         160 LLKLCVQELEKRMPMDFKGVIVKIVDKD-GIRQVDDFQA  197 (198)
T ss_dssp             HHHHHHHHHHHHCSBCCCCEEEEEEETT-EEEEECCCSC
T ss_pred             HHHHHHHHHHHhcCcCCCcEEEEEEcCC-CeEEcchhcc
Confidence            99999999999885 8889999999997 5999998875

>d1ryph_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.7e-45  Score=296.62  Aligned_cols=196  Identities=17%  Similarity=0.283  Sum_probs=180.7

Q ss_pred             hhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q 026627           28 AVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIP  106 (235)
Q Consensus        28 a~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  106 (235)
                      .+++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++.+ +
T Consensus         5 ~v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~   83 (205)
T d1ryph_           5 EVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-S   83 (205)
T ss_dssp             CCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-C
T ss_pred             cccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-c
Confidence            378999999999999999999999885 67778899999999999999999999999999999999999999999865 5


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHH
Q 026627          107 VTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELD  185 (235)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~  185 (235)
                      +..+++.++++++.+     .+||++++|+||+|+ ++|+||.+||.|++.+++++|+|+|+.+++++|++.|+++||++
T Consensus        84 ~~~~~~~~~~~~~~~-----~~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~  158 (205)
T d1ryph_          84 TETAASVFKELCYEN-----KDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKE  158 (205)
T ss_dssp             HHHHHHHHHHHHHHT-----TTTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHH
T ss_pred             HHHHHHHHHHHHHhC-----ccCceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhcccCHH
Confidence            788999999888765     379999999999997 57999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC-cEEEcCHHHHHH
Q 026627          186 DAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK-EFRVLTPNEIRD  229 (235)
Q Consensus       186 ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~-~~~~l~~~ei~~  229 (235)
                      ||++++++||+.+.++|. ++++++|++|+++| .++.+.++|+++
T Consensus       159 ea~~l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~~~~~e~~~  204 (205)
T d1ryph_         159 ETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQ  204 (205)
T ss_dssp             HHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECHHHHTC
T ss_pred             HHHHHHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEEecCcccccc
Confidence            999999999999999985 89999999999986 234589999875

>d1rypl_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=4e-45  Score=295.92  Aligned_cols=197  Identities=16%  Similarity=0.263  Sum_probs=185.5

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+||++++||||||+|+|.++ .++..++.+|||+|+++++|+++|..+|++.+.+.++.+++.|++.++.+++++.++
T Consensus         1 TT~iai~~kdgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (212)
T d1rypl_           1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            7999999999999999999885 678888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++++|.++    .+|+++..+++|+++ .||+||.+||+|++.+++++|+|+|+++++++|++.|+++|+++||+++
T Consensus        81 ~~ls~~~~~~~----~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l  156 (212)
T d1rypl_          81 KILSNLVYQYK----GAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  156 (212)
T ss_dssp             HHHHHHHHHTT----TSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHhc----cCCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHHH
Confidence            99999998765    468999999999876 5799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      +++||+.+.++|. ++++++|++|+++ ++++++++||.+++.++
T Consensus       157 ~~~al~~~~~rd~~sg~~v~v~vi~~~-g~~~~~~~ev~~~~~~~  200 (212)
T d1rypl_         157 GKRSILAAAHRDAYSGGSVNLYHVTED-GWIYHGNHDVGELFWKV  200 (212)
T ss_dssp             HHHHHHHHHHHBTTCCSEEEEEEEETT-EEEEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCceEEEEEcCC-ceEEeCHHHHHHHHHHH
Confidence            9999999999985 8999999999998 59999999999987654

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=5.3e-44  Score=287.24  Aligned_cols=193  Identities=19%  Similarity=0.253  Sum_probs=180.8

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+||++++||||||+|+|.++ .++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|+..++.+++++.++
T Consensus         1 TTivai~~~dgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1iruh_           1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCccccCCeeecCCcceEEEcCCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            6999999999999999999985 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +++++.++.++     +||++++|++|+|+ ++|+||.+||.|++.+++++++|+|+.+++++|++.|+++|+++||+++
T Consensus        81 ~~l~~~l~~~~-----~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l  155 (202)
T d1iruh_          81 SLFKEMCYRYR-----EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQF  155 (202)
T ss_dssp             HHHHHHHHHTT-----TTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhc-----cceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHH
Confidence            99999998763     69999999999997 5799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCC-cEEEcCHHHHHHH
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKK-EFRVLTPNEIRDY  230 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~-~~~~l~~~ei~~~  230 (235)
                      +++||+.+.++|. ++++++|++|+++| .++.+++|||+.+
T Consensus       156 ~~~al~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~  197 (202)
T d1iruh_         156 TANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKF  197 (202)
T ss_dssp             HHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCC
T ss_pred             HHHHHHHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhh
Confidence            9999999999986 89999999999985 2345999988654

>d1irui_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.7e-43  Score=286.68  Aligned_cols=189  Identities=21%  Similarity=0.339  Sum_probs=177.8

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+|||+++||||||+|+|.++ .++..++.+||++|++|++++++|..+|++.+.+.++.+++.|++.++.+++++.++
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEecCcEEEEEccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            6999999999999999999986 567778999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++.++.+     .+|+++++|++|+|++||+||.+||.|++.+++++|+|+|+++++++|++.|+++||++||++++
T Consensus        81 ~~l~~~~y~~-----~~p~~~~~ivaG~D~~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~  155 (220)
T d1irui_          81 RMLKQMLFRY-----RGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLV  155 (220)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHH
T ss_pred             HHHHhhhhhc-----ccccceeEEEEEEeCCCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHH
Confidence            9999988755     47999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHH
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEI  227 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei  227 (235)
                      ++||+.+.++|. ++++|+|++|+++ +++++.+.++
T Consensus       156 ~~al~~~~~~D~~sg~~i~i~vitkd-g~~~~~~~~~  191 (220)
T d1irui_         156 SEAIAAGIFNDLGSGSNIDLCVISKN-KLDFLRPYTV  191 (220)
T ss_dssp             HHHHHHHHHHCTTCCSCEEEEEEETT-EEECCSEEEC
T ss_pred             HHHHHHhhccCCCCCCcEEEEEEECC-CeEEeCcccc
Confidence            999999999985 8999999999998 4777776544

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=6.2e-44  Score=292.83  Aligned_cols=202  Identities=19%  Similarity=0.229  Sum_probs=185.0

Q ss_pred             HHhhcCCCcEEEEEeCCEEEEEEeecCC-CCccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHh---
Q 026627           26 LTAVGSGQTSLGIKASNGVVIATEKKLP-SILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLY---  101 (235)
Q Consensus        26 ~ka~~~G~tivgi~~~dgvvla~d~~~~-~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~---  101 (235)
                      ++++.+|+|+|||+++||||||+|+|.+ ++++..++.+||++|++|++|+++|..+|++.+.+.++.++..|++.+   
T Consensus         2 ~~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~   81 (233)
T d1ryp2_           2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             CCCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCC
Confidence            3578899999999999999999999987 578888899999999999999999999999999999999999998876   


Q ss_pred             --CCCCCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCC-CeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhc
Q 026627          102 --KEPIPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRY  178 (235)
Q Consensus       102 --~~~i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~  178 (235)
                        +..++++.+++++++.++.  ++..+|||+++++++|+|++| |+||.+||.|++.+++++|+|+|+++++++|++.|
T Consensus        82 ~~~~~~~~~~~a~~l~~~~y~--~~~~~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~  159 (233)
T d1ryp2_          82 DAEEALEPSYIFEYLATVMYQ--RRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHH--HHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             CCCcccCHHHHHHHHHHHHHh--hccccCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHH
Confidence              4678999999999987754  444589999999999999855 78999999999999999999999999999999999


Q ss_pred             c-----CCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHHH
Q 026627          179 V-----EEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIRD  229 (235)
Q Consensus       179 ~-----~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~~  229 (235)
                      +     ++|+++||++++++||+.+.+||. ++++|+|++|+++++++.+++++|+.
T Consensus       160 ~~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~g~~~~~~~~ie~  216 (233)
T d1ryp2_         160 DRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVEN  216 (233)
T ss_dssp             CSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCS
T ss_pred             hhcccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCCCEEECChhcchh
Confidence            7     789999999999999999999985 89999999999987899999988865

>d1rypi_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.1e-42  Score=283.35  Aligned_cols=186  Identities=20%  Similarity=0.310  Sum_probs=174.3

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+|||+++||||||+|+|.+. .++..++.+||++|++|++||++|..+|++.+.+.++.+++.|++.++.++++..++
T Consensus         1 TTiVgik~~dGVviaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a   80 (222)
T d1rypi_           1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCceeecCCcccEEEEcCCEEEEecccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHH
Confidence            6999999999999999999885 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHTA  191 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~  191 (235)
                      +++++.++.+     .+|+++++++||+|++||+||.+||.|++.+++++|+|+|+++++++|++.|+++|+++||++++
T Consensus        81 ~~l~~~~~~~-----~~p~~~~~l~aG~d~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l~  155 (222)
T d1rypi_          81 QMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLA  155 (222)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHH
T ss_pred             HHHHHHHHhh-----hhccceeEEEEEEcCCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHHH
Confidence            9999877654     47999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhccCCC-CCCcEEEEEEecCCcEEEcC
Q 026627          192 ILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLT  223 (235)
Q Consensus       192 ~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~  223 (235)
                      ++||+.+.++|. ++++++|+++++++..+.+.
T Consensus       156 ~~al~~a~~~D~~sg~~i~i~vi~~~~~~~~~~  188 (222)
T d1rypi_         156 SDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLR  188 (222)
T ss_dssp             HHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEE
T ss_pred             HHHHHHHhcccCCCCCcEEEEEEEcCCCeEEec
Confidence            999999999985 88999999999876555544

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.5e-42  Score=280.36  Aligned_cols=199  Identities=18%  Similarity=0.159  Sum_probs=179.5

Q ss_pred             HhhcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHH-hCCC
Q 026627           27 TAVGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRL-YKEP  104 (235)
Q Consensus        27 ka~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~-~~~~  104 (235)
                      .++.+|+|+|||+++||||||+|+|.+. .++..++.+||++|+++++||++|..+|++.+.++++.++..++.. ++.+
T Consensus         3 ~~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T d1iru2_           3 NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHS   82 (217)
T ss_dssp             SCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             CCcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCC
Confidence            3567899999999999999999999874 7787889999999999999999999999999999999999887765 4589


Q ss_pred             CCHHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhcc--CCC
Q 026627          105 IPVTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV--EEM  182 (235)
Q Consensus       105 i~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~--~~~  182 (235)
                      ++++.+++++++.++.+  +...+|+++++|++|+|+++|+||.+||.|++.+++++|+|+|+.+++++|++.|+  ++|
T Consensus        83 ~~v~~~a~~l~~~~y~~--~~~~~p~~~~~li~G~d~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~l  160 (217)
T d1iru2_          83 YSPRAIHSWLTRAMYSR--RSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVL  160 (217)
T ss_dssp             CCHHHHHHHHHHHHHHH--HHTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCC
T ss_pred             CCHHHHHHHHHHHHHHh--ccccCcccceEEEEEEcCCCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCC
Confidence            99999999999977544  44579999999999999999999999999999999999999999999999999764  899


Q ss_pred             CHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHHHH
Q 026627          183 ELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNEIR  228 (235)
Q Consensus       183 s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~ei~  228 (235)
                      +.+||++++++||+.+.++|. ++++++|++|+++| ++++.+.+++
T Consensus       161 t~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G-~~~~~~~~~~  206 (217)
T d1iru2_         161 SQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKG-VEIEGPLSTE  206 (217)
T ss_dssp             CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTE-EEEEEEECCC
T ss_pred             CHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCCC-EEEcCCeecc
Confidence            999999999999999999985 89999999999984 7766655543

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=3.9e-41  Score=274.34  Aligned_cols=200  Identities=17%  Similarity=0.210  Sum_probs=184.5

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+|||+++||||||+|+|.++ +++..++.+||++|++|++++++|..+|++.+.+.++.+++.|++.++.++++..++
T Consensus         1 TTivgi~~kdgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T d1q5qh_           1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (224)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeecCCcceEEEeCCcEEEEecccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHH
Confidence            7999999999999999999886 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC------CCCeEEEECCCCcEEee--eEEeeCCCchHHHHHHHHhccCCCC
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD------KGPQLYQVDPSGSYFSW--KASAMGKNVSNAKTFLEKRYVEEME  183 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~------~gp~Ly~id~~G~~~~~--~~~a~G~~s~~~~~~L~~~~~~~~s  183 (235)
                      +.+++.+|.+++. ..+|+++..+++|++.      .+|+||.+||+|+..++  +++|+|+|+.+++++|++.|+++||
T Consensus        81 ~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt  159 (224)
T d1q5qh_          81 NRLASMVRGNLGA-AMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSD  159 (224)
T ss_dssp             HHHHHHHHTTHHH-HTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHhhcc-cccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCC
Confidence            9999999988764 3789999999998873      47999999999998765  7899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccCCC-CCC-------cEEEEEEecCCcEEEcCHHHHHHHHHHc
Q 026627          184 LDDAVHTAILTLKEGFEGQI-SEK-------NIEIGIIGEKKEFRVLTPNEIRDYLAEV  234 (235)
Q Consensus       184 ~~ea~~l~~~~l~~~~~~~~-~~~-------~iei~~i~~~~~~~~l~~~ei~~~l~~~  234 (235)
                      ++||++++++||+.+.++|. +++       .+++++++++ ++++++++||++++.++
T Consensus       160 ~~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~~~-g~~~l~~~ei~~~~~~~  217 (224)
T d1q5qh_         160 EETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQA-GAVHVSEETTSELARRI  217 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETT-EEEECCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEeCC-cEEEcCHHHHHHHHHHH
Confidence            99999999999999999986 554       4799999997 59999999999999876

>d1iruj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=7.9e-41  Score=269.00  Aligned_cols=185  Identities=17%  Similarity=0.233  Sum_probs=172.5

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPV  107 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  107 (235)
                      .-+|+|+|||+++||||||+|+|.+. .++..++.+||++|++|+++|++|..+|++.+.++++.+++.|++.++.++++
T Consensus         4 ~~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1iruj_           4 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   83 (204)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             eeCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccch
Confidence            34799999999999999999999986 56778899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCC--CCeEEEECCCCcEEee-eEEeeCCCchHHHHHHHHhccCCCCH
Q 026627          108 TQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDK--GPQLYQVDPSGSYFSW-KASAMGKNVSNAKTFLEKRYVEEMEL  184 (235)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~--gp~Ly~id~~G~~~~~-~~~a~G~~s~~~~~~L~~~~~~~~s~  184 (235)
                      +.+++++++++|.++    ++||++++||||+|++  +|.+|.+||.|....+ .++++|+|+++++++|++.|+++|++
T Consensus        84 ~~~a~~l~~~~~~~~----~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~  159 (204)
T d1iruj_          84 YTLMSMVANLLYEKR----FGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDP  159 (204)
T ss_dssp             HHHHHHHHHHHHTTT----TSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHHHHhh----hccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCCCH
Confidence            999999999887664    5799999999999974  4789999999987765 68999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCC
Q 026627          185 DDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKK  217 (235)
Q Consensus       185 ~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~  217 (235)
                      +||++++++||+.+.++|. ++.+++|++|++++
T Consensus       160 ~ea~~l~~~al~~a~~rd~~sg~~~~v~ii~k~g  193 (204)
T d1iruj_         160 DHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDK  193 (204)
T ss_dssp             HHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSB
T ss_pred             HHHHHHHHHHHHHHHhhcccCCCcEEEEEEeCCC
Confidence            9999999999999999986 89999999999986

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.4e-40  Score=265.97  Aligned_cols=186  Identities=19%  Similarity=0.187  Sum_probs=171.8

Q ss_pred             cCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 026627           30 GSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVT  108 (235)
Q Consensus        30 ~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  108 (235)
                      .+|+|+|||+++||||||+|+|.+. .++..++.+|||++ ++++++++|..+|++.+.++++.+++.|++.++.+++++
T Consensus         6 ~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1rypj_           6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPE   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             cCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcch
Confidence            4799999999999999999999886 56667889999999 599999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CC-CeEEEECCCCcEEee-eEEeeCCCchHHHHHHHHhccCCCCHH
Q 026627          109 QLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KG-PQLYQVDPSGSYFSW-KASAMGKNVSNAKTFLEKRYVEEMELD  185 (235)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~g-p~Ly~id~~G~~~~~-~~~a~G~~s~~~~~~L~~~~~~~~s~~  185 (235)
                      .+++++++.+|.++    .+||+++++++|+|+ +| |+||.+||+|++.++ .++++|+|+++++++|++.|+++|+++
T Consensus        85 ~la~~l~~~l~~~~----~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~  160 (204)
T d1rypj_          85 TFTQLVSSSLYERR----FGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPE  160 (204)
T ss_dssp             HHHHHHHHHHHTTT----TSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHH
T ss_pred             HHHHHHHHHHHhhc----ccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccCCCHH
Confidence            99999999887654    579999999999996 44 899999999999876 588889999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEE
Q 026627          186 DAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFR  220 (235)
Q Consensus       186 ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~  220 (235)
                      ||++++++||..+.++|. ++.+++|+++++++..+
T Consensus       161 ea~~l~~~al~~a~~~d~~sg~~~~v~ii~kdg~~~  196 (204)
T d1rypj_         161 DLFETISQALLNAADRDALSGWGAVVYIIKKDEVVK  196 (204)
T ss_dssp             HHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEE
T ss_pred             HHHHHHHHHHHHHHHhcCccCCeEEEEEEECCceEE
Confidence            999999999999999985 89999999999987333

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=9.7e-41  Score=271.72  Aligned_cols=187  Identities=21%  Similarity=0.315  Sum_probs=170.1

Q ss_pred             hcCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhC-CCCC
Q 026627           29 VGSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYK-EPIP  106 (235)
Q Consensus        29 ~~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~  106 (235)
                      +++|+|+|||+++||||||+|+|.+. .++..++.+||++|++|++++++|..+|++.+.++++.+++.|++.++ ..++
T Consensus         6 ~~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T d1ryp1_           6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             cCCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCc
Confidence            47999999999999999999999886 556678999999999999999999999999999999999999998876 5678


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCC-CeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhcc------
Q 026627          107 VTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKG-PQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV------  179 (235)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~------  179 (235)
                      +..++++++..++.    ...|||+++++++|+|++| |+||.+||.|++.+++++|+|+|+++++++|++.|+      
T Consensus        86 ~~~~~~~~~~~~~~----~~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~  161 (222)
T d1ryp1_          86 INSAARNIQHLLYG----KRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYE  161 (222)
T ss_dssp             HHHHHHHHHHHHHT----TTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBC
T ss_pred             HHHHHHHHHHHHHh----hhhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhccccccC
Confidence            88888877765543    3479999999999999865 789999999999999999999999999999999987      


Q ss_pred             -----------CCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEE
Q 026627          180 -----------EEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFR  220 (235)
Q Consensus       180 -----------~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~  220 (235)
                                 ++|+.+||++++.+||..+.++|. +++.++|++|+++| ++
T Consensus       162 ~~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~iitkdG-v~  213 (222)
T d1ryp1_         162 PGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDG-VR  213 (222)
T ss_dssp             TTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTE-EE
T ss_pred             cccchhhhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEeCCC-EE
Confidence                       689999999999999999999996 88999999999985 44

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.5e-39  Score=256.97  Aligned_cols=191  Identities=21%  Similarity=0.262  Sum_probs=177.6

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ++||||+++||||||+|+|.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|...++.+++++.++
T Consensus         2 t~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   81 (199)
T d1iruk_           2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAA   81 (199)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             eEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHH
Confidence            6899999999999999999885 456677889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +.++...+.+.+.  .+|++++++++|+|+ .+|+||.+||.|.+.+.+++++|+|+++++++|++.|+++|+++||+++
T Consensus        82 ~~l~~~~~~~~~~--~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l  159 (199)
T d1iruk_          82 NFTRRNLADCLRS--RTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVEL  159 (199)
T ss_dssp             HHHHHHHHHHHTS--SSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHhhc--cCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHH
Confidence            9999988766544  689999999999998 5699999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEEecCCcEEEcCHHH
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGIIGEKKEFRVLTPNE  226 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~~l~~~e  226 (235)
                      +++||+.+.++|. ++++++|++|+++| ++++++..
T Consensus       160 ~~~al~~~~~~d~~sg~~~~v~vv~~~g-~~~~~~~~  195 (199)
T d1iruk_         160 LRKCLEELQKRFILNLPTFSVRIIDKNG-IHDLDNIS  195 (199)
T ss_dssp             HHHHHHHHHHTBCBCCCCEEEEEEETTE-EECCCCBC
T ss_pred             HHHHHHHHHHhcCCcCCceEEEEEcCCC-eEEcCCcc
Confidence            9999999999985 89999999999985 88877643

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.1e-38  Score=257.32  Aligned_cols=186  Identities=18%  Similarity=0.258  Sum_probs=173.4

Q ss_pred             cCCCcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 026627           30 GSGQTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVT  108 (235)
Q Consensus        30 ~~G~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  108 (235)
                      .+|+|+|||+++||||||+|+|.+. .++..++.+||++|++|++++++|..+|++.+.++++.+++.+++.++.++++.
T Consensus         7 ~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   86 (213)
T d1iru1_           7 FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTG   86 (213)
T ss_dssp             CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             CCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhHH
Confidence            6899999999999999999999886 566677899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCcccceeEEEEEEEeC-CCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhcc--------
Q 026627          109 QLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDD-KGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV--------  179 (235)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~--------  179 (235)
                      .++++++..+|.++    .+|++++.+++|+|. .+|.+|.+||.|++.+++++++|+|++++.++|++.|+        
T Consensus        87 ~~~~~~~~~~~~~~----~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~  162 (213)
T d1iru1_          87 AIAAMLSTILYSRR----FFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVE  162 (213)
T ss_dssp             HHHHHHHHHHHTTT----TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCC
T ss_pred             HHHHHHHHHHHHHH----hhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhccc
Confidence            99999999888765    579999999999997 55899999999999999999999999999999998774        


Q ss_pred             -CCCCHHHHHHHHHHHHHhhccCCC-CCCcEEEEEEecCCcEE
Q 026627          180 -EEMELDDAVHTAILTLKEGFEGQI-SEKNIEIGIIGEKKEFR  220 (235)
Q Consensus       180 -~~~s~~ea~~l~~~~l~~~~~~~~-~~~~iei~~i~~~~~~~  220 (235)
                       ++|+++||++++++||..+.++|. ++.+++|++|+++| ++
T Consensus       163 ~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G-~~  204 (213)
T d1iru1_         163 HVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEG-IR  204 (213)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTE-EE
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCC-EE
Confidence             689999999999999999999986 88899999999985 44

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

Probab=99.92  E-value=3.6e-25  Score=173.45  Aligned_cols=173  Identities=13%  Similarity=-0.014  Sum_probs=129.6

Q ss_pred             cCCCcEEEEEeCCEEEEEEeecCCC-Ccccc-CCceeEEEecCc-EEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q 026627           30 GSGQTSLGIKASNGVVIATEKKLPS-ILVDE-SSVHKIQSLTPN-IGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIP  106 (235)
Q Consensus        30 ~~G~tivgi~~~dgvvla~d~~~~~-~l~~~-~~~~KI~~i~~~-i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  106 (235)
                      -+|||+|||+++||||||+|+|++. +++.. ...+|++.++++ ++++.+|..+|.+.+.+.++.+...+.     .-.
T Consensus         3 ~~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~-----~~~   77 (180)
T d2z3ba1           3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN-----GNL   77 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT-----TCH
T ss_pred             CCCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhc-----ccc
Confidence            4899999999999999999999985 55444 468999999774 888889999999999988776654432     111


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHH
Q 026627          107 VTQLVRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDD  186 (235)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~e  186 (235)
                      ...+.............+....++......+|++..+++++..++.|      +.++|+|+.+++++|++.|+++|+.+|
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~a~GSGs~~A~g~l~~~~~~~~s~~e  151 (180)
T d2z3ba1          78 KRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPDDG------ILAIGSGGNYALAAGRALKKHAGESMS  151 (180)
T ss_dssp             HHHHHHHHHHHHHCTTGGGCCCCEEEECSSCEEEECTTCCEECCSSS------EEEESTTHHHHHHHHHHHHHHHGGGCC
T ss_pred             chhHHHHHHHHhHHHHHHHhhcceeeeeccccccccCCceeeccccc------EEEEcCchHHHHHHHHHHhhcCCCccC
Confidence            22222222222222222222334555555566666677777766665      789999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccCCC-CCCcEEEEEE
Q 026627          187 AVHTAILTLKEGFEGQI-SEKNIEIGII  213 (235)
Q Consensus       187 a~~l~~~~l~~~~~~~~-~~~~iei~~i  213 (235)
                      |++++++||+.|.++|+ +++.++|.+|
T Consensus       152 A~~l~~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         152 ASEIARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             HHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHHHHHHHHHhhcEEcCCcEEEEEe
Confidence            99999999999999986 8899988776

>d1m4ya_ d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Thermotoga maritima [TaxId: 2336]

Probab=99.90  E-value=1.2e-24  Score=168.97  Aligned_cols=168  Identities=13%  Similarity=-0.028  Sum_probs=131.0

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGVVYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQLV  111 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  111 (235)
                      ||+|||+++||||||+|+|.+. +++..++.+||++|+++++++.+|..+|.+.+......+...+..     .......
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~-----~~~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWG-----GNLTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTT-----TCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhh-----ccchhhH
Confidence            6999999999999999999985 788899999999999999999999999999887766655443321     1222222


Q ss_pred             HHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhcc-CCCCHHHHHHH
Q 026627          112 RETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYV-EEMELDDAVHT  190 (235)
Q Consensus       112 ~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~-~~~s~~ea~~l  190 (235)
                      ...+..+....     .++....++.+.++.+|+++..|+.|.....++.|+|+|++++++.|+..++ +++   +|.++
T Consensus        76 ~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~---~a~el  147 (171)
T d1m4ya_          76 VELAKDWRTDR-----VLRRLEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDL---SAREI  147 (171)
T ss_dssp             HHHHHHHHHCT-----TGGGCCCEEEEECSSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCC---CHHHH
T ss_pred             HHHHHHHHHhh-----hhcccccccceecCCcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCC---CHHHH
Confidence            22222222221     2334445555677788999999999999999999999999999999998765 466   47778


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEE
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGII  213 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i  213 (235)
                      +++||+.|.++|+ ++.+++|..|
T Consensus       148 ~~~Ai~~A~e~dvyTg~~~~i~~~  171 (171)
T d1m4ya_         148 VEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHHHHHHhhceEcCCcEEEEEC
Confidence            9999999999986 9999988653

>d1g3ka_ d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Haemophilus influenzae [TaxId: 727]

Probab=99.89  E-value=5.8e-23  Score=159.60  Aligned_cols=169  Identities=12%  Similarity=0.014  Sum_probs=123.2

Q ss_pred             CcEEEEEeCCEEEEEEeecCCC-CccccCCceeEEEecCcEEE-EEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 026627           33 QTSLGIKASNGVVIATEKKLPS-ILVDESSVHKIQSLTPNIGV-VYSGMGPDFRVLVRKSRKQAEQYHRLYKEPIPVTQL  110 (235)
Q Consensus        33 ~tivgi~~~dgvvla~d~~~~~-~l~~~~~~~KI~~i~~~i~~-~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  110 (235)
                      ||+|||+++||||||+|+|++. .++.+++.+||++|++++++ +.+|...+.+.+.+..+.+...      ........
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEM------HQGHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHH------TTTCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHh------hcCcchhH
Confidence            6999999999999999999995 78889999999999887555 4555554444444433222211      22233333


Q ss_pred             HHHHHHHHHHHhhcCCcccceeEEEEEEEeCCCCeEEEECCCCcEEeeeEEeeCCCchHHHHHHHHhccCCCCHHHHHHH
Q 026627          111 VRETAAVMQEFTQSGGVRPFGVSLLVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYVEEMELDDAVHT  190 (235)
Q Consensus       111 ~~~l~~~~~~~~~~~~~rP~~~~~il~G~d~~gp~Ly~id~~G~~~~~~~~a~G~~s~~~~~~L~~~~~~~~s~~ea~~l  190 (235)
                      +..++..+....    ..+.....++++.++.++.++..|+.|...+.++.|+|+|+.++.+.|+..++  ++.+||.++
T Consensus        75 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~el  148 (173)
T d1g3ka_          75 AVELAKDWRTDR----ALRKLEAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAHEI  148 (173)
T ss_dssp             HHHHHHHHHHST----TGGGCCCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHHHH
T ss_pred             HHHHHHHHHHhh----hhcccccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHHHH
Confidence            344443333222    23344445555555577999999999999999999999999999999998875  445578999


Q ss_pred             HHHHHHhhccCCC-CCCcEEEEEE
Q 026627          191 AILTLKEGFEGQI-SEKNIEIGII  213 (235)
Q Consensus       191 ~~~~l~~~~~~~~-~~~~iei~~i  213 (235)
                      +++||+.|.++|+ ++++++|-.|
T Consensus       149 a~~Ai~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_         149 VEKSLRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             HHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHHHHHhhcEEcCCcEEEEEC
Confidence            9999999999986 8999988765

>d1cuka1 a.5.1.1 (A:156-203) DNA helicase RuvA subunit, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: DNA helicase RuvA subunit, C-terminal domain
family: DNA helicase RuvA subunit, C-terminal domain
domain: DNA helicase RuvA subunit, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.11  E-value=0.97  Score=25.38  Aligned_cols=34  Identities=15%  Similarity=0.192  Sum_probs=28.5

Q ss_pred             eeCCCchHHHHHHHHhccCCCCHHHHHHHHHHHH
Q 026627          162 AMGKNVSNAKTFLEKRYVEEMELDDAVHTAILTL  195 (235)
Q Consensus       162 a~G~~s~~~~~~L~~~~~~~~s~~ea~~l~~~~l  195 (235)
                      +-|.....+...+.+...++++.|+.++.+++++
T Consensus        14 ~LGY~~~ea~~av~~i~~~~~s~E~lIk~ALk~m   47 (48)
T d1cuka1          14 ALGYKPQEASRMVSKIARPDASSETLIREALRAA   47 (48)
T ss_dssp             HHTCCHHHHHHHHHHSCCSSCCHHHHHHHHHHTT
T ss_pred             HcCCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            4588888999999999889999998888777653