Psyllid ID: psy8777

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-
Protein Sequence
MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL
Secondary Structure (PSIPRED)
ccccccccccccccEEccccccHHHHHHHHHHHcccccEEEEEcccEEEEEEEccccccccccccccEEEEEcccEEEEEEccHHHHHHHHHHHHccccccEEEEccccccccHHHHHHHHHcccccEEEEEcccEEEEEEEccccccccccccccEEEEEcccEEEEEEcccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHcccccccccEEEEEEEEEcccccEEEEEcccccccccEEEEEccccHHHHHHHHHHccccccccHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccHHHHHHHHHcccccccEEEEEccccEEEEEEcccccccEcHHHcccEEEcccccEEEEEccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHcccccccEEEEEccccEEEEEEcccccccEcHHHcccEEEcccccEEEEEccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHEccccccccEEEEEEEEcccEEEEEEEcccccEEEEcEEEEcccHHHHHHHHHHHHHHcccccHHHHHHHHHHHc
Coil and Loop (DISEMBL)
msrgssagfdrhitifspegrlYQVEYAFKAINQGGVTSVAVKGVDTAVVAtekkvpdslvdpktvtnlysltptvgcvmtgmqadSRYQVQRARAGfdrhitifspegrlYQVEYAFKAINQGGVTSVAVKGVDTAVVAtekkvpdslvdpktvtnlysltptvgcvmtgmqadsRYQVQRARYEAASFkykhgysmpidqLCNRIADISQVYtqnaemrplgCSMILIsydenegpliyktdpagyycsfKAVSVGVKTTEANSYLEKKfkkktnytgdETIQLAISCL
Flexible Loop (DISEMBL)
msrgssagfdrhitifspegRLYQVEYAFKAINQGGVTSVAVKGVDTAVVatekkvpdslvdpktvtnlysltpTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVatekkvpdslvdpktvtnlysltptvgcvMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKtteansylekkfkkktnytgdetIQLAISCL
Low Complexity Region (SEG)
MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL
Disordered region (IsUnstruct)
********FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQL*****
Disordered Region (DISOPRED)
************ITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPD*****KTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL
Disordered Region (DISEMBL)
********FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL
Disordered Region (DISPRO)
*********DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL
Positional Conservation
no confident homologs detected

---

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	291	2.2.26 [Sep-21-2011]
Q9QUM9	246	Proteasome subunit alpha	yes	N/A	0.673	0.796	0.719	2e-84
P60901	246	Proteasome subunit alpha	yes	N/A	0.673	0.796	0.719	3e-84
P60900	246	Proteasome subunit alpha	yes	N/A	0.673	0.796	0.719	3e-84
Q2YDE4	246	Proteasome subunit alpha	yes	N/A	0.673	0.796	0.719	3e-84
Q9XZJ4	244	Proteasome subunit alpha	yes	N/A	0.666	0.795	0.693	3e-76
O17586	246	Proteasome subunit alpha	yes	N/A	0.673	0.796	0.596	2e-67
O81146	246	Proteasome subunit alpha	yes	N/A	0.673	0.796	0.556	6e-61
O81147	246	Proteasome subunit alpha	no	N/A	0.673	0.796	0.561	8e-61
Q9XG77	246	Proteasome subunit alpha	N/A	N/A	0.673	0.796	0.535	1e-58
Q9LSU3	246	Proteasome subunit alpha	yes	N/A	0.673	0.796	0.535	2e-58

>sp|Q9QUM9|PSA6_MOUSE Proteasome subunit alpha type-6 OS=Mus musculus GN=Psma6 PE=1 SV=1

 Score =  312 bits (799), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 141/196 (71%), Positives = 168/196 (85%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T ++GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct: 67  THLFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            ++T ++T++ AI+CL
Sbjct: 187 FDWTFEQTVETAITCL 202

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.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|P60901|PSA6_RAT Proteasome subunit alpha type-6 OS=Rattus norvegicus GN=Psma6 PE=1 SV=1

 Score =  311 bits (797), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct: 67  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            ++T ++T++ AI+CL
Sbjct: 187 FDWTFEQTVETAITCL 202

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.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P60900|PSA6_HUMAN Proteasome subunit alpha type-6 OS=Homo sapiens GN=PSMA6 PE=1 SV=1

 Score =  311 bits (797), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct: 67  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            ++T ++T++ AI+CL
Sbjct: 187 FDWTFEQTVETAITCL 202

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.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q2YDE4|PSA6_BOVIN Proteasome subunit alpha type-6 OS=Bos taurus GN=PSMA6 PE=1 SV=1

 Score =  311 bits (797), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct: 67  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            ++T ++T++ AI+CL
Sbjct: 187 FDWTFEQTVETAITCL 202

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.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9XZJ4|PSA6_DROME Proteasome subunit alpha type-6 OS=Drosophila melanogaster GN=Prosalpha1 PE=2 SV=2

 Score =  285 bits (729), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 136/196 (69%), Positives = 161/196 (82%), Gaps = 2/196 (1%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAI Q  +T+VA+K  D AVVAT+KKV +  + P+TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAIAQENITTVALKSGDCAVVATQKKVTEKNIVPETV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T  +GC MTG  ADSR QVQ+ARYEAA+F+YK+GY MP+D LC RIADI+QVYT
Sbjct: 67  THLFRITKDIGCAMTGRIADSRSQVQKARYEAANFRYKYGYEMPVDVLCRRIADINQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSM+LI+YD   GP +YKTDPAGY+  FKA SVG KT EANSYLEKK+  K
Sbjct: 127 QNAEMRPLGCSMVLIAYDNEIGPSVYKTDPAGYFSGFKACSVGAKTLEANSYLEKKY--K 184

Query: 276 TNYTGDETIQLAISCL 291
            N + ++ IQLAISCL
Sbjct: 185 PNLSEEKAIQLAISCL 200

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.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O17586|PSA6_CAEEL Proteasome subunit alpha type-6 OS=Caenorhabditis elegans GN=pas-1 PE=1 SV=1

 Score =  255 bits (652), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 117/196 (59%), Positives = 152/196 (77%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGR+YQVEYAFKAIN   +T+VAVKG D AV+A +K+VPDSL+   TV
Sbjct: 7   AGFDRHITIFSPEGRVYQVEYAFKAINSTNLTAVAVKGADAAVIAVQKRVPDSLIVADTV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T++Y ++ +VGC   GM  D+++Q++RA+ EAAS+KYK+GY MP + L  ++AD++Q YT
Sbjct: 67  TSVYQISQSVGCCAIGMIPDAKFQIKRAQGEAASWKYKNGYDMPCELLAKKMADLNQYYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMR LGC+++ ISYD+ +GP +Y+ DPAGYY   K VSVGVK   A S+LEKK KKK
Sbjct: 127 QNAEMRSLGCALLFISYDDEKGPEVYRVDPAGYYRGMKGVSVGVKQLPATSFLEKKIKKK 186

Query: 276 TNYTGDETIQLAISCL 291
           +  T  E I+LAI  L
Sbjct: 187 SELTSTEAIELAIEAL 202

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.

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O81146|PSA6A_ARATH Proteasome subunit alpha type-6-A OS=Arabidopsis thaliana GN=PAA1 PE=1 SV=2

 Score =  234 bits (597), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 109/196 (55%), Positives = 145/196 (73%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AG+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ V+G D+  V T+KKVPD L+D  +V
Sbjct: 7   AGYDRHITIFSPEGRLFQVEYAFKAVKTAGITSIGVRGKDSVCVVTQKKVPDKLLDQSSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T  +G V TG+ AD+R  VQ+AR +AA F++ +GY MP+D L   IAD SQVYT
Sbjct: 67  THLFPITKYIGLVATGITADARSLVQQARNQAAEFRFTYGYEMPVDILAKWIADKSQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           Q+A MRPLG   +++  DE  GPL+YK DPAG++   KA S G+K  EA ++LEKK K+ 
Sbjct: 127 QHAYMRPLGVVAMVMGVDEENGPLLYKCDPAGHFYGHKATSAGMKEQEAVNFLEKKMKEN 186

Query: 276 TNYTGDETIQLAISCL 291
            ++T DET+Q AIS L
Sbjct: 187 PSFTFDETVQTAISAL 202

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|O81147|PSA6B_ARATH Proteasome subunit alpha type-6-B OS=Arabidopsis thaliana GN=PAA2 PE=1 SV=1

 Score =  234 bits (596), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 110/196 (56%), Positives = 144/196 (73%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AG+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ V+G D+  V T+KKVPD L+D  +V
Sbjct: 7   AGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSVCVVTQKKVPDKLLDQSSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           ++L+ +T  +G + TGM ADSR  VQ+AR EAA F++++GY MP D L   IAD SQVYT
Sbjct: 67  SHLFPVTKYLGLLATGMTADSRSLVQQARNEAAEFRFQYGYEMPADILAKWIADKSQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           Q+A MRPLG   +++  DE  GPL+YK DPAG++   KA S G+K  EA ++LEKK K+ 
Sbjct: 127 QHAYMRPLGVVAMVLGIDEERGPLLYKCDPAGHFYGHKATSAGMKEQEAVNFLEKKMKEN 186

Query: 276 TNYTGDETIQLAISCL 291
             +T DET+Q AIS L
Sbjct: 187 PAFTYDETVQTAISAL 202

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|Q9XG77|PSA6_TOBAC Proteasome subunit alpha type-6 OS=Nicotiana tabacum GN=PAA1 PE=2 SV=1

 Score =  226 bits (577), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 105/196 (53%), Positives = 142/196 (72%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
            G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ V+G D+  V T+KKVPD L+D  +V
Sbjct: 7   GGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSVCVVTQKKVPDKLLDQTSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           ++L+ +T  +G + TGM AD+R  VQ+AR EAA F++K+GY MP+D L   IAD SQVYT
Sbjct: 67  SHLFPITKYLGLLATGMTADARTLVQQARNEAAEFRFKYGYEMPVDVLSKWIADKSQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           Q+A MRPLG   +++  DE +GP ++K DPAG++   KA S G K  EA ++LEKK K  
Sbjct: 127 QHAYMRPLGVVAMILGIDEEKGPQLFKCDPAGHFFGHKATSAGSKEQEAINFLEKKMKND 186

Query: 276 TNYTGDETIQLAISCL 291
             ++ +ET+Q AIS L
Sbjct: 187 PAFSYEETVQTAISAL 202

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.

Nicotiana tabacum (taxid: 4097)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9LSU3|PSA6_ORYSJ Proteasome subunit alpha type-6 OS=Oryza sativa subsp. japonica GN=PAA1 PE=2 SV=1

 Score =  226 bits (576), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 105/196 (53%), Positives = 142/196 (72%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AG+DRHITIFSPEGRLYQVEYAFKA+   GVTS+ V+G D+  V T+KKVPD L+D  +V
Sbjct: 7   AGYDRHITIFSPEGRLYQVEYAFKAVKSAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T  +G + TG+ AD+R  V +AR EAA F++K GY MP+D L   IAD +QVYT
Sbjct: 67  THLFPITKYIGLLATGLTADARSLVYQARNEAAEFRFKWGYEMPVDVLAKWIADKAQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           Q+A MRPLG   +++ YDE +   ++K DPAG++   KA S G+K  EA ++LEKK K  
Sbjct: 127 QHAYMRPLGVVAMVLGYDEEKNAQLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKDD 186

Query: 276 TNYTGDETIQLAISCL 291
             ++ +ET+Q+AIS L
Sbjct: 187 PQFSYEETVQIAISAL 202

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

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	291
307095114	246	proteasome subunit alpha type 6 [Triatom	0.673	0.796	0.790	6e-91
307194528	246	Proteasome subunit alpha type-6 [Harpegn	0.673	0.796	0.775	7e-88
340709809	246	PREDICTED: proteasome subunit alpha type	0.673	0.796	0.770	2e-87
380027158	246	PREDICTED: proteasome subunit alpha type	0.673	0.796	0.770	2e-87
322787068	262	hypothetical protein SINV_14495 [Solenop	0.701	0.778	0.743	2e-87
332024947	246	Proteasome subunit alpha type-6 [Acromyr	0.673	0.796	0.770	4e-87
383861914	246	PREDICTED: proteasome subunit alpha type	0.673	0.796	0.765	1e-86
170030742	246	proteasome subunit alpha type 6 [Culex q	0.673	0.796	0.75	2e-86
307177334	246	Proteasome subunit alpha type-6 [Campono	0.673	0.796	0.760	2e-86
321460173	246	proteasome subunit alpha type 6-like pro	0.673	0.796	0.755	3e-86

>gi|307095114|gb|ADN29863.1| proteasome subunit alpha type 6 [Triatoma matogrossensis]

 Score =  339 bits (870), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 155/196 (79%), Positives = 176/196 (89%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQG +TSVA+KGV++AVVAT+KKVPD L+DP TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGALTSVALKGVNSAVVATQKKVPDKLLDPSTV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+LY +T  VGCVMTGM ADS+ QVQRARYEA++FKYKHGY MPID +CNRIADISQVYT
Sbjct: 67  THLYKITEDVGCVMTGMIADSKSQVQRARYEASNFKYKHGYEMPIDMICNRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSMILI+YD   GPL+YKTDPAGY+CS++A+SVG K  EAN+YLEKK KKK
Sbjct: 127 QNAEMRPLGCSMILIAYDRERGPLVYKTDPAGYFCSYRAISVGSKQIEANTYLEKKLKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            +Y+ DE IQLAISCL
Sbjct: 187 QDYSLDEAIQLAISCL 202

Source: Triatoma matogrossensis

Species: Triatoma matogrossensis

Genus: Triatoma

Family: Reduviidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307194528|gb|EFN76820.1| Proteasome subunit alpha type-6 [Harpegnathos saltator]

 Score =  330 bits (845), Expect = 7e-88,   Method: Compositional matrix adjust.
 Identities = 152/196 (77%), Positives = 173/196 (88%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAVKGVDTAV AT+KKVPD L+D  +V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVKGVDTAVFATQKKVPDKLLDASSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+++ LT  +GCVMTGM ADSR QVQRARYEAA FKYK+GY +P+D LC R+ADISQVYT
Sbjct: 67  THVFHLTEYIGCVMTGMIADSRSQVQRARYEAAHFKYKYGYEIPVDALCQRVADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSM+LI+YD+ +GP IYK DPAGY+C ++A+SVG K TEANSYLEKK KKK
Sbjct: 127 QNAEMRPLGCSMMLIAYDKEKGPCIYKADPAGYFCGYRAISVGAKQTEANSYLEKKLKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            NY  DETIQLAI+CL
Sbjct: 187 QNYDYDETIQLAITCL 202

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340709809|ref|XP_003393493.1| PREDICTED: proteasome subunit alpha type-6-like [Bombus terrestris] gi|350410354|ref|XP_003489017.1| PREDICTED: proteasome subunit alpha type-6-like [Bombus impatiens]

 Score =  328 bits (840), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 151/196 (77%), Positives = 172/196 (87%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAVKGVDTAV AT+KKVPD L+D  +V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVKGVDTAVFATQKKVPDKLLDASSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+++ LT  +GC++TGM ADSR QVQRARYEAA FKYK+ Y +P+D LC RIADISQVYT
Sbjct: 67  THIFQLTEHIGCLVTGMIADSRSQVQRARYEAAHFKYKYEYEIPVDALCRRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSM+LISYD+ +GP +YK DPAGYYC ++A+SVG K TEANSYLEKK KKK
Sbjct: 127 QNAEMRPLGCSMMLISYDKEKGPCVYKADPAGYYCGYRAISVGAKQTEANSYLEKKLKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            NY  DETIQLAI+CL
Sbjct: 187 QNYDHDETIQLAITCL 202

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380027158|ref|XP_003697298.1| PREDICTED: proteasome subunit alpha type-6-like [Apis florea]

 Score =  328 bits (840), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 151/196 (77%), Positives = 172/196 (87%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAVKGVDTAV AT+KKVPD L+D  +V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVKGVDTAVFATQKKVPDKLLDASSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+++ LT  +GC++TGM ADSR QVQRARYEAA FKYK+ Y +P+D LC RIADISQVYT
Sbjct: 67  THIFQLTEHIGCLVTGMIADSRSQVQRARYEAAHFKYKYEYEIPVDALCKRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSM+LISYD+ +GP +YK DPAGYYC ++A+SVG K TEANSYLEKK KKK
Sbjct: 127 QNAEMRPLGCSMMLISYDKEKGPCVYKADPAGYYCGYRAISVGAKQTEANSYLEKKLKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            NY  DETIQLAI+CL
Sbjct: 187 QNYDHDETIQLAITCL 202

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322787068|gb|EFZ13292.1| hypothetical protein SINV_14495 [Solenopsis invicta]

 Score =  328 bits (840), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 154/207 (74%), Positives = 177/207 (85%), Gaps = 3/207 (1%)

Query: 88  RYQVQRAR---AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKK 144
           R  V  AR   AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAVKGV+TAV AT+KK
Sbjct: 12  RIPVNMARGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVKGVETAVFATQKK 71

Query: 145 VPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC 204
           VPD L+D  +VT+++ LT  +GCVMTGM ADS+ QVQRARYEAA FKYK+GY +P+D LC
Sbjct: 72  VPDKLLDASSVTHVFQLTEYIGCVMTGMIADSKSQVQRARYEAAHFKYKYGYEIPVDALC 131

Query: 205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEA 264
            R+ADISQVYTQNAEMRPLGCSM+LI+YD+ +GP IYK DPAGY+C ++A+SVG K TEA
Sbjct: 132 QRVADISQVYTQNAEMRPLGCSMMLIAYDKEKGPCIYKADPAGYFCGYRAISVGAKQTEA 191

Query: 265 NSYLEKKFKKKTNYTGDETIQLAISCL 291
           NSYLEKK KKK NY  DETIQLAI+CL
Sbjct: 192 NSYLEKKLKKKQNYDFDETIQLAITCL 218

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332024947|gb|EGI65134.1| Proteasome subunit alpha type-6 [Acromyrmex echinatior]

 Score =  327 bits (838), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 151/196 (77%), Positives = 173/196 (88%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAVKGV+TAV AT+KKVPD L+D  +V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVKGVETAVFATQKKVPDKLLDASSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+++ LT  +GCVMTGM ADS+ QVQRARYEAA FKYK+GY +P+D LC RIADISQVYT
Sbjct: 67  THVFQLTDYIGCVMTGMIADSKSQVQRARYEAAHFKYKYGYEIPVDALCQRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSM+LI+YD+ +GP IYK DPAGY+C ++A+SVG K TEANSYLEKK KKK
Sbjct: 127 QNAEMRPLGCSMMLIAYDKEKGPCIYKADPAGYFCGYRAISVGAKQTEANSYLEKKLKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            NY  DETIQLAI+CL
Sbjct: 187 QNYDYDETIQLAITCL 202

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383861914|ref|XP_003706429.1| PREDICTED: proteasome subunit alpha type-6-like [Megachile rotundata]

 Score =  325 bits (834), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 150/196 (76%), Positives = 171/196 (87%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQ G+TSVAVKGVDTAV AT+KKVPD L+D  +V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQSGLTSVAVKGVDTAVFATQKKVPDKLLDASSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+++ LT  +GC+MTGM AD R QVQRARYEAA+FKYK+ Y +P+D LC RIADISQVYT
Sbjct: 67  THIFQLTEHIGCLMTGMIADGRSQVQRARYEAANFKYKYEYEIPVDVLCRRIADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSM+LISYD+ +GP +YK DPAGYYC ++A+SVG K TEANSYLEKK KKK
Sbjct: 127 QNAEMRPLGCSMMLISYDKEKGPCVYKADPAGYYCGYRAISVGAKQTEANSYLEKKLKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            NY  DETIQLAI+CL
Sbjct: 187 QNYDHDETIQLAITCL 202

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170030742|ref|XP_001843247.1| proteasome subunit alpha type 6 [Culex quinquefasciatus] gi|167867923|gb|EDS31306.1| proteasome subunit alpha type 6 [Culex quinquefasciatus]

 Score =  325 bits (833), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 147/196 (75%), Positives = 172/196 (87%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQ G+TS+A+KG D AVVAT+KK+PD L+DP TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQEGLTSIAMKGKDVAVVATQKKIPDKLIDPSTV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+LY LT  +GCVMTG  ADS+ QVQRARYEAA+++YK+GY MP+D LC R+ADISQVYT
Sbjct: 67  THLYRLTRNIGCVMTGRIADSKSQVQRARYEAANWRYKYGYEMPVDVLCRRMADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSM+LI+YD+  GP +YKTDPAGYYC ++A+SVGVK TEANSYLEKK KKK
Sbjct: 127 QNAEMRPLGCSMMLIAYDDENGPCVYKTDPAGYYCGYRAISVGVKQTEANSYLEKKLKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            +Y  +E IQLAI+CL
Sbjct: 187 ADYNEEEAIQLAITCL 202

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307177334|gb|EFN66507.1| Proteasome subunit alpha type-6 [Camponotus floridanus]

 Score =  324 bits (831), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 149/196 (76%), Positives = 173/196 (88%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAVKGV+TAV AT+KKVPD L+D  +V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVKGVETAVFATQKKVPDKLLDAFSV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+++ LT  +GCVMTGM ADS+ QVQRARYEAA FKYK+GY +P+D LC R+ADISQVYT
Sbjct: 67  THVFQLTENIGCVMTGMIADSKSQVQRARYEAAHFKYKYGYEIPVDALCQRVADISQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSM+LI+YD+ +GP IYK DPAGY+C ++A+SVG K TEANSYLEKK KKK
Sbjct: 127 QNAEMRPLGCSMMLIAYDKEKGPCIYKADPAGYFCGYRAISVGAKQTEANSYLEKKLKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            +Y  DETIQLAI+CL
Sbjct: 187 QSYDYDETIQLAITCL 202

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321460173|gb|EFX71218.1| proteasome subunit alpha type 6-like protein [Daphnia pulex]

 Score =  324 bits (830), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 148/196 (75%), Positives = 172/196 (87%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVA+KG DTAVV T+KKVPD L+DP TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVALKGADTAVVVTQKKVPDKLIDPSTV 66

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           ++++ +T  +GCVMTGM AD+R QVQRARYEAA++KYK+GY +P+D LC RIADI QVYT
Sbjct: 67  SHIFKITTNIGCVMTGMTADARSQVQRARYEAANWKYKYGYEIPVDVLCKRIADICQVYT 126

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGCSMI+I+YDE  GP +YK DPAGYYC ++A SVGVK TEA+SYLEKK+KKK
Sbjct: 127 QNAEMRPLGCSMIVIAYDEELGPAVYKADPAGYYCGYRATSVGVKQTEASSYLEKKYKKK 186

Query: 276 TNYTGDETIQLAISCL 291
            NYT DE IQLAI+ L
Sbjct: 187 QNYTHDEVIQLAITTL 202

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	291
UNIPROTKB|F1NEQ6	249	PSMA6 "Proteasome subunit alph	0.673	0.787	0.724	1.1e-76
MGI|MGI:1347006	246	Psma6 "proteasome (prosome, ma	0.673	0.796	0.719	2.4e-76
UNIPROTKB|G5E5C3	245	PSMA6 "Proteasome subunit alph	0.673	0.8	0.719	3.1e-76
UNIPROTKB|Q2YDE4	246	PSMA6 "Proteasome subunit alph	0.673	0.796	0.719	3.1e-76
UNIPROTKB|E2RMN2	246	PSMA6 "Proteasome subunit alph	0.673	0.796	0.719	3.1e-76
UNIPROTKB|P60900	246	PSMA6 "Proteasome subunit alph	0.673	0.796	0.719	3.1e-76
UNIPROTKB|F2Z5N0	246	PSMA6 "Proteasome subunit alph	0.673	0.796	0.719	3.1e-76
RGD|61849	246	Psma6 "proteasome (prosome, ma	0.673	0.796	0.719	3.1e-76
ZFIN|ZDB-GENE-020326-1	246	psma6a "proteasome (prosome, m	0.673	0.796	0.719	1e-75
ZFIN|ZDB-GENE-040718-329	246	psma6b "proteasome (prosome, m	0.673	0.796	0.709	9.3e-75

UNIPROTKB|F1NEQ6 PSMA6 "Proteasome subunit alpha type" [Gallus gallus (taxid:9031)]

 Score = 772 (276.8 bits), Expect = 1.1e-76, P = 1.1e-76
 Identities = 142/196 (72%), Positives = 168/196 (85%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D+AV+ T+KKVPD L+D  TV
Sbjct:    10 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDSAVIVTQKKVPDKLLDSNTV 69

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+S+T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    70 THLFSITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYDIPVDMLCKRIADISQVYT 129

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MILI  DE  GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct:   130 QNAEMRPLGCCMILIGIDEEHGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 189

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++T++ AI+CL
Sbjct:   190 FDWTYEQTVETAITCL 205

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

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

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

GO:0003723 "RNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IEA

GO:0051059 "NF-kappaB binding" evidence=IEA

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=IEA

MGI|MGI:1347006 Psma6 "proteasome (prosome, macropain) subunit, alpha type 6" [Mus musculus (taxid:10090)]

 Score = 769 (275.8 bits), Expect = 2.4e-76, P = 2.4e-76
 Identities = 141/196 (71%), Positives = 168/196 (85%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T ++GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++T++ AI+CL
Sbjct:   187 FDWTFEQTVETAITCL 202

GO:0000502 "proteasome complex" evidence=IEA

GO:0003723 "RNA binding" evidence=ISO;IDA

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IDA

GO:0005839 "proteasome core complex" evidence=IDA

GO:0005844 "polysome" evidence=ISO

GO:0006508 "proteolysis" evidence=IEA

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

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IDA

GO:0016787 "hydrolase activity" evidence=IEA

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

GO:0030016 "myofibril" evidence=ISO

GO:0030017 "sarcomere" evidence=ISO

GO:0051059 "NF-kappaB binding" evidence=ISO

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=ISO

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

UNIPROTKB|G5E5C3 PSMA6 "Proteasome subunit alpha type" [Bos taurus (taxid:9913)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++T++ AI+CL
Sbjct:   187 FDWTFEQTVETAITCL 202

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=IEA

GO:0051059 "NF-kappaB binding" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003723 "RNA binding" 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

UNIPROTKB|Q2YDE4 PSMA6 "Proteasome subunit alpha type-6" [Bos taurus (taxid:9913)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++T++ AI+CL
Sbjct:   187 FDWTFEQTVETAITCL 202

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

GO:0005839 "proteasome core complex" evidence=ISS

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=IEA

GO:0051059 "NF-kappaB binding" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003723 "RNA binding" 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

UNIPROTKB|E2RMN2 PSMA6 "Proteasome subunit alpha type" [Canis lupus familiaris (taxid:9615)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++T++ AI+CL
Sbjct:   187 FDWTFEQTVETAITCL 202

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=IEA

GO:0051059 "NF-kappaB binding" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003723 "RNA binding" 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

UNIPROTKB|P60900 PSMA6 "Proteasome subunit alpha type-6" [Homo sapiens (taxid:9606)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++T++ AI+CL
Sbjct:   187 FDWTFEQTVETAITCL 202

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

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

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

GO:0004175 "endopeptidase activity" evidence=NAS

GO:0003723 "RNA binding" evidence=IDA;NAS

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

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000209 "protein polyubiquitination" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0002474 "antigen processing and presentation of peptide antigen via MHC class I" evidence=TAS

GO:0002479 "antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006521 "regulation of cellular amino acid metabolic process" evidence=TAS

GO:0006915 "apoptotic process" evidence=TAS

GO:0006977 "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0031145 "anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0034641 "cellular nitrogen compound metabolic process" evidence=TAS

GO:0042590 "antigen processing and presentation of exogenous peptide antigen via MHC class I" evidence=TAS

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

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0051436 "negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051437 "positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051439 "regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0051059 "NF-kappaB binding" evidence=IPI

GO:0030017 "sarcomere" evidence=ISS

GO:0030016 "myofibril" evidence=ISS

GO:0016363 "nuclear matrix" evidence=ISS

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IDA;TAS

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=IMP

GO:0050727 "regulation of inflammatory response" evidence=IC

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

GO:0035639 "purine ribonucleoside triphosphate binding" evidence=NAS

GO:0005844 "polysome" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|F2Z5N0 PSMA6 "Proteasome subunit alpha type" [Sus scrofa (taxid:9823)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++T++ AI+CL
Sbjct:   187 FDWTFEQTVETAITCL 202

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=IEA

GO:0051059 "NF-kappaB binding" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003723 "RNA binding" 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

RGD|61849 Psma6 "proteasome (prosome, macropain) subunit, alpha type 6" [Rattus norvegicus (taxid:10116)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++T++ AI+CL
Sbjct:   187 FDWTFEQTVETAITCL 202

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

GO:0003723 "RNA binding" evidence=ISO;ISS

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

GO:0005634 "nucleus" evidence=ISO;ISS

GO:0005737 "cytoplasm" evidence=ISO

GO:0005739 "mitochondrion" evidence=IEA;ISO

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

GO:0005844 "polysome" evidence=ISO;ISS

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

GO:0016363 "nuclear matrix" evidence=ISO;ISS

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=ISO;ISS

GO:0030016 "myofibril" evidence=IDA

GO:0030017 "sarcomere" evidence=IDA

GO:0051059 "NF-kappaB binding" evidence=IEA;ISO

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=ISO;ISS

GO:0051603 "proteolysis involved in cellular protein catabolic process" evidence=ISO;ISS

ZFIN|ZDB-GENE-020326-1 psma6a "proteasome (prosome, macropain) subunit, alpha type, 6a" [Danio rerio (taxid:7955)]

 Score = 763 (273.6 bits), Expect = 1.0e-75, P = 1.0e-75
 Identities = 141/196 (71%), Positives = 166/196 (84%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AVV T++KVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVVITQRKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T  +GCVM+GM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFRITENIGCVMSGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MI++  DE  GP +YK DPAGYYC FKA + GVK TEA S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMIVVGVDEELGPQVYKCDPAGYYCGFKATAAGVKQTEATSFLEKKIKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T D+T++ AISCL
Sbjct:   187 LDWTFDQTVETAISCL 202

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

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" 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

ZFIN|ZDB-GENE-040718-329 psma6b "proteasome (prosome, macropain) subunit, alpha type, 6b" [Danio rerio (taxid:7955)]

 Score = 754 (270.5 bits), Expect = 9.3e-75, P = 9.3e-75
 Identities = 139/196 (70%), Positives = 165/196 (84%)

Query:    96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D A+V T+KKVPD L+D  TV
Sbjct:     7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAIVVTQKKVPDKLLDSSTV 66

Query:   156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             T+L+ +T  +GCVM+GM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct:    67 THLFRITENIGCVMSGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query:   216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             QNAEMRPLGC MI+I  DE  GP +YK DPAGYYC FKA + GVK TEA S+LEKK KKK
Sbjct:   127 QNAEMRPLGCCMIVIGLDEELGPQVYKCDPAGYYCGFKATAAGVKQTEATSFLEKKVKKK 186

Query:   276 TNYTGDETIQLAISCL 291
              ++T ++ ++ AI+CL
Sbjct:   187 LDWTFEQAVETAITCL 202

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

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0006511 "ubiquitin-dependent protein catabolic process" 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

---

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)
C3NHC6	PSA_SULIN	3, ., 4, ., 2, 5, ., 1	0.3585	0.6666	0.8049	yes	N/A
Q8TYB7	PSA_METKA	3, ., 4, ., 2, 5, ., 1	0.3532	0.6769	0.8008	yes	N/A
Q9UXC6	PSA_SULSO	3, ., 4, ., 2, 5, ., 1	0.3585	0.6666	0.8049	yes	N/A
O59219	PSA_PYRHO	3, ., 4, ., 2, 5, ., 1	0.3604	0.6597	0.7384	yes	N/A
Q9QUM9	PSA6_MOUSE	3, ., 4, ., 2, 5, ., 1	0.7193	0.6735	0.7967	yes	N/A
C3MVG1	PSA_SULIM	3, ., 4, ., 2, 5, ., 1	0.3585	0.6666	0.8049	yes	N/A
Q9V122	PSA_PYRAB	3, ., 4, ., 2, 5, ., 1	0.3654	0.6597	0.7384	yes	N/A
C3N5R0	PSA_SULIA	3, ., 4, ., 2, 5, ., 1	0.3585	0.6666	0.8049	yes	N/A
O17586	PSA6_CAEEL	3, ., 4, ., 2, 5, ., 1	0.5969	0.6735	0.7967	yes	N/A
Q8U0L6	PSA_PYRFU	3, ., 4, ., 2, 5, ., 1	0.3451	0.6597	0.7384	yes	N/A
C5A2C2	PSA_THEGJ	3, ., 4, ., 2, 5, ., 1	0.3553	0.6597	0.7384	yes	N/A
Q5JIU9	PSA_PYRKO	3, ., 4, ., 2, 5, ., 1	0.3553	0.6597	0.7384	yes	N/A
Q6M0L9	PSA_METMP	3, ., 4, ., 2, 5, ., 1	0.3520	0.6597	0.7413	yes	N/A
Q9XZJ4	PSA6_DROME	3, ., 4, ., 2, 5, ., 1	0.6938	0.6666	0.7950	yes	N/A
C3MQ43	PSA_SULIL	3, ., 4, ., 2, 5, ., 1	0.3585	0.6666	0.8049	yes	N/A
Q60177	PSA_METJA	3, ., 4, ., 2, 5, ., 1	0.3571	0.6597	0.7356	yes	N/A
B6YSH9	PSA_THEON	3, ., 4, ., 2, 5, ., 1	0.3451	0.6597	0.7384	yes	N/A
O94517	PSA1_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5505	0.6632	0.7909	yes	N/A
C3NEC6	PSA_SULIY	3, ., 4, ., 2, 5, ., 1	0.3585	0.6666	0.8049	yes	N/A
Q9LSU3	PSA6_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.5357	0.6735	0.7967	yes	N/A
O81146	PSA6A_ARATH	3, ., 4, ., 2, 5, ., 1	0.5561	0.6735	0.7967	yes	N/A
C6A459	PSA_THESM	3, ., 4, ., 2, 5, ., 1	0.3654	0.6597	0.7384	yes	N/A
Q2YDE4	PSA6_BOVIN	3, ., 4, ., 2, 5, ., 1	0.7193	0.6735	0.7967	yes	N/A
P21243	PSA1_YEAST	3, ., 4, ., 2, 5, ., 1	0.5175	0.6666	0.7698	yes	N/A
Q54XM7	PSA6_DICDI	3, ., 4, ., 2, 5, ., 1	0.5284	0.6597	0.768	yes	N/A
A6VIP0	PSA_METM7	3, ., 4, ., 2, 5, ., 1	0.3520	0.6597	0.7413	yes	N/A
P60901	PSA6_RAT	3, ., 4, ., 2, 5, ., 1	0.7193	0.6735	0.7967	yes	N/A
P60900	PSA6_HUMAN	3, ., 4, ., 2, 5, ., 1	0.7193	0.6735	0.7967	yes	N/A
C4KHD9	PSA_SULIK	3, ., 4, ., 2, 5, ., 1	0.3585	0.6666	0.8049	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.914
3rd Layer	3.4.25	0.921

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	291
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	1e-126
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-102
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	1e-58
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	1e-53
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	4e-51
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	2e-50
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	3e-49
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	6e-49
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	4e-48
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	2e-45
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	6e-44
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	2e-43
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	9e-43
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	2e-42
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	3e-39
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	4e-39
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	6e-38
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	9e-33
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	5e-26
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	6e-23
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	6e-23
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	3e-22
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	7e-22
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	9e-21
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	4e-19
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	3e-18
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	2e-15
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	8e-13
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	1e-11
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	1e-10
pfam10584	23	pfam10584, Proteasome_A_N, Proteasome subunit A N-	2e-10
pfam10584	23	pfam10584, Proteasome_A_N, Proteasome subunit A N-	2e-10
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	3e-10
smart00948	23	smart00948, Proteasome_A_N, Proteasome subunit A N	6e-10
smart00948	23	smart00948, Proteasome_A_N, Proteasome subunit A N	6e-10
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	2e-09
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	7e-08
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	3e-07
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	8e-07
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	3e-06

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score =  358 bits (920), Expect = e-126
 Identities = 134/197 (68%), Positives = 157/197 (79%), Gaps = 2/197 (1%)

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           GFDRHITIFSPEGRLYQVEYAFKA+   G+TSVAV+G D AVV T+KKVPD L+DP TVT
Sbjct: 1   GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVT 60

Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
           +L+ +T  +GCVMTGM ADSR QVQRARYEAA FKYK+GY MP+D L  RIADI+QVYTQ
Sbjct: 61  HLFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQ 120

Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
           +A MRPLG SMILI  DE  GP +YK DPAGY+  +KA + GVK  EA ++LEKK KKK 
Sbjct: 121 HAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKP 180

Query: 277 NYTG--DETIQLAISCL 291
           +     +ET++LAISCL
Sbjct: 181 DLIESYEETVELAISCL 197

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|238892 cd01911, proteasome_alpha, proteasome alpha subunit

 Score =  297 bits (762), Expect = e-102
 Identities = 88/194 (45%), Positives = 131/194 (67%), Gaps = 3/194 (1%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR IT FSPEGRL+QVEYA +A+  G  T+V +KG D  V+A EKKV   L+DP +V  
Sbjct: 1   YDRSITTFSPEGRLFQVEYALEAVKNGS-TAVGIKGKDGVVLAVEKKVTSKLLDPSSVEK 59

Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           ++ +   +GC + G+ AD+R  V RAR EA +++Y +G  +P++ L  RIAD++QVYTQ 
Sbjct: 60  IFKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQY 119

Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
             +RP G S+++  YDE  GP +Y+TDP+G Y  +KA ++G  + EA ++LEK++KK   
Sbjct: 120 GGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLT 179

Query: 278 YTGDETIQLAISCL 291
              +E I+LA+  L
Sbjct: 180 L--EEAIKLALKAL 191

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

 Score =  187 bits (476), Expect = 1e-58
 Identities = 73/197 (37%), Positives = 122/197 (61%), Gaps = 6/197 (3%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KT 154
           AG+DR ITIFSPEGRL+QVEYA +A+ +GG T+V +KG D  V+A +K+    L+     
Sbjct: 1   AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSN 60

Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           V  ++ +   +G  + G+ AD++  V+ AR EA  ++ ++G  + ++ L   +++I Q Y
Sbjct: 61  VEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEY 120

Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ    RP G S+++   D+  GP +Y TDP+G Y  +KA ++G  +  A  +LEK++++
Sbjct: 121 TQ--SGRPYGVSLLVAGVDD-GGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYRE 177

Query: 275 KTNYTGDETIQLAISCL 291
               + +E I+LA+  L
Sbjct: 178 DL--SLEEAIELAVKAL 192

Length = 236

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score =  173 bits (441), Expect = 1e-53
 Identities = 66/88 (75%), Positives = 75/88 (85%)

Query: 8  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 67
          GFDRHITIFSPEGRLYQVEYAFKA+   G+TSVAV+G D AVV T+KKVPD L+DP TVT
Sbjct: 1  GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVT 60

Query: 68 NLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          +L+ +T  +GCVMTGM ADSR QVQRAR
Sbjct: 61 HLFRITDEIGCVMTGMIADSRSQVQRAR 88

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|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  166 bits (422), Expect = 4e-51
 Identities = 57/166 (34%), Positives = 94/166 (56%), Gaps = 5/166 (3%)

Query: 127 TSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T V +KG D  V+A +K+V   L+    TV  ++ +   +GC   G+ AD++  V+R R 
Sbjct: 2   TIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRK 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           EA  ++ ++G  +P++ L   +A++   YTQ   +RPLG S+++   DE  GP +Y  DP
Sbjct: 62  EAQLYRLRYGEPIPVEALAKLLANLLYEYTQ--SLRPLGVSLLVAGVDEEGGPQLYSVDP 119

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
           +G Y  +KA ++G  +  A   LEK +K     T +E I+LA+  L
Sbjct: 120 SGSYIEYKATAIGSGSQYALGILEKLYKPDM--TLEEAIELALKAL 163

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|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional

 Score =  166 bits (422), Expect = 2e-50
 Identities = 71/199 (35%), Positives = 122/199 (61%), Gaps = 4/199 (2%)

Query: 90  QVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSL 149
            +Q  + G+DR ITIFSP+GRLYQVEYA +A+ +G  T+V VK  D  V+A +K++   L
Sbjct: 2   MMQPQQMGYDRAITIFSPDGRLYQVEYAREAVKRG-TTAVGVKTKDGVVLAVDKRITSPL 60

Query: 150 VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIAD 209
           ++P ++  ++ +   +G    G+ AD+R  + RAR EA   +  +G  + ++ L  +I D
Sbjct: 61  IEPSSIEKIFKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICD 120

Query: 210 ISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLE 269
             Q YTQ+  +RP G ++++   D+  GP +++TDP+G Y  +KA ++G        +LE
Sbjct: 121 HKQQYTQHGGVRPFGVALLIAGVDDG-GPRLFETDPSGAYLEYKATAIGAGRDTVMEFLE 179

Query: 270 KKFKKKTNYTGDETIQLAI 288
           K +K+  + + +E I+LA+
Sbjct: 180 KNYKE--DLSLEEAIELAL 196

Length = 241

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  162 bits (413), Expect = 3e-49
 Identities = 72/190 (37%), Positives = 114/190 (60%), Gaps = 4/190 (2%)

Query: 102 ITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSL 161
           +T FSP G+L Q+EYA  A++  G  SV +K  +  V+ATEKKVP  L+D  +V  +  +
Sbjct: 5   LTTFSPSGKLVQIEYALAAVS-SGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQI 63

Query: 162 TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMR 221
           TP +G V +GM  D R  V++AR  A  +   +G  +P+ QL   IA + Q YTQ+  +R
Sbjct: 64  TPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVR 123

Query: 222 PLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGD 281
           P G S+++  +DE  GP +Y+ DP+G Y ++KA ++G   + A ++LEK++ +      +
Sbjct: 124 PFGVSLLIAGWDEG-GPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLEL--E 180

Query: 282 ETIQLAISCL 291
           + I  AI  L
Sbjct: 181 DAIHTAILTL 190

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|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score =  161 bits (409), Expect = 6e-49
 Identities = 70/195 (35%), Positives = 124/195 (63%), Gaps = 4/195 (2%)

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+DR IT+FSP+GRLYQVEYA +A+ +G  T++ +K  +  V+A +K++   LV+P+++ 
Sbjct: 1   GYDRAITVFSPDGRLYQVEYAREAVKRG-TTALGIKCKEGVVLAVDKRITSKLVEPESIE 59

Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +Y +   VG   +G+ AD+R  + RAR EA   +  +G  + ++ L  +I D+ Q YTQ
Sbjct: 60  KIYKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQ 119

Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
           +  +RP G ++++   D+  GP +++TDP+G Y  +KA ++G        +LEK++K+  
Sbjct: 120 HGGVRPFGVALLIAGVDDG-GPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKE-- 176

Query: 277 NYTGDETIQLAISCL 291
           + + +E I+LA+  L
Sbjct: 177 DMSLEEAIELALKAL 191

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|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex, archaeal, alpha subunit

 Score =  159 bits (405), Expect = 4e-48
 Identities = 69/196 (35%), Positives = 122/196 (62%), Gaps = 4/196 (2%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
            G+DR IT+FSP+GRLYQVEYA +A+ +G  T+V +K  D  V+A +K++   LV+P ++
Sbjct: 1   MGYDRAITVFSPDGRLYQVEYAREAVKRG-TTAVGIKTKDGVVLAVDKRITSKLVEPSSI 59

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             ++ +   +G   +G+ AD+R  + RAR EA   +  +G  + ++ L  +I D+ Q YT
Sbjct: 60  EKIFKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYT 119

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           Q+  +RP G ++++   D+  GP +++TDP+G    +KA ++G        +LEK++++ 
Sbjct: 120 QHGGVRPFGVALLIAGVDDG-GPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYRE- 177

Query: 276 TNYTGDETIQLAISCL 291
            + + DE I+LA+  L
Sbjct: 178 -DLSLDEAIELALKAL 192

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|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score =  152 bits (385), Expect = 2e-45
 Identities = 74/194 (38%), Positives = 115/194 (59%), Gaps = 3/194 (1%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+  EKK    L DP+TV  
Sbjct: 1   YDRAITVFSPDGHLFQVEYAQEAVRKGT-TAVGVRGKDCVVLGVEKKSVAKLQDPRTVRK 59

Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           +  L   V     G+ AD+R  + RAR E  S +      + ++ +   IA + Q YTQ+
Sbjct: 60  ICMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQS 119

Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
             +RP G S +++ +D +  P +Y+TDP+G Y ++KA ++G  +     +LEK +K+   
Sbjct: 120 GGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKE--E 177

Query: 278 YTGDETIQLAISCL 291
            T D+TI+LAI  L
Sbjct: 178 MTRDDTIKLAIKAL 191

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|215805 pfam00227, Proteasome, Proteasome subunit

 Score =  147 bits (374), Expect = 6e-44
 Identities = 57/169 (33%), Positives = 94/169 (55%), Gaps = 5/169 (2%)

Query: 125 GVTSVAVKGVDTAVVATEKKVP--DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQR 182
           G T V +KG D  V+A +K+      L+   TV  ++ +   +G    G+ AD++  V  
Sbjct: 4   GTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLVDY 63

Query: 183 ARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYK 242
           AR EA  ++ ++G  + ++ L  RIAD  Q YTQ +  RP G S+++  YDE+ GP +Y 
Sbjct: 64  ARAEAQLYRLRYGRPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHLYS 122

Query: 243 TDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            DP+G    +KA ++G  +  A  +LEK +K   + T +E ++LA+  L
Sbjct: 123 IDPSGSVIEYKATAIGSGSQYAYGFLEKLYKP--DMTLEEAVELAVKAL 169

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|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score =  147 bits (372), Expect = 2e-43
 Identities = 60/175 (34%), Positives = 101/175 (57%), Gaps = 2/175 (1%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
            G+D   + FSP+GR++QVEYA KA+   G T++ ++  D  V+A EK V   L +P + 
Sbjct: 2   TGYDLSASTFSPDGRVFQVEYANKAVENSG-TAIGIRCKDGVVLAVEKLVTSKLYEPGSN 60

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             ++++   +G  + G+ AD R+ V RAR EA +++  +G  +P+  L +R+A     YT
Sbjct: 61  KRIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYT 120

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
             + +RP GCS++L  YD  +GP +Y  +P+G    +   ++G     A + LEK
Sbjct: 121 LYSSVRPFGCSVLLGGYDS-DGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEK 174

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 =  145 bits (368), Expect = 9e-43
 Identities = 69/195 (35%), Positives = 109/195 (55%), Gaps = 4/195 (2%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVT 156
           +D   TIFSPEGRLYQVEYA +AI+  G   + +   D  V+A EKKV   L+D   +  
Sbjct: 3   YDSRTTIFSPEGRLYQVEYAMEAISHAGTC-LGILAKDGIVLAAEKKVTSKLLDQSFSSE 61

Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +Y +   + C + G+ +D+   +  AR  A  + Y +   +P++QL  R+ DI Q YTQ
Sbjct: 62  KIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQ 121

Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
              +RP G S +   +D++ G  +Y++DP+G Y  +KA ++G     A S L++ +K   
Sbjct: 122 YGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDM 181

Query: 277 NYTGDETIQLAISCL 291
             T +E + LA+  L
Sbjct: 182 --TLEEALALAVKVL 194

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|238892 cd01911, proteasome_alpha, proteasome alpha subunit

 Score =  144 bits (366), Expect = 2e-42
 Identities = 43/87 (49%), Positives = 59/87 (67%), Gaps = 1/87 (1%)

Query: 9  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 68
          +DR IT FSPEGRL+QVEYA +A+  G  T+V +KG D  V+A EKKV   L+DP +V  
Sbjct: 1  YDRSITTFSPEGRLFQVEYALEAVKNGS-TAVGIKGKDGVVLAVEKKVTSKLLDPSSVEK 59

Query: 69 LYSLTPTVGCVMTGMQADSRYQVQRAR 95
          ++ +   +GC + G+ AD+R  V RAR
Sbjct: 60 IFKIDDHIGCAVAGLTADARVLVNRAR 86

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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score =  136 bits (344), Expect = 3e-39
 Identities = 65/199 (32%), Positives = 116/199 (58%), Gaps = 9/199 (4%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR +  FSPEGRL+QVEYA +AI  G  T++ +K  +  V+A EK++   L++P +V  
Sbjct: 1   YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGIKTKEGVVLAVEKRITSPLMEPSSVEK 59

Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADIS----QV 213
           +  +   +GC M+G+ AD+R  +  AR EA + ++ +   M ++ +   ++D++    + 
Sbjct: 60  IMEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEG 119

Query: 214 YTQNAEM-RPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKF 272
                 M RP G ++++   DEN GP ++ TDP+G +    A ++G  +  A S L++K+
Sbjct: 120 DDGKKAMSRPFGVALLIAGVDEN-GPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKY 178

Query: 273 KKKTNYTGDETIQLAISCL 291
            K  + T +E  +LA+S L
Sbjct: 179 HK--DMTLEEAEKLALSIL 195

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|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score =  135 bits (343), Expect = 4e-39
 Identities = 60/194 (30%), Positives = 114/194 (58%), Gaps = 4/194 (2%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +D  +T +SP+GRL+QVEYA +A+ QG  T V +K    AV+   K+    L   +    
Sbjct: 1   YDTDVTTWSPQGRLFQVEYAMEAVKQGSAT-VGLKSKTHAVLVALKRATSELSSYQK--K 57

Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           ++ +   +G  + G+ AD+R   +  R E  ++++ +   +P+ +L +++A+ +Q+ TQ 
Sbjct: 58  IFKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQR 117

Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
              RP G  +++  YDE+ GP +++T P+G Y  +KA S+G ++  A +YLE+ F++  +
Sbjct: 118 YGRRPYGVGLLIAGYDES-GPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFED 176

Query: 278 YTGDETIQLAISCL 291
            + +E I+ A+  L
Sbjct: 177 CSLEELIKHALRAL 190

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 =  134 bits (338), Expect = 6e-38
 Identities = 69/195 (35%), Positives = 110/195 (56%), Gaps = 4/195 (2%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVT 156
           +D   T FSPEGRLYQVEYA +AIN   +T V +   +  ++  +K +   L+DP K   
Sbjct: 5   YDSRTTTFSPEGRLYQVEYALEAINNASLT-VGILCKEGVILGADKPISSKLLDPGKINE 63

Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +Y +   + C + G+ AD+   + + R  A  ++Y +G   P++QL  +I D+ Q YTQ
Sbjct: 64  KIYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQ 123

Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
              +RP G S +   YDEN G  +Y TDP+G Y  +KA ++G     A S L++++K+  
Sbjct: 124 FGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKE-- 181

Query: 277 NYTGDETIQLAISCL 291
           + T ++ + LA   L
Sbjct: 182 DLTLEQGLLLAAKVL 196

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 =  117 bits (296), Expect = 9e-33
 Identities = 50/167 (29%), Positives = 85/167 (50%), Gaps = 8/167 (4%)

Query: 127 TSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           TSVA+KG    V+A +K++   L      V  +      +   + G+ AD++  V+R R 
Sbjct: 2   TSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLRE 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
               ++ ++G  + +  L   +A + QVYTQ    RP G ++I+   DE  G  +Y  DP
Sbjct: 62  ALQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDEG-GGNLYYIDP 117

Query: 246 AG-YYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
           +G    +  AV+ G ++  A S LEK +K   + T +E ++LA+  L
Sbjct: 118 SGPVIENPGAVATGSRSQRAKSLLEKLYKP--DMTLEEAVELALKAL 162

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

 Score =  102 bits (256), Expect = 5e-26
 Identities = 40/91 (43%), Positives = 60/91 (65%), Gaps = 1/91 (1%)

Query: 7  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KT 65
          AG+DR ITIFSPEGRL+QVEYA +A+ +GG T+V +KG D  V+A +K+    L+     
Sbjct: 1  AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSN 60

Query: 66 VTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
          V  ++ +   +G  + G+ AD++  V+ ARA
Sbjct: 61 VEKIFKIDDHIGMAIAGLAADAQVLVRYARA 91

Length = 236

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

 Score = 94.1 bits (235), Expect = 6e-23
 Identities = 38/90 (42%), Positives = 59/90 (65%), Gaps = 1/90 (1%)

Query: 6  SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 65
            G+DR ITIFSP+GRLYQVEYA +A+ + G T+V VK  D  V+A +K++   L++P +
Sbjct: 7  QMGYDRAITIFSPDGRLYQVEYAREAVKR-GTTAVGVKTKDGVVLAVDKRITSPLIEPSS 65

Query: 66 VTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          +  ++ +   +G    G+ AD+R  + RAR
Sbjct: 66 IEKIFKIDDHIGAASAGLVADARVLIDRAR 95

Length = 241

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 93.5 bits (233), Expect = 6e-23
 Identities = 49/141 (34%), Positives = 77/141 (54%), Gaps = 16/141 (11%)

Query: 8   GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 67
           G+DR IT+FSP+GRLYQVEYA +A+ + G T++ +K  +  V+A +K++   LV+P+++ 
Sbjct: 1   GYDRAITVFSPDGRLYQVEYAREAVKR-GTTALGIKCKEGVVLAVDKRITSKLVEPESIE 59

Query: 68  NLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAI------ 121
            +Y +   VG   +G+ AD+R  + RAR     H   +   G    VE   K I      
Sbjct: 60  KIYKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTY---GEPIDVEVLVKKICDLKQQ 116

Query: 122 --NQGGV----TSVAVKGVDT 136
               GGV     ++ + GVD 
Sbjct: 117 YTQHGGVRPFGVALLIAGVDD 137

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|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score = 92.0 bits (229), Expect = 3e-22
 Identities = 37/83 (44%), Positives = 53/83 (63%), Gaps = 1/83 (1%)

Query: 13 ITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSL 72
          +T FSP G+L Q+EYA  A++  G  SV +K  +  V+ATEKKVP  L+D  +V  +  +
Sbjct: 5  LTTFSPSGKLVQIEYALAAVS-SGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQI 63

Query: 73 TPTVGCVMTGMQADSRYQVQRAR 95
          TP +G V +GM  D R  V++AR
Sbjct: 64 TPHIGMVYSGMGPDFRVLVKKAR 86

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|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex, archaeal, alpha subunit

 Score = 90.8 bits (226), Expect = 7e-22
 Identities = 37/89 (41%), Positives = 60/89 (67%), Gaps = 1/89 (1%)

Query: 7  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 66
           G+DR IT+FSP+GRLYQVEYA +A+ + G T+V +K  D  V+A +K++   LV+P ++
Sbjct: 1  MGYDRAITVFSPDGRLYQVEYAREAVKR-GTTAVGIKTKDGVVLAVDKRITSKLVEPSSI 59

Query: 67 TNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
            ++ +   +G   +G+ AD+R  + RAR
Sbjct: 60 EKIFKIDDHIGAATSGLVADARVLIDRAR 88

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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 87.8 bits (218), Expect = 9e-21
 Identities = 35/87 (40%), Positives = 56/87 (64%), Gaps = 1/87 (1%)

Query: 9  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 68
          +DR +  FSPEGRL+QVEYA +AI  G  T++ +K  +  V+A EK++   L++P +V  
Sbjct: 1  YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGIKTKEGVVLAVEKRITSPLMEPSSVEK 59

Query: 69 LYSLTPTVGCVMTGMQADSRYQVQRAR 95
          +  +   +GC M+G+ AD+R  +  AR
Sbjct: 60 IMEIDDHIGCAMSGLIADARTLIDHAR 86

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|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score = 83.2 bits (206), Expect = 4e-19
 Identities = 39/87 (44%), Positives = 54/87 (62%), Gaps = 1/87 (1%)

Query: 9  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 68
          +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+  EKK    L DP+TV  
Sbjct: 1  YDRAITVFSPDGHLFQVEYAQEAVRKGT-TAVGVRGKDCVVLGVEKKSVAKLQDPRTVRK 59

Query: 69 LYSLTPTVGCVMTGMQADSRYQVQRAR 95
          +  L   V     G+ AD+R  + RAR
Sbjct: 60 ICMLDDHVCLAFAGLTADARVLINRAR 86

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|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score = 80.8 bits (200), Expect = 3e-18
 Identities = 33/89 (37%), Positives = 54/89 (60%), Gaps = 1/89 (1%)

Query: 7  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 66
           G+D   + FSP+GR++QVEYA KA+   G T++ ++  D  V+A EK V   L +P + 
Sbjct: 2  TGYDLSASTFSPDGRVFQVEYANKAVENSG-TAIGIRCKDGVVLAVEKLVTSKLYEPGSN 60

Query: 67 TNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
            ++++   +G  + G+ AD R+ V RAR
Sbjct: 61 KRIFNVDRHIGIAVAGLLADGRHLVSRAR 89

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 = 73.2 bits (180), Expect = 2e-15
 Identities = 36/102 (35%), Positives = 52/102 (50%), Gaps = 9/102 (8%)

Query: 9   FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVT 67
           +D   TIFSPEGRLYQVEYA +AI+  G   + +   D  V+A EKKV   L+D   +  
Sbjct: 3   YDSRTTIFSPEGRLYQVEYAMEAISHAGTC-LGILAKDGIVLAAEKKVTSKLLDQSFSSE 61

Query: 68  NLYSLTPTVGCVMTGMQAD-------SRYQVQRARAGFDRHI 102
            +Y +   + C + G+ +D       +R   QR    +   I
Sbjct: 62  KIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPI 103

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|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional

 Score = 66.4 bits (162), Expect = 8e-13
 Identities = 35/102 (34%), Positives = 54/102 (52%), Gaps = 6/102 (5%)

Query: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSL 60
           MSR     +D   T FSPEGRLYQVEYA +AIN   +T V +   +  ++  +K +   L
Sbjct: 1   MSRR----YDSRTTTFSPEGRLYQVEYALEAINNASLT-VGILCKEGVILGADKPISSKL 55

Query: 61  VDP-KTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRH 101
           +DP K    +Y +   + C + G+ AD+   + + R    R+
Sbjct: 56  LDPGKINEKIYKIDSHIFCAVAGLTADANILINQCRLYAQRY 97

Length = 253

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score = 62.3 bits (152), Expect = 1e-11
 Identities = 27/80 (33%), Positives = 45/80 (56%), Gaps = 3/80 (3%)

Query: 9  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 68
          +D  +T +SP+GRL+QVEYA +A+ QG  T V +K    AV+   K+    L   +    
Sbjct: 1  YDTDVTTWSPQGRLFQVEYAMEAVKQGSAT-VGLKSKTHAVLVALKRATSELSSYQ--KK 57

Query: 69 LYSLTPTVGCVMTGMQADSR 88
          ++ +   +G  + G+ AD+R
Sbjct: 58 IFKVDDHIGIAIAGLTADAR 77

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|238893 cd01912, proteasome_beta, proteasome beta subunit

 Score = 59.4 bits (145), Expect = 1e-10
 Identities = 34/166 (20%), Positives = 69/166 (41%), Gaps = 7/166 (4%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T V +KG D  V+A + +    SLV  +    ++ ++  +     G  AD++   +  + 
Sbjct: 2   TIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKR 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
               ++ ++G  + +    N +   S +        P   S+I+   D+  GP +Y  DP
Sbjct: 62  NLRLYELRNGRELSVKAAANLL---SNILYSYRGF-PYYVSLIVGGVDKGGGPFLYYVDP 117

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G       V+ G  +  A   L++ +K     T +E ++L    +
Sbjct: 118 LGSLIEAPFVATGSGSKYAYGILDRGYKPDM--TLEEAVELVKKAI 161

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

 Score = 54.3 bits (132), Expect = 2e-10
 Identities = 16/23 (69%), Positives = 20/23 (86%)

Query: 9  FDRHITIFSPEGRLYQVEYAFKA 31
          +DR +T FSP+GRL+QVEYA KA
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMKA 23

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

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

 Score = 54.3 bits (132), Expect = 2e-10
 Identities = 16/23 (69%), Positives = 20/23 (86%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKA 120
           +DR +T FSP+GRL+QVEYA KA
Sbjct: 1   YDRSLTTFSPDGRLFQVEYAMKA 23

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score = 57.9 bits (141), Expect = 3e-10
 Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 38 TSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
          T V +KG D  V+A +K+V   L+    TV  ++ +   +GC   G+ AD++  V+R R 
Sbjct: 2  TIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRK 61

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

 Score = 52.9 bits (128), Expect = 6e-10
 Identities = 15/23 (65%), Positives = 20/23 (86%)

Query: 9  FDRHITIFSPEGRLYQVEYAFKA 31
          +DR +T FSP+GRL+QVEYA +A
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMEA 23

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

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

 Score = 52.9 bits (128), Expect = 6e-10
 Identities = 15/23 (65%), Positives = 20/23 (86%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKA 120
           +DR +T FSP+GRL+QVEYA +A
Sbjct: 1   YDRSLTTFSPDGRLFQVEYAMEA 23

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

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

 Score = 55.3 bits (134), Expect = 2e-09
 Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 36 GVTSVAVKGVDTAVVATEKKVP--DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQR 93
          G T V +KG D  V+A +K+      L+   TV  ++ +   +G    G+ AD++  V  
Sbjct: 4  GTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLVDY 63

Query: 94 ARA 96
          ARA
Sbjct: 64 ARA 66

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|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit

 Score = 51.1 bits (123), Expect = 7e-08
 Identities = 39/163 (23%), Positives = 74/163 (45%), Gaps = 8/163 (4%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T+V +   D  V+A +K+    + +  K V  ++ +   +   + G   D++  V+  + 
Sbjct: 2   TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKA 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           EA  ++ + G  M I  L   +++I        +  P    +++   DE EGP +Y  DP
Sbjct: 62  EARLYELRRGRPMSIKALATLLSNILNSS----KYFPYIVQLLIGGVDE-EGPHLYSLDP 116

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAI 288
            G     K  + G  +  A   LE ++K+  + T +E  +LAI
Sbjct: 117 LGSIIEDKYTATGSGSPYAYGVLEDEYKE--DMTVEEAKKLAI 157

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|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 = 48.9 bits (117), Expect = 3e-07
 Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 4/85 (4%)

Query: 38  TSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           TSVA+KG    V+A +K++   L      V  +      +   + G+ AD++  V+R R 
Sbjct: 2   TSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLRE 61

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAI 121
               +       G    V    K +
Sbjct: 62  ALQLY---RLRYGEPISVVALAKEL 83

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|239726 cd03757, proteasome_beta_type_1, proteasome beta type-1 subunit

 Score = 48.4 bits (116), Expect = 8e-07
 Identities = 38/172 (22%), Positives = 66/172 (38%), Gaps = 22/172 (12%)

Query: 121 INQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCVMT--GMQADSR 177
            + GG T +A+ G D AV+A + ++ +      +    ++ LT    CV+   G QAD  
Sbjct: 5   TDNGG-TVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDK--CVLGSSGFQADIL 61

Query: 178 YQVQRARYEAASFKYKHGYSMPIDQLCNRIADIS------QVYTQNAEMRPLGCSMILIS 231
              +R +     +KY H   M  + +   ++ I         Y  N          IL  
Sbjct: 62  ALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFN----------ILAG 111

Query: 232 YDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDET 283
            DE    ++Y  DP G Y      + G  ++     L+ +  +K     + T
Sbjct: 112 IDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERT 163

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|234287 TIGR03634, arc_protsome_B, proteasome endopeptidase complex, archaeal, beta subunit

 Score = 46.4 bits (111), Expect = 3e-06
 Identities = 37/165 (22%), Positives = 74/165 (44%), Gaps = 8/165 (4%)

Query: 125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G T+V +K  D  V+A +K+    + V  K    ++ +   +   + G   D++  V+  
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT 243
           + EA  ++ + G  M +  L   +++I           P    +++   DE EGP +Y  
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNILNSN----RFFPFIVQLLVGGVDE-EGPHLYSL 115

Query: 244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAI 288
           DPAG        + G  +  A   LE ++++  + + +E  +LA+
Sbjct: 116 DPAGGIIEDDYTATGSGSPVAYGVLEDEYRE--DMSVEEAKKLAV 158

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	291
KOG0176|consensus	241		100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
KOG0182|consensus	246		100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
KOG0183|consensus	249		100.0
KOG0184|consensus	254		100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
KOG0181|consensus	233		100.0
KOG0178|consensus	249		100.0
KOG0863|consensus	264		100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	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
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
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	99.98
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	99.97
KOG0177|consensus	200		99.96
KOG0179|consensus	235		99.93
KOG0174|consensus	224		99.93
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.93
KOG0185|consensus	256		99.92
KOG0173|consensus	271		99.92
KOG0180|consensus	204		99.91
KOG0175|consensus	285		99.91
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.91
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	99.89
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.89
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.88
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	99.82
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	99.81
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	99.81
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	99.8
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	99.8
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	99.8
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	99.78
KOG0176|consensus	241		99.78
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	99.76
PTZ00488	247	Proteasome subunit beta type-5; Provisional	99.76
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	99.75
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	99.74
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	99.74
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	99.73
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	99.73
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	99.72
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	99.72
KOG0184|consensus	254		99.72
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	99.72
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	99.72
KOG0182|consensus	246		99.72
KOG0173|consensus	271		99.68
PRK03996	241	proteasome subunit alpha; Provisional	99.68
KOG0183|consensus	249		99.68
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	99.66
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	99.6
KOG0181|consensus	233		99.52
KOG0863|consensus	264		99.47
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.47
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.46
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.38
KOG0174|consensus	224		99.29
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	99.25
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.24
KOG0175|consensus	285		99.24
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	99.24
KOG0180|consensus	204		99.23
KOG0179|consensus	235		99.22
PTZ00246	253	proteasome subunit alpha; Provisional	99.16
KOG0178|consensus	249		99.1
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	98.91
KOG0185|consensus	256		98.8
KOG0177|consensus	200		98.75
COG3484	255	Predicted proteasome-type protease [Posttranslatio	98.62
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	98.18
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	93.99
KOG3361|consensus	157		82.87

>KOG0176|consensus

Probab=100.00  E-value=4.3e-52  Score=331.63  Aligned_cols=194  Identities=32%  Similarity=0.658  Sum_probs=173.1

Q ss_pred             CCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccc
Q psy8777           5 SSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQ   84 (291)
Q Consensus         5 ~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~   84 (291)
                      .++.||+.++||||||||||||||+||++.|+ |+|||++++|||||++||.+++|+.|++++||+.||+||||++||+.
T Consensus         4 trseydrgVNTfSpEGRlfQVEYaieAikLGs-TaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgca~SGl~   82 (241)
T KOG0176|consen    4 TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGCAMSGLI   82 (241)
T ss_pred             cHHHhcccccccCCCceeeehhhHHHHHhcCC-ceeeeeccceEEEEEeccccCcccCchhhhhheehhhceeeeccccc
Confidence            36789999999999999999999999999996 99999999999999999999999999999999999999999999999


Q ss_pred             cchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCc
Q psy8777          85 ADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPT  164 (291)
Q Consensus        85 ~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~  164 (291)
                      +|+|.+++++|.                                                                    
T Consensus        83 aDarTlve~arv--------------------------------------------------------------------   94 (241)
T KOG0176|consen   83 ADARTLVERARV--------------------------------------------------------------------   94 (241)
T ss_pred             cchHHHHHHHHH--------------------------------------------------------------------
Confidence            999988776632                                                                    


Q ss_pred             EEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCc-----ceeeeeeeeEEEEeCCCCcE
Q psy8777         165 VGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAE-----MRPLGCSMILISYDENEGPL  239 (291)
Q Consensus       165 ~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~-----~~p~~~~~li~G~d~~~gp~  239 (291)
                                           ++++|.+.|+++++++.+.+.++++.-.|.....     .||||++++++|+|+ .||+
T Consensus        95 ---------------------~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~-~gpq  152 (241)
T KOG0176|consen   95 ---------------------ETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDE-TGPQ  152 (241)
T ss_pred             ---------------------HhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccC-CCce
Confidence                                 3445555677788888888888888766654422     489999999999996 7999


Q ss_pred             EEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         240 IYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       240 Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ||..||+|+|+++++-|||+|+.-+.+.|++.|++  +|+++||+.++++.|
T Consensus       153 L~h~dPSGtf~~~~AKAIGSgsEga~~~L~~e~~~--~ltL~ea~~~~L~iL  202 (241)
T KOG0176|consen  153 LYHLDPSGTFIRYKAKAIGSGSEGAESSLQEEYHK--DLTLKEAEKIVLKIL  202 (241)
T ss_pred             EEEeCCCCceEEecceeccccchHHHHHHHHHHhh--cccHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999  999999999987643

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=5.9e-51  Score=346.93  Aligned_cols=192  Identities=33%  Similarity=0.597  Sum_probs=169.3

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      .+||+++|+|||||||+|||||++|+++|+ |+|||+++||||||+|+|.++++..+++.+|||+|++|++|+++|+.+|
T Consensus         2 ~~yd~~~t~fsp~Grl~Qveya~~a~~~G~-tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (212)
T cd03751           2 TGYDLSASTFSPDGRVFQVEYANKAVENSG-TAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLAD   80 (212)
T ss_pred             CCccCCCceECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEEccccccccCcchhcceeEecCcEEEEEEEChHh
Confidence            689999999999999999999999999997 8999999999999999998776665555566666666666666666666


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      ++.+++                                                                          
T Consensus        81 ~~~l~~--------------------------------------------------------------------------   86 (212)
T cd03751          81 GRHLVS--------------------------------------------------------------------------   86 (212)
T ss_pred             HHHHHH--------------------------------------------------------------------------
Confidence            665544                                                                          


Q ss_pred             EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPA  246 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~  246 (291)
                                     +++.+++.|++.++++++++.+++.|++++|.|+++++.||++++++|+|||+ +||+||.+||+
T Consensus        87 ---------------~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~-~gp~Ly~~D~~  150 (212)
T cd03751          87 ---------------RAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDS-DGPQLYMIEPS  150 (212)
T ss_pred             ---------------HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeC-CcCEEEEECCC
Confidence                           44445567777888999999999999999999999988999999999999996 68999999999


Q ss_pred             CceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         247 GYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       247 G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |++.+++++|+|+|+.+++++||++|++  +||+|||+++++++|
T Consensus       151 Gs~~~~~~~a~G~g~~~a~~~Lek~~~~--dms~eeai~l~~~~L  193 (212)
T cd03751         151 GVSYGYFGCAIGKGKQAAKTELEKLKFS--ELTCREAVKEAAKII  193 (212)
T ss_pred             CCEEeeEEEEECCCCHHHHHHHHHhccC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999  999999999999875

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=1.6e-50  Score=345.31  Aligned_cols=195  Identities=69%  Similarity=1.089  Sum_probs=167.6

Q ss_pred             CccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccch
Q psy8777           8 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS   87 (291)
Q Consensus         8 ~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~   87 (291)
                      +||+++|+|||||||+|||||+||++++|+|+|||+++||||||+|+|.+++++.++..+|||+|++|++|++||+.+  
T Consensus         1 ~yd~~~~~fsp~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~~Ki~~I~~~i~~~~sG~~~--   78 (215)
T cd03754           1 GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIGCVMTGMIA--   78 (215)
T ss_pred             CCCCCCeeECCCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCcccCceEEEcCCEEEEEEechh--
Confidence            699999999999999999999999998666999999999999999999877655444445555555555555555544  


Q ss_pred             hhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE
Q psy8777          88 RYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC  167 (291)
Q Consensus        88 ~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~  167 (291)
                                                                                                      
T Consensus        79 --------------------------------------------------------------------------------   78 (215)
T cd03754          79 --------------------------------------------------------------------------------   78 (215)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             EeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCC
Q psy8777         168 VMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAG  247 (291)
Q Consensus       168 ~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G  247 (291)
                             |++.+.++++.++..|+++++++++++.+++.++.++|.|+++.+.||++++++|+|+|+++||+||.+||+|
T Consensus        79 -------D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~G  151 (215)
T cd03754          79 -------DSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAG  151 (215)
T ss_pred             -------hHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCc
Confidence                   4555555556677788889999999999999999999999999889999999999999976789999999999


Q ss_pred             ceEeeeEEEecCCchHHHHHHHHhccCCCCC--CHHHHHHHHHhhC
Q psy8777         248 YYCSFKAVSVGVKTTEANSYLEKKFKKKTNY--TGDETIQLAISCL  291 (291)
Q Consensus       248 ~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~--t~~eai~l~~~~l  291 (291)
                      ++.+++++|+|+|+.+++++||++|++..+|  |.|||++++++||
T Consensus       152 s~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al  197 (215)
T cd03754         152 YFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCL  197 (215)
T ss_pred             cEEeEEEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999994447  9999999999985

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.

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=2.3e-50  Score=347.42  Aligned_cols=190  Identities=38%  Similarity=0.695  Sum_probs=170.2

Q ss_pred             ccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchh
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR   88 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~   88 (291)
                      ||+++|+|||||||+|||||++|+++|+ |+|||+++||||||+|+|.++++..+++.+||++|++|++|+++|+.+|++
T Consensus         1 yd~~~t~fsp~Grl~QveyA~~av~~G~-t~igik~~dgVvlaad~~~~~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (227)
T cd03750           1 YSFSLTTFSPSGKLVQIEYALAAVSSGA-PSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGMVYSGMGPDFR   79 (227)
T ss_pred             CCCCCceECCCCeEhHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeecCCccccCCCCcceEEEEcCCEEEEEeEcHHhHH
Confidence            8999999999999999999999999995 999999999999999999887777666667777777777777777666666


Q ss_pred             hhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE
Q psy8777          89 YQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV  168 (291)
Q Consensus        89 ~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~  168 (291)
                      .+++.                                                                           
T Consensus        80 ~l~~~---------------------------------------------------------------------------   84 (227)
T cd03750          80 VLVKK---------------------------------------------------------------------------   84 (227)
T ss_pred             HHHHH---------------------------------------------------------------------------
Confidence            55444                                                                           


Q ss_pred             eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCc
Q psy8777         169 MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGY  248 (291)
Q Consensus       169 ~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~  248 (291)
                                    ++.+++.|++.++.+++++.+++.|++++|.|+++++.||++++++|+|||+ .||+||.+||+|+
T Consensus        85 --------------~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~-~g~~Ly~~d~~G~  149 (227)
T cd03750          85 --------------ARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDE-GGPYLYQVDPSGS  149 (227)
T ss_pred             --------------HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeC-CCCEEEEECCCCC
Confidence                          4445567778888999999999999999999999988999999999999996 5899999999999


Q ss_pred             eEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         249 YCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       249 ~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +.+++++|+|+|+.+++++||++|++  +||++||++++++||
T Consensus       150 ~~~~~~~a~G~g~~~~~~~Le~~~~~--~ms~eeai~l~~~~l  190 (227)
T cd03750         150 YFTWKATAIGKNYSNAKTFLEKRYNE--DLELEDAIHTAILTL  190 (227)
T ss_pred             EEeeeEEEECCCCHHHHHHHHhhccC--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999  999999999999986

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=9.9e-50  Score=340.33  Aligned_cols=193  Identities=36%  Similarity=0.674  Sum_probs=168.1

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCC-CcceeEeecCcEEEEEecccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~-~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      ++||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|+|.+++++.++ +.+|||+|++|++|++||+.+
T Consensus         1 ~~yd~~~~~fsp~Grl~Qveya~~a~~~G~-t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   79 (213)
T cd03752           1 RRYDSRTTIFSPEGRLYQVEYAMEAISHAG-TCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITS   79 (213)
T ss_pred             CCcCCCCceECCCCEEhHHHhHHHHHhcCC-CEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChH
Confidence            479999999999999999999999999996 999999999999999999887766543 445666666665555555555


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |++.+++                                                                         
T Consensus        80 D~~~l~~-------------------------------------------------------------------------   86 (213)
T cd03752          80 DANILIN-------------------------------------------------------------------------   86 (213)
T ss_pred             hHHHHHH-------------------------------------------------------------------------
Confidence            5555544                                                                         


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                      +++.+++.|+++++++++++.+++.|+..+|.|++.++.|||+++++|+|||++.||+||.+||
T Consensus        87 ----------------~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d~  150 (213)
T cd03752          87 ----------------YARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDP  150 (213)
T ss_pred             ----------------HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEECC
Confidence                            4444555777788999999999999999999999988999999999999999767899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++|+|+++.+++++||++|++  +||+|||++++++||
T Consensus       151 ~G~~~~~~~~a~G~gs~~~~~~Le~~y~~--~ms~eea~~l~~~al  194 (213)
T cd03752         151 SGNYSGWKATAIGNNNQAAQSLLKQDYKD--DMTLEEALALAVKVL  194 (213)
T ss_pred             CCCeeeeeEEEECCCcHHHHHHHHHhccC--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999985

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.

>KOG0182|consensus

Probab=100.00  E-value=2.9e-50  Score=324.49  Aligned_cols=202  Identities=69%  Similarity=1.045  Sum_probs=185.5

Q ss_pred             CCCCCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEE
Q psy8777           1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM   80 (291)
Q Consensus         1 ~~~~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~   80 (291)
                      |||+|+++||+.+|+|||||||+|||||+||++|+|.|+|++|++|++|++++|+.+++|.++++++++|+|+++|||++
T Consensus         1 ~s~gs~agfDrhitIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~itk~ig~v~   80 (246)
T KOG0182|consen    1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRITKKIGCVI   80 (246)
T ss_pred             CCCCCcCCccceEEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEeeccceEEE
Confidence            89999999999999999999999999999999998899999999999999999999999999887888888888777777


Q ss_pred             eccccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEE
Q psy8777          81 TGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYS  160 (291)
Q Consensus        81 ~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~  160 (291)
                      +|+.+|+|.+++                                                                    
T Consensus        81 tG~~aDar~~v~--------------------------------------------------------------------   92 (246)
T KOG0182|consen   81 TGMIADARSQVQ--------------------------------------------------------------------   92 (246)
T ss_pred             ecCCcchHHHHH--------------------------------------------------------------------
Confidence            777777765444                                                                    


Q ss_pred             ecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEE
Q psy8777         161 LTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLI  240 (291)
Q Consensus       161 i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~L  240 (291)
                                           +++.++.+++|+||.+||++.|++.++++.|.|+|+..+||+||.+.++|+|++.||.+
T Consensus        93 ---------------------rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~v  151 (246)
T KOG0182|consen   93 ---------------------RARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSV  151 (246)
T ss_pred             ---------------------HHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcce
Confidence                                 44446667778899999999999999999999999999999999999999999999999


Q ss_pred             EEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         241 YKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       241 y~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |.+||.|-+..+++++.|-....+..+||++||++.++|.+|++++++.||
T Consensus       152 Yk~DpAGyy~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al  202 (246)
T KOG0182|consen  152 YKTDPAGYYYGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISAL  202 (246)
T ss_pred             EeecCccccccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHH
Confidence            999999999999999999999999999999999965688999999999875

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=6.2e-49  Score=343.63  Aligned_cols=193  Identities=35%  Similarity=0.654  Sum_probs=168.0

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCC-CcceeEeecCcEEEEEecccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~-~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      ++||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.+++++.++ +.+|||+|++|++|+++|+.+
T Consensus         3 ~~yd~~~~~fsp~Grl~QvEYA~~av~~g~-t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   81 (253)
T PTZ00246          3 RRYDSRTTTFSPEGRLYQVEYALEAINNAS-LTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTA   81 (253)
T ss_pred             CccCCCCceECCCCEEhHHHHHHHHHHhCC-CEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHH
Confidence            489999999999999999999999999996 999999999999999999887766553 245555555555555555555


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |++                                                                             
T Consensus        82 D~~-----------------------------------------------------------------------------   84 (253)
T PTZ00246         82 DAN-----------------------------------------------------------------------------   84 (253)
T ss_pred             HHH-----------------------------------------------------------------------------
Confidence            554                                                                             


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                  .+.+.++.++..|++.++.+++++.+++.++..+|.|+++++.||++++++|+|||++.||+||.+||
T Consensus        85 ------------~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~  152 (253)
T PTZ00246         85 ------------ILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDP  152 (253)
T ss_pred             ------------HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECC
Confidence                        44455555666777788889999999999999999999999999999999999999657899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++|+|+|+.+++++||++|++  +|++|||++++++||
T Consensus       153 ~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~--~ms~eeai~l~~~al  196 (253)
T PTZ00246        153 SGNYSGWKATAIGQNNQTAQSILKQEWKE--DLTLEQGLLLAAKVL  196 (253)
T ss_pred             CCCEecceEEEECCCcHHHHHHHHHhccC--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999986

>KOG0183|consensus

Probab=100.00  E-value=5.2e-50  Score=323.56  Aligned_cols=195  Identities=35%  Similarity=0.606  Sum_probs=178.3

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      ++||+.+|+|||||+|||||||++||++|+ |+||++++|+|||+.+||...+|++.++..||..+|+|+++++||+.||
T Consensus         2 srydraltvFSPDGhL~QVEYAqEAvrkGs-taVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld~hV~mafaGl~aD   80 (249)
T KOG0183|consen    2 SRYDRALTVFSPDGHLFQVEYAQEAVRKGS-TAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLDDHVVMAFAGLTAD   80 (249)
T ss_pred             CccccceEEECCCCCEEeeHhHHHHHhcCc-eEEEeccCceEEEEEeecchhhhhhhhhhhhheeecceeeEEecCCCcc
Confidence            589999999999999999999999999996 9999999999999999999999998888888888888888888888888


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      +|.+++.                                                                         
T Consensus        81 Arilinr-------------------------------------------------------------------------   87 (249)
T KOG0183|consen   81 ARILINR-------------------------------------------------------------------------   87 (249)
T ss_pred             ceeehhh-------------------------------------------------------------------------
Confidence            8755443                                                                         


Q ss_pred             EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPA  246 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~  246 (291)
                                      ++.|+++|++....+++++.+.++|+.+.|.||+..+.||||++.+|+|+|+++.|+||.+||+
T Consensus        88 ----------------ArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePs  151 (249)
T KOG0183|consen   88 ----------------ARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPS  151 (249)
T ss_pred             ----------------HhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCC
Confidence                            3446677777778899999999999999999999999999999999999999767999999999


Q ss_pred             CceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         247 GYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       247 G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |.|.+|++.|+|.+++.+..+||++|++..-.+..|+++|++++|
T Consensus       152 G~f~ewka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~L  196 (249)
T KOG0183|consen  152 GIFSEWKANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRAL  196 (249)
T ss_pred             cchhhhhccccccccHHHHHHHHHhcccccccccccHHHHHHHHH
Confidence            999999999999999999999999999955589999999999875

>KOG0184|consensus

Probab=100.00  E-value=3e-49  Score=320.75  Aligned_cols=195  Identities=35%  Similarity=0.587  Sum_probs=177.0

Q ss_pred             CCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecc
Q psy8777           4 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGM   83 (291)
Q Consensus         4 ~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~   83 (291)
                      +.+.+||++.++||||||+||||||+|||+++| |+|||||+|||||++||..+++|+.|..++|||+|++|||++++|+
T Consensus         3 sIGtGyDls~s~fSpdGrvfQveYA~KAven~~-T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~r~iG~avaGl   81 (254)
T KOG0184|consen    3 SIGTGYDLSASTFSPDGRVFQVEYAQKAVENSG-TCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVDRHIGMAVAGL   81 (254)
T ss_pred             cccccccccceeeCCCCceehHHHHHHHHhcCC-cEEEEecCCeEEEEEeeeecccccccCCCCceEeecccccEEEecc
Confidence            458999999999999999999999999999997 9999999999999999999999999988888888888888888888


Q ss_pred             ccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          84 QADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        84 ~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      .+|.+.+++++                                                                     
T Consensus        82 ~~Dg~~l~~~a---------------------------------------------------------------------   92 (254)
T KOG0184|consen   82 IPDGRHLVNRA---------------------------------------------------------------------   92 (254)
T ss_pred             ccchHHHHHHH---------------------------------------------------------------------
Confidence            88887665544                                                                     


Q ss_pred             cEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEE
Q psy8777         164 TVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT  243 (291)
Q Consensus       164 ~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~  243 (291)
                                          +.|+.+|+-.|+.++|...++..++.+.|.||.++..||||++.++++||+ +||+||.+
T Consensus        93 --------------------r~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~-~g~~Lymi  151 (254)
T KOG0184|consen   93 --------------------RDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDD-EGPQLYMI  151 (254)
T ss_pred             --------------------HHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeC-CCceEEEE
Confidence                                335566666788899999999999999999999999999999999999995 79999999


Q ss_pred             CCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       244 d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ||+|..+.++++|+|.|.+.+++.|||.--+  .|+.+|+++.+.+.|
T Consensus       152 epSG~~~~Y~~aaiGKgrq~aKtElEKL~~~--~mt~~e~VkeaakIi  197 (254)
T KOG0184|consen  152 EPSGSSYGYKGAAIGKGRQAAKTELEKLKID--EMTCKELVKEAAKII  197 (254)
T ss_pred             cCCCCccceeeeeccchhHHHHHHHHhcccc--cccHHHHHHHHHhee
Confidence            9999999999999999999999999999766  899999999887653

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=2.7e-48  Score=330.79  Aligned_cols=190  Identities=31%  Similarity=0.629  Sum_probs=162.8

Q ss_pred             ccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchh
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR   88 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~   88 (291)
                      ||+++|+|||||||+|||||++|+++|+ |+|||+++||||||+|+|.++++..  ..+|||+|++|++|++||+.+|++
T Consensus         1 yd~~~t~fsp~Grl~Qveya~~av~~G~-t~IgIk~~dgVvlaad~r~~~~l~~--~~~KI~~I~~~i~~~~sG~~~D~~   77 (211)
T cd03749           1 YDTDVTTWSPQGRLFQVEYAMEAVKQGS-ATVGLKSKTHAVLVALKRATSELSS--YQKKIFKVDDHIGIAIAGLTADAR   77 (211)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHhcCC-CEEEEEeCCEEEEEEeccCccccCC--ccccEEEeCCCEEEEEEeChHhHH
Confidence            8999999999999999999999999996 9999999999999999987655432  235555555555555555555555


Q ss_pred             hhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE
Q psy8777          89 YQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV  168 (291)
Q Consensus        89 ~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~  168 (291)
                      .+                                                                              
T Consensus        78 ~l------------------------------------------------------------------------------   79 (211)
T cd03749          78 VL------------------------------------------------------------------------------   79 (211)
T ss_pred             HH------------------------------------------------------------------------------
Confidence            44                                                                              


Q ss_pred             eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCc
Q psy8777         169 MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGY  248 (291)
Q Consensus       169 ~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~  248 (291)
                                 .++++.+++.|+++++++++++.+++.++.++|.|+++.+.||++++++|+|||+ .||+||.+||+|+
T Consensus        80 -----------~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~-~gp~Ly~~Dp~G~  147 (211)
T cd03749          80 -----------SRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDE-SGPHLFQTCPSGN  147 (211)
T ss_pred             -----------HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcC-CCCeEEEECCCcC
Confidence                       4444455568888999999999999999999999999888999999999999996 6899999999999


Q ss_pred             eEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         249 YCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       249 ~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +.+++++|+|+|+..++++||++|++..+|++|||+++++++|
T Consensus       148 ~~~~~~~a~G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l  190 (211)
T cd03749         148 YFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRAL  190 (211)
T ss_pred             EeeeeEEEECCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999434899999999999875

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.

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1.9e-48  Score=338.40  Aligned_cols=195  Identities=36%  Similarity=0.701  Sum_probs=173.8

Q ss_pred             CCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecc
Q psy8777           4 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGM   83 (291)
Q Consensus         4 ~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~   83 (291)
                      +++++||+++++|||||||+|||||+||+++|+ |+|||+++||||||+|+|.++++..+++.+||+.|++|++|++||+
T Consensus         5 ~~~~~y~~~~~~fsp~Gr~~Q~eya~~av~~G~-t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~   83 (241)
T PRK03996          5 PQQMGYDRAITIFSPDGRLYQVEYAREAVKRGT-TAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAASAGL   83 (241)
T ss_pred             ccccccCCCCceECCCCeEhHHHHHHHHHHhCC-CEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEccc
Confidence            468999999999999999999999999999995 9999999999999999999877776666677777777777777777


Q ss_pred             ccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          84 QADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        84 ~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      .+|++.++++++                                                                    
T Consensus        84 ~~D~~~l~~~~~--------------------------------------------------------------------   95 (241)
T PRK03996         84 VADARVLIDRAR--------------------------------------------------------------------   95 (241)
T ss_pred             HHHHHHHHHHHH--------------------------------------------------------------------
Confidence            777776665542                                                                    


Q ss_pred             cEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEE
Q psy8777         164 TVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT  243 (291)
Q Consensus       164 ~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~  243 (291)
                                           .++..+++.++.+++++.+++.++.++|.|+++++.||++++++|+|||+ .||+||.+
T Consensus        96 ---------------------~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~-~gp~Ly~i  153 (241)
T PRK03996         96 ---------------------VEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFET  153 (241)
T ss_pred             ---------------------HHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeC-CcCEEEEE
Confidence                                 23344455678899999999999999999999888999999999999997 68999999


Q ss_pred             CCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       244 d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ||+|++.+++++|+|.|+..++++||+.|++  +|+++||++++++||
T Consensus       154 d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~~s~eeai~l~~~al  199 (241)
T PRK03996        154 DPSGAYLEYKATAIGAGRDTVMEFLEKNYKE--DLSLEEAIELALKAL  199 (241)
T ss_pred             CCCCCeecceEEEECCCcHHHHHHHHHhccc--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999  999999999999985

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

Probab=100.00  E-value=1.6e-47  Score=330.12  Aligned_cols=191  Identities=38%  Similarity=0.722  Sum_probs=169.4

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCC-cceeEeecCcEEEEEecccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT-VTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~-~~ki~~i~~~~~~~~~G~~~   85 (291)
                      .+||+.+++||||||++|+|||++|++++|+|+|||+++||||||+|||.+++++..+. .+|||+|+|||+|++||+.+
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            47999999999999999999999999999889999999999999999999998665533 56776666666666666666


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++                                                                         
T Consensus        81 Da~~lv~-------------------------------------------------------------------------   87 (236)
T COG0638          81 DAQVLVR-------------------------------------------------------------------------   87 (236)
T ss_pred             hHHHHHH-------------------------------------------------------------------------
Confidence            6665544                                                                         


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                      +++.+++.|++.++++++++.+++.+++++|.|+++  .|||++.++|+|+|+ ++|+||++||
T Consensus        88 ----------------~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~rP~gv~~iiaG~d~-~~p~Ly~~Dp  148 (236)
T COG0638          88 ----------------YARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDD-GGPRLYSTDP  148 (236)
T ss_pred             ----------------HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--cccceEEEEEEEEcC-CCCeEEEECC
Confidence                            444467777888899999999999999999999876  799999999999998 8899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++|+|+|++.++++||++|++  +|++|||++++++||
T Consensus       149 ~G~~~~~~~~a~Gsgs~~a~~~Le~~y~~--~m~~eeai~la~~al  192 (236)
T COG0638         149 SGSYNEYKATAIGSGSQFAYGFLEKEYRE--DLSLEEAIELAVKAL  192 (236)
T ss_pred             CCceeecCEEEEcCCcHHHHHHHHhhccC--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999986

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=100.00  E-value=5.5e-46  Score=315.91  Aligned_cols=191  Identities=39%  Similarity=0.683  Sum_probs=183.7

Q ss_pred             ccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHH
Q psy8777          98 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR  177 (291)
Q Consensus        98 yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~  177 (291)
                      ||+++++|+|+||++|+|||.+++.+|+ +++|++++++||+++|++....++.++..+||++|+++++++++|+.+|.+
T Consensus         1 ~d~~~~~fsp~Gr~~Qveya~~av~~G~-t~Igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (207)
T cd03755           1 YDRAITVFSPDGHLFQVEYAQEAVRKGT-TAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADAR   79 (207)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecCCCCcccCCCccCcEEEECCCEEEEEecchhhHH
Confidence            7899999999999999999999999998 999999999999999998877777666789999999999999999999999


Q ss_pred             HHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEe
Q psy8777         178 YQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSV  257 (291)
Q Consensus       178 ~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~  257 (291)
                      .+.++++.+++.|+++++++++++.+++.++.++|.|+++++.||++++++|+|||++++|+||.+||+|++.+++++|+
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~a~  159 (207)
T cd03755          80 VLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAI  159 (207)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCcCEEcceEEEE
Confidence            99999999999999999999999999999999999999998999999999999999767899999999999999999999


Q ss_pred             cCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         258 GVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       258 G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |+|+.+++++||++|++  +||+|||++++++||
T Consensus       160 G~gs~~~~~~Le~~~~~--~ms~eeai~l~~~~l  191 (207)
T cd03755         160 GRNSKTVREFLEKNYKE--EMTRDDTIKLAIKAL  191 (207)
T ss_pred             CCCCHHHHHHHHhhccC--CCCHHHHHHHHHHHH
Confidence            99999999999999999  999999999999985

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.

>KOG0181|consensus

Probab=100.00  E-value=6.1e-46  Score=295.79  Aligned_cols=193  Identities=38%  Similarity=0.679  Sum_probs=174.5

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      ..+|.+++|+|||+|+|.|+|||+.||.+|. |.|||+..||||||++|+..+.|.+..+.+|++.|.+||||..|||.+
T Consensus         3 d~~y~fslTtFSpsGKL~QieyAL~Av~~G~-~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~~~IG~vYSGmgp   81 (233)
T KOG0181|consen    3 DFGYSFSLTTFSPSGKLVQIEYALTAVVNGQ-TSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKITPHIGCVYSGMGP   81 (233)
T ss_pred             CcccceeeEEEcCCCceehHHHHHHHHhCCC-CceeeeecCceEEEeccCCCCccchhhhhhhHhhccCCcceEEecCCC
Confidence            4689999999999999999999999999995 999999999999999999999999888888888888888888888888


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |.|.|++..|                                                                      
T Consensus        82 D~RvlV~~~r----------------------------------------------------------------------   91 (233)
T KOG0181|consen   82 DYRVLVHKSR----------------------------------------------------------------------   91 (233)
T ss_pred             ceeehhhHHH----------------------------------------------------------------------
Confidence            8876655432                                                                      


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                         ..++.|..-|++++++..++..++.++|+|||+++.||||++++|+|||+ ++|.||++||
T Consensus        92 -------------------kiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~-~~p~LyQvdP  151 (233)
T KOG0181|consen   92 -------------------KIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDE-GGPLLYQVDP  151 (233)
T ss_pred             -------------------HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCC-CceeEEEECC
Confidence                               22334555788899999999999999999999999999999999999997 6899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|+++.|+++|+|.+...++++||++|.+  +|.+++++..++..|
T Consensus       152 SGsyf~wkatA~Gkn~v~aktFlEkR~~e--dleldd~ihtailtl  195 (233)
T KOG0181|consen  152 SGSYFAWKATAMGKNYVNAKTFLEKRYNE--DLELDDAIHTAILTL  195 (233)
T ss_pred             ccceeehhhhhhccCcchHHHHHHHHhcc--ccccchHHHHHHHHH
Confidence            99999999999999999999999999999  999999999887543

>KOG0178|consensus

Probab=100.00  E-value=2.9e-45  Score=295.33  Aligned_cols=194  Identities=36%  Similarity=0.641  Sum_probs=167.5

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCC-CcceeEeecCcEEEEEecccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~-~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      .+||...|+|||||||+|||||+||+.+.| |+|||.++|||||++++|.+++|++.. ..+||++|+|||.|+.+|+++
T Consensus         3 r~ydsrttiFspEGRLyQVEyAmeais~aG-t~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~   81 (249)
T KOG0178|consen    3 RRYDSRTTIFSPEGRLYQVEYAMEAISHAG-TCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTS   81 (249)
T ss_pred             cCcCCcccccCCCcchHHHHHHHHHHhhhc-ceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccc
Confidence            579999999999999999999999999999 999999999999999999999877542 235555555555555555554


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |                                                                               
T Consensus        82 D-------------------------------------------------------------------------------   82 (249)
T KOG0178|consen   82 D-------------------------------------------------------------------------------   82 (249)
T ss_pred             c-------------------------------------------------------------------------------
Confidence            4                                                                               


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                +..+.+.+|..++.|.+.|++++|++.|++.|.++.|.|||+.+.|||||+++-+|||+..|++||+.||
T Consensus        83 ----------AnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdP  152 (249)
T KOG0178|consen   83 ----------ANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDP  152 (249)
T ss_pred             ----------HHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCC
Confidence                      4445555555667777889999999999999999999999999999999999999999988899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++..|++.++|.++..++.+|...|+++ .++++||+++|++.|
T Consensus       153 SGny~gWka~ciG~N~~Aa~s~Lkqdykdd-~~~~~eA~~laikvL  197 (249)
T KOG0178|consen  153 SGNYGGWKATCIGANSGAAQSMLKQDYKDD-ENDLEEAKALAIKVL  197 (249)
T ss_pred             CCCccccceeeeccchHHHHHHHHhhhccc-cccHHHHHHHHHHHH
Confidence            999999999999999999999999999982 356999999999864

>KOG0863|consensus

Probab=100.00  E-value=3.8e-45  Score=298.41  Aligned_cols=193  Identities=30%  Similarity=0.540  Sum_probs=175.4

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      ++.||.+.|+|||+|||+|||||++|||+|+ ++||+|+++++||++.||..+.|.+.  ++|||+||+|+|+++||+++
T Consensus         3 rnqyd~d~t~wsPqGrl~QvEya~EavkqGs-atVGLks~thaVLvAl~r~~seLss~--QkKi~~iD~h~g~siAGLt~   79 (264)
T KOG0863|consen    3 RNQYDNDVTTWSPQGRLHQVEYAMEAVKQGS-ATVGLKSRTHAVLVALKRAQSELSSH--QKKIFKIDDHIGISIAGLTA   79 (264)
T ss_pred             cccccCceeEECCcceehHHHHHHHHHhccc-ceEeecccceEEEeeeccchhHHHHh--hheeEecccccceEEeccCc
Confidence            6899999999999999999999999999997 89999999999999999999888765  58999999999999999999


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.|++++|.                                                                     
T Consensus        80 Darvl~~Ylr~---------------------------------------------------------------------   90 (264)
T KOG0863|consen   80 DARVLSRYLRQ---------------------------------------------------------------------   90 (264)
T ss_pred             chHHHHHHHHH---------------------------------------------------------------------
Confidence            99988777643                                                                     


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                          |+..+++.+++++++..++..|.+-.|..|++.+.|||||.++++|+|+ .||+||.++|
T Consensus        91 --------------------ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe-~G~hl~e~~P  149 (264)
T KOG0863|consen   91 --------------------ECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDE-SGPHLYEFCP  149 (264)
T ss_pred             --------------------HHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecC-CCceeEEEcC
Confidence                                3333444566788899999988888899999999999999999999997 7999999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|.+.++++.+||+.|+.+.++||++..+..+++.||+|..++.||
T Consensus       150 sg~v~e~~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Al  195 (264)
T KOG0863|consen  150 SGNVFECKGMSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMAL  195 (264)
T ss_pred             CccEEEEeeeecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999888999999999998875

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=5.4e-44  Score=304.65  Aligned_cols=191  Identities=37%  Similarity=0.735  Sum_probs=183.8

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccH
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS  176 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~  176 (291)
                      .||.++++|+|+||++|+|||.+++.+|+ +++|++++++||+++|++.+++++..++.+||++|+++++++++|+.+|+
T Consensus         1 ~y~~~~~~fsp~G~l~Q~eya~~av~~G~-t~igik~~dgvvla~d~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   79 (211)
T cd03756           1 GYDRAITVFSPDGRLYQVEYAREAVKRGT-TALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGAATSGLVADA   79 (211)
T ss_pred             CCCCCCceECCCCeEhHHHHHHHHHHcCC-CEEEEEECCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEecCHHHH
Confidence            48999999999999999999999999998 99999999999999999998777777788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEE
Q psy8777         177 RYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVS  256 (291)
Q Consensus       177 ~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a  256 (291)
                      +.+.++++.++..|+++++++++++.+++.|+.++|.|+++++.||++++++|+|||+ .+|+||.+||+|++.++++++
T Consensus        80 ~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~-~~~~ly~vd~~G~~~~~~~~a  158 (211)
T cd03756          80 RVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFETDPSGAYNEYKATA  158 (211)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeC-CCCEEEEECCCCCeeeeEEEE
Confidence            9999999999999999999999999999999999999999888999999999999997 689999999999999999999


Q ss_pred             ecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         257 VGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       257 ~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|+|+.+++++||++|++  +|+++||++++++||
T Consensus       159 ~G~g~~~~~~~Le~~~~~--~m~~~ea~~l~~~~l  191 (211)
T cd03756         159 IGSGRQAVTEFLEKEYKE--DMSLEEAIELALKAL  191 (211)
T ss_pred             ECCCCHHHHHHHHhhccC--CCCHHHHHHHHHHHH
Confidence            999999999999999999  999999999999986

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.

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=1.5e-43  Score=304.65  Aligned_cols=191  Identities=36%  Similarity=0.727  Sum_probs=183.6

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccH
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS  176 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~  176 (291)
                      .||.++++|+|+||++|+|||++++++|+ +++|++++++||+++|++.+++++..++.+||++|+++++++++|..+|+
T Consensus         2 ~~~~~~~~f~p~Grl~Qieya~~av~~G~-tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   80 (224)
T TIGR03633         2 GYDRAITVFSPDGRLYQVEYAREAVKRGT-TAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVADA   80 (224)
T ss_pred             CCCCCCceECCCCeEeHHHHHHHHHHcCC-CEEEEEECCEEEEEEeccCCccccCCCccceEEEECCCEEEEEeecHHhH
Confidence            58999999999999999999999999998 99999999999999999998777766788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEE
Q psy8777         177 RYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVS  256 (291)
Q Consensus       177 ~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a  256 (291)
                      +.+.+.++.++..|++.++++++++.+++.|++++|.|+++.+.||++++++|+|+|+ ++|+||.+||.|++.++++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~-~~~~Ly~~D~~G~~~~~~~~a  159 (224)
T TIGR03633        81 RVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFETDPSGALLEYKATA  159 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeC-CcCEEEEECCCCCeecceEEE
Confidence            9999999999999999999999999999999999999999888999999999999996 789999999999999999999


Q ss_pred             ecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         257 VGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       257 ~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|+|+.+++++||+.|++  +|+++||++++++||
T Consensus       160 ~G~g~~~~~~~L~~~~~~--~~~~eeai~l~~~al  192 (224)
T TIGR03633       160 IGAGRQAVTEFLEKEYRE--DLSLDEAIELALKAL  192 (224)
T ss_pred             ECCCCHHHHHHHHHhccC--CCCHHHHHHHHHHHH
Confidence            999999999999999999  999999999999986

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.

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=2.6e-43  Score=300.80  Aligned_cols=190  Identities=33%  Similarity=0.661  Sum_probs=180.3

Q ss_pred             ccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHH
Q psy8777          98 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR  177 (291)
Q Consensus        98 yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~  177 (291)
                      ||+++++|+|+||++|+|||++++++|+ +++|++++++||+++|++.+.+++..++.+||++|+++++++++|+.+|++
T Consensus         1 ~~~~~~~f~p~G~~~Q~eya~~a~~~G~-t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (213)
T cd03753           1 YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGCAMSGLIADAR   79 (213)
T ss_pred             CCCCCccCCCCCeEhHHHHHHHHHhcCC-CEEEEEeCCEEEEEEecccCCcCcCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            7899999999999999999999999998 999999999999999999987776667789999999999999999999999


Q ss_pred             HHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcC-----cceeeeeeeeEEEEeCCCCcEEEEECCCCceEee
Q psy8777         178 YQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNA-----EMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF  252 (291)
Q Consensus       178 ~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~-----~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~  252 (291)
                      .+.+.++.+++.|++.++++++++.+++.|+.+++.|++..     ..||++++++|+|||+ .||+||.+||+|++.++
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~-~gp~Ly~vd~~G~~~~~  158 (213)
T cd03753          80 TLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDE-NGPQLFHTDPSGTFTRC  158 (213)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcC-CCCEEEEECCCCCeecc
Confidence            99999999999999999999999999999999998887643     3699999999999996 78999999999999999


Q ss_pred             eEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         253 KAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       253 ~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +++++|+++++++++||++|++  +|++|||++++++||
T Consensus       159 ~~~a~G~~~~~~~~~L~~~~~~--~ls~eeai~l~~~~l  195 (213)
T cd03753         159 DAKAIGSGSEGAQSSLQEKYHK--DMTLEEAEKLALSIL  195 (213)
T ss_pred             cEEEECCCcHHHHHHHHhhccC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999  999999999999986

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=2.9e-43  Score=299.79  Aligned_cols=191  Identities=47%  Similarity=0.874  Sum_probs=183.2

Q ss_pred             ccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHH
Q psy8777          98 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR  177 (291)
Q Consensus        98 yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~  177 (291)
                      ||..+++|+|+||++|+||+++++.+|+ +++|++++++|++++|++.+.+++..++.+|||+|+++++++++|..+|++
T Consensus         1 ~~~~~~~f~~~G~~~q~eya~~~~~~G~-tvigi~~~dgVvlaaD~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   79 (209)
T cd01911           1 YDRSITTFSPEGRLFQVEYALEAVKNGS-TAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADAR   79 (209)
T ss_pred             CCCCCccCCCCCEEeHHHHHHHHHHcCC-CEEEEEECCEEEEEEEecCCccccCCcccceEEEecCCeEEEeccCcHhHH
Confidence            7899999999999999999999999998 999999999999999999986666667789999999999999999999999


Q ss_pred             HHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEe
Q psy8777         178 YQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSV  257 (291)
Q Consensus       178 ~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~  257 (291)
                      .+.+.++.++..|+++++++++++.+++++++++|.|+++.+.||++++++|+|||++++|+||.+||.|++.+++++++
T Consensus        80 ~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~a~  159 (209)
T cd01911          80 VLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAI  159 (209)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCCCeeeeeEEEe
Confidence            99999999999999999999999999999999999999988899999999999999766899999999999999999999


Q ss_pred             cCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         258 GVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       258 G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |+|+.+++++||+.|++  +|+++||++++++||
T Consensus       160 G~g~~~~~~~L~~~~~~--~ms~~ea~~l~~~~l  191 (209)
T cd01911         160 GKGSQEAKTFLEKRYKK--DLTLEEAIKLALKAL  191 (209)
T ss_pred             CCCcHHHHHHHHHhccc--CCCHHHHHHHHHHHH
Confidence            99999999999999999  999999999999985

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.

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=3e-35  Score=247.25  Aligned_cols=162  Identities=20%  Similarity=0.309  Sum_probs=152.2

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++|||+++|++.+ +.++.+++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            389999999999999999997 4557777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.+++++|.|++. + ||++++++|+|||++.||+||.+||+|++.+++++|+|+|+.+++++||+.|++  +||.|||+
T Consensus        82 ~~l~~~~~~~~~~-~-rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~ms~eeai  157 (193)
T cd03758          82 NFTRRELAESLRS-R-TPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKP--DMTVEEAL  157 (193)
T ss_pred             HHHHHHHHHHhhc-C-CCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCC--CCCHHHHH
Confidence            9999999887653 3 899999999999976789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       158 ~l~~~a~  164 (193)
T cd03758         158 ELMKKCI  164 (193)
T ss_pred             HHHHHHH
Confidence            9998875

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=8.1e-35  Score=245.57  Aligned_cols=164  Identities=20%  Similarity=0.249  Sum_probs=153.1

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHH-HhHhhhCCCCCHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAA-SFKYKHGYSMPIDQL  203 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~-~~~~~~~~~~s~~~l  203 (291)
                      ++++|++++|+|||++|++.+ +.++.+++.+|||+|+++++++++|..+|++.+.++++.+++ .+.+.++.+++++.+
T Consensus         3 ~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~~l   82 (197)
T cd03760           3 TSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPKEI   82 (197)
T ss_pred             ceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHH
Confidence            389999999999999999998 678877788999999999999999999999999999999986 566788899999999


Q ss_pred             HHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHH
Q psy8777         204 CNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDET  283 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~ea  283 (291)
                      ++.++.++  |+++++.|||+++++|+|||++++|+||.+||+|++.+++++|+|+|+.+++++||+.|++..+||+|||
T Consensus        83 a~~i~~~~--y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea  160 (197)
T cd03760          83 HSYLTRVL--YNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEA  160 (197)
T ss_pred             HHHHHHHH--HHHhhcCCCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHH
Confidence            99999986  8888889999999999999975789999999999999999999999999999999999997668999999


Q ss_pred             HHHHHhhC
Q psy8777         284 IQLAISCL  291 (291)
Q Consensus       284 i~l~~~~l  291 (291)
                      ++++++||
T Consensus       161 ~~l~~~~l  168 (197)
T cd03760         161 RALIEECM  168 (197)
T ss_pred             HHHHHHHH
Confidence            99999985

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.

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=1.1e-34  Score=244.28  Aligned_cols=162  Identities=15%  Similarity=0.275  Sum_probs=150.2

Q ss_pred             CCceeEEEEecccEEEEEeeccCCCcccC-CCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHH
Q psy8777         123 QGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPID  201 (291)
Q Consensus       123 ~g~~~~igi~~~~~vvl~~d~~~~~~l~~-~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~  201 (291)
                      +|+ +++|++++++|||++|++.+.+++. .++.+|||+|++|++++++|..+|++.+.++++.+++.|++.++.+++++
T Consensus         2 ~G~-t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~   80 (195)
T cd03759           2 NGG-AVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPK   80 (195)
T ss_pred             CCc-eEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            355 9999999999999999999877665 44678999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeee-EEEecCCchHHHHHHHHhccCCCCCCH
Q psy8777         202 QLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFK-AVSVGVKTTEANSYLEKKFKKKTNYTG  280 (291)
Q Consensus       202 ~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~~~t~  280 (291)
                      .++++|++++  |+++  .+|++++++|+|||++++|+||.+||+|++..+. ++|+|+|++.++++||+.|++  +||+
T Consensus        81 ~la~~l~~~l--y~~r--~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~--~~s~  154 (195)
T cd03759          81 TFSSLISSLL--YEKR--FGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRP--DMEP  154 (195)
T ss_pred             HHHHHHHHHH--HHhc--CCCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCC--CCCH
Confidence            9999999998  6553  5899999999999976779999999999998887 999999999999999999999  9999


Q ss_pred             HHHHHHHHhhC
Q psy8777         281 DETIQLAISCL  291 (291)
Q Consensus       281 ~eai~l~~~~l  291 (291)
                      +||++++++||
T Consensus       155 ~ea~~l~~~~l  165 (195)
T cd03759         155 DELFETISQAL  165 (195)
T ss_pred             HHHHHHHHHHH
Confidence            99999999985

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.

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=3e-34  Score=240.27  Aligned_cols=159  Identities=19%  Similarity=0.288  Sum_probs=149.8

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|++++|+|||++|++.+. .++.+++.+|||+|+++++++++|+.+|++.+.++++.+++.|++.++++++++.++
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            3789999999999999999985 566667889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.+++++|.++    ..|++++++|+|||+ +||+||++||+|++.+++++++|+|+.+++++||+.|++  +||.|||+
T Consensus        81 ~~ls~~l~~~~----~~~~~v~~li~G~D~-~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~~s~eea~  153 (188)
T cd03761          81 KLLSNMLYQYK----GMGLSMGTMICGWDK-TGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRY--DLSVEEAY  153 (188)
T ss_pred             HHHHHHHHhcC----CCCeEEEEEEEEEeC-CCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCC--CCCHHHHH
Confidence            99999997763    358999999999996 789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++.+||
T Consensus       154 ~l~~~~l  160 (188)
T cd03761         154 DLARRAI  160 (188)
T ss_pred             HHHHHHH
Confidence            9999985

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.

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=1e-33  Score=242.75  Aligned_cols=168  Identities=16%  Similarity=0.206  Sum_probs=152.5

Q ss_pred             hHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHh
Q psy8777         113 QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKY  192 (291)
Q Consensus       113 qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~  192 (291)
                      .-|||++++++|+ +++|+++++||||++|++.       ++.+|||+|++|++++++|+.+|++.++++++.+++.+++
T Consensus        16 ~~EYA~kav~~g~-T~VGIk~kdgVVLaaek~~-------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~   87 (228)
T TIGR03691        16 RAELARKGIARGR-SVVVLTYADGILFVAENPS-------RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMRGY   87 (228)
T ss_pred             HHHHHHHHHHcCC-cEEEEEeCCeEEEEEecCC-------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhh
Confidence            3499999999987 9999999999999999852       3568999999999999999999999999999999999999


Q ss_pred             hhC-CCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeC-CCCcEEEEECCCCceEeee-EEEecCCchHHHHHHH
Q psy8777         193 KHG-YSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDE-NEGPLIYKTDPAGYYCSFK-AVSVGVKTTEANSYLE  269 (291)
Q Consensus       193 ~~~-~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~-~~gp~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~Le  269 (291)
                      .++ .+++++.+++.++...+.++ +++.|||+|+++|+|||+ +.||+||.+||+|++.+++ ++|+|+|++.++++||
T Consensus        88 ~~~~~~~~v~~la~~~tq~~~~~~-~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~Le  166 (228)
T TIGR03691        88 SYDRRDVTGRGLANAYAQTLGTIF-TEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALK  166 (228)
T ss_pred             hcCCCCccHHHHHHHHHhhccccc-ccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChHHHHHHHH
Confidence            998 68999998887777665554 456799999999999985 4689999999999999986 8999999999999999


Q ss_pred             HhccCCCCCCHHHHHHHHHhhC
Q psy8777         270 KKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       270 ~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ++|++  +||+|||++++++||
T Consensus       167 k~y~~--~ms~eeai~la~~aL  186 (228)
T TIGR03691       167 ESYRD--GLSLADALGLAVQAL  186 (228)
T ss_pred             HhcCC--CCCHHHHHHHHHHHH
Confidence            99999  999999999999985

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.

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=1.3e-33  Score=241.83  Aligned_cols=164  Identities=20%  Similarity=0.295  Sum_probs=152.3

Q ss_pred             CceeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHH
Q psy8777         124 GGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQ  202 (291)
Q Consensus       124 g~~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~  202 (291)
                      |+ +++|++++|+||+++|++.+. .++.+++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++.+++++.
T Consensus         2 G~-T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~   80 (219)
T TIGR03690         2 GT-TIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDG   80 (219)
T ss_pred             Cc-EEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            44 899999999999999999984 7777778899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCC-CCcEEEEECCCC-ceEeeeEEEecCCchHHHHHHHHhccCCCCCCH
Q psy8777         203 LCNRIADISQVYTQNAEMRPLGCSMILISYDEN-EGPLIYKTDPAG-YYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTG  280 (291)
Q Consensus       203 l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~-~gp~Ly~~d~~G-~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~  280 (291)
                      +++.|++++|.++ ....||++++++|+|||++ ++|+||.+||+| ++..++++|+|+|+.+++++||++|++  +||.
T Consensus        81 la~~ls~~~~~~~-~~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~--~ms~  157 (219)
T TIGR03690        81 KANRLAAMVRGNL-PAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSP--DLDE  157 (219)
T ss_pred             HHHHHHHHHHhhh-hhccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCC--CcCH
Confidence            9999999998765 3458999999999999964 579999999999 577779999999999999999999999  9999


Q ss_pred             HHHHHHHHhhC
Q psy8777         281 DETIQLAISCL  291 (291)
Q Consensus       281 ~eai~l~~~~l  291 (291)
                      |||++++++||
T Consensus       158 eeai~l~~~al  168 (219)
T TIGR03690       158 DDALRVAVEAL  168 (219)
T ss_pred             HHHHHHHHHHH
Confidence            99999999985

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.

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=2.7e-33  Score=240.38  Aligned_cols=163  Identities=12%  Similarity=0.162  Sum_probs=148.2

Q ss_pred             eeEEEEecccEEEEEeeccCCCcccCCCCcceEEEec----CcEEEEeecccccHHHHHHHHHHHHHHhHhhhCC-CCCH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLT----PTVGCVMTGMQADSRYQVQRARYEAASFKYKHGY-SMPI  200 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~----~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~-~~s~  200 (291)
                      |.++|+++++||||++|++.+.+++..++.+|||+|+    +|++++.+|..+|++.++++++.+++.|++.+++ ++++
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            3679999999999999999987777656789999998    8999999999999999999999999999999999 8999


Q ss_pred             HHHHHHHHHHH-HHhhhcCc-----ceeeeeeeeEEEEeCCCCcEEEEECCCCceEee----eEEEecCCchHHHHHHHH
Q psy8777         201 DQLCNRIADIS-QVYTQNAE-----MRPLGCSMILISYDENEGPLIYKTDPAGYYCSF----KAVSVGVKTTEANSYLEK  270 (291)
Q Consensus       201 ~~l~~~l~~~~-~~~~~~~~-----~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~----~~~a~G~gs~~~~~~Le~  270 (291)
                      +.+++.++.++ +.+++..+     .||++++++|+|||++.||+||.+||+|++.++    +++|+|. +.+++++||+
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            99999999985 34555553     489999999999996678999999999999999    5689996 7999999999


Q ss_pred             hccCCCCCCHHHHHHHHHhhC
Q psy8777         271 KFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       271 ~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++  +||+|||++++++||
T Consensus       160 ~yk~--~ms~eeai~la~~al  178 (236)
T cd03765         160 VITP--DTSLEDAAKCALVSM  178 (236)
T ss_pred             hcCC--CCCHHHHHHHHHHHH
Confidence            9999  999999999999986

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.

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=1.9e-33  Score=239.64  Aligned_cols=165  Identities=22%  Similarity=0.356  Sum_probs=151.3

Q ss_pred             hhcCCceeEEEEecccEEEEEeeccCCCcc-cCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCC
Q psy8777         120 AINQGGVTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSM  198 (291)
Q Consensus       120 ~~~~g~~~~igi~~~~~vvl~~d~~~~~~l-~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~  198 (291)
                      ++++|+ +++|+++++||++++|++.+.++ +..++.+|||+|+++++++++|..+|++.+.+.++.+++.|+++++.++
T Consensus         4 ~~~~G~-Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i   82 (212)
T cd03757           4 YTDNGG-TVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEM   82 (212)
T ss_pred             ccCCCc-cEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCC
Confidence            345566 99999999999999999998655 4456789999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhcc-----
Q psy8777         199 PIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK-----  273 (291)
Q Consensus       199 s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~-----  273 (291)
                      +++.+++.++.++  |.+  +.+|++++++|+|||++++|+||.+||+|++.+++++|+|+|+.+++++||+.|+     
T Consensus        83 ~~~~la~~ls~~l--y~~--R~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~  158 (212)
T cd03757          83 STEAIAQLLSTIL--YSR--RFFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQN  158 (212)
T ss_pred             CHHHHHHHHHHHH--Hhh--cCCCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccC
Confidence            9999999999998  544  3579999999999997667999999999999999999999999999999999986     


Q ss_pred             ----CCCCCCHHHHHHHHHhhC
Q psy8777         274 ----KKTNYTGDETIQLAISCL  291 (291)
Q Consensus       274 ----~~~~~t~~eai~l~~~~l  291 (291)
                          +  +||+|||++++++||
T Consensus       159 ~~~~~--~ms~eea~~l~~~~l  178 (212)
T cd03757         159 NVERT--PLSLEEAVSLVKDAF  178 (212)
T ss_pred             cCCCC--CCCHHHHHHHHHHHH
Confidence                5  899999999999985

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=3.7e-33  Score=233.33  Aligned_cols=159  Identities=23%  Similarity=0.407  Sum_probs=150.3

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|++++++||+++|++.+ +.++.+++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++.+++++.++
T Consensus         2 ~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   81 (185)
T TIGR03634         2 TTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALA   81 (185)
T ss_pred             CcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            389999999999999999988 6777777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      ++|+++++.+    +.||++++++|+|+|+ +||+||.+||+|++.+++++++|+|+.+++++||+.|++  +||++||+
T Consensus        82 ~~l~~~~~~~----~~rP~~v~~ivaG~d~-~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~~s~~ea~  154 (185)
T TIGR03634        82 TLLSNILNSN----RFFPFIVQLLVGGVDE-EGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYRE--DMSVEEAK  154 (185)
T ss_pred             HHHHHHHHhc----CCCCeEEEEEEEEEeC-CCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCC--CCCHHHHH
Confidence            9999999654    5799999999999997 689999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       155 ~l~~~~l  161 (185)
T TIGR03634       155 KLAVRAI  161 (185)
T ss_pred             HHHHHHH
Confidence            9999986

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.

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=100.00  E-value=1.5e-33  Score=239.62  Aligned_cols=202  Identities=28%  Similarity=0.372  Sum_probs=139.5

Q ss_pred             ccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchh
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR   88 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~   88 (291)
                      ||+++|+|||||||+|||||++|+++|+ |+|||+++||||||+|+|....+..++..+||++|++|++|++||+.+|++
T Consensus         1 ~d~~~~~fsp~Gr~~Qveya~~av~~G~-t~Igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (207)
T cd03755           1 YDRAITVFSPDGHLFQVEYAQEAVRKGT-TAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADAR   79 (207)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecCCCCcccCCCccCcEEEECCCEEEEEecchhhHH
Confidence            8999999999999999999999999996 999999999999999999888888888889999999999999999999999


Q ss_pred             hhhhhhcccccccccccCCCCchhhHHHHHhhh---cCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          89 YQVQRARAGFDRHITIFSPEGRLYQVEYAFKAI---NQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        89 ~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~---~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      .+++++|.+.......+.   +-..++...+.+   .+-.+...+.+|..+.++.+.       ++++.+|.||.+||.|
T Consensus        80 ~l~~~~r~~~~~~~~~~~---~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G-------~D~~~~p~Ly~iD~~G  149 (207)
T cd03755          80 VLINRARLECQSHRLTVE---DPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVG-------FDPDGTPRLYQTDPSG  149 (207)
T ss_pred             HHHHHHHHHHHHHHHHHC---CCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEE-------EeCCCCeEEEEECCCc
Confidence            999998844321111111   111111111111   111112235667776666654       5555689999999999


Q ss_pred             EEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeE
Q psy8777         166 GCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMIL  229 (291)
Q Consensus       166 ~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li  229 (291)
                      .+. ....+.+..+......++.     .+.++|+.+++++.+.+.+....+   ...-.+++.+
T Consensus       150 ~~~~~~~~a~G~gs~~~~~~Le~-----~~~~~ms~eeai~l~~~~l~~~~~---~~~~~~e~~~  206 (207)
T cd03755         150 TYSAWKANAIGRNSKTVREFLEK-----NYKEEMTRDDTIKLAIKALLEVVQ---SGSKNIELAV  206 (207)
T ss_pred             CEEcceEEEECCCCHHHHHHHHh-----hccCCCCHHHHHHHHHHHHHHHhC---CCCCeEEEEE
Confidence            753 2223333444444444443     345589999999966665533322   3444555544

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=1.4e-32  Score=230.39  Aligned_cols=159  Identities=25%  Similarity=0.405  Sum_probs=149.8

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++|||+++|++.+. .++.+++.+||++|+++++++++|+.+|++.+.++++.+++.|++.++++++++.++
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            3789999999999999999984 666677889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.+    +.||++++++|+|+|+ ++|+||.+||+|++.+++++|+|+|+.+++++||+.|++  +|+++||+
T Consensus        81 ~~i~~~~~~~----~~~P~~~~~lvaG~d~-~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~--~~~~~ea~  153 (188)
T cd03764          81 TLLSNILNSS----KYFPYIVQLLIGGVDE-EGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKE--DMTVEEAK  153 (188)
T ss_pred             HHHHHHHHhc----CCCCcEEEEEEEEEeC-CCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCC--CCCHHHHH
Confidence            9999999654    4799999999999997 789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       154 ~l~~~~l  160 (188)
T cd03764         154 KLAIRAI  160 (188)
T ss_pred             HHHHHHH
Confidence            9999885

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.

>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=1.2e-32  Score=230.96  Aligned_cols=167  Identities=32%  Similarity=0.596  Sum_probs=155.6

Q ss_pred             cCCceeEEEEecccEEEEEeeccCC--CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCC
Q psy8777         122 NQGGVTSVAVKGVDTAVVATEKKVP--DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMP  199 (291)
Q Consensus       122 ~~g~~~~igi~~~~~vvl~~d~~~~--~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s  199 (291)
                      .+|+ +++|++++++|++++|++.+  ..++.++..+|||+|+++++++++|..+|.+.+.++++.++..+++.++.+++
T Consensus         2 ~~G~-t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~   80 (190)
T PF00227_consen    2 NNGT-TVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPIS   80 (190)
T ss_dssp             HTSB-EEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTC
T ss_pred             CCCe-EEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCcccc
Confidence            4566 99999999999999999988  34445444699999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEee-eEEEecCCchHHHHHHHHhccCCCCC
Q psy8777         200 IDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF-KAVSVGVKTTEANSYLEKKFKKKTNY  278 (291)
Q Consensus       200 ~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~  278 (291)
                      ++.+++.+++.++.++.+.+.||++++++++|+|++++|+||.+||+|++.++ +++++|+|+.+++++||+.|++  +|
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~--~~  158 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKP--DL  158 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTT--TS
T ss_pred             chhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhccC--CC
Confidence            99999999999999999888999999999999997666999999999999999 6999999999999999999999  99


Q ss_pred             CHHHHHHHHHhhC
Q psy8777         279 TGDETIQLAISCL  291 (291)
Q Consensus       279 t~~eai~l~~~~l  291 (291)
                      |++||++++++||
T Consensus       159 ~~~ea~~~~~~~l  171 (190)
T PF00227_consen  159 SLEEAIELALKAL  171 (190)
T ss_dssp             SHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999985

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 ....

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=2.3e-32  Score=229.03  Aligned_cols=159  Identities=19%  Similarity=0.283  Sum_probs=148.8

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|++++++||+++|++.+. .++.+++.+|||+|+++++++++|..+|++.+.+.++.+++.|++.++++++++.++
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            3789999999999999999985 566667889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++.+++.+     .+|++++++|+|+|+++||+||.+||+|++.+++++++|+|+.+++++||+.|++  +||++||+
T Consensus        81 ~~l~~~~~~~-----~~~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~--~~s~~ea~  153 (188)
T cd03762          81 SLFKNLCYNY-----KEMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKP--GMTLEECI  153 (188)
T ss_pred             HHHHHHHHhc-----cccceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCC--CCCHHHHH
Confidence            9999998554     3789999999999975789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       154 ~l~~~al  160 (188)
T cd03762         154 KFVKNAL  160 (188)
T ss_pred             HHHHHHH
Confidence            9999986

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=2.2e-32  Score=229.29  Aligned_cols=158  Identities=20%  Similarity=0.299  Sum_probs=147.7

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|++++||||+++|++.+. .++..++.+|||+|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            4789999999999999999985 456566789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.+++.++.|     ..|++++++|+|||+ .||+||.+||+|++.+++++++|+++.+++++||++|++  +||++||+
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~ivaG~d~-~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~--~ls~~ea~  152 (189)
T cd03763          81 TMLKQHLFRY-----QGHIGAALVLGGVDY-TGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKP--DMTEEEAK  152 (189)
T ss_pred             HHHHHHHHHc-----CCccceeEEEEeEcC-CCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCC--CCCHHHHH
Confidence            9999998655     249999999999996 689999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       153 ~l~~~~l  159 (189)
T cd03763         153 KLVCEAI  159 (189)
T ss_pred             HHHHHHH
Confidence            9999985

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=8.5e-32  Score=224.35  Aligned_cols=162  Identities=35%  Similarity=0.648  Sum_probs=152.1

Q ss_pred             eeEEEEecccEEEEEeeccCCCcccC-CCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~l~~-~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|++++++|++++|++.+.++.. .++.+|||.|+++++++++|..+|.+.+.+.++.++..|++.++.+++++.++
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            37899999999999999999865544 66789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.++++  .||++++++++|+|++++|+||.+||+|++.+++++++|+|+.+++++||+.|++  +||.+||+
T Consensus        81 ~~l~~~~~~~~~~--~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~--~~s~~ea~  156 (182)
T cd01906          81 KLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKP--DMTLEEAI  156 (182)
T ss_pred             HHHHHHHHHhCCC--ccChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccC--CCCHHHHH
Confidence            9999999888664  7999999999999975789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       157 ~l~~~~l  163 (182)
T cd01906         157 ELALKAL  163 (182)
T ss_pred             HHHHHHH
Confidence            9999985

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

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=5e-32  Score=234.95  Aligned_cols=163  Identities=20%  Similarity=0.311  Sum_probs=149.4

Q ss_pred             hcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCC
Q psy8777         121 INQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMP  199 (291)
Q Consensus       121 ~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s  199 (291)
                      +.+|+ +++|++++|+|||++|++.+ +.++.+++.+|||+|+++++++++|+.+|++.+.++++.+++.|++.++++|+
T Consensus        36 ~~~G~-T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~is  114 (247)
T PTZ00488         36 FAHGT-TTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELIS  114 (247)
T ss_pred             cCCCc-eEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCC
Confidence            34566 99999999999999999988 57777778899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCC
Q psy8777         200 IDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYT  279 (291)
Q Consensus       200 ~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t  279 (291)
                      ++.+++.|+.+++.+    +..|+.++++|+|||+ .||+||.+||+|++.+++++++|+|+.+++++||+.|++  +||
T Consensus       115 v~~la~~ls~~l~~~----R~~~~~v~~iiaG~D~-~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~--dms  187 (247)
T PTZ00488        115 VAAASKILANIVWNY----KGMGLSMGTMICGWDK-KGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKW--DLN  187 (247)
T ss_pred             HHHHHHHHHHHHHhc----CCCCeeEEEEEEEEeC-CCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcC--CCC
Confidence            999999999998544    2235566689999996 689999999999999999999999999999999999999  999


Q ss_pred             HHHHHHHHHhhC
Q psy8777         280 GDETIQLAISCL  291 (291)
Q Consensus       280 ~~eai~l~~~~l  291 (291)
                      .|||++++++||
T Consensus       188 ~eEai~l~~kal  199 (247)
T PTZ00488        188 DEEAQDLGRRAI  199 (247)
T ss_pred             HHHHHHHHHHHH
Confidence            999999999985

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=2.9e-32  Score=232.38  Aligned_cols=206  Identities=26%  Similarity=0.413  Sum_probs=141.9

Q ss_pred             CccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccch
Q psy8777           8 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS   87 (291)
Q Consensus         8 ~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~   87 (291)
                      +||+++|+|||||||+|+|||+||+++|+ |+|||+++||||||+|+|.++++..+++.+||++|++|+++++||+.+|+
T Consensus         1 ~y~~~~~~fsp~G~l~Q~eya~~av~~G~-t~igik~~dgvvla~d~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   79 (211)
T cd03756           1 GYDRAITVFSPDGRLYQVEYAREAVKRGT-TALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGAATSGLVADA   79 (211)
T ss_pred             CCCCCCceECCCCeEhHHHHHHHHHHcCC-CEEEEEECCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEecCHHHH
Confidence            59999999999999999999999999996 99999999999999999998888877788999999999999999999999


Q ss_pred             hhhhhhhcccccccccccCCCCchhhHHHHHhhhc---CCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCc
Q psy8777          88 RYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAIN---QGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPT  164 (291)
Q Consensus        88 ~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~---~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~  164 (291)
                      +.+++.++.+.......+.   +...++.....+.   +..+...+.+|....++.+.       ++ +.+|+||.+||.
T Consensus        80 ~~l~~~l~~~~~~~~~~~~---~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G-------~D-~~~~~ly~vd~~  148 (211)
T cd03756          80 RVLIDRARVEAQIHRLTYG---EPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAG-------VD-DGGPRLFETDPS  148 (211)
T ss_pred             HHHHHHHHHHHHHHHHHHC---CCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEE-------Ee-CCCCEEEEECCC
Confidence            9999988843221111111   1111111111111   11112235677776666654       44 357999999999


Q ss_pred             EEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         165 VGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       165 ~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      |.+. ....+.+......+..++.     .+.++|+.+++.+.+.+.+.....+ ...+-.+++.++.
T Consensus       149 G~~~~~~~~a~G~g~~~~~~~Le~-----~~~~~m~~~ea~~l~~~~l~~~~~~-~~~~~~~~v~ii~  210 (211)
T cd03756         149 GAYNEYKATAIGSGRQAVTEFLEK-----EYKEDMSLEEAIELALKALYAALEE-NETPENVEIAYVT  210 (211)
T ss_pred             CCeeeeEEEEECCCCHHHHHHHHh-----hccCCCCHHHHHHHHHHHHHHHhcc-cCCCCcEEEEEEe
Confidence            9752 2222222443333344443     3445899999999777766555443 2355566666553

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.

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=8.9e-32  Score=225.71  Aligned_cols=160  Identities=20%  Similarity=0.357  Sum_probs=149.3

Q ss_pred             eeEEEEecccEEEEEeeccCCCcccC-CCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~l~~-~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++||||++|++.+.++.. .++.+|||+|+++++++++|..+|++.+.++++.++..|++.++++++++.++
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            37899999999999999999866554 67789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.+++    +|++++++|+|+|++++|+||.+||+|++.+++++++|+++.+++++||+.|++  +||++||+
T Consensus        81 ~~l~~~~~~~~~----~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~--~~s~~ea~  154 (189)
T cd01912          81 NLLSNILYSYRG----FPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKP--DMTLEEAV  154 (189)
T ss_pred             HHHHHHHHhcCC----CCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCC--CCCHHHHH
Confidence            999999855432    899999999999976789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       155 ~~~~~~l  161 (189)
T cd01912         155 ELVKKAI  161 (189)
T ss_pred             HHHHHHH
Confidence            9999885

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.

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=6.1e-32  Score=232.48  Aligned_cols=207  Identities=26%  Similarity=0.416  Sum_probs=141.2

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      .+||+++|+|||||||+|||||++|+++|+ |+|||+++||||||+|+|.++++..+++.+||+.|++|++|++||+.+|
T Consensus         1 ~~~~~~~~~f~p~Grl~Qieya~~av~~G~-tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   79 (224)
T TIGR03633         1 MGYDRAITVFSPDGRLYQVEYAREAVKRGT-TAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVAD   79 (224)
T ss_pred             CCCCCCCceECCCCeEeHHHHHHHHHHcCC-CEEEEEECCEEEEEEeccCCccccCCCccceEEEECCCEEEEEeecHHh
Confidence            369999999999999999999999999996 9999999999999999999888887788899999999999999999999


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhc---CCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAIN---QGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~---~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      ++.+++.++.+.......+   |+...+....+.+.   +..+...+.+|..+.++.+.       ++ +.+|+||.+||
T Consensus        80 ~~~l~~~~~~~~~~~~~~~---~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G-------~d-~~~~~Ly~~D~  148 (224)
T TIGR03633        80 ARVLIDRARIEAQINRLTY---GEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAG-------VD-DGGPRLFETDP  148 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHH---CCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEE-------Ee-CCcCEEEEECC
Confidence            9999998874322111111   11111111111111   11112224556666666554       44 45799999999


Q ss_pred             cEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         164 TVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       164 ~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      .|.+. ....+.+..+......++.     .++++++.+++++.+.+.+..... ....+-++++.++.
T Consensus       149 ~G~~~~~~~~a~G~g~~~~~~~L~~-----~~~~~~~~eeai~l~~~al~~~~~-d~~~~~~i~i~ii~  211 (224)
T TIGR03633       149 SGALLEYKATAIGAGRQAVTEFLEK-----EYREDLSLDEAIELALKALYSAVE-DKLTPENVEVAYIT  211 (224)
T ss_pred             CCCeecceEEEECCCCHHHHHHHHH-----hccCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEEEEEEE
Confidence            99752 1122222333333333332     345689999999977666644433 34556667776664

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.

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=99.98  E-value=1.3e-31  Score=228.75  Aligned_cols=204  Identities=23%  Similarity=0.381  Sum_probs=139.5

Q ss_pred             ccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchh
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR   88 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~   88 (291)
                      ||+++|+|||||||+|||||++|+++|+ |+|||+++||||||+|+|.++++..+++.+||++|++|++|+++|+.+|+|
T Consensus         1 ~~~~~~~f~p~G~~~Q~eya~~a~~~G~-t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (213)
T cd03753           1 YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGCAMSGLIADAR   79 (213)
T ss_pred             CCCCCccCCCCCeEhHHHHHHHHHhcCC-CEEEEEeCCEEEEEEecccCCcCcCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            8999999999999999999999999995 999999999999999999988888777789999999999999999999999


Q ss_pred             hhhhhhcccc-------cccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEe
Q psy8777          89 YQVQRARAGF-------DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSL  161 (291)
Q Consensus        89 ~~~~~~~~~y-------d~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i  161 (291)
                      .+++.+|.+.       ++.+++-.....+..+-+.  ............+|..+.++.+.       ++ +.+|+||.+
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~--~~~~~~~~~~~~rP~~v~~ii~G-------~D-~~gp~Ly~v  149 (213)
T cd03753          80 TLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQ--FGEGDDGKKAMSRPFGVALLIAG-------VD-ENGPQLFHT  149 (213)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH--HhCcccccccccccceEEEEEEE-------Ec-CCCCEEEEE
Confidence            9999887442       2222221111111111111  11111101234567776666654       44 467999999


Q ss_pred             cCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeE
Q psy8777         162 TPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMIL  229 (291)
Q Consensus       162 ~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li  229 (291)
                      ||.|.+. ....+.+......+..++.     .++++|+.+++++.+.+.+..... ....+-.+++.+
T Consensus       150 d~~G~~~~~~~~a~G~~~~~~~~~L~~-----~~~~~ls~eeai~l~~~~l~~~~~-~~~~~~~~ei~~  212 (213)
T cd03753         150 DPSGTFTRCDAKAIGSGSEGAQSSLQE-----KYHKDMTLEEAEKLALSILKQVME-EKLNSTNVELAT  212 (213)
T ss_pred             CCCCCeecccEEEECCCcHHHHHHHHh-----hccCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEEEEE
Confidence            9999753 2222222444333333333     345589999999976666644422 234555555543

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=99.97  E-value=3.9e-31  Score=225.17  Aligned_cols=203  Identities=28%  Similarity=0.433  Sum_probs=136.8

Q ss_pred             ccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchh
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR   88 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~   88 (291)
                      ||+++|+|||||||+|||||+||+++|+ |+||++++||||||+|+|.+.++...++.+|||+|+++++++++|+.+|++
T Consensus         1 ~~~~~~~f~~~G~~~q~eya~~~~~~G~-tvigi~~~dgVvlaaD~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   79 (209)
T cd01911           1 YDRSITTFSPEGRLFQVEYALEAVKNGS-TAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADAR   79 (209)
T ss_pred             CCCCCccCCCCCEEeHHHHHHHHHHcCC-CEEEEEECCEEEEEEEecCCccccCCcccceEEEecCCeEEEeccCcHhHH
Confidence            8999999999999999999999999995 999999999999999999988877667789999999999999999999999


Q ss_pred             hhhhhhcccccccccccCCCCchhhHHHHHhhhc---CCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          89 YQVQRARAGFDRHITIFSPEGRLYQVEYAFKAIN---QGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        89 ~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~---~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      .+.+.++.+.......+   |+-..++...+.+.   +..+...+.+|....++.+.       ++++.+|+||.+||.|
T Consensus        80 ~l~~~l~~~~~~~~~~~---g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G-------~d~~~~~~Ly~iD~~G  149 (209)
T cd01911          80 VLVNRARVEAQNYRYTY---GEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAG-------YDEEGGPQLYQTDPSG  149 (209)
T ss_pred             HHHHHHHHHHHHHHHHh---CCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEE-------EcCCCCcEEEEECCCC
Confidence            99998873321111011   11111111111111   11112234566665555554       4545589999999999


Q ss_pred             EEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeee
Q psy8777         166 GCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMI  228 (291)
Q Consensus       166 ~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~l  228 (291)
                      .+. ....+.+..+......++.     .++++|+.+++.+.+.+.+.....+.- .+..+++.
T Consensus       150 ~~~~~~~~a~G~g~~~~~~~L~~-----~~~~~ms~~ea~~l~~~~l~~~~~~d~-~~~~~~i~  207 (209)
T cd01911         150 TYFGYKATAIGKGSQEAKTFLEK-----RYKKDLTLEEAIKLALKALKEVLEEDK-KAKNIEIA  207 (209)
T ss_pred             CeeeeeEEEeCCCcHHHHHHHHH-----hcccCCCHHHHHHHHHHHHHHHHhccC-CCCcEEEE
Confidence            753 1112222333333333333     244589999999977776654444433 44454443

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.

>KOG0177|consensus

Probab=99.96  E-value=3e-29  Score=199.78  Aligned_cols=161  Identities=19%  Similarity=0.275  Sum_probs=152.2

Q ss_pred             eEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHH
Q psy8777         127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCN  205 (291)
Q Consensus       127 ~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~  205 (291)
                      +.+|+++.|.|++|+|+... +.++..++..|++.++++..+.++|..+|.-.+.+++....+.|+++++.++|++.+++
T Consensus         3 ~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aah   82 (200)
T KOG0177|consen    3 TLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAH   82 (200)
T ss_pred             eEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHH
Confidence            68999999999999999876 55666778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHH
Q psy8777         206 RIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQ  285 (291)
Q Consensus       206 ~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~  285 (291)
                      ++++-++.+.+  ..+||.|+++++|+|++.||.||++|..|+..+.++++.|.++.++.++|+++|+|  +||.|||++
T Consensus        83 FtR~~La~~LR--sr~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~p--dmt~eea~~  158 (200)
T KOG0177|consen   83 FTRRELAESLR--SRTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKP--DMTIEEALD  158 (200)
T ss_pred             HHHHHHHHHHh--cCCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCC--CCCHHHHHH
Confidence            99999988854  35899999999999998899999999999999999999999999999999999999  999999999


Q ss_pred             HHHhhC
Q psy8777         286 LAISCL  291 (291)
Q Consensus       286 l~~~~l  291 (291)
                      +..+|+
T Consensus       159 lmkKCv  164 (200)
T KOG0177|consen  159 LMKKCV  164 (200)
T ss_pred             HHHHHH
Confidence            999995

>KOG0179|consensus

Probab=99.93  E-value=5.3e-25  Score=178.04  Aligned_cols=167  Identities=22%  Similarity=0.352  Sum_probs=151.8

Q ss_pred             hhcCCceeEEEEecccEEEEEeeccCCCc-ccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCC
Q psy8777         120 AINQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSM  198 (291)
Q Consensus       120 ~~~~g~~~~igi~~~~~vvl~~d~~~~~~-l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~  198 (291)
                      +..+|+ +++||.+.|..|+|+|+|.+.+ .+..++.+|||++.++..+..+|+.+|...+...++.+.+.|++.++..|
T Consensus        25 Y~~NGG-T~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~m  103 (235)
T KOG0179|consen   25 YEDNGG-TTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKM  103 (235)
T ss_pred             cccCCc-eEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccc
Confidence            456788 8899999999999999999854 35567889999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccC----
Q psy8777         199 PIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK----  274 (291)
Q Consensus       199 s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~----  274 (291)
                      +++.+++.|+.++  |.  .++.||.+..+++|+|+++++.+|+.||.|++.+..+.|.|+++..++|+|+.....    
T Consensus       104 s~~s~A~lls~~L--Y~--kRFFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~  179 (235)
T KOG0179|consen  104 SIHSAAQLLSTIL--YS--KRFFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQN  179 (235)
T ss_pred             cHHHHHHHHHHHH--hh--cccccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCcCcc
Confidence            9999999999999  74  468999999999999998889999999999999999999999999999999976542    


Q ss_pred             -----CCCCCHHHHHHHHHhhC
Q psy8777         275 -----KTNYTGDETIQLAISCL  291 (291)
Q Consensus       275 -----~~~~t~~eai~l~~~~l  291 (291)
                           ...+|+|||+.|+.+++
T Consensus       180 ~e~~~~~~Ls~e~ai~lv~d~F  201 (235)
T KOG0179|consen  180 LENAERTPLSLERAIRLVKDAF  201 (235)
T ss_pred             cccCcccccCHHHHHHHHHHHh
Confidence                 25689999999998864

>KOG0174|consensus

Probab=99.93  E-value=1.7e-25  Score=178.83  Aligned_cols=160  Identities=18%  Similarity=0.298  Sum_probs=147.2

Q ss_pred             ceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHH
Q psy8777         125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQL  203 (291)
Q Consensus       125 ~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l  203 (291)
                      +|+++|+.+++|||+++|.|.+ +..+.++-.+||-+|.+++.|+-+|.++|.|.+.+.++..+..|..+++.++++..+
T Consensus        19 GTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v~~a   98 (224)
T KOG0174|consen   19 GTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPLVHTA   98 (224)
T ss_pred             CceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCchHHHH
Confidence            4599999999999999999998 455666778999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHH
Q psy8777         204 CNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDET  283 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~ea  283 (291)
                      ++..+++.  |..   ...+...++|+|||+..|.++|.+...|+..+.+++.-|+||.+++++++..||+  +||+||+
T Consensus        99 A~l~r~~~--Y~~---re~L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~--nMt~EE~  171 (224)
T KOG0174|consen   99 ASLFREIC--YNY---REMLSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRP--NMTLEEC  171 (224)
T ss_pred             HHHHHHHH--HhC---HHhhhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCC--CCCHHHH
Confidence            99999998  422   2347788999999998899999999999999999999999999999999999999  9999999


Q ss_pred             HHHHHhhC
Q psy8777         284 IQLAISCL  291 (291)
Q Consensus       284 i~l~~~~l  291 (291)
                      +.+..+|+
T Consensus       172 ~~fvk~Av  179 (224)
T KOG0174|consen  172 VRFVKNAV  179 (224)
T ss_pred             HHHHHHHH
Confidence            99998874

>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=99.93  E-value=7.3e-24  Score=172.23  Aligned_cols=159  Identities=31%  Similarity=0.475  Sum_probs=149.3

Q ss_pred             eEEEEecccEEEEEeeccCCCcccC-CCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHH
Q psy8777         127 TSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCN  205 (291)
Q Consensus       127 ~~igi~~~~~vvl~~d~~~~~~l~~-~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~  205 (291)
                      +++|+++++++++++|++.+.++.. .....|++.++++..++++|..+|.+.+..+++.++..+++.++.++++..+++
T Consensus         2 t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (164)
T cd01901           2 TSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAK   81 (164)
T ss_pred             cEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence            7899999999999999999855543 567899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEee-eEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         206 RIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF-KAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       206 ~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      .+++.++.+++   .+|++++++++|+|+ ++|+||.+||.|.+.++ +++++|.++..+.++|++.|++  +|+.+|++
T Consensus        82 ~~~~~~~~~~~---~~p~~~~~iiag~~~-~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~--~~~~~~~~  155 (164)
T cd01901          82 ELAKLLQVYTQ---GRPFGVNLIVAGVDE-GGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKP--DMTLEEAV  155 (164)
T ss_pred             HHHHHHHHhcC---CCCcceEEEEEEEcC-CCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcC--CCCHHHHH
Confidence            99999987755   699999999999997 78999999999999999 9999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++.+||
T Consensus       156 ~~~~~~l  162 (164)
T cd01901         156 ELALKAL  162 (164)
T ss_pred             HHHHHHH
Confidence            9999886

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

>KOG0185|consensus

Probab=99.92  E-value=2.3e-25  Score=183.11  Aligned_cols=169  Identities=19%  Similarity=0.250  Sum_probs=151.8

Q ss_pred             hhcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhH-hhhCCC
Q psy8777         120 AINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFK-YKHGYS  197 (291)
Q Consensus       120 ~~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~-~~~~~~  197 (291)
                      ....|+ +++|+++++|||+++|+..+ +++...++.+|||+++++..++++|..+|.+.+.+.+.....+.+ +..+..
T Consensus        37 p~vTGT-SVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~~  115 (256)
T KOG0185|consen   37 PIVTGT-SVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQS  115 (256)
T ss_pred             ceeccc-eEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHHHHHHHHHHHHHHhcccccccccc
Confidence            334455 99999999999999999998 777777889999999999999999999999999887765555443 455589


Q ss_pred             CCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccC-CC
Q psy8777         198 MPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK-KT  276 (291)
Q Consensus       198 ~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~-~~  276 (291)
                      +.|+.++++|.+++  |.+++++.|+|.+++|+|+|+++.|+|-.+|..|..++.+..|+|.|..++.++|++.|++ ..
T Consensus       116 l~Pk~ih~yltrvl--Y~rRsKmnPlwntlvVgGv~~~g~~~lg~V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~  193 (256)
T KOG0185|consen  116 LGPKAIHSYLTRVL--YARRSKMNPLWNTLVVGGVDNTGEPFLGYVDLLGVAYESPVVATGFGAHLALPLLRDEWEKKGE  193 (256)
T ss_pred             cChHHHHHHHHHHH--HHhhhccCchhhheeEeeecCCCCeeEEEEeeccccccCchhhhhhHHHhhhHHHHHhhhccch
Confidence            99999999999999  9999999999999999999987779999999999999999999999999999999999993 46


Q ss_pred             CCCHHHHHHHHHhhC
Q psy8777         277 NYTGDETIQLAISCL  291 (291)
Q Consensus       277 ~~t~~eai~l~~~~l  291 (291)
                      +++.+||.+++.+||
T Consensus       194 ~~s~eeA~~li~~cM  208 (256)
T KOG0185|consen  194 DLSREEAEALIEKCM  208 (256)
T ss_pred             hhHHHHHHHHHHHHH
Confidence            899999999999996

>KOG0173|consensus

Probab=99.92  E-value=6e-25  Score=182.43  Aligned_cols=161  Identities=20%  Similarity=0.320  Sum_probs=146.6

Q ss_pred             CCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHH
Q psy8777         123 QGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPID  201 (291)
Q Consensus       123 ~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~  201 (291)
                      +.+|+++|+..+++||+++|+|.+ +..+.+++..||+.+.|+++|+.+|.++|...+...+-.+...+++..++.+.+-
T Consensus        35 kTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R~~rVv  114 (271)
T KOG0173|consen   35 KTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGRKPRVV  114 (271)
T ss_pred             ccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCCCCcee
Confidence            356699999999999999999998 4556677889999999999999999999999988888888899999999999988


Q ss_pred             HHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHH
Q psy8777         202 QLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGD  281 (291)
Q Consensus       202 ~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~  281 (291)
                      .+.+.|++.+..|+     .-.+..++|+|+|. .|||||.+.|.|+....+|.++|+|+..++++||.+|++  ||++|
T Consensus       115 ~A~~mlkQ~LFrYq-----G~IgA~LiiGGvD~-TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k~--dlt~e  186 (271)
T KOG0173|consen  115 TALRMLKQHLFRYQ-----GHIGAALILGGVDP-TGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWKP--DLTKE  186 (271)
T ss_pred             eHHHHHHHHHHHhc-----CcccceeEEccccC-CCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcCc--ccCHH
Confidence            88889998886662     34789999999998 799999999999999999999999999999999999999  99999


Q ss_pred             HHHHHHHhhC
Q psy8777         282 ETIQLAISCL  291 (291)
Q Consensus       282 eai~l~~~~l  291 (291)
                      ||++|+.+|+
T Consensus       187 ea~~Lv~eAi  196 (271)
T KOG0173|consen  187 EAIKLVCEAI  196 (271)
T ss_pred             HHHHHHHHHH
Confidence            9999999874

>KOG0180|consensus

Probab=99.91  E-value=8e-24  Score=166.20  Aligned_cols=162  Identities=16%  Similarity=0.300  Sum_probs=149.2

Q ss_pred             CCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHH
Q psy8777         123 QGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPID  201 (291)
Q Consensus       123 ~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~  201 (291)
                      +|+ +++|+++++||.+++|+|.. .......+.+|||++.|+.+++.+|++.|.+.+.++++...+.|+++.+++|.|+
T Consensus         7 nGg-~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~   85 (204)
T KOG0180|consen    7 NGG-SVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPE   85 (204)
T ss_pred             cCc-eEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcH
Confidence            577 99999999999999999997 3444456789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEee-eEEEecCCchHHHHHHHHhccCCCCCCH
Q psy8777         202 QLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF-KAVSVGVKTTEANSYLEKKFKKKTNYTG  280 (291)
Q Consensus       202 ~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~t~  280 (291)
                      .+...++.++  |.  .++.||-++.+|+|+|++++|++..+|..|+...- +|.+.|.++...++.+|..|+|  ||..
T Consensus        86 ~~s~mvS~~l--Ye--kRfgpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~p--nmep  159 (204)
T KOG0180|consen   86 TFSSMVSSLL--YE--KRFGPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEP--NMEP  159 (204)
T ss_pred             HHHHHHHHHH--HH--hhcCCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCC--CCCH
Confidence            9999999998  64  36889999999999999888999999999998775 6999999999999999999999  9999


Q ss_pred             HHHHHHHHhhC
Q psy8777         281 DETIQLAISCL  291 (291)
Q Consensus       281 ~eai~l~~~~l  291 (291)
                      ||+++.+.+||
T Consensus       160 d~LFetisQa~  170 (204)
T KOG0180|consen  160 DELFETISQAL  170 (204)
T ss_pred             HHHHHHHHHHH
Confidence            99999887764

>KOG0175|consensus

Probab=99.91  E-value=4.3e-24  Score=177.69  Aligned_cols=160  Identities=21%  Similarity=0.320  Sum_probs=146.2

Q ss_pred             ceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHH
Q psy8777         125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQL  203 (291)
Q Consensus       125 ~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l  203 (291)
                      +||.+|+++++|||+++|.|.+ +.++......||.+|+|...-+++|-++|++..-+.+-.|+++|++.+++.++|..+
T Consensus        71 GTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVsaA  150 (285)
T KOG0175|consen   71 GTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVSAA  150 (285)
T ss_pred             CceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehHHH
Confidence            3488999999999999999998 566666778999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHH
Q psy8777         204 CNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDET  283 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~ea  283 (291)
                      .+.|++++.+|   .+ -.+.+...|+|||+ .||.||.+|..|+...-+-+++|+|+.+++++|++.|++  ||+.|||
T Consensus       151 SKllsN~~y~Y---kG-mGLsmGtMi~G~Dk-~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~--dls~eEA  223 (285)
T KOG0175|consen  151 SKLLSNMVYQY---KG-MGLSMGTMIAGWDK-KGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRY--DLSDEEA  223 (285)
T ss_pred             HHHHHHHHhhc---cC-cchhheeeEeeccC-CCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCC--CCCHHHH
Confidence            99999999555   22 34556669999998 799999999999999999999999999999999999999  9999999


Q ss_pred             HHHHHhhC
Q psy8777         284 IQLAISCL  291 (291)
Q Consensus       284 i~l~~~~l  291 (291)
                      .+|+++|+
T Consensus       224 ~~L~rrAI  231 (285)
T KOG0175|consen  224 YDLARRAI  231 (285)
T ss_pred             HHHHHHHH
Confidence            99999985

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.91  E-value=2.9e-23  Score=170.05  Aligned_cols=147  Identities=15%  Similarity=0.131  Sum_probs=124.4

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEe-cCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQL  203 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i-~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l  203 (291)
                      ||++|++++++||+++|++.+ +.++..++.+||++| +++.+++++|..+|.+.+.+.++.+++.|+.    ++ ++.+
T Consensus         2 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~----~~-~~~~   76 (172)
T PRK05456          2 TTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQG----NL-LRAA   76 (172)
T ss_pred             cEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccC----cc-HHHH
Confidence            489999999999999999998 666777788999999 9999999999999999999999999998882    22 4555


Q ss_pred             HHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEee--eEEEecCCchHHHHHHHHhcc-CCCCCCH
Q psy8777         204 CNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF--KAVSVGVKTTEANSYLEKKFK-KKTNYTG  280 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~-~~~~~t~  280 (291)
                      ++.++.++    .....+|+.++++++  |.   |+||.+|+.|++.+.  +++++|+|+.+++++||++|+ +  +|  
T Consensus        77 a~l~~~l~----~~~~~~~l~~~~lv~--d~---~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~--~m--  143 (172)
T PRK05456         77 VELAKDWR----TDRYLRRLEAMLIVA--DK---EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENT--DL--  143 (172)
T ss_pred             HHHHHHHH----hccCCCccEEEEEEE--cC---CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcC--CC--
Confidence            55444432    122246888998884  43   699999999999777  799999999999999999999 9  99  


Q ss_pred             HHHHHHHHhhC
Q psy8777         281 DETIQLAISCL  291 (291)
Q Consensus       281 ~eai~l~~~~l  291 (291)
                       ||++++++|+
T Consensus       144 -eA~~la~kai  153 (172)
T PRK05456        144 -SAEEIAEKAL  153 (172)
T ss_pred             -CHHHHHHHHH
Confidence             9999999885

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=99.89  E-value=2.7e-22  Score=172.18  Aligned_cols=185  Identities=12%  Similarity=0.085  Sum_probs=127.4

Q ss_pred             hhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccc
Q psy8777          25 VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITI  104 (291)
Q Consensus        25 ~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~  104 (291)
                      =|||+|||++| +|+|||+++||||||+||+.       ++.+|||+|+||++|+++|+.+|++.+++.++..+......
T Consensus        17 ~EYA~kav~~g-~T~VGIk~kdgVVLaaek~~-------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~~   88 (228)
T TIGR03691        17 AELARKGIARG-RSVVVLTYADGILFVAENPS-------RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMRGYS   88 (228)
T ss_pred             HHHHHHHHHcC-CcEEEEEeCCeEEEEEecCC-------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhhh
Confidence            48999999998 59999999999999999973       34689999999999999999999999999998655444333


Q ss_pred             cCCCCchhhHHHHHhhhcC-Cc-eeEEEEecccEEEEEeeccCCCcccCC-CCcceEEEecCcEEEE-ee-cccccHHHH
Q psy8777         105 FSPEGRLYQVEYAFKAINQ-GG-VTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCV-MT-GMQADSRYQ  179 (291)
Q Consensus       105 ~sp~grl~qve~~~~~~~~-g~-~~~igi~~~~~vvl~~d~~~~~~l~~~-~~~~kI~~i~~~~~~~-~s-G~~~D~~~~  179 (291)
                      |++. .+. ++.......| .+ ......+|.++.+|.+.       +++ +.+|+||.+||+|.+. .. ..+.+..+.
T Consensus        89 ~~~~-~~~-v~~la~~~tq~~~~~~~~~~RP~gvs~Li~G-------~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~  159 (228)
T TIGR03691        89 YDRR-DVT-GRGLANAYAQTLGTIFTEQQKPYEVEICVAE-------VGETPDQDQLYRITFDGSIVDERGFVVMGGTTE  159 (228)
T ss_pred             cCCC-Ccc-HHHHHHHHHhhcccccccccCcceEEEEEEE-------EcCCCCCCEEEEECCCCCceeccceEEECCChH
Confidence            3311 111 1111111111 11 01123688888888775       544 4679999999999765 23 355556666


Q ss_pred             HHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhh--hcCcceeeeeeeeEEE
Q psy8777         180 VQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT--QNAEMRPLGCSMILIS  231 (291)
Q Consensus       180 ~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~--~~~~~~p~~~~~li~G  231 (291)
                      .....+|.     .+.++|+.+++++.+.+.++.-.  .+....|-++++.++.
T Consensus       160 ~a~~~Lek-----~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~  208 (228)
T TIGR03691       160 PIATALKE-----SYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLD  208 (228)
T ss_pred             HHHHHHHH-----hcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEe
Confidence            55555555     34458999999986555543332  2223678888888875

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.

>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=99.89  E-value=5.2e-22  Score=161.41  Aligned_cols=145  Identities=14%  Similarity=0.069  Sum_probs=117.9

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecC-cEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTP-TVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQL  203 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~-~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l  203 (291)
                      ||++|++++++|||++|++.+ +.++..++..||++|++ ++.++++|..+|.+.+.++++.+++.|+.+.+     +.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~-----~~a   75 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLL-----RAA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHH-----HHH
Confidence            488999999999999999998 56677788899999999 99999999999999999999999999987755     344


Q ss_pred             HHHHHHHHHHhhhcCcceeee-eeeeEEEEeCCCCcEEEEECCCCceEeee--EEEecCCchHHHHHHHHhccCCCC-CC
Q psy8777         204 CNRIADISQVYTQNAEMRPLG-CSMILISYDENEGPLIYKTDPAGYYCSFK--AVSVGVKTTEANSYLEKKFKKKTN-YT  279 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~-~~~li~G~d~~~gp~Ly~~d~~G~~~~~~--~~a~G~gs~~~~~~Le~~~~~~~~-~t  279 (291)
                      ++.++.++ .|    +.+|+. +.++++  |.   ++||.+||.|.+.+.+  +.++|+||.+++++||.+|++  + ||
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----RYLRRLEAMLIVA--DK---EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDH--TDLS  143 (171)
T ss_pred             HHHHHHHH-hc----cCcCceEEEEEEe--CC---CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhcc--CCCC
Confidence            44444432 12    234554 444443  32   4999999999999994  999999999999999999999  7 99


Q ss_pred             HHHHHHHHHhh
Q psy8777         280 GDETIQLAISC  290 (291)
Q Consensus       280 ~~eai~l~~~~  290 (291)
                      .+   +++++|
T Consensus       144 ~~---~la~~A  151 (171)
T cd01913         144 AE---EIARKA  151 (171)
T ss_pred             HH---HHHHHH
Confidence            54   666555

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.

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.88  E-value=1.7e-21  Score=158.39  Aligned_cols=147  Identities=16%  Similarity=0.124  Sum_probs=117.5

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEe-cCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQL  203 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i-~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l  203 (291)
                      ||++|++++|+|||++|++.+ +.++..++.+||++| ++++.++++|..+|.+.+.+.++.+++.|+++.     .+.+
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            488999999999999999998 566777888999999 599999999999999999999999999887632     3555


Q ss_pred             HHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEee--eEEEecCCchHHHHHHHHhcc-CCCCCCH
Q psy8777         204 CNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF--KAVSVGVKTTEANSYLEKKFK-KKTNYTG  280 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~-~~~~~t~  280 (291)
                      ++.++.+. .|   ...+.+.+.++++  |.   ++||.+|+.|.+.+.  +++++|+||.+++++||..|+ +  +|+ 
T Consensus        76 a~l~~~~~-~~---~~~~~l~a~~iv~--~~---~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~--~~s-  143 (171)
T TIGR03692        76 VELAKDWR-TD---RYLRRLEAMLIVA--DK---ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNT--DLS-  143 (171)
T ss_pred             HHHHHHHh-hc---ccccccEEEEEEE--cC---CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcC--CCC-
Confidence            55554431 11   1122334555554  32   499999999999996  599999999999999999995 5  788 


Q ss_pred             HHHHHHHHhhC
Q psy8777         281 DETIQLAISCL  291 (291)
Q Consensus       281 ~eai~l~~~~l  291 (291)
                        |++++++||
T Consensus       144 --a~~la~~Av  152 (171)
T TIGR03692       144 --AEEIAREAL  152 (171)
T ss_pred             --HHHHHHHHH
Confidence              888887764

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

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=99.82  E-value=2.2e-19  Score=151.50  Aligned_cols=174  Identities=13%  Similarity=0.053  Sum_probs=117.2

Q ss_pred             CCceEEEEecCCeEEEEEeccCC-CCccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc--------ccccccc
Q psy8777          35 GGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF--------DRHITIF  105 (291)
Q Consensus        35 g~~t~vgi~~~~~vv~a~~~~~~-~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y--------d~~~~~~  105 (291)
                      | +|+|||+++||||||+|+|.+ +.+..+++.+|||+|++|++|+++|+.+|++.+++.+|.+.        +.++++-
T Consensus         2 G-~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   80 (197)
T cd03760           2 G-TSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPK   80 (197)
T ss_pred             C-ceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            5 499999999999999999988 57888888999999999999999999999999999988431        1122221


Q ss_pred             CCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHH
Q psy8777         106 SPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRAR  184 (291)
Q Consensus       106 sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~  184 (291)
                      .....+.++.|.         ...+++|....+|.+.       ++++.+|+||.+||.|.+. +...+.+..+......
T Consensus        81 ~la~~i~~~~y~---------~~~~~rP~~v~~iiaG-------~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~  144 (197)
T cd03760          81 EIHSYLTRVLYN---------RRSKMNPLWNTLVVGG-------VDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPL  144 (197)
T ss_pred             HHHHHHHHHHHH---------HhhcCCCceEEEEEEE-------EcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHH
Confidence            111122222222         1224567766666654       5545689999999999753 2222233555444444


Q ss_pred             HHHHHhHhhhCC--CCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         185 YEAASFKYKHGY--SMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       185 ~e~~~~~~~~~~--~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ++.     .++.  +|+.+++.+.+.+.+.....+....+-++++.++
T Consensus       145 Le~-----~~~~~~~ms~eea~~l~~~~l~~~~~rd~~~~~~~~i~ii  187 (197)
T cd03760         145 LRE-----AWEKKPDLTEEEARALIEECMKVLYYRDARSINKYQIAVV  187 (197)
T ss_pred             HHh-----hcCCCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEE
Confidence            443     2344  7999999887666665444444455556666655

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=99.81  E-value=7.5e-19  Score=151.09  Aligned_cols=181  Identities=6%  Similarity=0.020  Sum_probs=117.7

Q ss_pred             eEEEEecCCeEEEEEeccCCCCccCCCCcceeEeec----CcEEEEEeccccchhhhhhhhcccccccccccCC-CCchh
Q psy8777          38 TSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLT----PTVGCVMTGMQADSRYQVQRARAGFDRHITIFSP-EGRLY  112 (291)
Q Consensus        38 t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~----~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp-~grl~  112 (291)
                      -+|||+++||||||+|+|.+++++.+++.+|||+|+    +||+|++||+.+|+|.+++.+|.+...+-..+.- .-.+.
T Consensus         2 ~~vGIk~kdGVVLaadkr~~~~l~~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v~   81 (236)
T cd03765           2 YCLGIKLDAGLVFASDSRTNAGVDNISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPTMF   81 (236)
T ss_pred             eEEEEEeCCeEEEEEccCccCCCccccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCHH
Confidence            479999999999999999999988777789999998    9999999999999999999998553332222111 11111


Q ss_pred             hHHHHHhh-hcCCceeEE-----EEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eec----ccccHHHHHH
Q psy8777         113 QVEYAFKA-INQGGVTSV-----AVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTG----MQADSRYQVQ  181 (291)
Q Consensus       113 qve~~~~~-~~~g~~~~i-----gi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG----~~~D~~~~~~  181 (291)
                      ++-..... ..+..+..-     ..++.+..+|.+.       ++++.+|+||.++|+|.+. ...    .+.+. ....
T Consensus        82 ~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG-------~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a  153 (236)
T cd03765          82 DAARYVGETLREVQEQDREALKKAGIDFSASFILGG-------QIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYG  153 (236)
T ss_pred             HHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEe-------EECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhh
Confidence            11111100 011000111     1356666666654       5556789999999999643 211    01122 2333


Q ss_pred             HHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         182 RARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       182 ~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      ...+|.     .|+++|+.+++++.+.+.+.....+....+-.+++.++-
T Consensus       154 ~~~Lek-----~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~  198 (236)
T cd03765         154 KPILDR-----VITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYE  198 (236)
T ss_pred             HHHHHH-----hcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEE
Confidence            344443     345689999999866666655656666677788888873

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.

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=99.81  E-value=4.2e-19  Score=149.48  Aligned_cols=173  Identities=14%  Similarity=0.144  Sum_probs=112.8

Q ss_pred             cCCceEEEEecCCeEEEEEeccCCCCccCCC-CcceeEeecCcEEEEEeccccchhhhhhhhcccc-------ccccccc
Q psy8777          34 QGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIF  105 (291)
Q Consensus        34 ~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~-~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~  105 (291)
                      +|+ |+|||+++||||||+|+|.+++++.+. +.+|||+|++|++|+++|+.+|+|.+++.+|.+.       +.++++-
T Consensus         2 ~G~-t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~   80 (195)
T cd03759           2 NGG-AVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPK   80 (195)
T ss_pred             CCc-eEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            564 999999999999999999999887754 6799999999999999999999999999998442       2223222


Q ss_pred             CCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-ee-cccccHHHHHHHH
Q psy8777         106 SPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MT-GMQADSRYQVQRA  183 (291)
Q Consensus       106 sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~s-G~~~D~~~~~~~~  183 (291)
                      .....+.++-|..+           .+|....++.+.       ++++.+|+||.+||.|.+. .. ..+.+..+.....
T Consensus        81 ~la~~l~~~ly~~r-----------~~P~~v~~ii~G-------~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~  142 (195)
T cd03759          81 TFSSLISSLLYEKR-----------FGPYFVEPVVAG-------LDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYG  142 (195)
T ss_pred             HHHHHHHHHHHHhc-----------CCCceEEEEEEE-------EcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHH
Confidence            21122222222111           124444444443       5545569999999999852 11 1122344444444


Q ss_pred             HHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       184 ~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .++.     .++++|+.+++.+.+.+.+.....+....+-.+++.++
T Consensus       143 ~Le~-----~~~~~~s~~ea~~l~~~~l~~~~~rd~~~~~~~~i~ii  184 (195)
T cd03759         143 MCES-----LWRPDMEPDELFETISQALLSAVDRDALSGWGAVVYII  184 (195)
T ss_pred             HHHh-----ccCCCCCHHHHHHHHHHHHHHHHhhCcccCCceEEEEE
Confidence            4443     24558999999997666665444444444555555555

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=99.80  E-value=5.1e-19  Score=148.69  Aligned_cols=173  Identities=9%  Similarity=0.017  Sum_probs=115.1

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+. .+..+++++|||+|++++++++||+.+|+|.++++++.+       |+.++++-...
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            5899999999999999999976 567888899999999999999999999999999999844       22333222111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      ..+..+-|...       . .. +|....++.+.       ++++.+|+||.+||.|.+. ....+.+..+...+..+|.
T Consensus        82 ~~l~~~~~~~~-------~-~~-rP~~~~~li~G-------~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~  145 (193)
T cd03758          82 NFTRRELAESL-------R-SR-TPYQVNLLLAG-------YDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDR  145 (193)
T ss_pred             HHHHHHHHHHh-------h-cC-CCeEEEEEEEE-------EcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHh
Confidence            11111111110       1 01 45555555544       5545689999999999763 3333334555555555544


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .     ++.+|+.+++++.+...+.....+.....-.+++.++
T Consensus       146 ~-----~~~~ms~eeai~l~~~a~~~~~~rd~~~~~~i~i~ii  183 (193)
T cd03758         146 Y-----YKPDMTVEEALELMKKCIKELKKRFIINLPNFTVKVV  183 (193)
T ss_pred             c-----cCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEE
Confidence            2     3458999999987666655444444445556666665

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.

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=99.80  E-value=1.1e-18  Score=146.08  Aligned_cols=171  Identities=15%  Similarity=0.161  Sum_probs=114.3

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.++ .+..+++.+|||+|++|++|++||+.+|+|.+++++|.+       |++++++-...
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            4899999999999999999988 567777889999999999999999999999999999844       23333332222


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      .++.++-|..+   +.        +....++.+.       ++ +++|+||.+||.|.+. ....+.+......+..+|.
T Consensus        81 ~~ls~~l~~~~---~~--------~~~v~~li~G-------~D-~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~  141 (188)
T cd03761          81 KLLSNMLYQYK---GM--------GLSMGTMICG-------WD-KTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDS  141 (188)
T ss_pred             HHHHHHHHhcC---CC--------CeEEEEEEEE-------Ee-CCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHh
Confidence            22222222221   11        1222222222       34 4689999999999863 2333333555555555554


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                           .++.+|+.+++.+.+.+.+.....+....+.++++.++.
T Consensus       142 -----~~~~~~s~eea~~l~~~~l~~~~~rd~~sg~~~~v~ii~  180 (188)
T cd03761         142 -----GYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVNLYHVR  180 (188)
T ss_pred             -----cCCCCCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEc
Confidence                 345589999999977776655545455566677776663

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.

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=99.80  E-value=1.7e-18  Score=147.68  Aligned_cols=180  Identities=14%  Similarity=0.157  Sum_probs=113.4

Q ss_pred             HhcCCceEEEEecCCeEEEEEeccCCCCccC-CCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------ccccc
Q psy8777          32 INQGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHIT  103 (291)
Q Consensus        32 v~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~-~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~  103 (291)
                      +++| +|+|||+++||||||+|+|.+++++. +++.+|||+|++|++|++||+.+|+|.+++.+|.+.       +.+++
T Consensus         5 ~~~G-~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~   83 (212)
T cd03757           5 TDNG-GTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMS   83 (212)
T ss_pred             cCCC-ccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCC
Confidence            4577 49999999999999999999988754 567899999999999999999999999999998542       22222


Q ss_pred             ccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHH
Q psy8777         104 IFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQR  182 (291)
Q Consensus       104 ~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~  182 (291)
                      .-.....+..+-|..+           .+|..+.++.+.       ++++.+|+||.+||.|.+. ....+.+..+....
T Consensus        84 ~~~la~~ls~~ly~~R-----------~~P~~~~~iiaG-------~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~  145 (212)
T cd03757          84 TEAIAQLLSTILYSRR-----------FFPYYVFNILAG-------IDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQ  145 (212)
T ss_pred             HHHHHHHHHHHHHhhc-----------CCCeEEEEEEEE-------EcCCCCEEEEEEcCccCeeecCEEEEeecHHHHH
Confidence            2211111111112111           124444444443       4544569999999999752 11222224444444


Q ss_pred             HHHHHHHhHh----hhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         183 ARYEAASFKY----KHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       183 ~~~e~~~~~~----~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ..++....+.    .+..+|+.+++.+.+.+.+.....+....+-.+++.++
T Consensus       146 ~~Le~~~~~~~~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~i~ii  197 (212)
T cd03757         146 PLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVII  197 (212)
T ss_pred             HHHHHHHHhhccCcCCCCCCCHHHHHHHHHHHHHHHHHhCcccCCCEEEEEE
Confidence            4444332211    12368999999997766665444444444455555554

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.

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=99.78  E-value=5.7e-18  Score=145.06  Aligned_cols=166  Identities=11%  Similarity=0.098  Sum_probs=107.9

Q ss_pred             cCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchh
Q psy8777          34 QGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLY  112 (291)
Q Consensus        34 ~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~  112 (291)
                      +| +|+|||+++||||||+|+|.++ ++..+++.+|||+|++|++|+++|+.+|++.+++++|.+....-..+.   +..
T Consensus         1 ~G-~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~---~~i   76 (219)
T TIGR03690         1 HG-TTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEG---VPL   76 (219)
T ss_pred             CC-cEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHC---CCC
Confidence            35 5999999999999999999987 788888899999999999999999999999999999844322211111   111


Q ss_pred             hHHHHHhh---hcCCceeEEEEecccEEEEEeeccCCCcccCCC-CcceEEEecCcEE-EEe-ecccccHHHHHHHHHHH
Q psy8777         113 QVEYAFKA---INQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVG-CVM-TGMQADSRYQVQRARYE  186 (291)
Q Consensus       113 qve~~~~~---~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~-~~~kI~~i~~~~~-~~~-sG~~~D~~~~~~~~~~e  186 (291)
                      .++...+.   ..+.. +.-.++|....++.+.       ++.. .+|+||.+||.|. +.. ...+.+..+......++
T Consensus        77 ~~~~la~~ls~~~~~~-~~~~~rp~~v~~iiaG-------~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le  148 (219)
T TIGR03690        77 TLDGKANRLAAMVRGN-LPAAMQGLAVVPLLAG-------YDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALK  148 (219)
T ss_pred             CHHHHHHHHHHHHHhh-hhhccCCceEEEEEEE-------ECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHH
Confidence            11111110   01111 1223566665556554       5543 5689999999994 322 12233355555555555


Q ss_pred             HHHhHhhhCCCCCHHHHHHHHHHHHHHhhh
Q psy8777         187 AASFKYKHGYSMPIDQLCNRIADISQVYTQ  216 (291)
Q Consensus       187 ~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~  216 (291)
                      .     .+.++|+.++++..+.+.+.....
T Consensus       149 ~-----~~~~~ms~eeai~l~~~al~~~~~  173 (219)
T TIGR03690       149 K-----LYSPDLDEDDALRVAVEALYDAAD  173 (219)
T ss_pred             h-----cCCCCcCHHHHHHHHHHHHHHHHh
Confidence            3     334589999999866665544433

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.

>KOG0176|consensus

Probab=99.78  E-value=2.2e-19  Score=144.27  Aligned_cols=87  Identities=41%  Similarity=0.787  Sum_probs=83.0

Q ss_pred             hcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccc
Q psy8777          94 ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQ  173 (291)
Q Consensus        94 ~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~  173 (291)
                      .|++||+-.++|||+|||+|+||+.++++-|+ +.||++.+.+|+|+.+||.++.|+.++...||++||+|++|+++|+.
T Consensus         4 trseydrgVNTfSpEGRlfQVEYaieAikLGs-TaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgca~SGl~   82 (241)
T KOG0176|consen    4 TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGCAMSGLI   82 (241)
T ss_pred             cHHHhcccccccCCCceeeehhhHHHHHhcCC-ceeeeeccceEEEEEeccccCcccCchhhhhheehhhceeeeccccc
Confidence            36789999999999999999999999999999 88999999999999999999999999999999999999999999999


Q ss_pred             ccHHHHHH
Q psy8777         174 ADSRYQVQ  181 (291)
Q Consensus       174 ~D~~~~~~  181 (291)
                      +|++.++.
T Consensus        83 aDarTlve   90 (241)
T KOG0176|consen   83 ADARTLVE   90 (241)
T ss_pred             cchHHHHH
Confidence            99998755

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=99.76  E-value=1.6e-17  Score=139.07  Aligned_cols=170  Identities=12%  Similarity=0.116  Sum_probs=109.7

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------cccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+. .+..+++.+|||+|++|++++++|+.+|+|.+++.++.+.       +..+++....
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            4899999999999999999988 5666777899999999999999999999999999887432       2222222111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccc-cHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA-DSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~-D~~~~~~~~~~e~  187 (291)
                      ..+.++-|.       . +    ++....++.+.       ++++.+|+||.++|.|.+.-.-..+ +.........++.
T Consensus        81 ~~l~~~~~~-------~-~----~~~~~~~ii~G-------~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~  141 (188)
T cd03762          81 SLFKNLCYN-------Y-K----EMLSAGIIVAG-------WDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDA  141 (188)
T ss_pred             HHHHHHHHh-------c-c----ccceeeEEEEE-------EcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHh
Confidence            111111111       1 1    22333333332       4445679999999999653111111 2443333333333


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                           .++++++.+++.+.+.+.+.....+....+-.+++.++
T Consensus       142 -----~~~~~~s~~ea~~l~~~al~~~~~rd~~~~~~~~i~~i  179 (188)
T cd03762         142 -----NYKPGMTLEECIKFVKNALSLAMSRDGSSGGVIRLVII  179 (188)
T ss_pred             -----cCCCCCCHHHHHHHHHHHHHHHHHhccccCCCEEEEEE
Confidence                 34568999999997777765555555455666666666

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.

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=99.76  E-value=1.3e-17  Score=144.84  Aligned_cols=180  Identities=14%  Similarity=0.093  Sum_probs=113.5

Q ss_pred             HHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCC
Q psy8777          31 AINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEG  109 (291)
Q Consensus        31 av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~g  109 (291)
                      -+++|+ |+|||+++||||||+|+|.+. .++.+++.+|||+|++|++++++|+.+|+|.+++++|.+....-..+   |
T Consensus        35 ~~~~G~-T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~---g  110 (247)
T PTZ00488         35 EFAHGT-TTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRN---G  110 (247)
T ss_pred             ccCCCc-eEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHH---C
Confidence            345774 999999999999999999885 78888889999999999999999999999999999984422111111   1


Q ss_pred             chhhHHHHHhhhcCCceeEEEEecccEE--EEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHH
Q psy8777         110 RLYQVEYAFKAINQGGVTSVAVKGVDTA--VVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYE  186 (291)
Q Consensus       110 rl~qve~~~~~~~~g~~~~igi~~~~~v--vl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e  186 (291)
                      +...++...+.+.+.   ....|++...  +|.+.       ++ +++|+||.+||.|.+. ....+.+..+......++
T Consensus       111 ~~isv~~la~~ls~~---l~~~R~~~~~v~~iiaG-------~D-~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le  179 (247)
T PTZ00488        111 ELISVAAASKILANI---VWNYKGMGLSMGTMICG-------WD-KKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLD  179 (247)
T ss_pred             CCCCHHHHHHHHHHH---HHhcCCCCeeEEEEEEE-------Ee-CCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHH
Confidence            111122222222110   0111333322  12222       34 4579999999999763 222223355544444444


Q ss_pred             HHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         187 AASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       187 ~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ..     ++.+|+.+++.+.+.+.+.....+......++++.++
T Consensus       180 ~~-----~k~dms~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI  218 (247)
T PTZ00488        180 AG-----FKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHM  218 (247)
T ss_pred             hc-----CcCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEE
Confidence            42     4558999999997766665554444444555555555

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=99.75  E-value=1.7e-17  Score=138.59  Aligned_cols=170  Identities=17%  Similarity=0.192  Sum_probs=110.8

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+. ++..+++.+|||+|++|++++++|+.+|+|.++++++.+       |+.++++....
T Consensus         2 ~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   81 (185)
T TIGR03634         2 TTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALA   81 (185)
T ss_pred             CcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            5999999999999999999884 677777889999999999999999999999999988743       22222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      ..+.++-|.           ...+|....++.+.       ++ +++|+||.+||.|.+. ....+.+.........++.
T Consensus        82 ~~l~~~~~~-----------~~~rP~~v~~ivaG-------~d-~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~  142 (185)
T TIGR03634        82 TLLSNILNS-----------NRFFPFIVQLLVGG-------VD-EEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLED  142 (185)
T ss_pred             HHHHHHHHh-----------cCCCCeEEEEEEEE-------Ee-CCCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHh
Confidence            111111111           12345554454443       44 3579999999999753 1111122333333333333


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                           .++++|+.+++.+.+.+.+.....+....+-.+++.++
T Consensus       143 -----~~~~~~s~~ea~~l~~~~l~~~~~r~~~~~~~~~v~ii  180 (185)
T TIGR03634       143 -----EYREDMSVEEAKKLAVRAIKSAIERDVASGNGIDVAVI  180 (185)
T ss_pred             -----cCCCCCCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEE
Confidence                 23468999999997777775555544455556666665

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.

>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=99.74  E-value=5.8e-18  Score=141.85  Aligned_cols=178  Identities=17%  Similarity=0.235  Sum_probs=115.6

Q ss_pred             HhcCCceEEEEecCCeEEEEEeccCC--CCccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccc
Q psy8777          32 INQGGVTSVAVKGVDTAVVATEKKVP--DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHI  102 (291)
Q Consensus        32 v~~g~~t~vgi~~~~~vv~a~~~~~~--~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~  102 (291)
                      |++|+ |+|||+++||||||+|+|.+  +.+..+++.+|||+|++|++++++|+.+|++.+++.++.+       |+..+
T Consensus         1 v~~G~-t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~   79 (190)
T PF00227_consen    1 VNNGT-TVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPI   79 (190)
T ss_dssp             HHTSB-EEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGT
T ss_pred             CCCCe-EEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCccc
Confidence            57885 99999999999999999988  5565666579999999999999999999999999988833       22222


Q ss_pred             cccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-e-ecccccHHHHH
Q psy8777         103 TIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-M-TGMQADSRYQV  180 (291)
Q Consensus       103 ~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~-sG~~~D~~~~~  180 (291)
                      +.......+..  +........     +.+|....++.+.       +++..+|+||.+||.|.+. . ...+.+.....
T Consensus        80 ~~~~l~~~~~~--~~~~~~~~~-----~~~p~~~~~li~G-------~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~  145 (190)
T PF00227_consen   80 SPEYLAKAIAS--LIQNYTYRS-----GRRPYGVSLLIAG-------YDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQF  145 (190)
T ss_dssp             CHHHHHHHHHH--HHHHHHHHT-----TTSTTSEEEEEEE-------EETTTEEEEEEEETTSEEEEBSSEEEESTTHHH
T ss_pred             cchhhhhhhHH--HHhhhcccc-----cccCccccceeee-------eccccccceeeeccccccccccccccchhcchh
Confidence            22100001111  111111111     1245555555554       5555669999999999764 3 24445555544


Q ss_pred             HHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeE
Q psy8777         181 QRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMIL  229 (291)
Q Consensus       181 ~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li  229 (291)
                      ....++...     ..+++.+++.+.+...+.....+....+..+++.|
T Consensus       146 ~~~~l~~~~-----~~~~~~~ea~~~~~~~l~~~~~~d~~~~~~~~v~v  189 (190)
T PF00227_consen  146 AQPILEKLY-----KPDLSLEEAIELALKALKEAIDRDILSGDNIEVAV  189 (190)
T ss_dssp             HHHHHHHHH-----TTTSSHHHHHHHHHHHHHHHHHHBTTSTSEEEEEE
T ss_pred             hhHHHHhhc-----cCCCCHHHHHHHHHHHHHHHHhhCCccCCeEEEEE
Confidence            444444432     45899999999777666555554444555555544

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=99.74  E-value=4.7e-17  Score=136.36  Aligned_cols=175  Identities=13%  Similarity=0.099  Sum_probs=109.4

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCccC-CCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l~~-~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      +|+|||+++||||||+|+|.+.++.. ++..+|||+|+++++++++|+.+|++.+++.++.+....-..+.   +...++
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~---~~~~~~   77 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNG---RELSVK   77 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCcCcEEEccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhC---CCCCHH
Confidence            38999999999999999999988765 77789999999999999999999999999988743221111111   111111


Q ss_pred             HHHhhhc---CCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhH
Q psy8777         116 YAFKAIN---QGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFK  191 (291)
Q Consensus       116 ~~~~~~~---~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~  191 (291)
                      ...+.+.   +....    +|....++.+.       +++...|+||.+||.|.+. ....+.+..+......++.    
T Consensus        78 ~l~~~l~~~~~~~~~----~P~~~~~iv~G-------~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~----  142 (189)
T cd01912          78 AAANLLSNILYSYRG----FPYYVSLIVGG-------VDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDR----  142 (189)
T ss_pred             HHHHHHHHHHHhcCC----CCeEEEEEEEE-------EcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHh----
Confidence            1111111   11101    56665555554       4444679999999999763 2222223443333333333    


Q ss_pred             hhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         192 YKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       192 ~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                       .++.+++.+++.+.+.+.+.....+.......+++.++
T Consensus       143 -~~~~~~s~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  180 (189)
T cd01912         143 -GYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVDVAVI  180 (189)
T ss_pred             -ccCCCCCHHHHHHHHHHHHHHHHHhcCccCCcEEEEEE
Confidence             24458999999987666664433333333344444444

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.

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=99.73  E-value=8.3e-18  Score=144.90  Aligned_cols=81  Identities=42%  Similarity=0.714  Sum_probs=76.0

Q ss_pred             ccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHH
Q psy8777          98 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR  177 (291)
Q Consensus        98 yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~  177 (291)
                      ||+.+++|||+||++|+|||.+++++|+ +++|++++++||+++|++.+++++.+++.+|||+|+++++++++|..+|.+
T Consensus         1 yd~~~t~fsp~Grl~QveyA~~av~~G~-t~igik~~dgVvlaad~~~~~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (227)
T cd03750           1 YSFSLTTFSPSGKLVQIEYALAAVSSGA-PSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGMVYSGMGPDFR   79 (227)
T ss_pred             CCCCCceECCCCeEhHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeecCCccccCCCCcceEEEEcCCEEEEEeEcHHhHH
Confidence            7999999999999999999999999988 999999999999999999988888777889999999999999999999986


Q ss_pred             HH
Q psy8777         178 YQ  179 (291)
Q Consensus       178 ~~  179 (291)
                      .+
T Consensus        80 ~l   81 (227)
T cd03750          80 VL   81 (227)
T ss_pred             HH
Confidence            43

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.

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=99.73  E-value=9.1e-18  Score=143.01  Aligned_cols=81  Identities=36%  Similarity=0.692  Sum_probs=75.6

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ..||+++++|+|+||++|+|||.+++++|+ +++|++++++||+++|++.++.++..++.+|||+|+++++++++|+.+|
T Consensus         2 ~~yd~~~t~fsp~Grl~Qveya~~a~~~G~-tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (212)
T cd03751           2 TGYDLSASTFSPDGRVFQVEYANKAVENSG-TAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLAD   80 (212)
T ss_pred             CCccCCCceECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEEccccccccCcchhcceeEecCcEEEEEEEChHh
Confidence            369999999999999999999999999998 8899999999999999999877776667899999999999999999999


Q ss_pred             HH
Q psy8777         176 SR  177 (291)
Q Consensus       176 ~~  177 (291)
                      ++
T Consensus        81 ~~   82 (212)
T cd03751          81 GR   82 (212)
T ss_pred             HH
Confidence            75

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=99.72  E-value=1.3e-17  Score=142.43  Aligned_cols=75  Identities=73%  Similarity=1.202  Sum_probs=69.2

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeec
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTG  171 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG  171 (291)
                      .||+++++|+|+||++|+|||++++++++++++|++++++||+++|++.+.+++..++.+|||+|+++++++++|
T Consensus         1 ~yd~~~~~fsp~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~~Ki~~I~~~i~~~~sG   75 (215)
T cd03754           1 GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIGCVMTG   75 (215)
T ss_pred             CCCCCCeeECCCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCcccCceEEEcCCEEEEEEe
Confidence            489999999999999999999999988666999999999999999999987777666788999999999999999

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=99.72  E-value=7.6e-17  Score=135.03  Aligned_cols=171  Identities=16%  Similarity=0.175  Sum_probs=111.2

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------cccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.++ .+..+++.+||++|++|++++++|+.+|++.+++.++.+.       +.+++.....
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            4899999999999999999887 6777778899999999999999999999999999888432       2222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      ..+.++-|.           ...+|..+.++.+.       +++ .+|+||.+||.|.+. ....+.+.........++.
T Consensus        81 ~~i~~~~~~-----------~~~~P~~~~~lvaG-------~d~-~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~  141 (188)
T cd03764          81 TLLSNILNS-----------SKYFPYIVQLLIGG-------VDE-EGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLED  141 (188)
T ss_pred             HHHHHHHHh-----------cCCCCcEEEEEEEE-------EeC-CCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHh
Confidence            111111111           12345555555543       443 579999999999763 1222222333333333333


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                           .+..+++.+++.+.+.+.+.....+....+-.+++.++.
T Consensus       142 -----~~~~~~~~~ea~~l~~~~l~~~~~rd~~~~~~i~i~iv~  180 (188)
T cd03764         142 -----EYKEDMTVEEAKKLAIRAIKSAIERDSASGDGIDVVVIT  180 (188)
T ss_pred             -----cCCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEC
Confidence                 235589999999877776655545444555566666663

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.

>KOG0184|consensus

Probab=99.72  E-value=1.3e-17  Score=136.46  Aligned_cols=83  Identities=35%  Similarity=0.654  Sum_probs=78.9

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ..||...++|+|+||++|+|||.+++.+++ |+||||+++|||++.+|...++|+.+...+||+.|+.|++++++|+.+|
T Consensus         6 tGyDls~s~fSpdGrvfQveYA~KAven~~-T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~r~iG~avaGl~~D   84 (254)
T KOG0184|consen    6 TGYDLSASTFSPDGRVFQVEYAQKAVENSG-TCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVDRHIGMAVAGLIPD   84 (254)
T ss_pred             ccccccceeeCCCCceehHHHHHHHHhcCC-cEEEEecCCeEEEEEeeeecccccccCCCCceEeecccccEEEeccccc
Confidence            358999999999999999999999999999 9999999999999999999999999988999999999999999999999


Q ss_pred             HHHH
Q psy8777         176 SRYQ  179 (291)
Q Consensus       176 ~~~~  179 (291)
                      .+.+
T Consensus        85 g~~l   88 (254)
T KOG0184|consen   85 GRHL   88 (254)
T ss_pred             hHHH
Confidence            8764

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=99.72  E-value=1.6e-16  Score=132.21  Aligned_cols=160  Identities=23%  Similarity=0.312  Sum_probs=104.6

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCccC-CCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l~~-~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      +|+|||+++||||||+|+|.++++.. +++.+|||+|+++++++++|+.+|++.+++.++.+.......+   ++..++.
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~---~~~~~~~   77 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRY---GEPIPVE   77 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCcceEEEECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHh---CCCCCHH
Confidence            38999999999999999999987765 6678999999999999999999999999998884322111111   1111111


Q ss_pred             HHHhhhc---CCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-----eecccccHHHHHHHHHHHH
Q psy8777         116 YAFKAIN---QGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-----MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       116 ~~~~~~~---~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-----~sG~~~D~~~~~~~~~~e~  187 (291)
                      ...+.+.   +..+..  .+|....++.+.       ++...+|+||.+||+|.+.     +.|    ..+...+..++.
T Consensus        78 ~l~~~l~~~~~~~~~~--~~p~~~~~lv~G-------~d~~~~~~Ly~id~~G~~~~~~~~a~G----~g~~~~~~~L~~  144 (182)
T cd01906          78 ALAKLLANLLYEYTQS--LRPLGVSLLVAG-------VDEEGGPQLYSVDPSGSYIEYKATAIG----SGSQYALGILEK  144 (182)
T ss_pred             HHHHHHHHHHHHhCCC--ccChheEEEEEE-------EeCCCCcEEEEECCCCCEeeccEEEEC----CCcHHHHHHHHH
Confidence            1111111   011011  466666666554       4444689999999999763     344    333333333333


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhc
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQN  217 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~  217 (291)
                           .++.+++.+++++.+.+.+.....+
T Consensus       145 -----~~~~~~s~~ea~~l~~~~l~~~~~~  169 (182)
T cd01906         145 -----LYKPDMTLEEAIELALKALKSALER  169 (182)
T ss_pred             -----HccCCCCHHHHHHHHHHHHHHHHcc
Confidence                 2445899999999877777655443

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

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=99.72  E-value=1.4e-16  Score=133.47  Aligned_cols=172  Identities=19%  Similarity=0.168  Sum_probs=106.3

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      +|+|||+++||||||+|+|.+++ +..+++.+|||+|+++++|+++|+.+|+|.+++.+|.+.......+.   +...++
T Consensus         1 tt~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~---~~~~~~   77 (189)
T cd03763           1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTG---RKPRVV   77 (189)
T ss_pred             CeEEEEEECCeEEEEEcCCcccCceEEcCCccceEEecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhC---CCCCHH
Confidence            58999999999999999999885 56667789999999999999999999999999988844221111111   111111


Q ss_pred             HHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-----eecccccHHHHHHHHHHHHHHh
Q psy8777         116 YAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-----MTGMQADSRYQVQRARYEAASF  190 (291)
Q Consensus       116 ~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-----~sG~~~D~~~~~~~~~~e~~~~  190 (291)
                      ...+.+.+.- ... -.+.+..++.+.       ++ +.+|+||.+||.|.+.     +.|    ..+......++.   
T Consensus        78 ~~a~~l~~~l-~~~-~~p~~v~~ivaG-------~d-~~g~~ly~~d~~G~~~~~~~~a~G----~~~~~~~~~L~~---  140 (189)
T cd03763          78 TALTMLKQHL-FRY-QGHIGAALVLGG-------VD-YTGPHLYSIYPHGSTDKLPFVTMG----SGSLAAMSVLED---  140 (189)
T ss_pred             HHHHHHHHHH-HHc-CCccceeEEEEe-------Ec-CCCCEEEEECCCCCEEecCEEEEc----CCHHHHHHHHHh---
Confidence            1111111000 000 003333333332       33 3569999999999753     444    232222222332   


Q ss_pred             HhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         191 KYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       191 ~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                        .+.++++.+++.+.+.+.+.....+.-..+-++++.++
T Consensus       141 --~~~~~ls~~ea~~l~~~~l~~~~~rd~~~~~~~~v~ii  178 (189)
T cd03763         141 --RYKPDMTEEEAKKLVCEAIEAGIFNDLGSGSNVDLCVI  178 (189)
T ss_pred             --hcCCCCCHHHHHHHHHHHHHHHHHhcCcCCCceEEEEE
Confidence              24468999999997777665554444345556666665

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.

>KOG0182|consensus

Probab=99.72  E-value=1.2e-17  Score=135.66  Aligned_cols=83  Identities=73%  Similarity=1.134  Sum_probs=79.4

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ..||+++++|||+|||+|+||+++++++++.+.++++++|++|++++|+.|.+|++.+...++|+|..+++|+++|+.+|
T Consensus         7 agfDrhitIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~itk~ig~v~tG~~aD   86 (246)
T KOG0182|consen    7 AGFDRHITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRITKKIGCVITGMIAD   86 (246)
T ss_pred             CCccceEEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEeeccceEEEecCCcc
Confidence            56999999999999999999999999998889999999999999999999999999888999999999999999999999


Q ss_pred             HHH
Q psy8777         176 SRY  178 (291)
Q Consensus       176 ~~~  178 (291)
                      +++
T Consensus        87 ar~   89 (246)
T KOG0182|consen   87 ARS   89 (246)
T ss_pred             hHH
Confidence            863

>KOG0173|consensus

Probab=99.68  E-value=1.2e-16  Score=133.21  Aligned_cols=162  Identities=18%  Similarity=0.222  Sum_probs=122.2

Q ss_pred             HHHHhcCCceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCC
Q psy8777          29 FKAINQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSP  107 (291)
Q Consensus        29 ~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp  107 (291)
                      -++.+.| ||+||+..+||||+++|+|++.. .+..++.+|||.|.++|+|+.+|.++|...+.+...++.+.+-...  
T Consensus        31 p~~tkTG-TtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t--  107 (271)
T KOG0173|consen   31 PKATKTG-TTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNT--  107 (271)
T ss_pred             CcccccC-cEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhcc--
Confidence            4567666 89999999999999999999985 5555677999999999999999999999988887776666553332  


Q ss_pred             CCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE-----EeecccccHHHHHHH
Q psy8777         108 EGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC-----VMTGMQADSRYQVQR  182 (291)
Q Consensus       108 ~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~-----~~sG~~~D~~~~~~~  182 (291)
                       +|...|-.+.+..+|.-...-|..+..-++-..|          ..+|+||.|.|||.-     +.-|    +.++++.
T Consensus       108 -~R~~rVv~A~~mlkQ~LFrYqG~IgA~LiiGGvD----------~TGpHLy~i~phGStd~~Pf~alG----SGslaAm  172 (271)
T KOG0173|consen  108 -GRKPRVVTALRMLKQHLFRYQGHIGAALILGGVD----------PTGPHLYSIHPHGSTDKLPFTALG----SGSLAAM  172 (271)
T ss_pred             -CCCCceeeHHHHHHHHHHHhcCcccceeEEcccc----------CCCCceEEEcCCCCcCccceeeec----cchHHHH
Confidence             4555555666666654434444444444444433          579999999999963     4445    6778888


Q ss_pred             HHHHHHHhHhhhCCCCCHHHHHHHHHHHHHH
Q psy8777         183 ARYEAASFKYKHGYSMPIDQLCNRIADISQV  213 (291)
Q Consensus       183 ~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~  213 (291)
                      ..+|.     +|+.+|+.+++.+.+++-++.
T Consensus       173 svlEs-----r~k~dlt~eea~~Lv~eAi~A  198 (271)
T KOG0173|consen  173 SVLES-----RWKPDLTKEEAIKLVCEAIAA  198 (271)
T ss_pred             HHHHH-----hcCcccCHHHHHHHHHHHHHh
Confidence            88887     566799999999988887743

>PRK03996 proteasome subunit alpha; Provisional

Probab=99.68  E-value=1.3e-16  Score=138.82  Aligned_cols=87  Identities=40%  Similarity=0.784  Sum_probs=80.2

Q ss_pred             hcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccc
Q psy8777          94 ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQ  173 (291)
Q Consensus        94 ~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~  173 (291)
                      ++..||.++++|||+||++|+|||.+++++|+ +++|++++++||+++|++.++.++..++.+|||+|+++++++++|..
T Consensus         6 ~~~~y~~~~~~fsp~Gr~~Q~eya~~av~~G~-t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~   84 (241)
T PRK03996          6 QQMGYDRAITIFSPDGRLYQVEYAREAVKRGT-TAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAASAGLV   84 (241)
T ss_pred             cccccCCCCceECCCCeEhHHHHHHHHHHhCC-CEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEcccH
Confidence            45679999999999999999999999999988 99999999999999999998777766778999999999999999999


Q ss_pred             ccHHHHHH
Q psy8777         174 ADSRYQVQ  181 (291)
Q Consensus       174 ~D~~~~~~  181 (291)
                      +|.+.+.+
T Consensus        85 ~D~~~l~~   92 (241)
T PRK03996         85 ADARVLID   92 (241)
T ss_pred             HHHHHHHH
Confidence            99987644

>KOG0183|consensus

Probab=99.68  E-value=6.7e-17  Score=131.61  Aligned_cols=149  Identities=30%  Similarity=0.387  Sum_probs=117.5

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ++||+.+++|||+|+|+|||||++++.+|+ +++|+++.++||++.+++....|.+++...||..+|+|+.++++|+.+|
T Consensus         2 srydraltvFSPDGhL~QVEYAqEAvrkGs-taVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld~hV~mafaGl~aD   80 (249)
T KOG0183|consen    2 SRYDRALTVFSPDGHLFQVEYAQEAVRKGS-TAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLDDHVVMAFAGLTAD   80 (249)
T ss_pred             CccccceEEECCCCCEEeeHhHHHHHhcCc-eEEEeccCceEEEEEeecchhhhhhhhhhhhheeecceeeEEecCCCcc
Confidence            369999999999999999999999999999 9999999999999999998888888888899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCC--cEEEEECCCCceEeee
Q psy8777         176 SRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEG--PLIYKTDPAGYYCSFK  253 (291)
Q Consensus       176 ~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~g--p~Ly~~d~~G~~~~~~  253 (291)
                      ++-    +...++..-..|+..+--...+.+|.+.+..+.|+- ....       |.-+ .|  --|...||.|+..-+.
T Consensus        81 Ari----linrArvecqShrlt~edpvtveyitRyiA~~kQrY-Tqs~-------grRP-FGvs~Li~GfD~~g~p~lyq  147 (249)
T KOG0183|consen   81 ARI----LINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRY-TQSN-------GRRP-FGVSTLIGGFDPDGTPRLYQ  147 (249)
T ss_pred             cee----ehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhh-hccC-------Cccc-ccceEEEEeeCCCCCeeeEe
Confidence            863    456666666677555554556789999998886631 1112       2222 23  3578999999655444


Q ss_pred             EEEec
Q psy8777         254 AVSVG  258 (291)
Q Consensus       254 ~~a~G  258 (291)
                      --..|
T Consensus       148 tePsG  152 (249)
T KOG0183|consen  148 TEPSG  152 (249)
T ss_pred             eCCCc
Confidence            33344

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

Probab=99.66  E-value=2.4e-17  Score=86.85  Aligned_cols=23  Identities=74%  Similarity=1.262  Sum_probs=22.4

Q ss_pred             ccceeeeeCCCCcchhhhHHHHH
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKA   31 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~a   31 (291)
                      ||+++|+|||||||+|||||+||
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            89999999999999999999997

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 ....

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

Probab=99.60  E-value=3.3e-15  Score=129.15  Aligned_cols=81  Identities=43%  Similarity=0.840  Sum_probs=74.1

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccC-CCCcceEEEecCcEEEEeeccccc
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~-~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      .|++.+++|+|+||++|+||+.+++.+++++++|+++++||||++|+|.+.+++. .++.+|||+|++|++++++|+.+|
T Consensus         2 ~~~~~~~~fsp~g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~aD   81 (236)
T COG0638           2 GYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAAD   81 (236)
T ss_pred             CCcCcceeECCCCchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcHh
Confidence            4788999999999999999999999999779999999999999999999976554 455899999999999999999999


Q ss_pred             HH
Q psy8777         176 SR  177 (291)
Q Consensus       176 ~~  177 (291)
                      ++
T Consensus        82 a~   83 (236)
T COG0638          82 AQ   83 (236)
T ss_pred             HH
Confidence            54

>KOG0181|consensus

Probab=99.52  E-value=7.2e-15  Score=118.14  Aligned_cols=84  Identities=44%  Similarity=0.725  Sum_probs=78.6

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccH
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS  176 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~  176 (291)
                      .|..++++|||+|+|.|+|||+.++.+|. +.+|++..|||||+++++..+.|++....+|++.|.|+++|.++|+.+|.
T Consensus         5 ~y~fslTtFSpsGKL~QieyAL~Av~~G~-~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~~~IG~vYSGmgpD~   83 (233)
T KOG0181|consen    5 GYSFSLTTFSPSGKLVQIEYALTAVVNGQ-TSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKITPHIGCVYSGMGPDY   83 (233)
T ss_pred             ccceeeEEEcCCCceehHHHHHHHHhCCC-CceeeeecCceEEEeccCCCCccchhhhhhhHhhccCCcceEEecCCCce
Confidence            57889999999999999999999999998 88999999999999999998999988888999999999999999999999


Q ss_pred             HHHHH
Q psy8777         177 RYQVQ  181 (291)
Q Consensus       177 ~~~~~  181 (291)
                      |.+++
T Consensus        84 RvlV~   88 (233)
T KOG0181|consen   84 RVLVH   88 (233)
T ss_pred             eehhh
Confidence            87643

>KOG0863|consensus

Probab=99.47  E-value=7.6e-14  Score=115.11  Aligned_cols=85  Identities=32%  Similarity=0.579  Sum_probs=76.0

Q ss_pred             hcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccc
Q psy8777          94 ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQ  173 (291)
Q Consensus        94 ~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~  173 (291)
                      .|..||...++|||+||++|+||+++++++|+ ..+|++.+...||++-++..+.+-  +...|||+||+|+++.++|+.
T Consensus         2 frnqyd~d~t~wsPqGrl~QvEya~EavkqGs-atVGLks~thaVLvAl~r~~seLs--s~QkKi~~iD~h~g~siAGLt   78 (264)
T KOG0863|consen    2 FRNQYDNDVTTWSPQGRLHQVEYAMEAVKQGS-ATVGLKSRTHAVLVALKRAQSELS--SHQKKIFKIDDHIGISIAGLT   78 (264)
T ss_pred             CcccccCceeEECCcceehHHHHHHHHHhccc-ceEeecccceEEEeeeccchhHHH--HhhheeEecccccceEEeccC
Confidence            36779999999999999999999999999999 889999999999999887765553  356799999999999999999


Q ss_pred             ccHHHHHH
Q psy8777         174 ADSRYQVQ  181 (291)
Q Consensus       174 ~D~~~~~~  181 (291)
                      +|.+.+.+
T Consensus        79 ~Darvl~~   86 (264)
T KOG0863|consen   79 ADARVLSR   86 (264)
T ss_pred             cchHHHHH
Confidence            99988755

>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=99.47  E-value=3.1e-13  Score=110.11  Aligned_cols=62  Identities=23%  Similarity=0.171  Sum_probs=56.2

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecC-cEEEEEeccccchhhhhhhhcccc
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTP-TVGCVMTGMQADSRYQVQRARAGF   98 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~-~~~~~~~G~~~D~~~~~~~~~~~y   98 (291)
                      +|+|||+++||||||+|+|.+.+ ++..++.+||++|++ |++|++||..+|+|.+.+.++.+.
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~   64 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKL   64 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHH
Confidence            58999999999999999998764 667777899999999 999999999999999999998654

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.

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.46  E-value=1e-12  Score=107.83  Aligned_cols=62  Identities=21%  Similarity=0.163  Sum_probs=56.6

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEee-cCcEEEEEeccccchhhhhhhhcccc
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARAGF   98 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i-~~~~~~~~~G~~~D~~~~~~~~~~~y   98 (291)
                      +|+|||+++||||||+|+|.+.+ ++..++.+||++| ++|++|++||..+|+|.+.+.++.+.
T Consensus         2 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~   65 (172)
T PRK05456          2 TTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKL   65 (172)
T ss_pred             cEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHH
Confidence            79999999999999999998764 6677788999999 99999999999999999999998653

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.38  E-value=3.3e-12  Score=104.08  Aligned_cols=63  Identities=22%  Similarity=0.192  Sum_probs=56.3

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEee-cCcEEEEEeccccchhhhhhhhccccc
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARAGFD   99 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i-~~~~~~~~~G~~~D~~~~~~~~~~~yd   99 (291)
                      +|+|||+++||||||+|+|.+.+ ++..++.+||++| ++|++|++||..+|+|.+.+.++.+.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~~~~~~   65 (171)
T TIGR03692         1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLE   65 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHHHHHHH
Confidence            58999999999999999998764 6677778999999 599999999999999999999986543

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

>KOG0174|consensus

Probab=99.29  E-value=1.6e-11  Score=98.96  Aligned_cols=196  Identities=14%  Similarity=0.127  Sum_probs=118.0

Q ss_pred             HHhcCCceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCC
Q psy8777          31 AINQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEG  109 (291)
Q Consensus        31 av~~g~~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~g  109 (291)
                      -+..| ||++|+..++||||++|.|.+.. ++.++-..|+-+|+|+|+||-||.+||.|.+.+.++...+.+...++   
T Consensus        15 evstG-TTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~---   90 (224)
T KOG0174|consen   15 EVSTG-TTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQEN---   90 (224)
T ss_pred             ccccC-ceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcC---
Confidence            35577 89999999999999999998875 66667779999999999999999999999999998854443332222   


Q ss_pred             chhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE-----EeecccccHHHHHHHHH
Q psy8777         110 RLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC-----VMTGMQADSRYQVQRAR  184 (291)
Q Consensus       110 rl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~-----~~sG~~~D~~~~~~~~~  184 (291)
                      +..++..+.....+.--..--. ...+++++.        +|++.+-++|.|-=-|.+     +..|.  ++-.+--+. 
T Consensus        91 ~~p~v~~aA~l~r~~~Y~~re~-L~AgliVAG--------wD~~~gGqVY~iplGG~l~rq~~aIgGS--GStfIYGf~-  158 (224)
T KOG0174|consen   91 KPPLVHTAASLFREICYNYREM-LSAGLIVAG--------WDEKEGGQVYSIPLGGSLTRQPFAIGGS--GSTFIYGFC-  158 (224)
T ss_pred             CCchHHHHHHHHHHHHHhCHHh-hhcceEEee--------cccccCceEEEeecCceEeecceeeccC--Cceeeeeee-
Confidence            2222222211111000000000 012344443        667777788887544433     23331  111111111 


Q ss_pred             HHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCce
Q psy8777         185 YEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYY  249 (291)
Q Consensus       185 ~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~  249 (291)
                            .-.++++|+.||...++.+-+.....+.+...--+-++++.-+. -..++|.-|..+.+
T Consensus       159 ------D~~~r~nMt~EE~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~G-ver~~~~~d~~~~~  216 (224)
T KOG0174|consen  159 ------DANWRPNMTLEECVRFVKNAVSLAIERDGSSGGVIRLVIINKAG-VERRFFPGDKLGQF  216 (224)
T ss_pred             ------hhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEEccCC-ceEEEecCCccccc
Confidence                  12466799999999988888766666655444444455542221 12566766766644

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=99.25  E-value=4.3e-11  Score=102.13  Aligned_cols=88  Identities=7%  Similarity=0.060  Sum_probs=55.4

Q ss_pred             EEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHH
Q psy8777         130 AVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIA  208 (291)
Q Consensus       130 gi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~  208 (291)
                      +.||....+|.+.       ++++.+++||.+||.|.+. +...+.+..+......+|.     .|.++|+.+++.+.+.
T Consensus       124 ~~RP~~v~~li~G-------~D~~~g~~ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~-----~y~~~ms~eea~~l~~  191 (213)
T cd03752         124 GLRPFGVSFLYAG-------WDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQ-----DYKDDMTLEEALALAV  191 (213)
T ss_pred             CcccceeEEEEEE-------EeCCCCCEEEEECCCCCeeeeeEEEECCCcHHHHHHHHH-----hccCCCCHHHHHHHHH
Confidence            5567777776665       5555689999999999753 2222233444444444444     3456899999999666


Q ss_pred             HHHHHhhhcCcceeeeeeeeE
Q psy8777         209 DISQVYTQNAEMRPLGCSMIL  229 (291)
Q Consensus       209 ~~~~~~~~~~~~~p~~~~~li  229 (291)
                      +.+.....+....+..+++.+
T Consensus       192 ~al~~~~~r~~~~~~~~ei~~  212 (213)
T cd03752         192 KVLSKTMDSTKLTSEKLEFAT  212 (213)
T ss_pred             HHHHHHHhccCCCCCcEEEEE
Confidence            655555554445666666554

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.

>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=99.24  E-value=1.7e-10  Score=93.28  Aligned_cols=158  Identities=18%  Similarity=0.187  Sum_probs=97.9

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCccC-CCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCch-hhH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRL-YQV  114 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l~~-~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl-~qv  114 (291)
                      +|+||++++|+||+|+|++.+.++.. .....|++.++++++++++|+.+|++.+.+.++......-..+...-.. ...
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            48999999999999999999887765 5667999999999999999999999999988874432211111100000 011


Q ss_pred             HHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEee--cccccHHHHHHHHHHHHHHhHh
Q psy8777         115 EYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMT--GMQADSRYQVQRARYEAASFKY  192 (291)
Q Consensus       115 e~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~s--G~~~D~~~~~~~~~~e~~~~~~  192 (291)
                      ....+....-. .   .++....++.++       +++ ++++||.++|.+.+...  ....+.+.......++.     
T Consensus        81 ~~~~~~~~~~~-~---~~p~~~~~iiag-------~~~-~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~-----  143 (164)
T cd01901          81 KELAKLLQVYT-Q---GRPFGVNLIVAG-------VDE-GGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEK-----  143 (164)
T ss_pred             HHHHHHHHHhc-C---CCCcceEEEEEE-------EcC-CCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHH-----
Confidence            11111111111 1   355566666666       333 67899999999965422  22222333333333332     


Q ss_pred             hhCCCCCHHHHHHHHHHHH
Q psy8777         193 KHGYSMPIDQLCNRIADIS  211 (291)
Q Consensus       193 ~~~~~~s~~~l~~~l~~~~  211 (291)
                      .++.+++.+++.+.+...+
T Consensus       144 ~~~~~~~~~~~~~~~~~~l  162 (164)
T cd01901         144 LYKPDMTLEEAVELALKAL  162 (164)
T ss_pred             HhcCCCCHHHHHHHHHHHH
Confidence            2344688888877665544

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

>KOG0175|consensus

Probab=99.24  E-value=1.4e-11  Score=103.35  Aligned_cols=196  Identities=17%  Similarity=0.160  Sum_probs=125.6

Q ss_pred             ccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccch
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADS   87 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~   87 (291)
                      +++.++-+-|  +-.+++.|     +| ||++|.|++.|||+|+|.|++. +++...+++||..|++++.-+.||-+||+
T Consensus        52 ~l~~~~~~~~--~~~~i~~~-----hG-TTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADC  123 (285)
T KOG0175|consen   52 FLFAITDDET--AGVLIKFA-----HG-TTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADC  123 (285)
T ss_pred             hhhhccCCCc--ccceeeec-----CC-ceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhh
Confidence            4444444422  33455555     77 8999999999999999999988 57777889999999999999999999999


Q ss_pred             hh----hhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          88 RY----QVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        88 ~~----~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      +.    |-++||.. +.      .+++...|.-|.+...+.....-|+-..-|.+|+.        ++ +.+|.||.||.
T Consensus       124 qfWer~L~kecRL~-eL------RnkeriSVsaASKllsN~~y~YkGmGLsmGtMi~G--------~D-k~GP~lyYVDs  187 (285)
T KOG0175|consen  124 QFWERVLAKECRLH-EL------RNKERISVSAASKLLSNMVYQYKGMGLSMGTMIAG--------WD-KKGPGLYYVDS  187 (285)
T ss_pred             HHHHHHHHHHHHHH-HH------hcCcceehHHHHHHHHHHHhhccCcchhheeeEee--------cc-CCCCceEEEcC
Confidence            96    44444421 00      12333445555565555432333333333444443        22 56788888888


Q ss_pred             cEE-----EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCC-
Q psy8777         164 TVG-----CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEG-  237 (291)
Q Consensus       164 ~~~-----~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~g-  237 (291)
                      .|.     +...|    +.+..++..+..     .|..+|+++|+-..-++-+...|.+..   +          . +| 
T Consensus       188 eG~Rl~G~~FSVG----SGs~yAYGVLDs-----gYr~dls~eEA~~L~rrAI~hAThRDa---y----------S-GG~  244 (285)
T KOG0175|consen  188 EGTRLSGDLFSVG----SGSTYAYGVLDS-----GYRYDLSDEEAYDLARRAIYHATHRDA---Y----------S-GGV  244 (285)
T ss_pred             CCCEecCceEeec----CCCceeEEeecc-----CCCCCCCHHHHHHHHHHHHHHHHhccc---c----------c-Cce
Confidence            774     23334    444444444433     455699999998855555533454332   1          1 22 


Q ss_pred             cEEEEECCCCceEe
Q psy8777         238 PLIYKTDPAGYYCS  251 (291)
Q Consensus       238 p~Ly~~d~~G~~~~  251 (291)
                      -.||.+.+.|...-
T Consensus       245 vnlyHv~edGW~~v  258 (285)
T KOG0175|consen  245 VNLYHVKEDGWVKV  258 (285)
T ss_pred             EEEEEECCccceec
Confidence            57999999997644

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=99.24  E-value=4.7e-11  Score=101.74  Aligned_cols=90  Identities=10%  Similarity=0.166  Sum_probs=54.8

Q ss_pred             EEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHH-H
Q psy8777         130 AVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNR-I  207 (291)
Q Consensus       130 gi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~-l  207 (291)
                      +.+|..+.++.+.       ++ +.+|+||.+||+|.+. +...+.+.........++....+   .++|+.+++++. +
T Consensus       119 ~~rP~~v~~ii~G-------~D-~~gp~Ly~~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~~~~---~~~ms~ee~i~~~~  187 (211)
T cd03749         119 GRRPYGVGLLIAG-------YD-ESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEE---FEDCSLEELIKHAL  187 (211)
T ss_pred             CCCCceEEEEEEE-------Ec-CCCCeEEEECCCcCEeeeeEEEECCCcHHHHHHHHHhhcc---ccCCCHHHHHHHHH
Confidence            4566666666654       55 3579999999999763 22333345555444444443221   237999999985 4


Q ss_pred             HHHHHHhhhcCc-ceeeeeeeeEEE
Q psy8777         208 ADISQVYTQNAE-MRPLGCSMILIS  231 (291)
Q Consensus       208 ~~~~~~~~~~~~-~~p~~~~~li~G  231 (291)
                      ..+.... .+.. ..+-.+++.+++
T Consensus       188 ~~l~~~~-~~~~~~~~~~iei~ii~  211 (211)
T cd03749         188 RALRETL-PGEQELTIKNVSIAIVG  211 (211)
T ss_pred             HHHHHHh-ccCCCCCCCcEEEEEEC
Confidence            4444433 3333 777888887763

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.

>KOG0180|consensus

Probab=99.23  E-value=1.4e-10  Score=91.93  Aligned_cols=174  Identities=16%  Similarity=0.161  Sum_probs=107.6

Q ss_pred             cCCceEEEEecCCeEEEEEeccCCCCc-cCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchh
Q psy8777          34 QGGVTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLY  112 (291)
Q Consensus        34 ~g~~t~vgi~~~~~vv~a~~~~~~~~l-~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~  112 (291)
                      +|| ++|+++++|||.||+|+|..... ...+..+|||+|+|++++..+|++.|.|.+.++++.++..--.-   ++|-.
T Consensus         7 nGg-~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lr---e~R~i   82 (204)
T KOG0180|consen    7 NGG-SVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELR---EEREI   82 (204)
T ss_pred             cCc-eEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhh---hhccc
Confidence            687 89999999999999999988753 34556799999999999999999999999999988543211000   11111


Q ss_pred             hHH------HHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE------EeecccccHHHHH
Q psy8777         113 QVE------YAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC------VMTGMQADSRYQV  180 (291)
Q Consensus       113 qve------~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~------~~sG~~~D~~~~~  180 (291)
                      +-+      -..-+.++-+ +.     +-.-|+|.        +++++.|-|...|--|..      .++|.+++  ++ 
T Consensus        83 ~P~~~s~mvS~~lYekRfg-pY-----f~~PvVAG--------l~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e--~L-  145 (204)
T KOG0180|consen   83 KPETFSSMVSSLLYEKRFG-PY-----FTEPVVAG--------LDDDNKPFICGMDLIGCIDAPKDFVVSGTASE--QL-  145 (204)
T ss_pred             CcHHHHHHHHHHHHHhhcC-Cc-----ccceeEec--------cCCCCCeeEeecccccCcCccCCeEEecchHH--HH-
Confidence            000      0000111111 11     11112221        344566777776654443      34553222  11 


Q ss_pred             HHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeC
Q psy8777         181 QRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDE  234 (291)
Q Consensus       181 ~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~  234 (291)
                         .=.+   +--|..+|.+++|...++.-+-....+.....+|+.+-+++.|+
T Consensus       146 ---~GmC---E~ly~pnmepd~LFetisQa~Lna~DRDalSGwGa~vyiI~kdk  193 (204)
T KOG0180|consen  146 ---YGMC---EALYEPNMEPDELFETISQALLNAVDRDALSGWGAVVYIITKDK  193 (204)
T ss_pred             ---HHHH---HHhcCCCCCHHHHHHHHHHHHHhHhhhhhhccCCeEEEEEccch
Confidence               1111   11356799999999876666645556666778899888888775

>KOG0179|consensus

Probab=99.22  E-value=1.1e-11  Score=101.17  Aligned_cols=180  Identities=15%  Similarity=0.168  Sum_probs=107.6

Q ss_pred             HhcCCceEEEEecCCeEEEEEeccCCCCccCC-CCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCc
Q psy8777          32 INQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGR  110 (291)
Q Consensus        32 v~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~-~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~gr  110 (291)
                      +.||| |+|+|.+.|++|+|+|+|..+.+..+ +..+|||+++|++.++.+|+.+|...|++.+.++             
T Consensus        26 ~~NGG-T~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r-------------   91 (235)
T KOG0179|consen   26 EDNGG-TTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSR-------------   91 (235)
T ss_pred             ccCCc-eEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHH-------------
Confidence            46898 99999999999999999988876544 6779999999999999999999999998887642             


Q ss_pred             hhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCC------CcccCCCCcceEEEecCcEEEE-----eecccccHHHH
Q psy8777         111 LYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVP------DSLVDPKTVTNLYSLTPTVGCV-----MTGMQADSRYQ  179 (291)
Q Consensus       111 l~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~------~~l~~~~~~~kI~~i~~~~~~~-----~sG~~~D~~~~  179 (291)
                      +.+.++-.+  ++++  +-+....-..+|..-+.+|      -..++++...-+|..||-|.+.     +.|.++-  .+
T Consensus        92 ~~~Y~~~h~--k~ms--~~s~A~lls~~LY~kRFFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~--mI  165 (235)
T KOG0179|consen   92 IKQYEHDHN--KKMS--IHSAAQLLSTILYSKRFFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAAS--MI  165 (235)
T ss_pred             HHHHhhccc--cccc--HHHHHHHHHHHHhhcccccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchh--hh
Confidence            111111110  0000  0000000011111111122      0225555668999999999763     3442222  11


Q ss_pred             HHHHHHHHHHhH----hhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         180 VQRARYEAASFK----YKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       180 ~~~~~~e~~~~~----~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      .-.+..+....+    -....+++.+++++.+.+......++.-...-.+.+.|+-
T Consensus       166 ~PfLDnQi~~kn~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~t  221 (235)
T KOG0179|consen  166 QPFLDNQIGHKNQNLENAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIIT  221 (235)
T ss_pred             hhhhhhhccCcCcccccCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEe
Confidence            112222221111    1223578999999999888765555443344456666653

>PTZ00246 proteasome subunit alpha; Provisional

Probab=99.16  E-value=2.9e-10  Score=99.59  Aligned_cols=92  Identities=9%  Similarity=0.041  Sum_probs=58.0

Q ss_pred             EEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHH
Q psy8777         129 VAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRI  207 (291)
Q Consensus       129 igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l  207 (291)
                      -+.+|..+.++.+.       ++++.+|+||.+||.|.+. +...+.+..+......++.     .+..+|+.+++.+.+
T Consensus       125 ~~~rP~~v~~li~G-------~D~~~gp~Ly~~D~~Gs~~~~~~~a~G~gs~~~~~~Le~-----~~~~~ms~eeai~l~  192 (253)
T PTZ00246        125 GGLRPFGVSFLFAG-------YDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQ-----EWKEDLTLEQGLLLA  192 (253)
T ss_pred             cCcccCCEEEEEEE-------EeCCCCcEEEEECCCCCEecceEEEECCCcHHHHHHHHH-----hccCCCCHHHHHHHH
Confidence            36678887777765       5555689999999999752 2222222444433444443     344589999999866


Q ss_pred             HHHHHHhhhcCcceeeeeeeeEEEE
Q psy8777         208 ADISQVYTQNAEMRPLGCSMILISY  232 (291)
Q Consensus       208 ~~~~~~~~~~~~~~p~~~~~li~G~  232 (291)
                      .+.+.....+.......+++.++..
T Consensus       193 ~~al~~~~~~d~~s~~~vev~ii~~  217 (253)
T PTZ00246        193 AKVLTKSMDSTSPKADKIEVGILSH  217 (253)
T ss_pred             HHHHHHHHhccCCCCCcEEEEEEec
Confidence            6655444444445567777777754

>KOG0178|consensus

Probab=99.10  E-value=4.3e-10  Score=91.94  Aligned_cols=131  Identities=11%  Similarity=0.032  Sum_probs=76.8

Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      -+|.+.+.--..|...++.       .|+-...-.++|+.|..-|.||++...|.+.       +++..+-+||+-||+|
T Consensus        89 ~aRi~AQ~yl~~y~e~iP~-------eqLv~~lcdiKQayTQygG~RPFGVSfLYaG-------wd~~~gyqLy~SdPSG  154 (249)
T KOG0178|consen   89 YARIIAQRYLFRYGEEIPC-------EQLVTFLCDIKQAYTQYGGKRPFGVSFLYAG-------WDDRYGYQLYQSDPSG  154 (249)
T ss_pred             HHHHHHHHHHHHhCCCCcH-------HHHHHHHHHHHHHHhhccCcCCCceeeeeec-------eecCcceEEEecCCCC
Confidence            3444433333445555544       4555556667788888899999999999987       7878889999999999


Q ss_pred             EEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeC
Q psy8777         166 GCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDE  234 (291)
Q Consensus       166 ~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~  234 (291)
                      .+. ..+...+..+.++.. ...+.|.   +..++++++...+-+++-.-.....+.|--++++.+-.|.
T Consensus       155 ny~gWka~ciG~N~~Aa~s-~Lkqdyk---dd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~  220 (249)
T KOG0178|consen  155 NYGGWKATCIGANSGAAQS-MLKQDYK---DDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDC  220 (249)
T ss_pred             CccccceeeeccchHHHHH-HHHhhhc---cccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecC
Confidence            764 222222233222211 1111222   1234577776654444422223334667777777776654

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

Probab=98.91  E-value=7.9e-10  Score=58.39  Aligned_cols=23  Identities=74%  Similarity=1.262  Sum_probs=21.6

Q ss_pred             ccccccccCCCCchhhHHHHHhh
Q psy8777          98 FDRHITIFSPEGRLYQVEYAFKA  120 (291)
Q Consensus        98 yd~~~~~~sp~grl~qve~~~~~  120 (291)
                      ||+.+++|||+|||+|||||+++
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            78999999999999999999875

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 ....

>KOG0185|consensus

Probab=98.80  E-value=1.6e-07  Score=78.23  Aligned_cols=81  Identities=25%  Similarity=0.249  Sum_probs=64.4

Q ss_pred             eeeeeCCCCcchhhhHHHH--------HHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEec
Q psy8777          12 HITIFSPEGRLYQVEYAFK--------AINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTG   82 (291)
Q Consensus        12 ~~~~fsp~g~~~q~eya~~--------av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G   82 (291)
                      ...+|.|.|.+  +|-|-.        -.-.| |++||+|.+||||||+|+..+. ++.--++++||++++|++.++++|
T Consensus        12 a~~~f~~~~~~--m~~a~~~~~qrt~~p~vTG-TSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sG   88 (256)
T KOG0185|consen   12 APGTFYPSGSL--MENAGDYPIQRTLNPIVTG-TSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASG   88 (256)
T ss_pred             CCCcCcCccch--hhhccCCCcccccCceecc-ceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCc
Confidence            34568887554  343322        22245 7999999999999999999776 566667889999999999999999


Q ss_pred             cccchhhhhhhhc
Q psy8777          83 MQADSRYQVQRAR   95 (291)
Q Consensus        83 ~~~D~~~~~~~~~   95 (291)
                      -.+|.|.|.+.+.
T Consensus        89 disD~Q~i~r~L~  101 (256)
T KOG0185|consen   89 DISDFQYIQRVLE  101 (256)
T ss_pred             cHHHHHHHHHHHH
Confidence            9999999887765

>KOG0177|consensus

Probab=98.75  E-value=1.8e-07  Score=75.61  Aligned_cols=158  Identities=11%  Similarity=0.157  Sum_probs=97.4

Q ss_pred             eEEEEecCCeEEEEEeccCCCCcc-CCCCcceeEeecCcEEEEEeccccchhhhhhhhccccc---c-cccccCCCCchh
Q psy8777          38 TSVAVKGVDTAVVATEKKVPDSLV-DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD---R-HITIFSPEGRLY  112 (291)
Q Consensus        38 t~vgi~~~~~vv~a~~~~~~~~l~-~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd---~-~~~~~sp~grl~  112 (291)
                      +.+||++.|.|++|+|+....+++ -.++..|++++++|+.++++|-..|.-...++...+..   . +---.||..-  
T Consensus         3 ~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~a--   80 (200)
T KOG0177|consen    3 TLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAA--   80 (200)
T ss_pred             eEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHH--
Confidence            689999999999999999777654 33456999999999999999999999877666553211   0 0001122111  


Q ss_pred             hHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE-----EeecccccHHHHHHHHHHHH
Q psy8777         113 QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC-----VMTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       113 qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~-----~~sG~~~D~~~~~~~~~~e~  187 (291)
                       ..+.++.+..   ....-++....+|.+.       .+++.+|-|+.||--+.+     ++.|..+-  ...  ..   
T Consensus        81 -ahFtR~~La~---~LRsr~~yqV~~LvaG-------Yd~~~gp~L~~iDyla~~~~vpy~~hGy~~~--f~~--sI---  142 (200)
T KOG0177|consen   81 -AHFTRRELAE---SLRSRTPYQVNILVAG-------YDPEEGPELYYIDYLATLVSVPYAAHGYGSY--FCL--SI---  142 (200)
T ss_pred             -HHHHHHHHHH---HHhcCCCceEEEEEec-------cCCCCCCceeeehhhhhcccCCcccccchhh--hhH--HH---
Confidence             1122222211   1112234555566554       677778999999977754     23343221  111  11   


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhc
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQN  217 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~  217 (291)
                        ....|+.+||.+++...+..=+.+..++
T Consensus       143 --lDr~Y~pdmt~eea~~lmkKCv~El~kR  170 (200)
T KOG0177|consen  143 --LDRYYKPDMTIEEALDLMKKCVLELKKR  170 (200)
T ss_pred             --HHhhhCCCCCHHHHHHHHHHHHHHHHHh
Confidence              1124667999999988777766555443

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

Probab=98.62  E-value=4.3e-07  Score=74.21  Aligned_cols=161  Identities=12%  Similarity=0.069  Sum_probs=106.6

Q ss_pred             eeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE----EEEeecccccHHHHHHHHHHHHHHhHh-hhCCCCCH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV----GCVMTGMQADSRYQVQRARYEAASFKY-KHGYSMPI  200 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~----~~~~sG~~~D~~~~~~~~~~e~~~~~~-~~~~~~s~  200 (291)
                      |.|+|++...|.|+++|.|...+.-.-....|+|...-.|    .++.+|.-+-+|.+...+....+...- ..-.-.++
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            3789999999999999999873321111223333332222    344567666677776666544431110 11123456


Q ss_pred             HHHHHHHHHHHHHhhhcC------cceeeeeeeeEEEEeCCCCcEEEEECCCCceEee----eEEEecCCchHHHHHHHH
Q psy8777         201 DQLCNRIADISQVYTQNA------EMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF----KAVSVGVKTTEANSYLEK  270 (291)
Q Consensus       201 ~~l~~~l~~~~~~~~~~~------~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~----~~~a~G~gs~~~~~~Le~  270 (291)
                      .+++..+.....+-..++      ....|.|+++++|-=..+-|.||.+-|-|++.+.    +|.-+|. +.+-+++|++
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            666665554442222221      1246899999999865334999999999999886    6999998 6779999999


Q ss_pred             hccCCCCCCHHHHHHHHHh
Q psy8777         271 KFKKKTNYTGDETIQLAIS  289 (291)
Q Consensus       271 ~~~~~~~~t~~eai~l~~~  289 (291)
                      .++-  ++++||+.++++-
T Consensus       161 ~i~~--~~pLeea~kcaLv  177 (255)
T COG3484         161 TITY--DTPLEEAAKCALV  177 (255)
T ss_pred             hhhc--cCCHHHHhhheEE
Confidence            9999  9999999998753

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

Probab=98.18  E-value=3.1e-05  Score=61.30  Aligned_cols=148  Identities=17%  Similarity=0.200  Sum_probs=98.2

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEe-cCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQL  203 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i-~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l  203 (291)
                      ||++++|-.+-+++++|-..+ +..+...+..|+-++ +.....+++|..+|+.++.++...+++.|.         ..|
T Consensus         5 TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~---------g~L   75 (178)
T COG5405           5 TTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQ---------GDL   75 (178)
T ss_pred             EEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHcc---------CcH
Confidence            599999999999999998766 334443333333333 456677899999999999888877776554         122


Q ss_pred             HHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEee--eEEEecCCchHHHHHHHHhccCCCCCCHH
Q psy8777         204 CNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF--KAVSVGVKTTEANSYLEKKFKKKTNYTGD  281 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~~~t~~  281 (291)
                      .+..-++.+..-....+|.+..-++|+  |+   -.+|-+.-.|-..+.  ...+||+|..++.+-....++. .++|.+
T Consensus        76 ~raavelaKdwr~Dk~lr~LEAmllVa--d~---~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~-~~lsA~  149 (178)
T COG5405          76 FRAAVELAKDWRTDKYLRKLEAMLLVA--DK---THILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMEN-TELSAR  149 (178)
T ss_pred             HHHHHHHHHhhhhhhHHHHHhhheeEe--CC---CcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhc-cCCCHH
Confidence            222222221111122345556666666  44   467888888876664  4999999999999999888765 278877


Q ss_pred             HHHHHHH
Q psy8777         282 ETIQLAI  288 (291)
Q Consensus       282 eai~l~~  288 (291)
                      |-.+-++
T Consensus       150 eIa~~sl  156 (178)
T COG5405         150 EIAEKSL  156 (178)
T ss_pred             HHHHHHH
Confidence            7655444

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

Probab=93.99  E-value=0.041  Score=43.93  Aligned_cols=59  Identities=24%  Similarity=0.170  Sum_probs=45.5

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCc-cCCCCcceeEee-cCcEEEEEeccccchhhhhhhhc
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRAR   95 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l-~~~~~~~ki~~i-~~~~~~~~~G~~~D~~~~~~~~~   95 (291)
                      ||+|+++-++-||||.|-..+-.- +-..+.+|+-+| +.++..+++|-++|+..|.+...
T Consensus         5 TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe   65 (178)
T COG5405           5 TTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFE   65 (178)
T ss_pred             EEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHH
Confidence            899999999999999999876532 222233454444 55899999999999999888765

>KOG3361|consensus

Probab=82.87  E-value=2.8  Score=32.47  Aligned_cols=44  Identities=27%  Similarity=0.302  Sum_probs=40.5

Q ss_pred             EEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHH
Q psy8777         241 YKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQL  286 (291)
Q Consensus       241 y~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l  286 (291)
                      ..+|.+|.+...+|-.-|-||..+-+-+-..|-+  ++|+||+.++
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvk--gkt~dea~kI  114 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVK--GKTLDEALKI  114 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHc--cccHHHHHhc
Confidence            4788899999999999999999999999999999  9999999864

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	291
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		1e-85
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		2e-85
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		7e-53
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		1e-51
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		3e-34
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		8e-34
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		9e-34
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		1e-33
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		6e-33
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		1e-31
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		2e-31
1vsy_C	232	Proteasome Activator Complex Length = 232		5e-31
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		1e-30
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		9e-30
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		2e-29
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		6e-29
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		8e-29
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		1e-28
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		1e-28
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		8e-28
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		9e-28
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		4e-27
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		5e-27
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		5e-27
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		7e-27
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		7e-27
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		1e-26
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		2e-26
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		3e-26
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		3e-26
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		4e-26
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		5e-26
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		5e-26
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		5e-26
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		5e-26
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		6e-26
1vsy_B	231	Proteasome Activator Complex Length = 231		6e-25
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		6e-24
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		3e-23
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		9e-22
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		9e-22
1vsy_E	250	Proteasome Activator Complex Length = 250		9e-22
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		1e-21
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		1e-21
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		2e-21
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		6e-21
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		9e-21
1vsy_D	227	Proteasome Activator Complex Length = 227		2e-20
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		5e-16
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		6e-16
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		3e-15
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		3e-15
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		4e-15
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		5e-04

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

Iteration: 1
 Score =  312 bits (799), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 141/196 (71%), Positives = 168/196 (85%)
Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66
Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T ++GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct: 67  THLFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126
Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186
Query: 276 TNYTGDETIQLAISCL 291
            ++T ++T++ AI+CL
Sbjct: 187 FDWTFEQTVETAITCL 202

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

Iteration: 1
 Score =  311 bits (797), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 141/196 (71%), Positives = 167/196 (85%)
Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66
Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct: 67  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126
Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 186
Query: 276 TNYTGDETIQLAISCL 291
            ++T ++T++ AI+CL
Sbjct: 187 FDWTFEQTVETAITCL 202

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

Iteration: 1
 Score =  203 bits (517), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 105/201 (52%), Positives = 140/201 (69%), Gaps = 5/201 (2%)
Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AG+DRHITIFSPEGRLYQVEYAFKA NQ  + S+AV+G D  VV ++KKVPD L+DP TV
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60
Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           + ++ ++ T+G V+ G   D+R    RA+ EAA F+YK+GY MP D L  R+A++SQ+YT
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120
Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK- 274
           Q A MRPLG  +  +S DE  GP IYKTDPAGYY  +KA + G K  E  + LE  FKK 
Sbjct: 121 QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKS 180
Query: 275 KTNYTGDET----IQLAISCL 291
           K ++  +E+    ++ AI+ +
Sbjct: 181 KIDHINEESWEKVVEFAITHM 201

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

Iteration: 1
 Score =  199 bits (507), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 103/199 (51%), Positives = 138/199 (69%), Gaps = 5/199 (2%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DRHITIFSPEGRLYQVEYAFKA NQ  + S+AV+G D  VV ++KKVPD L+DP TV+ 
Sbjct: 12  YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 71
Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           ++ ++ T+G V+ G   D+R    RA+ EAA F+YK+GY MP D L  R+A++SQ+YTQ 
Sbjct: 72  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQR 131
Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK-KT 276
           A MRPLG  +  +S DE  GP IYKTDPAGYY  +KA + G K  E  + LE  FKK K 
Sbjct: 132 AYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKI 191
Query: 277 NYTGDET----IQLAISCL 291
           ++  +E+    ++ AI+ +
Sbjct: 192 DHINEESWEKVVEFAITHM 210

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

Iteration: 1
 Score =  142 bits (357), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 70/196 (35%), Positives = 119/196 (60%), Gaps = 4/196 (2%)
Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           + +DR IT+FSPEGRLYQVEYA +A+ +G  T++ +   D  V+A ++++   LV  +++
Sbjct: 10  SAYDRAITVFSPEGRLYQVEYAREAVRRG-TTAIGIACKDGVVLAVDRRITSKLVKIRSI 68
Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             ++ +   V    +G+ AD+R  + RAR EA  ++  +G  + I+ L  +I DI Q YT
Sbjct: 69  EKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYT 128
Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           Q+  +RP G S+++   D+NE  L ++TDP+G    +KA ++G         LEK+++  
Sbjct: 129 QHGGVRPFGVSLLIAGIDKNEARL-FETDPSGALIEYKATAIGSGRPVVMELLEKEYRD- 186
Query: 276 TNYTGDETIQLAISCL 291
            + T DE ++LAI+ L
Sbjct: 187 -DITLDEGLELAITAL 201

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

Iteration: 1
 Score =  140 bits (353), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 72/195 (36%), Positives = 113/195 (57%), Gaps = 4/195 (2%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +D   TIFSPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  T T 
Sbjct: 5   YDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTE 63
Query: 158 -LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            LY L   +   + G+ AD+   +  AR  A ++   +   +P++ L  R++DI Q YTQ
Sbjct: 64  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 123
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
           +  +RP G S I   YD+  G  +Y ++P+G Y  +KA+SVG  T+ A + L+  +K   
Sbjct: 124 HGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDM 183
Query: 277 NYTGDETIQLAISCL 291
               D+ I+LA+  L
Sbjct: 184 KV--DDAIELALKTL 196

>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 =  140 bits (353), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 72/195 (36%), Positives = 113/195 (57%), Gaps = 4/195 (2%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +D   TIFSPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  T T 
Sbjct: 6   YDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTE 64
Query: 158 -LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            LY L   +   + G+ AD+   +  AR  A ++   +   +P++ L  R++DI Q YTQ
Sbjct: 65  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 124
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
           +  +RP G S I   YD+  G  +Y ++P+G Y  +KA+SVG  T+ A + L+  +K   
Sbjct: 125 HGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDM 184
Query: 277 NYTGDETIQLAISCL 291
               D+ I+LA+  L
Sbjct: 185 KV--DDAIELALKTL 197

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

Iteration: 1
 Score =  140 bits (352), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 72/195 (36%), Positives = 113/195 (57%), Gaps = 4/195 (2%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +D   TIFSPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  T T 
Sbjct: 6   YDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTE 64
Query: 158 -LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            LY L   +   + G+ AD+   +  AR  A ++   +   +P++ L  R++DI Q YTQ
Sbjct: 65  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 124
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
           +  +RP G S I   YD+  G  +Y ++P+G Y  +KA+SVG  T+ A + L+  +K   
Sbjct: 125 HGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDM 184
Query: 277 NYTGDETIQLAISCL 291
               D+ I+LA+  L
Sbjct: 185 KV--DDAIELALKTL 197

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

Iteration: 1
 Score =  137 bits (345), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 71/190 (37%), Positives = 111/190 (58%), Gaps = 4/190 (2%)
Query: 103 TIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN-LYSL 161
           TIFSPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  T T  LY L
Sbjct: 1   TIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKL 59
Query: 162 TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMR 221
              +   + G+ AD+   +  AR  A ++   +   +P++ L  R++DI Q YTQ+  +R
Sbjct: 60  NDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLR 119
Query: 222 PLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGD 281
           P G S I   YD+  G  +Y ++P+G Y  +KA+SVG  T+ A + L+  +K       D
Sbjct: 120 PFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKV--D 177
Query: 282 ETIQLAISCL 291
           + I+LA+  L
Sbjct: 178 DAIELALKTL 187

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

Iteration: 1
 Score =  133 bits (334), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 71/194 (36%), Positives = 110/194 (56%), Gaps = 1/194 (0%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+  EKK    L D +TV  
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRK 61
Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           + +L   V     G+ AD+R  + RAR E  S +      + ++ +   IA + Q YTQ+
Sbjct: 62  ICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS 121
Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
              RP G S +++ +D +  P +Y+TDP+G Y ++KA ++G        +LEK +  +  
Sbjct: 122 NGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAI 181
Query: 278 YTGDETIQLAISCL 291
            T D TI+L I  L
Sbjct: 182 ETDDLTIKLVIKAL 195

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

Iteration: 1
 Score =  132 bits (332), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 71/194 (36%), Positives = 109/194 (56%), Gaps = 1/194 (0%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+  EKK    L D +TV  
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGKDIVVLGVEKKSVAKLQDERTVRK 61
Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           + +L   V     G+ AD+R  + RAR E  S +      + ++ +   IA + Q YTQ+
Sbjct: 62  ICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS 121
Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
              RP G S +++ +D +  P +Y+TDP+G Y ++KA ++G        +LEK +     
Sbjct: 122 NGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAI 181
Query: 278 YTGDETIQLAISCL 291
            T D TI+L I  L
Sbjct: 182 ETDDLTIKLVIKAL 195

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

Iteration: 1
 Score =  131 bits (329), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 68/187 (36%), Positives = 108/187 (57%), Gaps = 4/187 (2%)
Query: 106 SPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN-LYSLTPT 164
           SPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  T T  LY L   
Sbjct: 1   SPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDK 59
Query: 165 VGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLG 224
           +   + G+ AD+   +  AR  A ++   +   +P++ L  R++DI Q YTQ+  +RP G
Sbjct: 60  IAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFG 119
Query: 225 CSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI 284
            S I   YD+  G  +Y ++P+G Y  +KA+SVG  T+ A + L+  +K       D+ I
Sbjct: 120 VSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKV--DDAI 177
Query: 285 QLAISCL 291
           +LA+  L
Sbjct: 178 ELALKTL 184

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

Iteration: 1
 Score =  130 bits (326), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 70/194 (36%), Positives = 108/194 (55%), Gaps = 1/194 (0%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+   KK    L D +TV  
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGKDIVVLGVAKKSVAKLQDERTVRK 61
Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           + +L   V     G+ AD+R  + RAR E  S +      + ++ +   IA + Q YTQ+
Sbjct: 62  ICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS 121
Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
              RP G S +++ +D +  P +Y+TDP+G Y ++KA ++G        +LEK +     
Sbjct: 122 NGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAI 181
Query: 278 YTGDETIQLAISCL 291
            T D TI+L I  L
Sbjct: 182 ETDDLTIKLVIKAL 195

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

Iteration: 1
 Score =  127 bits (318), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 68/198 (34%), Positives = 111/198 (56%), Gaps = 4/198 (2%)
Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
           A+ G+   +T FSP G+L Q+EYA  A+  GG  SV +K  +  V+ATEKK    L D +
Sbjct: 2   AKRGYSFSLTTFSPSGKLVQIEYALAAV-AGGAPSVGIKAANGVVLATEKKQKSILYDER 60
Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
           +V  +  +T  +G V +GM  D R  V RAR  A  +   +   +P  QL  R+A + Q 
Sbjct: 61  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120
Query: 214 YTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK 273
           YTQ+  +RP G S+++  ++E   P ++++DP+G Y ++KA ++G       ++LEK++ 
Sbjct: 121 YTQSGGVRPFGVSLLICGWNEGR-PYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYN 179
Query: 274 KKTNYTGDETIQLAISCL 291
           +      ++ I  AI  L
Sbjct: 180 EDLEL--EDAIHTAILTL 195

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

Iteration: 1
 Score =  126 bits (316), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 68/198 (34%), Positives = 110/198 (55%), Gaps = 4/198 (2%)
Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
           A  G+   +T FSP G+L Q+EYA  A+  GG  SV +K  +  V+ATEKK    L D +
Sbjct: 1   AERGYSFSLTTFSPSGKLVQIEYALAAV-AGGAPSVGIKAANGVVLATEKKQKSILYDER 59
Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
           +V  +  +T  +G V +GM  D R  V RAR  A  +   +   +P  QL  R+A + Q 
Sbjct: 60  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 119
Query: 214 YTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK 273
           YTQ+  +RP G S+++  ++E   P ++++DP+G Y ++KA ++G       ++LEK++ 
Sbjct: 120 YTQSGGVRPFGVSLLICGWNEGR-PYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYN 178
Query: 274 KKTNYTGDETIQLAISCL 291
           +      ++ I  AI  L
Sbjct: 179 EDLEL--EDAIHTAILTL 194

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

Iteration: 1
 Score =  124 bits (311), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 70/197 (35%), Positives = 114/197 (57%), Gaps = 7/197 (3%)
Query: 99  DRH---ITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           DR+   +T FSP G+L Q++YA  A+ QG VTS+ +K  +  V+ATEKK    L   +T+
Sbjct: 3   DRYSFSLTTFSPSGKLGQIDYALTAVKQG-VTSLGIKATNGVVIATEKKSSSPLAMSETL 61
Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEA-ASFKYKHGYSMPIDQLCNRIADISQVY 214
           + +  LTP +G V +GM  D R  V ++R  A  S+K  +G   P   L + +A I Q  
Sbjct: 62  SKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEA 121
Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ+  +RP G S+++  +DE  G  +Y+ DP+G Y  +KA ++G  +  A ++LEK++  
Sbjct: 122 TQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWND 181
Query: 275 KTNYTGDETIQLAISCL 291
           +     ++ I +A+  L
Sbjct: 182 ELEL--EDAIHIALLTL 196

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

Iteration: 1
 Score =  124 bits (310), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 60/195 (30%), Positives = 112/195 (57%), Gaps = 5/195 (2%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+DR IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++  +K+V   L++  T+ 
Sbjct: 7   GYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEKDTIE 65
Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +Y +   +    +G+ AD+R  + RAR EA   +  +   + + +L  +I D  Q YTQ
Sbjct: 66  KIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQ 125
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
              +RP G S+++     NE P +Y+TDP+G    +KA ++G+       + EK+++   
Sbjct: 126 YGGVRPFGVSLLIAGV--NEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDL 183
Query: 277 NYTGDETIQLAISCL 291
           ++  D+ + L +  +
Sbjct: 184 SF--DDAMVLGLVAM 196

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

Iteration: 1
 Score =  123 bits (309), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 69/201 (34%), Positives = 114/201 (56%), Gaps = 4/201 (1%)
Query: 91  VQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLV 150
           +Q+ +  +DR IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L+
Sbjct: 5   MQQGQMAYDRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLI 63
Query: 151 DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
           +  ++  +  +   V  V +G+ AD+R  V  AR  A   K  +G  + I+ L  R+AD 
Sbjct: 64  EQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQ 123
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
            Q YTQ   +RP G S+I    D+  GP ++  DPAG    +KA ++G       S+LE+
Sbjct: 124 MQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKDAVVSFLER 182
Query: 271 KFKKKTNYTGDETIQLAISCL 291
           ++K+  N    E + L I  L
Sbjct: 183 EYKE--NLPEKEAVTLGIKAL 201

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

Iteration: 1
 Score =  123 bits (308), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 69/201 (34%), Positives = 114/201 (56%), Gaps = 4/201 (1%)
Query: 91  VQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLV 150
           +Q+ +  +DR IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L+
Sbjct: 1   MQQGQMAYDRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLI 59
Query: 151 DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
           +  ++  +  +   V  V +G+ AD+R  V  AR  A   K  +G  + I+ L  R+AD 
Sbjct: 60  EQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQ 119
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
            Q YTQ   +RP G S+I    D+  GP ++  DPAG    +KA ++G       S+LE+
Sbjct: 120 MQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKDAVVSFLER 178
Query: 271 KFKKKTNYTGDETIQLAISCL 291
           ++K+  N    E + L I  L
Sbjct: 179 EYKE--NLPEKEAVTLGIKAL 197

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

Iteration: 1
 Score =  120 bits (301), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 68/194 (35%), Positives = 110/194 (56%), Gaps = 4/194 (2%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L++  ++  
Sbjct: 2   YDRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIEQNSIEK 60
Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           +  +   V  V +G+ AD+R  V  AR  A   K  +G  + I+ L  R+AD  Q YTQ 
Sbjct: 61  IQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQY 120
Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
             +RP G S+I    D+  GP ++  DPAG    +KA ++G       S+LE+++K+  N
Sbjct: 121 GGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKE--N 177
Query: 278 YTGDETIQLAISCL 291
               E + L I  L
Sbjct: 178 LPEKEAVTLGIKAL 191

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

Iteration: 1
 Score =  120 bits (301), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 68/201 (33%), Positives = 113/201 (56%), Gaps = 4/201 (1%)
Query: 91  VQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLV 150
           +Q+ +  + R IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L+
Sbjct: 1   MQQGQMAYSRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLI 59
Query: 151 DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
           +  ++  +  +   V  V +G+ AD+R  V  AR  A   K  +G  + I+ L  R+AD 
Sbjct: 60  EQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQ 119
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
            Q YTQ   +RP G S+I    D+  GP ++  DPAG    +KA ++G       S+LE+
Sbjct: 120 MQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKDAVVSFLER 178
Query: 271 KFKKKTNYTGDETIQLAISCL 291
           ++K+  N    E + L I  L
Sbjct: 179 EYKE--NLPEKEAVTLGIKAL 197

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

Iteration: 1
 Score =  118 bits (295), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 56/179 (31%), Positives = 103/179 (57%), Gaps = 3/179 (1%)
Query: 100 RHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLY 159
           R IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++  +K+V   L++  T+  +Y
Sbjct: 1   RAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEADTIEKIY 59
Query: 160 SLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAE 219
            +   +    +G+ AD+R  + RAR EA   +  +   + + +L  +I D  Q YTQ   
Sbjct: 60  KIDEHICAATSGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQYTQYGG 119
Query: 220 MRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNY 278
           +RP G S+++   DE   P +Y+TDP+G    +KA ++G+       + EK+++   ++
Sbjct: 120 VRPFGVSLLIAGVDEV--PKLYETDPSGALLEYKATAIGMGRNAVTEFFEKEYRDDLSF 176

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

Iteration: 1
 Score =  118 bits (295), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 68/201 (33%), Positives = 112/201 (55%), Gaps = 4/201 (1%)
Query: 91  VQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLV 150
           +Q+ +    R IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L+
Sbjct: 5   MQQGQMAGGRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLI 63
Query: 151 DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
           +  ++  +  +   V  V +G+ AD+R  V  AR  A   K  +G  + I+ L  R+AD 
Sbjct: 64  EQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQ 123
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
            Q YTQ   +RP G S+I    D+  GP ++  DPAG    +KA ++G       S+LE+
Sbjct: 124 MQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKDAVVSFLER 182
Query: 271 KFKKKTNYTGDETIQLAISCL 291
           ++K+  N    E + L I  L
Sbjct: 183 EYKE--NLPEKEAVTLGIKAL 201

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

Iteration: 1
 Score =  117 bits (294), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 68/201 (33%), Positives = 112/201 (55%), Gaps = 4/201 (1%)
Query: 91  VQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLV 150
           +Q+ +    R IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L+
Sbjct: 1   MQQGQMAGGRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLI 59
Query: 151 DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
           +  ++  +  +   V  V +G+ AD+R  V  AR  A   K  +G  + I+ L  R+AD 
Sbjct: 60  EQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQ 119
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
            Q YTQ   +RP G S+I    D+  GP ++  DPAG    +KA ++G       S+LE+
Sbjct: 120 MQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKDAVVSFLER 178
Query: 271 KFKKKTNYTGDETIQLAISCL 291
           ++K+  N    E + L I  L
Sbjct: 179 EYKE--NLPEKEAVTLGIKAL 197

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

Iteration: 1
 Score =  117 bits (293), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 65/202 (32%), Positives = 118/202 (58%), Gaps = 10/202 (4%)
Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEK----KVPDSLVD 151
           +G+DR ++IFSP+G ++QVEYA +A+ +G   +V VKG +  V+  E+    K+ D+ + 
Sbjct: 2   SGYDRALSIFSPDGHIFQVEYALEAVKRG-TCAVGVKGKNCVVLGCERRSTLKLQDTRIT 60
Query: 152 PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADIS 211
           P  V+ + S    V    +G+ ADSR  +++AR EA S +      + ++ L   +A + 
Sbjct: 61  PSKVSKIDS---HVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQ 117
Query: 212 QVYTQNAEMRPLGCSMILISYD-ENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
           Q YTQ+  +RP G S ++  +D  ++ P +Y+T+P+G Y S+ A ++G  +     +LEK
Sbjct: 118 QRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEK 177
Query: 271 KF-KKKTNYTGDETIQLAISCL 291
            + +K+   T +E ++L +  L
Sbjct: 178 NYDRKEPPATVEECVKLTVRSL 199

>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 =  117 bits (293), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 65/202 (32%), Positives = 118/202 (58%), Gaps = 10/202 (4%)
Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEK----KVPDSLVD 151
           +G+DR ++IFSP+G ++QVEYA +A+ +G   +V VKG +  V+  E+    K+ D+ + 
Sbjct: 2   SGYDRALSIFSPDGHIFQVEYALEAVKRG-TCAVGVKGKNCVVLGCERRSTLKLQDTRIT 60
Query: 152 PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADIS 211
           P  V+ + S    V    +G+ ADSR  +++AR EA S +      + ++ L   +A + 
Sbjct: 61  PSKVSKIDS---HVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQ 117
Query: 212 QVYTQNAEMRPLGCSMILISYD-ENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
           Q YTQ+  +RP G S ++  +D  ++ P +Y+T+P+G Y S+ A ++G  +     +LEK
Sbjct: 118 QRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEK 177
Query: 271 KF-KKKTNYTGDETIQLAISCL 291
            + +K+   T +E ++L +  L
Sbjct: 178 NYDRKEPPATVEECVKLTVRSL 199

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

Iteration: 1
 Score =  116 bits (291), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 65/201 (32%), Positives = 117/201 (58%), Gaps = 10/201 (4%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEK----KVPDSLVDP 152
           G+DR ++IFSP+G ++QVEYA +A+ +G   +V VKG +  V+  E+    K+ D+ + P
Sbjct: 1   GYDRALSIFSPDGHIFQVEYALEAVKRG-TCAVGVKGKNCVVLGCERRSTLKLQDTRITP 59
Query: 153 KTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQ 212
             V+ + S    V    +G+ ADSR  +++AR EA S +      + ++ L   +A + Q
Sbjct: 60  SKVSKIDS---HVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQ 116
Query: 213 VYTQNAEMRPLGCSMILISYD-ENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKK 271
            YTQ+  +RP G S ++  +D  ++ P +Y+T+P+G Y S+ A ++G  +     +LEK 
Sbjct: 117 RYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKN 176
Query: 272 F-KKKTNYTGDETIQLAISCL 291
           + +K+   T +E ++L +  L
Sbjct: 177 YDRKEPPATVEECVKLTVRSL 197

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

Iteration: 1
 Score =  115 bits (289), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 59/174 (33%), Positives = 97/174 (55%), Gaps = 1/174 (0%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+D   + FSP+GR++QVEYA KA+ +   T++ ++  D  V   EK V   L +  +  
Sbjct: 7   GYDLSASTFSPDGRVFQVEYAMKAV-ENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 65
Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            L+++   VG  + G+ AD+R     AR EA++F+   GY++P+  L +R+A     YT 
Sbjct: 66  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTL 125
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
            + +RP GCS +L SY  N+G  +Y  DP+G    +   ++G     A + +EK
Sbjct: 126 YSAVRPFGCSFMLGSYSANDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEK 179

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

Iteration: 1
 Score =  115 bits (288), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 63/193 (32%), Positives = 106/193 (54%), Gaps = 7/193 (3%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +D   TIFSPEGRLYQVEYA +AI   G T + +   D  ++A E++    L+D    + 
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFFSE 63
Query: 158 -LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +Y L   + C + G+ +D+       R  A  +  ++   +P +QL   + DI Q YTQ
Sbjct: 64  KIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQ 123
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
               RP G S++ I +D++ G  +Y++DP+G Y  +KA  +G  +  A S L++ +K+  
Sbjct: 124 FGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE-- 181
Query: 277 NYTGDETIQLAIS 289
              G+ T++ A++
Sbjct: 182 ---GEMTLKSALA 191

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

Iteration: 1
 Score =  115 bits (288), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 63/193 (32%), Positives = 106/193 (54%), Gaps = 7/193 (3%)
Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +D   TIFSPEGRLYQVEYA +AI   G T + +   D  ++A E++    L+D    + 
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFFSE 63
Query: 158 -LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +Y L   + C + G+ +D+       R  A  +  ++   +P +QL   + DI Q YTQ
Sbjct: 64  KIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQ 123
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
               RP G S++ I +D++ G  +Y++DP+G Y  +KA  +G  +  A S L++ +K+  
Sbjct: 124 FGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE-- 181
Query: 277 NYTGDETIQLAIS 289
              G+ T++ A++
Sbjct: 182 ---GEMTLKSALA 191

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

Iteration: 1
 Score =  115 bits (287), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 59/174 (33%), Positives = 97/174 (55%), Gaps = 1/174 (0%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+D   + FSP+GR++QVEYA KA+ +   T++ ++  D  V   EK V   L +  +  
Sbjct: 6   GYDLSASTFSPDGRVFQVEYAMKAV-ENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64
Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            L+++   VG  + G+ AD+R     AR EA++F+   GY++P+  L +R+A     YT 
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTL 124
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
            + +RP GCS +L SY  N+G  +Y  DP+G    +   ++G     A + +EK
Sbjct: 125 YSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEK 178

>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 =  114 bits (286), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 94/174 (54%), Gaps = 2/174 (1%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+D   ++FSP+GR +QVEYA KA+ + G TS+ +K  D  V A EK +   L+ P+   
Sbjct: 6   GYDLSNSVFSPDGRNFQVEYAVKAV-ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 64
Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +  +   +GCV +G+  D R+ V R R EAASFK  +   +PI    +R+    Q +T 
Sbjct: 65  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 124
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
              +RP G S I    D+N G  +Y  +P+G Y  +K  + G     A + LEK
Sbjct: 125 YNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 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 =  114 bits (286), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 94/174 (54%), Gaps = 2/174 (1%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+D   ++FSP+GR +QVEYA KA+ + G TS+ +K  D  V A EK +   L+ P+   
Sbjct: 7   GYDLSNSVFSPDGRNFQVEYAVKAV-ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 65
Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +  +   +GCV +G+  D R+ V R R EAASFK  +   +PI    +R+    Q +T 
Sbjct: 66  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 125
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
              +RP G S I    D+N G  +Y  +P+G Y  +K  + G     A + LEK
Sbjct: 126 YNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 178

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

Iteration: 1
 Score =  114 bits (286), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 94/174 (54%), Gaps = 2/174 (1%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+D   ++FSP+GR +QVEYA KA+ + G TS+ +K  D  V A EK +   L+ P+   
Sbjct: 3   GYDLSNSVFSPDGRNFQVEYAVKAV-ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61
Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +  +   +GCV +G+  D R+ V R R EAASFK  +   +PI    +R+    Q +T 
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 121
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
              +RP G S I    D+N G  +Y  +P+G Y  +K  + G     A + LEK
Sbjct: 122 YNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 174

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

Iteration: 1
 Score =  114 bits (286), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 94/174 (54%), Gaps = 2/174 (1%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+D   ++FSP+GR +QVEYA KA+ + G TS+ +K  D  V A EK +   L+ P+   
Sbjct: 7   GYDLSNSVFSPDGRNFQVEYAVKAV-ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 65
Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +  +   +GCV +G+  D R+ V R R EAASFK  +   +PI    +R+    Q +T 
Sbjct: 66  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 125
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
              +RP G S I    D+N G  +Y  +P+G Y  +K  + G     A + LEK
Sbjct: 126 YNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 178

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

Iteration: 1
 Score =  114 bits (285), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 94/174 (54%), Gaps = 2/174 (1%)
Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+D   ++FSP+GR +QVEYA KA+ + G TS+ +K  D  V A EK +   L+ P+   
Sbjct: 1   GYDLSNSVFSPDGRNFQVEYAVKAV-ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 59
Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +  +   +GCV +G+  D R+ V R R EAASFK  +   +PI    +R+    Q +T 
Sbjct: 60  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 119
Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
              +RP G S I    D+N G  +Y  +P+G Y  +K  + G     A + LEK
Sbjct: 120 YNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEK 172

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

Iteration: 1
 Score =  111 bits (277), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 62/180 (34%), Positives = 103/180 (57%), Gaps = 4/180 (2%)
Query: 113 QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGM 172
           Q++YA  A+ QG VTS+ +K  +  V+ATEKK    L   +T++ +  LTP +G V +GM
Sbjct: 1   QIDYALTAVKQG-VTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGM 59
Query: 173 QADSRYQVQRARYEA-ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS 231
             D R  V ++R  A  S+K  +G   P   L + +A I Q  TQ+  +RP G S+++  
Sbjct: 60  GPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAG 119
Query: 232 YDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
           +DE  G  +Y+ DP+G Y  +KA ++G  +  A ++LEK++  +     ++ I +A+  L
Sbjct: 120 HDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELEL--EDAIHIALLTL 177

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

Iteration: 1
 Score =  107 bits (268), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 51/185 (27%), Positives = 105/185 (56%), Gaps = 7/185 (3%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R+ +DR +  FSPEGRL+QVEYA +AI  G  T++ ++  +   +A EK++   L++P +
Sbjct: 5   RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSS 63
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +  +   +GC M+G+ AD++  + +AR E  +  + +  +M ++ +   +++++  +
Sbjct: 64  IEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQF 123
Query: 215 TQN-----AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLE 269
            +      A  RP G +++    DE +GP ++  DP+G +    A ++G  +  A S L+
Sbjct: 124 GEEDADPGAMSRPFGVALLFGGVDE-KGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQ 182
Query: 270 KKFKK 274
           + + K
Sbjct: 183 EVYHK 187

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

Iteration: 1
 Score =  105 bits (262), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 50/185 (27%), Positives = 104/185 (56%), Gaps = 7/185 (3%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R+ +DR +  FSPEGRL+QVEY  +AI  G  T++ ++  +   +A EK++   L++P +
Sbjct: 5   RSEYDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSS 63
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +  +   +GC M+G+ AD++  + +AR E  +  + +  +M ++ +   +++++  +
Sbjct: 64  IEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQF 123
Query: 215 TQN-----AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLE 269
            +      A  RP G +++    DE +GP ++  DP+G +    A ++G  +  A S L+
Sbjct: 124 GEEDADPGAMSRPFGVALLFGGVDE-KGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQ 182
Query: 270 KKFKK 274
           + + K
Sbjct: 183 ELYHK 187

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

Iteration: 1
 Score =  100 bits (249), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 48/194 (24%), Positives = 102/194 (52%), Gaps = 4/194 (2%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R+ +DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  +
Sbjct: 5   RSEYDRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDS 63
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +  +   +GC M+G+ AD+R  ++ AR  A +    +   + ++ L   + D++   
Sbjct: 64  IEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLAAAA 123
Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
             +   RP G ++++  +D ++G  ++  +P+G +  + A ++G  +  A + L  ++  
Sbjct: 124 AMS---RPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHS 180
Query: 275 KTNYTGDETIQLAI 288
                  E + L I
Sbjct: 181 SLTLKEAELLVLKI 194

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

Iteration: 1
 Score =  100 bits (249), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 49/200 (24%), Positives = 104/200 (52%), Gaps = 7/200 (3%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R+ +DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  +
Sbjct: 7   RSEYDRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDS 65
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +  +   +GC M+G+ AD+R  ++ AR  A +    +   + ++ L   + D++  +
Sbjct: 66  IEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRF 125
Query: 215 TQNAE------MRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYL 268
            + A        RP G ++++  +D ++G  ++  +P+G +  + A ++G  +  A + L
Sbjct: 126 GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 185
Query: 269 EKKFKKKTNYTGDETIQLAI 288
             ++         E + L I
Sbjct: 186 LNEWHSSLTLKEAELLVLKI 205

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

Iteration: 1
 Score =  100 bits (249), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 49/200 (24%), Positives = 104/200 (52%), Gaps = 7/200 (3%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R+ +DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  +
Sbjct: 5   RSEYDRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDS 63
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +  +   +GC M+G+ AD+R  ++ AR  A +    +   + ++ L   + D++  +
Sbjct: 64  IEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRF 123
Query: 215 TQNAE------MRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYL 268
            + A        RP G ++++  +D ++G  ++  +P+G +  + A ++G  +  A + L
Sbjct: 124 GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 183
Query: 269 EKKFKKKTNYTGDETIQLAI 288
             ++         E + L I
Sbjct: 184 LNEWHSSLTLKEAELLVLKI 203

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

Iteration: 1
 Score =  100 bits (248), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/200 (24%), Positives = 104/200 (52%), Gaps = 7/200 (3%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R+ +DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  +
Sbjct: 6   RSEYDRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDS 64
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +  +   +GC M+G+ AD+R  ++ AR  A +    +   + ++ L   + D++  +
Sbjct: 65  IEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRF 124
Query: 215 TQNAE------MRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYL 268
            + A        RP G ++++  +D ++G  ++  +P+G +  + A ++G  +  A + L
Sbjct: 125 GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 184
Query: 269 EKKFKKKTNYTGDETIQLAI 288
             ++         E + L I
Sbjct: 185 LNEWHSSLTLKEAELLVLKI 204

>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 =  100 bits (248), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/200 (24%), Positives = 104/200 (52%), Gaps = 7/200 (3%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R+ +DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  +
Sbjct: 5   RSEYDRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDS 63
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +  +   +GC M+G+ AD+R  ++ AR  A +    +   + ++ L   + D++  +
Sbjct: 64  IEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRF 123
Query: 215 TQNAE------MRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYL 268
            + A        RP G ++++  +D ++G  ++  +P+G +  + A ++G  +  A + L
Sbjct: 124 GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 183
Query: 269 EKKFKKKTNYTGDETIQLAI 288
             ++         E + L I
Sbjct: 184 LNEWHSSLTLKEAELLVLKI 203

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

Iteration: 1
 Score = 99.4 bits (246), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 55/197 (27%), Positives = 101/197 (51%), Gaps = 4/197 (2%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D  +T++SP+GR++Q+EYA +A+ QG  T V +K    AV+   K+    L   + 
Sbjct: 3   RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSAT-VGLKSKTHAVLVALKRAQSELAAHQ- 60
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
              +  +   +G  + G+ AD+R      R E    ++     +P+ +L + I   +Q+ 
Sbjct: 61  -KKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIP 119
Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ    RP G  +++  YD+  GP I++T P+  Y   +A+S+G ++  A +YLE+   +
Sbjct: 120 TQRYGRRPYGVGLLIAGYDDM-GPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSE 178
Query: 275 KTNYTGDETIQLAISCL 291
                 DE ++  +  L
Sbjct: 179 FMECNLDELVKHGLRAL 195

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

Iteration: 1
 Score = 97.8 bits (242), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 48/196 (24%), Positives = 101/196 (51%), Gaps = 7/196 (3%)
Query: 99  DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNL 158
           DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  ++  +
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKI 59
Query: 159 YSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNA 218
             +   +GC M+G+ AD+R  ++ AR  A +    +   + ++ L   + D++  + + A
Sbjct: 60  VEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGA 119
Query: 219 E------MRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKF 272
                   RP G ++++  +D ++G  ++  +P+G +  + A ++G  +  A + L  ++
Sbjct: 120 SGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEW 179
Query: 273 KKKTNYTGDETIQLAI 288
                    E + L I
Sbjct: 180 HSSLTLKEAELLVLKI 195

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

Iteration: 1
 Score = 97.1 bits (240), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 54/197 (27%), Positives = 101/197 (51%), Gaps = 4/197 (2%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D  +T++SP+GR++Q+EYA +A+ QG  T V +K    AV+   K+    L   + 
Sbjct: 3   RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSAT-VGLKSKTHAVLVALKRAQSELAAHQ- 60
Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
              +  +   +G  + G+ AD+R      R E    ++     +P+ +L + I   +Q+ 
Sbjct: 61  -KKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIP 119
Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ    RP G  +++  YD+  GP I++T P+  Y   +A+S+G ++  A +YLE+   +
Sbjct: 120 TQRYGRRPYGVGLLIAGYDDM-GPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSE 178
Query: 275 KTNYTGDETIQLAISCL 291
                 +E ++  +  L
Sbjct: 179 FMECNLNELVKHGLRAL 195

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

Iteration: 1
 Score = 95.9 bits (237), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 57/187 (30%), Positives = 105/187 (56%), Gaps = 10/187 (5%)
Query: 111 LYQVEYAFKAINQGGVTSVAVKGVDTAVVATEK----KVPDSLVDPKTVTNLYSLTPTVG 166
           ++QVEYA +A+ +G   +V VKG +  V+  E+    K+ D+ + P  V+ + S    V 
Sbjct: 1   IFQVEYALEAVKRG-TCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDS---HVV 56
Query: 167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCS 226
              +G+ ADSR  +++AR EA S +      + ++ L   +A + Q YTQ+  +RP G S
Sbjct: 57  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVS 116
Query: 227 MILISYD-ENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKF-KKKTNYTGDETI 284
            ++  +D  ++ P +Y+T+P+G Y S+ A ++G  +     +LEK + +K+   T +E +
Sbjct: 117 TLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECV 176
Query: 285 QLAISCL 291
           +L +  L
Sbjct: 177 KLTVRSL 183

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

Iteration: 1
 Score = 81.6 bits (200), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 57/203 (28%), Positives = 98/203 (48%), Gaps = 14/203 (6%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D     FSP GRL+QVEYA +AI QG VT V ++    AV+   K+  D L   + 
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQ- 59
Query: 155 VTNLYSLTPTVGCVMTGMQADSR----YQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
              +      +G  + G+  D+R    Y  Q+  Y +  F  K    + +++  + + D 
Sbjct: 60  -KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRK----LAVERAGHLLCDK 114
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
           +Q  TQ+A  RP G  +++I YD++ G  + +  P+G        ++G ++  A +YLE+
Sbjct: 115 AQKNTQSAGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 173
Query: 271 KFKK--KTNYTGDETIQLAISCL 291
                 K +   DE I+  +  +
Sbjct: 174 TLDTFIKIDGNPDELIKAGVEAI 196

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

Iteration: 1
 Score = 81.3 bits (199), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 57/203 (28%), Positives = 98/203 (48%), Gaps = 14/203 (6%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D     FSP GRL+QVEYA +AI QG VT V ++    AV+   K+  D L   + 
Sbjct: 3   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQ- 60
Query: 155 VTNLYSLTPTVGCVMTGMQADSR----YQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
              +      +G  + G+  D+R    Y  Q+  Y +  F  K    + +++  + + D 
Sbjct: 61  -KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRK----LAVERAGHLLCDK 115
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
           +Q  TQ+A  RP G  +++I YD++ G  + +  P+G        ++G ++  A +YLE+
Sbjct: 116 AQKNTQSAGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 174
Query: 271 KFKK--KTNYTGDETIQLAISCL 291
                 K +   DE I+  +  +
Sbjct: 175 TLDTFIKIDGNPDELIKAGVEAI 197

>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 = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 56/203 (27%), Positives = 97/203 (47%), Gaps = 14/203 (6%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D     FSP GRL+QVEYA +AI QG VT V ++    AV+   K+  D L   + 
Sbjct: 3   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQ- 60
Query: 155 VTNLYSLTPTVGCVMTGMQADSR----YQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
              +      +G  + G+  D+R    Y  Q+  Y +  F  K    + +++  + + D 
Sbjct: 61  -KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRK----LAVERAGHLLCDK 115
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
           +Q  TQ+   RP G  +++I YD++ G  + +  P+G        ++G ++  A +YLE+
Sbjct: 116 AQKNTQSYGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 174
Query: 271 KFKK--KTNYTGDETIQLAISCL 291
                 K +   DE I+  +  +
Sbjct: 175 TLDTFIKIDGNPDELIKAGVEAI 197

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 56/203 (27%), Positives = 97/203 (47%), Gaps = 14/203 (6%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D     FSP GRL+QVEYA +AI QG VT V ++    AV+   K+  D L   + 
Sbjct: 4   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQ- 61
Query: 155 VTNLYSLTPTVGCVMTGMQADSR----YQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
              +      +G  + G+  D+R    Y  Q+  Y +  F  K    + +++  + + D 
Sbjct: 62  -KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRK----LAVERAGHLLCDK 116
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
           +Q  TQ+   RP G  +++I YD++ G  + +  P+G        ++G ++  A +YLE+
Sbjct: 117 AQKNTQSYGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 175
Query: 271 KFKK--KTNYTGDETIQLAISCL 291
                 K +   DE I+  +  +
Sbjct: 176 TLDTFIKIDGNPDELIKAGVEAI 198

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 56/203 (27%), Positives = 97/203 (47%), Gaps = 14/203 (6%)
Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D     FSP GRL+QVEYA +AI QG VT V ++    AV+   K+  D L   + 
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQ- 59
Query: 155 VTNLYSLTPTVGCVMTGMQADSR----YQVQRARYEAASFKYKHGYSMPIDQLCNRIADI 210
              +      +G  + G+  D+R    Y  Q+  Y +  F  K    + +++  + + D 
Sbjct: 60  -KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRK----LAVERAGHLLCDK 114
Query: 211 SQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEK 270
           +Q  TQ+   RP G  +++I YD++ G  + +  P+G        ++G ++  A +YLE+
Sbjct: 115 AQKNTQSYGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 173
Query: 271 KFKK--KTNYTGDETIQLAISCL 291
                 K +   DE I+  +  +
Sbjct: 174 TLDTFIKIDGNPDELIKAGVEAI 196

>pdb|3H4P|AA Chain a, Proteasome 20s Core Particle From Methanocaldococcus Jannaschii Length = 219

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 40/167 (23%), Positives = 76/167 (45%), Gaps = 8/167 (4%)
Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T+V +   D  ++AT+K+    +LV  K    LY +   +   + G   D++  V+    
Sbjct: 3   TTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIA 62
Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           EA  +K + G ++P       +++I      ++ M P    +I+  YD  EG  ++  DP
Sbjct: 63  EAKLYKMRTGRNIPPLACATLLSNI----LHSSRMFPFLTQIIIGGYDLLEGAKLFSLDP 118
Query: 246 AGYYCSFKA-VSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G     K   + G  +  A   LE  + +  + + +E I+LA++ L
Sbjct: 119 LGGMNEEKTFTATGSGSPIAYGVLEAGYDR--DMSVEEGIKLALNAL 163

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	291
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-103
1iru_A	246	20S proteasome; cell cycle, immune response, prote	4e-48
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	1e-101
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	3e-44
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-99
1iru_D	248	20S proteasome; cell cycle, immune response, prote	2e-41
1iru_B	233	20S proteasome; cell cycle, immune response, prote	7e-98
1iru_B	233	20S proteasome; cell cycle, immune response, prote	4e-43
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	6e-96
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	5e-42
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	7e-95
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	2e-41
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	7e-95
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	3e-42
1iru_E	241	20S proteasome; cell cycle, immune response, prote	9e-94
1iru_E	241	20S proteasome; cell cycle, immune response, prote	3e-41
1iru_F	263	20S proteasome; cell cycle, immune response, prote	3e-93
1iru_F	263	20S proteasome; cell cycle, immune response, prote	2e-38
1iru_G	254	20S proteasome; cell cycle, immune response, prote	4e-92
1iru_G	254	20S proteasome; cell cycle, immune response, prote	8e-37
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	2e-91
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	3e-37
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-90
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-37
1iru_C	261	20S proteasome; cell cycle, immune response, prote	3e-90
1iru_C	261	20S proteasome; cell cycle, immune response, prote	1e-34
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	4e-90
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	8e-36
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	4e-90
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	7e-35
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	2e-89
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	3e-36
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	3e-89
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	2e-33
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	2e-88
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	2e-32
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	6e-27
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	2e-09
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-25
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	7e-07
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	5e-23
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	2e-04
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	3e-21
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	6e-04
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	1e-19
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	2e-19
1iru_I	234	20S proteasome; cell cycle, immune response, prote	2e-19
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	6e-18
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	7e-17
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	3e-16
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	5e-16
1iru_L	204	20S proteasome; cell cycle, immune response, prote	1e-15
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	3e-15
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	1e-14
1iru_H	205	20S proteasome; cell cycle, immune response, prote	1e-14
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-14
1iru_K	201	20S proteasome; cell cycle, immune response, prote	1e-13
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	3e-13
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	4e-13
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	7e-13
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	2e-12
1iru_M	213	20S proteasome; cell cycle, immune response, prote	2e-12
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	5e-12
1iru_J	205	20S proteasome; cell cycle, immune response, prote	1e-11
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	2e-11
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	4e-10
1iru_N	219	20S proteasome; cell cycle, immune response, prote	7e-10

>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 =  299 bits (768), Expect = e-103
 Identities = 141/198 (71%), Positives = 168/198 (84%)

Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
           + AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  
Sbjct: 5   SSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSS 64

Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
           TVT+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQV
Sbjct: 65  TVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQV 124

Query: 214 YTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK 273
           YTQNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK K
Sbjct: 125 YTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVK 184

Query: 274 KKTNYTGDETIQLAISCL 291
           KK ++T ++T++ AI+CL
Sbjct: 185 KKFDWTFEQTVETAITCL 202

>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 =  159 bits (405), Expect = 4e-48
 Identities = 75/95 (78%), Positives = 84/95 (88%)

Query: 1  MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSL 60
          MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L
Sbjct: 1  MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query: 61 VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          +D  TVT+L+ +T  +GCVMTGM ADSR QVQRAR
Sbjct: 61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRAR 95

>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 =  295 bits (757), Expect = e-101
 Identities = 103/201 (51%), Positives = 137/201 (68%), Gaps = 5/201 (2%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AG+DRHITIFSPEGRLYQVEYAFKA NQ  + S+AV+G D  VV ++KKVPD L+DP TV
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           + ++ ++ T+G V+ G   D+R    RA+ EAA F+YK+GY MP D L  R+A++SQ+YT
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           Q A MRPLG  +  +S DE  GP IYKTDPAGYY  +KA + G K  E  + LE  FKK 
Sbjct: 121 QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKS 180

Query: 276 T-----NYTGDETIQLAISCL 291
                   + ++ ++ AI+ +
Sbjct: 181 KIDHINEESWEKVVEFAITHM 201

>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 =  149 bits (379), Expect = 3e-44
 Identities = 51/89 (57%), Positives = 67/89 (75%)

Query: 7  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 66
          AG+DRHITIFSPEGRLYQVEYAFKA NQ  + S+AV+G D  VV ++KKVPD L+DP TV
Sbjct: 1  AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 67 TNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          + ++ ++ T+G V+ G   D+R    RA+
Sbjct: 61 SYIFCISRTIGMVVNGPIPDARNAALRAK 89

>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 =  291 bits (747), Expect = 1e-99
 Identities = 71/195 (36%), Positives = 110/195 (56%), Gaps = 1/195 (0%)

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
            +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+  EKK    L D +TV 
Sbjct: 2   SYDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVR 60

Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            + +L   V     G+ AD+R  + RAR E  S +      + ++ +   IA + Q YTQ
Sbjct: 61  KICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQ 120

Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
           +   RP G S +++ +D +  P +Y+TDP+G Y ++KA ++G        +LEK +  + 
Sbjct: 121 SNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEA 180

Query: 277 NYTGDETIQLAISCL 291
             T D TI+L I  L
Sbjct: 181 IETDDLTIKLVIKAL 195

>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 =  142 bits (361), Expect = 2e-41
 Identities = 38/88 (43%), Positives = 54/88 (61%), Gaps = 1/88 (1%)

Query: 8  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 67
           +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+  EKK    L D +TV 
Sbjct: 2  SYDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVR 60

Query: 68 NLYSLTPTVGCVMTGMQADSRYQVQRAR 95
           + +L   V     G+ AD+R  + RAR
Sbjct: 61 KICALDDNVCMAFAGLTADARIVINRAR 88

>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 =  286 bits (734), Expect = 7e-98
 Identities = 67/198 (33%), Positives = 110/198 (55%), Gaps = 4/198 (2%)

Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
           A  G+   +T FSP G+L Q+EYA  A+  G   SV +K  +  V+ATEKK    L D +
Sbjct: 1   AERGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDER 59

Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
           +V  +  +T  +G V +GM  D R  V RAR  A  +   +   +P  QL  R+A + Q 
Sbjct: 60  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 119

Query: 214 YTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK 273
           YTQ+  +RP G S+++  ++E   P ++++DP+G Y ++KA ++G       ++LEK++ 
Sbjct: 120 YTQSGGVRPFGVSLLICGWNE-GRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYN 178

Query: 274 KKTNYTGDETIQLAISCL 291
           +  +   ++ I  AI  L
Sbjct: 179 E--DLELEDAIHTAILTL 194

>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 =  146 bits (370), Expect = 4e-43
 Identities = 36/91 (39%), Positives = 51/91 (56%), Gaps = 1/91 (1%)

Query: 5  SSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 64
          +  G+   +T FSP G+L Q+EYA  A+  G   SV +K  +  V+ATEKK    L D +
Sbjct: 1  AERGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDER 59

Query: 65 TVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          +V  +  +T  +G V +GM  D R  V RAR
Sbjct: 60 SVHKVEPITKHIGLVYSGMGPDYRVLVHRAR 90

>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 =  282 bits (723), Expect = 6e-96
 Identities = 67/197 (34%), Positives = 110/197 (55%), Gaps = 4/197 (2%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             +   +T FSP G+L Q++YA  A+ QG  TS+ +K  +  V+ATEKK    L   +T+
Sbjct: 3   DRYSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSETL 61

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEA-ASFKYKHGYSMPIDQLCNRIADISQVY 214
           + +  LTP +G V +GM  D R  V ++R  A  S+K  +G   P   L + +A I Q  
Sbjct: 62  SKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEA 121

Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ+  +RP G S+++  +DE  G  +Y+ DP+G Y  +KA ++G  +  A ++LEK++  
Sbjct: 122 TQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWND 181

Query: 275 KTNYTGDETIQLAISCL 291
                 ++ I +A+  L
Sbjct: 182 --ELELEDAIHIALLTL 196

>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 =  143 bits (364), Expect = 5e-42
 Identities = 34/90 (37%), Positives = 53/90 (58%), Gaps = 1/90 (1%)

Query: 6  SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 65
          +  +   +T FSP G+L Q++YA  A+ QG  TS+ +K  +  V+ATEKK    L   +T
Sbjct: 2  TDRYSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSET 60

Query: 66 VTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          ++ +  LTP +G V +GM  D R  V ++R
Sbjct: 61 LSKVSLLTPDIGAVYSGMGPDYRVLVDKSR 90

>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 =  279 bits (715), Expect = 7e-95
 Identities = 64/197 (32%), Positives = 98/197 (49%), Gaps = 3/197 (1%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
            G+D   ++FSP+GR +QVEYA KA+  G  TS+ +K  D  V A EK +   L+ P+  
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKN 60

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             +  +   +GCV +G+  D R+ V R R EAASFK  +   +PI    +R+    Q +T
Sbjct: 61  VKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT 120

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
               +RP G S I    D+  G  +Y  +P+G Y  +K  + G     A + LEK     
Sbjct: 121 LYNSVRPFGVSTIFGGVDK-NGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 179

Query: 276 T-NYTGDETIQLAISCL 291
               +  E ++ A   +
Sbjct: 180 PEGLSAREAVKQAAKII 196

>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 =  142 bits (360), Expect = 2e-41
 Identities = 34/89 (38%), Positives = 51/89 (57%), Gaps = 1/89 (1%)

Query: 7  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 66
           G+D   ++FSP+GR +QVEYA KA+  G  TS+ +K  D  V A EK +   L+ P+  
Sbjct: 2  TGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKN 60

Query: 67 TNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
            +  +   +GCV +G+  D R+ V R R
Sbjct: 61 VKIQVVDRHIGCVYSGLIPDGRHLVNRGR 89

>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 =  280 bits (719), Expect = 7e-95
 Identities = 64/198 (32%), Positives = 98/198 (49%), Gaps = 3/198 (1%)

Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
             G+D   ++FSP+GR +QVEYA KA+  G  TS+ +K  D  V A EK +   L+ P+ 
Sbjct: 5   GTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQK 63

Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
              +  +   +GCV +G+  D R+ V R R EAASFK  +   +PI    +R+    Q +
Sbjct: 64  NVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAH 123

Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           T    +RP G S I    D+  G  +Y  +P+G Y  +K  + G     A + LEK    
Sbjct: 124 TLYNSVRPFGVSTIFGGVDK-NGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDH 182

Query: 275 KT-NYTGDETIQLAISCL 291
                +  E ++ A   +
Sbjct: 183 HPEGLSAREAVKQAAKII 200

>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 =  145 bits (368), Expect = 3e-42
 Identities = 35/95 (36%), Positives = 53/95 (55%), Gaps = 2/95 (2%)

Query: 1  MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSL 60
          M+     G+D   ++FSP+GR +QVEYA KA+  G  TS+ +K  D  V A EK +   L
Sbjct: 1  MT-SIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKL 58

Query: 61 VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          + P+    +  +   +GCV +G+  D R+ V R R
Sbjct: 59 LVPQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGR 93

>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 =  275 bits (707), Expect = 9e-94
 Identities = 54/203 (26%), Positives = 112/203 (55%), Gaps = 9/203 (4%)

Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
            R+ +DR +  FSPEGRL+QVEY  +AI  G  T++ ++  +   +A EK++   L++P 
Sbjct: 4   TRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPS 62

Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
           ++  +  +   +GC M+G+ AD++  + +AR E  +  + +  +M ++ +   +++++  
Sbjct: 63  SIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQ 122

Query: 214 YTQN-----AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYL 268
           + +      A  RP G +++    DE +GP ++  DP+G +    A ++G  +  A S L
Sbjct: 123 FGEEDADPGAMSRPFGVALLFGGVDE-KGPQLFHMDPSGTFVQCDARAIGSASEGAQSSL 181

Query: 269 EKKFKKKTNYTGDETIQLAISCL 291
           ++ + K  + T  E I+ ++  L
Sbjct: 182 QELYHK--SMTLKEAIKSSLIIL 202

>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 =  141 bits (359), Expect = 3e-41
 Identities = 30/91 (32%), Positives = 57/91 (62%), Gaps = 1/91 (1%)

Query: 5  SSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 64
          + + +DR +  FSPEGRL+QVEY  +AI  G  T++ ++  +   +A EK++   L++P 
Sbjct: 4  TRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPS 62

Query: 65 TVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          ++  +  +   +GC M+G+ AD++  + +AR
Sbjct: 63 SIEKIVEIDAHIGCAMSGLIADAKTLIDKAR 93

>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 =  275 bits (706), Expect = 3e-93
 Identities = 53/198 (26%), Positives = 100/198 (50%), Gaps = 4/198 (2%)

Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
            R  +D  +T++SP+GR++Q+EYA +A+ QG   +V +K    AV+   K+    L    
Sbjct: 2   FRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSELAAH- 59

Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
               +  +   +G  + G+ AD+R      R E    ++     +P+ +L + I   +Q+
Sbjct: 60  -QKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQI 118

Query: 214 YTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK 273
            TQ    RP G  +++  YD+  GP I++T P+  Y   +A+S+G ++  A +YLE+   
Sbjct: 119 PTQRYGRRPYGVGLLIAGYDD-MGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMS 177

Query: 274 KKTNYTGDETIQLAISCL 291
           +      +E ++  +  L
Sbjct: 178 EFMECNLNELVKHGLRAL 195

>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 =  135 bits (341), Expect = 2e-38
 Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 6/95 (6%)

Query: 1  MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSL 60
          M R     +D  +T++SP+GR++Q+EYA +A+ QG   +V +K    AV+   K+    L
Sbjct: 1  MFRN---QYDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSEL 56

Query: 61 VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
                  +  +   +G  + G+ AD+R      R
Sbjct: 57 AAH--QKKILHVDNHIGISIAGLTADARLLCNFMR 89

>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 =  272 bits (698), Expect = 4e-92
 Identities = 61/196 (31%), Positives = 102/196 (52%), Gaps = 3/196 (1%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
            G+D   + FSP+GR++QVEYA KA+     T++ ++  D  V   EK V   L +  + 
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGSN 63

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             L+++   VG  + G+ AD+R     AR EA++F+   GY++P+  L +R+A     YT
Sbjct: 64  KRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYT 123

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             + +RP GCS +L SY  N+G  +Y  DP+G    +   ++G     A + +EK   K 
Sbjct: 124 LYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMK- 182

Query: 276 TNYTGDETIQLAISCL 291
              T  + ++     +
Sbjct: 183 -EMTCRDIVKEVAKII 197

>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 =  130 bits (329), Expect = 8e-37
 Identities = 30/92 (32%), Positives = 48/92 (52%), Gaps = 1/92 (1%)

Query: 4  GSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP 63
              G+D   + FSP+GR++QVEYA KA+     T++ ++  D  V   EK V   L + 
Sbjct: 2  SIGTGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEE 60

Query: 64 KTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
           +   L+++   VG  + G+ AD+R     AR
Sbjct: 61 GSNKRLFNVDRHVGMAVAGLLADARSLADIAR 92

>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 =  269 bits (691), Expect = 2e-91
 Identities = 68/200 (34%), Positives = 112/200 (56%), Gaps = 4/200 (2%)

Query: 92  QRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVD 151
           Q+ +  + R IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L++
Sbjct: 2   QQGQMAYSRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIE 60

Query: 152 PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADIS 211
             ++  +  +   V  V +G+ AD+R  V  AR  A   K  +G  + I+ L  R+AD  
Sbjct: 61  QNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQM 120

Query: 212 QVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKK 271
           Q YTQ   +RP G S+I    D+  GP ++  DPAG    +KA ++G       S+LE++
Sbjct: 121 QQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKDAVVSFLERE 179

Query: 272 FKKKTNYTGDETIQLAISCL 291
           +K+  N    E + L I  L
Sbjct: 180 YKE--NLPEKEAVTLGIKAL 197

>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 =  130 bits (330), Expect = 3e-37
 Identities = 33/95 (34%), Positives = 58/95 (61%), Gaps = 2/95 (2%)

Query: 1  MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSL 60
          M +G    + R IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L
Sbjct: 1  MQQGQM-AYSRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRL 58

Query: 61 VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          ++  ++  +  +   V  V +G+ AD+R  V  AR
Sbjct: 59 IEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFAR 93

>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii} Length = 264

 Score =  269 bits (689), Expect = 1e-90
 Identities = 67/198 (33%), Positives = 117/198 (59%), Gaps = 4/198 (2%)

Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
             + +DR IT+FSPEGRLYQVEYA +A+ +G  T++ +   D  V+A ++++   LV  +
Sbjct: 8   PPSAYDRAITVFSPEGRLYQVEYAREAVRRGT-TAIGIACKDGVVLAVDRRITSKLVKIR 66

Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
           ++  ++ +   V    +G+ AD+R  + RAR EA  ++  +G  + I+ L  +I DI Q 
Sbjct: 67  SIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQA 126

Query: 214 YTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK 273
           YTQ+  +RP G S+++   D+     +++TDP+G    +KA ++G         LEK+++
Sbjct: 127 YTQHGGVRPFGVSLLIAGIDK-NEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYR 185

Query: 274 KKTNYTGDETIQLAISCL 291
              + T DE ++LAI+ L
Sbjct: 186 D--DITLDEGLELAITAL 201

>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii} Length = 264

 Score =  132 bits (335), Expect = 1e-37
 Identities = 34/95 (35%), Positives = 58/95 (61%), Gaps = 1/95 (1%)

Query: 1  MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSL 60
          M     + +DR IT+FSPEGRLYQVEYA +A+ +G  T++ +   D  V+A ++++   L
Sbjct: 4  MQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGT-TAIGIACKDGVVLAVDRRITSKL 62

Query: 61 VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          V  +++  ++ +   V    +G+ AD+R  + RAR
Sbjct: 63 VKIRSIEKIFQIDDHVAAATSGLVADARVLIDRAR 97

>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 =  268 bits (686), Expect = 3e-90
 Identities = 65/197 (32%), Positives = 104/197 (52%), Gaps = 3/197 (1%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             +D   TIFSPEGRLYQVEYA +AI   G T + +   D  ++A E++    L+D    
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFF 61

Query: 156 TN-LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +Y L   + C + G+ +D+       R  A  +  ++   +P +QL   + DI Q Y
Sbjct: 62  SEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAY 121

Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ    RP G S++ I +D++ G  +Y++DP+G Y  +KA  +G  +  A S L++ +K+
Sbjct: 122 TQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE 181

Query: 275 KTNYTGDETIQLAISCL 291
               T    + LAI  L
Sbjct: 182 G-EMTLKSALALAIKVL 197

>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 =  125 bits (315), Expect = 1e-34
 Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 2/91 (2%)

Query: 6  SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 65
          S  +D   TIFSPEGRLYQVEYA +AI   G T + +   D  ++A E++    L+D   
Sbjct: 2  SRRYDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVF 60

Query: 66 VTN-LYSLTPTVGCVMTGMQADSRYQVQRAR 95
           +  +Y L   + C + G+ +D+       R
Sbjct: 61 FSEKIYKLNEDMACSVAGITSDANVLTNELR 91

>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A {Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A* Length = 246

 Score =  267 bits (684), Expect = 4e-90
 Identities = 59/200 (29%), Positives = 113/200 (56%), Gaps = 5/200 (2%)

Query: 92  QRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVD 151
              + G+DR IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++  +K+V   L++
Sbjct: 2   HLPQMGYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLE 60

Query: 152 PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADIS 211
             T+  +Y +   +    +G+ AD+R  + RAR EA   +  +   + + +L  +I D  
Sbjct: 61  KDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFK 120

Query: 212 QVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKK 271
           Q YTQ   +RP G S+++   +  E P +Y+TDP+G    +KA ++G+       + EK+
Sbjct: 121 QQYTQYGGVRPFGVSLLIAGVN--EVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKE 178

Query: 272 FKKKTNYTGDETIQLAISCL 291
           ++   + + D+ + L +  +
Sbjct: 179 YRD--DLSFDDAMVLGLVAM 196

>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A {Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A* Length = 246

 Score =  127 bits (322), Expect = 8e-36
 Identities = 33/95 (34%), Positives = 58/95 (61%), Gaps = 2/95 (2%)

Query: 1  MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSL 60
          M      G+DR IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++  +K+V   L
Sbjct: 1  MHLPQM-GYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKL 58

Query: 61 VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          ++  T+  +Y +   +    +G+ AD+R  + RAR
Sbjct: 59 LEKDTIEKIYKIDEHICAATSGLVADARVLIDRAR 93

>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 =  266 bits (683), Expect = 4e-90
 Identities = 63/198 (31%), Positives = 113/198 (57%), Gaps = 4/198 (2%)

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TV 155
           G+DR ++IFSP+G ++QVEYA +A+ +G   +V VKG +  V+  E++    L D + T 
Sbjct: 1   GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITP 59

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           + +  +   V    +G+ ADSR  +++AR EA S +      + ++ L   +A + Q YT
Sbjct: 60  SKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT 119

Query: 216 QNAEMRPLGCSMILISYDENE-GPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           Q+  +RP G S ++  +D  +  P +Y+T+P+G Y S+ A ++G  +     +LEK + +
Sbjct: 120 QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDR 179

Query: 275 K-TNYTGDETIQLAISCL 291
           K    T +E ++L +  L
Sbjct: 180 KEPPATVEECVKLTVRSL 197

>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 =  125 bits (316), Expect = 7e-35
 Identities = 32/89 (35%), Positives = 55/89 (61%), Gaps = 2/89 (2%)

Query: 8  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TV 66
          G+DR ++IFSP+G ++QVEYA +A+ +G   +V VKG +  V+  E++    L D + T 
Sbjct: 1  GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITP 59

Query: 67 TNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          + +  +   V    +G+ ADSR  +++AR
Sbjct: 60 SKVSKIDSHVVLSFSGLNADSRILIEKAR 88

>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 =  265 bits (679), Expect = 2e-89
 Identities = 49/199 (24%), Positives = 103/199 (51%), Gaps = 9/199 (4%)

Query: 99  DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNL 158
           DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  ++  +
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKI 59

Query: 159 YSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNA 218
             +   +GC M+G+ AD+R  ++ AR  A +    +   + ++ L   + D++  + + A
Sbjct: 60  VEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGA 119

Query: 219 E------MRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKF 272
                   RP G ++++  +D ++G  ++  +P+G +  + A ++G  +  A + L  ++
Sbjct: 120 SGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEW 179

Query: 273 KKKTNYTGDETIQLAISCL 291
               + T  E   L +  L
Sbjct: 180 HS--SLTLKEAELLVLKIL 196

>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 =  128 bits (325), Expect = 3e-36
 Identities = 30/86 (34%), Positives = 53/86 (61%), Gaps = 1/86 (1%)

Query: 10 DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNL 69
          DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  ++  +
Sbjct: 1  DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKI 59

Query: 70 YSLTPTVGCVMTGMQADSRYQVQRAR 95
            +   +GC M+G+ AD+R  ++ AR
Sbjct: 60 VEIDRHIGCAMSGLTADARSMIEHAR 85

>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 =  264 bits (677), Expect = 3e-89
 Identities = 50/199 (25%), Positives = 89/199 (44%), Gaps = 6/199 (3%)

Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D     FSP GRL+QVEYA +AI QG   +V ++    AV+   K+  D L     
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELSS--Y 58

Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
              +      +G  + G+  D+R      R +           + +++  + + D +Q  
Sbjct: 59  QKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKN 118

Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ+   RP G  +++I YD+  G  + +  P+G        ++G ++  A +YLE+    
Sbjct: 119 TQSYGGRPYGVGLLIIGYDK-SGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDT 177

Query: 275 --KTNYTGDETIQLAISCL 291
             K +   DE I+  +  +
Sbjct: 178 FIKIDGNPDELIKAGVEAI 196

>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 =  120 bits (304), Expect = 2e-33
 Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 3/88 (3%)

Query: 8  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 67
           +D     FSP GRL+QVEYA +AI QG   +V ++    AV+   K+  D L       
Sbjct: 4  NYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELSS--YQK 60

Query: 68 NLYSLTPTVGCVMTGMQADSRYQVQRAR 95
           +      +G  + G+  D+R      R
Sbjct: 61 KIIKCDEHMGLSLAGLAPDARVLSNYLR 88

>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 =  263 bits (673), Expect = 2e-88
 Identities = 71/199 (35%), Positives = 113/199 (56%), Gaps = 4/199 (2%)

Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
               +D   TIFSPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  
Sbjct: 1   GSRRYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQD 59

Query: 154 T-VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQ 212
           T    LY L   +   + G+ AD+   +  AR  A ++   +   +P++ L  R++DI Q
Sbjct: 60  TSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQ 119

Query: 213 VYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKF 272
            YTQ+  +RP G S I   YD+  G  +Y ++P+G Y  +KA+SVG  T+ A + L+  +
Sbjct: 120 GYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY 179

Query: 273 KKKTNYTGDETIQLAISCL 291
           K   +   D+ I+LA+  L
Sbjct: 180 KD--DMKVDDAIELALKTL 196

>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 =  119 bits (300), Expect = 2e-32
 Identities = 36/91 (39%), Positives = 53/91 (58%), Gaps = 2/91 (2%)

Query: 6  SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 65
          S  +D   TIFSPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  T
Sbjct: 2  SRRYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDT 60

Query: 66 -VTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
              LY L   +   + G+ AD+   +  AR
Sbjct: 61 STEKLYKLNDKIAVAVAGLTADAEILINTAR 91

>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 =  104 bits (261), Expect = 6e-27
 Identities = 33/192 (17%), Positives = 68/192 (35%), Gaps = 17/192 (8%)

Query: 106 SPEGRLYQ-VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPT 164
           SPE  + +  E A K I +   + VA+      +   E          +++  +  L   
Sbjct: 8   SPEQAMRERSELARKGIARAK-SVVALAYAGGVLFVAENP-------SRSLQKISELYDR 59

Query: 165 VGCVMTGMQADSRYQVQRARYEAASFKYKHGY-SMPIDQLCNRIADISQVYTQNAEMRPL 223
           VG    G   +     +     A +  Y +    +   QL N  A          + +P 
Sbjct: 60  VGFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGT-IFTEQAKPY 118

Query: 224 GCSMI---LISYDENEGPLIYKTDPAG-YYCSFKAVSVGVKTTEANSYLEKKFKKKTNYT 279
              +    +  Y E + P +Y+    G        V +G  T    + L++ + +  N +
Sbjct: 119 EVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAE--NAS 176

Query: 280 GDETIQLAISCL 291
             + +++A++ L
Sbjct: 177 LTDALRIAVAAL 188

>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 = 56.1 bits (135), Expect = 2e-09
 Identities = 15/93 (16%), Positives = 28/93 (30%), Gaps = 9/93 (9%)

Query: 17  SPEGRLYQ-VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPT 75
           SPE  + +  E A K I +   + VA+      +   E          +++  +  L   
Sbjct: 8   SPEQAMRERSELARKGIARAK-SVVALAYAGGVLFVAENP-------SRSLQKISELYDR 59

Query: 76  VGCVMTGMQADSRYQVQRARAGFDRHITIFSPE 108
           VG    G   +     +      D     +   
Sbjct: 60  VGFAAAGKFNEFDNLRRGGIQFADTRGYAYDRR 92

>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 =  100 bits (251), Expect = 2e-25
 Identities = 29/193 (15%), Positives = 64/193 (33%), Gaps = 19/193 (9%)

Query: 106 SPEGRLYQ-VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPT 164
           S E  +    E A K I +G  + V +   D  +   E            +  +  L   
Sbjct: 8   SAEQIMRDRSELARKGIARGR-SVVVLTFRDGVLFVAENP-------STALHKVSELYDR 59

Query: 165 VGCVMTGMQADSRYQVQRARYEAASFKYKHG-YSMPIDQLCNRIAD-ISQVYTQNAEMRP 222
           +G    G   +     +     A    Y +    +    L N  A  +  ++T+  + +P
Sbjct: 60  LGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--QPKP 117

Query: 223 LGCSMI---LISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTE-ANSYLEKKFKKKTNY 278
               +    +      + P +Y+    G     +   V   TTE   + + + ++   + 
Sbjct: 118 YEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRA--DL 175

Query: 279 TGDETIQLAISCL 291
             +  + +A++ L
Sbjct: 176 DLEAAVGIAVNAL 188

>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 = 48.5 bits (115), Expect = 7e-07
 Identities = 14/93 (15%), Positives = 25/93 (26%), Gaps = 9/93 (9%)

Query: 17  SPEGRLYQ-VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPT 75
           S E  +    E A K I +G  + V +   D  +   E            +  +  L   
Sbjct: 8   SAEQIMRDRSELARKGIARGR-SVVVLTFRDGVLFVAENP-------STALHKVSELYDR 59

Query: 76  VGCVMTGMQADSRYQVQRARAGFDRHITIFSPE 108
           +G    G   +     +      D     +   
Sbjct: 60  LGFAAVGKYNEFENLRRAGIVHADMRGYSYDRR 92

>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 = 93.5 bits (233), Expect = 5e-23
 Identities = 31/163 (19%), Positives = 63/163 (38%), Gaps = 9/163 (5%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T   +   D  ++  + +   DS+V  K+   ++ + P + C   G+ AD+    + A  
Sbjct: 2   TIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAAS 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           +        G    +  +   +      Y        +G S+++   D   GP +Y+  P
Sbjct: 62  KMELHALSTGREPRVATVTRILRQTLFRYQG-----HVGASLVVGGVDL-NGPQLYEVHP 115

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAI 288
            G Y      ++G     A + LE +F+   N T +   +L +
Sbjct: 116 HGSYSRLPFTALGSGQGAAVALLEDRFQP--NMTLEAAQELLV 156

>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 = 41.1 bits (97), Expect = 2e-04
 Identities = 13/80 (16%), Positives = 31/80 (38%), Gaps = 12/80 (15%)

Query: 38  TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           T   +   D  ++  + +   DS+V  K+   ++ + P + C   G+ AD+    + A +
Sbjct: 2   TIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAAS 61

Query: 97  GFDRHITIFSPEGRLYQVEY 116
                      +  L+ +  
Sbjct: 62  -----------KMELHALST 70

>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 = 89.7 bits (223), Expect = 3e-21
 Identities = 38/198 (19%), Positives = 69/198 (34%), Gaps = 13/198 (6%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAF-KAINQGGVTSVAVKGVDTAVVATEKKV-PDSLVDPK 153
           AG       +     L +  +   KA + G  T V VK  +  V+A + +     +V  K
Sbjct: 2   AGLS--FDNYQRNNFLAENSHTQPKATSTGT-TIVGVKFNNGVVIAADTRSTQGPIVADK 58

Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
               L+ ++P + C   G  AD+    Q                  +      +      
Sbjct: 59  NCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFK 118

Query: 214 YTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK 273
           Y        +G  +I+   D   G  ++     G       +S+G  +  A + LE  +K
Sbjct: 119 Y-----QGHIGAYLIVAGVDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWK 172

Query: 274 KKTNYTGDETIQLAISCL 291
           +  + T +E I+LA   +
Sbjct: 173 Q--DLTKEEAIKLASDAI 188

>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 = 39.6 bits (93), Expect = 6e-04
 Identities = 21/92 (22%), Positives = 36/92 (39%), Gaps = 5/92 (5%)

Query: 7  AGFDRHITIFSPEGRLYQVEYAF-KAINQGGVTSVAVKGVDTAVVATEKKV-PDSLVDPK 64
          AG       +     L +  +   KA + G  T V VK  +  V+A + +     +V  K
Sbjct: 2  AGLS--FDNYQRNNFLAENSHTQPKATSTGT-TIVGVKFNNGVVIAADTRSTQGPIVADK 58

Query: 65 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
              L+ ++P + C   G  AD+    Q   +
Sbjct: 59 NCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 90

>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 = 84.2 bits (209), Expect = 1e-19
 Identities = 32/166 (19%), Positives = 59/166 (35%), Gaps = 9/166 (5%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T V VK  +  V+A + +     +V  K    L+ ++P + C   G  AD+    Q    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
                         +      +      Y        +G  +I+   D   G  ++    
Sbjct: 62  NIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDP-TGSHLFSIHA 115

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G       +S+G  +  A + LE  +K+  + T +E I+LA   +
Sbjct: 116 HGSTDVGYYLSLGSGSLAAMAVLESHWKQ--DLTKEEAIKLASDAI 159

>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 = 83.4 bits (207), Expect = 2e-19
 Identities = 33/168 (19%), Positives = 71/168 (42%), Gaps = 9/168 (5%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G T+V +   D  ++ATE++V  ++ +  K    L+ +    G  + G+  D++  V+  
Sbjct: 8   GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYM 67

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT 243
           + E   ++ +   +MPI+ +   ++++           P    +++   D    P ++  
Sbjct: 68  KAELELYRLQRRVNMPIEAVATLLSNMLNQVK----YMPYMVQLLVGGID--TAPHVFSI 121

Query: 244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
           D AG        S G  +      LE ++ +    T DE + L I  +
Sbjct: 122 DAAGGSVEDIYASTGSGSPFVYGVLESQYSE--KMTVDEGVDLVIRAI 167

>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 = 83.9 bits (208), Expect = 2e-19
 Identities = 30/166 (18%), Positives = 57/166 (34%), Gaps = 9/166 (5%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T   V   D  V+  + +     +V  K  + ++ ++P + C   G  AD+    Q    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
                    G    +      +  +   Y        +G +++L   D   GP +Y   P
Sbjct: 62  NLELHSLSTGRLPRVVTANRMLKQMLFRYRG-----YIGAALVLGGVDV-TGPHLYSIYP 115

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G       V++G  +  A +  E KF+   +   +E   L    +
Sbjct: 116 HGSTDKLPYVTMGSGSLAAMAVFEDKFRP--DMEEEEAKNLVSEAI 159

>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 = 80.9 bits (200), Expect = 6e-18
 Identities = 31/195 (15%), Positives = 68/195 (34%), Gaps = 11/195 (5%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVT 156
             + +   + + R    +         G T++A +     +VA + +    + V  +TV 
Sbjct: 52  PQQFLRAHTDDSRNPDCKIKIAH----GTTTLAFRFQGGIIVAVDSRATAGNWVASQTVK 107

Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +  + P +   M G  AD ++       +    + +    + +      ++++   Y  
Sbjct: 108 KVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYK- 166

Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
                 L    ++  Y   EGP IY  D  G         VG   T A   L+  +K   
Sbjct: 167 ---GAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW-- 221

Query: 277 NYTGDETIQLAISCL 291
           + + ++ + L    +
Sbjct: 222 DLSVEDALYLGKRSI 236

>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 = 78.1 bits (192), Expect = 7e-17
 Identities = 36/175 (20%), Positives = 68/175 (38%), Gaps = 11/175 (6%)

Query: 125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G T VA+      ++A +++    +L+  + V  +Y         + G    +   V+  
Sbjct: 65  GTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLF 124

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYD-----ENEGP 238
             E   ++   G  +  D   NR+A + +     A M+ L    +L+ YD     E+   
Sbjct: 125 AVELEHYEKIEGVPLTFDGKANRLASMVRGN-LGAAMQGLAVVPLLVGYDLDADDESRAG 183

Query: 239 LIYKTDPAGYYCSFKA--VSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            I   D  G     +A   +VG  +  A S L+K +    +   +  ++ AI  L
Sbjct: 184 RIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSP--DSDEETALRAAIESL 236

>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 = 75.3 bits (185), Expect = 3e-16
 Identities = 34/172 (19%), Positives = 65/172 (37%), Gaps = 9/172 (5%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T VA+      ++A +++    +L+  + V  +Y         + G    +   V+    
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVY----TQNAEMRPLGCSMILISYDENEGPLIY 241
           E   ++   G  +  D   NR+A + +       Q   + PL     L + DE+    I 
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 242 KTDPAGYYCSFKA--VSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
             D  G     +A   +VG  +  A S L+K +    +   +  ++ AI  L
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSP--DSDEETALRAAIESL 171

>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 = 74.2 bits (183), Expect = 5e-16
 Identities = 29/166 (17%), Positives = 61/166 (36%), Gaps = 7/166 (4%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T++A +     +VA + +    + V  +TV  +  + P +   M G  AD ++       
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           +    + +    + +      ++++   Y        L    ++  Y   EGP IY  D 
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQYK----GAGLSMGTMICGYTRKEGPTIYYVDS 117

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G         VG   T A   L+  +K   + + ++ + L    +
Sbjct: 118 DGTRLKGDIFCVGSGQTFAYGVLDSNYKW--DLSVEDALYLGKRSI 161

>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 = 72.6 bits (179), Expect = 1e-15
 Identities = 28/166 (16%), Positives = 65/166 (39%), Gaps = 8/166 (4%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T++A K     +VA + +    + +  +TV  +  + P +   M G  AD  +  +    
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           +   ++ ++   + +      +A++   Y        L    ++  +D+  GP +Y  D 
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQYK----GMGLSMGTMICGWDK-RGPGLYYVDS 116

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G   S    SVG  +  A   +++ +    +   ++   LA   +
Sbjct: 117 EGNRISGATFSVGSGSVYAYGVMDRGYSY--DLEVEQAYDLARRAI 160

>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 = 73.4 bits (180), Expect = 3e-15
 Identities = 35/175 (20%), Positives = 68/175 (38%), Gaps = 11/175 (6%)

Query: 125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G T VA+K     V+A +++    +++  + V  +Y         + G  A +    +  
Sbjct: 57  GTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLY 116

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYD-----ENEGP 238
             E   ++   G  +      NR+A + +     A M+ L    +L  YD          
Sbjct: 117 AVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAA-MQGLLALPLLAGYDIHASDPQSAG 175

Query: 239 LIYKTDPAGYYCSFKA--VSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            I   D AG +   +    +VG  +  A S ++K + +     GD  +++A+  L
Sbjct: 176 RIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQ--VTDGDSGLRVAVEAL 228

>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 = 69.9 bits (172), Expect = 1e-14
 Identities = 25/166 (15%), Positives = 57/166 (34%), Gaps = 8/166 (4%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T +AV+     V+  + +    S +  +    L  +   + C  +G  AD++       Y
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           +      +      +    +   ++   Y        L   +I+  +D  EG  +Y    
Sbjct: 62  QLGFHSIELNEPPLVHTAASLFKEMCYRY-----REDLMAGIIIAGWDPQEGGQVYSVPM 116

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G          G  ++    Y++  +++    T +E +Q   + L
Sbjct: 117 GGMMVRQSFAIGGSGSSYIYGYVDATYRE--GMTKEECLQFTANAL 160

>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 = 69.7 bits (171), Expect = 2e-14
 Identities = 32/184 (17%), Positives = 62/184 (33%), Gaps = 21/184 (11%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G T + + G D AV+A + +   D  ++ +    ++     +     G  AD    V+R 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 184 RYEAASFKYKH-GYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYK 242
           +     + + H    + I+     I  +           P     I+   DE+    +Y 
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRF----FPYYVHTIIAGLDEDGKGAVYS 124

Query: 243 TDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNY---------------TGDETIQLA 287
            DP G Y   +  + G   +    +L+ +   K  Y               + +E I+L 
Sbjct: 125 FDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLV 184

Query: 288 ISCL 291
               
Sbjct: 185 RDSF 188

>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 = 67.2 bits (165), Expect = 1e-13
 Identities = 26/166 (15%), Positives = 62/166 (37%), Gaps = 5/166 (3%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
             + ++G D  +VA+++    + +        ++ ++  +  +  G   D+    +  + 
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
               +K ++GY +      N       +        P   +++L  YDE+EGP +Y  D 
Sbjct: 63  NVQLYKMRNGYELSPTAAANFTRRN--LADCLRSRTPYHVNLLLAGYDEHEGPALYYMDY 120

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
                     + G       S L++ +      + +  ++L   CL
Sbjct: 121 LAALAKAPFAAHGYGAFLTLSILDRYYTP--TISRERAVELLRKCL 164

>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 = 66.1 bits (162), Expect = 3e-13
 Identities = 25/167 (14%), Positives = 60/167 (35%), Gaps = 6/167 (3%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
             + ++  D+ ++A+ K V     V   +      L+P       G   D+    +  + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENE-GPLIYKTD 244
               +  +  Y +    + + +     +       RP   ++++  YD+ +  P +Y+ D
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQE--LAKSIRSRRPYQVNVLIGGYDKKKNKPELYQID 120

Query: 245 PAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
             G        + G       S L+  ++   + T +E + L   C+
Sbjct: 121 YLGTKVELPYGAHGYSGFYTFSLLDHHYRP--DMTTEEGLDLLKLCV 165

>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4 Length = 202

 Score = 66.0 bits (162), Expect = 4e-13
 Identities = 34/167 (20%), Positives = 66/167 (39%), Gaps = 9/167 (5%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T+V +   D  V+ATEK+    + +  K    +Y +   +     G   D+++  +  + 
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           EA  ++ +      +  +    +++   Y       P    +++   D  EG  IY  DP
Sbjct: 62  EANLYEIRRERKPTVRAIATLTSNLLNSYR----YFPYLVQLLIGGIDS-EGKSIYSIDP 116

Query: 246 AG-YYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G        V+ G  +  A   LE +F        DE ++LA+  +
Sbjct: 117 IGGAIEEKDIVATGSGSLTAYGVLEDRFTP--EIGVDEAVELAVRAI 161

>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 = 64.9 bits (159), Expect = 7e-13
 Identities = 26/168 (15%), Positives = 58/168 (34%), Gaps = 9/168 (5%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G + +AV   D  ++  + +    + +  +    L  +   + C  +G  AD++      
Sbjct: 9   GASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT 243
           +Y    +  ++G         +   ++            L   +I+  YD+     +Y  
Sbjct: 69  QYHLELYTSQYGTPSTET-AASVFKELCYEN-----KDNLTAGIIVAGYDDKNKGEVYTI 122

Query: 244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
              G          G  +T    Y +K F++  N + +ET+      L
Sbjct: 123 PLGGSVHKLPYAIAGSGSTFIYGYCDKNFRE--NMSKEETVDFIKHSL 168

>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 = 65.1 bits (159), Expect = 2e-12
 Identities = 25/176 (14%), Positives = 66/176 (37%), Gaps = 11/176 (6%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G + +++K  +  ++A +      SL+    V  L  +       ++G  +D ++  +  
Sbjct: 41  GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 100

Query: 184 RYEAASFKYK-----HGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGP 238
           +       Y         ++    +   +A +  +Y + ++M PL  ++I+     N   
Sbjct: 101 KDLVTENAYDNPLADAEEALEPSYIFEYLATV--MYQRRSKMNPLWNAIIVAGVQSNGDQ 158

Query: 239 LIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNY---TGDETIQLAISCL 291
            +   +  G   S   ++ G     AN  L K   ++++    T     +  ++ +
Sbjct: 159 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAM 214

>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 = 63.8 bits (156), Expect = 2e-12
 Identities = 29/175 (16%), Positives = 56/175 (32%), Gaps = 12/175 (6%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G T +A+ G D A+VA++ ++     +  +     Y LT       +G   D     +  
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT 243
                 +K+ +  +M    +   ++ I           P     I+   DE     +Y  
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFF----PYYVYNIIGGLDEEGKGAVYSF 124

Query: 244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKK-------KTNYTGDETIQLAISCL 291
           DP G Y      + G  +      L+ +              + D  ++L     
Sbjct: 125 DPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVF 179

>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 = 63.1 bits (154), Expect = 5e-12
 Identities = 24/176 (13%), Positives = 65/176 (36%), Gaps = 11/176 (6%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G + +++K  +  ++A +      SL+    V  L  +       ++G  +D ++  +  
Sbjct: 8   GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67

Query: 184 RYEAASFKYK-----HGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGP 238
           +       Y         ++    +   +A +  +Y + ++M PL  ++I+     N   
Sbjct: 68  KDLVTENAYDNPLADAEEALEPSYIFEYLATV--MYQRRSKMNPLWNAIIVAGVQSNGDQ 125

Query: 239 LIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTG---DETIQLAISCL 291
            +   +  G   S   ++ G     AN  L K   ++++          +  ++ +
Sbjct: 126 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAM 181

>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 = 61.4 bits (150), Expect = 1e-11
 Identities = 24/170 (14%), Positives = 57/170 (33%), Gaps = 9/170 (5%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G   +A+KG +   +A +++    + +       ++ +   +   + G+  D +   QR 
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYD-ENEGPLIYK 242
           ++    ++ K G  +    L + +A++           P     ++   D +   P I  
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFG----PYYTEPVIAGLDPKTFKPFICS 123

Query: 243 TDPAGYYCSFKAVSV-GVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            D  G         V G    +     E  ++   N   D   +     +
Sbjct: 124 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEP--NMDPDHLFETISQAM 171

>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 = 61.1 bits (149), Expect = 2e-11
 Identities = 31/166 (18%), Positives = 62/166 (37%), Gaps = 9/166 (5%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T +AV+     VV ++ +V   + V  +    L  L   + C ++G  AD++     A Y
Sbjct: 2   TIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAY 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           +      +      +    N + +IS  Y        L   +I+  +D+ EG  +Y    
Sbjct: 62  QLELHGLELEEPPLVLAAANVVKNISYKY-----REDLLAHLIVAGWDQREGGQVY-GTM 115

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G          G  ++    Y++  +K     T +E  +   + +
Sbjct: 116 GGMLIRQPFTIGGSGSSYIYGYVDAAYKP--GMTPEECRRFTTNAI 159

>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 = 57.2 bits (139), Expect = 4e-10
 Identities = 26/170 (15%), Positives = 54/170 (31%), Gaps = 10/170 (5%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G   VA+ G D   +A + ++   SL        ++         +TG+  D     +  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLG-ITGLATDVTTLNEMF 66

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEG-PLIYK 242
           RY+   +K K   ++  +     ++             P     ++   +   G P I  
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFG----PYFVGPVVAGINSKSGKPFIAG 122

Query: 243 TDPAGYYCSFKA-VSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            D  G     K  +  G  + +     E  ++   N   ++  +     L
Sbjct: 123 FDLIGCIDEAKDFIVSGTASDQLFGMCESLYEP--NLEPEDLFETISQAL 170

>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 = 56.8 bits (138), Expect = 7e-10
 Identities = 29/169 (17%), Positives = 64/169 (37%), Gaps = 5/169 (2%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G + + VK     V+A +      SL   + ++ +  +  +     +G  AD +Y  Q  
Sbjct: 8   GTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL 67

Query: 184 RYEAASFKYK-HGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYK 242
                  +    G+S     + + +     +Y++ ++M PL  +M++  Y  +    +  
Sbjct: 68  GQMVIDEELLGDGHSYSPRAIHSWLTRA--MYSRRSKMNPLWNTMVIGGYA-DGESFLGY 124

Query: 243 TDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            D  G      +++ G     A   L +  +K+   +  E   L   C+
Sbjct: 125 VDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCM 173

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	291
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	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
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	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
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	99.98
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	99.97
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.94
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.94
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.93
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	99.93
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	99.9
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	99.81
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	99.81
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	99.8
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	99.8
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	99.8
1iru_N	219	20S proteasome; cell cycle, immune response, prote	99.79
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	99.79
1iru_J	205	20S proteasome; cell cycle, immune response, prote	99.79
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	99.79
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	99.79
1iru_M	213	20S proteasome; cell cycle, immune response, prote	99.78
1iru_H	205	20S proteasome; cell cycle, immune response, prote	99.78
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	99.78
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	99.78
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	99.77
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	99.76
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	99.76
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	99.76
1iru_B	233	20S proteasome; cell cycle, immune response, prote	99.76
1iru_K	201	20S proteasome; cell cycle, immune response, prote	99.76
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	99.75
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	99.75
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	99.75
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	99.75
1iru_L	204	20S proteasome; cell cycle, immune response, prote	99.74
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	99.74
1iru_E	241	20S proteasome; cell cycle, immune response, prote	99.74
1iru_G	254	20S proteasome; cell cycle, immune response, prote	99.73
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	99.73
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	99.73
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	99.73
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	99.73
1iru_D	248	20S proteasome; cell cycle, immune response, prote	99.73
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	99.72
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	99.72
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	99.72
1iru_I	234	20S proteasome; cell cycle, immune response, prote	99.72
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	99.72
1iru_A	246	20S proteasome; cell cycle, immune response, prote	99.71
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.68
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.68
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.63
1iru_C	261	20S proteasome; cell cycle, immune response, prote	99.12
1iru_F	263	20S proteasome; cell cycle, immune response, prote	99.06

>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii}

Probab=100.00  E-value=1.2e-52  Score=367.55  Aligned_cols=198  Identities=34%  Similarity=0.640  Sum_probs=170.5

Q ss_pred             CCCCCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEE
Q psy8777           1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM   80 (291)
Q Consensus         1 ~~~~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~   80 (291)
                      |.|.++++||+++|+|||||||||||||+|||++|+ |+|||+++||||||+|+|.+++++.+++.+|||+|++|++|++
T Consensus         4 ~~~~~~~~yd~~~t~fSp~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~d~i~~~~   82 (264)
T 3h4p_A            4 MQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGT-TAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAAT   82 (264)
T ss_dssp             ------------CCCCCSSSSCHHHHHHHHHHHHSC-CEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEETTEEEEE
T ss_pred             CcCCCccccCCCcceECCCCeeHHHHhHHHHHhcCC-cEEEEEECCEEEEEEecCccCCccccCccccEEEecCcEEEEe
Confidence            677789999999999999999999999999999995 9999999999999999999988887777888888888888888


Q ss_pred             eccccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEE
Q psy8777          81 TGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYS  160 (291)
Q Consensus        81 ~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~  160 (291)
                      ||+.+|+|.+++.+                                                                  
T Consensus        83 aG~~aD~~~l~~~~------------------------------------------------------------------   96 (264)
T 3h4p_A           83 SGLVADARVLIDRA------------------------------------------------------------------   96 (264)
T ss_dssp             EECSHHHHHHHTTH------------------------------------------------------------------
T ss_pred             ccchHHHHHHHHHH------------------------------------------------------------------
Confidence            88888888775543                                                                  


Q ss_pred             ecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEE
Q psy8777         161 LTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLI  240 (291)
Q Consensus       161 i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~L  240 (291)
                                             +.+++.|++.++.+++++.+++.|+.++|.|+++.+.|||+++++|+|||+ +||+|
T Consensus        97 -----------------------r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~-~gp~L  152 (264)
T 3h4p_A           97 -----------------------RLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDK-NEARL  152 (264)
T ss_dssp             -----------------------HHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEET-TEEEE
T ss_pred             -----------------------HHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeC-CcCEE
Confidence                                   234556666788899999999999999999999888999999999999996 78999


Q ss_pred             EEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         241 YKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       241 y~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |.+||+|++.+++++|+|+|+.+++++||+.|++  +||++||++++++||
T Consensus       153 y~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eea~~la~~al  201 (264)
T 3h4p_A          153 FETDPSGALIEYKATAIGSGRPVVMELLEKEYRD--DITLDEGLELAITAL  201 (264)
T ss_dssp             EEECTTCCCEEESEEEESTTHHHHTTTHHHHCCT--TCCSHHHHHHHHHHH
T ss_pred             EEECCCceEEecCeEEECCCHHHHHHHHHHhccC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999  999999999999985

>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=2.9e-51  Score=356.22  Aligned_cols=201  Identities=73%  Similarity=1.165  Sum_probs=175.4

Q ss_pred             CCCCCCCCccceeeeeCCCCcchhhhHHHHHHhc-CCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEE
Q psy8777           1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQ-GGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV   79 (291)
Q Consensus         1 ~~~~~~~~yd~~~~~fsp~g~~~q~eya~~av~~-g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~   79 (291)
                      |.|+++++||+++|+|||||||||||||+|||++ | +|+|||+++||||||+|+|.++++..+++.+||++|++|++|+
T Consensus         1 ~~m~~~~~yd~~~t~fsp~Grl~QvEya~~av~~~G-tt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~   79 (246)
T 1iru_A            1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGG-LTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCV   79 (246)
T ss_dssp             -CCSCCCTTTTTSSCCCTTSCCHHHHHHHHHHHTTC-CEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEE
T ss_pred             CCCCccCCcCCCCccCCCCCeehHHHHHHHHHhcCC-CCEEEEEeCCEEEEEEeecCCCcccCCCccCceEEECCCEEEE
Confidence            6677778999999999999999999999999999 8 5999999999999999999987776666666776666666666


Q ss_pred             EeccccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEE
Q psy8777          80 MTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLY  159 (291)
Q Consensus        80 ~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~  159 (291)
                      +||+.+|+|.+++.+                                                                 
T Consensus        80 ~aG~~aD~~~l~~~~-----------------------------------------------------------------   94 (246)
T 1iru_A           80 MTGMTADSRSQVQRA-----------------------------------------------------------------   94 (246)
T ss_dssp             EEECHHHHHHHHHHH-----------------------------------------------------------------
T ss_pred             EeccHHHHHHHHHHH-----------------------------------------------------------------
Confidence            666666666655544                                                                 


Q ss_pred             EecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcE
Q psy8777         160 SLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPL  239 (291)
Q Consensus       160 ~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~  239 (291)
                                              +.+++.|++.++++++++.+++.+++++|.|+++.+.||++++++|+|||+++||+
T Consensus        95 ------------------------~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~  150 (246)
T 1iru_A           95 ------------------------RYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQ  150 (246)
T ss_dssp             ------------------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEE
T ss_pred             ------------------------HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeE
Confidence                                    34455567778889999999999999999999988899999999999999757899


Q ss_pred             EEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         240 IYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       240 Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ||.+||+|++.+++++++|+|+++++++||+.|++..+||+|||++++++||
T Consensus       151 Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al  202 (246)
T 1iru_A          151 VYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCL  202 (246)
T ss_dssp             EEEECTTSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHH
T ss_pred             EEEEcCCeeEEEeeEEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999766899999999999985

>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=3e-51  Score=361.69  Aligned_cols=195  Identities=33%  Similarity=0.543  Sum_probs=175.0

Q ss_pred             CCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecc
Q psy8777           4 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGM   83 (291)
Q Consensus         4 ~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~   83 (291)
                      +.+++||+++|+|||||||||||||+|||++|+ |+|||+++||||||+|+|.+++++.+++.+|||+|++||+|++||+
T Consensus         3 ~~~~~yd~~~t~fSP~Grl~QvEYA~kAv~~Gt-T~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~d~i~~~~aG~   81 (288)
T 3nzj_F            3 SIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGL   81 (288)
T ss_dssp             --CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEETTTEEEEEEEC
T ss_pred             CCcCCccCCcccCCCCCchHHHHHHHHHHhcCC-cEEEEEECCEEEEEEcCCcccCCccccccceEEEEcCCEEEEecCc
Confidence            447999999999999999999999999999995 9999999999999999999988877766677777777777777777


Q ss_pred             ccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          84 QADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        84 ~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      .+|+|.+++.+                                                                     
T Consensus        82 ~aD~~~l~~~l---------------------------------------------------------------------   92 (288)
T 3nzj_F           82 IPDGRHLVNRG---------------------------------------------------------------------   92 (288)
T ss_dssp             HHHHHHHHHHH---------------------------------------------------------------------
T ss_pred             HHHHHHHHHHH---------------------------------------------------------------------
Confidence            77777665543                                                                     


Q ss_pred             cEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEE
Q psy8777         164 TVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT  243 (291)
Q Consensus       164 ~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~  243 (291)
                                          +.+++.|++.++++++++.+++.++.++|.|+++.++|||+++++|+|||+ +||+||.+
T Consensus        93 --------------------r~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~-~Gp~Ly~i  151 (288)
T 3nzj_F           93 --------------------REEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYML  151 (288)
T ss_dssp             --------------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEEE
T ss_pred             --------------------HHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeC-CCCEEEEE
Confidence                                345566677888899999999999999999999889999999999999998 68999999


Q ss_pred             CCCCceEeeeEEEecCCchHHHHHHHHh---ccCCCCCCHHHHHHHHHhhC
Q psy8777         244 DPAGYYCSFKAVSVGVKTTEANSYLEKK---FKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       244 d~~G~~~~~~~~a~G~gs~~~~~~Le~~---~~~~~~~t~~eai~l~~~~l  291 (291)
                      ||+|++.+++++++|+|+++++++||+.   |++  +||++||++++++||
T Consensus       152 Dp~G~~~~~~~~aiGsgs~~a~~~Lek~~~~~~~--~ms~eEAv~la~~al  200 (288)
T 3nzj_F          152 EPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE--GLSAREAVKQAAKII  200 (288)
T ss_dssp             CTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTT--CCCHHHHHHHHHHHH
T ss_pred             CCCCCEEEcCEEEEcCcHHHHHHHHHHhccccCC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999   999  999999999999985

>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=2.5e-51  Score=356.04  Aligned_cols=195  Identities=53%  Similarity=0.867  Sum_probs=171.4

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhc-CCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQ-GGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~-g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      ++||+++|+|||||||||||||+|||++ |+ |+|||+++||||||+|+|.+++++.+++.+|||+|++|++|++||+.+
T Consensus         1 ~~yd~~~t~fsp~Grl~QvEYA~~av~~~Gt-t~vgi~~~dgVvlaad~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~a   79 (243)
T 1ryp_A            1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNI-NSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIP   79 (243)
T ss_dssp             CGGGGTSSSCCTTSCCHHHHHHHHHTTTTCC-CEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHH
T ss_pred             CCCCCCCceECCCCeeHHHHHHHHHHhcCCC-cEEEEEeCCEEEEEEEecCCccccCCCcCCceEEECCCEEEEEEecHH
Confidence            4799999999999999999999999999 85 999999999999999999987777666666777766666666666666


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++.+                                                                       
T Consensus        80 D~~~l~~~~-----------------------------------------------------------------------   88 (243)
T 1ryp_A           80 DARNAALRA-----------------------------------------------------------------------   88 (243)
T ss_dssp             HHHHHHHHH-----------------------------------------------------------------------
T ss_pred             HHHHHHHHH-----------------------------------------------------------------------
Confidence            666555544                                                                       


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                        +.+++.|++.++++++++.+++.+++++|.|+++.+.|||+++++|+|||+++||+||.+||
T Consensus        89 ------------------r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp  150 (243)
T 1ryp_A           89 ------------------KAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDP  150 (243)
T ss_dssp             ------------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECT
T ss_pred             ------------------HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcC
Confidence                              34555677788899999999999999999999988899999999999999757899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCC-----CCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKT-----NYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~-----~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|++.++++||+.|++..     +||+|||++++++||
T Consensus       151 ~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al  201 (243)
T 1ryp_A          151 AGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHM  201 (243)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEEEEECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999998732     799999999999985

>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=1.2e-50  Score=349.57  Aligned_cols=193  Identities=34%  Similarity=0.607  Sum_probs=172.0

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      +++||+++|+|||||||||||||+||+++|+ |+|||+++||||||+|+|.++++..+++.+||++|++|++|++||+.+
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~a   80 (233)
T 1iru_B            2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGP   80 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHH
T ss_pred             CCCccCCceeECCCCeEehhHhHHHHHHcCC-cEEEEEeCCEEEEEEEecCCccccccccCCeEEEECCCEEEEEEEccH
Confidence            5799999999999999999999999999995 999999999999999999987777776667777777777777777777


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++.+                                                                       
T Consensus        81 D~~~l~~~~-----------------------------------------------------------------------   89 (233)
T 1iru_B           81 DYRVLVHRA-----------------------------------------------------------------------   89 (233)
T ss_dssp             HHHHHHHHH-----------------------------------------------------------------------
T ss_pred             HHHHHHHHH-----------------------------------------------------------------------
Confidence            776665544                                                                       


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                        +.+++.|+++++.+++++.+++.+++++|.|+++.++||++++++|+|||+ +||+||.+||
T Consensus        90 ------------------~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~-~gp~Ly~id~  150 (233)
T 1iru_B           90 ------------------RKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNE-GRPYLFQSDP  150 (233)
T ss_dssp             ------------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECS-SSEEEEEECT
T ss_pred             ------------------HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeC-CCCeEEEECC
Confidence                              334455666778899999999999999999999888999999999999995 7899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|+++++++||+.|++  +||+|||++++++||
T Consensus       151 ~G~~~~~~~~aiG~gs~~a~~~Le~~~~~--~ms~eea~~la~~al  194 (233)
T 1iru_B          151 SGAYFAWKATAMGKNYVNGKTFLEKRYNE--DLELEDAIHTAILTL  194 (233)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             CCCEEEeeEEEECCCCHHHHHHHHHHhcc--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999985

>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=7.7e-51  Score=354.87  Aligned_cols=196  Identities=31%  Similarity=0.564  Sum_probs=175.2

Q ss_pred             CCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecc
Q psy8777           4 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGM   83 (291)
Q Consensus         4 ~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~   83 (291)
                      +++++||+++|+|||||||||||||+|||++| +|+|||+++||||||+|+|.+.++..+++.+|||+|++||+|++||+
T Consensus         2 ~~~~~yd~~~t~fsp~Grl~QvEyA~~av~~G-tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~   80 (254)
T 1iru_G            2 SIGTGYDLSASTFSPDGRVFQVEYAMKAVENS-STAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGL   80 (254)
T ss_dssp             CCCSSTTSCTTCCCTTSCCHHHHHHHHHHHTS-CCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEEC
T ss_pred             CcccccCCCCccCCcCCccHHHHhHHHHHhcC-CCEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEECCCEEEEEecC
Confidence            45679999999999999999999999999998 59999999999999999999988777766778888877777777777


Q ss_pred             ccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          84 QADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        84 ~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      .+|+|.+++.++                                                                    
T Consensus        81 ~aD~~~l~~~~~--------------------------------------------------------------------   92 (254)
T 1iru_G           81 LADARSLADIAR--------------------------------------------------------------------   92 (254)
T ss_dssp             HHHHHHHHHHHH--------------------------------------------------------------------
T ss_pred             hHHHHHHHHHHH--------------------------------------------------------------------
Confidence            777776666552                                                                    


Q ss_pred             cEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEE
Q psy8777         164 TVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT  243 (291)
Q Consensus       164 ~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~  243 (291)
                                           .+++.|++.++++++++.+++.+++++|.|++++++|||+++++|+|||+++||+||.+
T Consensus        93 ---------------------~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~i  151 (254)
T 1iru_G           93 ---------------------EEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMI  151 (254)
T ss_dssp             ---------------------HHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEE
T ss_pred             ---------------------HHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEE
Confidence                                 33444667788899999999999999999998888999999999999995578999999


Q ss_pred             CCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       244 d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ||+|++.+++++++|+|+++++++||+.|++  +||++||++++++||
T Consensus       152 dp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eea~~la~~al  197 (254)
T 1iru_G          152 DPSGVSYGYWGCAIGKARQAAKTEIEKLQMK--EMTCRDIVKEVAKII  197 (254)
T ss_dssp             CTTCCEEEBSEEEESTTHHHHHHHHTTSCGG--GCCHHHHHHHHHHHH
T ss_pred             cCCCCEEeeeeEEecCccHHHHHHHHHhccC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999  999999999999875

>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=1.5e-50  Score=348.99  Aligned_cols=193  Identities=35%  Similarity=0.591  Sum_probs=166.2

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      +++||+++|+|||||||||||||+||+++| +|+|||+++||||||+|+|.+++++.+++.+||++|++|++|++||+.+
T Consensus         5 ~~~yd~~~t~fsp~Grl~QvEya~~av~~G-tt~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~~~i~~~~aG~~a   83 (233)
T 1yar_A            5 QMAYSRAITVFSPDGRLFQVEYAREAVKKG-STALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVA   83 (233)
T ss_dssp             --------CCCCTTSCCHHHHHHHHHHTTS-CCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHH
T ss_pred             cccCCCCCceECcCCeeHHHHhHHHHHhcC-CcEEEEEECCEEEEEEeccCCcccccccccCeEEEecCCEEEEEeeCHH
Confidence            479999999999999999999999999998 5999999999999999999988877766677777777777777777777


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++.+                                                                       
T Consensus        84 D~~~l~~~~-----------------------------------------------------------------------   92 (233)
T 1yar_A           84 DARVLVDFA-----------------------------------------------------------------------   92 (233)
T ss_dssp             HHHHHHHHH-----------------------------------------------------------------------
T ss_pred             HHHHHHHHH-----------------------------------------------------------------------
Confidence            777666554                                                                       


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                        +.+++.|++.++++++++.+++.++++++.|+++.+.||++++++|+|||+ +||+||.+||
T Consensus        93 ------------------~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~-~gp~Ly~id~  153 (233)
T 1yar_A           93 ------------------RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQ-IGPRLFDCDP  153 (233)
T ss_dssp             ------------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECS-SCEEEEEECT
T ss_pred             ------------------HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeC-CCCEEEEECC
Confidence                              233445667788899999999999999999999888899999999999997 7899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|+.+++++||+.|++  +||+|||++++++||
T Consensus       154 ~G~~~~~~~~aiG~gs~~a~~~Le~~~~~--~~s~eea~~la~~al  197 (233)
T 1yar_A          154 AGTINEYKATAIGSGKDAVVSFLEREYKE--NLPEKEAVTLGIKAL  197 (233)
T ss_dssp             TCCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             CCCEEeeeEEEEcCCcHHHHHHHHHHhcc--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999985

>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=2.1e-50  Score=350.41  Aligned_cols=192  Identities=36%  Similarity=0.681  Sum_probs=170.4

Q ss_pred             CccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccC-CCCcceeEeecCcEEEEEeccccc
Q psy8777           8 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         8 ~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~-~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      +||+++|+|||||||||||||+|||++|+ |+|||+++||||||+|+|.++++.. +++.+|||+|++|++|++||+.+|
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD   82 (244)
T 1ryp_C            4 RYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GGCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             ccCCCCceECcCCeeHHHHhHHHHHhcCC-cEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHH
Confidence            89999999999999999999999999995 9999999999999999999888766 555677777777776666666666


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      +|.+++.+                                                                        
T Consensus        83 ~~~l~~~~------------------------------------------------------------------------   90 (244)
T 1ryp_C           83 AEILINTA------------------------------------------------------------------------   90 (244)
T ss_dssp             HHHHHHHH------------------------------------------------------------------------
T ss_pred             HHHHHHHH------------------------------------------------------------------------
Confidence            66665544                                                                        


Q ss_pred             EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPA  246 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~  246 (291)
                                       +.+++.|++.++++++++.+++.+++++|.|+++.+.||++++++|+|||+++||+||.+||+
T Consensus        91 -----------------~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~  153 (244)
T 1ryp_C           91 -----------------RIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPS  153 (244)
T ss_dssp             -----------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTT
T ss_pred             -----------------HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCC
Confidence                             334446677788899999999999999999999888999999999999995478999999999


Q ss_pred             CceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         247 GYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       247 G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |++.+++++++|+|+.+++++||+.|++  +||+|||++++++||
T Consensus       154 G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eea~~la~~al  196 (244)
T 1ryp_C          154 GNYTGWKAISVGANTSAAQTLLQMDYKD--DMKVDDAIELALKTL  196 (244)
T ss_dssp             CCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             ccEEeeeEEEECCCcHHHHHHHHHhhhc--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999  999999999999885

>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=2.5e-50  Score=350.58  Aligned_cols=191  Identities=37%  Similarity=0.637  Sum_probs=168.4

Q ss_pred             ccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchh
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR   88 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~   88 (291)
                      ||+++|+|||||||||||||+|||++|+ |+|||+++||||||+|+|.+++++.+++.+|||+|++|++|++||+.+|+|
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~   81 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADAR   81 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSC-CEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             ccCCCceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEcCCEEEEEeecHHHHH
Confidence            9999999999999999999999999995 999999999999999999988776655556666666666666666666666


Q ss_pred             hhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE
Q psy8777          89 YQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV  168 (291)
Q Consensus        89 ~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~  168 (291)
                      .+++.                                                                           
T Consensus        82 ~l~~~---------------------------------------------------------------------------   86 (248)
T 1iru_D           82 IVINR---------------------------------------------------------------------------   86 (248)
T ss_dssp             HHHHH---------------------------------------------------------------------------
T ss_pred             HHHHH---------------------------------------------------------------------------
Confidence            55444                                                                           


Q ss_pred             eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCc
Q psy8777         169 MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGY  248 (291)
Q Consensus       169 ~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~  248 (291)
                                    ++.+++.|++.++++++++.+++.+++++|.|+++.+.|||+++++|+|||+++||+||.+||+|+
T Consensus        87 --------------~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~  152 (248)
T 1iru_D           87 --------------ARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGT  152 (248)
T ss_dssp             --------------HHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSC
T ss_pred             --------------HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCc
Confidence                          444555677788889999999999999999999988889999999999999557899999999999


Q ss_pred             eEeeeEEEecCCchHHHHHHHHhccCCCCC--CHHHHHHHHHhhC
Q psy8777         249 YCSFKAVSVGVKTTEANSYLEKKFKKKTNY--TGDETIQLAISCL  291 (291)
Q Consensus       249 ~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~--t~~eai~l~~~~l  291 (291)
                      +.+++++++|+|+.+++++||+.|++  +|  |+|||++++++||
T Consensus       153 ~~~~~~~aiG~gs~~a~~~Le~~~~~--~m~~s~eea~~la~~al  195 (248)
T 1iru_D          153 YHAWKANAIGRGAKSVREFLEKNYTD--EAIETDDLTIKLVIKAL  195 (248)
T ss_dssp             EEEBSEEEESTTHHHHHHHHTTTCCS--STTCSHHHHHHHHHHHH
T ss_pred             EEEeeEEEECCCcHHHHHHHHHhhcc--cccCCHHHHHHHHHHHH
Confidence            99999999999999999999999999  99  9999999999985

>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=4.3e-50  Score=348.74  Aligned_cols=196  Identities=31%  Similarity=0.622  Sum_probs=168.7

Q ss_pred             CCCCCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEE
Q psy8777           1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM   80 (291)
Q Consensus         1 ~~~~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~   80 (291)
                      |.|. +++||+++|+|||||||||||||++||++| +|+|||+++||||||+|+|.++++..+++.+||++|++|++|++
T Consensus         1 ~~~~-~~~yd~~~t~fsp~Grl~QvEya~~av~~G-tt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~   78 (246)
T 1j2p_A            1 MHLP-QMGYDRAITVFSPDGRLFQVEYAREAVKRG-ATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAAT   78 (246)
T ss_dssp             ---C-CTTSSSCTTCCCTTSCCHHHHHHHHHHHTS-CCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEE
T ss_pred             CCcc-ccCcCCCCceECCCCeehHHHhHHHHHHcC-CcEEEEEECCEEEEEEeccCCccccccCccCcEEEECCCEEEEE
Confidence            4443 369999999999999999999999999998 59999999999999999999887765555566666666666666


Q ss_pred             eccccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEE
Q psy8777          81 TGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYS  160 (291)
Q Consensus        81 ~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~  160 (291)
                      ||+.+|+|.+++                                                                    
T Consensus        79 aG~~aD~~~l~~--------------------------------------------------------------------   90 (246)
T 1j2p_A           79 SGLVADARVLID--------------------------------------------------------------------   90 (246)
T ss_dssp             EECHHHHHHHHH--------------------------------------------------------------------
T ss_pred             eEccHHHHHHHH--------------------------------------------------------------------
Confidence            666666655544                                                                    


Q ss_pred             ecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEE
Q psy8777         161 LTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLI  240 (291)
Q Consensus       161 i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~L  240 (291)
                                           +++.+++.|++.++++++++.+++.+++++|.|+++.+.||++++++|+|||  +||+|
T Consensus        91 ---------------------~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D--~gp~L  147 (246)
T 1j2p_A           91 ---------------------RARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN--EVPKL  147 (246)
T ss_dssp             ---------------------HHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES--SSEEE
T ss_pred             ---------------------HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC--CCCEE
Confidence                                 4444555577778889999999999999999999988889999999999998  68999


Q ss_pred             EEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         241 YKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       241 y~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |.+||+|++.+++++|+|+|+.+++++||+.|++  +||+|||++++++||
T Consensus       148 y~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eea~~la~~al  196 (246)
T 1j2p_A          148 YETDPSGALLEYKATAIGMGRMAVTEFFEKEYRD--DLSFDDAMVLGLVAM  196 (246)
T ss_dssp             EEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             EEECCCceEEeeeEEEECCCcHHHHHHHHHHhcc--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999  999999999999885

>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=6.9e-50  Score=346.88  Aligned_cols=193  Identities=33%  Similarity=0.551  Sum_probs=171.6

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      +++||+++|+|||||||||||||+|||++|+ |+|||+++||||||+|+|.++++..+++.+||++|++|++|++||+.+
T Consensus         1 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~a   79 (244)
T 1ryp_G            1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIP   79 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHH
T ss_pred             CCCccCCcccCCcCCchHHHHhHHHHHHCCC-CEEEEEECCEEEEEEecccCCCCccccccCceEEecCCEEEEEcccHH
Confidence            3689999999999999999999999999995 999999999999999999998877666567777777777777777777


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++.+                                                                       
T Consensus        80 D~~~l~~~~-----------------------------------------------------------------------   88 (244)
T 1ryp_G           80 DGRHLVNRG-----------------------------------------------------------------------   88 (244)
T ss_dssp             HHHHHHHHH-----------------------------------------------------------------------
T ss_pred             HHHHHHHHH-----------------------------------------------------------------------
Confidence            776665544                                                                       


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                        +.+++.|++.++++++++.+++.+++++|.|+++++.||++++++|+|||+ +||+||.+||
T Consensus        89 ------------------~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~-~gp~Ly~idp  149 (244)
T 1ryp_G           89 ------------------REEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYMLEP  149 (244)
T ss_dssp             ------------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEEECT
T ss_pred             ------------------HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeC-CcCEEEEECC
Confidence                              334455667788899999999999999999999888899999999999996 7899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHh---ccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKK---FKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~---~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|+++++++||+.   |++  +||+|||++++++||
T Consensus       150 ~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~--~ms~eea~~la~~al  196 (244)
T 1ryp_G          150 SGSYWGYKGAATGKGRQSAKAELEKLVDHHPE--GLSAREAVKQAAKII  196 (244)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHHHHHHCTT--CCCHHHHHHHHHHHH
T ss_pred             CCCEEEeeEEEECCChHHHHHHHHHhHhhcCC--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999997   999  999999999999985

>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=6.2e-50  Score=346.84  Aligned_cols=192  Identities=32%  Similarity=0.627  Sum_probs=168.5

Q ss_pred             CccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCC-CcceeEeecCcEEEEEeccccc
Q psy8777           8 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         8 ~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~-~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      +||+++|+|||||||||||||+|||++|+ |+|||+++||||||+|+|.+.++...+ +.+|||+|++|++|++||+.+|
T Consensus         1 ~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD   79 (241)
T 1ryp_D            1 GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNAD   79 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHH
T ss_pred             CCCCCceeECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHH
Confidence            69999999999999999999999999995 999999999999999999988776654 5566666666666666666666


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      +|.+++.+                                                                        
T Consensus        80 ~~~l~~~~------------------------------------------------------------------------   87 (241)
T 1ryp_D           80 SRILIEKA------------------------------------------------------------------------   87 (241)
T ss_dssp             HHHHHHHH------------------------------------------------------------------------
T ss_pred             HHHHHHHH------------------------------------------------------------------------
Confidence            66555444                                                                        


Q ss_pred             EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCC-CCcEEEEECC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDEN-EGPLIYKTDP  245 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~-~gp~Ly~~d~  245 (291)
                                       +.+++.|++.++++++++.+++.++++++.|+++.+.|||+++++|+|||++ +||+||.+||
T Consensus        88 -----------------~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp  150 (241)
T 1ryp_D           88 -----------------RVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEP  150 (241)
T ss_dssp             -----------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECT
T ss_pred             -----------------HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECC
Confidence                             4455556777888999999999999999999888788999999999999975 6899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhc---cCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKF---KKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~---~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|+.+++++||+.|   ++  +||+|||++++++||
T Consensus       151 ~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~--~ms~eea~~l~~~al  197 (241)
T 1ryp_D          151 SGIYSSWSAQTIGRNSKTVREFLEKNYDRKEP--PATVEECVKLTVRSL  197 (241)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHTTCCTTSC--CCSHHHHHHHHHHHH
T ss_pred             CCCEEEeeeEEECCCcHHHHHHHHHhhhcccC--CCCHHHHHHHHHHHH
Confidence            999999999999999999999999999   88  999999999999985

>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=5.4e-50  Score=347.19  Aligned_cols=193  Identities=27%  Similarity=0.591  Sum_probs=168.9

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      +++||+++|+|||||||||||||+||+++| +|+|||+++||||||+|+|.+.++..+++.+||++|++|++|++||+.+
T Consensus         5 ~~~yd~~~t~fsp~Grl~QvEya~~av~~G-tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~a   83 (241)
T 1iru_E            5 RSEYDRGVNTFSPEGRLFQVEYDIEAIKLG-STAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIA   83 (241)
T ss_dssp             ---CCCCTTCBCTTSCBHHHHHHHHHHTTS-CCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHH
T ss_pred             cCCCCCCCceECCCCccHHHHHHHHHHHcC-CcEEEEEcCCEEEEEEecccCCcCcCccccceEEEEcCCEEEEEeeChH
Confidence            479999999999999999999999999999 5999999999999999999988876666667777777777777777777


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++.+                                                                       
T Consensus        84 D~~~l~~~~-----------------------------------------------------------------------   92 (241)
T 1iru_E           84 DAKTLIDKA-----------------------------------------------------------------------   92 (241)
T ss_dssp             HHHHHHHHH-----------------------------------------------------------------------
T ss_pred             HHHHHHHHH-----------------------------------------------------------------------
Confidence            777665544                                                                       


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCc-----ceeeeeeeeEEEEeCCCCcEE
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAE-----MRPLGCSMILISYDENEGPLI  240 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~-----~~p~~~~~li~G~d~~~gp~L  240 (291)
                                        +.+++.|++.++++++++.+++.+++++|.|+++.+     .||++++++|+|||+ +||+|
T Consensus        93 ------------------~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~-~gp~L  153 (241)
T 1iru_E           93 ------------------RVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDE-KGPQL  153 (241)
T ss_dssp             ------------------HHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEET-TEEEE
T ss_pred             ------------------HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeC-CCCEE
Confidence                              334444666788899999999999999999988766     799999999999994 78999


Q ss_pred             EEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         241 YKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       241 y~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |.+||+|++.+++++|+|+|+.+++++||+.|++  +||+|||++++++||
T Consensus       154 y~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eea~~la~~al  202 (241)
T 1iru_E          154 FHMDPSGTFVQCDARAIGSASEGAQSSLQELYHK--SMTLKEAIKSSLIIL  202 (241)
T ss_dssp             EEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             EEECCCCcEEecceEEECCCcHHHHHHHHHHhcc--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999  999999999999985

>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=2.9e-49  Score=344.29  Aligned_cols=193  Identities=35%  Similarity=0.581  Sum_probs=171.5

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      .+||+++|+|||||||||||||+|||++| +|+|||+++||||||+|+|.+++++.+++.+||++|++|++|++||+.+|
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~G-tt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   81 (250)
T 1ryp_B            3 DRYSFSLTTFSPSGKLGQIDYALTAVKQG-VTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPD   81 (250)
T ss_dssp             CCCCSBSSCBCTTSCBHHHHHHHHHHHTS-CCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHH
T ss_pred             CcccCCceeECCCCccHHHHhHHHHHHcC-CcEEEEEECCEEEEEEeccCCCccccCcccCceEEECCCEEEEeeeCHHH
Confidence            48999999999999999999999999999 59999999999999999999877777766778888777777777777777


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      +|.++++++                                                                       
T Consensus        82 ~~~l~~~~~-----------------------------------------------------------------------   90 (250)
T 1ryp_B           82 YRVLVDKSR-----------------------------------------------------------------------   90 (250)
T ss_dssp             HHHHHHHHH-----------------------------------------------------------------------
T ss_pred             HHHHHHHHH-----------------------------------------------------------------------
Confidence            776665542                                                                       


Q ss_pred             EEeecccccHHHHHHHHHHHHHH-hHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAAS-FKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~-~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                        .+++. |++.++.+++++.+++.++++++.++++.++||++++++|+|||+++||+||.+||
T Consensus        91 ------------------~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp  152 (250)
T 1ryp_B           91 ------------------KVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDP  152 (250)
T ss_dssp             ------------------HHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECT
T ss_pred             ------------------HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEECC
Confidence                              23333 55567778999999999999999999888889999999999999766899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|+++++++||+.|++  +||+|||++++++||
T Consensus       153 ~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eea~~la~~al  196 (250)
T 1ryp_B          153 SGSYFPWKATAIGKGSVAAKTFLEKRWND--ELELEDAIHIALLTL  196 (250)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             CCCEEeeceeEecCccHHHHHHHHHHhcc--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999985

>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=4.6e-48  Score=338.60  Aligned_cols=194  Identities=34%  Similarity=0.592  Sum_probs=168.5

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCC-cceeEeecCcEEEEEecccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT-VTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~-~~ki~~i~~~~~~~~~G~~~   85 (291)
                      ++||+++|+|||||||||||||+||+++|+ |+|||+++||||||+|+|.++++...++ .+|||+|++|++|++||+.+
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~a   81 (261)
T 1iru_C            3 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITS   81 (261)
T ss_dssp             TTTCCCTTCCCTTSCCHHHHHHHHHHTTSC-CEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHH
T ss_pred             CccCCCCccCCCCCeehHHHhHHHHHhcCC-cEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHH
Confidence            489999999999999999999999999995 9999999999999999999887765543 46666666666666666666


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++                                                                         
T Consensus        82 D~~~l~~-------------------------------------------------------------------------   88 (261)
T 1iru_C           82 DANVLTN-------------------------------------------------------------------------   88 (261)
T ss_dssp             HHHHHHH-------------------------------------------------------------------------
T ss_pred             HHHHHHH-------------------------------------------------------------------------
Confidence            6555544                                                                         


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                      +++.+++.|++.++++++++.+++.++++++.|+++.+.|||+++++|+|||+++||+||.+||
T Consensus        89 ----------------~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp  152 (261)
T 1iru_C           89 ----------------ELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDP  152 (261)
T ss_dssp             ----------------HHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEET
T ss_pred             ----------------HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECC
Confidence                            4444555677788899999999999999999999888899999999999999657899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|+.+++++||+.|++. +||++||++++++||
T Consensus       153 ~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~-~ms~eeA~~la~~al  197 (261)
T 1iru_C          153 SGNYGGWKATCIGNNSAAAVSMLKQDYKEG-EMTLKSALALAIKVL  197 (261)
T ss_dssp             TTEEEECSEEEESTTTTHHHHHHHHHCCTT-CCCHHHHHHHHHHHH
T ss_pred             CceEEeeeeEEeCcccHHHHHHHHHhhccC-CCCHHHHHHHHHHHH
Confidence            999999999999999999999999999874 799999999999885

>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=3.7e-48  Score=339.31  Aligned_cols=193  Identities=27%  Similarity=0.530  Sum_probs=167.5

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      +++||+++|+|||||||||||||+|||++|+ |+|||+++||||||+|+|.+.++..  +.+|||+|++||+|++||+.+
T Consensus         3 ~~~yd~~~t~fsP~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r~~~gl~~--~~~KI~~i~~~i~~~~aG~~a   79 (263)
T 1iru_F            3 RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSELAA--HQKKILHVDNHIGISIAGLTA   79 (263)
T ss_dssp             -CTTTSCTTCCCTTSCCHHHHHHHHHHHHSC-CEEEEECSSEEEEEEECCCSSTTBC--CCCCEEEEETTEEEEEEECHH
T ss_pred             cCCCCCCCccCCCCCeehHHHHHHHHHHcCC-cEEEEEeCCEEEEEEeccccccccc--chhcEEEEcCCEEEEEeCCHH
Confidence            5899999999999999999999999999994 9999999999999999998876542  346666666666666666666


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++                                                                         
T Consensus        80 D~~~l~~-------------------------------------------------------------------------   86 (263)
T 1iru_F           80 DARLLCN-------------------------------------------------------------------------   86 (263)
T ss_dssp             HHHHHHH-------------------------------------------------------------------------
T ss_pred             HHHHHHH-------------------------------------------------------------------------
Confidence            6655544                                                                         


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                      +++.+++.|++.++++++++.+++.++++++.|+++.+.|||+++++|+|||+ +||+||.+||
T Consensus        87 ----------------~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~-~gp~Ly~idp  149 (263)
T 1iru_F           87 ----------------FMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDD-MGPHIFQTCP  149 (263)
T ss_dssp             ----------------HHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECS
T ss_pred             ----------------HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcC-CCCEEEEECC
Confidence                            44445566777889999999999999999999999888899999999999997 7899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|+.+++++||+.|++..+||+|||++++++||
T Consensus       150 ~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al  195 (263)
T 1iru_F          150 SANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRAL  195 (263)
T ss_dssp             SSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             CCCEEEeeEEEcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999998544899999999999985

>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=1.7e-44  Score=311.16  Aligned_cols=192  Identities=25%  Similarity=0.453  Sum_probs=182.4

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      .+||+.+++|||+|||+|+|||++++++|+ +++|+++++||||++|++.+.++.  ++.+||++|+++++++++|..+|
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~--~~~~Ki~~i~~~i~~~~aG~~aD   79 (233)
T 1ryp_F            3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAPD   79 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHH
T ss_pred             CcccCCCccCCCCCeehHHHHHHHHHHcCC-CEEEEEcCCEEEEEEEeccccccc--cccCcEEEEcCCEEEEEEechHH
Confidence            469999999999999999999999999988 999999999999999999987765  36699999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEE
Q psy8777         176 SRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAV  255 (291)
Q Consensus       176 ~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~  255 (291)
                      ++.+.++++.+++.|++.++++++++.+++.+++++|.|+++.+.||++++++|+|||+ +||+||.+||+|++.+++++
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~~~~  158 (233)
T 1ryp_F           80 ARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDK-SGAHLLEFQPSGNVTELYGT  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECTTSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeC-CcCEEEEECCCCCeeeeeEE
Confidence            99999999999999999999999999999999999999999888899999999999997 68999999999999999999


Q ss_pred             EecCCchHHHHHHHHhccCCCCC--CHHHHHHHHHhhC
Q psy8777         256 SVGVKTTEANSYLEKKFKKKTNY--TGDETIQLAISCL  291 (291)
Q Consensus       256 a~G~gs~~~~~~Le~~~~~~~~~--t~~eai~l~~~~l  291 (291)
                      |+|+|+++++++||+.|++..+|  |+|||++++++||
T Consensus       159 aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al  196 (233)
T 1ryp_F          159 AIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAI  196 (233)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHH
T ss_pred             EECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHH
Confidence            99999999999999999864479  9999999999875

>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=4.3e-44  Score=310.37  Aligned_cols=190  Identities=26%  Similarity=0.556  Sum_probs=181.0

Q ss_pred             cccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHHH
Q psy8777          99 DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRY  178 (291)
Q Consensus        99 d~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~  178 (291)
                      |+.+++|||+|||+|+|||++++.+|+ +++|+++++||||++|++.+.+++..++.+||++|+++++++++|..+|++.
T Consensus         1 d~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   79 (242)
T 1ryp_E            1 DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARS   79 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHH
T ss_pred             CCCCceECCCCcChHHHhHHHHHHcCC-CEEEEEECCEEEEEEeecCCCcCccCccCCceEEEcCCEEEEEeecHHHHHH
Confidence            578899999999999999999999988 9999999999999999999977766667899999999999999999999999


Q ss_pred             HHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCc------ceeeeeeeeEEEEeCCCCcEEEEECCCCceEee
Q psy8777         179 QVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAE------MRPLGCSMILISYDENEGPLIYKTDPAGYYCSF  252 (291)
Q Consensus       179 ~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~------~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~  252 (291)
                      +.++++.+++.|++.++++++++.+++.++++++.|+++.+      .|||+++++|+|||+++||+||.+||+|++.++
T Consensus        80 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~  159 (242)
T 1ryp_E           80 MIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRY  159 (242)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEecc
Confidence            99999999999999999999999999999999998888876      899999999999995578999999999999999


Q ss_pred             eEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         253 KAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       253 ~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +++++|+|+.+++++||+.|++  +||+|||++++++||
T Consensus       160 ~~~aiGsgs~~a~~~Le~~~~~--~ms~eea~~la~~al  196 (242)
T 1ryp_E          160 NAKAIGSGSEGAQAELLNEWHS--SLTLKEAELLVLKIL  196 (242)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             CEEEECCCCHHHHHHHHHhhcc--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999  999999999999985

>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=8.4e-37  Score=266.57  Aligned_cols=177  Identities=16%  Similarity=0.228  Sum_probs=162.0

Q ss_pred             cccCCCCchh-hHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHHHHHH
Q psy8777         103 TIFSPEGRLY-QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQ  181 (291)
Q Consensus       103 ~~~sp~grl~-qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~  181 (291)
                      ..++|++++. |+|||++++.+|+ +++|+++++||||++|++       .++.+|||+|+++++++++|..+|++.+.+
T Consensus         5 ~~~sPe~~~~~qvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r-------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~   76 (259)
T 1q5q_A            5 YYASAEQIMRDRSELARKGIARGR-SVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGKYNEFENLRR   76 (259)
T ss_dssp             ----CHHHHHHHHHHHHHHHHTSC-CEEEEECSSEEEEEECCS-------CSSSCSEEEEETTEEEEEEECHHHHHHHHH
T ss_pred             cccCHHHHHHHHHHHHHHHHhcCC-cEEEEEeCCEEEEEEecC-------CCCcCcEEEeCCCEEEEEccCHHHHHHHHH
Confidence            3579999995 9999999999998 999999999999999987       256789999999999999999999999999


Q ss_pred             HHHHHHHHhHhhhC-CCCCHHHHHHHHHH-HHHHhhhcCcceeeeeeeeEEEEe--C-CCCcEEEEECCCCceE-eeeEE
Q psy8777         182 RARYEAASFKYKHG-YSMPIDQLCNRIAD-ISQVYTQNAEMRPLGCSMILISYD--E-NEGPLIYKTDPAGYYC-SFKAV  255 (291)
Q Consensus       182 ~~~~e~~~~~~~~~-~~~s~~~l~~~l~~-~~~~~~~~~~~~p~~~~~li~G~d--~-~~gp~Ly~~d~~G~~~-~~~~~  255 (291)
                      +++.+++.+.+.++ .+++++.+++.+++ +.|.|+.  +.|||+++++|+|||  + ++||+||.+||+|++. +++++
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            99999999999988 49999999999999 7777873  679999999999999  3 4789999999999999 78999


Q ss_pred             EecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         256 SVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       256 a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ++|+|++.++++||+.|++  +||++||++++++||
T Consensus       155 aiG~gs~~a~~~Le~~~~~--~ms~eea~~la~~al  188 (259)
T 1q5q_A          155 VMGGTTEPIATAMRESYRA--DLDLEAAVGIAVNAL  188 (259)
T ss_dssp             EESSSHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             EECCChHHHHHHHHhhccC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999  999999999999985

>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=9.4e-36  Score=257.69  Aligned_cols=167  Identities=17%  Similarity=0.246  Sum_probs=156.8

Q ss_pred             hHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHh
Q psy8777         113 QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKY  192 (291)
Q Consensus       113 qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~  192 (291)
                      ++|||++++++|+ +++|+++++||||++|++       .++.+|||+|++|++++++|+.+|++.+.+.++.+++.|++
T Consensus        16 r~EYA~~av~~Gt-T~vgi~~kdgVVlaadkr-------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~l~~~   87 (248)
T 3mi0_A           16 RSELARKGIARAK-SVVALAYAGGVLFVAENP-------SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQFADTRGY   87 (248)
T ss_dssp             HHHHHHHHHHTSC-CEEEEEETTEEEEEEECC-------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHhCCC-cEEEEEeCCEEEEEEeCC-------CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHHHHHHHHH
Confidence            5799999999988 999999999999999987       25678999999999999999999999999999999999999


Q ss_pred             hhC-CCCCHHHHHHHHH-HHHHHhhhcCcceeeeeeeeEEEEeC---CCCcEEEEECCCCceEe-eeEEEecCCchHHHH
Q psy8777         193 KHG-YSMPIDQLCNRIA-DISQVYTQNAEMRPLGCSMILISYDE---NEGPLIYKTDPAGYYCS-FKAVSVGVKTTEANS  266 (291)
Q Consensus       193 ~~~-~~~s~~~l~~~l~-~~~~~~~~~~~~~p~~~~~li~G~d~---~~gp~Ly~~d~~G~~~~-~~~~a~G~gs~~~~~  266 (291)
                      .++ ++++++.+++.++ .+.|.|++  +.|||+++++|+|||+   ++||+||++||+|++.. ++++|+|+|++.+++
T Consensus        88 ~~~~~~i~v~~la~~l~~~l~q~yt~--~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~  165 (248)
T 3mi0_A           88 AYDRRDVTGRQLANVYAQTLGTIFTE--QAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIAN  165 (248)
T ss_dssp             HSCGGGCCHHHHHHHHHHHHHHHHHH--SSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEEEESSCHHHHHH
T ss_pred             hcCCCCCCHHHHHHHHHHHHHHHhcc--CCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEEEECccHHHHHH
Confidence            999 8999999999999 77888987  6799999999999997   47899999999999995 999999999999999


Q ss_pred             HHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         267 YLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       267 ~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +||++|++  +||+|||++++++||
T Consensus       166 ~Le~~y~~--~mt~eeai~la~~aL  188 (248)
T 3mi0_A          166 ALKESYAE--NASLTDALRIAVAAL  188 (248)
T ss_dssp             HHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             HHHhhcCC--CCCHHHHHHHHHHHH
Confidence            99999999  999999999999985

>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=1e-33  Score=241.11  Aligned_cols=163  Identities=20%  Similarity=0.370  Sum_probs=149.7

Q ss_pred             hhcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCC
Q psy8777         120 AINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSM  198 (291)
Q Consensus       120 ~~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~  198 (291)
                      ++.+|+ +++|+++++|||+++|++.+ +.++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.+++++
T Consensus         4 ~~~~Gt-t~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T 1yar_H            4 TLETGT-TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNM   82 (217)
T ss_dssp             -----C-CEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CCCCCc-cEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            445676 99999999999999999998 4677777889999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCC
Q psy8777         199 PIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNY  278 (291)
Q Consensus       199 s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~  278 (291)
                      +++.+++.++++++.+    +.|||+++++|+|||  +||+||.+||+|++.+++++|+|+|+++++++||+.|++  +|
T Consensus        83 ~v~~la~~l~~~~~~~----r~rp~~v~~lvaG~D--~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~~  154 (217)
T 1yar_H           83 PIEAVATLLSNMLNQV----KYMPYMVQLLVGGID--TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSE--KM  154 (217)
T ss_dssp             CHHHHHHHHHHHHHHT----TTSCCCEEEEEEEES--SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCT--TC
T ss_pred             CHHHHHHHHHHHHHhc----CCCCceEEEEEEEEC--CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhccc--CC
Confidence            9999999999999653    378999999999999  589999999999999999999999999999999999999  99


Q ss_pred             CHHHHHHHHHhhC
Q psy8777         279 TGDETIQLAISCL  291 (291)
Q Consensus       279 t~~eai~l~~~~l  291 (291)
                      |+|||++++++||
T Consensus       155 s~eea~~la~~al  167 (217)
T 1yar_H          155 TVDEGVDLVIRAI  167 (217)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999885

>3h4p_a Proteasome subunit beta; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii}

Probab=100.00  E-value=5.5e-34  Score=243.12  Aligned_cols=160  Identities=25%  Similarity=0.356  Sum_probs=150.7

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++||||++|++.+. .++..++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++.+++++.++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   81 (219)
T 3h4p_a            2 TTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACA   81 (219)
T ss_dssp             CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHHH
T ss_pred             ccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            4899999999999999999984 466677889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeee-EEEecCCchHHHHHHHHhccCCCCCCHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFK-AVSVGVKTTEANSYLEKKFKKKTNYTGDET  283 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~~~t~~ea  283 (291)
                      +.++++++.+    +.+||+++++|+|||+++||+||.+||+|++.+++ ++++|+|+++++++||+.|++  +||+|||
T Consensus        82 ~~l~~~~~~~----~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~--~ms~eea  155 (219)
T 3h4p_a           82 TLLSNILHSS----RMFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDR--DMSVEEG  155 (219)
T ss_dssp             HHHHHHHHHT----TTTTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCT--TCCHHHH
T ss_pred             HHHHHHHHHh----cCCCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCC--CCCHHHH
Confidence            9999999665    36899999999999976789999999999999999 999999999999999999999  9999999


Q ss_pred             HHHHHhhC
Q psy8777         284 IQLAISCL  291 (291)
Q Consensus       284 i~l~~~~l  291 (291)
                      ++++++||
T Consensus       156 ~~la~~al  163 (219)
T 3h4p_a          156 IKLALNAL  163 (219)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999985

>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=1.5e-33  Score=239.57  Aligned_cols=164  Identities=19%  Similarity=0.291  Sum_probs=151.5

Q ss_pred             hcCCceeEEEEecccEEEEEeeccCCCcc-cCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCC
Q psy8777         121 INQGGVTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMP  199 (291)
Q Consensus       121 ~~~g~~~~igi~~~~~vvl~~d~~~~~~l-~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s  199 (291)
                      +++|+ +++|++++++|||++|++.+.++ +..++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++
T Consensus         6 v~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (213)
T 1iru_M            6 VFNGG-TILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMT   84 (213)
T ss_dssp             CCCCC-EEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             cCCCC-cEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            45666 99999999999999999998655 44467899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHh--------
Q psy8777         200 IDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKK--------  271 (291)
Q Consensus       200 ~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~--------  271 (291)
                      ++.+++.+++++  |+++  .+||+++++|+|||++++|+||.+||+|++.+++++|+|+|+++++++||+.        
T Consensus        85 v~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~  160 (213)
T 1iru_M           85 TGAIAAMLSTIL--YSRR--FFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQN  160 (213)
T ss_dssp             HHHHHHHHHHHH--HHTT--TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSS
T ss_pred             HHHHHHHHHHHH--HhhC--CCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhccccccccc
Confidence            999999999998  6654  7999999999999975669999999999999999999999999999999999        


Q ss_pred             -ccCCCCCCHHHHHHHHHhhC
Q psy8777         272 -FKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       272 -~~~~~~~t~~eai~l~~~~l  291 (291)
                       |++  +||+|||++++++||
T Consensus       161 ~~~~--~~s~eea~~l~~~al  179 (213)
T 1iru_M          161 VEHV--PLSLDRAMRLVKDVF  179 (213)
T ss_dssp             CCCC--CCCHHHHHHHHHHHH
T ss_pred             cCCC--CCCHHHHHHHHHHHH
Confidence             777  999999999999885

>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=3.9e-34  Score=247.77  Aligned_cols=208  Identities=19%  Similarity=0.324  Sum_probs=142.8

Q ss_pred             cceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchhh
Q psy8777          10 DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRY   89 (291)
Q Consensus        10 d~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~   89 (291)
                      |+++|+|||||||||||||++|+++|+ |+|||+++||||||+|+|.++++..+++.+|||+|++|++|++||+.+|+|.
T Consensus         1 d~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   79 (242)
T 1ryp_E            1 DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARS   79 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHH
T ss_pred             CCCCceECCCCcChHHHhHHHHHHcCC-CEEEEEECCEEEEEEeecCCCcCccCccCCceEEEcCCEEEEEeecHHHHHH
Confidence            789999999999999999999999995 9999999999999999999999877777899999999999999999999999


Q ss_pred             hhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEE------EecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          90 QVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVA------VKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        90 ~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~ig------i~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      +++.++.+....-..+...-.+..+-.......+..+..-+      .||....+|.+.       ++++.+|+||.+||
T Consensus        80 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG-------~D~~~gp~Ly~idp  152 (242)
T 1ryp_E           80 MIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAG-------HDADDGYQLFHAEP  152 (242)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEE-------EETTTEEEEEEECT
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEE-------EeCCCCCEEEEECC
Confidence            99999854322211111111111111111111122111112      456676666664       55457899999999


Q ss_pred             cEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         164 TVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       164 ~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      .|.+. ....+.+..+...+..++.     .++.+|+.+++++.+...+.....+ ...+..+++.++.
T Consensus       153 ~G~~~~~~~~aiGsgs~~a~~~Le~-----~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~  215 (242)
T 1ryp_E          153 SGTFYRYNAKAIGSGSEGAQAELLN-----EWHSSLTLKEAELLVLKILKQVMEE-KLDENNAQLSCIT  215 (242)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHH-----HCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEEE
T ss_pred             CCCEeccCEEEECCCCHHHHHHHHH-----hhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEE
Confidence            99753 1222333544444444444     3455899999998666666444333 3445556666653

>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=8.4e-34  Score=239.75  Aligned_cols=165  Identities=16%  Similarity=0.287  Sum_probs=153.7

Q ss_pred             HhhhcCCceeEEEEecccEEEEEeeccCCCc-ccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCC
Q psy8777         118 FKAINQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGY  196 (291)
Q Consensus       118 ~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~-l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~  196 (291)
                      .+++.+|+ +++|++++++||+++|++.+.+ ++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.+++
T Consensus         3 ~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   81 (205)
T 1ryp_H            3 KGEVSLGA-SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT   81 (205)
T ss_dssp             TTCCBCCC-CEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCCcCCc-eEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            45677877 9999999999999999999855 676677899999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCC
Q psy8777         197 SMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT  276 (291)
Q Consensus       197 ~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~  276 (291)
                       ++++.+++.++++++.|++    + ++++++|+|||+++||+||.+||+|++.+++++++|+|+++++++||+.|++  
T Consensus        82 -~~v~~la~~l~~~~~~~~~----~-~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--  153 (205)
T 1ryp_H           82 -PSTETAASVFKELCYENKD----N-LTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRE--  153 (205)
T ss_dssp             -CCHHHHHHHHHHHHHHTTT----T-CCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCT--
T ss_pred             -CCHHHHHHHHHHHHHhhhc----C-ceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCC--
Confidence             9999999999999987754    2 9999999999976789999999999999999999999999999999999999  


Q ss_pred             CCCHHHHHHHHHhhC
Q psy8777         277 NYTGDETIQLAISCL  291 (291)
Q Consensus       277 ~~t~~eai~l~~~~l  291 (291)
                      +||+|||++++++||
T Consensus       154 ~~s~eea~~l~~~al  168 (205)
T 1ryp_H          154 NMSKEETVDFIKHSL  168 (205)
T ss_dssp             TCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            999999999999885

>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4

Probab=100.00  E-value=1.7e-33  Score=237.33  Aligned_cols=159  Identities=22%  Similarity=0.366  Sum_probs=150.0

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++||||++|++.+. .++..++.+|||+|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            4789999999999999999984 677777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeee-EEEecCCchHHHHHHHHhccCCCCCCHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFK-AVSVGVKTTEANSYLEKKFKKKTNYTGDET  283 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~~~t~~ea  283 (291)
                      +.++++++.+    +.|||+++++|+|||+ +||+||.+||+|++.+++ ++++|+|+++++++||+.|++  +||+|||
T Consensus        81 ~~l~~~~~~~----r~rp~~~~~lvaG~D~-~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~--~~s~eea  153 (202)
T 1j2q_H           81 TLTSNLLNSY----RYFPYLVQLLIGGIDS-EGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTP--EIGVDEA  153 (202)
T ss_dssp             HHHHHHHHHT----TTSCCCEEEEEEEEET-TEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCT--TCCHHHH
T ss_pred             HHHHHHHHhh----CCCCceEEEEEEEEeC-CCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCC--CcCHHHH
Confidence            9999999653    3689999999999997 689999999999999999 999999999999999999999  9999999


Q ss_pred             HHHHHhhC
Q psy8777         284 IQLAISCL  291 (291)
Q Consensus       284 i~l~~~~l  291 (291)
                      ++++++||
T Consensus       154 ~~la~~al  161 (202)
T 1j2q_H          154 VELAVRAI  161 (202)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999885

>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=4.6e-34  Score=243.74  Aligned_cols=169  Identities=17%  Similarity=0.214  Sum_probs=156.3

Q ss_pred             hhhcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHh-hhCC
Q psy8777         119 KAINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKY-KHGY  196 (291)
Q Consensus       119 ~~~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~-~~~~  196 (291)
                      +++.+|+ +++|++++++|||++|++.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.+++.|++ .++.
T Consensus         3 ~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (219)
T 1iru_N            3 NPMVTGT-SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (219)
T ss_dssp             SCCSEEC-CCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCccCCc-eEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            4566776 99999999999999999998 4677777889999999999999999999999999999999999998 8999


Q ss_pred             CCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCC
Q psy8777         197 SMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT  276 (291)
Q Consensus       197 ~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~  276 (291)
                      +++++.+++.+++++  |+++...+||+++++|+|+|+ +||+||.+||+|++.+++++++|+|+++++++||+.|++..
T Consensus        82 ~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~-~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~  158 (219)
T 1iru_N           82 SYSPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYAD-GESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQP  158 (219)
T ss_dssp             CCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEEET-TEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCS
T ss_pred             CCCHHHHHHHHHHHH--HHhcccCCCceEEEEEEEEEC-CCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCC
Confidence            999999999999998  556666899999999999997 58999999999999999999999999999999999998855


Q ss_pred             CCCHHHHHHHHHhhC
Q psy8777         277 NYTGDETIQLAISCL  291 (291)
Q Consensus       277 ~~t~~eai~l~~~~l  291 (291)
                      +||++||++++++||
T Consensus       159 ~mt~eea~~l~~~al  173 (219)
T 1iru_N          159 VLSQTEARDLVERCM  173 (219)
T ss_dssp             CCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            899999999999985

>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=1.5e-33  Score=238.21  Aligned_cols=159  Identities=15%  Similarity=0.271  Sum_probs=150.0

Q ss_pred             eeEEEEecccEEEEEeeccCCCc-ccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~-l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++||||++|++.+.+ ++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            47899999999999999999855 77767789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.|++     |++++++|+|||+++||+||.+||+|++.+++++++|+|+++++++||+.|++  +||+|||+
T Consensus        81 ~~l~~~~~~~~~-----p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~--~~s~eea~  153 (205)
T 1iru_H           81 SLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYRE--GMTKEECL  153 (205)
T ss_dssp             HHHHHHHHHTTT-----TCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCT--TCCHHHHH
T ss_pred             HHHHHHHHhcCc-----CccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCC--CCCHHHHH
Confidence            999999977643     99999999999976789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       154 ~l~~~al  160 (205)
T 1iru_H          154 QFTANAL  160 (205)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999885

>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=1.8e-33  Score=236.53  Aligned_cols=162  Identities=15%  Similarity=0.252  Sum_probs=149.5

Q ss_pred             eeEEEEecccEEEEEeeccCCCcc-cCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~l-~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++||||++|++.+.++ +..++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            389999999999999999998544 4356789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeC-CCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDE-NEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDET  283 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~-~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~ea  283 (291)
                      +.++++++.+++  .++||+++++|+|||+ ++||+||.+||+|++.+++++++|+|+++++++||+.|++  +||+|||
T Consensus        82 ~~l~~~l~~~~~--~r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~--~~s~eea  157 (198)
T 1ryp_K           82 SFVRQELAKSIR--SRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRP--DMTTEEG  157 (198)
T ss_dssp             HHHHHHHHHHTT--SSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCT--TCCHHHH
T ss_pred             HHHHHHHHHhcc--cCCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCC--CCCHHHH
Confidence            999999977653  2359999999999996 4789999999999999999999999999999999999999  9999999


Q ss_pred             HHHHHhhC
Q psy8777         284 IQLAISCL  291 (291)
Q Consensus       284 i~l~~~~l  291 (291)
                      ++++++||
T Consensus       158 ~~l~~~al  165 (198)
T 1ryp_K          158 LDLLKLCV  165 (198)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999885

>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=2.3e-34  Score=247.85  Aligned_cols=204  Identities=20%  Similarity=0.286  Sum_probs=140.8

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      ++||+++|+|||||||||||||+|||++|+ |+|||+++||||||+|+|.+.++..  +.+||++|++|++|++||+.+|
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~--~~~Ki~~i~~~i~~~~aG~~aD   79 (233)
T 1ryp_F            3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELSS--YQKKIIKCDEHMGLSLAGLAPD   79 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSEEEEEEECCCSSTTBC--CCCCEEEEETTEEEEEEECHHH
T ss_pred             CcccCCCccCCCCCeehHHHHHHHHHHcCC-CEEEEEcCCEEEEEEEecccccccc--ccCcEEEEcCCEEEEEEechHH
Confidence            479999999999999999999999999995 9999999999999999999998764  5699999999999999999999


Q ss_pred             hhhhhhhhcccc-------cccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEE
Q psy8777          87 SRYQVQRARAGF-------DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLY  159 (291)
Q Consensus        87 ~~~~~~~~~~~y-------d~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~  159 (291)
                      +|.+++.++.+.       +.++++......+.++-  ..+.     ...+.+|....+|.+.       +++ ++|+||
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~--~~~t-----~~~~~rp~~v~~lvaG-------~D~-~gp~Ly  144 (233)
T 1ryp_F           80 ARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA--QKNT-----QSYGGRPYGVGLLIIG-------YDK-SGAHLL  144 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHH--HHHH-----HBTTCCCCCEEEEEEE-------EET-TEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH--HHHh-----cccCCcCcceEEEEEE-------EeC-CcCEEE
Confidence            999999998442       22232221111111111  0110     1112356666666654       443 689999


Q ss_pred             EecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCC--CHHHHHHHHHHHHHHhhhcC-cceeeeeeeeEEEE
Q psy8777         160 SLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSM--PIDQLCNRIADISQVYTQNA-EMRPLGCSMILISY  232 (291)
Q Consensus       160 ~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~--s~~~l~~~l~~~~~~~~~~~-~~~p~~~~~li~G~  232 (291)
                      .+||.|.+. ....+.+..+...+..++......   .+|  +.+++++.+.+.+.... +. ...+..+++.++..
T Consensus       145 ~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~---~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~  217 (233)
T 1ryp_F          145 EFQPSGNVTELYGTAIGARSQGAKTYLERTLDTF---IKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGK  217 (233)
T ss_dssp             EECTTSCEEEESEEEESTTHHHHHHHHHHHHHHH---TTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEET
T ss_pred             EECCCCCeeeeeEEEECCCcHHHHHHHHHHhccc---cccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEEC
Confidence            999999753 222333355555555555432221   267  99999996666553333 22 23456677777643

>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=2.7e-33  Score=237.83  Aligned_cols=160  Identities=18%  Similarity=0.278  Sum_probs=150.9

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++||||++|++.+. .++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            4789999999999999999984 677777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.|++    .|++++++|+|||++++|+||.+||+|++.+++++|+|+|+++++++||+.|++  +||++||+
T Consensus        81 ~~l~~~~~~~~~----~p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~~s~eea~  154 (212)
T 1ryp_L           81 KILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW--DLSVEDAL  154 (212)
T ss_dssp             HHHHHHHHHTTT----SCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCT--TCCHHHHH
T ss_pred             HHHHHHHHhhCC----CCceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCC--CCCHHHHH
Confidence            999999987754    489999999999965789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       155 ~la~~al  161 (212)
T 1ryp_L          155 YLGKRSI  161 (212)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999885

>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=5.8e-34  Score=245.32  Aligned_cols=170  Identities=15%  Similarity=0.196  Sum_probs=156.8

Q ss_pred             hhhcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHh-----
Q psy8777         119 KAINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKY-----  192 (291)
Q Consensus       119 ~~~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~-----  192 (291)
                      +++.+|+ +++|++++++|||++|++.+ +.++..++.+||++|+++++++++|..+|++.+.++++.+++.|++     
T Consensus         3 ~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (233)
T 1ryp_N            3 QPIVTGT-SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCEEEC-CEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             ccccCCc-eEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchh
Confidence            4566777 99999999999999999998 4667777889999999999999999999999999999999999999     


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhc
Q psy8777         193 KHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKF  272 (291)
Q Consensus       193 ~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~  272 (291)
                      .++.+++++.+++.+++++  |+++.+.+||+++++|+|||+++||+||.+||+|++.+++++++|+|+++++++||+.|
T Consensus        82 ~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~  159 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             hcCCCCCHHHHHHHHHHHH--HHhcCCCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhh
Confidence            8999999999999999998  66666689999999999999756899999999999999999999999999999999999


Q ss_pred             cCCC---CCCHHHHHHHHHhhC
Q psy8777         273 KKKT---NYTGDETIQLAISCL  291 (291)
Q Consensus       273 ~~~~---~~t~~eai~l~~~~l  291 (291)
                      ++..   +||+|||++++++||
T Consensus       160 ~~~~~~~~ms~eea~~la~~al  181 (233)
T 1ryp_N          160 DRESDIPKTTVQVAEEAIVNAM  181 (233)
T ss_dssp             SSGGGGGGCCHHHHHHHHHHHH
T ss_pred             ccccccCCCCHHHHHHHHHHHH
Confidence            8743   799999999999985

>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=2.5e-33  Score=247.89  Aligned_cols=171  Identities=20%  Similarity=0.223  Sum_probs=159.0

Q ss_pred             HHhhhcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhC
Q psy8777         117 AFKAINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHG  195 (291)
Q Consensus       117 ~~~~~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~  195 (291)
                      +.+++.+|+ +++|+++++||||++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++
T Consensus        58 a~~Av~~Gt-TiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g  136 (294)
T 1q5r_H           58 SGDLAPHGT-TIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEG  136 (294)
T ss_dssp             --CCSCBCC-CEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHhcCc-eEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhC
Confidence            778889988 99999999999999999998 4677777889999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCC-----cEEEEECCCCceEee--eEEEecCCchHHHHHH
Q psy8777         196 YSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEG-----PLIYKTDPAGYYCSF--KAVSVGVKTTEANSYL  268 (291)
Q Consensus       196 ~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~g-----p~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~L  268 (291)
                      ++++++.+++.|+++++.++.+. .+||+++++|+|||++++     |+||.+||+|++.++  +++++|+|+.+++++|
T Consensus       137 ~~isv~~la~~la~~l~~~~~~~-~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~L  215 (294)
T 1q5r_H          137 VPLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSAL  215 (294)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHH-TTTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHhhh-cCCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHH
Confidence            99999999999999998876643 799999999999997556     999999999999999  8999999999999999


Q ss_pred             HHhccCCCCCCHHHHHHHHHhhC
Q psy8777         269 EKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       269 e~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |+.|++  +||+|||++++++||
T Consensus       216 e~~y~~--~ms~eEAi~la~~aL  236 (294)
T 1q5r_H          216 KKIYSP--DSDEETALRAAIESL  236 (294)
T ss_dssp             HHHCCS--SCCHHHHHHHHHHHH
T ss_pred             HHhccC--CCCHHHHHHHHHHHH
Confidence            999999  999999999999985

>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=3.2e-33  Score=240.88  Aligned_cols=163  Identities=20%  Similarity=0.235  Sum_probs=153.0

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++||||++|++.+ +.++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            478999999999999999998 4677777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCC-----cEEEEECCCCceEee--eEEEecCCchHHHHHHHHhccCCCC
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEG-----PLIYKTDPAGYYCSF--KAVSVGVKTTEANSYLEKKFKKKTN  277 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~g-----p~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~~  277 (291)
                      +.|+++++.++++. .|||+++++|+|||++++     |+||.+||+|++.++  +++++|+|+.+++++||+.|++  +
T Consensus        81 ~~l~~~~~~~~~~~-~rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~--~  157 (235)
T 1q5q_H           81 NRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSP--D  157 (235)
T ss_dssp             HHHHHHHHTTHHHH-TTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCT--T
T ss_pred             HHHHHHHHHHHHhh-hcccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCC--C
Confidence            99999998876543 789999999999997557     999999999999999  9999999999999999999999  9


Q ss_pred             CCHHHHHHHHHhhC
Q psy8777         278 YTGDETIQLAISCL  291 (291)
Q Consensus       278 ~t~~eai~l~~~~l  291 (291)
                      ||+|||++++++||
T Consensus       158 ms~eeA~~la~~al  171 (235)
T 1q5q_H          158 SDEETALRAAIESL  171 (235)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999999999885

>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=6.1e-33  Score=237.18  Aligned_cols=165  Identities=19%  Similarity=0.326  Sum_probs=151.5

Q ss_pred             hhcCCceeEEEEecccEEEEEeeccCCCcc-cCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhC-CC
Q psy8777         120 AINQGGVTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHG-YS  197 (291)
Q Consensus       120 ~~~~g~~~~igi~~~~~vvl~~d~~~~~~l-~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~-~~  197 (291)
                      ++.+|+ +++|++++++|||++|++.+.++ +..++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++ ++
T Consensus         5 ~v~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   83 (222)
T 1ryp_M            5 YGDNGG-TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKK   83 (222)
T ss_dssp             CCCCCC-EEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCC
T ss_pred             cccCCc-cEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence            345676 99999999999999999998554 4566789999999999999999999999999999999999999999 99


Q ss_pred             CCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHh------
Q psy8777         198 MPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKK------  271 (291)
Q Consensus       198 ~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~------  271 (291)
                      ++++.+++.+++++  |+++  .+||+++++|+|||++++|+||.+||+|++.+++++++|+|+.+++++||+.      
T Consensus        84 ~~v~~la~~l~~~l--y~~r--~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~  159 (222)
T 1ryp_M           84 LSINSAARNIQHLL--YGKR--FFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQ  159 (222)
T ss_dssp             CCHHHHHHHHHHHH--HTTT--TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTC
T ss_pred             CCHHHHHHHHHHHH--HhcC--CCCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhcccccccc
Confidence            99999999999998  6543  6899999999999975669999999999999999999999999999999998      


Q ss_pred             -----------ccCCCCCCHHHHHHHHHhhC
Q psy8777         272 -----------FKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       272 -----------~~~~~~~t~~eai~l~~~~l  291 (291)
                                 |++  +||+|||++++++||
T Consensus       160 ~~~~~~~~~~~~~~--~~s~eeA~~la~~al  188 (222)
T 1ryp_M          160 YEPGTNGKVKKPLK--YLSVEEVIKLVRDSF  188 (222)
T ss_dssp             BCTTSTTCSBCCCC--CCCHHHHHHHHHHHH
T ss_pred             cccccccccccCCC--CCCHHHHHHHHHHHH
Confidence                       777  999999999999985

>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=4.7e-33  Score=245.38  Aligned_cols=169  Identities=18%  Similarity=0.270  Sum_probs=151.2

Q ss_pred             HHHhhhcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhh
Q psy8777         116 YAFKAINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKH  194 (291)
Q Consensus       116 ~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~  194 (291)
                      ++..++.+|+ +++|+++++||||++|++.+ +.++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.+
T Consensus        67 ~~~~~v~~Gt-T~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~l~~~lr~~~~~y~~~~  145 (287)
T 3nzj_K           67 DCKIKIAHGT-TTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELRE  145 (287)
T ss_dssp             ---------C-CEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhheccCc-eEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            4566778887 99999999999999999998 466777788999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccC
Q psy8777         195 GYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK  274 (291)
Q Consensus       195 ~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~  274 (291)
                      +++++++.+++.++++++.|++    .|++++++|+|||+++||+||.+||+|++.+++++++|+|+.+++++||+.|++
T Consensus       146 ~~~isv~~la~~ls~~l~~~r~----~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~~~~~AiGsgs~~a~~~Le~~y~~  221 (287)
T 3nzj_K          146 KERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW  221 (287)
T ss_dssp             SSCCCHHHHHHHHHHHHHHTTT----SCCCEEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHTSCCT
T ss_pred             CCCCCHHHHHHHHHHHHHhhcC----CCceEEEEEEEEcCCCCCEEEEECCCceEEEcCeEEEecchHHHHHHHHHhhcC
Confidence            9999999999999999976643    599999999999965789999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHhhC
Q psy8777         275 KTNYTGDETIQLAISCL  291 (291)
Q Consensus       275 ~~~~t~~eai~l~~~~l  291 (291)
                        +||+|||++++++||
T Consensus       222 --dms~eEAi~la~~aL  236 (287)
T 3nzj_K          222 --DLSVEDALYLGKRSI  236 (287)
T ss_dssp             --TCCHHHHHHHHHHHH
T ss_pred             --CCCHHHHHHHHHHHH
Confidence              999999999999985

>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=6.7e-33  Score=233.51  Aligned_cols=162  Identities=16%  Similarity=0.273  Sum_probs=148.5

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|++++++|||++|++.+. .++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            3899999999999999999984 677777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +++++.+. |..+. .+||+++++|+|||+++||+||.+||+|++.+++++++|+|+++++++||+.|++  +||+|||+
T Consensus        82 ~~~~~~l~-~~~~~-~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~~s~eea~  157 (201)
T 1iru_K           82 NFTRRNLA-DCLRS-RTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTP--TISRERAV  157 (201)
T ss_dssp             HHHHHHHH-HHHTS-SSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCT--TCCHHHHH
T ss_pred             HHHHHHHH-HHHhc-CCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccC--CCCHHHHH
Confidence            99887652 22232 3799999999999976689999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       158 ~l~~~al  164 (201)
T 1iru_K          158 ELLRKCL  164 (201)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999885

>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=5.8e-33  Score=234.42  Aligned_cols=159  Identities=18%  Similarity=0.286  Sum_probs=149.7

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      |+++|+++++||||++|++.+. .++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            4789999999999999999984 677777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.++    ..|++++++|+|||+ +||+||.+||+|++.+++++|+|+|+++++++||+.|++  +||++||+
T Consensus        81 ~~l~~~~~~~r----~~~~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~--~~s~eea~  153 (204)
T 1iru_L           81 KLLANMVYQYK----GMGLSMGTMICGWDK-RGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSY--DLEVEQAY  153 (204)
T ss_dssp             HHHHHHHHTTT----TSCCCBEEEEEEECS-SSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCT--TCCHHHHH
T ss_pred             HHHHHHHHHhC----CCCeeEEEEEEEEeC-CCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCC--CCCHHHHH
Confidence            99999997663    358999999999997 789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       154 ~l~~~al  160 (204)
T 1iru_L          154 DLARRAI  160 (204)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999885

>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=7.6e-33  Score=241.19  Aligned_cols=166  Identities=21%  Similarity=0.257  Sum_probs=148.4

Q ss_pred             HHhhhcCCceeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhC
Q psy8777         117 AFKAINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHG  195 (291)
Q Consensus       117 ~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~  195 (291)
                      ..+++.+|+ +++|+++++||||++|++.+. .++..++.+||++|+++++++++|..+|++.+.++++.+++.|++.++
T Consensus        22 ~~kav~~Gt-Tivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~  100 (261)
T 3nzj_H           22 QPKATSTGT-TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTS  100 (261)
T ss_dssp             --------C-CEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCcccccCc-eEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhC
Confidence            356778887 999999999999999999984 566667889999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCC
Q psy8777         196 YSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK  275 (291)
Q Consensus       196 ~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~  275 (291)
                      ++++++.+++.++..+..|     .+|++++++|+|||+ .||+||.+||+|++.+++++++|+|++.++++||+.|++ 
T Consensus       101 ~~~~v~~~a~~l~~~l~~~-----~~~~gv~llvaG~D~-~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~-  173 (261)
T 3nzj_H          101 REPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQ-  173 (261)
T ss_dssp             SCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEET-TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCS-
T ss_pred             CCCCHHHHHHHHHHHHHHh-----cCcccEEEEEEEEeC-CCCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhcc-
Confidence            9999999999999988443     369999999999997 689999999999999999999999999999999999999 


Q ss_pred             CCCCHHHHHHHHHhhC
Q psy8777         276 TNYTGDETIQLAISCL  291 (291)
Q Consensus       276 ~~~t~~eai~l~~~~l  291 (291)
                       +||+|||++++++||
T Consensus       174 -~ms~eEA~~la~~al  188 (261)
T 3nzj_H          174 -DLTKEEAIKLASDAI  188 (261)
T ss_dssp             -SCCHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHH
Confidence             999999999999885

>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=8e-33  Score=237.71  Aligned_cols=158  Identities=18%  Similarity=0.324  Sum_probs=147.9

Q ss_pred             eeEEEEecccEEEEEeeccCCCcc-cCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~l-~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      |+++|+++++||||++|++.+.++ +..++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            489999999999999999998655 4456789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.|     .+|++++++|+|||+ +||+||.+||+|++.+++++++|+|+.+++++||+.|++  +||+|||+
T Consensus        81 ~~l~~~l~~~-----~~p~~v~llvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eeA~  152 (234)
T 3unf_H           81 RILRQTLFRY-----QGHVGASLVVGGVDL-NGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQP--NMTLEAAQ  152 (234)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEET-TEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCS--SCCHHHHH
T ss_pred             HHHHHHHHhc-----CCCccEEEEEEEEeC-CCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCC--CCCHHHHH
Confidence            9999998654     369999999999997 689999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       153 ~la~~al  159 (234)
T 3unf_H          153 ELLVEAI  159 (234)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999885

>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=9.3e-33  Score=244.10  Aligned_cols=173  Identities=20%  Similarity=0.219  Sum_probs=146.9

Q ss_pred             HHHHHhhhcCCceeEEEEecccEEEEEeeccCCCc-ccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHh
Q psy8777         114 VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKY  192 (291)
Q Consensus       114 ve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~-l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~  192 (291)
                      ++|+++ +.+|+ +++|+++++||||++|++.+.+ ++..++.+|||+|+++++++++|..+|++.+.++++.+++.|++
T Consensus        48 ~~ya~~-v~~Gt-TiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~~  125 (291)
T 2jay_A           48 AGGDAQ-LPHGT-TIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEK  125 (291)
T ss_dssp             -----------C-CEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEEEEESCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccc-ccCCc-EEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEEEEcccHHHHHHHHHHHHHHHHHhhh
Confidence            579998 88887 9999999999999999999854 66677889999999999999999999999999999999999999


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCC-----cEEEEECCCCceE--eeeEEEecCCchHHH
Q psy8777         193 KHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEG-----PLIYKTDPAGYYC--SFKAVSVGVKTTEAN  265 (291)
Q Consensus       193 ~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~g-----p~Ly~~d~~G~~~--~~~~~a~G~gs~~~~  265 (291)
                      .++.+++++.+++.++++++.++. ...+||+++++|+|||++++     |+||.+||+|++.  +++++++|+|+.+++
T Consensus       126 ~~~~~i~v~~la~~la~~l~~~~~-~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~  204 (291)
T 2jay_A          126 LEGVPLTFAGKINRLAIMVRGNLA-AAMQGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAK  204 (291)
T ss_dssp             HHSSCCCHHHHHHHHHHHHHTCHH-HHHHTCCCEEEEEEECTTCSCSTTCEEEEEECTTSCEEECSSSEEEESTTHHHHH
T ss_pred             hcCCCCCHHHHHHHHHHHHHHhhh-hhccccceeEEEEEEeCCCCcCCCCCEEEEECCCCcEEecCCCEEEEecCHHHHH
Confidence            999999999999999999987754 34689999999999997555     9999999999998  889999999999999


Q ss_pred             HHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         266 SYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       266 ~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ++||+.|++  +||+|||++++++||
T Consensus       205 ~~Le~~~~~--~ms~eEAi~la~~aL  228 (291)
T 2jay_A          205 SSMKKLYSQ--VTDGDSGLRVAVEAL  228 (291)
T ss_dssp             HHHHHHGGG--CCSHHHHHHHHHHHH
T ss_pred             HHHHHhcCC--CCCHHHHHHHHHHHH
Confidence            999999999  999999999999985

>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=1.9e-33  Score=246.35  Aligned_cols=175  Identities=15%  Similarity=0.183  Sum_probs=159.3

Q ss_pred             HHHHHhhhcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHh
Q psy8777         114 VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKY  192 (291)
Q Consensus       114 ve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~  192 (291)
                      .+.+++++.+|+ +++|++++++|||++|++.+ +.++..++.+||++|+++++++++|..+|++.+.++++.+++.|++
T Consensus        31 ~~~~~~av~~Gt-T~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~  109 (266)
T 1g0u_M           31 MVNTQQPIVTGT-SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAY  109 (266)
T ss_dssp             ---CCCCCEEEC-CEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhhhccCcccCc-eEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhh
Confidence            356777888877 99999999999999999998 4667777889999999999999999999999999999999999998


Q ss_pred             -----hhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHH
Q psy8777         193 -----KHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSY  267 (291)
Q Consensus       193 -----~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~  267 (291)
                           .++++++++.+++.+++++  |+++...+||+++++|+|+|++++|+||.+||+|++.+++++++|+|+.+++++
T Consensus       110 ~~~~~~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~  187 (266)
T 1g0u_M          110 DNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPL  187 (266)
T ss_dssp             TCTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHHHH
T ss_pred             ccchhhcCCCCCHHHHHHHHHHHH--HHhccCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHHHH
Confidence                 8999999999999999998  666666899999999999997568999999999999999999999999999999


Q ss_pred             HHHhccCCC---CCCHHHHHHHHHhhC
Q psy8777         268 LEKKFKKKT---NYTGDETIQLAISCL  291 (291)
Q Consensus       268 Le~~~~~~~---~~t~~eai~l~~~~l  291 (291)
                      ||+.|++..   +||+|||++++++||
T Consensus       188 Le~~~~~~~~~~~ms~eeA~~la~~al  214 (266)
T 1g0u_M          188 LRKVVDRESDIPKTTVQVAEEAIVNAM  214 (266)
T ss_dssp             HTTTCSSGGGGGGCCHHHHHHHHHHHH
T ss_pred             HHHhhcccccCCCCCHHHHHHHHHHHH
Confidence            999998843   799999999999985

>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=1.3e-32  Score=232.36  Aligned_cols=163  Identities=16%  Similarity=0.260  Sum_probs=149.2

Q ss_pred             cCCceeEEEEecccEEEEEeeccCCCcccC-CCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCH
Q psy8777         122 NQGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPI  200 (291)
Q Consensus       122 ~~g~~~~igi~~~~~vvl~~d~~~~~~l~~-~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~  200 (291)
                      .+|+ +++|++++++|||++|++.+.++.. .++.+||++|+++++++++|..+|++.+.++++.+++.|++.+++++++
T Consensus         6 ~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   84 (205)
T 1iru_J            6 YNGG-AVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   84 (205)
T ss_dssp             SSCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             CCCC-eEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCH
Confidence            4566 9999999999999999999865544 3477999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeC-CCCcEEEEECCCCceEee-eEEEecCCchHHHHHHHHhccCCCCC
Q psy8777         201 DQLCNRIADISQVYTQNAEMRPLGCSMILISYDE-NEGPLIYKTDPAGYYCSF-KAVSVGVKTTEANSYLEKKFKKKTNY  278 (291)
Q Consensus       201 ~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~-~~gp~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~  278 (291)
                      +.+++.+++++  |+++  ..||+++++|+|||+ +++|+||.+||+|++.++ .++++|+|+++++++||+.|++  +|
T Consensus        85 ~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~--~~  158 (205)
T 1iru_J           85 YTLMSMVANLL--YEKR--FGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEP--NM  158 (205)
T ss_dssp             HHHHHHHHHHH--HTTT--TSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCS--SC
T ss_pred             HHHHHHHHHHH--HHhc--CCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCC--CC
Confidence            99999999999  7765  359999999999995 478999999999999776 5799999999999999999999  99


Q ss_pred             CHHHHHHHHHhhC
Q psy8777         279 TGDETIQLAISCL  291 (291)
Q Consensus       279 t~~eai~l~~~~l  291 (291)
                      |+|||++++++||
T Consensus       159 s~eea~~l~~~al  171 (205)
T 1iru_J          159 DPDHLFETISQAM  171 (205)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999885

>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=2.7e-32  Score=230.36  Aligned_cols=163  Identities=15%  Similarity=0.232  Sum_probs=148.9

Q ss_pred             hcCCceeEEEEecccEEEEEeeccCCCcccC-CCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCC
Q psy8777         121 INQGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMP  199 (291)
Q Consensus       121 ~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~-~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s  199 (291)
                      +.+|+ +++|++++++|||++|++.+.+++. .++.+||++|+ +++++++|..+|++.+.++++.+++.|+++++++++
T Consensus         5 ~~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   82 (204)
T 1ryp_J            5 SINGG-IVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIE   82 (204)
T ss_dssp             GSSCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             CCCCC-eEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCC
Confidence            45566 9999999999999999999865554 34789999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeC-CCCcEEEEECCCCceEee-eEEEecCCchHHHHHHHHhccCCCC
Q psy8777         200 IDQLCNRIADISQVYTQNAEMRPLGCSMILISYDE-NEGPLIYKTDPAGYYCSF-KAVSVGVKTTEANSYLEKKFKKKTN  277 (291)
Q Consensus       200 ~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~-~~gp~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~  277 (291)
                      ++.+++.+++++  |+++.  .||+++++|+|||+ +++|+||.+||+|++.++ .++++|+|+++++++||+.|++  +
T Consensus        83 v~~la~~l~~~~--y~~~~--~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~--~  156 (204)
T 1ryp_J           83 PETFTQLVSSSL--YERRF--GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEP--N  156 (204)
T ss_dssp             HHHHHHHHHHHH--HTTTT--SCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCS--S
T ss_pred             HHHHHHHHHHHH--HHhcC--CCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCC--C
Confidence            999999999999  77653  49999999999996 478999999999999776 6799999999999999999999  9


Q ss_pred             CCHHHHHHHHHhhC
Q psy8777         278 YTGDETIQLAISCL  291 (291)
Q Consensus       278 ~t~~eai~l~~~~l  291 (291)
                      ||+|||++++++||
T Consensus       157 ~s~eea~~l~~~al  170 (204)
T 1ryp_J          157 LEPEDLFETISQAL  170 (204)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHH
Confidence            99999999999885

>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=3.3e-32  Score=232.61  Aligned_cols=158  Identities=20%  Similarity=0.243  Sum_probs=147.7

Q ss_pred             eeEEEEecccEEEEEeeccCCCcc-cCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~l-~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      |+++|+++++||||++|++.+.++ +..++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            478999999999999999998554 4456779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.+++.++.|     .+|++++++|+|+|+ +||+||.+||+|++.+++++|+|+|+.+++++||+.|++  +||+|||+
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eeA~  152 (222)
T 1ryp_I           81 QMLKQHLFKY-----QGHIGAYLIVAGVDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQ--DLTKEEAI  152 (222)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEET-TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCS--SCCHHHHH
T ss_pred             HHHHHHHhhc-----CCCCCeeEEEEEEeC-CCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCC--CcCHHHHH
Confidence            9999998544     379999999999997 689999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       153 ~la~~al  159 (222)
T 1ryp_I          153 KLASDAI  159 (222)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999985

>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=99.98  E-value=1.6e-31  Score=229.93  Aligned_cols=158  Identities=19%  Similarity=0.287  Sum_probs=147.2

Q ss_pred             eeEEEEecccEEEEEeeccCCCccc-CCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDSLV-DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~l~-~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ++++|+++++||||++|++.+.+++ ..++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            4789999999999999999986554 345779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.+++.++.|     .+|++++++|+|||+ +||+||.+||+|++.+++++++|+|++.++++||+.|++  +||++||+
T Consensus        81 ~~l~~~l~~~-----~~~~~v~llvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eeA~  152 (234)
T 1iru_I           81 RMLKQMLFRY-----RGYIGAALVLGGVDV-TGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRP--DMEEEEAK  152 (234)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEECS-SCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCT--TCCHHHHH
T ss_pred             HHHHHHHHhc-----CCCCceeEEEEEEcC-CCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccC--CCCHHHHH
Confidence            9999988554     259999999999997 689999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       153 ~la~~al  159 (234)
T 1iru_I          153 NLVSEAI  159 (234)
T ss_dssp             THHHHHH
T ss_pred             HHHHHHH
Confidence            9999885

>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=99.97  E-value=3e-31  Score=223.07  Aligned_cols=157  Identities=20%  Similarity=0.259  Sum_probs=144.7

Q ss_pred             eeEEEEecccEEEEEeeccCCCc-ccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~~-l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      |+++|+++++||||++|++.+.+ ++..++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            48999999999999999999854 67777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeee-EEEecCCchHHHHHHHHhccCCCCCCHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFK-AVSVGVKTTEANSYLEKKFKKKTNYTGDET  283 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~~~t~~ea  283 (291)
                      +.++++++.+     .+||+++++|+|||++++|+||.  |+|++..+. ++++|+|+++++++||+.|++  +||+|||
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~--~ms~eea  151 (199)
T 3unf_N           81 NVVKNISYKY-----REDLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKP--GMTPEEC  151 (199)
T ss_dssp             HHHHHHHHHT-----TTTCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCS--SCCHHHH
T ss_pred             HHHHHHHHhc-----CCCceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCC--CCCHHHH
Confidence            9999999644     36999999999999867899999  999976664 667799999999999999999  9999999


Q ss_pred             HHHHHhhC
Q psy8777         284 IQLAISCL  291 (291)
Q Consensus       284 i~l~~~~l  291 (291)
                      ++++++||
T Consensus       152 ~~la~~al  159 (199)
T 3unf_N          152 RRFTTNAI  159 (199)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999985

>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine residue, hydrolase; 2.10A {Thermotoga maritima} SCOP: d.153.1.4

Probab=99.94  E-value=3.6e-26  Score=187.52  Aligned_cols=146  Identities=15%  Similarity=0.155  Sum_probs=123.3

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEe-cCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQL  203 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i-~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l  203 (291)
                      |+++|++++++|||++|++.+ +.++.+++.+|||+| +++++++++|..+|++.+.++++.+++.|+++     .++.+
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            488999999999999999998 467777788999999 99999999999999999999999999987743     13333


Q ss_pred             HHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeee--EEEecCCchHHHHHHHHhcc-CCCCCCH
Q psy8777         204 CNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFK--AVSVGVKTTEANSYLEKKFK-KKTNYTG  280 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~--~~a~G~gs~~~~~~Le~~~~-~~~~~t~  280 (291)
                      ++    +.+.+.++...+|+++.++++  |   ||+||.+||+|++.+++  +.++|+|+++++++||+.|+ +  +||.
T Consensus        76 ~~----l~~~~~~~~~~~~~~~~~lv~--D---~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~--~ms~  144 (171)
T 1m4y_A           76 VE----LAKDWRTDRVLRRLEALLLVA--D---KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNT--DLSA  144 (171)
T ss_dssp             HH----HHHHHHHCTTGGGCCCEEEEE--C---SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHC--CCCH
T ss_pred             HH----HHHHHHHhCCCCceEEEEEEE--c---CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccC--CCCH
Confidence            33    333444555567899988877  4   79999999999999988  99999999999999999999 8  9998


Q ss_pred             HHHHHHH
Q psy8777         281 DETIQLA  287 (291)
Q Consensus       281 ~eai~l~  287 (291)
                      +|++.-+
T Consensus       145 ~~l~~~a  151 (171)
T 1m4y_A          145 REIVEKA  151 (171)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6654443

>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=99.94  E-value=7.6e-26  Score=186.06  Aligned_cols=147  Identities=15%  Similarity=0.122  Sum_probs=123.8

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEe-cCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQL  203 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i-~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l  203 (291)
                      ++++|++++++|||++|++.+. .++.+++.+||++| +++++++++|..+|++.+.++++.+++.|++      ++   
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~~---   71 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG------HL---   71 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------CH---
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------cH---
Confidence            4789999999999999999984 46777788999999 9999999999999999999999999998874      33   


Q ss_pred             HHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeee---EEEecCCchHHHHHHHHhcc-CCCCCC
Q psy8777         204 CNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFK---AVSVGVKTTEANSYLEKKFK-KKTNYT  279 (291)
Q Consensus       204 ~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~---~~a~G~gs~~~~~~Le~~~~-~~~~~t  279 (291)
                      .+.+..+.+.++++...+|++  ++++|+|   +|+||.+||+|++.+++   ++|+|+|+++++++||+.|+ +  +||
T Consensus        72 ~~~~~~l~~~~~~~~~~r~~~--~~l~g~d---~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~--~mt  144 (174)
T 1g3k_A           72 LKSAVELAKDWRTDRALRKLE--AMLIVAD---EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENT--ELS  144 (174)
T ss_dssp             HHHHHHHHHHHHHSTTGGGCC--CEEEEEC---SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHC--CCC
T ss_pred             HHHHHHHHHHHHhccCcCcce--EEEEEEC---CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccC--CCC
Confidence            334444445555665667764  6778886   69999999999999988   99999999999999999999 8  999


Q ss_pred             HHHHHHHHH
Q psy8777         280 GDETIQLAI  288 (291)
Q Consensus       280 ~~eai~l~~  288 (291)
                      .+|.+..++
T Consensus       145 ~~~l~~~al  153 (174)
T 1g3k_A          145 AHEIVEKSL  153 (174)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            776544443

>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=99.93  E-value=1.1e-25  Score=185.91  Aligned_cols=151  Identities=15%  Similarity=0.154  Sum_probs=127.7

Q ss_pred             CCceeEEEEecccEEEEEeeccCCC-cc-cCCCCcceEEEe-cCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCC
Q psy8777         123 QGGVTSVAVKGVDTAVVATEKKVPD-SL-VDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMP  199 (291)
Q Consensus       123 ~g~~~~igi~~~~~vvl~~d~~~~~-~l-~~~~~~~kI~~i-~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s  199 (291)
                      +|+ +++|++++|+|||++|++.+. .+ +.+++.+||++| +++++++++|..+|++.+.++++.+++.|+   +    
T Consensus         4 ~Gt-Tivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g----   75 (180)
T 2z3b_A            4 HAT-TIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G----   75 (180)
T ss_dssp             CCC-CEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T----
T ss_pred             CCe-EEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C----
Confidence            355 999999999999999999984 56 777888999999 999999999999999999999999998887   2    


Q ss_pred             HHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEee--eEEEecCCchHHHHHHHHhccCCC-
Q psy8777         200 IDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF--KAVSVGVKTTEANSYLEKKFKKKT-  276 (291)
Q Consensus       200 ~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~-  276 (291)
                        .+.+.+..+.+.++++...||+++.++|+  |   +|+||.+||+|++.++  +++|+|+|+++++++||+.|++.. 
T Consensus        76 --~~~~~~~~l~~~~~~~~~~rp~~~~~lva--d---~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~  148 (180)
T 2z3b_A           76 --NLKRAAVELAKEWRSDKVLRKLEAMLIVM--N---QDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGE  148 (180)
T ss_dssp             --CHHHHHHHHHHHHHHCTTGGGCCCCEEEE--C---SSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGG
T ss_pred             --ChHHHHHHHHHHHHhhhCcCcceEEEEEE--c---CCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCC
Confidence              23334444555566677789999999998  3   6999999999999984  999999999999999999998621 


Q ss_pred             CCCHHHHHHHHH
Q psy8777         277 NYTGDETIQLAI  288 (291)
Q Consensus       277 ~~t~~eai~l~~  288 (291)
                      +||.||+++-++
T Consensus       149 ~mt~eel~~~al  160 (180)
T 2z3b_A          149 SMSASEIARAAL  160 (180)
T ss_dssp             GCCHHHHHHHHH
T ss_pred             CCCHHHHHHHHH
Confidence            599999665443

>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=99.93  E-value=4.6e-26  Score=198.64  Aligned_cols=193  Identities=13%  Similarity=0.051  Sum_probs=126.4

Q ss_pred             eeCCCCcch-hhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchhhhhhh
Q psy8777          15 IFSPEGRLY-QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQR   93 (291)
Q Consensus        15 ~fsp~g~~~-q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~   93 (291)
                      -|||||++. |||||+|||++|+ |+|||+++||||||+|+|       +++.+|||+|++||+|++||+.+|+|.+++.
T Consensus         6 ~~sPe~~~~~qvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r-------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~   77 (259)
T 1q5q_A            6 YASAEQIMRDRSELARKGIARGR-SVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGKYNEFENLRRA   77 (259)
T ss_dssp             ---CHHHHHHHHHHHHHHHHTSC-CEEEEECSSEEEEEECCS-------CSSSCSEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhcCC-cEEEEEeCCEEEEEEecC-------CCCcCcEEEeCCCEEEEEccCHHHHHHHHHH
Confidence            489999995 9999999999995 999999999999999999       2567999999999999999999999999998


Q ss_pred             hcccccccccccCCCCchhhHHHHHhhhcC----CceeEEEEecccEEEEEeeccCCCcccC--C-CCcceEEEecCcEE
Q psy8777          94 ARAGFDRHITIFSPEGRLYQVEYAFKAINQ----GGVTSVAVKGVDTAVVATEKKVPDSLVD--P-KTVTNLYSLTPTVG  166 (291)
Q Consensus        94 ~~~~yd~~~~~~sp~grl~qve~~~~~~~~----g~~~~igi~~~~~vvl~~d~~~~~~l~~--~-~~~~kI~~i~~~~~  166 (291)
                      ++.+...+.-.++  ++-..++.+.+.+.+    .. + -+.++....+|.+.       ++  + ..+|+||.+||.|.
T Consensus        78 ~~~~~~~~~~~~~--~~~i~v~~la~~l~~~l~q~y-t-~~~rP~~v~~lvaG-------~D~~~~~~gp~Ly~idp~G~  146 (259)
T 1q5q_A           78 GIVHADMRGYSYD--RRDVTGRSLANAYAQTLGTIF-T-EQPKPYEVEICVAE-------VGRVGSPKAPQLYRITYDGS  146 (259)
T ss_dssp             HHHHHHHHHHHSC--GGGCCHHHHHHHHHHHHHHHH-H-HSSSCCCEEEEEEE-------CCCSSCCCCCEEEEEETTSC
T ss_pred             HHHHHHHHHHHcC--CcCCCHHHHHHHHHHHHHHHh-c-cCCCCceEEEEEEE-------EcccCCCCCCEEEEECCCCc
Confidence            8744332211111  111111111111111    11 1 13456666666665       55  2 57899999999998


Q ss_pred             EE-e-ecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhh-----hcCcceeeeeeeeEEEE
Q psy8777         167 CV-M-TGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT-----QNAEMRPLGCSMILISY  232 (291)
Q Consensus       167 ~~-~-sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~-----~~~~~~p~~~~~li~G~  232 (291)
                      +. - ...+.+..+...+..++.     .+..+|+.+++++.+.+.+....     .+. ..+..+++.++..
T Consensus       147 ~~~~~~~~aiG~gs~~a~~~Le~-----~~~~~ms~eea~~la~~al~~~~~~~~~~rd-~sg~~iev~vi~~  213 (259)
T 1q5q_A          147 IVDEQHFVVMGGTTEPIATAMRE-----SYRADLDLEAAVGIAVNALRQGGAGEGEKRN-VDVASLEVAVLDQ  213 (259)
T ss_dssp             EEEESSEEEESSSHHHHHHHHHH-----HCCTTCCHHHHHHHHHHHHTTCC---------CCSSCSEEEEEET
T ss_pred             eeeCCCEEEECCChHHHHHHHHh-----hccCCCCHHHHHHHHHHHHHHHhhccccccc-CCCCcEEEEEEEC
Confidence            65 2 233444555555555554     34568999999997766663322     111 2445566666643

>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=99.90  E-value=1.3e-23  Score=181.49  Aligned_cols=189  Identities=13%  Similarity=0.106  Sum_probs=125.8

Q ss_pred             CCCCcch-hhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchhhhhhhhc
Q psy8777          17 SPEGRLY-QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR   95 (291)
Q Consensus        17 sp~g~~~-q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~   95 (291)
                      |||.-.- ++|||+|||++|+ |+|||+++||||||+|||       +++.+|||+|++||+|+++|+.+|+|.|.+.++
T Consensus         8 ~p~~~~~~r~EYA~~av~~Gt-T~vgi~~kdgVVlaadkr-------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~   79 (248)
T 3mi0_A            8 SPEQAMRERSELARKGIARAK-SVVALAYAGGVLFVAENP-------SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGI   79 (248)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECC-------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHH
T ss_pred             CHHHhcccchHHHHHHHhCCC-cEEEEEeCCEEEEEEeCC-------CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHH
Confidence            4443333 5899999999995 999999999999999999       346799999999999999999999999988877


Q ss_pred             cc-------cc-ccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCC---CCcceEEEecCc
Q psy8777          96 AG-------FD-RHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP---KTVTNLYSLTPT  164 (291)
Q Consensus        96 ~~-------yd-~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~---~~~~kI~~i~~~  164 (291)
                      ..       |+ .++++    ..+.+.  ......+..+.  +.+|....+|.+.       +++   ..+|+||.+||+
T Consensus        80 ~~~~l~~~~~~~~~i~v----~~la~~--l~~~l~q~yt~--~~rP~gv~~liaG-------~D~~~~~~gp~Ly~~Dp~  144 (248)
T 3mi0_A           80 QFADTRGYAYDRRDVTG----RQLANV--YAQTLGTIFTE--QAKPYEVELCVAE-------VAHYGETKRPELYRITYD  144 (248)
T ss_dssp             HHHHHHHHHSCGGGCCH----HHHHHH--HHHHHHHHHHH--SSSCCCEEEEEEE-------CCCTTCCCCCEEEEECTT
T ss_pred             HHHHHHHHhcCCCCCCH----HHHHHH--HHHHHHHHhcc--CCCCceEEEEEEE-------EcCCCCCCCCEEEEECCC
Confidence            43       33 22222    112110  00011111111  3456666666665       554   378999999999


Q ss_pred             EEEE--eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhh------cCcceeeeeeeeEEEEe
Q psy8777         165 VGCV--MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ------NAEMRPLGCSMILISYD  233 (291)
Q Consensus       165 ~~~~--~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~------~~~~~p~~~~~li~G~d  233 (291)
                      |.+.  ....+.+.++...+..+|.     .|+.+|+.+++++.+.+.+.....      +....+-++++.|+..|
T Consensus       145 G~~~~e~~~~a~Gsgs~~a~~~Le~-----~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~~~~~~iev~vv~~~  216 (248)
T 3mi0_A          145 GSIADEPHFVVMGGTTEPIANALKE-----SYAENASLTDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDAN  216 (248)
T ss_dssp             SCEEEESSEEEESSCHHHHHHHHHH-----HCCTTCCHHHHHHHHHHHHHHC------------CCTTEEEEEEETT
T ss_pred             eEEeecccEEEECccHHHHHHHHHh-----hcCCCCCHHHHHHHHHHHHHHHHhhcccCcccccCCCcEEEEEEECC
Confidence            9765  3444455666666665555     355689999999966666644431      12355667777777543

>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=99.81  E-value=3.8e-20  Score=163.37  Aligned_cols=184  Identities=13%  Similarity=0.056  Sum_probs=98.3

Q ss_pred             CCccceeeeeCCCCcc-----hh--hhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEE
Q psy8777           7 AGFDRHITIFSPEGRL-----YQ--VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGC   78 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~-----~q--~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~   78 (291)
                      +.|+.......||.-.     +|  +|||++ +++| +|+|||+++||||||+|+|.+.+ ++.+++.+|||+|++|++|
T Consensus        23 ~~f~~~~~~~~~~~l~~~~~~~~~~~~ya~~-v~~G-tTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~  100 (291)
T 2jay_A           23 SSFTDFLRRQAPELLPASISGGAPLAGGDAQ-LPHG-TTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTAT  100 (291)
T ss_dssp             -------------------------------------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEE
T ss_pred             ccHHHHhhhcChhhccccccccCcCcccccc-ccCC-cEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEE
Confidence            4566666667776432     22  799999 9998 59999999999999999999886 6777788999999999999


Q ss_pred             EEeccccchhhhhhhhcccc-------cccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccC
Q psy8777          79 VMTGMQADSRYQVQRARAGF-------DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVD  151 (291)
Q Consensus        79 ~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~  151 (291)
                      ++||+.+|+|.+++.++.+.       +..+++.....++.++-|...       . -++++....+|.+.       ++
T Consensus       101 ~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~-------~-~~~rpf~v~~lvaG-------~D  165 (291)
T 2jay_A          101 GIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNL-------A-AAMQGLLALPLLAG-------YD  165 (291)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCH-------H-HHHHTCCCEEEEEE-------EC
T ss_pred             EEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhh-------h-hhccccceeEEEEE-------Ee
Confidence            99999999999999988442       222222111112221211111       1 12345555455443       44


Q ss_pred             CCCc-----ceEEEecCcEEEE---eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHH
Q psy8777         152 PKTV-----TNLYSLTPTVGCV---MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQ  212 (291)
Q Consensus       152 ~~~~-----~kI~~i~~~~~~~---~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~  212 (291)
                      +..+     |+||.+||+|.+.   ....+.++++...+..++..     ++.+|+.+++++.+.+.+.
T Consensus       166 ~~g~~~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~-----~~~~ms~eEAi~la~~aL~  229 (291)
T 2jay_A          166 IHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKL-----YSQVTDGDSGLRVAVEALY  229 (291)
T ss_dssp             TTCSCSTTCEEEEEECTTSCEEECSSSEEEESTTHHHHHHHHHHH-----GGGCCSHHHHHHHHHHHHH
T ss_pred             CCCCcCCCCCEEEEECCCCcEEecCCCEEEEecCHHHHHHHHHHh-----cCCCCCHHHHHHHHHHHHH
Confidence            3334     8999999999544   22223345555555555543     3348999999986666553

>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=99.81  E-value=9.9e-20  Score=158.40  Aligned_cols=186  Identities=20%  Similarity=0.182  Sum_probs=112.4

Q ss_pred             HHHHHhcCCceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccC
Q psy8777          28 AFKAINQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFS  106 (291)
Q Consensus        28 a~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~s  106 (291)
                      ++|||++|+ |+|||+++||||||+|+|.+.+ ++.+++.+|||+|++|++|++||+.+|+|.+++.++.+...+-..+.
T Consensus        22 ~~kav~~Gt-Tivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~  100 (261)
T 3nzj_H           22 QPKATSTGT-TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTS  100 (261)
T ss_dssp             --------C-CEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCcccccCc-eEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhC
Confidence            479999995 9999999999999999998874 56677789999999999999999999999999999854332211111


Q ss_pred             CCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHH
Q psy8777         107 PEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARY  185 (291)
Q Consensus       107 p~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~  185 (291)
                      ..-+   ++.+.+.+.+.-...  .++.+..+|.+.       +++ ++|+||.+||+|.+. ....+.+..+...+..+
T Consensus       101 ~~~~---v~~~a~~l~~~l~~~--~~~~gv~llvaG-------~D~-~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~L  167 (261)
T 3nzj_H          101 REPR---VVSALQMLKQHLFKY--QGHIGAYLIVAG-------VDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVL  167 (261)
T ss_dssp             SCCC---HHHHHHHHHHHHHHT--TTCSCEEEEEEE-------EET-TEEEEEEECTTSCEEECSEEEESTTHHHHHHHH
T ss_pred             CCCC---HHHHHHHHHHHHHHh--cCcccEEEEEEE-------EeC-CCCEEEEECCCccEEecCeEEeccchHHHHHHH
Confidence            1111   111111111100000  012333333333       443 679999999999763 22223335555555555


Q ss_pred             HHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEE
Q psy8777         186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISY  232 (291)
Q Consensus       186 e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~  232 (291)
                      |.     .+..+|+.+++++.+.+.+.....+.....-.+++.++..
T Consensus       168 e~-----~~~~~ms~eEA~~la~~al~~a~~rD~~sg~~iev~vI~k  209 (261)
T 3nzj_H          168 ES-----HWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEI  209 (261)
T ss_dssp             HH-----HCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEET
T ss_pred             HH-----HhccCCCHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEEC
Confidence            54     3456999999998666665444343333455677777643

>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=99.80  E-value=1.8e-19  Score=153.06  Aligned_cols=176  Identities=16%  Similarity=0.190  Sum_probs=112.7

Q ss_pred             HHHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------cccc
Q psy8777          30 KAINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRH  101 (291)
Q Consensus        30 ~av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~  101 (291)
                      .++++| +|+|||+++||||||+|+|.+. ++..+++.+||++|++|++|++||+.+|+|.+++.++.+       |+.+
T Consensus         3 ~~~~~G-tt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (217)
T 1yar_H            3 QTLETG-TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVN   81 (217)
T ss_dssp             -------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             CCCCCC-ccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            478888 4999999999999999999887 577788889999999999999999999999999999843       2222


Q ss_pred             ccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHH
Q psy8777         102 ITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQV  180 (291)
Q Consensus       102 ~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~  180 (291)
                      +++......+.++-|..        .   .+|....++.+.       ++  ++|+||.+||.|.+. ....+.+.++..
T Consensus        82 ~~v~~la~~l~~~~~~~--------r---~rp~~v~~lvaG-------~D--~gp~Ly~idp~G~~~~~~~~aiGsgs~~  141 (217)
T 1yar_H           82 MPIEAVATLLSNMLNQV--------K---YMPYMVQLLVGG-------ID--TAPHVFSIDAAGGSVEDIYASTGSGSPF  141 (217)
T ss_dssp             CCHHHHHHHHHHHHHHT--------T---TSCCCEEEEEEE-------ES--SSEEEEEECTTCCEEEESEEEESTTHHH
T ss_pred             CCHHHHHHHHHHHHHhc--------C---CCCceEEEEEEE-------EC--CCCEEEEECCCCCeEecCEEEEcCCHHH
Confidence            22211111111111111        1   245565666655       55  679999999999753 222233355555


Q ss_pred             HHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         181 QRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       181 ~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      .+..++.     .++.+++.+++.+.+.+.+.....+....+-.+++.++.
T Consensus       142 a~~~Le~-----~~~~~~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~  187 (217)
T 1yar_H          142 VYGVLES-----QYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVIT  187 (217)
T ss_dssp             HHHHHHH-----HCCTTCCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEE
T ss_pred             HHHHHHh-----hcccCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEE
Confidence            5555554     345589999999866555544433333334455665553

>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=99.80  E-value=4.2e-20  Score=155.65  Aligned_cols=180  Identities=11%  Similarity=0.123  Sum_probs=114.8

Q ss_pred             HHHHhcCCceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCC
Q psy8777          29 FKAINQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSP  107 (291)
Q Consensus        29 ~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp  107 (291)
                      +||+++| +|+|||+++||||||+|+|.+.+ +..+++.+||++|++|++|++||+.+|+|.+++.++.+....-..+  
T Consensus         3 ~~av~~G-tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~--   79 (205)
T 1ryp_H            3 KGEVSLG-ASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQY--   79 (205)
T ss_dssp             TTCCBCC-CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred             CCCCcCC-ceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHh--
Confidence            5889998 59999999999999999999887 7777778999999999999999999999999999985432221111  


Q ss_pred             CCchhhHHHHHhhhc---CCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHH
Q psy8777         108 EGRLYQVEYAFKAIN---QGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRA  183 (291)
Q Consensus       108 ~grl~qve~~~~~~~---~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~  183 (291)
                       ++ ..++...+.+.   +..+..     ....++.+.       +++..+|+||.+||.|.+. ....+.+..+...+.
T Consensus        80 -~~-~~v~~la~~l~~~~~~~~~~-----~~~~~lvaG-------~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~  145 (205)
T 1ryp_H           80 -GT-PSTETAASVFKELCYENKDN-----LTAGIIVAG-------YDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYG  145 (205)
T ss_dssp             -SS-CCHHHHHHHHHHHHHHTTTT-----CCEEEEEEE-------EETTTEEEEEEECTTSCCEEESEEEESGGGGGGHH
T ss_pred             -CC-CCHHHHHHHHHHHHHhhhcC-----ceEEEEEEE-------EecCCCcEEEEECCCccEEecCEEEEEecHHHHHH
Confidence             12 22222111111   000010     223333332       4444679999999999753 111222244333444


Q ss_pred             HHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       184 ~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .++.     .++.+|+.+++.+.+.+.+.....+....+-.+++.++
T Consensus       146 ~Le~-----~~~~~~s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi  187 (205)
T 1ryp_H          146 YCDK-----NFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVL  187 (205)
T ss_dssp             HHHH-----HCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEE
T ss_pred             HHHh-----ccCCCCCHHHHHHHHHHHHHHHHHhCCccCCeEEEEEE
Confidence            4443     24568999999986666654444433334556666665

>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=99.80  E-value=1.1e-19  Score=159.99  Aligned_cols=190  Identities=14%  Similarity=0.152  Sum_probs=109.5

Q ss_pred             CCCCcchhhh------HHHHHHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhh
Q psy8777          17 SPEGRLYQVE------YAFKAINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRY   89 (291)
Q Consensus        17 sp~g~~~q~e------ya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~   89 (291)
                      ||+.-|.+..      ++.++|++| +|+|||+++||||||+|+|.+. .++.+++.+||++|++|++|++||+.+|+|.
T Consensus        51 ~p~~~~~~~~~~~~~~~~~~~v~~G-tT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~  129 (287)
T 3nzj_K           51 SPQQFLRAHTDDSRNPDCKIKIAHG-TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQF  129 (287)
T ss_dssp             --------------------------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHH
T ss_pred             CHHHHHHHhcccccccchhhheccC-ceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHH
Confidence            5555555542      789999999 5999999999999999999886 5777788899999999999999999999999


Q ss_pred             hhhhhcccc-------cccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEec
Q psy8777          90 QVQRARAGF-------DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLT  162 (291)
Q Consensus        90 ~~~~~~~~y-------d~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~  162 (291)
                      +++.++.+.       ++.+++....-.+.++-|..+    .       .+....+|.+.       ++++.+|+||.+|
T Consensus       130 l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r----~-------~p~~v~~lvaG-------~D~~~gp~Ly~iD  191 (287)
T 3nzj_K          130 WETWLGSQCRLHELREKERISVAAASKILSNLVYQYK----G-------AGLSMGTMICG-------YTRKEGPTIYYVD  191 (287)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTT----T-------SCCCEEEEEEE-------EETTTEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhc----C-------CCceEEEEEEE-------EcCCCCCEEEEEC
Confidence            999888432       222222111111111111111    1       13333333332       4445789999999


Q ss_pred             CcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         163 PTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       163 ~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      |.|.+. ....+.+.++...+..++.     .++.+|+.+++++.+.+.+.....+.....-.+++.++
T Consensus       192 p~G~~~~~~~~AiGsgs~~a~~~Le~-----~y~~dms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vI  255 (287)
T 3nzj_K          192 SDGTRLKGDIFCVGSGQTFAYGVLDS-----NYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV  255 (287)
T ss_dssp             TTCCEEECSEEEESTTHHHHHHHHHT-----SCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEE
T ss_pred             CCceEEEcCeEEEecchHHHHHHHHH-----hhcCCCCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEE
Confidence            999763 2222233555544444443     34568999999986666664444433333334555554

>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=99.79  E-value=7.5e-20  Score=155.66  Aligned_cols=192  Identities=10%  Similarity=-0.003  Sum_probs=125.2

Q ss_pred             HHHHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc--------cc
Q psy8777          29 FKAINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG--------FD   99 (291)
Q Consensus        29 ~~av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~--------yd   99 (291)
                      ++||++| +|+|||+++||||||+|+|.+. .+..+++.+|||+|++|++|++||+.+|+|.+++.+|.+        |+
T Consensus         2 ~~av~~G-tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   80 (219)
T 1iru_N            2 QNPMVTG-TSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDG   80 (219)
T ss_dssp             CSCCSEE-CCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSS
T ss_pred             CCCccCC-ceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            3688998 4999999999999999999886 677778889999999999999999999999999999843        22


Q ss_pred             ccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHH
Q psy8777         100 RHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRY  178 (291)
Q Consensus       100 ~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~  178 (291)
                      .++++......+.++-|..+    +     +.+|....+|.+.       +++ .+|+||.+||+|.+. ....+.++++
T Consensus        81 ~~~~v~~la~~l~~~ly~~r----~-----~~~P~~v~~lvaG-------~D~-~gp~Ly~id~~G~~~~~~~~aiGsgs  143 (219)
T 1iru_N           81 HSYSPRAIHSWLTRAMYSRR----S-----KMNPLWNTMVIGG-------YAD-GESFLGYVDMLGVAYEAPSLATGYGA  143 (219)
T ss_dssp             CCCCHHHHHHHHHHHHHHHH----H-----TTCCCCEEEEEEE-------EET-TEEEEEEECSSCCEEECSEEECTTHH
T ss_pred             CCCCHHHHHHHHHHHHHHhc----c-----cCCCceEEEEEEE-------EEC-CCCEEEEECCCCCeEECCeEEECccH
Confidence            22222211112222222211    1     1235555555554       443 589999999999764 2223334666


Q ss_pred             HHHHHHHHHHHhHhhhCC--CCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCC
Q psy8777         179 QVQRARYEAASFKYKHGY--SMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPA  246 (291)
Q Consensus       179 ~~~~~~~e~~~~~~~~~~--~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~  246 (291)
                      ...+..++..     ++.  +|+.+++.+.+.+.+.....+.....-.+++.++.  + +|.+....+..
T Consensus       144 ~~a~~~Le~~-----~~~~~~mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~--~-~g~~~~~~~~i  205 (219)
T 1iru_N          144 YLAQPLLREV-----LEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVT--E-KGVEIEGPLST  205 (219)
T ss_dssp             HHTHHHHHHH-----HTSCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEE--T-TEEEEEEEECC
T ss_pred             HHHHHHHHhh-----cCCCCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEc--C-CCEEEcCCeec
Confidence            6555555542     334  89999999866665544434333344556666663  3 34555544433

>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=99.79  E-value=6.9e-20  Score=157.30  Aligned_cols=197  Identities=12%  Similarity=0.039  Sum_probs=127.1

Q ss_pred             HHHHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc---------
Q psy8777          29 FKAINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF---------   98 (291)
Q Consensus        29 ~~av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y---------   98 (291)
                      ++||++|+ |+|||+++||||||+|+|.+. .++.+++.+|||+|++|++|++||+.+|+|.+++.++.+.         
T Consensus         2 ~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   80 (233)
T 1ryp_N            2 QQPIVTGT-SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPL   80 (233)
T ss_dssp             CCCCEEEC-CEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTT
T ss_pred             cccccCCc-eEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccch
Confidence            36789985 999999999999999999886 5777778899999999999999999999999999988432         


Q ss_pred             ---cccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEe-ecccc
Q psy8777          99 ---DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM-TGMQA  174 (291)
Q Consensus        99 ---d~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~-sG~~~  174 (291)
                         +..+++......+.++-|..+    +     +.+|....+|.+.       +++..+|+||.+||.|.+.- ...+.
T Consensus        81 ~~~~~~~~v~~la~~l~~~ly~~r----~-----~~~P~~v~~lvaG-------~D~~~gp~Ly~id~~G~~~~~~~~ai  144 (233)
T 1ryp_N           81 ADAEEALEPSYIFEYLATVMYQRR----S-----KMNPLWNAIIVAG-------VQSNGDQFLRYVNLLGVTYSSPTLAT  144 (233)
T ss_dssp             TTTTTSCCHHHHHHHHHHHHHHHH----H-----TTCCCCEEEEEEE-------ECTTSCEEEEEEETTCCEECCSEEEC
T ss_pred             hhcCCCCCHHHHHHHHHHHHHHhc----C-----CCCCceEEEEEEE-------EcCCCCEEEEEECCCcCeEEcCEEEE
Confidence               222222111111112122211    1     1345565555554       45445899999999998642 22233


Q ss_pred             cHHHHHHHHHHHHHHhHhhhCC-----CCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCce
Q psy8777         175 DSRYQVQRARYEAASFKYKHGY-----SMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYY  249 (291)
Q Consensus       175 D~~~~~~~~~~e~~~~~~~~~~-----~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~  249 (291)
                      ++.+...+..++.     .++.     +|+.+++.+.+.+.+.....+....+-.+++.++.  ++.|.+...-+..-.+
T Consensus       145 Gsgs~~a~~~Le~-----~~~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~--~~~g~~~~~~~~i~~~  217 (233)
T 1ryp_N          145 GFGAHMANPLLRK-----VVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIID--KNTGLTFKKNLQVENM  217 (233)
T ss_dssp             THHHHHHHHHHTT-----TCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEE--TTTEEEEEEEEECCSC
T ss_pred             CcCHHHHHHHHHH-----hhccccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEE--CCCCeEEcChHhcccc
Confidence            4666655555543     2334     79999999866665544444433445567777764  3224555544433333

>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=99.79  E-value=2.9e-19  Score=150.48  Aligned_cols=175  Identities=15%  Similarity=0.160  Sum_probs=115.0

Q ss_pred             hcCCceEEEEecCCeEEEEEeccCCCCccCCC-CcceeEeecCcEEEEEeccccchhhhhhhhccccc-------ccccc
Q psy8777          33 NQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD-------RHITI  104 (291)
Q Consensus        33 ~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~-~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd-------~~~~~  104 (291)
                      .+| +|+|||+++||||||+|+|.+.++...+ +.+|||+|++|++|++||+.+|+|.+++.++.+..       ..+++
T Consensus         6 ~~G-tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   84 (205)
T 1iru_J            6 YNG-GAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   84 (205)
T ss_dssp             SSC-CEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             CCC-CeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCH
Confidence            577 5999999999999999999998877654 77999999999999999999999999999985422       22222


Q ss_pred             cCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCC-CCcceEEEecCcEEE-Eeec-ccccHHHHHH
Q psy8777         105 FSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGC-VMTG-MQADSRYQVQ  181 (291)
Q Consensus       105 ~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~-~~~~kI~~i~~~~~~-~~sG-~~~D~~~~~~  181 (291)
                      ......+.++-|..    ++.       |....++.+.       +++ +.+|+||.+||.|.+ ...+ .+.+.++...
T Consensus        85 ~~la~~l~~~~y~~----r~~-------P~~v~~lvaG-------~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a  146 (205)
T 1iru_J           85 YTLMSMVANLLYEK----RFG-------PYYTEPVIAG-------LDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQM  146 (205)
T ss_dssp             HHHHHHHHHHHHTT----TTS-------CCSCCCEEEE-------ECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHH
T ss_pred             HHHHHHHHHHHHHh----cCC-------CceEEEEEEE-------EeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHH
Confidence            11111111111111    111       3333333332       443 467999999999986 3333 3344555555


Q ss_pred             HHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         182 RARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       182 ~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      +..++.     .+..+|+.+++.+.+.+.+.....+....+..+++.++.
T Consensus       147 ~~~Le~-----~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~  191 (205)
T 1iru_J          147 YGMCES-----LWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIE  191 (205)
T ss_dssp             HHHHHH-----HCCSSCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEE
T ss_pred             HHHHhc-----ccCCCCCHHHHHHHHHHHHHHHHHhCcccCCceEEEEEc
Confidence            555554     345689999999966666654444443345667777664

>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=99.79  E-value=7.6e-20  Score=159.93  Aligned_cols=202  Identities=11%  Similarity=0.038  Sum_probs=129.2

Q ss_pred             hhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc----
Q psy8777          24 QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF----   98 (291)
Q Consensus        24 q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y----   98 (291)
                      ..+-+++|+++| +|+|||+++||||||+|+|.+. .++.+++.+||++|++|++|++||+.+|+|.+++.+|.+.    
T Consensus        30 ~~~~~~~av~~G-tT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~  108 (266)
T 1g0u_M           30 PMVNTQQPIVTG-TSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENA  108 (266)
T ss_dssp             ----CCCCCEEE-CCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhhccCcccC-ceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhh
Confidence            357788999998 5999999999999999999886 5777778899999999999999999999999999998432    


Q ss_pred             --------cccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEe-
Q psy8777          99 --------DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM-  169 (291)
Q Consensus        99 --------d~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~-  169 (291)
                              +..+++......+.++-|..+    +     +.++....+|.+.       +++..+|+||.+||.|.+.- 
T Consensus       109 ~~~~~~~~~~~~~v~~la~~l~~~ly~~r----~-----~~~P~~v~~lvaG-------~D~~~gp~Ly~idp~G~~~~~  172 (266)
T 1g0u_M          109 YDNPLADAEEALEPSYIFEYLATVMYQRR----S-----KMNPLWNAIIVAG-------VQSNGDQFLRYVNLLGVTYSS  172 (266)
T ss_dssp             TTCTTTTTTTSCCHHHHHHHHHHHHHHHH----H-----TTCCCCEEEEEEE-------ECTTSCEEEEEEETTCCEECC
T ss_pred             hccchhhcCCCCCHHHHHHHHHHHHHHhc----c-----CCCCceEEEEEEE-------EcCCCCEEEEEECCCCCEEeC
Confidence                    222222111111112222221    1     1335555555554       45445899999999998642 


Q ss_pred             ecccccHHHHHHHHHHHHHHhHhhhCC-----CCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEEC
Q psy8777         170 TGMQADSRYQVQRARYEAASFKYKHGY-----SMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTD  244 (291)
Q Consensus       170 sG~~~D~~~~~~~~~~e~~~~~~~~~~-----~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d  244 (291)
                      ...+.++.+...+..++.     .++.     +|+.+++++.+.+.+.....+.....-.+++.++.  ++.|.++..-+
T Consensus       173 ~~~aiGsgs~~a~~~Le~-----~~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~--k~~g~~~~~~~  245 (266)
T 1g0u_M          173 PTLATGFGAHMANPLLRK-----VVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIID--KNTGLTFKKNL  245 (266)
T ss_dssp             SEEECTHHHHTHHHHHTT-----TCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEE--TTTEEEEEEEE
T ss_pred             CEEEEccCHHHHHHHHHH-----hhcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEE--CCCCeEEcCHH
Confidence            222334666555554443     2334     79999999866665544444433345566766663  32255555544


Q ss_pred             CCCce
Q psy8777         245 PAGYY  249 (291)
Q Consensus       245 ~~G~~  249 (291)
                      ..-.+
T Consensus       246 ei~~~  250 (266)
T 1g0u_M          246 QVENM  250 (266)
T ss_dssp             ECCCC
T ss_pred             Hhhhh
Confidence            44444

>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=99.79  E-value=1.4e-19  Score=159.92  Aligned_cols=165  Identities=12%  Similarity=0.032  Sum_probs=112.7

Q ss_pred             HHHHHhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------cc
Q psy8777          28 AFKAINQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FD   99 (291)
Q Consensus        28 a~~av~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd   99 (291)
                      |+||+++| +|+|||+++||||||+|+|.+. +++.+++.+|||+|++|++|++||+.+|++.++++++.+       |+
T Consensus        58 a~~Av~~G-tTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g  136 (294)
T 1q5r_H           58 SGDLAPHG-TTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEG  136 (294)
T ss_dssp             --CCSCBC-CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHhcC-ceEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhC
Confidence            89999998 5999999999999999999887 688788889999999999999999999999999999844       22


Q ss_pred             ccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCc-----ceEEEecCcEEEE-e--ec
Q psy8777         100 RHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV-----TNLYSLTPTVGCV-M--TG  171 (291)
Q Consensus       100 ~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~-----~kI~~i~~~~~~~-~--sG  171 (291)
                      ..+++.....++.++-|....      .  ++++....+|.+.       +++..+     |+||.+||+|.+. .  ..
T Consensus       137 ~~isv~~la~~la~~l~~~~~------~--~~rp~~v~lLvaG-------~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~  201 (294)
T 1q5r_H          137 VPLTFDGKANRLASMVRGNLG------A--AMQGLAVVPLLVG-------YDLDADDESRAGRIVSYDVVGGRYEERAGY  201 (294)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHH------H--HTTTTCEEEEEEE-------ECTTCSCTTSCEEEEEECSSSCEEECCSSE
T ss_pred             CCCCHHHHHHHHHHHHHHHHh------h--hcCCcceEEEEEE-------EeCCCCcCCCCCEEEEECCCCeEEecCCCe
Confidence            333322211122222222110      0  1345555555543       444435     8999999999654 3  23


Q ss_pred             ccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHH
Q psy8777         172 MQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV  213 (291)
Q Consensus       172 ~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~  213 (291)
                      .+.+..+...+..++.     .|+.+|+.+++++.+.+.+..
T Consensus       202 ~AiGsgs~~a~~~Le~-----~y~~~ms~eEAi~la~~aL~~  238 (294)
T 1q5r_H          202 HAVGSGSLFAKSALKK-----IYSPDSDEETALRAAIESLYD  238 (294)
T ss_dssp             EEESTTHHHHHHHHHH-----HCCSSCCHHHHHHHHHHHHHH
T ss_pred             EEEecCcHHHHHHHHH-----hccCCCCHHHHHHHHHHHHHH
Confidence            4455666655555554     345689999999866555543

>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=99.78  E-value=6.7e-19  Score=149.13  Aligned_cols=180  Identities=14%  Similarity=0.136  Sum_probs=116.6

Q ss_pred             HhcCCceEEEEecCCeEEEEEeccCCCCccCC-CCcceeEeecCcEEEEEeccccchhhhhhhhccccc-------cccc
Q psy8777          32 INQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD-------RHIT  103 (291)
Q Consensus        32 v~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~-~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd-------~~~~  103 (291)
                      |++| +|+|||+++||||||+|+|.++++... ++.+||++|++|++|++||+.+|+|.+++.++.+..       ..++
T Consensus         6 v~~G-tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (213)
T 1iru_M            6 VFNG-GTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMT   84 (213)
T ss_dssp             CCCC-CEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             cCCC-CcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            5688 599999999999999999999876544 578999999999999999999999999999984422       2222


Q ss_pred             ccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHH
Q psy8777         104 IFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQR  182 (291)
Q Consensus       104 ~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~  182 (291)
                      +......+.++-|..+           .+|....+|.+.       ++++..|+||.+||.|.+. ....+.+..+...+
T Consensus        85 v~~la~~l~~~~y~~r-----------~~P~~v~~lvaG-------~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~  146 (213)
T 1iru_M           85 TGAIAAMLSTILYSRR-----------FFPYYVYNIIGG-------LDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQ  146 (213)
T ss_dssp             HHHHHHHHHHHHHHTT-----------TSCCCEEEEEEE-------ECTTSCEEEEEECTTSCEEEESEEEEETTHHHHH
T ss_pred             HHHHHHHHHHHHHhhC-----------CCCceEEEEEEE-------EcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHH
Confidence            2111111111111111           245555555554       4444459999999999753 22222335544455


Q ss_pred             HHHHHHHhHhh-----hCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         183 ARYEAASFKYK-----HGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       183 ~~~e~~~~~~~-----~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      ..++....+ .     ++.+|+.+++++.+.+.+.....+....+..+++.++.
T Consensus       147 ~~Le~~~~~-~~~~~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~  199 (213)
T 1iru_M          147 PLLDNQVGF-KNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVT  199 (213)
T ss_dssp             HHHHHHTTC-CSCSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEE
T ss_pred             HHHhhcccc-ccccccCCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEc
Confidence            555543211 1     45689999999866665544444443456677777764

>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=99.78  E-value=7e-19  Score=148.15  Aligned_cols=178  Identities=12%  Similarity=0.076  Sum_probs=111.5

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      +|+|||+++||||||+|+|.+++ +..+++.+|||+|++|++|++||+.+|+|.++++++.+...+-..+...-.+..+-
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            48999999999999999999887 77777889999999999999999999999999999854322111111000111111


Q ss_pred             HHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeec-ccccHHHHHHHHHHHHHHhHhhh
Q psy8777         116 YAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTG-MQADSRYQVQRARYEAASFKYKH  194 (291)
Q Consensus       116 ~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG-~~~D~~~~~~~~~~e~~~~~~~~  194 (291)
                      .......+..+.     +....++.+.       ++++.+|+||.++|+|.+.-.. .+.+.++...+..++.     .+
T Consensus        81 ~~l~~~~~~~~~-----p~~~~~lvaG-------~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~-----~~  143 (205)
T 1iru_H           81 SLFKEMCYRYRE-----DLMAGIIIAG-------WDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDA-----TY  143 (205)
T ss_dssp             HHHHHHHHHTTT-----TCCEEEEEEE-------EETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHH-----HC
T ss_pred             HHHHHHHHhcCc-----CccEEEEEEE-------EeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHH-----hc
Confidence            111111111101     4454455443       4445689999999999653111 1122444444444443     34


Q ss_pred             CCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         195 GYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       195 ~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      +.+|+.+++.+.+.+.+.....+....+..+++.++.
T Consensus       144 ~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~  180 (205)
T 1iru_H          144 REGMTKEECLQFTANALALAMERDGSSGGVIRLAAIA  180 (205)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEE
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhccccCCcEEEEEEe
Confidence            5589999999866655544444433445667777764

>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4

Probab=99.78  E-value=1.1e-18  Score=146.59  Aligned_cols=170  Identities=14%  Similarity=0.178  Sum_probs=112.3

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------cccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.++ ++..+++.+|||+|++|++|++||+.+|+|.++++++.+.       +.++++....
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            4899999999999999999887 5777788899999999999999999999999999998542       2222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-ee-cccccHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MT-GMQADSRYQVQRARYE  186 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~s-G~~~D~~~~~~~~~~e  186 (291)
                      ..+.++-|..        .   .+|....++.+.       +++ ++|+||.+||+|.+. .. ..+.+..+...+..++
T Consensus        81 ~~l~~~~~~~--------r---~rp~~~~~lvaG-------~D~-~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le  141 (202)
T 1j2q_H           81 TLTSNLLNSY--------R---YFPYLVQLLIGG-------IDS-EGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLE  141 (202)
T ss_dssp             HHHHHHHHHT--------T---TSCCCEEEEEEE-------EET-TEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHH
T ss_pred             HHHHHHHHhh--------C---CCCceEEEEEEE-------EeC-CCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHH
Confidence            1111111111        1   235555555553       443 679999999999753 22 2344455555555555


Q ss_pred             HHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         187 AASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       187 ~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .     .++.+|+.+++.+.+.+.+.....+....+-.+++.++
T Consensus       142 ~-----~~~~~~s~eea~~la~~al~~~~~~d~~s~~~i~v~vi  180 (202)
T 1j2q_H          142 D-----RFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKI  180 (202)
T ss_dssp             H-----HCCTTCCHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEE
T ss_pred             h-----hcCCCcCHHHHHHHHHHHHHHHHhcCCCCCCcEEEEEE
Confidence            4     34458999999986666654443433233444555554

>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=99.78  E-value=2.1e-18  Score=145.03  Aligned_cols=175  Identities=12%  Similarity=0.069  Sum_probs=116.1

Q ss_pred             HhcCCceEEEEecCCeEEEEEeccCCCCccCCC-CcceeEeecCcEEEEEeccccchhhhhhhhccccc-------cccc
Q psy8777          32 INQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD-------RHIT  103 (291)
Q Consensus        32 v~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~-~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd-------~~~~  103 (291)
                      +++| +|+|||+++||||||+|+|.+.++..++ +.+||++|+ |++|++||+.+|+|.+++.++.+..       ..++
T Consensus         5 ~~~G-tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   82 (204)
T 1ryp_J            5 SING-GIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIE   82 (204)
T ss_dssp             GSSC-CEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             CCCC-CeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCC
Confidence            4677 5999999999999999999998877654 789999999 9999999999999999999985422       2222


Q ss_pred             ccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCC-CCcceEEEecCcEEE-Eeec-ccccHHHHH
Q psy8777         104 IFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGC-VMTG-MQADSRYQV  180 (291)
Q Consensus       104 ~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~-~~~~kI~~i~~~~~~-~~sG-~~~D~~~~~  180 (291)
                      +......+.++-|.    .++.       |....++.+.       +++ +.+|+||.+||.|.+ ...+ .+.+..+..
T Consensus        83 v~~la~~l~~~~y~----~~~~-------P~~v~~lvaG-------~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~  144 (204)
T 1ryp_J           83 PETFTQLVSSSLYE----RRFG-------PYFVGPVVAG-------INSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQ  144 (204)
T ss_dssp             HHHHHHHHHHHHHT----TTTS-------CCCEEEEEEE-------ECTTTCCEEEEEECTTCCEECCSSEEEEETTHHH
T ss_pred             HHHHHHHHHHHHHH----hcCC-------CceEEEEEEE-------EeCCCCceEEEEECCCCCccccCceeEeccCHHH
Confidence            21111111111111    1111       4455555543       443 467999999999986 2323 223455555


Q ss_pred             HHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         181 QRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       181 ~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      .+..++.     .+..+|+.+++.+.+.+.+.....+....+..+++.++.
T Consensus       145 a~~~Le~-----~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~  190 (204)
T 1ryp_J          145 LFGMCES-----LYEPNLEPEDLFETISQALLNAADRDALSGWGAVVYIIK  190 (204)
T ss_dssp             HHHHHHH-----HCCSSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEE
T ss_pred             HHHHHhh-----hcCCCcCHHHHHHHHHHHHHHHHHhCcccCCcEEEEEEc
Confidence            5555554     245589999999976666655444443445667777764

>3h4p_a Proteasome subunit beta; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii}

Probab=99.77  E-value=4.7e-19  Score=150.66  Aligned_cols=171  Identities=19%  Similarity=0.175  Sum_probs=111.4

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+.+ +..+++.+|||+|++|++|++||+.+|+|.+++.++.+       |+.++++....
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   81 (219)
T 3h4p_a            2 TTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACA   81 (219)
T ss_dssp             CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHHH
T ss_pred             ccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            59999999999999999998875 66777889999999999999999999999999999843       22333222111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-ee-cccccHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MT-GMQADSRYQVQRARYE  186 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~s-G~~~D~~~~~~~~~~e  186 (291)
                      ..+.++-|..+           .+|....+|.+.       +++..+|+||.+||.|.+. .. ..+.+..+...+..++
T Consensus        82 ~~l~~~~~~~~-----------~~P~~v~~lvaG-------~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le  143 (219)
T 3h4p_a           82 TLLSNILHSSR-----------MFPFLTQIIIGG-------YDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLE  143 (219)
T ss_dssp             HHHHHHHHHTT-----------TTTCCCCCEEEE-------EETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHH
T ss_pred             HHHHHHHHHhc-----------CCCceEEEEEEE-------EeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHH
Confidence            11111111110           123343333333       4444789999999999764 33 3444455555555444


Q ss_pred             HHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         187 AASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       187 ~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .     .+..+|+.+++++.+...+.....+.....-.+++.++
T Consensus       144 ~-----~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi  182 (219)
T 3h4p_a          144 A-----GYDRDMSVEEGIKLALNALKSAMERDTFSGNGISLAVI  182 (219)
T ss_dssp             T-----SCCTTCCHHHHHHHHHHHHHHHHTSCSSCCSCCCEEEE
T ss_pred             H-----hcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEE
Confidence            3     34568999999996666665444433333334454444

>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=99.76  E-value=2.2e-18  Score=146.81  Aligned_cols=186  Identities=12%  Similarity=0.120  Sum_probs=114.6

Q ss_pred             HHhcCCceEEEEecCCeEEEEEeccCCCCcc-CCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCC
Q psy8777          31 AINQGGVTSVAVKGVDTAVVATEKKVPDSLV-DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEG  109 (291)
Q Consensus        31 av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~-~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~g  109 (291)
                      .+++|+ |+|||+++||||||+|+|.+.++. ..++.+|||+|++|++|++||+.+|++.+++.++.+....-..+.  .
T Consensus         5 ~v~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~--~   81 (222)
T 1ryp_M            5 YGDNGG-TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHN--D   81 (222)
T ss_dssp             CCCCCC-EEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTT--T
T ss_pred             cccCCc-cEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcC--C
Confidence            367884 999999999999999999988765 556789999999999999999999999999999843221111111  0


Q ss_pred             chhhHHHHHhhhcC---CceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEe-ecccccHHHHHHHHHH
Q psy8777         110 RLYQVEYAFKAINQ---GGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM-TGMQADSRYQVQRARY  185 (291)
Q Consensus       110 rl~qve~~~~~~~~---g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~-sG~~~D~~~~~~~~~~  185 (291)
                      +-..++...+.+.+   .. .   .+|....+|.+.       ++.+..|+||.+||.|.+.- .-.+.+..+......+
T Consensus        82 ~~~~v~~la~~l~~~ly~~-r---~~P~~v~~ivaG-------~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~L  150 (222)
T 1ryp_M           82 KKLSINSAARNIQHLLYGK-R---FFPYYVHTIIAG-------LDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFL  150 (222)
T ss_dssp             CCCCHHHHHHHHHHHHHTT-T---TSCCCEEEEEEE-------ECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhc-C---CCCceEEEEEEE-------EcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHH
Confidence            11111211111110   00 0   124455555543       44444599999999998531 1112224444444444


Q ss_pred             HHHHhHhh------------hCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         186 EAASFKYK------------HGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       186 e~~~~~~~------------~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      +....+.+            ++.+|+.+++.+.+.+.+.....+.-...-.+++.++
T Consensus       151 e~~~~~~~~~~~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi  207 (222)
T 1ryp_M          151 DNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIV  207 (222)
T ss_dssp             HHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEE
T ss_pred             hcccccccccccccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEE
Confidence            44321111            5668999999986666554444443334556666666

>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=99.76  E-value=3.2e-18  Score=143.29  Aligned_cols=173  Identities=13%  Similarity=0.047  Sum_probs=113.2

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCccC-CCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l~~-~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+.++.. .++.+|||+|++|++|++||+.+|+|.+++.++.+       |++++++....
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            58999999999999999999877654 45789999999999999999999999999999844       22222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCC-CCcceEEEecCcEEEE-eecccccHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYE  186 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~-~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e  186 (291)
                      ..+.++-|..  .   . .   .+|....++.+.       +++ +.+|+||.+||.|.+. ....+.+..+...+..++
T Consensus        82 ~~l~~~l~~~--~---~-~---r~p~~v~~lvaG-------~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le  145 (198)
T 1ryp_K           82 SFVRQELAKS--I---R-S---RRPYQVNVLIGG-------YDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLD  145 (198)
T ss_dssp             HHHHHHHHHH--T---T-S---SSCCCEEEEEEE-------EETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHH
T ss_pred             HHHHHHHHHh--c---c-c---CCCceEEEEEEE-------EeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHH
Confidence            1111111111  0   0 0   025555555554       444 4689999999999863 222334466655555555


Q ss_pred             HHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         187 AASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       187 ~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .     .+..+|+.+++.+.+.+.+.....+....+-.+++.++
T Consensus       146 ~-----~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi  184 (198)
T 1ryp_K          146 H-----HYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVKIV  184 (198)
T ss_dssp             H-----HCCTTCCHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEE
T ss_pred             h-----hcCCCCCHHHHHHHHHHHHHHHHHhCccCCCceEEEEE
Confidence            4     34558999999986655554444443344556666665

>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=99.76  E-value=2.4e-18  Score=145.58  Aligned_cols=172  Identities=12%  Similarity=0.134  Sum_probs=111.5

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccccc-------ccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD-------RHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd-------~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+. ++..+++.+||++|++|++|++||+.+|+|.++++++.+..       .++++....
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            4899999999999999999987 68777888999999999999999999999999999985432       222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      ..+.++-|..+   +.        +....++.+.       ++++.+|+||.+||.|.+. ....+.+.++...+..++.
T Consensus        81 ~~l~~~~~~~~---~~--------p~~v~~lvaG-------~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~  142 (212)
T 1ryp_L           81 KILSNLVYQYK---GA--------GLSMGTMICG-------YTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDS  142 (212)
T ss_dssp             HHHHHHHHHTT---TS--------CCCBEEEEEE-------EETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHH
T ss_pred             HHHHHHHHhhC---CC--------CceEEEEEEE-------EeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHh
Confidence            11111111110   10        2344444433       4445689999999999753 2222333555555555544


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                           .++.+|+.+++.+.+.+.+.....+....+..+++.++.
T Consensus       143 -----~~~~~~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~  181 (212)
T 1ryp_L          143 -----NYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVT  181 (212)
T ss_dssp             -----HCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEE
T ss_pred             -----hCCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEEc
Confidence                 345589999999866666544444433445566666653

>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=99.76  E-value=9.8e-19  Score=150.10  Aligned_cols=85  Identities=39%  Similarity=0.610  Sum_probs=79.6

Q ss_pred             hcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccc
Q psy8777          94 ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQ  173 (291)
Q Consensus        94 ~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~  173 (291)
                      ++..||+++++|||+|||+|+|||++++++|+ +++|+++++||||++|++.+++++..++.+||++|+++++++++|..
T Consensus         1 ~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~   79 (233)
T 1iru_B            1 AERGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMG   79 (233)
T ss_dssp             CCCCCCSBSCCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECH
T ss_pred             CCCCccCCceeECCCCeEehhHhHHHHHHcCC-cEEEEEeCCEEEEEEEecCCccccccccCCeEEEECCCEEEEEEEcc
Confidence            35689999999999999999999999999988 99999999999999999999888887888999999999999999999


Q ss_pred             ccHHHH
Q psy8777         174 ADSRYQ  179 (291)
Q Consensus       174 ~D~~~~  179 (291)
                      +|++.+
T Consensus        80 aD~~~l   85 (233)
T 1iru_B           80 PDYRVL   85 (233)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998765

>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=99.76  E-value=5.7e-18  Score=142.09  Aligned_cols=179  Identities=7%  Similarity=0.001  Sum_probs=114.1

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      +|+|||+++||||||+|+|.+. ++..+++.+||++|++|++|++||+.+|++.++++++.+....-..+.   +-..++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~---~~~~v~   78 (201)
T 1iru_K            2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNG---YELSPT   78 (201)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHS---SCCCHH
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcC---CCCCHH
Confidence            5899999999999999999987 577778889999999999999999999999999998844222111111   111112


Q ss_pred             HHHhhhcCCceeEE-EEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhh
Q psy8777         116 YAFKAINQGGVTSV-AVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYK  193 (291)
Q Consensus       116 ~~~~~~~~g~~~~i-gi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~  193 (291)
                      .+.+.+.+.-.... ..+|....++.+.       +++..+|+||.+||.|.+. ....+.+..+...+..++.     .
T Consensus        79 ~~a~~~~~~l~~~~~~~~p~~~~~lvaG-------~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~-----~  146 (201)
T 1iru_K           79 AAANFTRRNLADCLRSRTPYHVNLLLAG-------YDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDR-----Y  146 (201)
T ss_dssp             HHHHHHHHHHHHHHTSSSCCCEEEEEEE-------EETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHH-----H
T ss_pred             HHHHHHHHHHHHHHhcCCCccEEEEEEE-------EeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHh-----c
Confidence            11111110000000 0135555555553       4445689999999999863 2223344666655555554     3


Q ss_pred             hCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         194 HGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       194 ~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      +..+++.+++.+.+.+.+.....+.......+++.++
T Consensus       147 ~~~~~s~eea~~l~~~al~~a~~rd~~sg~~i~v~vi  183 (201)
T 1iru_K          147 YTPTISRERAVELLRKCLEELQKRFILNLPTFSVRII  183 (201)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEE
T ss_pred             ccCCCCHHHHHHHHHHHHHHHHhhccccCCceEEEEE
Confidence            4558999999996666665444443334455666655

>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=99.75  E-value=1.5e-18  Score=149.90  Aligned_cols=82  Identities=59%  Similarity=0.948  Sum_probs=77.5

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcC-CceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQ-GGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~-g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      .||+++++|||+|||+|+|||++++++ |+ +++|+++++||||++|++.+++++..++.+|||+|+++++++++|..+|
T Consensus         2 ~yd~~~t~fsp~Grl~QvEYA~~av~~~Gt-t~vgi~~~dgVvlaad~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   80 (243)
T 1ryp_A            2 GYDRHITIFSPEGRLYQVEYAFKATNQTNI-NSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             GGGGTSSSCCTTSCCHHHHHHHHHTTTTCC-CEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCceECCCCeeHHHHHHHHHHhcCCC-cEEEEEeCCEEEEEEEecCCccccCCCcCCceEEECCCEEEEEEecHHH
Confidence            699999999999999999999999999 77 9999999999999999999988887778899999999999999999999


Q ss_pred             HHHH
Q psy8777         176 SRYQ  179 (291)
Q Consensus       176 ~~~~  179 (291)
                      ++.+
T Consensus        81 ~~~l   84 (243)
T 1ryp_A           81 ARNA   84 (243)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8865

>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii}

Probab=99.75  E-value=1.4e-18  Score=151.67  Aligned_cols=84  Identities=36%  Similarity=0.692  Sum_probs=73.3

Q ss_pred             cccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccc
Q psy8777          95 RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA  174 (291)
Q Consensus        95 ~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~  174 (291)
                      ...||+++++|||+|||+|||||++++++|+ +++|+++++||||++|++.+.+++..++.+|||+|+++++++++|..+
T Consensus         9 ~~~yd~~~t~fSp~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~d~i~~~~aG~~a   87 (264)
T 3h4p_A            9 PSAYDRAITVFSPEGRLYQVEYAREAVRRGT-TAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLVA   87 (264)
T ss_dssp             -------CCCCCSSSSCHHHHHHHHHHHHSC-CEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEETTEEEEEEECSH
T ss_pred             ccccCCCcceECCCCeeHHHHhHHHHHhcCC-cEEEEEECCEEEEEEecCccCCccccCccccEEEecCcEEEEeccchH
Confidence            4679999999999999999999999999988 999999999999999999998888778889999999999999999999


Q ss_pred             cHHHH
Q psy8777         175 DSRYQ  179 (291)
Q Consensus       175 D~~~~  179 (291)
                      |++.+
T Consensus        88 D~~~l   92 (264)
T 3h4p_A           88 DARVL   92 (264)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99765

>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=99.75  E-value=6.9e-18  Score=144.65  Aligned_cols=178  Identities=15%  Similarity=0.137  Sum_probs=110.7

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCccC-CCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l~~-~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      ||+|||+++||||||+|+|.+++++. .++.+|||+|++|++|++||+.+|+|.+++.++.+...+-..+...-.   ++
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~---v~   77 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPR---VA   77 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCC---HH
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEecCCEEEEecccHHHHHHHHHHHHHHHHhhHHhcCCCCC---HH
Confidence            68999999999999999999887654 467799999999999999999999999999998543222111111111   11


Q ss_pred             HHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhh
Q psy8777         116 YAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKH  194 (291)
Q Consensus       116 ~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~  194 (291)
                      .+.+.+.+.-...  .++.+..++.+.       +++ ++|+||.+||+|.+. ....+.++++...+..++.     .+
T Consensus        78 ~la~~l~~~l~~~--~~p~~v~llvaG-------~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~-----~~  142 (234)
T 3unf_H           78 TVTRILRQTLFRY--QGHVGASLVVGG-------VDL-NGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLED-----RF  142 (234)
T ss_dssp             HHHHHHHHHHHHT--TTCSCEEEEEEE-------EET-TEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHH-----HC
T ss_pred             HHHHHHHHHHHhc--CCCccEEEEEEE-------EeC-CCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHh-----cc
Confidence            1111111000000  013333333332       343 689999999999763 2222233555555555554     34


Q ss_pred             CCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEE
Q psy8777         195 GYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISY  232 (291)
Q Consensus       195 ~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~  232 (291)
                      +.+|+.+++.+.+.+-+.....+....+..+++.++..
T Consensus       143 ~~~ms~eeA~~la~~al~~~~~~D~~sg~~iev~vi~~  180 (234)
T 3unf_H          143 QPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVITA  180 (234)
T ss_dssp             CSSCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEES
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEEC
Confidence            56899999998665555443333333556777777643

>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=99.75  E-value=2.7e-18  Score=147.37  Aligned_cols=85  Identities=33%  Similarity=0.621  Sum_probs=71.9

Q ss_pred             hcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccc
Q psy8777          94 ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQ  173 (291)
Q Consensus        94 ~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~  173 (291)
                      .+..||+++++|||+|||+|+|||.+++++|+ +++|+++++||||++|++.+.+++..++.+||++|+++++++++|..
T Consensus         4 ~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~~~i~~~~aG~~   82 (233)
T 1yar_A            4 GQMAYSRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLV   82 (233)
T ss_dssp             ---------CCCCTTSCCHHHHHHHHHHTTSC-CEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBH
T ss_pred             ccccCCCCCceECcCCeeHHHHhHHHHHhcCC-cEEEEEECCEEEEEEeccCCcccccccccCeEEEecCCEEEEEeeCH
Confidence            35679999999999999999999999999988 99999999999999999999778777788999999999999999999


Q ss_pred             ccHHHH
Q psy8777         174 ADSRYQ  179 (291)
Q Consensus       174 ~D~~~~  179 (291)
                      +|++.+
T Consensus        83 aD~~~l   88 (233)
T 1yar_A           83 ADARVL   88 (233)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998764

>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=99.74  E-value=6.6e-18  Score=142.06  Aligned_cols=170  Identities=15%  Similarity=0.172  Sum_probs=107.5

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------cccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.++ ++..+++.+||++|++|++|++||+.+|+|.+++.++.+.       +.++++....
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            4899999999999999999887 5777778899999999999999999999999999887432       2222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      ..+.++-|..+       .    .+....++.+.       ++ +++|+||.+||+|.+. ....+.+.++...+..++.
T Consensus        81 ~~l~~~~~~~r-------~----~~~~v~~lvaG-------~D-~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~  141 (204)
T 1iru_L           81 KLLANMVYQYK-------G----MGLSMGTMICG-------WD-KRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDR  141 (204)
T ss_dssp             HHHHHHHHTTT-------T----SCCCBEEEEEE-------EC-SSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHT
T ss_pred             HHHHHHHHHhC-------C----CCeeEEEEEEE-------Ee-CCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhc
Confidence            11111111110       1    12332233332       33 3689999999999753 2222233555444444443


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                           .++.+|+.+++.+.+.+.+.....+....+-.+++.++
T Consensus       142 -----~~~~~~s~eea~~l~~~al~~~~~rd~~s~~~i~v~vi  179 (204)
T 1iru_L          142 -----GYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHV  179 (204)
T ss_dssp             -----TCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEE
T ss_pred             -----cCCCCCCHHHHHHHHHHHHHHHHHhCccCCCceEEEEE
Confidence                 34558999999986665554443333334445555555

>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A {Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A*

Probab=99.74  E-value=3.3e-18  Score=147.97  Aligned_cols=83  Identities=35%  Similarity=0.730  Sum_probs=77.0

Q ss_pred             hcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccc
Q psy8777          94 ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQ  173 (291)
Q Consensus        94 ~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~  173 (291)
                      .++.||+++++|||+|||+|+|||++++.+|+ +++|+++++||||++|++.+.+++..++.+||++|+++++++++|..
T Consensus         4 ~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~   82 (246)
T 1j2p_A            4 PQMGYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLV   82 (246)
T ss_dssp             CCTTSSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECH
T ss_pred             cccCcCCCCceECCCCeehHHHhHHHHHHcCC-cEEEEEECCEEEEEEeccCCccccccCccCcEEEECCCEEEEEeEcc
Confidence            34579999999999999999999999999988 99999999999999999999777777778999999999999999999


Q ss_pred             ccHH
Q psy8777         174 ADSR  177 (291)
Q Consensus       174 ~D~~  177 (291)
                      +|++
T Consensus        83 aD~~   86 (246)
T 1j2p_A           83 ADAR   86 (246)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9974

>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=99.74  E-value=4.5e-18  Score=146.72  Aligned_cols=84  Identities=35%  Similarity=0.758  Sum_probs=76.4

Q ss_pred             cccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccc
Q psy8777          95 RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA  174 (291)
Q Consensus        95 ~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~  174 (291)
                      ++.||+.+++|||+|||+|+|||.+++.+|+ +++|+++++|||+++|++.+.+++..++.+||++|+++++++++|..+
T Consensus         5 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~a   83 (241)
T 1iru_E            5 RSEYDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIA   83 (241)
T ss_dssp             ---CCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHH
T ss_pred             cCCCCCCCceECCCCccHHHHHHHHHHHcCC-cEEEEEcCCEEEEEEecccCCcCcCccccceEEEEcCCEEEEEeeChH
Confidence            4679999999999999999999999999988 999999999999999999997776677789999999999999999999


Q ss_pred             cHHHH
Q psy8777         175 DSRYQ  179 (291)
Q Consensus       175 D~~~~  179 (291)
                      |++.+
T Consensus        84 D~~~l   88 (241)
T 1iru_E           84 DAKTL   88 (241)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98764

>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=99.73  E-value=5e-18  Score=147.48  Aligned_cols=85  Identities=33%  Similarity=0.598  Sum_probs=79.1

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ..||+.+++|||+|||+|+|||++++++|+ +++|+++++||||++|++.+.+++..++.+|||+|+++++++++|..+|
T Consensus         5 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD   83 (254)
T 1iru_G            5 TGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLAD   83 (254)
T ss_dssp             SSTTSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHHH
T ss_pred             cccCCCCccCCcCCccHHHHhHHHHHhcCC-CEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEECCCEEEEEecChHH
Confidence            469999999999999999999999999988 9999999999999999999977766677899999999999999999999


Q ss_pred             HHHHHH
Q psy8777         176 SRYQVQ  181 (291)
Q Consensus       176 ~~~~~~  181 (291)
                      ++.+.+
T Consensus        84 ~~~l~~   89 (254)
T 1iru_G           84 ARSLAD   89 (254)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988754

>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=99.73  E-value=6.1e-18  Score=145.84  Aligned_cols=82  Identities=37%  Similarity=0.672  Sum_probs=76.2

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCC-CcceEEEecCcEEEEeeccccc
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~-~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      .||+.+++|||+|||+|+|||++++.+|+ +++|+++++||||++|++.+.+++..+ +.+||++|+++++++++|..+|
T Consensus         1 ~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD   79 (241)
T 1ryp_D            1 GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNAD   79 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHH
T ss_pred             CCCCCceeECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHH
Confidence            49999999999999999999999999988 999999999999999999997776654 7899999999999999999999


Q ss_pred             HHHH
Q psy8777         176 SRYQ  179 (291)
Q Consensus       176 ~~~~  179 (291)
                      ++.+
T Consensus        80 ~~~l   83 (241)
T 1ryp_D           80 SRIL   83 (241)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>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=99.73  E-value=7.8e-18  Score=145.47  Aligned_cols=82  Identities=39%  Similarity=0.723  Sum_probs=77.1

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccC-CCCcceEEEecCcEEEEeeccccc
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~-~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      .||+.+++|||+|||+|+|||++++.+|+ +++|+++++||||++|++.+.+++. .++.+||++|+++++++++|..+|
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD   82 (244)
T 1ryp_C            4 RYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GGCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             ccCCCCceECcCCeeHHHHhHHHHHhcCC-cEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHH
Confidence            69999999999999999999999999988 9999999999999999999977766 778899999999999999999999


Q ss_pred             HHHH
Q psy8777         176 SRYQ  179 (291)
Q Consensus       176 ~~~~  179 (291)
                      ++.+
T Consensus        83 ~~~l   86 (244)
T 1ryp_C           83 AEIL   86 (244)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>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=99.73  E-value=5.4e-18  Score=149.31  Aligned_cols=84  Identities=37%  Similarity=0.650  Sum_probs=78.2

Q ss_pred             cccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccc
Q psy8777          95 RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA  174 (291)
Q Consensus        95 ~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~  174 (291)
                      ...||+++++|||+|||+|||||++++++|+ +++|+++++||||++|++.+.+++.....+|||+|+++++++++|+.+
T Consensus         5 ~~~yd~~~t~fSP~Grl~QvEYA~kAv~~Gt-T~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~d~i~~~~aG~~a   83 (288)
T 3nzj_F            5 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIP   83 (288)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEETTTEEEEEEECHH
T ss_pred             cCCccCCcccCCCCCchHHHHHHHHHHhcCC-cEEEEEECCEEEEEEcCCcccCCccccccceEEEEcCCEEEEecCcHH
Confidence            3579999999999999999999999999998 999999999999999999997777666779999999999999999999


Q ss_pred             cHHHH
Q psy8777         175 DSRYQ  179 (291)
Q Consensus       175 D~~~~  179 (291)
                      |++.+
T Consensus        84 D~~~l   88 (288)
T 3nzj_F           84 DGRHL   88 (288)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99875

>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=99.73  E-value=1.5e-17  Score=141.68  Aligned_cols=177  Identities=18%  Similarity=0.153  Sum_probs=109.6

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCccC-CCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSLVD-PKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l~~-~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      +|+|||+++||||||+|+|.+.+++. .++.+||++|++|++|++||+.+|+|.++++++.+...+-..+.   +-..++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~---~~~~v~   77 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTS---REPRVV   77 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHT---SCCCHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEecCCEEEEecccHHHHHHHHHHHHHHHHHHHHHcC---CCCCHH
Confidence            48999999999999999999887644 45679999999999999999999999999999854322111111   111111


Q ss_pred             HHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhh
Q psy8777         116 YAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKH  194 (291)
Q Consensus       116 ~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~  194 (291)
                      .+.+.+.+---..  .++.+..+|.+.       +++ ++|+||.+||+|.+. ....+.+..+...+..++.     .+
T Consensus        78 ~~a~~l~~~l~~~--~~p~~v~~lvaG-------~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~-----~~  142 (222)
T 1ryp_I           78 SALQMLKQHLFKY--QGHIGAYLIVAG-------VDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLES-----HW  142 (222)
T ss_dssp             HHHHHHHHHHHHT--TTCSCEEEEEEE-------EET-TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHH-----HC
T ss_pred             HHHHHHHHHHhhc--CCCCCeeEEEEE-------EeC-CCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHh-----hC
Confidence            1111111000000  124444444443       443 679999999999763 1122233544444444444     24


Q ss_pred             CCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         195 GYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       195 ~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      +.+|+.+++.+.+.+.+.....+....+..+++.++.
T Consensus       143 ~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~  179 (222)
T 1ryp_I          143 KQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVME  179 (222)
T ss_dssp             CSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEE
T ss_pred             CCCcCHHHHHHHHHHHHHHHHhccccCCCcEEEEEEE
Confidence            5689999999866655544333333345567776663

>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=99.73  E-value=5.3e-18  Score=146.84  Aligned_cols=81  Identities=43%  Similarity=0.714  Sum_probs=76.3

Q ss_pred             ccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHH
Q psy8777          98 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR  177 (291)
Q Consensus        98 yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~  177 (291)
                      ||+++++|||+|||+|+|||++++.+|+ +++|+++++||||++|++.+.+++..++.+|||+|+++++++++|..+|++
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~   81 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADAR   81 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSC-CEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             ccCCCceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEcCCEEEEEeecHHHHH
Confidence            9999999999999999999999999988 999999999999999999997777767789999999999999999999987


Q ss_pred             HH
Q psy8777         178 YQ  179 (291)
Q Consensus       178 ~~  179 (291)
                      .+
T Consensus        82 ~l   83 (248)
T 1iru_D           82 IV   83 (248)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=99.72  E-value=6.2e-18  Score=146.57  Aligned_cols=84  Identities=39%  Similarity=0.625  Sum_probs=78.6

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccH
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS  176 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~  176 (291)
                      +||+.+++|||+|||+|+|||++++.+|+ +++|+++++||||++|++.+++++..++.+||++|+++++++++|..+|+
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~   82 (250)
T 1ryp_B            4 RYSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPDY   82 (250)
T ss_dssp             CCCSBSSCBCTTSCBHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHHH
T ss_pred             cccCCceeECCCCccHHHHhHHHHHHcCC-cEEEEEECCEEEEEEeccCCCccccCcccCceEEECCCEEEEeeeCHHHH
Confidence            69999999999999999999999999988 99999999999999999998877777788999999999999999999999


Q ss_pred             HHHHH
Q psy8777         177 RYQVQ  181 (291)
Q Consensus       177 ~~~~~  181 (291)
                      +.+.+
T Consensus        83 ~~l~~   87 (250)
T 1ryp_B           83 RVLVD   87 (250)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87643

>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=99.72  E-value=8.4e-18  Score=145.21  Aligned_cols=83  Identities=37%  Similarity=0.662  Sum_probs=76.6

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ..||+.+++|||+|||+|+|||.+++.+|+ +++|+++++||||++|++.+.+++..+..+||++|+++++++++|..+|
T Consensus         2 ~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD   80 (244)
T 1ryp_G            2 TGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPD   80 (244)
T ss_dssp             CCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHH
T ss_pred             CCccCCcccCCcCCchHHHHhHHHHHHCCC-CEEEEEECCEEEEEEecccCCCCccccccCceEEecCCEEEEEcccHHH
Confidence            369999999999999999999999999988 9999999999999999999977766555699999999999999999999


Q ss_pred             HHHH
Q psy8777         176 SRYQ  179 (291)
Q Consensus       176 ~~~~  179 (291)
                      ++.+
T Consensus        81 ~~~l   84 (244)
T 1ryp_G           81 GRHL   84 (244)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8865

>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=99.72  E-value=1.5e-17  Score=142.87  Aligned_cols=157  Identities=11%  Similarity=0.043  Sum_probs=106.2

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------cccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+. ++..+++.+||++|++|++|++||+.+|+|.+++.++.+.       +.++++....
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            4899999999999999999987 6888888899999999999999999999999999998442       2223221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCc-----ceEEEecCcEEEE-e--ecccccHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV-----TNLYSLTPTVGCV-M--TGMQADSRYQV  180 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~-----~kI~~i~~~~~~~-~--sG~~~D~~~~~  180 (291)
                      .++.++-|...       .. ++++....+|.+.       +++..+     |+||.+||.|.+. .  ...+.+..+..
T Consensus        81 ~~l~~~~~~~~-------~~-~~rp~~v~~lvaG-------~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~  145 (235)
T 1q5q_H           81 NRLASMVRGNL-------GA-AMQGLAVVPLLVG-------YDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLF  145 (235)
T ss_dssp             HHHHHHHHTTH-------HH-HTTTCCEEEEEEE-------ECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHH
T ss_pred             HHHHHHHHHHH-------Hh-hhcccceEEEEEE-------EECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHH
Confidence            11111111110       10 1345565555544       444435     8999999999654 3  23445566665


Q ss_pred             HHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHH
Q psy8777         181 QRARYEAASFKYKHGYSMPIDQLCNRIADISQV  213 (291)
Q Consensus       181 ~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~  213 (291)
                      .+..++.     .+..+|+.+++++.+.+.+..
T Consensus       146 a~~~Le~-----~~~~~ms~eeA~~la~~al~~  173 (235)
T 1q5q_H          146 AKSALKK-----IYSPDSDEETALRAAIESLYD  173 (235)
T ss_dssp             HHHHHHH-----HCCTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHh-----hcCCCCCHHHHHHHHHHHHHH
Confidence            5555554     345689999999866555543

>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=99.72  E-value=3.4e-17  Score=140.45  Aligned_cols=170  Identities=20%  Similarity=0.238  Sum_probs=108.8

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCccCC-CCcceeEeecCcEEEEEeccccchhhhhhhhccccc-------ccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD-------RHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l~~~-~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd-------~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+.++... ++.+|||+|++|++|++||+.+|+|.+++.++.+..       +++++....
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            489999999999999999999876544 567999999999999999999999999999985422       222211111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      ..+.+.-|..    ++        +.+..++.+.       +++ ++|+||.+||+|.+. ....+.++.+......++.
T Consensus        81 ~~l~~~l~~~----~~--------~~~v~llvaG-------~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~  140 (234)
T 1iru_I           81 RMLKQMLFRY----RG--------YIGAALVLGG-------VDV-TGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFED  140 (234)
T ss_dssp             HHHHHHHHHT----TT--------CSCEEEEEEE-------ECS-SCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHH
T ss_pred             HHHHHHHHhc----CC--------CCceeEEEEE-------EcC-CCCEEEEECCCCCEEecCEEEECCchHHHHHHHHH
Confidence            1111111111    11        2343333332       343 679999999999753 1122233555555454444


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                           .++.+|+.+++.+.+.+.+.....+.....-.+++.++.
T Consensus       141 -----~~~~~ms~eeA~~la~~al~~a~~~d~~sg~~i~v~vi~  179 (234)
T 1iru_I          141 -----KFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVIS  179 (234)
T ss_dssp             -----SCCTTCCHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEE
T ss_pred             -----hccCCCCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEE
Confidence                 355689999999866665544333333334566666663

>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=99.72  E-value=9.6e-18  Score=140.47  Aligned_cols=168  Identities=13%  Similarity=0.138  Sum_probs=107.6

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------cccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~  108 (291)
                      ||+|||+++||||||+|+|.+.+ +..+++.+|||+|++|++|++||+.+|+|.+++.++.+.       +.++++....
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            68999999999999999998876 777788899999999999999999999999999998442       2222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE-Eeecccc-cHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC-VMTGMQA-DSRYQVQRARYE  186 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~-~~sG~~~-D~~~~~~~~~~e  186 (291)
                      ..+-++-|..            .++....++.+.       +++..+|+||.  |+|.+ ...+.++ ++++...+..++
T Consensus        81 ~~l~~~l~~~------------~~p~~v~~lvaG-------~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le  139 (199)
T 3unf_N           81 NVVKNISYKY------------REDLLAHLIVAG-------WDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVD  139 (199)
T ss_dssp             HHHHHHHHHT------------TTTCCCCEEEEE-------EETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHH
T ss_pred             HHHHHHHHhc------------CCCceEEEEEEE-------EeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHH
Confidence            1111111111            013333333333       44446799999  88863 2333332 344444444444


Q ss_pred             HHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         187 AASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       187 ~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .     .++.+|+.+++.+.+.+.+.....+....+-.+++.++
T Consensus       140 ~-----~~~~~ms~eea~~la~~al~~~~~~d~~sg~~i~v~vi  178 (199)
T 3unf_N          140 A-----AYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLVTI  178 (199)
T ss_dssp             H-----HCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEE
T ss_pred             h-----hcCCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEE
Confidence            4     24568999999986666664444443333445565555

>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=99.71  E-value=1.2e-17  Score=144.42  Aligned_cols=83  Identities=76%  Similarity=1.139  Sum_probs=77.9

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcC-CceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQ-GGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA  174 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~-g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~  174 (291)
                      ..||+++++|||+|||+|+|||++++++ |+ +++|+++++||||++|++.+++++..++.+||++|+++++++++|..+
T Consensus         7 ~~yd~~~t~fsp~Grl~QvEya~~av~~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~a   85 (246)
T 1iru_A            7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGL-TSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGMTA   85 (246)
T ss_dssp             CTTTTTSSCCCTTSCCHHHHHHHHHHHTTCC-EEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEECHH
T ss_pred             CCcCCCCccCCCCCeehHHHHHHHHHhcCCC-CEEEEEeCCEEEEEEeecCCCcccCCCccCceEEECCCEEEEEeccHH
Confidence            5799999999999999999999999999 76 999999999999999999988788777889999999999999999999


Q ss_pred             cHHHH
Q psy8777         175 DSRYQ  179 (291)
Q Consensus       175 D~~~~  179 (291)
                      |++.+
T Consensus        86 D~~~l   90 (246)
T 1iru_A           86 DSRSQ   90 (246)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98865

>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=99.68  E-value=4.1e-17  Score=133.78  Aligned_cols=150  Identities=13%  Similarity=0.056  Sum_probs=99.2

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEee-cCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQV  114 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i-~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qv  114 (291)
                      +|+|||+++||||||+|+|.+.+ ++.+++.+||++| ++|++|++||+.+|++.++++++.+...+-.  +....  -.
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~--~~~~~--~~   76 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG--HLLKS--AV   76 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT--CHHHH--HH
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC--cHHHH--HH
Confidence            48999999999999999998875 7778888999999 9999999999999999999999854322110  00000  00


Q ss_pred             HHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEe-e---cccccHHHHHHHHHHHHHHh
Q psy8777         115 EYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM-T---GMQADSRYQVQRARYEAASF  190 (291)
Q Consensus       115 e~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~-s---G~~~D~~~~~~~~~~e~~~~  190 (291)
                      +.+.....+..     .++...+++..|            +|+||.+||+|.+.- .   ..+.++++......+|....
T Consensus        77 ~l~~~~~~~~~-----~r~~~~~l~g~d------------~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~  139 (174)
T 1g3k_A           77 ELAKDWRTDRA-----LRKLEAMLIVAD------------EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE  139 (174)
T ss_dssp             HHHHHHHHSTT-----GGGCCCEEEEEC------------SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccC-----cCcceEEEEEEC------------CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcc
Confidence            11222212211     123344444433            589999999997642 2   34455666666666665433


Q ss_pred             HhhhCCCCCHHHHHH-HHHHHH
Q psy8777         191 KYKHGYSMPIDQLCN-RIADIS  211 (291)
Q Consensus       191 ~~~~~~~~s~~~l~~-~l~~~~  211 (291)
                      .    .+|+.++++. .|....
T Consensus       140 ~----~~mt~~~l~~~al~~a~  157 (174)
T 1g3k_A          140 N----TELSAHEIVEKSLRIAG  157 (174)
T ss_dssp             H----CCCCHHHHHHHHHHHHH
T ss_pred             c----CCCCHHHHHHHHHHHHH
Confidence            1    3788888775 555444

>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=99.68  E-value=2.3e-17  Score=135.96  Aligned_cols=152  Identities=16%  Similarity=0.114  Sum_probs=99.5

Q ss_pred             hcCCceEEEEecCCeEEEEEeccCCC-Cc-cCCCCcceeEee-cCcEEEEEeccccchhhhhhhhcccccccccccCCCC
Q psy8777          33 NQGGVTSVAVKGVDTAVVATEKKVPD-SL-VDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEG  109 (291)
Q Consensus        33 ~~g~~t~vgi~~~~~vv~a~~~~~~~-~l-~~~~~~~ki~~i-~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~g  109 (291)
                      .+| +|+|||+++||||||+|+|.+. .+ +.+++.+||++| ++|++|++||+.+|++.++++++.+....-      |
T Consensus         3 ~~G-tTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~------g   75 (180)
T 2z3b_A            3 FHA-TTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN------G   75 (180)
T ss_dssp             BCC-CCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT------T
T ss_pred             CCC-eEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc------C
Confidence            466 5999999999999999999887 57 788889999999 999999999999999999999985432211      1


Q ss_pred             chhh--HHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEe---ecccccHHHHHHHHH
Q psy8777         110 RLYQ--VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM---TGMQADSRYQVQRAR  184 (291)
Q Consensus       110 rl~q--ve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~---sG~~~D~~~~~~~~~  184 (291)
                      .+.+  .+.+......     .+.|+....++.+|            +|+||.+||+|.+.-   ...+.++.+......
T Consensus        76 ~~~~~~~~l~~~~~~~-----~~~rp~~~~~lvad------------~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~  138 (180)
T 2z3b_A           76 NLKRAAVELAKEWRSD-----KVLRKLEAMLIVMN------------QDTLLLVSGTGEVIEPDDGILAIGSGGNYALAA  138 (180)
T ss_dssp             CHHHHHHHHHHHHHHC-----TTGGGCCCCEEEEC------------SSCEEEECTTCCEECCSSSEEEESTTHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhh-----hCcCcceEEEEEEc------------CCeEEEECCCCcEEEeCCCEEEECCCHHHHHHH
Confidence            1110  1111111111     12234444444432            589999999998542   333445666656555


Q ss_pred             HHHHHhHhhhCCCCCHHHHHH-HHHHH
Q psy8777         185 YEAASFKYKHGYSMPIDQLCN-RIADI  210 (291)
Q Consensus       185 ~e~~~~~~~~~~~~s~~~l~~-~l~~~  210 (291)
                      ++......  +.+|+.+++++ .|...
T Consensus       139 le~~~~~~--~~~mt~eel~~~al~~a  163 (180)
T 2z3b_A          139 GRALKKHA--GESMSASEIARAALETA  163 (180)
T ss_dssp             HHHHHHHH--GGGCCHHHHHHHHHHHH
T ss_pred             HHHhhhcc--CCCCCHHHHHHHHHHHH
Confidence            55433211  01689999765 44333

>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine residue, hydrolase; 2.10A {Thermotoga maritima} SCOP: d.153.1.4

Probab=99.63  E-value=3.4e-16  Score=127.96  Aligned_cols=148  Identities=15%  Similarity=0.111  Sum_probs=97.7

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEee-cCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhh-
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSL-TPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQ-  113 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i-~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~q-  113 (291)
                      +|+|||+++||||||+|+|.+. .++.+++.+|||+| ++|++|++||+.+|+|.++++++.+...+-      .++.+ 
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~------~~~~~~   74 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWG------GNLTKA   74 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTT------TCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhc------ccHHHH
Confidence            5899999999999999999886 57777888999999 999999999999999999999985432211      11110 


Q ss_pred             -HHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEe-e--cccccHHHHHHHHHHHHHH
Q psy8777         114 -VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM-T--GMQADSRYQVQRARYEAAS  189 (291)
Q Consensus       114 -ve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~-s--G~~~D~~~~~~~~~~e~~~  189 (291)
                       .+.+.....+..     .++....++.+|            +|+||.+||.|.+.- .  ..+.++++...+..++...
T Consensus        75 ~~~l~~~~~~~~~-----~~~~~~~~lv~D------------~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~  137 (171)
T 1m4y_A           75 AVELAKDWRTDRV-----LRRLEALLLVAD------------KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALL  137 (171)
T ss_dssp             HHHHHHHHHHCTT-----GGGCCCEEEEEC------------SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-----CCceEEEEEEEc------------CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhc
Confidence             011111111111     123444444432            689999999997642 2  3445566666666665533


Q ss_pred             hHhhhCCCCCHHHHHH-HHHHHH
Q psy8777         190 FKYKHGYSMPIDQLCN-RIADIS  211 (291)
Q Consensus       190 ~~~~~~~~~s~~~l~~-~l~~~~  211 (291)
                      ..    .+|+.++++. .+....
T Consensus       138 ~~----~~ms~~~l~~~al~~a~  156 (171)
T 1m4y_A          138 RN----TDLSAREIVEKAMTIAG  156 (171)
T ss_dssp             HH----CCCCHHHHHHHHHHHHH
T ss_pred             cc----CCCCHHHHHHHHHHHHH
Confidence            21    3788877765 554444

>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=99.12  E-value=8.9e-11  Score=102.04  Aligned_cols=90  Identities=6%  Similarity=-0.003  Sum_probs=54.7

Q ss_pred             EecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCC-CCCHHHHHHHHH
Q psy8777         131 VKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGY-SMPIDQLCNRIA  208 (291)
Q Consensus       131 i~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~-~~s~~~l~~~l~  208 (291)
                      .+|....+|.+.       +++..+|+||.+||+|.+. ....+.+..+...+..++.     .+.. +|+.+++++.+.
T Consensus       127 ~rP~~v~~lvaG-------~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~-----~~~~~~ms~eeA~~la~  194 (261)
T 1iru_C          127 KRPFGVSLLYIG-------WDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQ-----DYKEGEMTLKSALALAI  194 (261)
T ss_dssp             CCCCCEEEEEEE-------EETTTEEEEEEEETTTEEEECSEEEESTTTTHHHHHHHH-----HCCTTCCCHHHHHHHHH
T ss_pred             cCcceEEEEEEE-------EeCCCCcEEEEECCCceEEeeeeEEeCcccHHHHHHHHH-----hhccCCCCHHHHHHHHH
Confidence            467777777665       5545689999999999863 1122223444444444443     3455 899999999766


Q ss_pred             HHHHHhhhcCcceeeeeeeeEEEE
Q psy8777         209 DISQVYTQNAEMRPLGCSMILISY  232 (291)
Q Consensus       209 ~~~~~~~~~~~~~p~~~~~li~G~  232 (291)
                      ..+.....+....+..+++.++..
T Consensus       195 ~al~~~~~~d~~sg~~i~v~vi~~  218 (261)
T 1iru_C          195 KVLNKTMDVSKLSAEKVEIATLTR  218 (261)
T ss_dssp             HHHHHSSSCTTCCSTTCEEEEEEC
T ss_pred             HHHHHHHhccCCCCCcEEEEEEEc
Confidence            666544343333445566666543

>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=99.06  E-value=2.3e-10  Score=99.46  Aligned_cols=91  Identities=10%  Similarity=0.144  Sum_probs=54.9

Q ss_pred             EecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHH
Q psy8777         131 VKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIAD  209 (291)
Q Consensus       131 i~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~  209 (291)
                      .++....+|.+.       +++ ++|+||.+||.|.+. ....+.+..+...+..++.....+   .+|+.+++++.+.+
T Consensus       125 ~RP~~v~~lvaG-------~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~---~~ms~eea~~la~~  193 (263)
T 1iru_F          125 RRPYGVGLLIAG-------YDD-MGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEF---MECNLNELVKHGLR  193 (263)
T ss_dssp             CCCCCEEEEEEE-------EET-TEEEEEEECSSSCEEEESEEEESTTHHHHHHHHHHHHHHH---TTCCHHHHHHHHHH
T ss_pred             cccceEEEEEEE-------EcC-CCCEEEEECCCCCEEEeeEEEcCcccHHHHHHHHHHhccc---CCCCHHHHHHHHHH
Confidence            356766666654       443 689999999999753 223333455555555555432221   27999999997666


Q ss_pred             HHHHhhhcC-cceeeeeeeeEEEE
Q psy8777         210 ISQVYTQNA-EMRPLGCSMILISY  232 (291)
Q Consensus       210 ~~~~~~~~~-~~~p~~~~~li~G~  232 (291)
                      .+.....+. ...+..+++.++..
T Consensus       194 al~~~~~rd~~~sg~~iev~vi~~  217 (263)
T 1iru_F          194 ALRETLPAEQDLTTKNVSIGIVGK  217 (263)
T ss_dssp             HHHTTSCTTCCCCTTTEEEEEEET
T ss_pred             HHHHHHhccccCCCCcEEEEEEEC
Confidence            664443333 13455667766643

---

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	291
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	4e-69
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-38
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	5e-65
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-32
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	2e-63
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-31
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	7e-62
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-28
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-60
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-28
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	5e-58
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	6e-26
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-57
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	8e-28
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	3e-57
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-29
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	7e-57
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	3e-29
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-56
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	5e-28
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	7e-56
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	3e-27
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	2e-54
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	1e-26
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	4e-54
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	6e-29
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	9e-54
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-27
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	7e-53
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	5e-29
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	3e-50
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	6e-28
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-31
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	7e-11
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-26
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	1e-07
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-25
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	3e-07
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-22
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-04
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	1e-21
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	3e-06
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	7e-21
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	4e-07
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	9e-21
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	4e-04
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-20
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	3e-05
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-20
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	8e-05
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	3e-20
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	8e-06
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	3e-20
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	8e-07
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	6e-20
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	6e-05
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	9e-19
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-05
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	9e-19
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	6e-06
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-18
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	0.002
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-18
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	6e-06
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	4e-17
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-06
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	1e-15
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-04

>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 =  212 bits (541), Expect = 4e-69
 Identities = 141/196 (71%), Positives = 167/196 (85%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+D  TV
Sbjct: 6   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 65

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           T+L+ +T  +GCVMTGM ADSR QVQRARYEAA++KYK+GY +P+D LC RIADISQVYT
Sbjct: 66  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 125

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           QNAEMRPLGC MILI  DE +GP +YK DPAGYYC FKA + GVK TE+ S+LEKK KKK
Sbjct: 126 QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKK 185

Query: 276 TNYTGDETIQLAISCL 291
            ++T ++T++ AI+CL
Sbjct: 186 FDWTFEQTVETAITCL 201

>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 =  133 bits (336), Expect = 2e-38
 Identities = 74/94 (78%), Positives = 83/94 (88%)

Query: 2  SRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLV 61
          SRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGG+TSVAV+G D AV+ T+KKVPD L+
Sbjct: 1  SRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLL 60

Query: 62 DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          D  TVT+L+ +T  +GCVMTGM ADSR QVQRAR
Sbjct: 61 DSSTVTHLFKITENIGCVMTGMTADSRSQVQRAR 94

>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 =  202 bits (514), Expect = 5e-65
 Identities = 103/201 (51%), Positives = 137/201 (68%), Gaps = 5/201 (2%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
           AG+DRHITIFSPEGRLYQVEYAFKA NQ  + S+AV+G D  VV ++KKVPD L+DP TV
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           + ++ ++ T+G V+ G   D+R    RA+ EAA F+YK+GY MP D L  R+A++SQ+YT
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
           Q A MRPLG  +  +S DE  GP IYKTDPAGYY  +KA + G K  E  + LE  FKK 
Sbjct: 121 QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKS 180

Query: 276 -----TNYTGDETIQLAISCL 291
                   + ++ ++ AI+ +
Sbjct: 181 KIDHINEESWEKVVEFAITHM 201

>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 =  118 bits (296), Expect = 1e-32
 Identities = 52/90 (57%), Positives = 68/90 (75%)

Query: 7  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 66
          AG+DRHITIFSPEGRLYQVEYAFKA NQ  + S+AV+G D  VV ++KKVPD L+DP TV
Sbjct: 1  AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 67 TNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
          + ++ ++ T+G V+ G   D+R    RA+A
Sbjct: 61 SYIFCISRTIGMVVNGPIPDARNAALRAKA 90

>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 =  197 bits (503), Expect = 2e-63
 Identities = 61/196 (31%), Positives = 102/196 (52%), Gaps = 3/196 (1%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
            G+D   + FSP+GR++QVEYA KA+     T++ ++  D  V   EK V   L +  + 
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGSN 63

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             L+++   VG  + G+ AD+R     AR EA++F+   GY++P+  L +R+A     YT
Sbjct: 64  KRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYT 123

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK 275
             + +RP GCS +L SY  N+G  +Y  DP+G    +   ++G     A + +EK   K 
Sbjct: 124 LYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMK- 182

Query: 276 TNYTGDETIQLAISCL 291
              T  + ++     +
Sbjct: 183 -EMTCRDIVKEVAKII 197

>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 =  115 bits (290), Expect = 1e-31
 Identities = 30/95 (31%), Positives = 48/95 (50%), Gaps = 1/95 (1%)

Query: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 66
            G+D   + FSP+GR++QVEYA KA+     T++ ++  D  V   EK V   L +  + 
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGSN 63

Query: 67  TNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRH 101
             L+++   VG  + G+ AD+R     AR      
Sbjct: 64  KRLFNVDRHVGMAVAGLLADARSLADIAREEASNF 98

>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 =  194 bits (493), Expect = 7e-62
 Identities = 71/194 (36%), Positives = 110/194 (56%), Gaps = 1/194 (0%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+  EKK    L D +TV  
Sbjct: 2   YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRK 60

Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           + +L   V     G+ AD+R  + RAR E  S +      + ++ +   IA + Q YTQ+
Sbjct: 61  ICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS 120

Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
              RP G S +++ +D +  P +Y+TDP+G Y ++KA ++G        +LEK +  +  
Sbjct: 121 NGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAI 180

Query: 278 YTGDETIQLAISCL 291
            T D TI+L I  L
Sbjct: 181 ETDDLTIKLVIKAL 194

>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 =  107 bits (269), Expect = 1e-28
 Identities = 38/88 (43%), Positives = 54/88 (61%), Gaps = 1/88 (1%)

Query: 9  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 68
          +DR IT+FSP+G L+QVEYA +A+ +G  T+V V+G D  V+  EKK    L D +TV  
Sbjct: 2  YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRK 60

Query: 69 LYSLTPTVGCVMTGMQADSRYQVQRARA 96
          + +L   V     G+ AD+R  + RAR 
Sbjct: 61 ICALDDNVCMAFAGLTADARIVINRARV 88

>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 =  190 bits (484), Expect = 1e-60
 Identities = 64/197 (32%), Positives = 97/197 (49%), Gaps = 3/197 (1%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
            G+D   ++FSP+GR +QVEYA KA+  G  TS+ +K  D  V A EK +   L+ P+  
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKN 60

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
             +  +   +GCV +G+  D R+ V R R EAASFK  +   +PI    +R+    Q +T
Sbjct: 61  VKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT 120

Query: 216 QNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK- 274
               +RP G S I    D   G  +Y  +P+G Y  +K  + G     A + LEK     
Sbjct: 121 LYNSVRPFGVSTIFGGVD-KNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 179

Query: 275 KTNYTGDETIQLAISCL 291
               +  E ++ A   +
Sbjct: 180 PEGLSAREAVKQAAKII 196

>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 =  107 bits (269), Expect = 1e-28
 Identities = 34/90 (37%), Positives = 51/90 (56%), Gaps = 1/90 (1%)

Query: 7  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 66
           G+D   ++FSP+GR +QVEYA KA+  G  TS+ +K  D  V A EK +   L+ P+  
Sbjct: 2  TGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKN 60

Query: 67 TNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
            +  +   +GCV +G+  D R+ V R R 
Sbjct: 61 VKIQVVDRHIGCVYSGLIPDGRHLVNRGRE 90

>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 =  184 bits (467), Expect = 5e-58
 Identities = 52/194 (26%), Positives = 99/194 (51%), Gaps = 4/194 (2%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +D  +T++SP+GR++Q+EYA +A+ QG   +V +K    AV+   K+    L        
Sbjct: 3   YDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSELAA--HQKK 59

Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           +  +   +G  + G+ AD+R      R E    ++     +P+ +L + I   +Q+ TQ 
Sbjct: 60  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQR 119

Query: 218 AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTN 277
              RP G  +++  YD+  GP I++T P+  Y   +A+S+G ++  A +YLE+   +   
Sbjct: 120 YGRRPYGVGLLIAGYDDM-GPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFME 178

Query: 278 YTGDETIQLAISCL 291
              +E ++  +  L
Sbjct: 179 CNLNELVKHGLRAL 192

>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 =  100 bits (250), Expect = 6e-26
 Identities = 25/88 (28%), Positives = 45/88 (51%), Gaps = 3/88 (3%)

Query: 9  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 68
          +D  +T++SP+GR++Q+EYA +A+ QG   +V +K    AV+   K+    L        
Sbjct: 3  YDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSELAA--HQKK 59

Query: 69 LYSLTPTVGCVMTGMQADSRYQVQRARA 96
          +  +   +G  + G+ AD+R      R 
Sbjct: 60 ILHVDNHIGISIAGLTADARLLCNFMRQ 87

>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 =  183 bits (465), Expect = 1e-57
 Identities = 63/198 (31%), Positives = 113/198 (57%), Gaps = 4/198 (2%)

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTV 155
           G+DR ++IFSP+G ++QVEYA +A+ +G   +V VKG +  V+  E++    L D   T 
Sbjct: 1   GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITP 59

Query: 156 TNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYT 215
           + +  +   V    +G+ ADSR  +++AR EA S +      + ++ L   +A + Q YT
Sbjct: 60  SKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT 119

Query: 216 QNAEMRPLGCSMILISYD-ENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK- 273
           Q+  +RP G S ++  +D  ++ P +Y+T+P+G Y S+ A ++G  +     +LEK +  
Sbjct: 120 QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDR 179

Query: 274 KKTNYTGDETIQLAISCL 291
           K+   T +E ++L +  L
Sbjct: 180 KEPPATVEECVKLTVRSL 197

>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 =  105 bits (263), Expect = 8e-28
 Identities = 32/90 (35%), Positives = 54/90 (60%), Gaps = 2/90 (2%)

Query: 8  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTV 66
          G+DR ++IFSP+G ++QVEYA +A+ +G   +V VKG +  V+  E++    L D   T 
Sbjct: 1  GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITP 59

Query: 67 TNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
          + +  +   V    +G+ ADSR  +++AR 
Sbjct: 60 SKVSKIDSHVVLSFSGLNADSRILIEKARV 89

>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 =  182 bits (463), Expect = 3e-57
 Identities = 65/197 (32%), Positives = 104/197 (52%), Gaps = 3/197 (1%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             +D   TIFSPEGRLYQVEYA +AI   G T + +   D  ++A E++    L+D    
Sbjct: 2   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFF 60

Query: 156 TN-LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           +  +Y L   + C + G+ +D+       R  A  +  ++   +P +QL   + DI Q Y
Sbjct: 61  SEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAY 120

Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ    RP G S++ I +D++ G  +Y++DP+G Y  +KA  +G  +  A S L++ +K+
Sbjct: 121 TQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE 180

Query: 275 KTNYTGDETIQLAISCL 291
               T    + LAI  L
Sbjct: 181 G-EMTLKSALALAIKVL 196

>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 =  110 bits (275), Expect = 2e-29
 Identities = 37/120 (30%), Positives = 57/120 (47%), Gaps = 2/120 (1%)

Query: 6   SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 65
           S  +D   TIFSPEGRLYQVEYA +AI   G T + +   D  ++A E++    L+D   
Sbjct: 1   SRRYDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVF 59

Query: 66  VTN-LYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQG 124
            +  +Y L   + C + G+ +D+       R    R++  +       Q+  A   I Q 
Sbjct: 60  FSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQA 119

>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 =  180 bits (459), Expect = 7e-57
 Identities = 53/199 (26%), Positives = 109/199 (54%), Gaps = 9/199 (4%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +DR +  FSPEGRL+QVEY  +AI  G  T++ ++  +   +A EK++   L++P ++  
Sbjct: 1   YDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSSIEK 59

Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN 217
           +  +   +GC M+G+ AD++  + +AR E  +  + +  +M ++ +   +++++  + + 
Sbjct: 60  IVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEE 119

Query: 218 -----AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKF 272
                A  RP G +++    DE  GP ++  DP+G +    A ++G  +  A S L++ +
Sbjct: 120 DADPGAMSRPFGVALLFGGVDEK-GPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELY 178

Query: 273 KKKTNYTGDETIQLAISCL 291
            K  + T  E I+ ++  L
Sbjct: 179 HK--SMTLKEAIKSSLIIL 195

>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 =  108 bits (272), Expect = 3e-29
 Identities = 37/145 (25%), Positives = 71/145 (48%), Gaps = 8/145 (5%)

Query: 9   FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 68
           +DR +  FSPEGRL+QVEY  +AI  G  T++ ++  +   +A EK++   L++P ++  
Sbjct: 1   YDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSSIEK 59

Query: 69  LYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPEGRLYQVEYAFKAI 121
           +  +   +GC M+G+ AD++  + +AR         ++  +T+ S    +  +   F   
Sbjct: 60  IVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEE 119

Query: 122 NQGGVTSVAVKGVDTAVVATEKKVP 146
           +          GV       ++K P
Sbjct: 120 DADPGAMSRPFGVALLFGGVDEKGP 144

>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 =  180 bits (457), Expect = 2e-56
 Identities = 67/195 (34%), Positives = 110/195 (56%), Gaps = 4/195 (2%)

Query: 98  FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 157
           +   +T FSP G+L Q++YA  A+ QG  TS+ +K  +  V+ATEKK    L   +T++ 
Sbjct: 5   YSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSETLSK 63

Query: 158 LYSLTPTVGCVMTGMQADSRYQVQRARYEAA-SFKYKHGYSMPIDQLCNRIADISQVYTQ 216
           +  LTP +G V +GM  D R  V ++R  A  S+K  +G   P   L + +A I Q  TQ
Sbjct: 64  VSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQ 123

Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
           +  +RP G S+++  +DE  G  +Y+ DP+G Y  +KA ++G  +  A ++LEK++    
Sbjct: 124 SGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWND-- 181

Query: 277 NYTGDETIQLAISCL 291
               ++ I +A+  L
Sbjct: 182 ELELEDAIHIALLTL 196

>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 =  106 bits (265), Expect = 5e-28
 Identities = 34/91 (37%), Positives = 53/91 (58%), Gaps = 1/91 (1%)

Query: 6  SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 65
          +  +   +T FSP G+L Q++YA  A+ QG  TS+ +K  +  V+ATEKK    L   +T
Sbjct: 2  TDRYSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSET 60

Query: 66 VTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
          ++ +  LTP +G V +GM  D R  V ++R 
Sbjct: 61 LSKVSLLTPDIGAVYSGMGPDYRVLVDKSRK 91

>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 =  178 bits (452), Expect = 7e-56
 Identities = 49/199 (24%), Positives = 86/199 (43%), Gaps = 6/199 (3%)

Query: 95  RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 154
           R  +D     FSP GRL+QVEYA +AI QG   +V ++    AV+   K+  D L     
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELSS--Y 58

Query: 155 VTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
              +      +G  + G+  D+R      R +           + +++  + + D +Q  
Sbjct: 59  QKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKN 118

Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ+   RP G  +++I YD   G  + +  P+G        ++G ++  A +YLE+    
Sbjct: 119 TQSYGGRPYGVGLLIIGYD-KSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDT 177

Query: 275 KTNY--TGDETIQLAISCL 291
                   DE I+  +  +
Sbjct: 178 FIKIDGNPDELIKAGVEAI 196

>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 =  103 bits (259), Expect = 3e-27
 Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 3/93 (3%)

Query: 9   FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTN 68
           +D     FSP GRL+QVEYA +AI QG   +V ++    AV+   K+  D L        
Sbjct: 5   YDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELSS--YQKK 61

Query: 69  LYSLTPTVGCVMTGMQADSRYQVQRARAGFDRH 101
           +      +G  + G+  D+R      R   +  
Sbjct: 62  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYS 94

>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 =  174 bits (441), Expect = 2e-54
 Identities = 65/189 (34%), Positives = 106/189 (56%), Gaps = 4/189 (2%)

Query: 103 TIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLT 162
           T+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L++  ++  +  + 
Sbjct: 1   TVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLID 59

Query: 163 PTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRP 222
             V  V +G+ AD+R  V  AR  A   K  +G  + I+ L  R+AD  Q YTQ   +RP
Sbjct: 60  DYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRP 119

Query: 223 LGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDE 282
            G S+I    D+  GP ++  DPAG    +KA ++G       S+LE+++K+  N    E
Sbjct: 120 YGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKE--NLPEKE 176

Query: 283 TIQLAISCL 291
            + L I  L
Sbjct: 177 AVTLGIKAL 185

>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 =  101 bits (253), Expect = 1e-26
 Identities = 29/83 (34%), Positives = 52/83 (62%), Gaps = 1/83 (1%)

Query: 14 TIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLT 73
          T+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++ ++KKV   L++  ++  +  + 
Sbjct: 1  TVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLID 59

Query: 74 PTVGCVMTGMQADSRYQVQRARA 96
            V  V +G+ AD+R  V  AR 
Sbjct: 60 DYVAAVTSGLVADARVLVDFARI 82

>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 =  174 bits (441), Expect = 4e-54
 Identities = 48/199 (24%), Positives = 102/199 (51%), Gaps = 9/199 (4%)

Query: 99  DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNL 158
           DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  ++  +
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKI 59

Query: 159 YSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQN- 217
             +   +GC M+G+ AD+R  ++ AR  A +    +   + ++ L   + D++  + +  
Sbjct: 60  VEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGA 119

Query: 218 -----AEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKF 272
                   RP G ++++  +D ++G  ++  +P+G +  + A ++G  +  A + L  ++
Sbjct: 120 SGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEW 179

Query: 273 KKKTNYTGDETIQLAISCL 291
               + T  E   L +  L
Sbjct: 180 HS--SLTLKEAELLVLKIL 196

>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 =  108 bits (271), Expect = 6e-29
 Identities = 30/87 (34%), Positives = 53/87 (60%), Gaps = 1/87 (1%)

Query: 10 DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNL 69
          DR ++ FSPEGRL+QVEY+ +AI  G  T++ +   +  V+  EK+    L++  ++  +
Sbjct: 1  DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKI 59

Query: 70 YSLTPTVGCVMTGMQADSRYQVQRARA 96
            +   +GC M+G+ AD+R  ++ AR 
Sbjct: 60 VEIDRHIGCAMSGLTADARSMIEHART 86

>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 =  173 bits (439), Expect = 9e-54
 Identities = 72/197 (36%), Positives = 114/197 (57%), Gaps = 4/197 (2%)

Query: 96  AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTV 155
             +D   TIFSPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  T 
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTS 61

Query: 156 TN-LYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVY 214
           T  LY L   +   + G+ AD+   +  AR  A ++   +   +P++ L  R++DI Q Y
Sbjct: 62  TEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY 121

Query: 215 TQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK 274
           TQ+  +RP G S I   YD+  G  +Y ++P+G Y  +KA+SVG  T+ A + L+  +K 
Sbjct: 122 TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKD 181

Query: 275 KTNYTGDETIQLAISCL 291
             +   D+ I+LA+  L
Sbjct: 182 --DMKVDDAIELALKTL 196

>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 =  105 bits (262), Expect = 1e-27
 Identities = 55/242 (22%), Positives = 92/242 (38%), Gaps = 19/242 (7%)

Query: 6   SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT 65
           S  +D   TIFSPEGRLYQVEYA ++I+  G T++ +   D  V+A E+KV  +L++  T
Sbjct: 2   SRRYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDT 60

Query: 66  VTN-LYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQG 124
            T  LY L   +   + G+ AD+   +  AR     ++  ++ +  +  +      I QG
Sbjct: 61  STEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQG 120

Query: 125 --GVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQR 182
                 +   GV                D +    LY+  P+               V  
Sbjct: 121 YTQHGGLRPFGVSFIYAG---------YDDRYGYQLYTSNPSGNYT-----GWKAISVGA 166

Query: 183 ARYEAASF-KYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIY 241
               A +  +  +   M +D             T ++ +         I    N+G +  
Sbjct: 167 NTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQ 226

Query: 242 KT 243
           K 
Sbjct: 227 KI 228

>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 =  170 bits (433), Expect = 7e-53
 Identities = 59/195 (30%), Positives = 112/195 (57%), Gaps = 5/195 (2%)

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 156
           G+DR IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++  +K+V   L++  T+ 
Sbjct: 4   GYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEKDTIE 62

Query: 157 NLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQ 216
            +Y +   +    +G+ AD+R  + RAR EA   +  +   + + +L  +I D  Q YTQ
Sbjct: 63  KIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQ 122

Query: 217 NAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT 276
              +RP G S+++   +E   P +Y+TDP+G    +KA ++G+       + EK+++   
Sbjct: 123 YGGVRPFGVSLLIAGVNEV--PKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRD-- 178

Query: 277 NYTGDETIQLAISCL 291
           + + D+ + L +  +
Sbjct: 179 DLSFDDAMVLGLVAM 193

>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 =  108 bits (271), Expect = 5e-29
 Identities = 32/89 (35%), Positives = 57/89 (64%), Gaps = 1/89 (1%)

Query: 8  GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVT 67
          G+DR IT+FSP+GRL+QVEYA +A+ +G  T++ +K  +  ++  +K+V   L++  T+ 
Sbjct: 4  GYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEKDTIE 62

Query: 68 NLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           +Y +   +    +G+ AD+R  + RAR 
Sbjct: 63 KIYKIDEHICAATSGLVADARVLIDRARI 91

>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 =  163 bits (414), Expect = 3e-50
 Identities = 67/198 (33%), Positives = 105/198 (53%), Gaps = 4/198 (2%)

Query: 94  ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 153
           A  G+   +T FSP G+L Q+EYA  A+  G   SV +K  +  V+ATEKK    L D +
Sbjct: 1   AERGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDER 59

Query: 154 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQV 213
           +V  +  +T  +G V +GM  D R  V RAR  A  +   +   +P  QL  R+A + Q 
Sbjct: 60  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 119

Query: 214 YTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK 273
           YTQ+  +RP G   +LI       P ++++DP+G Y ++KA ++G       ++LEK++ 
Sbjct: 120 YTQSGGVRPFGV-SLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYN 178

Query: 274 KKTNYTGDETIQLAISCL 291
           +      ++ I  AI  L
Sbjct: 179 EDLEL--EDAIHTAILTL 194

>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 =  105 bits (263), Expect = 6e-28
 Identities = 36/92 (39%), Positives = 51/92 (55%), Gaps = 1/92 (1%)

Query: 5  SSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK 64
          +  G+   +T FSP G+L Q+EYA  A+  G   SV +K  +  V+ATEKK    L D +
Sbjct: 1  AERGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDER 59

Query: 65 TVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
          +V  +  +T  +G V +GM  D R  V RAR 
Sbjct: 60 SVHKVEPITKHIGLVYSGMGPDYRVLVHRARK 91

>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 =  115 bits (289), Expect = 1e-31
 Identities = 26/184 (14%), Positives = 57/184 (30%), Gaps = 16/184 (8%)

Query: 113 QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGM 172
           + E A K I +G  + V +   D  +   E            +  +  L   +G    G 
Sbjct: 8   RSELARKGIARGR-SVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGK 59

Query: 173 QADSRYQVQRARYEAASFKYKHGYS-MPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS 231
             +     +     A    Y +    +    L N  A          + +P    + +  
Sbjct: 60  YNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQT-LGTIFTEQPKPYEVEICVAE 118

Query: 232 YDE---NEGPLIYKTDPAGYYCSFKAVSVGVKTTEA-NSYLEKKFKKKTNYTGDETIQLA 287
                  + P +Y+    G     +   V   TTE   + + + ++   +   +  + +A
Sbjct: 119 VGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRA--DLDLEAAVGIA 176

Query: 288 ISCL 291
           ++ L
Sbjct: 177 VNAL 180

>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 = 58.9 bits (142), Expect = 7e-11
 Identities = 12/78 (15%), Positives = 22/78 (28%), Gaps = 8/78 (10%)

Query: 24  QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGM 83
           + E A K I +G  + V +   D  +   E            +  +  L   +G    G 
Sbjct: 8   RSELARKGIARGR-SVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGK 59

Query: 84  QADSRYQVQRARAGFDRH 101
             +     +      D  
Sbjct: 60  YNEFENLRRAGIVHADMR 77

>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 =  101 bits (251), Expect = 3e-26
 Identities = 33/183 (18%), Positives = 59/183 (32%), Gaps = 19/183 (10%)

Query: 125 GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G T + + G D AV+A + +   D  ++ +    ++     +     G  AD    V+R 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT 243
           +     + + H          N  A   Q         P     I+   DE+    +Y  
Sbjct: 69  KNSVKWYHFDHNDKKL---SINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSF 125

Query: 244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTG---------------DETIQLAI 288
           DP G Y   +  + G   +    +L+ +   K  Y                 +E I+L  
Sbjct: 126 DPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVR 185

Query: 289 SCL 291
              
Sbjct: 186 DSF 188

>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 = 49.0 bits (116), Expect = 1e-07
 Identities = 13/67 (19%), Positives = 27/67 (40%), Gaps = 1/67 (1%)

Query: 36  GVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 94
           G T + + G D AV+A + +   D  ++ +    ++     +     G  AD    V+R 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 95  RAGFDRH 101
           +     +
Sbjct: 69  KNSVKWY 75

>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 = 97.9 bits (243), Expect = 5e-25
 Identities = 25/176 (14%), Positives = 67/176 (38%), Gaps = 11/176 (6%)

Query: 125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G + +++K  +  ++A +      SL+    V  L  +       ++G  +D ++  +  
Sbjct: 8   GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67

Query: 184 RYEAASFKYKH-----GYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGP 238
           +       Y +       ++    +   +A +  +Y + ++M PL  ++I+     N   
Sbjct: 68  KDLVTENAYDNPLADAEEALEPSYIFEYLATV--MYQRRSKMNPLWNAIIVAGVQSNGDQ 125

Query: 239 LIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNY---TGDETIQLAISCL 291
            +   +  G   S   ++ G     AN  L K   ++++    T     +  ++ +
Sbjct: 126 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAM 181

>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 = 47.8 bits (113), Expect = 3e-07
 Identities = 9/62 (14%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 36 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 94
          G + +++K  +  ++A +      SL+    V  L  +       ++G  +D ++  +  
Sbjct: 8  GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67

Query: 95 RA 96
          + 
Sbjct: 68 KD 69

>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 = 90.9 bits (225), Expect = 1e-22
 Identities = 25/166 (15%), Positives = 57/166 (34%), Gaps = 8/166 (4%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T +AV+     V+  + +    S +  +    L  +   + C  +G  AD++       Y
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           +      +      +    +   ++   Y        L   +I+  +D  EG  +Y    
Sbjct: 62  QLGFHSIELNEPPLVHTAASLFKEMCYRY-----REDLMAGIIIAGWDPQEGGQVYSVPM 116

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G          G  ++    Y++  +++    T +E +Q   + L
Sbjct: 117 GGMMVRQSFAIGGSGSSYIYGYVDATYRE--GMTKEECLQFTANAL 160

>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 = 40.1 bits (93), Expect = 1e-04
 Identities = 11/65 (16%), Positives = 23/65 (35%), Gaps = 1/65 (1%)

Query: 38  TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           T +AV+     V+  + +    S +  +    L  +   + C  +G  AD++        
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 97  GFDRH 101
               H
Sbjct: 62  QLGFH 66

>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 = 88.7 bits (219), Expect = 1e-21
 Identities = 30/169 (17%), Positives = 65/169 (38%), Gaps = 5/169 (2%)

Query: 125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G + + VK     V+A +      SL   + ++ +  +  +     +G  AD +Y  Q  
Sbjct: 8   GTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL 67

Query: 184 RYEAASFKYK-HGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYK 242
                  +    G+S     + + +     +Y++ ++M PL  +M++  Y + E   +  
Sbjct: 68  GQMVIDEELLGDGHSYSPRAIHSWLTR--AMYSRRSKMNPLWNTMVIGGYADGE-SFLGY 124

Query: 243 TDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            D  G      +++ G     A   L +  +K+   +  E   L   C+
Sbjct: 125 VDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCM 173

>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 = 44.7 bits (105), Expect = 3e-06
 Identities = 12/71 (16%), Positives = 25/71 (35%), Gaps = 1/71 (1%)

Query: 36  GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 94
           G + + VK     V+A +      SL   + ++ +  +  +     +G  AD +Y  Q  
Sbjct: 8   GTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL 67

Query: 95  RAGFDRHITIF 105
                    + 
Sbjct: 68  GQMVIDEELLG 78

>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 = 86.0 bits (212), Expect = 7e-21
 Identities = 22/169 (13%), Positives = 53/169 (31%), Gaps = 7/169 (4%)

Query: 125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 183
           G   +A+KG +   +A +++    + +       ++ +   +   + G+  D +   QR 
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 184 RYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGP-LIYK 242
           ++    ++ K G  +    L + +A+            P     ++   D       I  
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVAN----LLYEKRFGPYYTEPVIAGLDPKTFKPFICS 122

Query: 243 TDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            D  G         V     E    + +   +  N   D   +     +
Sbjct: 123 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEP-NMDPDHLFETISQAM 170

>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 = 47.1 bits (111), Expect = 4e-07
 Identities = 9/67 (13%), Positives = 28/67 (41%), Gaps = 1/67 (1%)

Query: 36  GVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRA 94
           G   +A+KG +   +A +++    + +       ++ +   +   + G+  D +   QR 
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 95  RAGFDRH 101
           +   + +
Sbjct: 67  KFRLNLY 73

>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 = 86.0 bits (212), Expect = 9e-21
 Identities = 29/166 (17%), Positives = 61/166 (36%), Gaps = 7/166 (4%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T++A +     +VA + +    + V  +TV  +  + P +   M G  AD ++       
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           +    + +    + +      ++++   Y        L    ++  Y   EGP IY  D 
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQYK----GAGLSMGTMICGYTRKEGPTIYYVDS 117

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G         VG   T A   L+  +K   + + ++ + L    +
Sbjct: 118 DGTRLKGDIFCVGSGQTFAYGVLDSNYKW--DLSVEDALYLGKRSI 161

>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 = 38.6 bits (89), Expect = 4e-04
 Identities = 12/60 (20%), Positives = 26/60 (43%), Gaps = 1/60 (1%)

Query: 38 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
          T++A +     +VA + +    + V  +TV  +  + P +   M G  AD ++      +
Sbjct: 2  TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

>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 = 84.8 bits (209), Expect = 2e-20
 Identities = 27/166 (16%), Positives = 64/166 (38%), Gaps = 8/166 (4%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T++A K     +VA + +    + +  +TV  +  + P +   M G  AD  +  +    
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           +   ++ ++   + +      +A+         +   L    ++  +D+  GP +Y  D 
Sbjct: 62  QCRIYELRNKERISVAAASKLLAN----MVYQYKGMGLSMGTMICGWDK-RGPGLYYVDS 116

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G   S    SVG  +  A   +++ +    +   ++   LA   +
Sbjct: 117 EGNRISGATFSVGSGSVYAYGVMDRGYSY--DLEVEQAYDLARRAI 160

>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 = 41.7 bits (97), Expect = 3e-05
 Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 38  TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           T++A K     +VA + +    + +  +TV  +  + P +   M G  AD  +  +    
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 97  GFDRH 101
               +
Sbjct: 62  QCRIY 66

>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 = 84.9 bits (209), Expect = 3e-20
 Identities = 34/172 (19%), Positives = 65/172 (37%), Gaps = 9/172 (5%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T VA+      ++A +++    +L+  + V  +Y         + G    +   V+    
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNA----EMRPLGCSMILISYDENEGPLIY 241
           E   ++   G  +  D   NR+A + +     A     + PL     L + DE+    I 
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 242 KTDPAGYYCSFKA--VSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
             D  G     +A   +VG  +  A S L+K +    +   +  ++ AI  L
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSP--DSDEETALRAAIESL 171

>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 = 40.6 bits (94), Expect = 8e-05
 Identities = 10/87 (11%), Positives = 28/87 (32%), Gaps = 1/87 (1%)

Query: 38  TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           T VA+      ++A +++    +L+  + V  +Y         + G    +   V+    
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQ 123
             + +  I               ++ +
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVR 88

>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 = 84.1 bits (207), Expect = 3e-20
 Identities = 25/167 (14%), Positives = 60/167 (35%), Gaps = 6/167 (3%)

Query: 127 TSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
             + ++  D+ ++A+ K V     V   +      L+P       G   D+    +  + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYD-ENEGPLIYKTD 244
               +  +  Y +    + + +        ++   RP   ++++  YD +   P +Y+ D
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQID 120

Query: 245 PAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
             G        + G       S L+  ++   + T +E + L   C+
Sbjct: 121 YLGTKVELPYGAHGYSGFYTFSLLDHHYRP--DMTTEEGLDLLKLCV 165

>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 = 43.6 bits (102), Expect = 8e-06
 Identities = 10/65 (15%), Positives = 23/65 (35%), Gaps = 1/65 (1%)

Query: 38  TSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
             + ++  D+ ++A+ K V     V   +      L+P       G   D+    +  +A
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 97  GFDRH 101
               +
Sbjct: 63  NIQLY 67

>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 = 84.1 bits (207), Expect = 3e-20
 Identities = 32/166 (19%), Positives = 70/166 (42%), Gaps = 9/166 (5%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T+V +   D  ++ATE++V  ++ +  K    L+ +    G  + G+  D++  V+  + 
Sbjct: 2   TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           E   ++ +   +MPI+ +   ++++           P    +++   D    P ++  D 
Sbjct: 62  ELELYRLQRRVNMPIEAVATLLSNMLNQVK----YMPYMVQLLVGGID--TAPHVFSIDA 115

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
           AG        S G  +      LE ++ +    T DE + L I  +
Sbjct: 116 AGGSVEDIYASTGSGSPFVYGVLESQYSE--KMTVDEGVDLVIRAI 159

>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 = 46.3 bits (109), Expect = 8e-07
 Identities = 14/60 (23%), Positives = 31/60 (51%), Gaps = 1/60 (1%)

Query: 38 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
          T+V +   D  ++ATE++V  ++ +  K    L+ +    G  + G+  D++  V+  +A
Sbjct: 2  TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61

>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 = 84.1 bits (207), Expect = 6e-20
 Identities = 29/166 (17%), Positives = 60/166 (36%), Gaps = 9/166 (5%)

Query: 127 TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T V VK  +  V+A + +     +V  K    L+ ++P + C   G  AD+    Q    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
                         +      +      Y  +        + ++++  +  G  ++    
Sbjct: 62  NIELHSLYTSREPRVVSALQMLKQHLFKYQGH------IGAYLIVAGVDPTGSHLFSIHA 115

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G       +S+G  +  A + LE  +K+  + T +E I+LA   +
Sbjct: 116 HGSTDVGYYLSLGSGSLAAMAVLESHWKQ--DLTKEEAIKLASDAI 159

>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 = 40.9 bits (95), Expect = 6e-05
 Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 1/65 (1%)

Query: 38  TSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           T V VK  +  V+A + +     +V  K    L+ ++P + C   G  AD+    Q   +
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 97  GFDRH 101
             + H
Sbjct: 62  NIELH 66

>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 = 80.6 bits (198), Expect = 9e-19
 Identities = 26/174 (14%), Positives = 57/174 (32%), Gaps = 10/174 (5%)

Query: 119 KAINQGGVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR 177
             ++ G  + +AV   D  ++  + +    + +  +    L  +   + C  +G  AD++
Sbjct: 4   GEVSLGA-SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQ 62

Query: 178 YQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEG 237
                 +Y    +  ++G            A              L   +I+  YD+   
Sbjct: 63  AIADIVQYHLELYTSQYGTPS------TETAASVFKELCYENKDNLTAGIIVAGYDDKNK 116

Query: 238 PLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
             +Y     G          G  +T    Y +K F++  +   +ET+      L
Sbjct: 117 GEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSK--EETVDFIKHSL 168

>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 = 42.0 bits (98), Expect = 3e-05
 Identities = 9/73 (12%), Positives = 28/73 (38%), Gaps = 2/73 (2%)

Query: 30  KAINQGGVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR 88
             ++ G  + +AV   D  ++  + +    + +  +    L  +   + C  +G  AD++
Sbjct: 4   GEVSLGA-SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQ 62

Query: 89  YQVQRARAGFDRH 101
                 +   + +
Sbjct: 63  AIADIVQYHLELY 75

>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 = 80.2 bits (197), Expect = 9e-19
 Identities = 25/169 (14%), Positives = 51/169 (30%), Gaps = 8/169 (4%)

Query: 125 GVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 184
           G   VA+ G D   +A + ++    +              V   +TG+  D     +  R
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLGITGLATDVTTLNEMFR 67

Query: 185 YEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEG-PLIYKT 243
           Y+   +K K   ++  +     ++             P     ++   +   G P I   
Sbjct: 68  YKTNLYKLKEERAIEPETFTQLVSSSLYERR----FGPYFVGPVVAGINSKSGKPFIAGF 123

Query: 244 DPAGYYCSFKAVSVGVKTTE-ANSYLEKKFKKKTNYTGDETIQLAISCL 291
           D  G     K   V    ++      E  ++   N   ++  +     L
Sbjct: 124 DLIGCIDEAKDFIVSGTASDQLFGMCESLYEP--NLEPEDLFETISQAL 170

>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 = 44.0 bits (103), Expect = 6e-06
 Identities = 11/61 (18%), Positives = 20/61 (32%)

Query: 36 GVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR 95
          G   VA+ G D   +A + ++    +              V   +TG+  D     +  R
Sbjct: 8  GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLGITGLATDVTTLNEMFR 67

Query: 96 A 96
           
Sbjct: 68 Y 68

>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 = 80.2 bits (197), Expect = 2e-18
 Identities = 30/166 (18%), Positives = 58/166 (34%), Gaps = 9/166 (5%)

Query: 127 TSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T   V   D  V+  + +  +  +V  K  + ++ ++P + C   G  AD+    Q    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
                    G    +      +  +   Y        +G +++L   D   GP +Y   P
Sbjct: 62  NLELHSLSTGRLPRVVTANRMLKQMLFRY-----RGYIGAALVLGGVDVT-GPHLYSIYP 115

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G       V++G  +  A +  E KF+   +   +E   L    +
Sbjct: 116 HGSTDKLPYVTMGSGSLAAMAVFEDKFRP--DMEEEEAKNLVSEAI 159

>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 = 36.3 bits (83), Expect = 0.002
 Identities = 19/87 (21%), Positives = 36/87 (41%), Gaps = 4/87 (4%)

Query: 38  TSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           T   V   D  V+  + +  +  +V  K  + ++ ++P + C   G  AD+    Q   +
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 97  GFDRHITIFSPEGRLYQVEYAFKAINQ 123
             + H       GRL +V  A + + Q
Sbjct: 62  NLELHSLST---GRLPRVVTANRMLKQ 85

>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 = 78.7 bits (193), Expect = 3e-18
 Identities = 28/166 (16%), Positives = 61/166 (36%), Gaps = 7/166 (4%)

Query: 127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
           T+V +   D  V+ATEK+    + +  K    +Y +   +     G   D+++  +  + 
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
           EA  ++ +      +  +    +++   Y       P    +++   D     +      
Sbjct: 62  EANLYEIRRERKPTVRAIATLTSNLLNSYRY----FPYLVQLLIGGIDSEGKSIYSIDPI 117

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
            G       V+ G  +  A   LE +F        DE ++LA+  +
Sbjct: 118 GGAIEEKDIVATGSGSLTAYGVLEDRFTP--EIGVDEAVELAVRAI 161

>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 = 43.6 bits (102), Expect = 6e-06
 Identities = 12/65 (18%), Positives = 28/65 (43%), Gaps = 1/65 (1%)

Query: 38  TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
           T+V +   D  V+ATEK+    + +  K    +Y +   +     G   D+++  +  + 
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61

Query: 97  GFDRH 101
             + +
Sbjct: 62  EANLY 66

>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 = 76.1 bits (186), Expect = 4e-17
 Identities = 31/182 (17%), Positives = 58/182 (31%), Gaps = 12/182 (6%)

Query: 118 FKAINQGGVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADS 176
           F      G T +A+ G D A+VA++ ++     +  +     Y LT       +G   D 
Sbjct: 2   FSPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDC 61

Query: 177 RYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENE 236
               +        +K+ +  +M    +   ++ I           P     I+   DE  
Sbjct: 62  LTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRF----FPYYVYNIIGGLDEEG 117

Query: 237 GPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKT-------NYTGDETIQLAIS 289
              +Y  DP G Y      + G  +      L+ +   K          + D  ++L   
Sbjct: 118 KGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKD 177

Query: 290 CL 291
             
Sbjct: 178 VF 179

>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 = 44.9 bits (105), Expect = 3e-06
 Identities = 15/74 (20%), Positives = 27/74 (36%), Gaps = 1/74 (1%)

Query: 29  FKAINQGGVTSVAVKGVDTAVVATEKKV-PDSLVDPKTVTNLYSLTPTVGCVMTGMQADS 87
           F      G T +A+ G D A+VA++ ++     +  +     Y LT       +G   D 
Sbjct: 2   FSPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDC 61

Query: 88  RYQVQRARAGFDRH 101
               +   A    +
Sbjct: 62  LTLTKIIEARLKMY 75

>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 = 71.4 bits (174), Expect = 1e-15
 Identities = 26/166 (15%), Positives = 62/166 (37%), Gaps = 5/166 (3%)

Query: 127 TSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARY 185
             + ++G D  +VA+++      +        ++ ++  +  +  G   D+    +  + 
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62

Query: 186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP 245
               +K ++GY +      N          ++    P   +++L  YDE+EGP +Y  D 
Sbjct: 63  NVQLYKMRNGYELSPTAAANFTRRNLADCLRS--RTPYHVNLLLAGYDEHEGPALYYMDY 120

Query: 246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL 291
                     + G       S L++ +      + +  ++L   CL
Sbjct: 121 LAALAKAPFAAHGYGAFLTLSILDRYYTP--TISRERAVELLRKCL 164

>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 = 39.1 bits (90), Expect = 2e-04
 Identities = 6/65 (9%), Positives = 24/65 (36%), Gaps = 1/65 (1%)

Query: 38  TSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARA 96
             + ++G D  +VA+++      +        ++ ++  +  +  G   D+    +  + 
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62

Query: 97  GFDRH 101
               +
Sbjct: 63  NVQLY 67

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	291
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	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	99.98
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	99.98
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.97
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	99.97
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.97
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.97
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.97
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.97
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	99.97
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.96
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.96
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.96
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	99.89
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.75
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.74
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	99.74
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.73
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	99.73
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	99.73
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	99.72
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	99.72
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.71
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.71
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	99.71
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.71
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	99.71
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	99.7
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	99.7
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.69
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.68
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	99.67
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.67
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.67
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.65
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.64
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.63
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.63
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	99.62
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.62
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.62
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.62
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.6
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.43
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.23
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	99.14
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.14
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.0
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	98.97
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	98.52
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	83.69

>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=2.2e-53  Score=366.84  Aligned_cols=201  Identities=73%  Similarity=1.169  Sum_probs=174.7

Q ss_pred             CCCCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEe
Q psy8777           2 SRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMT   81 (291)
Q Consensus         2 ~~~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~   81 (291)
                      |++++++||+++|+|||||||+|||||+|||++||+|+|||+++||||||+|+|.++++..+++.+|||+|++|++|++|
T Consensus         1 ~~~~~~gyd~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~s   80 (244)
T d1irua_           1 SRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMT   80 (244)
T ss_dssp             CCSCCCTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEE
T ss_pred             CCCCCCCcCCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEecCCcEEEEe
Confidence            68999999999999999999999999999999998889999999999999999987766655555555555555555555


Q ss_pred             ccccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEe
Q psy8777          82 GMQADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSL  161 (291)
Q Consensus        82 G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i  161 (291)
                      |+.+|+|.+                                                                       
T Consensus        81 G~~~D~~~l-----------------------------------------------------------------------   89 (244)
T d1irua_          81 GMTADSRSQ-----------------------------------------------------------------------   89 (244)
T ss_dssp             ECHHHHHHH-----------------------------------------------------------------------
T ss_pred             cchHHHHHH-----------------------------------------------------------------------
Confidence            555555544                                                                       


Q ss_pred             cCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEE
Q psy8777         162 TPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIY  241 (291)
Q Consensus       162 ~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly  241 (291)
                                        .+.++.+++.|++.++++++++.+++.++.+++.++++.+.||++++++|+|||+++||+||
T Consensus        90 ------------------~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly  151 (244)
T d1irua_          90 ------------------VQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVY  151 (244)
T ss_dssp             ------------------HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEE
T ss_pred             ------------------HHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEE
Confidence                              44445556666777788999999999999999999999999999999999999986789999


Q ss_pred             EECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         242 KTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       242 ~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      .+||+|++.+++++|+|+|+..++++||++|++..+|+++||++++++||
T Consensus       152 ~~Dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l  201 (244)
T d1irua_         152 KCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCL  201 (244)
T ss_dssp             EECTTSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHH
T ss_pred             EEcCCccEEecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999996655899999999999885

>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=4.3e-52  Score=358.61  Aligned_cols=196  Identities=31%  Similarity=0.566  Sum_probs=175.1

Q ss_pred             CCCCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecc
Q psy8777           4 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGM   83 (291)
Q Consensus         4 ~~~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~   83 (291)
                      +..++||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.+++++.+++.+|||+|++|++|++||+
T Consensus         2 ~~~~~yd~~~t~Fsp~Grl~QvEYa~~av~~G~-t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~~~i~~~~sG~   80 (245)
T d1irug_           2 SIGTGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGL   80 (245)
T ss_dssp             CCCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEEC
T ss_pred             CCccccCCCCceECCCCeehHHHHHHHHHHcCC-cEEEEEeCCEEEEEEeccccccccccCccceEEEcCCCEEEEeccC
Confidence            446799999999999999999999999999996 9999999999999999998887776666677777777777777777


Q ss_pred             ccchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          84 QADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        84 ~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      .+|+|.+++.+                                                                     
T Consensus        81 ~~D~~~l~~~~---------------------------------------------------------------------   91 (245)
T d1irug_          81 LADARSLADIA---------------------------------------------------------------------   91 (245)
T ss_dssp             HHHHHHHHHHH---------------------------------------------------------------------
T ss_pred             chhHHHHHHHH---------------------------------------------------------------------
Confidence            66666655544                                                                     


Q ss_pred             cEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEE
Q psy8777         164 TVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKT  243 (291)
Q Consensus       164 ~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~  243 (291)
                                          +.++..|++.++.+++++.+++.++.++|.|+++.+.||++++++|+|+|+++||+||.+
T Consensus        92 --------------------~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~i  151 (245)
T d1irug_          92 --------------------REEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMI  151 (245)
T ss_dssp             --------------------HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEE
T ss_pred             --------------------HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEE
Confidence                                335566777888899999999999999999999999999999999999997678999999


Q ss_pred             CCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         244 DPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       244 d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ||+|++.+++++|+|+|++.++++||+.|++  +||.+||++++++||
T Consensus       152 Dp~G~~~~~~~~a~G~gs~~a~~~Le~~~~~--dmt~eea~~l~~~~l  197 (245)
T d1irug_         152 DPSGVSYGYWGCAIGKARQAAKTEIEKLQMK--EMTCRDIVKEVAKII  197 (245)
T ss_dssp             CTTCCEEEBSEEEESTTHHHHHHHHTTSCGG--GCCHHHHHHHHHHHH
T ss_pred             cCCceEEeeeEEEECCccHHHHHHHHhhcCC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999  999999999999985

>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=4.3e-51  Score=352.40  Aligned_cols=193  Identities=33%  Similarity=0.555  Sum_probs=176.9

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      +++||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.++++..+++.+||++|++|++|+++|+.+
T Consensus         1 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~-t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   79 (244)
T d1rypg_           1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIP   79 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHH
T ss_pred             CCCcCCCCceECCCCeehHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecccCCCCccccccceEEEccCceEEEEccchh
Confidence            4799999999999999999999999999995 999999999999999999988887776678888888888888888888


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |+|.+++.++                                                                      
T Consensus        80 D~~~l~~~~~----------------------------------------------------------------------   89 (244)
T d1rypg_          80 DGRHLVNRGR----------------------------------------------------------------------   89 (244)
T ss_dssp             HHHHHHHHHH----------------------------------------------------------------------
T ss_pred             hHHHHHHHHH----------------------------------------------------------------------
Confidence            8887766552                                                                      


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                         .+++.|++.++++++++.+++.++.++|.|++..+.||++++++++|||+ +||+||.+||
T Consensus        90 -------------------~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~-~gp~Ly~idp  149 (244)
T d1rypg_          90 -------------------EEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYMLEP  149 (244)
T ss_dssp             -------------------HHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEEECT
T ss_pred             -------------------HHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeC-CCCEEEEEcC
Confidence                               26677777889999999999999999999999999999999999999997 6899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHH---hccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEK---KFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~---~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++|+|+|+..++++||+   .|++  +||++||++++++||
T Consensus       150 ~Gs~~~~~~~a~G~gs~~~~~~Lek~~~~~~~--~mt~eeai~la~~~L  196 (244)
T d1rypg_         150 SGSYWGYKGAATGKGRQSAKAELEKLVDHHPE--GLSAREAVKQAAKII  196 (244)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHHHHHHCTT--CCCHHHHHHHHHHHH
T ss_pred             CccEEecCeEecCCccHHHHHHHHHHHhhCCC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999996   6899  999999999999985

>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=1.2e-50  Score=351.03  Aligned_cols=193  Identities=35%  Similarity=0.571  Sum_probs=173.8

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      ++||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.+++++.+++.+||++|++|++|++||+.+|
T Consensus         3 ~~yd~~~t~fsp~G~l~QvEyA~kav~~G~-tvvgi~~~dgVvlaad~r~~~~~~~~~~~~ki~~I~~~i~~~~sG~~~D   81 (250)
T d1rypb_           3 DRYSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPD   81 (250)
T ss_dssp             CCCCSBSSCBCTTSCBHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHH
T ss_pred             ccccCCCceECCCCeehHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecccCCccccccccceeEeccCCEEEEeeecccH
Confidence            789999999999999999999999999995 9999999999999999998887776666788888888888888888888


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      ++.+++.++                                                                       
T Consensus        82 ~~~l~~~~~-----------------------------------------------------------------------   90 (250)
T d1rypb_          82 YRVLVDKSR-----------------------------------------------------------------------   90 (250)
T ss_dssp             HHHHHHHHH-----------------------------------------------------------------------
T ss_pred             HHHHHHHHH-----------------------------------------------------------------------
Confidence            877665542                                                                       


Q ss_pred             EEeecccccHHHHHHHHHHHHH-HhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAA-SFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~-~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                        .++. .|++.++.+++++.+++.+++++|.|+++.+.||++++++|+|+|+++||+||.+||
T Consensus        91 ------------------~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id~  152 (250)
T d1rypb_          91 ------------------KVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDP  152 (250)
T ss_dssp             ------------------HHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECT
T ss_pred             ------------------HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEcC
Confidence                              2222 345567889999999999999999999999999999999999999877899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      .|++.+++++|+|+|+.+++++||++|++  +||++||++++++||
T Consensus       153 ~G~~~~~~~~a~G~gs~~a~~~Le~~~~~--~ms~eea~~la~~al  196 (250)
T d1rypb_         153 SGSYFPWKATAIGKGSVAAKTFLEKRWND--ELELEDAIHIALLTL  196 (250)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             cEEEEEeeEEecCcchHHHHHHHHHhccc--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999985

>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=3.5e-50  Score=348.08  Aligned_cols=195  Identities=34%  Similarity=0.590  Sum_probs=167.3

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCC-CCcceeEeecCcEEEEEeccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCVMTGMQ   84 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~-~~~~ki~~i~~~~~~~~~G~~   84 (291)
                      +++||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.++++..+ +..+|                
T Consensus         1 ~~~yd~~~t~fsp~Grl~QvEyA~kav~~G~-tvvgik~~dgVvlaad~~~~~~~~~~~~~~~K----------------   63 (250)
T d1iruc_           1 SRRYDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFFSEK----------------   63 (250)
T ss_dssp             CTTTCCCTTCCCTTSCCHHHHHHHHHHTTSC-CEEEEBCSSEEEEEECCCCCCTTBCCCSSCSS----------------
T ss_pred             CCccCCCCeeECCCCcchHHHHHHHHHhcCC-cEEEEEeCCEEEEEEeCccccCCcccCcccce----------------
Confidence            4799999999999999999999999999996 99999999999999999987765433 23344                


Q ss_pred             cchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCc
Q psy8777          85 ADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPT  164 (291)
Q Consensus        85 ~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~  164 (291)
                                                                                               ||+|+++
T Consensus        64 -------------------------------------------------------------------------I~~I~~~   70 (250)
T d1iruc_          64 -------------------------------------------------------------------------IYKLNED   70 (250)
T ss_dssp             -------------------------------------------------------------------------EEECSSS
T ss_pred             -------------------------------------------------------------------------EEECCCc
Confidence                                                                                     4555555


Q ss_pred             EEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEEC
Q psy8777         165 VGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTD  244 (291)
Q Consensus       165 ~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d  244 (291)
                      ++++++|..+|++.+.+.++.++..+++.++.+++++.+++.++.+++.+++..+.||++++++|+|+|+++||+||.+|
T Consensus        71 i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~D  150 (250)
T d1iruc_          71 MACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSD  150 (250)
T ss_dssp             EEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEE
T ss_pred             EEEEeecccchHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEc
Confidence            55555555555555555555566777788999999999999999999999999999999999999999986789999999


Q ss_pred             CCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         245 PAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       245 ~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |+|++.+++++|+|+|++.++++||++|++ .+||++||++++++||
T Consensus       151 p~G~~~~~~~~a~G~gs~~a~~~Le~~y~~-~~ms~eeai~la~~al  196 (250)
T d1iruc_         151 PSGNYGGWKATCIGNNSAAAVSMLKQDYKE-GEMTLKSALALAIKVL  196 (250)
T ss_dssp             TTTEEEECSEEEESTTTTHHHHHHHHHCCT-TCCCHHHHHHHHHHHH
T ss_pred             ccccEeeeeEEEeCcChHHHHHHHHhhccc-CCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999984 1799999999999985

>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=1.9e-50  Score=348.45  Aligned_cols=196  Identities=53%  Similarity=0.871  Sum_probs=169.9

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      ++||+++|+|||||||+|||||+||++++|+|+|||+++||||||+|+|.++++..+++.+||++|++|++|++||+.+|
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            58999999999999999999999999998878999999999999999998777765555555655555555555555555


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      ++.+                                                                            
T Consensus        81 ~~~l----------------------------------------------------------------------------   84 (243)
T d1rypa_          81 ARNA----------------------------------------------------------------------------   84 (243)
T ss_dssp             HHHH----------------------------------------------------------------------------
T ss_pred             HHHH----------------------------------------------------------------------------
Confidence            5544                                                                            


Q ss_pred             EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPA  246 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~  246 (291)
                                   .+.++.+++.|++.++.+++++.+++.+++++|.|++....||++++++|+|||+++||+||.+||+
T Consensus        85 -------------~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~  151 (243)
T d1rypa_          85 -------------ALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPA  151 (243)
T ss_dssp             -------------HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTT
T ss_pred             -------------HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCC
Confidence                         4444667778888889999999999999999999999999999999999999998678999999999


Q ss_pred             CceEeeeEEEecCCchHHHHHHHHhccC-----CCCCCHHHHHHHHHhhC
Q psy8777         247 GYYCSFKAVSVGVKTTEANSYLEKKFKK-----KTNYTGDETIQLAISCL  291 (291)
Q Consensus       247 G~~~~~~~~a~G~gs~~~~~~Le~~~~~-----~~~~t~~eai~l~~~~l  291 (291)
                      |++.+++++|+|+|+..++++||++|++     ..++|.+||++++++||
T Consensus       152 G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l  201 (243)
T d1rypa_         152 GYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHM  201 (243)
T ss_dssp             SCEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHH
T ss_pred             EEEEecceEEeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHH
Confidence            9999999999999999999999999985     13579999999999875

>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=9.3e-50  Score=343.97  Aligned_cols=192  Identities=37%  Similarity=0.634  Sum_probs=169.4

Q ss_pred             CccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccch
Q psy8777           8 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS   87 (291)
Q Consensus         8 ~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~   87 (291)
                      .||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|+|.++++..+++.+|||+|++|++|++||+.+|+
T Consensus         1 ~yd~~~t~Fsp~Grl~QvEya~kav~~G~-Tvvgik~~dgVvla~d~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   79 (243)
T d1irud_           1 SYDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADA   79 (243)
T ss_dssp             CCCCCCSCCCTTSCCHHHHHHHHHHHTSC-CEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHH
T ss_pred             CCCCCCeeECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEeccccCcccCCCccccEEECCCCEEEEEEEchhhH
Confidence            49999999999999999999999999995 99999999999999999987777666666666666666666666666666


Q ss_pred             hhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE
Q psy8777          88 RYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC  167 (291)
Q Consensus        88 ~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~  167 (291)
                      |.+++                                                                           
T Consensus        80 ~~l~~---------------------------------------------------------------------------   84 (243)
T d1irud_          80 RIVIN---------------------------------------------------------------------------   84 (243)
T ss_dssp             HHHHH---------------------------------------------------------------------------
T ss_pred             HHHHH---------------------------------------------------------------------------
Confidence            65543                                                                           


Q ss_pred             EeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCC
Q psy8777         168 VMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAG  247 (291)
Q Consensus       168 ~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G  247 (291)
                                    .++.++..|++.++.+++++.+++.++.++|.|+++.+.||++++++|+|||++++|+||.+||+|
T Consensus        85 --------------~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G  150 (243)
T d1irud_          85 --------------RARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSG  150 (243)
T ss_dssp             --------------HHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTS
T ss_pred             --------------HHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcE
Confidence                          355577777788899999999999999999999999999999999999999976789999999999


Q ss_pred             ceEeeeEEEecCCchHHHHHHHHhccCCCCC--CHHHHHHHHHhhC
Q psy8777         248 YYCSFKAVSVGVKTTEANSYLEKKFKKKTNY--TGDETIQLAISCL  291 (291)
Q Consensus       248 ~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~--t~~eai~l~~~~l  291 (291)
                      ++.+++++|+|+|+..++++||++|++  +|  +.+|++++++++|
T Consensus       151 ~~~~~~~~a~G~gs~~a~~~Lek~~~~--~~~~~~~~~i~~ai~~l  194 (243)
T d1irud_         151 TYHAWKANAIGRGAKSVREFLEKNYTD--EAIETDDLTIKLVIKAL  194 (243)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHTTTCCS--STTCSHHHHHHHHHHHH
T ss_pred             EEEeccEEEECCChHHHHHHHHHhccc--CCCccHHHHHHHHHHHH
Confidence            999999999999999999999999999  66  8888999998874

>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=2.2e-49  Score=341.50  Aligned_cols=192  Identities=31%  Similarity=0.635  Sum_probs=168.9

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      ..+||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.++++..+++.+|||+|++|++|++||+.+
T Consensus         2 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~-t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   80 (243)
T d1j2pa_           2 QMGYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVA   80 (243)
T ss_dssp             CTTSSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHH
T ss_pred             CCCcCCCCccCCCCCcchHHHHHHHHHHcCC-CEEEEEECCEEEEEEecCccccCccccccccEeecCCcEEEEeeeccc
Confidence            4689999999999999999999999999996 999999999999999999988766555556666666666666666666


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                      |++.+++                                                                         
T Consensus        81 D~~~l~~-------------------------------------------------------------------------   87 (243)
T d1j2pa_          81 DARVLID-------------------------------------------------------------------------   87 (243)
T ss_dssp             HHHHHHH-------------------------------------------------------------------------
T ss_pred             HHHHHHH-------------------------------------------------------------------------
Confidence            6655544                                                                         


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                                      +++.++..|++.++.+++++.+++.++.++|.++++.+.||++++++++|+|+  +|+||.+||
T Consensus        88 ----------------~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~--~p~Ly~~Dp  149 (243)
T d1j2pa_          88 ----------------RARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE--VPKLYETDP  149 (243)
T ss_dssp             ----------------HHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS--SEEEEEECT
T ss_pred             ----------------HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC--CceEEEEec
Confidence                            44445567778889999999999999999999999999999999999999985  699999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++|+|+|+..++++||+.|++  +||+|||++++++||
T Consensus       150 ~G~~~~~~~~a~G~g~~~a~~~Le~~y~~--~ms~eeai~la~~~l  193 (243)
T d1j2pa_         150 SGALLEYKATAIGMGRMAVTEFFEKEYRD--DLSFDDAMVLGLVAM  193 (243)
T ss_dssp             TCCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             cCceeeeeEEEeCCCcHHHHHHHHhhccc--CCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999985

>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=1.4e-49  Score=341.81  Aligned_cols=192  Identities=27%  Similarity=0.532  Sum_probs=167.8

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      ++||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.++++..+  .+|||+|+++++|++||+.+|
T Consensus         1 ~~yd~~~tiFsp~Grl~QvEYA~kav~~G~-t~vgik~~dgVvlaad~~~~~~~~~~--~~KI~~I~~~i~~~~sG~~~D   77 (238)
T d1iruf_           1 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSELAAH--QKKILHVDNHIGISIAGLTAD   77 (238)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSC-CEEEEECSSEEEEEEECCCSSTTBCC--CCCEEEEETTEEEEEEECHHH
T ss_pred             CCCCCCCeeECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEecccccCCCCc--cceEEEeCCceEEEEeccchH
Confidence            589999999999999999999999999996 99999999999999999988766543  356666666666666666666


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      ++.+++.                                                                         
T Consensus        78 ~~~l~~~-------------------------------------------------------------------------   84 (238)
T d1iruf_          78 ARLLCNF-------------------------------------------------------------------------   84 (238)
T ss_dssp             HHHHHHH-------------------------------------------------------------------------
T ss_pred             HHHHHHH-------------------------------------------------------------------------
Confidence            6655544                                                                         


Q ss_pred             EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPA  246 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~  246 (291)
                                      ++.++..|++.++.+++++.+++.++.++|.|+++.+.||++++++|+|||+ +||+||.+||+
T Consensus        85 ----------------~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~-~gp~Ly~~D~~  147 (238)
T d1iruf_          85 ----------------MRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDD-MGPHIFQTCPS  147 (238)
T ss_dssp             ----------------HHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECSS
T ss_pred             ----------------HHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcC-CCceEEEEcCC
Confidence                            3445566888899999999999999999999999999999999999999997 78999999999


Q ss_pred             CceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         247 GYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       247 G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |++.+++++|+|+|+..++++||++|++..+++++||++++++||
T Consensus       148 G~~~~~~~~a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al  192 (238)
T d1iruf_         148 ANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRAL  192 (238)
T ss_dssp             SCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             CCEEeeeeEEECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999933359999999999875

>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=2.1e-49  Score=339.68  Aligned_cols=192  Identities=26%  Similarity=0.462  Sum_probs=166.2

Q ss_pred             CCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccc
Q psy8777           7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         7 ~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      +.||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.++++..  +++|||+|++|++|++||+.+|
T Consensus         3 ~~yd~~~t~FspdGrl~QvEyA~kav~~g~-t~igi~~~dgvvlaad~~~~~~l~~--~~~KI~~I~~~i~~~~sG~~~D   79 (233)
T d1rypf_           3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELSS--YQKKIIKCDEHMGLSLAGLAPD   79 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSEEEEEEECCCSSTTBC--CCCCEEEEETTEEEEEEECHHH
T ss_pred             ccccCCCceECCCCcChHHHHHHHHHHcCC-CEEEEEECCeEEEEEeccccccCCc--chheEEEcCCCEEEEEeecccc
Confidence            579999999999999999999999999996 9999999999999999988776643  3466666666666666666666


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      ++.+++                                                                          
T Consensus        80 ~~~l~~--------------------------------------------------------------------------   85 (233)
T d1rypf_          80 ARVLSN--------------------------------------------------------------------------   85 (233)
T ss_dssp             HHHHHH--------------------------------------------------------------------------
T ss_pred             HHHHHH--------------------------------------------------------------------------
Confidence            665444                                                                          


Q ss_pred             EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPA  246 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~  246 (291)
                                     +++.+++.|++.++++++++.+++.+++++|.|++..+.|||+++++|+|+|+ +||+||.+||+
T Consensus        86 ---------------~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~-~g~~Ly~idp~  149 (233)
T d1rypf_          86 ---------------YLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDK-SGAHLLEFQPS  149 (233)
T ss_dssp             ---------------HHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECTT
T ss_pred             ---------------HHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcC-CCCEEEEEccc
Confidence                           44445555888899999999999999999999999999999999999999997 68999999999


Q ss_pred             CceEeeeEEEecCCchHHHHHHHHhccC--CCCCCHHHHHHHHHhhC
Q psy8777         247 GYYCSFKAVSVGVKTTEANSYLEKKFKK--KTNYTGDETIQLAISCL  291 (291)
Q Consensus       247 G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~~~~t~~eai~l~~~~l  291 (291)
                      |++.+++++|+|+|++.++++||+.|++  ..+|+++||++++++||
T Consensus       150 G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l  196 (233)
T d1rypf_         150 GNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAI  196 (233)
T ss_dssp             SCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHH
T ss_pred             cceecccEEEecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999986632  12899999999999885

>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=5.7e-49  Score=339.33  Aligned_cols=194  Identities=37%  Similarity=0.678  Sum_probs=167.6

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCC-CCcceeEeecCcEEEEEeccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCVMTGMQ   84 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~-~~~~ki~~i~~~~~~~~~G~~   84 (291)
                      +.+||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|+|.++++..+ ++.+||++|++|++++++|+.
T Consensus         2 ~~~yd~~~t~fsp~G~~~Qveya~~ai~~G~-T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~   80 (244)
T d1rypc_           2 SRRYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLT   80 (244)
T ss_dssp             CGGGCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECH
T ss_pred             CCccCCCceeECCCCcChHHHHHHHHHhcCC-CEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEeccc
Confidence            4679999999999999999999999999996 99999999999999999987765433 233555555555555555555


Q ss_pred             cchhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCc
Q psy8777          85 ADSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPT  164 (291)
Q Consensus        85 ~D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~  164 (291)
                      +|+                                                                             
T Consensus        81 ~D~-----------------------------------------------------------------------------   83 (244)
T d1rypc_          81 ADA-----------------------------------------------------------------------------   83 (244)
T ss_dssp             HHH-----------------------------------------------------------------------------
T ss_pred             CcH-----------------------------------------------------------------------------
Confidence            554                                                                             


Q ss_pred             EEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEEC
Q psy8777         165 VGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTD  244 (291)
Q Consensus       165 ~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d  244 (291)
                                  +.+.+.++.++..+++.++.+++++.+++.++.+++.|+++.++||++++++|+|+|+++||+||.+|
T Consensus        84 ------------~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id  151 (244)
T d1rypc_          84 ------------EILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSN  151 (244)
T ss_dssp             ------------HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEEC
T ss_pred             ------------HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEec
Confidence                        44455555557778888999999999999999999999999999999999999999976789999999


Q ss_pred             CCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         245 PAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       245 ~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      |+|++.+++++|+|+|+.+++++||+.|++  +||+|||++++++||
T Consensus       152 ~~Gs~~~~~~~a~G~g~~~a~~~Le~~~~~--~ms~eeai~l~~~al  196 (244)
T d1rypc_         152 PSGNYTGWKAISVGANTSAAQTLLQMDYKD--DMKVDDAIELALKTL  196 (244)
T ss_dssp             TTCCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             CCCcEeeeeeeeccchhHHHHHHHHhcccC--CCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999  999999999999985

>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=4.2e-48  Score=333.17  Aligned_cols=194  Identities=32%  Similarity=0.627  Sum_probs=165.6

Q ss_pred             CccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCC-CcceeEeecCcEEEEEeccccc
Q psy8777           8 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGCVMTGMQAD   86 (291)
Q Consensus         8 ~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~-~~~ki~~i~~~~~~~~~G~~~D   86 (291)
                      +||+++|+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.++++..+. +.+|||+|++|++|++||+.+|
T Consensus         1 gyd~~~t~fsp~Grl~QvEya~kav~~G~-tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   79 (241)
T d1rypd_           1 GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNAD   79 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHH
T ss_pred             CCCCCCceECCCCcEeHHHHHHHHHHcCC-CEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccch
Confidence            69999999999999999999999999996 999999999999999999988765442 3345555555555555555555


Q ss_pred             hhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEE
Q psy8777          87 SRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVG  166 (291)
Q Consensus        87 ~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~  166 (291)
                      ++                                                                              
T Consensus        80 ~~------------------------------------------------------------------------------   81 (241)
T d1rypd_          80 SR------------------------------------------------------------------------------   81 (241)
T ss_dssp             HH------------------------------------------------------------------------------
T ss_pred             HH------------------------------------------------------------------------------
Confidence            55                                                                              


Q ss_pred             EEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCC-CCcEEEEECC
Q psy8777         167 CVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDEN-EGPLIYKTDP  245 (291)
Q Consensus       167 ~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~-~gp~Ly~~d~  245 (291)
                                 .+.+.++.++..|++.++.+++++.+++.++.++|.|+++.+.||++++++++|+|++ ++|+||.+||
T Consensus        82 -----------~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp  150 (241)
T d1rypd_          82 -----------ILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEP  150 (241)
T ss_dssp             -----------HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECT
T ss_pred             -----------HHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecC
Confidence                       4444555555666678889999999999999999999999999999999999999964 5799999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccC-CCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKK-KTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~-~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++|+|+|+..++++||+.|++ ..+||.+||++++++||
T Consensus       151 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al  197 (241)
T d1rypd_         151 SGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSL  197 (241)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHH
T ss_pred             CEEEEeeCeEEECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999976 24799999999999885

>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=2.6e-47  Score=326.85  Aligned_cols=193  Identities=34%  Similarity=0.607  Sum_probs=167.7

Q ss_pred             CCCccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEecccc
Q psy8777           6 SAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA   85 (291)
Q Consensus         6 ~~~yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~   85 (291)
                      +.+||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|+|.+.+++.+++.+|                 
T Consensus         2 ~~gyd~~~t~fsp~Gr~~Qveya~kav~~G~-tvigik~~dgVvlaaD~r~~~~~~~~~~~~k-----------------   63 (233)
T d1irub_           2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDERSVHK-----------------   63 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSCEEEEEECCCCCSSBCSTTCCS-----------------
T ss_pred             CCCcCCCCCeECCCCcChHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeCCcccCCccccccce-----------------
Confidence            5799999999999999999999999999995 9999999999999999988765544444444                 


Q ss_pred             chhhhhhhhcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcE
Q psy8777          86 DSRYQVQRARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTV  165 (291)
Q Consensus        86 D~~~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~  165 (291)
                                                                                              +|+|++++
T Consensus        64 ------------------------------------------------------------------------i~~i~~~i   71 (233)
T d1irub_          64 ------------------------------------------------------------------------VEPITKHI   71 (233)
T ss_dssp             ------------------------------------------------------------------------SEESSSSE
T ss_pred             ------------------------------------------------------------------------EEEecCce
Confidence                                                                                    45555555


Q ss_pred             EEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECC
Q psy8777         166 GCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDP  245 (291)
Q Consensus       166 ~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~  245 (291)
                      +++++|..+|++.+.++++.++..+++.++.+++++.+++.++.+++.+++....+|+++.++++|+|+ ++|+||.+||
T Consensus        72 ~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~-~~~~ly~id~  150 (233)
T d1irub_          72 GLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNE-GRPYLFQSDP  150 (233)
T ss_dssp             EEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECS-SSEEEEEECT
T ss_pred             EEEEeccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeeccc-CCceEEEEcC
Confidence            555555555555566666667777777888999999999999999999998888999999999999986 7899999999


Q ss_pred             CCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         246 AGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       246 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +|++.+++++++|+|+.+++++||+.|++  +||+|||++++++||
T Consensus       151 ~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~ms~eea~~l~~~~L  194 (233)
T d1irub_         151 SGAYFAWKATAMGKNYVNGKTFLEKRYNE--DLELEDAIHTAILTL  194 (233)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             CcceEeccceecCCcHHHHHHHHHhhccc--CccHHHHHHHHHHHH
Confidence            99999999999999999999999999999  999999999999885

>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=9.4e-45  Score=310.88  Aligned_cols=190  Identities=27%  Similarity=0.602  Sum_probs=181.8

Q ss_pred             ccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHH
Q psy8777          98 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR  177 (291)
Q Consensus        98 yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~  177 (291)
                      ||+++|+|||+||++|+|||++++++|+ +++|++++++|||++|++.+.+++..++.+|||+|+++++++++|..+|++
T Consensus         1 yd~~~t~fsp~G~l~QvEYa~kav~~G~-t~vgik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (234)
T d1irue_           1 YDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAK   79 (234)
T ss_dssp             CCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHH
T ss_pred             CCCCCceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecCccCCCcccCcccCEEEccCcEEEEEeeccchHH
Confidence            8999999999999999999999999998 999999999999999999887777777889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCc-----ceeeeeeeeEEEEeCCCCcEEEEECCCCceEee
Q psy8777         178 YQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAE-----MRPLGCSMILISYDENEGPLIYKTDPAGYYCSF  252 (291)
Q Consensus       178 ~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~-----~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~  252 (291)
                      .+.+.++.++..|++.++++++++.+++.++.++|.|+++..     .||++++++++|||+ +||+||.+||+|++.++
T Consensus        80 ~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~-~gp~Ly~idp~G~~~~~  158 (234)
T d1irue_          80 TLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDE-KGPQLFHMDPSGTFVQC  158 (234)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEET-TEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcC-CCCEEEEEecCccccee
Confidence            999999999999999999999999999999999998887754     699999999999997 68999999999999999


Q ss_pred             eEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         253 KAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       253 ~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +++|+|+|++.++++||+.|++  +|++|||++++++||
T Consensus       159 ~~~a~G~gs~~~~~~Le~~~~~--~~~~eeai~~a~~al  195 (234)
T d1irue_         159 DARAIGSASEGAQSSLQELYHK--SMTLKEAIKSSLIIL  195 (234)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             eeEEeCCchHHHHHHHHHhhcc--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999  999999999999885

>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=6.2e-44  Score=303.28  Aligned_cols=185  Identities=35%  Similarity=0.594  Sum_probs=178.8

Q ss_pred             cccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHHHHHHH
Q psy8777         103 TIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQR  182 (291)
Q Consensus       103 ~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~  182 (291)
                      |+|||+||++|+|||++++++|+ +++|++++++|||++|++.+++++..++.+|||+|+++++++++|..+|.+.+.+.
T Consensus         1 t~fsp~G~l~QvEYa~~av~~G~-t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~   79 (221)
T d1yara1           1 TVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF   79 (221)
T ss_dssp             CCCCTTSCCHHHHHHHHHHTTSC-CEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             CeECCCCcchHHHHHHHHHhcCC-cEEEEEeCCEEEEEEecccCCcccccCccceEEEecCCceEEeeeccchHHHHHHH
Confidence            68999999999999999999998 99999999999999999988777777788999999999999999999999999999


Q ss_pred             HHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCch
Q psy8777         183 ARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTT  262 (291)
Q Consensus       183 ~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~  262 (291)
                      ++.++..|++.++++++++.+++.++.+++.++++.+.||++++++|+|+|+ +||+||.+||+|++.+++++|+|+|+.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~  158 (221)
T d1yara1          80 ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQ-IGPRLFDCDPAGTINEYKATAIGSGKD  158 (221)
T ss_dssp             HHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECS-SCEEEEEECTTCCEEEBSEEEESTTHH
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEec-CCCeEEEEcCCccEEEeeEEEECCchH
Confidence            9999999999999999999999999999999999999999999999999997 689999999999999999999999999


Q ss_pred             HHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         263 EANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       263 ~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      .++++||++|++  +||++||++++++||
T Consensus       159 ~~~~~Le~~~~~--~ms~~ea~~la~~~l  185 (221)
T d1yara1         159 AVVSFLEREYKE--NLPEKEAVTLGIKAL  185 (221)
T ss_dssp             HHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc--cccHHHHHHHHHHHH
Confidence            999999999999  999999999999885

>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=6.2e-44  Score=307.33  Aligned_cols=190  Identities=26%  Similarity=0.552  Sum_probs=179.9

Q ss_pred             cccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHHH
Q psy8777          99 DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRY  178 (291)
Q Consensus        99 d~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~  178 (291)
                      |+++++|||+||++|+|||++++++|+ +++|+++++||+|++|++.+.+++..++.+|||+|+++++++++|..+|++.
T Consensus         1 d~~~t~fsp~G~l~Qveya~~a~~~G~-t~Vgi~~~dgVvla~d~r~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   79 (242)
T d1rype_           1 DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARS   79 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHH
T ss_pred             CCCcceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeCCccCcCcccCccceEEEcCCCEEEEEeecchhHHH
Confidence            678999999999999999999999998 9999999999999999998877776677899999999999999999999999


Q ss_pred             HHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcC------cceeeeeeeeEEEEeCCCCcEEEEECCCCceEee
Q psy8777         179 QVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNA------EMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF  252 (291)
Q Consensus       179 ~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~------~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~  252 (291)
                      +.+.++.+++.+++.++.+++++.+++.+++++|.|++..      +.|||+++++|+|+|++++|+||.+||+|++.++
T Consensus        80 l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~~  159 (242)
T d1rype_          80 MIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRY  159 (242)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceecc
Confidence            9999999999999999999999999999999998887654      3689999999999997677999999999999999


Q ss_pred             eEEEecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         253 KAVSVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       253 ~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +++|+|+|+.+++++||++|++  +||++||++++++||
T Consensus       160 ~~~a~G~gs~~~~~~Le~~~~~--~ms~~ea~~la~~~l  196 (242)
T d1rype_         160 NAKAIGSGSEGAQAELLNEWHS--SLTLKEAELLVLKIL  196 (242)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             ceeecccchHHHHHHHHHhccC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999  999999999999985

>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=1.1e-33  Score=240.25  Aligned_cols=168  Identities=15%  Similarity=0.198  Sum_probs=150.4

Q ss_pred             hHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHh
Q psy8777         113 QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKY  192 (291)
Q Consensus       113 qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~  192 (291)
                      |+|||.+++++|+ +++|+++++||||++|+|.       +..+||++|++|++++++|+.+|++.+.++++.++..|++
T Consensus         8 q~eyA~~av~~Gt-T~vgi~~~~GVvlaad~r~-------~s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~   79 (227)
T d1q5qa_           8 RSELARKGIARGR-SVVVLTFRDGVLFVAENPS-------TALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGY   79 (227)
T ss_dssp             HHHHHHHHHHTSC-CEEEEECSSEEEEEECCSC-------SSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-CEEEEEECCEEEEEEccCC-------CCcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHH
Confidence            8999999999988 9999999999999999875       3468999999999999999999999999999999999999


Q ss_pred             hhC-CCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeC---CCCcEEEEECCCCceEeee-EEEecCCchHHHHH
Q psy8777         193 KHG-YSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDE---NEGPLIYKTDPAGYYCSFK-AVSVGVKTTEANSY  267 (291)
Q Consensus       193 ~~~-~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~---~~gp~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~  267 (291)
                      .++ .+++++.+++.++++++.. ...+.|||+++++|+|||.   .++|+||.+||+|++.+++ +++.|+++..++++
T Consensus        80 ~~~~~~~~~~~la~~~~~~~~~~-~~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~  158 (227)
T d1q5qa_          80 SYDRRDVTGRSLANAYAQTLGTI-FTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATA  158 (227)
T ss_dssp             HSCGGGCCHHHHHHHHHHHHHHH-HHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHH
T ss_pred             HhCCCCCcHHHHHHHHHHHHHHH-HHhcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHHHHH
Confidence            988 4689999999888876433 2335699999999999985   2479999999999998876 57778889999999


Q ss_pred             HHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         268 LEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       268 Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      ||++|++  +||+|||++++++||
T Consensus       159 Le~~y~~--~ms~eea~~la~~aL  180 (227)
T d1q5qa_         159 MRESYRA--DLDLEAAVGIAVNAL  180 (227)
T ss_dssp             HHHHCCT--TCCHHHHHHHHHHHH
T ss_pred             HHHhccC--CCCHHHHHHHHHHHH
Confidence            9999999  999999999999885

>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=3.1e-34  Score=245.10  Aligned_cols=205  Identities=21%  Similarity=0.399  Sum_probs=142.3

Q ss_pred             ccceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchh
Q psy8777           9 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR   88 (291)
Q Consensus         9 yd~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~   88 (291)
                      ||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|+|.+.+++.++..+|||+|++|++|+++|+.+|++
T Consensus         1 yd~~~t~fsp~G~l~QvEYa~kav~~G~-t~vgik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (234)
T d1irue_           1 YDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAK   79 (234)
T ss_dssp             CCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHH
T ss_pred             CCCCCceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecCccCCCcccCcccCEEEccCcEEEEEeeccchHH
Confidence            9999999999999999999999999995 999999999999999999999888888889999999999999999999999


Q ss_pred             hhhhhhcccccccccccCCCCchhhHHHHHhhhc--------CCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEE
Q psy8777          89 YQVQRARAGFDRHITIFSPEGRLYQVEYAFKAIN--------QGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYS  160 (291)
Q Consensus        89 ~~~~~~~~~yd~~~~~~sp~grl~qve~~~~~~~--------~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~  160 (291)
                      .+++.++.+.......+.   +-..++...+.+.        .++......+|..+.++.+.       ++ +++|+||.
T Consensus        80 ~l~~~~~~~~~~~~~~~~---~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G-------~D-~~gp~Ly~  148 (234)
T d1irue_          80 TLIDKARVETQNHWFTYN---ETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGG-------VD-EKGPQLFH  148 (234)
T ss_dssp             HHHHHHHHHHHHHHHHHS---SCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEE-------EE-TTEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhhC---CCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEE-------Ec-CCCCEEEE
Confidence            999988843222111111   1111111111111        11111122456666665554       44 46899999


Q ss_pred             ecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEE
Q psy8777         161 LTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILIS  231 (291)
Q Consensus       161 i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G  231 (291)
                      +||+|.+. ....+.+.++......++.     .+.++|+.+++++.+.+.++... +....+.++++.++.
T Consensus       149 idp~G~~~~~~~~a~G~gs~~~~~~Le~-----~~~~~~~~eeai~~a~~al~~~~-~~~~~~~~iei~ii~  214 (234)
T d1irue_         149 MDPSGTFVQCDARAIGSASEGAQSSLQE-----LYHKSMTLKEAIKSSLIILKQVM-EEKLNATNIELATVQ  214 (234)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHHH-----HCCTTCCHHHHHHHHHHHHHHHC-SSCCCTTSEEEEEEC
T ss_pred             EecCcccceeeeEEeCCchHHHHHHHHH-----hhccCCCHHHHHHHHHHHHHHHH-hccCCCCCEEEEEEE
Confidence            99999763 2222333444444444443     34568999999986555555443 334556677776663

>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=1.8e-33  Score=234.45  Aligned_cols=161  Identities=16%  Similarity=0.246  Sum_probs=149.3

Q ss_pred             eEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHH
Q psy8777         127 TSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCN  205 (291)
Q Consensus       127 ~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~  205 (291)
                      +++|+++++||+|++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.+++.|+++++.+++++.+++
T Consensus         3 tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (198)
T d1rypk_           3 IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSS   82 (198)
T ss_dssp             CEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHH
T ss_pred             EEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            89999999999999999988 45555567899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCcceeeeeeeeEEEEeCC-CCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         206 RIADISQVYTQNAEMRPLGCSMILISYDEN-EGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       206 ~l~~~~~~~~~~~~~~p~~~~~li~G~d~~-~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +++++++.+.+  ..+|++++++|+|||+. +||+||.+||+|++.+++++++|+|+.+++++||++|++  +||++||+
T Consensus        83 ~i~~~~~~~~~--~~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~~~~eea~  158 (198)
T d1rypk_          83 FVRQELAKSIR--SRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRP--DMTTEEGL  158 (198)
T ss_dssp             HHHHHHHHHTT--SSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCT--TCCHHHHH
T ss_pred             HHHHHHHHHHh--cccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccc--cCCHHHHH
Confidence            99999865543  46999999999999964 579999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       159 ~l~~~~l  165 (198)
T d1rypk_         159 DLLKLCV  165 (198)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999875

>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=7.9e-33  Score=231.41  Aligned_cols=158  Identities=20%  Similarity=0.361  Sum_probs=148.5

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|++++||||+++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.++++.+++.+++.++.+++++.++
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            589999999999999999987 5666777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.+    +.+|++++++++|+|+  +|+||.+||+|++.+++++|+|+|+.+++++||++|++  +||+|||+
T Consensus        81 ~~l~~~~~~~----~~~p~~~~~lvaG~d~--~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~--~~s~eea~  152 (203)
T d1yarh1          81 TLLSNMLNQV----KYMPYMVQLLVGGIDT--APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSE--KMTVDEGV  152 (203)
T ss_dssp             HHHHHHHHHT----TTSCCCEEEEEEEESS--SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCT--TCCHHHHH
T ss_pred             HHHHHHHHhh----ccCCccceeEEEEEcC--CCeeEecCCccceecccccccCCCcHHHHHHHHHhccC--CCCHHHHH
Confidence            9999988644    4589999999999985  69999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       153 ~l~~~~l  159 (203)
T d1yarh1         153 DLVIRAI  159 (203)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999985

>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=6e-33  Score=231.82  Aligned_cols=159  Identities=18%  Similarity=0.289  Sum_probs=149.4

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|++++|||||++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.+++.|++.++.+++++.++
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            589999999999999999987 5666667789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.+    +.+|++++++++|+|+ ++|+||.+||+|++.+++++|+|+|+.+++++||+.|++  +||++||+
T Consensus        81 ~~l~~~~~~~----~~~p~~~~~lvaG~d~-~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~ms~eea~  153 (201)
T d1irul_          81 KLLANMVYQY----KGMGLSMGTMICGWDK-RGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSY--DLEVEQAY  153 (201)
T ss_dssp             HHHHHHHHTT----TTSCCCBEEEEEEECS-SSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCT--TCCHHHHH
T ss_pred             HHHHHHhhhc----cCCCceEEEEEEEEec-CCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccC--CCCHHHHH
Confidence            9999999654    3579999999999997 689999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       154 ~l~~~~l  160 (201)
T d1irul_         154 DLARRAI  160 (201)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999985

>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=5.1e-33  Score=238.67  Aligned_cols=207  Identities=20%  Similarity=0.343  Sum_probs=140.1

Q ss_pred             cceeeeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchhh
Q psy8777          10 DRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRY   89 (291)
Q Consensus        10 d~~~~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~   89 (291)
                      |+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|+|.+.++...++.+|||+|+++++|+++|+.+|++.
T Consensus         1 d~~~t~fsp~G~l~Qveya~~a~~~G~-t~Vgi~~~dgVvla~d~r~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   79 (242)
T d1rype_           1 DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARS   79 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHH
T ss_pred             CCCcceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeCCccCcCcccCccceEEEcCCCEEEEEeecchhHHH
Confidence            789999999999999999999999996 9999999999999999999888887777899999999999999999999999


Q ss_pred             hhhhhcccccccccccCCCCchhhHHHHH-----hhhcC-CceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecC
Q psy8777          90 QVQRARAGFDRHITIFSPEGRLYQVEYAF-----KAINQ-GGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTP  163 (291)
Q Consensus        90 ~~~~~~~~yd~~~~~~sp~grl~qve~~~-----~~~~~-g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~  163 (291)
                      +++.++.+.......++-.-.+..+....     ++... +.......+|....++.+.       ++++.+|+||.+||
T Consensus        80 l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G-------~D~~~~p~L~~idp  152 (242)
T d1rype_          80 MIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAG-------HDADDGYQLFHAEP  152 (242)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEE-------EETTTEEEEEEECT
T ss_pred             HHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEE-------eccccceEEEEEcC
Confidence            99999854322211111111111111111     11111 1112234567766666654       55566799999999


Q ss_pred             cEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         164 TVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       164 ~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .|.+. ....+.+..+...+..++.     .+..+|+.++++..+.+.++....+ ....-++++.++
T Consensus       153 ~G~~~~~~~~a~G~gs~~~~~~Le~-----~~~~~ms~~ea~~la~~~l~~~~~~-~~~~~~~~v~~i  214 (242)
T d1rype_         153 SGTFYRYNAKAIGSGSEGAQAELLN-----EWHSSLTLKEAELLVLKILKQVMEE-KLDENNAQLSCI  214 (242)
T ss_dssp             TSCEEEBSEEEESTTHHHHHHHHHH-----HCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEE
T ss_pred             CCceeccceeecccchHHHHHHHHH-----hccCCCCHHHHHHHHHHHHHHHHhc-cCCCCceEEEEE
Confidence            99763 1222222444333333333     3556899999999766666544332 233335555554

>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=5.4e-33  Score=235.39  Aligned_cols=204  Identities=19%  Similarity=0.235  Sum_probs=138.3

Q ss_pred             eeeCCCCcchhhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchhhhhhh
Q psy8777          14 TIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQR   93 (291)
Q Consensus        14 ~~fsp~g~~~q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~   93 (291)
                      |+|||||||+|||||+|||++|+ |+|||+++||||||+|+|.++++..+++.+|||+|++|++++++|+.+|++.+++.
T Consensus         1 t~fsp~G~l~QvEYa~~av~~G~-t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~   79 (221)
T d1yara1           1 TVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF   79 (221)
T ss_dssp             CCCCTTSCCHHHHHHHHHHTTSC-CEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             CeECCCCcchHHHHHHHHHhcCC-cEEEEEeCCEEEEEEecccCCcccccCccceEEEecCCceEEeeeccchHHHHHHH
Confidence            68999999999999999999996 99999999999999999998888888888999999999999999999999999998


Q ss_pred             hcccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecc
Q psy8777          94 ARAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGM  172 (291)
Q Consensus        94 ~~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~  172 (291)
                      ++.+....-..+..+-....+-.......+..+...+.+|....++.+.       ++ +++|+||.+||.|.+. ....
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G-------~d-~~gp~Ly~id~~G~~~~~~~~  151 (221)
T d1yara1          80 ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAG-------ID-QIGPRLFDCDPAGTINEYKAT  151 (221)
T ss_dssp             HHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEE-------EC-SSCEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEE-------Ee-cCCCeEEEEcCCccEEEeeEE
Confidence            8844222211111111111111111111111112334577777666665       45 4679999999999763 2222


Q ss_pred             cccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEE
Q psy8777         173 QADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISY  232 (291)
Q Consensus       173 ~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~  232 (291)
                      +.+.++......++.     .++++|+.+++++.+.+.++...++ ....-++++.++..
T Consensus       152 a~G~g~~~~~~~Le~-----~~~~~ms~~ea~~la~~~l~~~~~~-~~~~~~~ei~~i~~  205 (221)
T d1yara1         152 AIGSGKDAVVSFLER-----EYKENLPEKEAVTLGIKALKSSLEE-GEELKAPEIASITV  205 (221)
T ss_dssp             EESTTHHHHHHHHHH-----HCCTTCCHHHHHHHHHHHHHHTSCS-SCCCCCCEEEEEET
T ss_pred             EECCchHHHHHHHHH-----HhhccccHHHHHHHHHHHHHHHHhc-cCCCCCcEEEEEEc
Confidence            333444443333333     3556899999998666555443333 34445667666543

>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=2.4e-32  Score=228.77  Aligned_cols=162  Identities=17%  Similarity=0.329  Sum_probs=147.5

Q ss_pred             hcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCC
Q psy8777         121 INQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMP  199 (291)
Q Consensus       121 ~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s  199 (291)
                      +..|+ |++|+++++||||++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.+++.|++++++. +
T Consensus         6 v~~Gt-Tivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~   83 (205)
T d1ryph_           6 VSLGA-SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-S   83 (205)
T ss_dssp             CBCCC-CEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-C
T ss_pred             ccCcc-eEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-c
Confidence            45566 99999999999999999987 566666778999999999999999999999999999999999999999864 5


Q ss_pred             HHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCC
Q psy8777         200 IDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYT  279 (291)
Q Consensus       200 ~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t  279 (291)
                      +..+++.++.++  |.   +.+|++++++|+|+|+.++|+||.+||.|++.+++++|+|+|+.+++++||+.|++  +||
T Consensus        84 ~~~~~~~~~~~~--~~---~~~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~ms  156 (205)
T d1ryph_          84 TETAASVFKELC--YE---NKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRE--NMS  156 (205)
T ss_dssp             HHHHHHHHHHHH--HH---TTTTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCT--TCC
T ss_pred             HHHHHHHHHHHH--Hh---CccCceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhc--ccC
Confidence            788888998887  32   23799999999999986789999999999999999999999999999999999999  999


Q ss_pred             HHHHHHHHHhhC
Q psy8777         280 GDETIQLAISCL  291 (291)
Q Consensus       280 ~~eai~l~~~~l  291 (291)
                      ++||++++++||
T Consensus       157 ~~ea~~l~~~al  168 (205)
T d1ryph_         157 KEETVDFIKHSL  168 (205)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999985

>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=2.3e-32  Score=230.06  Aligned_cols=160  Identities=18%  Similarity=0.276  Sum_probs=149.8

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|+++++||||++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.++..|++.++.+++++.++
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            589999999999999999987 5666677889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++++++.|    +..|+++..+++|+|+.+||+||.+||+|++.+++++|+|+|+.+++++||+.|++  +||++||+
T Consensus        81 ~~ls~~~~~~----~~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~mt~~ea~  154 (212)
T d1rypl_          81 KILSNLVYQY----KGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW--DLSVEDAL  154 (212)
T ss_dssp             HHHHHHHHHT----TTSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCT--TCCHHHHH
T ss_pred             HHHHHHHHHh----ccCCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccC--CCCHHHHH
Confidence            9999999654    24689999999999887789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       155 ~l~~~al  161 (212)
T d1rypl_         155 YLGKRSI  161 (212)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999985

>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=99.98  E-value=9e-32  Score=224.77  Aligned_cols=159  Identities=16%  Similarity=0.269  Sum_probs=149.4

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|++++|||||++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.+++.|+++++.+++++.++
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            589999999999999999988 5666667789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++.+++.+     .+|++++++++|+|+.++|+||.+||.|++.+++++++|+|+.+++++||+.|++  +|+++||+
T Consensus        81 ~~l~~~l~~~-----~~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~--~~~~~ea~  153 (202)
T d1iruh_          81 SLFKEMCYRY-----REDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYRE--GMTKEECL  153 (202)
T ss_dssp             HHHHHHHHHT-----TTTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCT--TCCHHHHH
T ss_pred             HHHHHHHHhh-----ccceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhcc--CCcHHHHH
Confidence            9999998543     3699999999999987789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       154 ~l~~~al  160 (202)
T d1iruh_         154 QFTANAL  160 (202)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999985

>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=99.98  E-value=1.4e-31  Score=223.56  Aligned_cols=159  Identities=21%  Similarity=0.366  Sum_probs=148.3

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|++++|||||++|++.+ +.++.+++.+|||+|+++++++++|..+|.+.+.++++.+++.|++.++.+++++.++
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            589999999999999999987 6666777789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEee-eEEEecCCchHHHHHHHHhccCCCCCCHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSF-KAVSVGVKTTEANSYLEKKFKKKTNYTGDET  283 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~t~~ea  283 (291)
                      +.++++++.++    .+|++++++++|+|+ .+|+||.+||+|+..++ .++|+|+|+.+++++||++|++  +||++||
T Consensus        81 ~~~~~~~~~~~----~~p~~~~~lvaG~d~-~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~--~ms~~ea  153 (202)
T d1j2qh_          81 TLTSNLLNSYR----YFPYLVQLLIGGIDS-EGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTP--EIGVDEA  153 (202)
T ss_dssp             HHHHHHHHHTT----TSCCCEEEEEEEEET-TEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCT--TCCHHHH
T ss_pred             HHHHHHHhhhc----ccceeeEEEEEEEcC-CCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCC--CCCHHHH
Confidence            99999997663    479999999999997 68999999999998776 5999999999999999999999  9999999


Q ss_pred             HHHHHhhC
Q psy8777         284 IQLAISCL  291 (291)
Q Consensus       284 i~l~~~~l  291 (291)
                      ++++++||
T Consensus       154 ~~l~~~al  161 (202)
T d1j2qh_         154 VELAVRAI  161 (202)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999985

>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=99.97  E-value=2.1e-31  Score=225.54  Aligned_cols=158  Identities=20%  Similarity=0.250  Sum_probs=147.2

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|+++++|||+++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.+...+++.++.++++..++
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            589999999999999999987 5666667789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.++..+  |.   ..+|++++++++|+|+ +||+||.+||+|++.+++++|+|+|+++++++||+.|++  +||++||+
T Consensus        81 ~~l~~~~--~~---~~~p~~~~~l~aG~d~-~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~--~ms~eea~  152 (222)
T d1rypi_          81 QMLKQHL--FK---YQGHIGAYLIVAGVDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQ--DLTKEEAI  152 (222)
T ss_dssp             HHHHHHH--HH---TTTCSCEEEEEEEEET-TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCS--SCCHHHHH
T ss_pred             HHHHHHH--Hh---hhhccceeEEEEEEcC-CCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccC--CCCHHHHH
Confidence            9998887  32   2479999999999997 789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       153 ~l~~~al  159 (222)
T d1rypi_         153 KLASDAI  159 (222)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999985

>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=99.97  E-value=3.5e-32  Score=232.17  Aligned_cols=169  Identities=15%  Similarity=0.195  Sum_probs=152.8

Q ss_pred             hhcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhh----
Q psy8777         120 AINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKH----  194 (291)
Q Consensus       120 ~~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~----  194 (291)
                      ++..|+ +++|+++++||||++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.++..+++++    
T Consensus         4 ~i~tGt-Tivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~   82 (233)
T d1ryp2_           4 PIVTGT-SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLAD   82 (233)
T ss_dssp             CCEEEC-CEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTT
T ss_pred             Cccccc-eEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCCC
Confidence            455566 99999999999999999987 667777778999999999999999999999999999999999988776    


Q ss_pred             -CCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhcc
Q psy8777         195 -GYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFK  273 (291)
Q Consensus       195 -~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~  273 (291)
                       +..++++.+++++++++  |+++.+.+|++++++|+|+|++++|+||.+||+|++.+++++|+|+|+.+++++||+.|+
T Consensus        83 ~~~~~~~~~~a~~l~~~~--y~~~~~~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~~  160 (233)
T d1ryp2_          83 AEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVD  160 (233)
T ss_dssp             TTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCC
T ss_pred             CCcccCHHHHHHHHHHHH--HhhccccCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHHh
Confidence             46789999999999987  777777899999999999998777999999999999999999999999999999999998


Q ss_pred             CC---CCCCHHHHHHHHHhhC
Q psy8777         274 KK---TNYTGDETIQLAISCL  291 (291)
Q Consensus       274 ~~---~~~t~~eai~l~~~~l  291 (291)
                      +.   .+|++|||++++++||
T Consensus       161 ~~~~~~~ms~eeA~~l~~~al  181 (233)
T d1ryp2_         161 RESDIPKTTVQVAEEAIVNAM  181 (233)
T ss_dssp             SGGGGGGCCHHHHHHHHHHHH
T ss_pred             hcccccccCHHHHHHHHHHHH
Confidence            31   2899999999999985

>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=99.97  E-value=3.5e-31  Score=223.99  Aligned_cols=158  Identities=18%  Similarity=0.279  Sum_probs=146.8

Q ss_pred             eeEEEEecccEEEEEeeccCCC-cccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~~-~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|++++|||+|++|++.+. .++..++.+|||+|+++++++++|..+|++.+.+.++.+++.+++.++..++++.++
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            5899999999999999999884 445556779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.+++++  |.   ..+|++++++++|+|+ +||+||.+||.|++.+++++|+|+|+.+++++||+.|++  +||++||+
T Consensus        81 ~~l~~~~--y~---~~~p~~~~~ivaG~D~-~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~--~~s~~ea~  152 (220)
T d1irui_          81 RMLKQML--FR---YRGYIGAALVLGGVDV-TGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRP--DMEEEEAK  152 (220)
T ss_dssp             HHHHHHH--HH---TTTCSCEEEEEEEECS-SCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCT--TCCHHHHH
T ss_pred             HHHHhhh--hh---cccccceeEEEEEEeC-CCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhccc--CCCHHHHH
Confidence            9999998  32   2479999999999997 689999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       153 ~l~~~al  159 (220)
T d1irui_         153 NLVSEAI  159 (220)
T ss_dssp             THHHHHH
T ss_pred             HHHHHHH
Confidence            9999985

>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=99.97  E-value=3e-30  Score=218.49  Aligned_cols=166  Identities=19%  Similarity=0.316  Sum_probs=146.6

Q ss_pred             hcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhC-CCC
Q psy8777         121 INQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHG-YSM  198 (291)
Q Consensus       121 ~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~-~~~  198 (291)
                      +.+|+ +++|++++++||+++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.++++.+++.+++.++ ..+
T Consensus         6 ~~nG~-Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~   84 (222)
T d1ryp1_           6 GDNGG-TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKL   84 (222)
T ss_dssp             CCCCC-EEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             cCCCc-EEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCC
Confidence            45677 99999999999999999987 4445566789999999999999999999999999999999999998876 567


Q ss_pred             CHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCC---
Q psy8777         199 PIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKK---  275 (291)
Q Consensus       199 s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~---  275 (291)
                      ++..+++.++.++    ++.+.+|++++++|+|+|++++|+||.+||+|++.+++++++|+|+++++++||+.|+..   
T Consensus        85 ~~~~~~~~~~~~~----~~~~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~  160 (222)
T d1ryp1_          85 SINSAARNIQHLL----YGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQY  160 (222)
T ss_dssp             CHHHHHHHHHHHH----HTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCB
T ss_pred             cHHHHHHHHHHHH----HhhhhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhcccccc
Confidence            8888887777665    344679999999999999877799999999999999999999999999999999999721   


Q ss_pred             ------------CCCCHHHHHHHHHhhC
Q psy8777         276 ------------TNYTGDETIQLAISCL  291 (291)
Q Consensus       276 ------------~~~t~~eai~l~~~~l  291 (291)
                                  .+||++||++++++||
T Consensus       161 ~~~~~~~~~~~~~~lt~~ea~~l~~~al  188 (222)
T d1ryp1_         161 EPGTNGKVKKPLKYLSVEEVIKLVRDSF  188 (222)
T ss_dssp             CTTSTTCSBCCCCCCCHHHHHHHHHHHH
T ss_pred             CcccchhhhcccccccHHHHHHHHHHHH
Confidence                        3899999999999985

>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=99.97  E-value=5.9e-30  Score=213.95  Aligned_cols=162  Identities=15%  Similarity=0.262  Sum_probs=147.7

Q ss_pred             CCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHH
Q psy8777         123 QGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPID  201 (291)
Q Consensus       123 ~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~  201 (291)
                      +|+ +++|++++++|||++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.+++.|++.++.+++++
T Consensus         6 nG~-Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1iruj_           6 NGG-AVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPY   84 (204)
T ss_dssp             SCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHH
T ss_pred             CCc-eEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccchH
Confidence            466 99999999999999999987 4555567789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCC-CcEEEEECCCCceEee-eEEEecCCchHHHHHHHHhccCCCCCC
Q psy8777         202 QLCNRIADISQVYTQNAEMRPLGCSMILISYDENE-GPLIYKTDPAGYYCSF-KAVSVGVKTTEANSYLEKKFKKKTNYT  279 (291)
Q Consensus       202 ~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~-gp~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~t  279 (291)
                      .+++.++.+++.+    +++|++++++|+|+|+++ +|.+|.+|+.|....+ .++++|+|+++++++||+.|++  +||
T Consensus        85 ~~a~~l~~~~~~~----~~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~--~ms  158 (204)
T d1iruj_          85 TLMSMVANLLYEK----RFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEP--NMD  158 (204)
T ss_dssp             HHHHHHHHHHHTT----TTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCS--SCC
T ss_pred             HHHHHHHHHHHHh----hhccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhcccc--CCC
Confidence            9999999998433    468999999999999644 5889999999987776 5899999999999999999999  999


Q ss_pred             HHHHHHHHHhhC
Q psy8777         280 GDETIQLAISCL  291 (291)
Q Consensus       280 ~~eai~l~~~~l  291 (291)
                      ++||++++++||
T Consensus       159 ~~ea~~l~~~al  170 (204)
T d1iruj_         159 PDHLFETISQAM  170 (204)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999985

>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=99.97  E-value=2.2e-30  Score=218.63  Aligned_cols=167  Identities=17%  Similarity=0.212  Sum_probs=149.6

Q ss_pred             hcCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhh-hCCCC
Q psy8777         121 INQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYK-HGYSM  198 (291)
Q Consensus       121 ~~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~-~~~~~  198 (291)
                      +..|+ |++|++++++|||++|++.+ +.++..++.+||++|+++++++++|..+|.+.+.+.++.+...+++. ++.++
T Consensus         5 ~~~Gt-Tivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   83 (217)
T d1iru2_           5 MVTGT-SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSY   83 (217)
T ss_dssp             CSEEC-CCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCC
T ss_pred             cCccc-EEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCCC
Confidence            34455 99999999999999999987 56666678899999999999999999999999999998888877654 46899


Q ss_pred             CHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCC
Q psy8777         199 PIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNY  278 (291)
Q Consensus       199 s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~  278 (291)
                      +++.+++.+++++  |+++...+|++++++++|+|+ ++|+||.+||+|++.+++++|+|+|+.+++++||+.|++..+|
T Consensus        84 ~v~~~a~~l~~~~--y~~~~~~~p~~~~~li~G~d~-~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~l  160 (217)
T d1iru2_          84 SPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYAD-GESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVL  160 (217)
T ss_dssp             CHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEEET-TEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCC
T ss_pred             CHHHHHHHHHHHH--HHhccccCcccceEEEEEEcC-CCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCC
Confidence            9999999999987  777777899999999999996 7899999999999999999999999999999999987644499


Q ss_pred             CHHHHHHHHHhhC
Q psy8777         279 TGDETIQLAISCL  291 (291)
Q Consensus       279 t~~eai~l~~~~l  291 (291)
                      |++||++++++||
T Consensus       161 t~~ea~~l~~~al  173 (217)
T d1iru2_         161 SQTEARDLVERCM  173 (217)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999985

>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=99.97  E-value=1.2e-29  Score=212.09  Aligned_cols=162  Identities=17%  Similarity=0.239  Sum_probs=146.5

Q ss_pred             cCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCH
Q psy8777         122 NQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPI  200 (291)
Q Consensus       122 ~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~  200 (291)
                      .+|+ |++|++++++|||++|++.+ ..++..++.+|||+++ +++++++|..+|.+.+.+.++.+++.|+++++.++++
T Consensus         6 ~nG~-Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i~-~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1rypj_           6 INGG-IVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEP   83 (204)
T ss_dssp             SSCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             cCCe-EEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEcC-CEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcc
Confidence            4576 99999999999999999987 4455556789999995 8999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCC-cEEEEECCCCceEeee-EEEecCCchHHHHHHHHhccCCCCC
Q psy8777         201 DQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEG-PLIYKTDPAGYYCSFK-AVSVGVKTTEANSYLEKKFKKKTNY  278 (291)
Q Consensus       201 ~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~g-p~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~~~  278 (291)
                      +.+++.++..++.+    ..+|++++++++|||+++| |+||.+||+|++.+++ ++++|+|+.+++++||+.|++  +|
T Consensus        84 ~~la~~l~~~l~~~----~~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~--~m  157 (204)
T d1rypj_          84 ETFTQLVSSSLYER----RFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEP--NL  157 (204)
T ss_dssp             HHHHHHHHHHHHTT----TTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCS--SC
T ss_pred             hHHHHHHHHHHHhh----cccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhcccc--CC
Confidence            99999999988432    3589999999999996555 9999999999998874 899999999999999999999  99


Q ss_pred             CHHHHHHHHHhhC
Q psy8777         279 TGDETIQLAISCL  291 (291)
Q Consensus       279 t~~eai~l~~~~l  291 (291)
                      |++||++++++||
T Consensus       158 s~~ea~~l~~~al  170 (204)
T d1rypj_         158 EPEDLFETISQAL  170 (204)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999985

>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=99.96  E-value=1.1e-28  Score=204.43  Aligned_cols=162  Identities=16%  Similarity=0.270  Sum_probs=149.3

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      |+++|++++++||+++|++.+ +.++..++.+|||+|+++++++++|..+|++.+.+.++.++..+++.++.+++++.++
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            389999999999999999987 4444456779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      +.+...++.+  ....+|++++++++|+|+..+|+||.+||.|.+.+.+++++|+|+.+++++||+.|++  +|+++||+
T Consensus        82 ~~l~~~~~~~--~~~~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~--~~~~~ea~  157 (199)
T d1iruk_          82 NFTRRNLADC--LRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTP--TISRERAV  157 (199)
T ss_dssp             HHHHHHHHHH--HTSSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCT--TCCHHHHH
T ss_pred             HHHHHHHHHH--hhccCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccC--CCCHHHHH
Confidence            9998888544  3456899999999999987789999999999999999999999999999999999999  99999999


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       158 ~l~~~al  164 (199)
T d1iruk_         158 ELLRKCL  164 (199)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999885

>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=99.96  E-value=8.1e-29  Score=209.81  Aligned_cols=163  Identities=21%  Similarity=0.248  Sum_probs=147.7

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|++++|+|||++|++.+ +.++..++.+||++|+++++++++|..+|++.+.+.++.+++.+++.++.+++++.++
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            589999999999999999987 5566667789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEe-----CCCCcEEEEECCCCceEee--eEEEecCCchHHHHHHHHhccCCCC
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYD-----ENEGPLIYKTDPAGYYCSF--KAVSVGVKTTEANSYLEKKFKKKTN  277 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d-----~~~gp~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~~  277 (291)
                      +.++++++.+++ ...+|+++.++++|++     ...+|+||.+||.|+..++  +++|+|+|+.+++++||++|++  +
T Consensus        81 ~~~~~~~~~~~~-~~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~--~  157 (224)
T d1q5qh_          81 NRLASMVRGNLG-AAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSP--D  157 (224)
T ss_dssp             HHHHHHHHTTHH-HHTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCT--T
T ss_pred             HHHHHHHHHhhc-ccccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcc--c
Confidence            999999987754 3467888888888775     4457999999999998765  6899999999999999999999  9


Q ss_pred             CCHHHHHHHHHhhC
Q psy8777         278 YTGDETIQLAISCL  291 (291)
Q Consensus       278 ~t~~eai~l~~~~l  291 (291)
                      ||++||++++++||
T Consensus       158 mt~~ea~~l~~~al  171 (224)
T d1q5qh_         158 SDEETALRAAIESL  171 (224)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999999999985

>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=99.96  E-value=2.3e-28  Score=205.21  Aligned_cols=165  Identities=18%  Similarity=0.235  Sum_probs=149.9

Q ss_pred             cCCceeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCH
Q psy8777         122 NQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPI  200 (291)
Q Consensus       122 ~~g~~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~  200 (291)
                      .+|+ |++|++++++|||++|++.+ +.++...+.+||++|+++++++++|..+|++.+.++++.+++.+++.++.++++
T Consensus         7 ~nG~-Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (213)
T d1iru1_           7 FNGG-TILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCC-EEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             CCCc-EEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhH
Confidence            4576 99999999999999999987 445555677999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccC------
Q psy8777         201 DQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKK------  274 (291)
Q Consensus       201 ~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~------  274 (291)
                      +.+++.++..++.+    ..+|++++.+++|+|.+++|++|.+||.|++.+++++++|+|+.+++++||+.|+.      
T Consensus        86 ~~~~~~~~~~~~~~----~~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~  161 (213)
T d1iru1_          86 GAIAAMLSTILYSR----RFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNV  161 (213)
T ss_dssp             HHHHHHHHHHHHTT----TTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSC
T ss_pred             HHHHHHHHHHHHHH----HhhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhcc
Confidence            99999999998544    35799999999999987889999999999999999999999999999999998762      


Q ss_pred             -CCCCCHHHHHHHHHhhC
Q psy8777         275 -KTNYTGDETIQLAISCL  291 (291)
Q Consensus       275 -~~~~t~~eai~l~~~~l  291 (291)
                       ..+||++||++++++||
T Consensus       162 ~~~~~s~~ea~~~~~~~l  179 (213)
T d1iru1_         162 EHVPLSLDRAMRLVKDVF  179 (213)
T ss_dssp             CCCCCCHHHHHHHHHHHH
T ss_pred             cccCCCHHHHHHHHHHHH
Confidence             13899999999999985

>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=99.89  E-value=2.8e-23  Score=175.64  Aligned_cols=187  Identities=12%  Similarity=0.105  Sum_probs=117.4

Q ss_pred             hhhHHHHHHhcCCceEEEEecCCeEEEEEeccCCCCccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccccccccc
Q psy8777          24 QVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHIT  103 (291)
Q Consensus        24 q~eya~~av~~g~~t~vgi~~~~~vv~a~~~~~~~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~  103 (291)
                      |||||+||+++| +|+|||+++||||||+|+|.+       +.+|||.|+|||+|+++|+.+|+|.|++.++.+.....-
T Consensus         8 q~eyA~~av~~G-tT~vgi~~~~GVvlaad~r~~-------s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~   79 (227)
T d1q5qa_           8 RSELARKGIARG-RSVVVLTFRDGVLFVAENPST-------ALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGY   79 (227)
T ss_dssp             HHHHHHHHHHTS-CCEEEEECSSEEEEEECCSCS-------SSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCEEEEEECCEEEEEEccCCC-------CcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHH
Confidence            999999999999 599999999999999999864       358999999999999999999999999988854222111


Q ss_pred             ccC---CCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCC---CCcceEEEecCcEEEE-eecccc-c
Q psy8777         104 IFS---PEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP---KTVTNLYSLTPTVGCV-MTGMQA-D  175 (291)
Q Consensus       104 ~~s---p~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~---~~~~kI~~i~~~~~~~-~sG~~~-D  175 (291)
                      .++   +..+.....++ ....+.  ..-+.+|....+|.+.       ++.   +.+|+||.+||+|.+. .....+ +
T Consensus        80 ~~~~~~~~~~~la~~~~-~~~~~~--~~~~~rP~gvs~lvaG-------~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g  149 (227)
T d1q5qa_          80 SYDRRDVTGRSLANAYA-QTLGTI--FTEQPKPYEVEICVAE-------VGRVGSPKAPQLYRITYDGSIVDEQHFVVMG  149 (227)
T ss_dssp             HSCGGGCCHHHHHHHHH-HHHHHH--HHHSSSCCCEEEEEEE-------CCCSSCCCCCEEEEEETTSCEEEESSEEEES
T ss_pred             HhCCCCCcHHHHHHHHH-HHHHHH--HHhcCCCceEEEEEEE-------EecCCCCCCCEEEEEccccceeeecccccCC
Confidence            111   11222111111 100000  0112367777777664       442   4579999999999642 222111 1


Q ss_pred             HHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcC----cceeeeeeeeEEEEe
Q psy8777         176 SRYQVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNA----EMRPLGCSMILISYD  233 (291)
Q Consensus       176 ~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~----~~~p~~~~~li~G~d  233 (291)
                      ..+......++.     .|+++|+.+++++...+.+.....+.    ...+..+++.|++.+
T Consensus       150 ~~s~~~~~~Le~-----~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~  206 (227)
T d1q5qa_         150 GTTEPIATAMRE-----SYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQS  206 (227)
T ss_dssp             SSHHHHHHHHHH-----HCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETT
T ss_pred             CchHHHHHHHHH-----hccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECC
Confidence            222222222232     45679999999996555553332221    234567787777543

>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=99.75  E-value=9.7e-19  Score=149.04  Aligned_cols=81  Identities=77%  Similarity=1.197  Sum_probs=75.9

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ..||+++++|||+||++|+|||++++++|+++++|++++++|||++|++.+++++..++.+|||+|+++++++++|..+|
T Consensus         6 ~gyd~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   85 (244)
T d1irua_           6 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGMTAD   85 (244)
T ss_dssp             CTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEECHHH
T ss_pred             CCcCCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEecCCcEEEEecchHH
Confidence            56999999999999999999999999999879999999999999999999877777777899999999999999999888


Q ss_pred             H
Q psy8777         176 S  176 (291)
Q Consensus       176 ~  176 (291)
                      +
T Consensus        86 ~   86 (244)
T d1irua_          86 S   86 (244)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=99.74  E-value=1.6e-18  Score=147.66  Aligned_cols=85  Identities=38%  Similarity=0.662  Sum_probs=78.1

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      +.||+++++|||+|||+|+|||++++++|+ +++|+++++|||+++|++.+.+++..+..+||++|+++++++++|+.+|
T Consensus         2 ~gyd~~~t~fsp~Grl~QvEya~kav~~G~-t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (244)
T d1rypg_           2 TGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPD   80 (244)
T ss_dssp             CCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHH
T ss_pred             CCcCCCCceECCCCeehHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecccCCCCccccccceEEEccCceEEEEccchhh
Confidence            469999999999999999999999999988 9999999999999999999877766666789999999999999999999


Q ss_pred             HHHHHH
Q psy8777         176 SRYQVQ  181 (291)
Q Consensus       176 ~~~~~~  181 (291)
                      ++.+.+
T Consensus        81 ~~~l~~   86 (244)
T d1rypg_          81 GRHLVN   86 (244)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887644

>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=99.74  E-value=3.6e-18  Score=141.72  Aligned_cols=173  Identities=10%  Similarity=0.123  Sum_probs=109.8

Q ss_pred             HhcCCceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccccccc---ccccCC
Q psy8777          32 INQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRH---ITIFSP  107 (291)
Q Consensus        32 v~~g~~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~---~~~~sp  107 (291)
                      |++| +|+|||+++||||||+|+|.+.+ +..+++.+||++|++|++|+++|+.+|++.+++.++.+....   .....|
T Consensus         6 v~~G-tTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (205)
T d1ryph_           6 VSLG-ASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPST   84 (205)
T ss_dssp             CBCC-CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCH
T ss_pred             ccCc-ceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCccH
Confidence            6788 59999999999999999998764 556667899999999999999999999999999888432211   111111


Q ss_pred             CCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE-----EeecccccHHHHHHH
Q psy8777         108 EGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC-----VMTGMQADSRYQVQR  182 (291)
Q Consensus       108 ~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~-----~~sG~~~D~~~~~~~  182 (291)
                      . ...  ....+...+..      .+....++.+.       ++++.+|+||.+||.|.+     ++.|...    ....
T Consensus        85 ~-~~~--~~~~~~~~~~~------~p~~~~~lvaG-------~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~----~~~~  144 (205)
T d1ryph_          85 E-TAA--SVFKELCYENK------DNLTAGIIVAG-------YDDKNKGEVYTIPLGGSVHKLPYAIAGSGS----TFIY  144 (205)
T ss_dssp             H-HHH--HHHHHHHHHTT------TTCCEEEEEEE-------EETTTEEEEEEECTTSCCEEESEEEESGGG----GGGH
T ss_pred             H-HHH--HHHHHHHHhCc------cCceEEEEEEe-------ecCCCCcEEEEECCCCcEEecCeEEeecCc----HHHH
Confidence            1 010  01111011100      13333334333       555678999999999975     3455332    2222


Q ss_pred             HHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         183 ARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       183 ~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ..++.     .+.++|+.+++.+.+.+.+.....+....+-++++.++
T Consensus       145 ~~Le~-----~~~~~ms~~ea~~l~~~al~~a~~rD~~sg~~v~v~ii  187 (205)
T d1ryph_         145 GYCDK-----NFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVL  187 (205)
T ss_dssp             HHHHH-----HCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEE
T ss_pred             HHHHh-----hhhcccCHHHHHHHHHHHHHHHHHhcCcCCCCEEEEEE
Confidence            22332     35679999999987666665544444344455666555

>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=99.73  E-value=5e-18  Score=142.56  Aligned_cols=179  Identities=17%  Similarity=0.149  Sum_probs=113.9

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhH-
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQV-  114 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qv-  114 (291)
                      ||+|||+++||||||+|+|.+.+ +..+++.+|||+|++|++|+++|..+|+|.+++.++.+....-..+.....+..+ 
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            69999999999999999998764 6666778999999999999999999999999999884432221111111111111 


Q ss_pred             HHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhh
Q psy8777         115 EYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYK  193 (291)
Q Consensus       115 e~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~  193 (291)
                      .+..+...+..      ++....++.+.       ++ +++|+||.+||.|.+. ..-.+.++++......++.     .
T Consensus        81 ~~l~~~~~~~~------~p~~~~~l~aG-------~d-~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~-----~  141 (222)
T d1rypi_          81 QMLKQHLFKYQ------GHIGAYLIVAG-------VD-PTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLES-----H  141 (222)
T ss_dssp             HHHHHHHHHTT------TCSCEEEEEEE-------EE-TTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHH-----H
T ss_pred             HHHHHHHHhhh------hccceeEEEEE-------Ec-CCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHh-----h
Confidence            11111111111      13333344433       33 4689999999999753 1111222444444444443     3


Q ss_pred             hCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeC
Q psy8777         194 HGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDE  234 (291)
Q Consensus       194 ~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~  234 (291)
                      |.++|+.+++++.+.+-++....+.....-++++.++..++
T Consensus       142 ~k~~ms~eea~~l~~~al~~a~~~D~~sg~~i~i~vi~~~~  182 (222)
T d1rypi_         142 WKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGK  182 (222)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTS
T ss_pred             ccCCCCHHHHHHHHHHHHHHHhcccCCCCCcEEEEEEEcCC
Confidence            56699999999977776655555555556678887775543

>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=99.73  E-value=2e-18  Score=146.99  Aligned_cols=80  Identities=59%  Similarity=0.986  Sum_probs=74.9

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccH
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS  176 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~  176 (291)
                      .||+.+++|+|+|||+|+|||++++++++++++|++++++||+++|++.+++++..++.+||++|+++++++++|+.+|+
T Consensus         2 gyd~~~t~fsp~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~   81 (243)
T d1rypa_           2 GYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPDA   81 (243)
T ss_dssp             GGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHHH
T ss_pred             CCCCCCCeECCCCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccccccccCcccceEecCCCEEEEEecCcHHH
Confidence            59999999999999999999999999988799999999999999999988888777778999999999999999988884

>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=99.73  E-value=1e-17  Score=138.75  Aligned_cols=169  Identities=17%  Similarity=0.167  Sum_probs=108.3

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~  108 (291)
                      ||+|||+++||||||+|+|.+. ++..+++.+|||+|+++++|++||..+|+|.+++.++.+       +++++++....
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            6999999999999999999765 566777889999999999999999999999999988733       22333221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      -.+.+..+      +..     .+|....++.+.       ++  ..|+||.+||.|.+. ....+.+.+.......++.
T Consensus        81 ~~l~~~~~------~~~-----~~p~~~~~lvaG-------~d--~~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~  140 (203)
T d1yarh1          81 TLLSNMLN------QVK-----YMPYMVQLLVGG-------ID--TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLES  140 (203)
T ss_dssp             HHHHHHHH------HTT-----TSCCCEEEEEEE-------ES--SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHH
T ss_pred             HHHHHHHH------hhc-----cCCccceeEEEE-------Ec--CCCeeEecCCccceecccccccCCCcHHHHHHHHH
Confidence            11111111      111     124444444443       32  458999999999753 2222223444444444433


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                           .+.++|+.+++.+.+.+.++....+.......+++.++
T Consensus       141 -----~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~~v~v~ii  178 (203)
T d1yarh1         141 -----QYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVI  178 (203)
T ss_dssp             -----HCCTTCCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             -----hccCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Confidence                 35568999999987777665554544444455666655

>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=99.72  E-value=1.5e-18  Score=146.86  Aligned_cols=200  Identities=12%  Similarity=0.056  Sum_probs=119.2

Q ss_pred             HHHhcCCceEEEEecCCeEEEEEeccCC-CCccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-----cccccc
Q psy8777          30 KAINQGGVTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-----FDRHIT  103 (291)
Q Consensus        30 ~av~~g~~t~vgi~~~~~vv~a~~~~~~-~~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-----yd~~~~  103 (291)
                      +++..|+ |+|||+++||||||+|+|.+ +.+..+++.+|||+|++|++|+++|+.+|++.+++.++.+     |+....
T Consensus         3 ~~i~tGt-Tivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~   81 (233)
T d1ryp2_           3 QPIVTGT-SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCEEEC-CEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             CCccccc-eEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCC
Confidence            4566885 99999999999999999976 4677777789999999999999999999999999988732     222222


Q ss_pred             ccCCCCchhhHHHHHhhhcC-CceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHH
Q psy8777         104 IFSPEGRLYQVEYAFKAINQ-GGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQ  181 (291)
Q Consensus       104 ~~sp~grl~qve~~~~~~~~-g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~  181 (291)
                      .+...-.   +....+.+.+ ........+|....++.+.       ++++..+.+|.+||.|.+. ....+.++.+...
T Consensus        82 ~~~~~~~---~~~~a~~l~~~~y~~~~~~~P~~~~~liaG-------~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a  151 (233)
T d1ryp2_          82 DAEEALE---PSYIFEYLATVMYQRRSKMNPLWNAIIVAG-------VQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMA  151 (233)
T ss_dssp             TTTTSCC---HHHHHHHHHHHHHHHHHTTCCCCEEEEEEE-------ECTTSCEEEEEEETTCCEECCSEEECTHHHHHH
T ss_pred             CCCcccC---HHHHHHHHHHHHHhhccccCCceeEEEEEE-------EcCCCCeEEEEEcCCCcEEeeeeEEecCccHHH
Confidence            2111111   1111111100 0000001235554444443       4545568899999999763 2222333665555


Q ss_pred             HHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEE
Q psy8777         182 RARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYK  242 (291)
Q Consensus       182 ~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~  242 (291)
                      ...++....+..+-.+|+.+++.+.+.+-+.....+.....-.+++.++.  +++|..++.
T Consensus       152 ~~~Le~~~~~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~it--kd~g~~~~~  210 (233)
T d1ryp2_         152 NPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIID--KNTGLTFKK  210 (233)
T ss_dssp             HHHHTTTCCSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEE--TTTEEEEEE
T ss_pred             HHHHHHHHhhcccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEE--CCCCEEECC
Confidence            55544432222223579999998876666544444333333346666663  333444443

>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=99.72  E-value=8.8e-18  Score=140.10  Aligned_cols=171  Identities=11%  Similarity=0.116  Sum_probs=107.0

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccccc-------ccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD-------RHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd-------~~~~~~sp~  108 (291)
                      ||+|||+++||||||+|+|.+. .++.+++.+|||+|++|++|+++|+.+|+|.+++.++.+..       ..+++....
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            6999999999999999999876 46666778999999999999999999999999999884322       222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      ..+.++-|..    ++.      .+....+++.        .+++.+|+||.+||.|.+. ....+.+..+......++.
T Consensus        81 ~~ls~~~~~~----~~~------p~~~~~~l~G--------~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~  142 (212)
T d1rypl_          81 KILSNLVYQY----KGA------GLSMGTMICG--------YTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDS  142 (212)
T ss_dssp             HHHHHHHHHT----TTS------CCCBEEEEEE--------EETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHH
T ss_pred             HHHHHHHHHh----ccC------CcceEeeeeE--------eecCCCCEEEEECCCceEEecceEEEccCcccchhHHHH
Confidence            1111211211    111      1222333333        2345689999999999753 1122222444444444443


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                           .+.++|+.+++.+.+.+.+.....+.....-.+++.++
T Consensus       143 -----~~~~~mt~~ea~~l~~~al~~~~~rd~~sg~~v~v~vi  180 (212)
T d1rypl_         143 -----NYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV  180 (212)
T ss_dssp             -----HCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEE
T ss_pred             -----hccCCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEE
Confidence                 34568999999987666554443443333334554444

>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=99.71  E-value=1.5e-17  Score=137.45  Aligned_cols=170  Identities=15%  Similarity=0.181  Sum_probs=106.4

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccccc-------ccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD-------RHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd-------~~~~~~sp~  108 (291)
                      ||+|||+++||||||+|+|.+.+ ++.+++.+|||+|+++++|+++|..+|++.+++.++.+..       ..+++....
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            69999999999999999998764 5566778999999999999999999999999998874322       222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~  187 (291)
                      ..+-++-|..    ..       +|....++.+.       ++ +++|++|.+||+|.+. ....+.+..+......++.
T Consensus        81 ~~l~~~~~~~----~~-------~p~~~~~lvaG-------~d-~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~  141 (201)
T d1irul_          81 KLLANMVYQY----KG-------MGLSMGTMICG-------WD-KRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDR  141 (201)
T ss_dssp             HHHHHHHHTT----TT-------SCCCBEEEEEE-------EC-SSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHT
T ss_pred             HHHHHHhhhc----cC-------CCceEEEEEEE-------Ee-cCCceEEEEccCceEEEeeeEEecCchHHHHHHHHh
Confidence            1111111111    11       12332222222       33 4689999999999642 1122223444444443333


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                           .+.++|+.+++.+.+.+.+.....+.....-.+++.++
T Consensus       142 -----~~~~~ms~eea~~l~~~~l~~~~~~d~~sg~~~~v~~i  179 (201)
T d1irul_         142 -----GYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHV  179 (201)
T ss_dssp             -----TCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEE
T ss_pred             -----hccCCCCHHHHHHHHHHHHHHHHHhCCCCCCceEEEEE
Confidence                 45568999999997776665544444344444555444

>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=99.71  E-value=3.9e-18  Score=145.20  Aligned_cols=79  Identities=44%  Similarity=0.741  Sum_probs=75.0

Q ss_pred             ccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccHH
Q psy8777          98 FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADSR  177 (291)
Q Consensus        98 yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~  177 (291)
                      ||+++++|||+|||+|+|||++++++|+ +++|+++++||||++|++.++.++.+++.+|||+|+++++++++|+.+|++
T Consensus         2 yd~~~t~Fsp~Grl~QvEya~kav~~G~-Tvvgik~~dgVvla~d~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   80 (243)
T d1irud_           2 YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADAR   80 (243)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSC-CEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             CCCCCeeECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEeccccCcccCCCccccEEECCCCEEEEEEEchhhHH
Confidence            8999999999999999999999999998 999999999999999999877887777889999999999999999999975

>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=99.71  E-value=2e-17  Score=136.45  Aligned_cols=173  Identities=13%  Similarity=0.047  Sum_probs=110.1

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCcc-CCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSLV-DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l~-~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+.+.+ ..++.+|||+|++|++|++||+.+|++.+++.++.+       ++.++++....
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            5899999999999999999887654 456779999999999999999999999999988843       22333322111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCC-CCcceEEEecCcEEEE-eecccccHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYE  186 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~-~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e  186 (291)
                      ..+.++-|..  ..       ..+|....+|.+.       +++ +++|+||.+||.|.+. ..-.+.+..+......++
T Consensus        82 ~~i~~~~~~~--~~-------~~~P~~~~~liaG-------~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le  145 (198)
T d1rypk_          82 SFVRQELAKS--IR-------SRRPYQVNVLIGG-------YDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLD  145 (198)
T ss_dssp             HHHHHHHHHH--TT-------SSSCCCEEEEEEE-------EETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHH
T ss_pred             HHHHHHHHHH--Hh-------cccccceEEEEEE-------EecCCCceEEEEecccccEEecceEEEeccchhhHHHHH
Confidence            1111111111  01       1245555555543       444 3579999999999753 112222344444444444


Q ss_pred             HHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         187 AASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       187 ~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .     .++++|+.+++.+.+.+.++....+.....-.+++.++
T Consensus       146 ~-----~~~~~~~~eea~~l~~~~l~~~~~~d~~s~~~~~v~vi  184 (198)
T d1rypk_         146 H-----HYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVKIV  184 (198)
T ss_dssp             H-----HCCTTCCHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEE
T ss_pred             h-----cccccCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEE
Confidence            3     45668999999887766665544443333334555554

>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=99.71  E-value=7.6e-18  Score=142.90  Aligned_cols=80  Identities=30%  Similarity=0.591  Sum_probs=73.9

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccccH
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQADS  176 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~  176 (291)
                      +||+++++|||+|||+|+|||++++++|+ +++|++++++||+++|++.++++..+  .+|||+|+++++++++|..+|+
T Consensus         2 ~yd~~~tiFsp~Grl~QvEYA~kav~~G~-t~vgik~~dgVvlaad~~~~~~~~~~--~~KI~~I~~~i~~~~sG~~~D~   78 (238)
T d1iruf_           2 QYDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSELAAH--QKKILHVDNHIGISIAGLTADA   78 (238)
T ss_dssp             TTTSCTTCCCTTSCCHHHHHHHHHHHHSC-CEEEEECSSEEEEEEECCCSSTTBCC--CCCEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCCeeECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEecccccCCCCc--cceEEEeCCceEEEEeccchHH
Confidence            69999999999999999999999999998 88999999999999999998777643  4799999999999999999998


Q ss_pred             HHH
Q psy8777         177 RYQ  179 (291)
Q Consensus       177 ~~~  179 (291)
                      +.+
T Consensus        79 ~~l   81 (238)
T d1iruf_          79 RLL   81 (238)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            753

>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=99.71  E-value=3.4e-17  Score=135.29  Aligned_cols=170  Identities=14%  Similarity=0.191  Sum_probs=106.7

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------cccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~  108 (291)
                      ||+|||+++||||||+|+|.+. ++..+++.+|||+|++|++|+++|..+|++.+++.++.+.       +..++.....
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            6999999999999999999764 5667777899999999999999999999999999988432       2222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eec-ccccHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTG-MQADSRYQVQRARYE  186 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG-~~~D~~~~~~~~~~e  186 (291)
                      ..+.++.|..+   +        +|....++.+.       ++ +.+++||.++|.|.+. ..+ .+.+.+.......++
T Consensus        81 ~~~~~~~~~~~---~--------~p~~~~~lvaG-------~d-~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le  141 (202)
T d1j2qh_          81 TLTSNLLNSYR---Y--------FPYLVQLLIGG-------ID-SEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLE  141 (202)
T ss_dssp             HHHHHHHHHTT---T--------SCCCEEEEEEE-------EE-TTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHH
T ss_pred             HHHHHHHhhhc---c--------cceeeEEEEEE-------Ec-CCCceEEEEeCCCCeEeecceEEccCChHHHHHHHH
Confidence            11112222111   0        23443444332       22 4679999999998742 111 123344433333333


Q ss_pred             HHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         187 AASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       187 ~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      .     .|..+|+.+++++.+.+.+.....+....+..+++.++
T Consensus       142 ~-----~~~~~ms~~ea~~l~~~al~~~~~~d~~~g~~v~v~~i  180 (202)
T d1j2qh_         142 D-----RFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKI  180 (202)
T ss_dssp             H-----HCCTTCCHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEE
T ss_pred             h-----hcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Confidence            3     35568999999986666654443443333445555554

>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=99.70  E-value=6.5e-18  Score=144.40  Aligned_cols=85  Identities=39%  Similarity=0.617  Sum_probs=78.4

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      .+||+++++|+|+|||+|+|||++++++|+ +++|+++++||||++|++.+++++..++.+||++|+++++++++|..+|
T Consensus         3 ~~yd~~~t~fsp~G~l~QvEyA~kav~~G~-tvvgi~~~dgVvlaad~r~~~~~~~~~~~~ki~~I~~~i~~~~sG~~~D   81 (250)
T d1rypb_           3 DRYSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPD   81 (250)
T ss_dssp             CCCCSBSSCBCTTSCBHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHH
T ss_pred             ccccCCCceECCCCeehHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecccCCccccccccceeEeccCCEEEEeeecccH
Confidence            469999999999999999999999999998 9999999999999999998877776677899999999999999999999


Q ss_pred             HHHHHH
Q psy8777         176 SRYQVQ  181 (291)
Q Consensus       176 ~~~~~~  181 (291)
                      ++.+++
T Consensus        82 ~~~l~~   87 (250)
T d1rypb_          82 YRVLVD   87 (250)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987643

>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=99.70  E-value=1e-17  Score=142.49  Aligned_cols=81  Identities=36%  Similarity=0.740  Sum_probs=75.3

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ..||+++++|||+||++|+|||++++.+|+ +++|+++++|||+++|++.+.+++..++.+|||+|+++++++++|..+|
T Consensus         3 ~gyd~~~t~fsp~Grl~QvEya~kav~~G~-t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   81 (243)
T d1j2pa_           3 MGYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVAD   81 (243)
T ss_dssp             TTSSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHH
T ss_pred             CCcCCCCccCCCCCcchHHHHHHHHHHcCC-CEEEEEECCEEEEEEecCccccCccccccccEeecCCcEEEEeeecccH
Confidence            359999999999999999999999999998 9999999999999999999877766667799999999999999999999


Q ss_pred             HH
Q psy8777         176 SR  177 (291)
Q Consensus       176 ~~  177 (291)
                      ++
T Consensus        82 ~~   83 (243)
T d1j2pa_          82 AR   83 (243)
T ss_dssp             HH
T ss_pred             HH
Confidence            74

>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=99.69  E-value=2.6e-17  Score=133.59  Aligned_cols=153  Identities=12%  Similarity=-0.040  Sum_probs=101.1

Q ss_pred             ceeEEEEecccEEEEEeeccCC-CcccCCC-CcceEEEecCc-EEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHH
Q psy8777         125 GVTSVAVKGVDTAVVATEKKVP-DSLVDPK-TVTNLYSLTPT-VGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPID  201 (291)
Q Consensus       125 ~~~~igi~~~~~vvl~~d~~~~-~~l~~~~-~~~kI~~i~~~-~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~  201 (291)
                      +||++|+++++||||++|+|.+ ++++..+ ...|++.++++ ..++.+|...|.+.+.+....+...++     .-...
T Consensus         5 GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~-----~~~~~   79 (180)
T d2z3ba1           5 ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN-----GNLKR   79 (180)
T ss_dssp             CCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT-----TCHHH
T ss_pred             CeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhc-----cccch
Confidence            4599999999999999999998 4444433 46789989886 556678887887776655554443332     22223


Q ss_pred             HHHHHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHH
Q psy8777         202 QLCNRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGD  281 (291)
Q Consensus       202 ~l~~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~  281 (291)
                      .+.............+....++.......|++. .+++++..++.      .+.++|+|+.+++++||+.|++  +|+++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~------~~~a~GSGs~~A~g~l~~~~~~--~~s~~  150 (180)
T d2z3ba1          80 AAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLV-SGTGEVIEPDD------GILAIGSGGNYALAAGRALKKH--AGESM  150 (180)
T ss_dssp             HHHHHHHHHHHCTTGGGCCCCEEEECSSCEEEE-CTTCCEECCSS------SEEEESTTHHHHHHHHHHHHHH--HGGGC
T ss_pred             hHHHHHHHHhHHHHHHHhhcceeeeeccccccc-cCCceeecccc------cEEEEcCchHHHHHHHHHHhhc--CCCcc
Confidence            333322222211112222333444444444443 34555554444      4889999999999999999999  99999


Q ss_pred             HHHHHHHhhC
Q psy8777         282 ETIQLAISCL  291 (291)
Q Consensus       282 eai~l~~~~l  291 (291)
                      ||++|+++||
T Consensus       151 eA~~l~~~Al  160 (180)
T d2z3ba1         151 SASEIARAAL  160 (180)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999999985

>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=99.68  E-value=5.7e-17  Score=134.07  Aligned_cols=173  Identities=12%  Similarity=0.097  Sum_probs=106.0

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      ||+|||+++||||||+|+|.+.+ ++..++.+||++|++|++|+++|+.+|++.+++.++.+....-..++..--..++-
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            69999999999999999998764 55566779999999999999999999999999988844222111111111111111


Q ss_pred             HHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEE-----EeecccccHHHHHHHHHHHHHHh
Q psy8777         116 YAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGC-----VMTGMQADSRYQVQRARYEAASF  190 (291)
Q Consensus       116 ~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~-----~~sG~~~D~~~~~~~~~~e~~~~  190 (291)
                      .......+.. +    .|....++.+.       +++..++.||.++|.+.+     ++.|....    .....++.   
T Consensus        81 ~~l~~~l~~~-~----~p~~~~~lvaG-------~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~----~a~~~L~~---  141 (202)
T d1iruh_          81 SLFKEMCYRY-R----EDLMAGIIIAG-------WDPQEGGQVYSVPMGGMMVRQSFAIGGSGSS----YIYGYVDA---  141 (202)
T ss_dssp             HHHHHHHHHT-T----TTCCEEEEEEE-------EETTTEEEEEEECTTSCCEECSEEEESGGGG----GGHHHHHH---
T ss_pred             HHHHHHHHhh-c----cceeEEEEEEE-------eecCCCcEEEEECCCCceeecceeEEeCCHH----HHHHHHHH---
Confidence            1000000000 0    13333333333       455678999999998864     34553332    22233333   


Q ss_pred             HhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         191 KYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       191 ~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                        .+.++|+.+++.+.+.+.+....++.....-.+++.++
T Consensus       142 --~~~~~~~~~ea~~l~~~al~~a~~rD~~sg~~i~v~vi  179 (202)
T d1iruh_         142 --TYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAI  179 (202)
T ss_dssp             --HCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEE
T ss_pred             --hhccCCcHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEE
Confidence              34568999999987766665444443333335565555

>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=99.67  E-value=2.4e-17  Score=139.29  Aligned_cols=81  Identities=33%  Similarity=0.579  Sum_probs=74.7

Q ss_pred             cccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeecccc
Q psy8777          95 RAGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQA  174 (291)
Q Consensus        95 ~~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~  174 (291)
                      |.+||+++++|||+||++|||||.+++++|+ +++|++++++||+++|++.+.++.  +..+||++|+++++++++|..+
T Consensus         2 ~~~yd~~~t~FspdGrl~QvEyA~kav~~g~-t~igi~~~dgvvlaad~~~~~~l~--~~~~KI~~I~~~i~~~~sG~~~   78 (233)
T d1rypf_           2 RNNYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAP   78 (233)
T ss_dssp             HHHHSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHH
T ss_pred             CccccCCCceECCCCcChHHHHHHHHHHcCC-CEEEEEECCeEEEEEeccccccCC--cchheEEEcCCCEEEEEeeccc
Confidence            5689999999999999999999999999999 889999999999999999887664  3568999999999999999999


Q ss_pred             cHHH
Q psy8777         175 DSRY  178 (291)
Q Consensus       175 D~~~  178 (291)
                      |++.
T Consensus        79 D~~~   82 (233)
T d1rypf_          79 DARV   82 (233)
T ss_dssp             HHHH
T ss_pred             cHHH
Confidence            9864

>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=99.67  E-value=2.9e-17  Score=137.79  Aligned_cols=185  Identities=11%  Similarity=0.092  Sum_probs=108.6

Q ss_pred             hcCCceEEEEecCCeEEEEEeccCCCCcc-CCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccC-CCCc
Q psy8777          33 NQGGVTSVAVKGVDTAVVATEKKVPDSLV-DPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFS-PEGR  110 (291)
Q Consensus        33 ~~g~~t~vgi~~~~~vv~a~~~~~~~~l~-~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~s-p~gr  110 (291)
                      .+|+ |+|||+++||||||+|+|.+.+.. ..++.+|||+|++|++++++|+.+|++.+++.++.+....-..++ +.-.
T Consensus         7 ~nG~-Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T d1ryp1_           7 DNGG-TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCC-EEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             CCCc-EEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCc
Confidence            5785 999999999999999999877654 445679999999999999999999999999988843221110110 0000


Q ss_pred             hhh-HHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHH
Q psy8777         111 LYQ-VEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAA  188 (291)
Q Consensus       111 l~q-ve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~  188 (291)
                      ... ..+......+..     .++....++.+.       ++++..+.||.+||.|.+. ....+.++.+......++..
T Consensus        86 ~~~~~~~~~~~~~~~~-----~~p~~~~~li~G-------~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~  153 (222)
T d1ryp1_          86 INSAARNIQHLLYGKR-----FFPYYVHTIIAG-------LDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQ  153 (222)
T ss_dssp             HHHHHHHHHHHHHTTT-----TSCCCEEEEEEE-------ECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhh-----hhhheeeeeEEE-------EeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHh
Confidence            111 111111111111     123333333332       4555568999999999752 11112224444444444432


Q ss_pred             HhH-h-----------hhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         189 SFK-Y-----------KHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       189 ~~~-~-----------~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ... .           ....+|+.+++.+.+.+.+....++.....-++.+.++
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~ii  207 (222)
T d1ryp1_         154 VNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIV  207 (222)
T ss_dssp             TSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEE
T ss_pred             hccccccCcccchhhhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEEEE
Confidence            210 0           11157999999987766665554444333344555555

>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=99.67  E-value=3.9e-16  Score=125.37  Aligned_cols=150  Identities=12%  Similarity=0.002  Sum_probs=106.7

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|++++++|||++|+|.+ +.++..++.+|+++|++++.++.+|..+|.+........+...+.     ........
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~-----~~~~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREW-----GGNLTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHT-----TTCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHh-----hccchhhH
Confidence            589999999999999999998 667777888999999999999999999998776665554443332     12222222


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      ......+...     ..++.......+.+. ++|+++..|+.|.....++.|+|+|+.++++.|+..|++ .+|+.+|++
T Consensus        76 ~~~~~~~~~~-----~~~~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~-~~~~a~el~  148 (171)
T d1m4ya_          76 VELAKDWRTD-----RVLRRLEALLLVADK-ENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRN-TDLSAREIV  148 (171)
T ss_dssp             HHHHHHHHHC-----TTGGGCCCEEEEECS-SCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHH-CCCCHHHHH
T ss_pred             HHHHHHHHHh-----hhhcccccccceecC-CcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccC-CCCCHHHHH
Confidence            2222222111     112222233334444 689999999999999999999999999999999987653 278766644


Q ss_pred             HHH
Q psy8777         285 QLA  287 (291)
Q Consensus       285 ~l~  287 (291)
                      +-+
T Consensus       149 ~~A  151 (171)
T d1m4ya_         149 EKA  151 (171)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>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=99.65  E-value=2.8e-16  Score=131.52  Aligned_cols=172  Identities=21%  Similarity=0.195  Sum_probs=104.7

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCc-cCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCchhhHH
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRLYQVE  115 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l-~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl~qve  115 (291)
                      ||+|||+++||||||+|+|.+.+. ...++.+|||+|++|++|+++|..+|++.+++.++.+...+-..+.   +...++
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~---~~~~~~   77 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTG---RLPRVV   77 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHC---SCCCHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEecCcEEEEEccccHHHHHHHHHHHHHHHHHHHhcC---CCCCHH
Confidence            699999999999999999988764 4445679999999999999999999999999988854322211111   111111


Q ss_pred             HHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-----eecccccHHHHHHHHHHHHHHh
Q psy8777         116 YAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-----MTGMQADSRYQVQRARYEAASF  190 (291)
Q Consensus       116 ~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-----~sG~~~D~~~~~~~~~~e~~~~  190 (291)
                      .+.+.+.+.-...  .++....++.+.       ++ .++|+||.+||.|.+.     +.|    +.+......++.   
T Consensus        78 ~~a~~l~~~~y~~--~~p~~~~~ivaG-------~D-~~g~~L~~id~~G~~~~~~~~a~G----sgs~~a~~~L~~---  140 (220)
T d1irui_          78 TANRMLKQMLFRY--RGYIGAALVLGG-------VD-VTGPHLYSIYPHGSTDKLPYVTMG----SGSLAAMAVFED---  140 (220)
T ss_dssp             HHHHHHHHHHHHT--TTCSCEEEEEEE-------EC-SSCEEEEEECTTSCEEECSEEEES----TTHHHHHHHHHH---
T ss_pred             HHHHHHHhhhhhc--ccccceeEEEEE-------Ee-CCCcEEEEEeCCCcEEEeeEEEEc----cccHHHHHHHHH---
Confidence            1111111000000  012222222222       33 4679999999999753     455    333333333333   


Q ss_pred             HhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         191 KYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       191 ~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                        .++.+++.+++++.+.+.+.....+.....-.+++.++
T Consensus       141 --~~~~~~s~~ea~~l~~~al~~~~~~D~~sg~~i~i~vi  178 (220)
T d1irui_         141 --KFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVI  178 (220)
T ss_dssp             --SCCTTCCHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEE
T ss_pred             --hcccCCCHHHHHHHHHHHHHHhhccCCCCCCcEEEEEE
Confidence              35668999999987766554443443333445565555

>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=99.64  E-value=9.9e-17  Score=129.23  Aligned_cols=152  Identities=14%  Similarity=-0.013  Sum_probs=101.7

Q ss_pred             eeEEEEecccEEEEEeeccCC-CcccCCCCcceEEEecCcEEEEeecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHH
Q psy8777         126 VTSVAVKGVDTAVVATEKKVP-DSLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLC  204 (291)
Q Consensus       126 ~~~igi~~~~~vvl~~d~~~~-~~l~~~~~~~kI~~i~~~~~~~~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~  204 (291)
                      ||++|++++|+|||++|+|.+ +.++..++..||++++++..++..|..++..........    +.+... .......+
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~-~~~~~~~~   75 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFE----RKLEMH-QGHLLKSA   75 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHH----HHHHHT-TTCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHH----HHHHhh-cCcchhHH
Confidence            589999999999999999998 667777889999999998766554444444333222211    111111 22333333


Q ss_pred             HHHHHHHHHhhhcCcceeeeeeeeEEEEeCCCCcEEEEECCCCceEeeeEEEecCCchHHHHHHHHhccCCCCCCHHHHH
Q psy8777         205 NRIADISQVYTQNAEMRPLGCSMILISYDENEGPLIYKTDPAGYYCSFKAVSVGVKTTEANSYLEKKFKKKTNYTGDETI  284 (291)
Q Consensus       205 ~~l~~~~~~~~~~~~~~p~~~~~li~G~d~~~gp~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~t~~eai  284 (291)
                      ..+...+  +  .....+.... .+.+.|..+++.++..|+.|.+.+..+.|+|+|+.++++.|+.+|+.    +.+||.
T Consensus        76 ~~~~~~~--~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~~----~~~~A~  146 (173)
T d1g3ka_          76 VELAKDW--R--TDRALRKLEA-MLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVEN----TELSAH  146 (173)
T ss_dssp             HHHHHHH--H--HSTTGGGCCC-EEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHH----CCCCHH
T ss_pred             HHHHHHH--H--Hhhhhccccc-ccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhhc----CCCCHH
Confidence            3333333  1  1122333333 34455655789999999999999999999999999999999988753    334566


Q ss_pred             HHHHhhC
Q psy8777         285 QLAISCL  291 (291)
Q Consensus       285 ~l~~~~l  291 (291)
                      +++++||
T Consensus       147 ela~~Ai  153 (173)
T d1g3ka_         147 EIVEKSL  153 (173)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777764

>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=99.63  E-value=5.1e-16  Score=131.03  Aligned_cols=80  Identities=31%  Similarity=0.446  Sum_probs=60.8

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      ..||+.+++|||+||++|+|||++++++|+ +++|++++++|||++|++.+.+++..   +...++-+=.--...+.++.
T Consensus         3 ~gyd~~~t~fsp~Gr~~Qveya~kav~~G~-tvigik~~dgVvlaaD~r~~~~~~~~---~~~~ki~~i~~~i~~~~sG~   78 (233)
T d1irub_           3 RGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDE---RSVHKVEPITKHIGLVYSGM   78 (233)
T ss_dssp             CCCCSBSCCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSCEEEEEECCCCCSSBCS---TTCCSSEESSSSEEEEEEEC
T ss_pred             CCcCCCCCeECCCCcChHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeCCcccCCccc---cccceEEEecCceEEEEecc
Confidence            469999999999999999999999999998 99999999999999999887555432   22322222112356676666


Q ss_pred             HHHH
Q psy8777         176 SRYQ  179 (291)
Q Consensus       176 ~~~~  179 (291)
                      ....
T Consensus        79 ~~D~   82 (233)
T d1irub_          79 GPDY   82 (233)
T ss_dssp             HHHH
T ss_pred             chHH
Confidence            6544

>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=99.63  E-value=6.7e-16  Score=128.92  Aligned_cols=178  Identities=10%  Similarity=-0.002  Sum_probs=108.1

Q ss_pred             HhcCCceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhccccc--------ccc
Q psy8777          32 INQGGVTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFD--------RHI  102 (291)
Q Consensus        32 v~~g~~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd--------~~~  102 (291)
                      +..| +|+|||+++||||||+|+|.+. .+...++.+||++|++|++|+++|+.+|++.+++.++.+..        .++
T Consensus         5 ~~~G-tTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   83 (217)
T d1iru2_           5 MVTG-TSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSY   83 (217)
T ss_dssp             CSEE-CCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCC
T ss_pred             cCcc-cEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCCC
Confidence            4577 5999999999999999999765 56666778999999999999999999999998887763211        112


Q ss_pred             cccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHH
Q psy8777         103 TIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQ  181 (291)
Q Consensus       103 ~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~  181 (291)
                      +.......+....|..+.         ..++....++.+.       ++ +.++.+|.+||.+... ....+.+..+...
T Consensus        84 ~v~~~a~~l~~~~y~~~~---------~~~p~~~~~li~G-------~d-~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a  146 (217)
T d1iru2_          84 SPRAIHSWLTRAMYSRRS---------KMNPLWNTMVIGG-------YA-DGESFLGYVDMLGVAYEAPSLATGYGAYLA  146 (217)
T ss_dssp             CHHHHHHHHHHHHHHHHH---------TTCCCCEEEEEEE-------EE-TTEEEEEEECSSCCEEECSEEECTTHHHHT
T ss_pred             CHHHHHHHHHHHHHHhcc---------ccCcccceEEEEE-------Ec-CCCcEEEEEecCceeEeeeEEeccCcHHHH
Confidence            111111111112222211         1123344333332       22 4679999999999763 2222333555544


Q ss_pred             HHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         182 RARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       182 ~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ...++..   +++..+|+.+++.+.+.+.+.....+.....-.+++.++
T Consensus       147 ~~~Le~~---~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi  192 (217)
T d1iru2_         147 QPLLREV---LEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATV  192 (217)
T ss_dssp             HHHHHHH---HTSCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEE
T ss_pred             HHHHHHH---hcccCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEE
Confidence            4444432   234468999999886666554443433333333444443

>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=99.62  E-value=2.1e-15  Score=124.61  Aligned_cols=172  Identities=13%  Similarity=0.077  Sum_probs=107.9

Q ss_pred             cCCceEEEEecCCeEEEEEeccCCCCc-cCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------cccccccc
Q psy8777          34 QGGVTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIF  105 (291)
Q Consensus        34 ~g~~t~vgi~~~~~vv~a~~~~~~~~l-~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~  105 (291)
                      +|| |+|||+++||||||+|+|.+.+. ...+..+|||++ +|++++++|..+|++.+.+.++.+       +++++++.
T Consensus         7 nG~-Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1rypj_           7 NGG-IVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPE   84 (204)
T ss_dssp             SCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             CCe-EEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcch
Confidence            685 99999999999999999988754 444567999999 599999999999999999988743       33333332


Q ss_pred             CCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCC-cceEEEecCcEEEE-eecc-cccHHHHHHH
Q psy8777         106 SPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKT-VTNLYSLTPTVGCV-MTGM-QADSRYQVQR  182 (291)
Q Consensus       106 sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~-~~kI~~i~~~~~~~-~sG~-~~D~~~~~~~  182 (291)
                      .....+.+.-|...   +        ++....++.+.       +++++ .|+||.+||.|... .... +.+.......
T Consensus        85 ~la~~l~~~l~~~~---~--------~p~~v~~li~G-------~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~  146 (204)
T d1rypj_          85 TFTQLVSSSLYERR---F--------GPYFVGPVVAG-------INSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLF  146 (204)
T ss_dssp             HHHHHHHHHHHTTT---T--------SCCCEEEEEEE-------ECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHH
T ss_pred             HHHHHHHHHHHhhc---c--------cceeeeEEEEE-------EecCCCcceEEEeCCCCccccccCcEEeecchHHHH
Confidence            22222222222111   1        24444444443       44444 47999999999753 1111 1123332233


Q ss_pred             HHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         183 ARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       183 ~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ..++.     .+..+|+.+++.+.+.+.+....++.-...-++++.++
T Consensus       147 ~~l~~-----~~~~~ms~~ea~~l~~~al~~a~~~d~~sg~~~~v~ii  189 (204)
T d1rypj_         147 GMCES-----LYEPNLEPEDLFETISQALLNAADRDALSGWGAVVYII  189 (204)
T ss_dssp             HHHHH-----HCCSSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEE
T ss_pred             HHHHh-----ccccCCCHHHHHHHHHHHHHHHHHhcCccCCeEEEEEE
Confidence            33332     35679999999997777765554443334445555555

>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=99.62  E-value=4.5e-16  Score=128.75  Aligned_cols=169  Identities=17%  Similarity=0.204  Sum_probs=104.5

Q ss_pred             cCCceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------ccccccc
Q psy8777          34 QGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIF  105 (291)
Q Consensus        34 ~g~~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~  105 (291)
                      ||+ |+|||+++||||||+|+|.+.+ +...++.+|||+|++|++|+++|..+|++.+++.++.+.       +.++++.
T Consensus         6 nG~-Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1iruj_           6 NGG-AVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPY   84 (204)
T ss_dssp             SCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHH
T ss_pred             CCc-eEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccchH
Confidence            675 9999999999999999998775 445667799999999999999999999999999888432       2222221


Q ss_pred             CCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCC-CcceEEEecCcEEE------EeecccccHHH
Q psy8777         106 SPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPK-TVTNLYSLTPTVGC------VMTGMQADSRY  178 (291)
Q Consensus       106 sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~-~~~kI~~i~~~~~~------~~sG~~~D~~~  178 (291)
                      .....+.+.-|..    ..       .|....++.+.       ++++ ..+.++.+++.+..      +..|    ...
T Consensus        85 ~~a~~l~~~~~~~----~~-------~p~~~~~lvaG-------~D~~~~~~~~~~~d~~g~~~~~~~~~~~G----~g~  142 (204)
T d1iruj_          85 TLMSMVANLLYEK----RF-------GPYYTEPVIAG-------LDPKTFKPFICSLDLIGCPMVTDDFVVSG----TCA  142 (204)
T ss_dssp             HHHHHHHHHHHTT----TT-------SCCSCCCEEEE-------ECTTSCCEEEEEECTTCCEEECSSEEEEE----TTH
T ss_pred             HHHHHHHHHHHHh----hh-------ccceeEEEEEE-------EcCCCCceEEEEecCCCceeeecceEEec----hhH
Confidence            1111111111111    01       12332233322       3333 35678899998853      2333    333


Q ss_pred             HHHHHHHHHHHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         179 QVQRARYEAASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       179 ~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ...+..++.     .+..+|+.+++.+.+.+.+.....+.....-.+.+.++
T Consensus       143 ~~~~~~l~~-----~~~~~ms~~ea~~l~~~al~~a~~rd~~sg~~~~v~ii  189 (204)
T d1iruj_         143 EQMYGMCES-----LWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVHII  189 (204)
T ss_dssp             HHHHHHHHH-----HCCSSCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEE
T ss_pred             HHHHHHHHh-----ccccCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEE
Confidence            333333333     45568999999987777665554444434444555544

>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=99.62  E-value=5e-16  Score=130.25  Aligned_cols=165  Identities=12%  Similarity=0.054  Sum_probs=100.8

Q ss_pred             ceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccc-------cccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGF-------DRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~y-------d~~~~~~sp~  108 (291)
                      ||+|||+++||||||+|+|.+++ ++..++.+||++|++|++|+++|..+|+|.+++.++.+.       +..+++....
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            69999999999999999998764 666677899999999999999999999999998887432       2222221111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEe--ec-ccccHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVM--TG-MQADSRYQVQRARY  185 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~--sG-~~~D~~~~~~~~~~  185 (291)
                      -.+.+.-|.....        ..++.....+.+..-  ....+...+|+||.++|.+....  ++ .+.++++......+
T Consensus        81 ~~~~~~~~~~~~~--------~~~~~~~~~~~~g~~--~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~L  150 (224)
T d1q5qh_          81 NRLASMVRGNLGA--------AMQGLAVVPLLVGYD--LDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSAL  150 (224)
T ss_dssp             HHHHHHHHTTHHH--------HTTTCCEEEEEEEEC--TTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHH
T ss_pred             HHHHHHHHHhhcc--------cccCccceeeEEEee--cccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHH
Confidence            1111111111000        011222222221100  01133456799999999996421  11 22335555555544


Q ss_pred             HHHHhHhhhCCCCCHHHHHHHHHHHHHHhhh
Q psy8777         186 EAASFKYKHGYSMPIDQLCNRIADISQVYTQ  216 (291)
Q Consensus       186 e~~~~~~~~~~~~s~~~l~~~l~~~~~~~~~  216 (291)
                      +.     .++.+|+.+++.+.+.+.+.....
T Consensus       151 e~-----~~~~~mt~~ea~~l~~~al~~a~~  176 (224)
T d1q5qh_         151 KK-----IYSPDSDEETALRAAIESLYDAAD  176 (224)
T ss_dssp             HH-----HCCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HH-----hhcccCCHHHHHHHHHHHHHHHHh
Confidence            43     456799999998876666654443

>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=99.62  E-value=1.1e-15  Score=126.87  Aligned_cols=185  Identities=12%  Similarity=0.083  Sum_probs=104.2

Q ss_pred             hcCCceEEEEecCCeEEEEEeccCCCC-ccCCCCcceeEeecCcEEEEEeccccchhhhhhhhcccccccccccCCCCch
Q psy8777          33 NQGGVTSVAVKGVDTAVVATEKKVPDS-LVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAGFDRHITIFSPEGRL  111 (291)
Q Consensus        33 ~~g~~t~vgi~~~~~vv~a~~~~~~~~-l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~yd~~~~~~sp~grl  111 (291)
                      .+|+ |+|||+++||||||+|+|.+.+ +...++.+||++|++|++++++|..+|++.+++.++.+.......+...-..
T Consensus         7 ~nG~-Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (213)
T d1iru1_           7 FNGG-TILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCC-EEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             CCCc-EEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhH
Confidence            4785 9999999999999999998775 4445567999999999999999999999999998884432211111111111


Q ss_pred             hhHH-HHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEee-cccccHHHHHHHHHHHHHH
Q psy8777         112 YQVE-YAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMT-GMQADSRYQVQRARYEAAS  189 (291)
Q Consensus       112 ~qve-~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~s-G~~~D~~~~~~~~~~e~~~  189 (291)
                      ..+. +..+....-.     ..+.....+.+.       ++....+.++.+||.+.+... -.+.++........++...
T Consensus        86 ~~~~~~~~~~~~~~~-----~~~~~~~~~~~g-------~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~  153 (213)
T d1iru1_          86 GAIAAMLSTILYSRR-----FFPYYVYNIIGG-------LDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQV  153 (213)
T ss_dssp             HHHHHHHHHHHHTTT-----TSCCCEEEEEEE-------ECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHH-----hhhcccccceEE-------EecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhh
Confidence            1111 1111111100     012222222222       445667899999998865311 1111233333333333321


Q ss_pred             hH----hhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         190 FK----YKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       190 ~~----~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                      ..    ..+..+++.+++.+.+.+.+.....+.......+++.++
T Consensus       154 ~~~~~~~~~~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i  198 (213)
T d1iru1_         154 GFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIV  198 (213)
T ss_dssp             TCCSCSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEE
T ss_pred             cccchhcccccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEE
Confidence            10    122357999999887666654443333222333444443

>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=99.60  E-value=5.5e-15  Score=120.91  Aligned_cols=173  Identities=6%  Similarity=0.023  Sum_probs=106.3

Q ss_pred             ceEEEEecCCeEEEEEeccCCCCc-cCCCCcceeEeecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCC
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPDSL-VDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPE  108 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~~l-~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~  108 (291)
                      +|+|||+++||||||+|+|.+.+. ..+++.+|||+|+++++++++|..+|++.+++.++.+       ++..++.....
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            589999999999999999987654 4445679999999999999999999999999988843       22233222111


Q ss_pred             CchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEee-cccccHHHHHHHHHHHH
Q psy8777         109 GRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMT-GMQADSRYQVQRARYEA  187 (291)
Q Consensus       109 grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~s-G~~~D~~~~~~~~~~e~  187 (291)
                      ..+....|..  ..+..       +....++.+.       ++...++.+|.++|.+.+... -.+.+..+......++.
T Consensus        82 ~~l~~~~~~~--~~~~~-------~~~~~~~~aG-------~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~  145 (199)
T d1iruk_          82 NFTRRNLADC--LRSRT-------PYHVNLLLAG-------YDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDR  145 (199)
T ss_dssp             HHHHHHHHHH--HTSSS-------CCCEEEEEEE-------EETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--hhccC-------Ccceeeeecc-------eeccCCceEEeecccceEEeeeeeeecccchhhhHHHHH
Confidence            1111111211  11111       2222223322       444567899999999975421 11233555444444443


Q ss_pred             HHhHhhhCCCCCHHHHHHHHHHHHHHhhhcCcceeeeeeeeEE
Q psy8777         188 ASFKYKHGYSMPIDQLCNRIADISQVYTQNAEMRPLGCSMILI  230 (291)
Q Consensus       188 ~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~~~~~p~~~~~li~  230 (291)
                           .+..+++.+++.+.+...+.....+.....-.+++.++
T Consensus       146 -----~~~~~~~~~ea~~l~~~al~~~~~~d~~sg~~~~v~vv  183 (199)
T d1iruk_         146 -----YYTPTISRERAVELLRKCLEELQKRFILNLPTFSVRII  183 (199)
T ss_dssp             -----HCCTTCCHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEE
T ss_pred             -----hccCCCCHHHHHHHHHHHHHHHHHhcCCcCCceEEEEE
Confidence                 34568999999887776665554443333333444443

>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=99.43  E-value=6.4e-14  Score=118.76  Aligned_cols=83  Identities=34%  Similarity=0.608  Sum_probs=77.6

Q ss_pred             ccccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEEeeccccc
Q psy8777          96 AGFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCVMTGMQAD  175 (291)
Q Consensus        96 ~~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~~sG~~~D  175 (291)
                      +.||+++++|+|+|||+|+|||++++++|+ +++|+++++||||++|++.+.+++..++.+|||+|+++++++++|+.+|
T Consensus         5 ~~yd~~~t~Fsp~Grl~QvEYa~~av~~G~-t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D   83 (245)
T d1irug_           5 TGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLAD   83 (245)
T ss_dssp             SSTTSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHHH
T ss_pred             cccCCCCceECCCCeehHHHHHHHHHHcCC-cEEEEEeCCEEEEEEeccccccccccCccceEEEcCCCEEEEeccCchh
Confidence            579999999999999999999999999998 9999999999999999998877777778899999999999999999999


Q ss_pred             HHHH
Q psy8777         176 SRYQ  179 (291)
Q Consensus       176 ~~~~  179 (291)
                      ++.+
T Consensus        84 ~~~l   87 (245)
T d1irug_          84 ARSL   87 (245)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8754

>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=99.23  E-value=7e-12  Score=106.32  Aligned_cols=143  Identities=9%  Similarity=0.080  Sum_probs=87.8

Q ss_pred             ecCcEEEEEeccccchhhhhhhhccc-------ccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeecc
Q psy8777          72 LTPTVGCVMTGMQADSRYQVQRARAG-------FDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKK  144 (291)
Q Consensus        72 i~~~~~~~~~G~~~D~~~~~~~~~~~-------yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~  144 (291)
                      |++|++|+++|+.+|++.+++.+|.+       |+..+++-...-++..+       .+..+...+.+|....+|.+.  
T Consensus        67 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~-------~~~~~~~~~~rP~~~~~li~G--  137 (250)
T d1iruc_          67 LNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDI-------KQAYTQFGGKRPFGVSLLYIG--  137 (250)
T ss_dssp             CSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHH-------HHHTTTBSSCCCCCEEEEEEE--
T ss_pred             CCCcEEEEeecccchHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHH-------HHHHhhhccCCcceEEEEEEE--
Confidence            37899999999999999999999843       33333321111111111       111113345678887776665  


Q ss_pred             CCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCC-CCCHHHHHHHHHHHHHHhhhcCccee
Q psy8777         145 VPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGY-SMPIDQLCNRIADISQVYTQNAEMRP  222 (291)
Q Consensus       145 ~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~-~~s~~~l~~~l~~~~~~~~~~~~~~p  222 (291)
                           ++++.+|+||.+||.|.+. +...+.+.++......++.     .++. +|+.+++++.+.+.+.....+.....
T Consensus       138 -----~D~~~gp~Ly~~Dp~G~~~~~~~~a~G~gs~~a~~~Le~-----~y~~~~ms~eeai~la~~al~~~~~~d~~~~  207 (250)
T d1iruc_         138 -----WDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQ-----DYKEGEMTLKSALALAIKVLNKTMDVSKLSA  207 (250)
T ss_dssp             -----EETTTEEEEEEEETTTEEEECSEEEESTTTTHHHHHHHH-----HCCTTCCCHHHHHHHHHHHHHHSSSCTTCCS
T ss_pred             -----EcCCCCCEEEEEcccccEeeeeEEEeCcChHHHHHHHHh-----hcccCCCCHHHHHHHHHHHHHHHhcccCCCC
Confidence                 5556789999999999763 2222223444333333332     3343 69999999977666655444555666


Q ss_pred             eeeeeeEEEEe
Q psy8777         223 LGCSMILISYD  233 (291)
Q Consensus       223 ~~~~~li~G~d  233 (291)
                      ..+++.++..|
T Consensus       208 ~~iei~ii~~~  218 (250)
T d1iruc_         208 EKVEIATLTRE  218 (250)
T ss_dssp             TTCEEEEEECC
T ss_pred             CeEEEEEEEcC
Confidence            67787777554

>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=99.14  E-value=1.7e-11  Score=103.37  Aligned_cols=74  Identities=35%  Similarity=0.654  Sum_probs=68.6

Q ss_pred             cccccccccCCCCchhhHHHHHhhhcCCceeEEEEecccEEEEEeeccCCCcccCC-CCcceEEEecCcEEEEeec
Q psy8777          97 GFDRHITIFSPEGRLYQVEYAFKAINQGGVTSVAVKGVDTAVVATEKKVPDSLVDP-KTVTNLYSLTPTVGCVMTG  171 (291)
Q Consensus        97 ~yd~~~~~~sp~grl~qve~~~~~~~~g~~~~igi~~~~~vvl~~d~~~~~~l~~~-~~~~kI~~i~~~~~~~~sG  171 (291)
                      .||+++++|||+||++|||||.+++++|+ +++|++++++|||++|++.+.+++.. .+.+|||+|+++++++++|
T Consensus         1 gyd~~~t~fsp~Grl~QvEya~kav~~G~-tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG   75 (241)
T d1rypd_           1 GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSG   75 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEE
T ss_pred             CCCCCCceECCCCcEeHHHHHHHHHHcCC-CEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeee
Confidence            49999999999999999999999999998 99999999999999999998766543 4668999999999999999

>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=99.14  E-value=9e-11  Score=98.96  Aligned_cols=92  Identities=9%  Similarity=0.077  Sum_probs=57.5

Q ss_pred             EecccEEEEEeeccCCCcccCCCCcceEEEecCcEEEE-eecccccHHHHHHHHHHHHHHhHhhhCCCCCHHHHHHHHHH
Q psy8777         131 VKGVDTAVVATEKKVPDSLVDPKTVTNLYSLTPTVGCV-MTGMQADSRYQVQRARYEAASFKYKHGYSMPIDQLCNRIAD  209 (291)
Q Consensus       131 i~~~~~vvl~~d~~~~~~l~~~~~~~kI~~i~~~~~~~-~sG~~~D~~~~~~~~~~e~~~~~~~~~~~~s~~~l~~~l~~  209 (291)
                      .+|....++.+.       ++++.+|+||.+||.|.+. ....+.+..+......++.     .|.++|+.++++..+.+
T Consensus       127 ~rP~~~~~ll~G-------~d~~~gp~Ly~id~~Gs~~~~~~~a~G~g~~~a~~~Le~-----~~~~~ms~eeai~l~~~  194 (244)
T d1rypc_         127 LRPFGVSFIYAG-------YDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQM-----DYKDDMKVDDAIELALK  194 (244)
T ss_dssp             CCCCCEEEEEEE-------EETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHHHHHH-----HCCTTCCHHHHHHHHHH
T ss_pred             cCccceeEEEEE-------EecCCCceEEEecCCCcEeeeeeeeccchhHHHHHHHHh-----cccCCCCHHHHHHHHHH
Confidence            456655555443       4556789999999999652 1122222444333333333     35568999999997776


Q ss_pred             HHHHhhhcCcceeeeeeeeEEEEeC
Q psy8777         210 ISQVYTQNAEMRPLGCSMILISYDE  234 (291)
Q Consensus       210 ~~~~~~~~~~~~p~~~~~li~G~d~  234 (291)
                      .+....++.......+++.++.-+.
T Consensus       195 al~~a~~~d~~~~~~iei~ii~~~~  219 (244)
T d1rypc_         195 TLSKTTDSSALTYDRLEFATIRKGA  219 (244)
T ss_dssp             HHHHHCSSSSCCGGGEEEEEEECCS
T ss_pred             HHHHHHhccCCCCCcEEEEEEECCC
Confidence            6655555555566678888886653

>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=99.00  E-value=5.7e-10  Score=88.54  Aligned_cols=59  Identities=12%  Similarity=-0.034  Sum_probs=52.7

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhhhhhhhc
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRYQVQRAR   95 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~~~~~~~   95 (291)
                      ||+|||+++||||||+|+|.+. .++..++.+||++|++++.++.+|..+|.+.+.....
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~   60 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF   60 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHH
Confidence            6999999999999999999876 5777788899999999999999999999987766544

>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=98.97  E-value=6.6e-10  Score=89.01  Aligned_cols=61  Identities=20%  Similarity=0.110  Sum_probs=49.8

Q ss_pred             CceEEEEecCCeEEEEEeccCCC-CccCC-CCcceeEeecCc-EEEEEeccccchhhhhhhhcc
Q psy8777          36 GVTSVAVKGVDTAVVATEKKVPD-SLVDP-KTVTNLYSLTPT-VGCVMTGMQADSRYQVQRARA   96 (291)
Q Consensus        36 ~~t~vgi~~~~~vv~a~~~~~~~-~l~~~-~~~~ki~~i~~~-~~~~~~G~~~D~~~~~~~~~~   96 (291)
                      |||+|||+++||||||+|+|.+. ++... ...+|+++++++ ++++.+|..+|.+.+.+..+.
T Consensus         5 GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~   68 (180)
T d2z3ba1           5 ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEA   68 (180)
T ss_dssp             CCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHH
T ss_pred             CeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHH
Confidence            37999999999999999999875 34433 456899999875 888889999999988776653

>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=98.52  E-value=2.1e-08  Score=79.35  Aligned_cols=53  Identities=15%  Similarity=0.040  Sum_probs=42.3

Q ss_pred             ceEEEEecCCeEEEEEeccCCC-CccCCCCcceeEeecCcEEEEEeccccchhh
Q psy8777          37 VTSVAVKGVDTAVVATEKKVPD-SLVDPKTVTNLYSLTPTVGCVMTGMQADSRY   89 (291)
Q Consensus        37 ~t~vgi~~~~~vv~a~~~~~~~-~l~~~~~~~ki~~i~~~~~~~~~G~~~D~~~   89 (291)
                      ||+|||+++||||||+|+|.+. .++.+++.+||++|++++.++.+|..+|.+.
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~   54 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAF   54 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHH
Confidence            6899999999999999999876 5677788899999988855554444444443

>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=83.69  E-value=0.72  Score=26.93  Aligned_cols=34  Identities=21%  Similarity=0.308  Sum_probs=30.4

Q ss_pred             EecCCchHHHHHHHHhccCCCCCCHHHHHHHHHhhC
Q psy8777         256 SVGVKTTEANSYLEKKFKKKTNYTGDETIQLAISCL  291 (291)
Q Consensus       256 a~G~gs~~~~~~Le~~~~~~~~~t~~eai~l~~~~l  291 (291)
                      +.|+....+...+.+..++  +++.||.|+.++++|
T Consensus        14 ~LGY~~~ea~~av~~i~~~--~~s~E~lIk~ALk~m   47 (48)
T d1cuka1          14 ALGYKPQEASRMVSKIARP--DASSETLIREALRAA   47 (48)
T ss_dssp             HHTCCHHHHHHHHHHSCCS--SCCHHHHHHHHHHTT
T ss_pred             HcCCCHHHHHHHHHHhcCC--CCCHHHHHHHHHHHh
Confidence            4688899999999999888  999999999999875