Psyllid ID: psy6667

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-
Protein Sequence
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHccccEEEEEcccEEEEEEEccccccccccccccEEEccccEEEEEEccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccEEHHHHHHHHHHHHcccEEEEEccccEEEEEEcccccccEHHHccccEEEEccEEEEEEEcHHHHHHHHHHHHHHHHccHHHHcccccHHHHHHHHHHHHHHHHHcEc
Coil and Loop (DISEMBL)
PSGKLVQIEYALAAVEagapsvgikasngivLATEKkqktilfedcihkvepitDYIGMvysgmgpdYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS
Flexible Loop (DISEMBL)
PSGKLVQIEYALAAveagapsvgikasNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS
Low Complexity Region (SEG)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS
Disordered region (IsUnstruct)
****LVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIM********
Disordered Region (DISOPRED)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS**
Disordered Region (DISEMBL)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS
Disordered Region (DISPRO)
*SGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYT*S**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	111	2.2.26 [Sep-21-2011]
P17220	234	Proteasome subunit alpha	yes	N/A	0.990	0.470	0.801	1e-45
P49722	234	Proteasome subunit alpha	yes	N/A	0.990	0.470	0.801	1e-45
P25787	234	Proteasome subunit alpha	yes	N/A	0.990	0.470	0.801	1e-45
Q3T0Y5	234	Proteasome subunit alpha	yes	N/A	0.990	0.470	0.801	1e-45
O73672	234	Proteasome subunit alpha	N/A	N/A	0.990	0.470	0.819	3e-42
P24495	234	Proteasome subunit alpha	N/A	N/A	0.990	0.470	0.819	1e-41
P40301	234	Proteasome subunit alpha	yes	N/A	0.990	0.470	0.729	4e-40
Q10KF0	235	Proteasome subunit alpha	yes	N/A	0.990	0.468	0.612	1e-32
A2YVR7	235	Proteasome subunit alpha	N/A	N/A	0.990	0.468	0.612	1e-32
Q27488	231	Proteasome subunit alpha	yes	N/A	0.972	0.467	0.627	7e-32

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

 Score =  181 bits (459), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. PSMA2 may have a potential regulatory effect on another component(s) of the proteasome complex through tyrosine phosphorylation.
Rattus norvegicus (taxid: 10116)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

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

 Score =  181 bits (459), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

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

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  181 bits (459), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

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

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  181 bits (459), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

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

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  169 bits (429), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 91/111 (81%), Positives = 103/111 (92%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV AGAPSVGIKASNG+VLATEKKQK+IL+ E  +HK+EPIT +IGM
Sbjct: 15  PSGKLVQIEYALAAVAAGAPSVGIKASNGVVLATEKKQKSILYDEQSVHKIEPITKHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQEYTQSG 125

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

Carassius auratus (taxid: 7957)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P24495|PSA2_XENLA Proteasome subunit alpha type-2 OS=Xenopus laevis GN=psma2 PE=2 SV=2

 Score =  168 bits (425), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 91/111 (81%), Positives = 102/111 (91%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV AGAPSVGIKA+NG+VLATEKKQK+IL+ E   HKVEPIT +IGM
Sbjct: 15  PSGKLVQIEYALAAVAAGAPSVGIKATNGVVLATEKKQKSILYDEQSAHKVEPITKHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVRRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

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

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P40301|PSA2_DROME Proteasome subunit alpha type-2 OS=Drosophila melanogaster GN=Pros25 PE=1 SV=1

 Score =  163 bits (412), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 81/111 (72%), Positives = 93/111 (83%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           PSGKLVQ+EYALAAV  GAPSVGI ASNG+V+ATE K K+ L+E   +H+VE I ++IGM
Sbjct: 15  PSGKLVQLEYALAAVSGGAPSVGIIASNGVVIATENKHKSPLYEQHSVHRVEMIYNHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYRLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSG
Sbjct: 75  VYSGMGPDYRLLVKQARKIAQTYYLTYKEPIPVSQLVQRVATLMQEYTQSG 125

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

 Score =  138 bits (347), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 68/111 (61%), Positives = 89/111 (80%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIE+AL AV +G  S+GIKA+NG+V+ATEKK  +IL  E  + K++ +T  IG+
Sbjct: 15  PSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDETSVQKIQSLTPNIGV 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPD+R+LV+K+RK AQQY  +Y+E IP  QLV+  AA+MQE+TQSG
Sbjct: 75  VYSGMGPDFRVLVRKSRKQAQQYYRLYKETIPVTQLVRETAAVMQEFTQSG 125

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

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  138 bits (347), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 68/111 (61%), Positives = 89/111 (80%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIE+AL AV +G  S+GIKA+NG+V+ATEKK  +IL  E  + K++ +T  IG+
Sbjct: 15  PSGKLVQIEHALTAVGSGQTSLGIKAANGVVIATEKKLPSILVDETSVQKIQSLTPNIGV 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPD+R+LV+K+RK AQQY  +Y+E IP  QLV+  AA+MQE+TQSG
Sbjct: 75  VYSGMGPDFRVLVRKSRKQAQQYYRLYKETIPVTQLVRETAAVMQEFTQSG 125

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

Oryza sativa subsp. indica (taxid: 39946)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q27488|PSA2_CAEEL Proteasome subunit alpha type-2 OS=Caenorhabditis elegans GN=pas-2 PE=1 SV=1

 Score =  135 bits (340), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 69/110 (62%), Positives = 89/110 (80%), Gaps = 2/110 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           PSGKL+QIEYAL AV+ G PSVG++A +G+VLATE    ++L +D   KVE I+ +IG V
Sbjct: 14  PSGKLMQIEYALNAVKNGQPSVGLRAKDGVVLATENV-GSVLTDD-QPKVEQISKHIGCV 71

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           YSGMGPD+R+LVKKARKIA +Y+++Y E +PT QLV  +AA+MQEYTQSG
Sbjct: 72  YSGMGPDFRILVKKARKIAMEYEMMYGEEMPTIQLVTDIAAVMQEYTQSG 121

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

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	111
209732752	254	Proteasome subunit alpha type-2 [Salmo s	0.990	0.433	0.801	1e-44
12850076	234	unnamed protein product [Mus musculus]	0.990	0.470	0.801	3e-44
395838640	234	PREDICTED: proteasome subunit alpha type	0.990	0.470	0.801	5e-44
21465643	233	Chain B, Crystal Structure Of The Mammal	0.990	0.472	0.801	5e-44
8394063	234	proteasome subunit alpha type-2 [Rattus	0.990	0.470	0.801	5e-44
378792303	234	Chain A, Mouse Constitutive 20s Proteaso	0.990	0.470	0.801	5e-44
4506181	234	proteasome subunit alpha type-2 [Homo sa	0.990	0.470	0.801	5e-44
62897513	234	proteasome alpha 2 subunit variant [Homo	0.990	0.470	0.801	5e-44
209731336	234	Proteasome subunit alpha type-2 [Salmo s	0.990	0.470	0.801	5e-44
209733418	140	Proteasome subunit alpha type-2 [Salmo s	0.990	0.785	0.801	5e-44

>gi|209732752|gb|ACI67245.1| Proteasome subunit alpha type-2 [Salmo salar]

 Score =  183 bits (464), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 102/111 (91%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAP+VGIKASNG+VLATEKKQK+IL+ E  +HKVEPIT +IGM
Sbjct: 35  PSGKLVQIEYALAAVATGAPAVGIKASNGVVLATEKKQKSILYDETSVHKVEPITKHIGM 94

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+L+++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 95  VYSGMGPDYRVLLRRARKLAQQYFLVYQEPIPTAQLVQRVASVMQEYTQSG 145

Source: Salmo salar

Species: Salmo salar

Genus: Salmo

Family: Salmonidae

Order: Salmoniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|12850076|dbj|BAB28582.1| unnamed protein product [Mus musculus]

 Score =  181 bits (460), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVRGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|395838640|ref|XP_003792220.1| PREDICTED: proteasome subunit alpha type-2-like [Otolemur garnettii]

 Score =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

Source: Otolemur garnettii

Species: Otolemur garnettii

Genus: Otolemur

Family: Galagidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|21465643|pdb|1IRU|B Chain B, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution gi|21465657|pdb|1IRU|P Chain P, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution

 Score =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 14  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 73

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 74  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 124

Source: Bos taurus

Species: Bos taurus

Genus: Bos

Family: Bovidae

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|8394063|ref|NP_058975.1| proteasome subunit alpha type-2 [Rattus norvegicus] gi|134031994|ref|NP_032970.2| proteasome subunit alpha type-2 [Mus musculus] gi|130851|sp|P17220.3|PSA2_RAT RecName: Full=Proteasome subunit alpha type-2; AltName: Full=Macropain subunit C3; AltName: Full=Multicatalytic endopeptidase complex subunit C3; AltName: Full=Proteasome component C3 gi|410516940|sp|P49722.3|PSA2_MOUSE RecName: Full=Proteasome subunit alpha type-2; AltName: Full=Macropain subunit C3; AltName: Full=Multicatalytic endopeptidase complex subunit C3; AltName: Full=Proteasome component C3 gi|5757867|gb|AAD50623.1|AF099733_1 proteasome subunit C3 [Mus musculus] gi|203203|gb|AAA40838.1| proteasome component C3 protein [Rattus norvegicus] gi|12848669|dbj|BAB28045.1| unnamed protein product [Mus musculus] gi|20070847|gb|AAH26768.1| Proteasome (prosome, macropain) subunit, alpha type 2 [Mus musculus] gi|26330760|dbj|BAC29110.1| unnamed protein product [Mus musculus] gi|74150581|dbj|BAE32314.1| unnamed protein product [Mus musculus] gi|74198623|dbj|BAE39787.1| unnamed protein product [Mus musculus] gi|74207151|dbj|BAE30769.1| unnamed protein product [Mus musculus] gi|74225230|dbj|BAE31553.1| unnamed protein product [Mus musculus] gi|148700791|gb|EDL32738.1| proteasome (prosome, macropain) subunit, alpha type 2 [Mus musculus] gi|149032537|gb|EDL87415.1| rCG45322 [Rattus norvegicus]

 Score =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

Source: Rattus norvegicus

Species: Rattus norvegicus

Genus: Rattus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|378792303|pdb|3UNB|A Chain A, Mouse Constitutive 20s Proteasome In Complex With Pr-957 gi|378792317|pdb|3UNB|O Chain O, Mouse Constitutive 20s Proteasome In Complex With Pr-957 gi|378792331|pdb|3UNB|CC Chain c, Mouse Constitutive 20s Proteasome In Complex With Pr-957 gi|378792345|pdb|3UNB|QQ Chain q, Mouse Constitutive 20s Proteasome In Complex With Pr-957 gi|378792359|pdb|3UNE|A Chain A, Mouse Constitutive 20s Proteasome gi|378792373|pdb|3UNE|O Chain O, Mouse Constitutive 20s Proteasome gi|378792387|pdb|3UNE|CC Chain c, Mouse Constitutive 20s Proteasome gi|378792401|pdb|3UNE|QQ Chain q, Mouse Constitutive 20s Proteasome gi|378792415|pdb|3UNF|A Chain A, Mouse 20s Immunoproteasome In Complex With Pr-957 gi|378792429|pdb|3UNF|O Chain O, Mouse 20s Immunoproteasome In Complex With Pr-957 gi|378792443|pdb|3UNH|A Chain A, Mouse 20s Immunoproteasome gi|378792457|pdb|3UNH|O Chain O, Mouse 20s Immunoproteasome gi|897784|emb|CAA49782.1| proteasome, 25 kDa subunit [Mus musculus]

 Score =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|4506181|ref|NP_002778.1| proteasome subunit alpha type-2 [Homo sapiens] gi|77736269|ref|NP_001029834.1| proteasome subunit alpha type-2 [Bos taurus] gi|388453733|ref|NP_001253810.1| proteasome subunit alpha type-2 [Macaca mulatta] gi|73981673|ref|XP_533078.2| PREDICTED: proteasome subunit alpha type-2 isoform 1 [Canis lupus familiaris] gi|114613026|ref|XP_528026.2| PREDICTED: proteasome subunit alpha type-2 [Pan troglodytes] gi|291394714|ref|XP_002713818.1| PREDICTED: proteasome alpha 2 subunit [Oryctolagus cuniculus] gi|296209134|ref|XP_002751405.1| PREDICTED: proteasome subunit alpha type-2-like [Callithrix jacchus] gi|297680577|ref|XP_002818066.1| PREDICTED: proteasome subunit alpha type-2 [Pongo abelii] gi|301776050|ref|XP_002923446.1| PREDICTED: proteasome subunit alpha type-2-like [Ailuropoda melanoleuca] gi|332239355|ref|XP_003268869.1| PREDICTED: proteasome subunit alpha type-2 isoform 1 [Nomascus leucogenys] gi|348568716|ref|XP_003470144.1| PREDICTED: proteasome subunit alpha type-2-like [Cavia porcellus] gi|350595475|ref|XP_003360255.2| PREDICTED: proteasome subunit alpha type-2-like [Sus scrofa] gi|354488607|ref|XP_003506459.1| PREDICTED: proteasome subunit alpha type-2-like [Cricetulus griseus] gi|395850012|ref|XP_003797596.1| PREDICTED: proteasome subunit alpha type-2 [Otolemur garnettii] gi|397474539|ref|XP_003808734.1| PREDICTED: proteasome subunit alpha type-2 isoform 1 [Pan paniscus] gi|397474541|ref|XP_003808735.1| PREDICTED: proteasome subunit alpha type-2 isoform 2 [Pan paniscus] gi|397474543|ref|XP_003808736.1| PREDICTED: proteasome subunit alpha type-2 isoform 3 [Pan paniscus] gi|402863653|ref|XP_003896120.1| PREDICTED: proteasome subunit alpha type-2 [Papio anubis] gi|403278437|ref|XP_003930812.1| PREDICTED: proteasome subunit alpha type-2 [Saimiri boliviensis boliviensis] gi|410952004|ref|XP_003982680.1| PREDICTED: proteasome subunit alpha type-2 [Felis catus] gi|426227887|ref|XP_004008046.1| PREDICTED: proteasome subunit alpha type-2 [Ovis aries] gi|426356018|ref|XP_004045389.1| PREDICTED: proteasome subunit alpha type-2 [Gorilla gorilla gorilla] gi|130850|sp|P25787.2|PSA2_HUMAN RecName: Full=Proteasome subunit alpha type-2; AltName: Full=Macropain subunit C3; AltName: Full=Multicatalytic endopeptidase complex subunit C3; AltName: Full=Proteasome component C3 gi|108860903|sp|Q3T0Y5.3|PSA2_BOVIN RecName: Full=Proteasome subunit alpha type-2 gi|220024|dbj|BAA00657.1| proteasome subunit C3 [Homo sapiens] gi|29126971|gb|AAH47697.1| Proteasome (prosome, macropain) subunit, alpha type, 2 [Homo sapiens] gi|47496581|emb|CAG29313.1| PSMA2 [Homo sapiens] gi|51094758|gb|EAL24005.1| proteasome (prosome, macropain) subunit, alpha type, 2 [Homo sapiens] gi|74268007|gb|AAI02207.1| Proteasome (prosome, macropain) subunit, alpha type, 2 [Bos taurus] gi|119614558|gb|EAW94152.1| proteasome (prosome, macropain) subunit, alpha type, 2, isoform CRA_b [Homo sapiens] gi|119614559|gb|EAW94153.1| proteasome (prosome, macropain) subunit, alpha type, 2, isoform CRA_b [Homo sapiens] gi|158254740|dbj|BAF83343.1| unnamed protein product [Homo sapiens] gi|261860700|dbj|BAI46872.1| proteasome (prosome, macropain) subunit, alpha type, 2 [synthetic construct] gi|296488326|tpg|DAA30439.1| TPA: proteasome subunit alpha type-2 [Bos taurus] gi|312153106|gb|ADQ33065.1| proteasome (prosome, macropain) subunit, alpha type, 2 [synthetic construct] gi|344239586|gb|EGV95689.1| Proteasome subunit alpha type-2 [Cricetulus griseus] gi|351706688|gb|EHB09607.1| Proteasome subunit alpha type-2 [Heterocephalus glaber] gi|355759323|gb|EHH61595.1| Proteasome subunit alpha type-2 [Macaca fascicularis] gi|380814772|gb|AFE79260.1| proteasome subunit alpha type-2 [Macaca mulatta] gi|410262388|gb|JAA19160.1| proteasome (prosome, macropain) subunit, alpha type, 2 [Pan troglodytes] gi|410288532|gb|JAA22866.1| proteasome (prosome, macropain) subunit, alpha type, 2 [Pan troglodytes] gi|417515732|gb|JAA53677.1| proteasome subunit alpha type-2 [Sus scrofa] gi|431839371|gb|ELK01297.1| Proteasome subunit alpha type-2 [Pteropus alecto] gi|432112392|gb|ELK35188.1| Proteasome subunit alpha type-2 [Myotis davidii]

 Score =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

Source: Homo sapiens

Species: Homo sapiens

Genus: Homo

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|62897513|dbj|BAD96696.1| proteasome alpha 2 subunit variant [Homo sapiens]

 Score =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

Source: Homo sapiens

Species: Homo sapiens

Genus: Homo

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|209731336|gb|ACI66537.1| Proteasome subunit alpha type-2 [Salmo salar]

 Score =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 102/111 (91%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYAL+AV AGAPSVGIKASNG+VLATEKKQK+IL+ E  +HKVE IT +IGM
Sbjct: 15  PSGKLVQIEYALSAVAAGAPSVGIKASNGVVLATEKKQKSILYDETSVHKVEMITKHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+L+++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLLRRARKLAQQYFLVYQEPIPTAQLVQRVASVMQEYTQSG 125

Source: Salmo salar

Species: Salmo salar

Genus: Salmo

Family: Salmonidae

Order: Salmoniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|209733418|gb|ACI67578.1| Proteasome subunit alpha type-2 [Salmo salar] gi|303661297|gb|ADM16029.1| Proteasome subunit alpha type-2 [Salmo salar]

 Score =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 102/111 (91%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYAL+AV AGAPSVGIKASNG+VLATEKKQK+IL+ E  +HKVE IT +IGM
Sbjct: 15  PSGKLVQIEYALSAVAAGAPSVGIKASNGVVLATEKKQKSILYDETSVHKVEMITKHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+L+++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLLRRARKLAQQYFLVYQEPIPTAQLVQRVASVMQEYTQSG 125

Source: Salmo salar

Species: Salmo salar

Genus: Salmo

Family: Salmonidae

Order: Salmoniformes

Class: Actinopterygii

Phylum: Chordata

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	111
ZFIN|ZDB-GENE-050522-479	234	psma2 "proteasome (prosome, ma	0.990	0.470	0.828	1e-43
ZFIN|ZDB-GENE-060503-941	234	si:rp71-45k5.4 "si:rp71-45k5.4	0.990	0.470	0.828	1e-43
UNIPROTKB|O73672	234	psma2 "Proteasome subunit alph	0.990	0.470	0.819	1.3e-43
UNIPROTKB|P24495	234	psma2 "Proteasome subunit alph	0.990	0.470	0.819	3.5e-43
UNIPROTKB|Q3T0Y5	234	PSMA2 "Proteasome subunit alph	0.990	0.470	0.792	1.9e-42
UNIPROTKB|P25787	234	PSMA2 "Proteasome subunit alph	0.990	0.470	0.792	1.9e-42
UNIPROTKB|I3LAB6	234	LOC100620420 "Proteasome subun	0.990	0.470	0.792	1.9e-42
MGI|MGI:104885	234	Psma2 "proteasome (prosome, ma	0.990	0.470	0.792	1.9e-42
RGD|61842	234	Psma2 "proteasome (prosome, ma	0.990	0.470	0.792	1.9e-42
UNIPROTKB|E1C006	234	PSMA2 "Proteasome subunit alph	0.990	0.470	0.783	4e-42

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

 Score = 461 (167.3 bits), Expect = 1.0e-43, P = 1.0e-43
 Identities = 92/111 (82%), Positives = 103/111 (92%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV AGAPSVGIKASNG+VLATEKKQK+IL+ E  +HKVEPIT +IGM
Sbjct:    15 PSGKLVQIEYALAAVAAGAPSVGIKASNGVVLATEKKQKSILYDEQSVHKVEPITKHIGM 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQEYTQSG 125

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

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

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

 Score = 461 (167.3 bits), Expect = 1.0e-43, P = 1.0e-43
 Identities = 92/111 (82%), Positives = 103/111 (92%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV AGAPSVGIKASNG+VLATEKKQK+IL+ E  +HKVEPIT +IGM
Sbjct:    15 PSGKLVQIEYALAAVAAGAPSVGIKASNGVVLATEKKQKSILYDEQSVHKVEPITKHIGM 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQEYTQSG 125

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

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

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

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

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

 Score = 460 (167.0 bits), Expect = 1.3e-43, P = 1.3e-43
 Identities = 91/111 (81%), Positives = 103/111 (92%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV AGAPSVGIKASNG+VLATEKKQK+IL+ E  +HK+EPIT +IGM
Sbjct:    15 PSGKLVQIEYALAAVAAGAPSVGIKASNGVVLATEKKQKSILYDEQSVHKIEPITKHIGM 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQEYTQSG 125

GO:0005839 "proteasome core complex" evidence=ISS

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

 Score = 456 (165.6 bits), Expect = 3.5e-43, P = 3.5e-43
 Identities = 91/111 (81%), Positives = 102/111 (91%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV AGAPSVGIKA+NG+VLATEKKQK+IL+ E   HKVEPIT +IGM
Sbjct:    15 PSGKLVQIEYALAAVAAGAPSVGIKATNGVVLATEKKQKSILYDEQSAHKVEPITKHIGM 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVRRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

GO:0005839 "proteasome core complex" evidence=ISS

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

 Score = 449 (163.1 bits), Expect = 1.9e-42, P = 1.9e-42
 Identities = 88/111 (79%), Positives = 102/111 (91%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+++  +HKVEPIT +IG+
Sbjct:    15 PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

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

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005634 "nucleus" evidence=IEA

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

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

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

UNIPROTKB|P25787 PSMA2 "Proteasome subunit alpha type-2" [Homo sapiens (taxid:9606)]

 Score = 449 (163.1 bits), Expect = 1.9e-42, P = 1.9e-42
 Identities = 88/111 (79%), Positives = 102/111 (91%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+++  +HKVEPIT +IG+
Sbjct:    15 PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

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

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

GO:0009615 "response to virus" evidence=IEP

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

GO:0005839 "proteasome core complex" evidence=ISS

GO:0000502 "proteasome complex" 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: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:0005515 "protein binding" evidence=IPI

UNIPROTKB|I3LAB6 LOC100620420 "Proteasome subunit alpha type" [Sus scrofa (taxid:9823)]

 Score = 449 (163.1 bits), Expect = 1.9e-42, P = 1.9e-42
 Identities = 88/111 (79%), Positives = 102/111 (91%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+++  +HKVEPIT +IG+
Sbjct:    15 PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

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

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

 Score = 449 (163.1 bits), Expect = 1.9e-42, P = 1.9e-42
 Identities = 88/111 (79%), Positives = 102/111 (91%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+++  +HKVEPIT +IG+
Sbjct:    15 PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

GO:0000502 "proteasome complex" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IDA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

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

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

 Score = 449 (163.1 bits), Expect = 1.9e-42, P = 1.9e-42
 Identities = 88/111 (79%), Positives = 102/111 (91%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+++  +HKVEPIT +IG+
Sbjct:    15 PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

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

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

GO:0005634 "nucleus" evidence=IEA

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

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

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

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

UNIPROTKB|E1C006 PSMA2 "Proteasome subunit alpha type" [Gallus gallus (taxid:9031)]

 Score = 446 (162.1 bits), Expect = 4.0e-42, P = 4.0e-42
 Identities = 87/111 (78%), Positives = 102/111 (91%)

Query:     1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
             PSGKLVQIEYALAAV AGAPSVGIKA+NG+VLATEKKQK+IL+++  +HKVEPIT +IG+
Sbjct:    15 PSGKLVQIEYALAAVAAGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             VYSGMGPDYR+LV +ARK+AQQY LVY E IPT QLVQR+A++MQEYTQSG
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYFLVYHEPIPTAQLVQRIASVMQEYTQSG 125

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:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" 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)
P40301	PSA2_DROME	3, ., 4, ., 2, 5, ., 1	0.7297	0.9909	0.4700	yes	N/A
P17220	PSA2_RAT	3, ., 4, ., 2, 5, ., 1	0.8018	0.9909	0.4700	yes	N/A
P25787	PSA2_HUMAN	3, ., 4, ., 2, 5, ., 1	0.8018	0.9909	0.4700	yes	N/A
O23708	PSA2A_ARATH	3, ., 4, ., 2, 5, ., 1	0.5945	0.9909	0.4680	yes	N/A
Q8L4A7	PSA2B_ARATH	3, ., 4, ., 2, 5, ., 1	0.5945	0.9909	0.4680	yes	N/A
Q54DM7	PSA2_DICDI	3, ., 4, ., 2, 5, ., 1	0.5545	0.9909	0.4741	yes	N/A
Q27488	PSA2_CAEEL	3, ., 4, ., 2, 5, ., 1	0.6272	0.9729	0.4675	yes	N/A
Q10KF0	PSA2_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.6126	0.9909	0.4680	yes	N/A
Q3T0Y5	PSA2_BOVIN	3, ., 4, ., 2, 5, ., 1	0.8018	0.9909	0.4700	yes	N/A
P49722	PSA2_MOUSE	3, ., 4, ., 2, 5, ., 1	0.8018	0.9909	0.4700	yes	N/A
P23639	PSA2_YEAST	3, ., 4, ., 2, 5, ., 1	0.5892	0.9909	0.44	yes	N/A
O94579	PSA2_SCHPO	3, ., 4, ., 2, 5, ., 1	0.625	0.9909	0.4489	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.824
3rd Layer	3.4.25	0.766

---

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	111
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	6e-63
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	7e-50
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	3e-31
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	3e-31
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	4e-31
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	2e-29
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	6e-27
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	8e-26
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	3e-24
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	2e-23
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	2e-22
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	3e-22
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	1e-21
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	9e-21
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	8e-16
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	3e-15
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	1e-07
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	2e-06
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	3e-05

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  190 bits (484), Expect = 6e-63
 Identities = 82/111 (73%), Positives = 96/111 (86%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDC-IHKVEPITDYIGM 59
           PSGKLVQIEYALAAV +GAPSVGIKA+NG+VLATEKK  + L ++  +HKVE IT +IGM
Sbjct: 10  PSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGM 69

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPD+R+LVKKARKIAQQY LVY E IP  QLV+ +A++MQEYTQSG
Sbjct: 70  VYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSG 120

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

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

 Score =  156 bits (398), Expect = 7e-50
 Identities = 51/112 (45%), Positives = 72/112 (64%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYAL AV+ G+ +VGIK  +G+VLA EKK  + L +   + K+  I D+IG 
Sbjct: 10  PEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGC 69

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             +G+  D R+LV +AR  AQ Y+  Y E IP + LV+R+A + Q YTQ G 
Sbjct: 70  AVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGG 121

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|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score =  109 bits (274), Expect = 3e-31
 Identities = 45/111 (40%), Positives = 70/111 (63%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G  ++GIK   G+VLA +K+  + L E + I K+  I D++G 
Sbjct: 11  PDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGA 70

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             SG+  D R+L+ +AR  AQ ++L Y E I  + LV+++  + Q+YTQ G
Sbjct: 71  ATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHG 121

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|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional

 Score =  109 bits (276), Expect = 3e-31
 Identities = 44/111 (39%), Positives = 67/111 (60%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G  +VG+K  +G+VLA +K+  + L E   I K+  I D+IG 
Sbjct: 19  PDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGA 78

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             +G+  D R+L+ +AR  AQ  +L Y E I  + L +++    Q+YTQ G
Sbjct: 79  ASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHG 129

Length = 241

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

 Score =  109 bits (274), Expect = 4e-31
 Identities = 46/111 (41%), Positives = 68/111 (61%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G  +VGIK  +G+VLA +K+  + L E   I K+  I D+IG 
Sbjct: 12  PDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGA 71

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             SG+  D R+L+ +AR  AQ  +L Y E I  + L +++  + Q+YTQ G
Sbjct: 72  ATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHG 122

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

 Score =  105 bits (263), Expect = 2e-29
 Identities = 47/112 (41%), Positives = 71/112 (63%), Gaps = 3/112 (2%)

Query: 1   PSGKLVQIEYALAAVE-AGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYI 57
           P G+L Q+EYAL AV+  G  +VGIK  +G+VLA +K+     ++    + K+  I D+I
Sbjct: 12  PEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHI 71

Query: 58  GMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS 109
           GM  +G+  D ++LV+ AR  AQ Y+L Y E I  + L + ++ I+QEYTQS
Sbjct: 72  GMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS 123

Length = 236

>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score = 98.1 bits (245), Expect = 6e-27
 Identities = 43/115 (37%), Positives = 63/115 (54%), Gaps = 7/115 (6%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED----CIHKVEPITDY 56
           P G++ Q+EYA  AVE    ++GI+  +G+VLA EK   + L+E      I  V+    +
Sbjct: 13  PDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVD---RH 69

Query: 57  IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           IG+  +G+  D R LV +AR+ A+ Y+  Y   IP + L  RVA  M  YT   S
Sbjct: 70  IGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSS 124

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 = 95.5 bits (238), Expect = 8e-26
 Identities = 49/112 (43%), Positives = 66/112 (58%), Gaps = 2/112 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G+L Q+EYA+ A+      +GI A +GIVLA EKK  + L +      K+  I D+I 
Sbjct: 12  PEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIA 71

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
              +G+  D  +L+  AR IAQ+Y   YQE IP +QLVQR+  I Q YTQ G
Sbjct: 72  CAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYG 123

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|215805 pfam00227, Proteasome, Proteasome subunit

 Score = 90.7 bits (226), Expect = 3e-24
 Identities = 38/99 (38%), Positives = 57/99 (57%), Gaps = 4/99 (4%)

Query: 15  VEAGAPSVGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLL 71
           V+ G   VGIK  +G+VLA +K+      +L +D + K+  I D+IGM ++G+  D + L
Sbjct: 1   VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60

Query: 72  VKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           V  AR  AQ Y+L Y   I   +L +R+A  +Q YTQ  
Sbjct: 61  VDYARAEAQLYRLRYGRPISV-ELAKRIADKLQAYTQYS 98

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

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score = 89.0 bits (221), Expect = 2e-23
 Identities = 35/111 (31%), Positives = 64/111 (57%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           P G L Q+EYA  AV  G  +VG++  + +VL  EKK    L +   + K+  + D++ +
Sbjct: 10  PDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCL 69

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            ++G+  D R+L+ +AR   Q ++L  ++ +  + + + +A + Q YTQSG
Sbjct: 70  AFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSG 120

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score = 86.0 bits (214), Expect = 2e-22
 Identities = 35/92 (38%), Positives = 56/92 (60%), Gaps = 2/92 (2%)

Query: 21  SVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
            VGIK  +G+VLA +K+     ++    + K+  I D+IG  ++G+  D + LV++ RK 
Sbjct: 3   IVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKE 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           AQ Y+L Y E IP + L + +A ++ EYTQS 
Sbjct: 63  AQLYRLRYGEPIPVEALAKLLANLLYEYTQSL 94

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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 85.9 bits (213), Expect = 3e-22
 Identities = 38/101 (37%), Positives = 60/101 (59%), Gaps = 1/101 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA+ A++ G+ ++GIK   G+VLA EK+  + L E   + K+  I D+IG 
Sbjct: 10  PEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGC 69

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVA 100
             SG+  D R L+  AR  AQ ++  Y E +  + + Q V+
Sbjct: 70  AMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVS 110

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

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score = 84.6 bits (210), Expect = 1e-21
 Identities = 42/110 (38%), Positives = 62/110 (56%), Gaps = 2/110 (1%)

Query: 1   PSGKLVQIEYALAAVE-AGAPSVGIKASNGIVLATEKK-QKTILFEDCIHKVEPITDYIG 58
           P G+L Q+EYA  AV+ AG  SV ++  +  V+ T+KK    ++    +  +  ITD IG
Sbjct: 11  PEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIG 70

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
            V +GM  D R  V++AR  A ++K  Y   +P   L +R+A I Q YTQ
Sbjct: 71  CVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQ 120

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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score = 82.3 bits (204), Expect = 9e-21
 Identities = 38/110 (34%), Positives = 62/110 (56%), Gaps = 5/110 (4%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTIL--FEDCIHKVEPITDYIG 58
           P G+L Q+EYA+ AV+ G+ +VG+K+    VL   K+  + L  ++    K+  + D+IG
Sbjct: 10  PQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELSSYQK---KIFKVDDHIG 66

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           +  +G+  D R+L +  R+    Y+ VY   IP  +LV +VA   Q  TQ
Sbjct: 67  IAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQ 116

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|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 = 68.2 bits (167), Expect = 8e-16
 Identities = 29/92 (31%), Positives = 46/92 (50%), Gaps = 2/92 (2%)

Query: 21  SVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           SV IK   G+VLA +K+      +    + K+    D I    +G+  D + LV++ R+ 
Sbjct: 3   SVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREA 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            Q Y+L Y E I    L + +A ++Q YTQ  
Sbjct: 63  LQLYRLRYGEPISVVALAKELAKLLQVYTQGR 94

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|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional

 Score = 68.3 bits (167), Expect = 3e-15
 Identities = 37/112 (33%), Positives = 60/112 (53%), Gaps = 2/112 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYAL A+   + +VGI    G++L  +K   + L +      K+  I  +I 
Sbjct: 14  PEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIF 73

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
              +G+  D  +L+ + R  AQ+Y+  Y E  P +QLV ++  + Q YTQ G
Sbjct: 74  CAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFG 125

Length = 253

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

 Score = 46.9 bits (112), Expect = 1e-07
 Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 2/87 (2%)

Query: 22  VGIKASNGIVLATEKKQKT--ILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           VGI   +G+VLA +K+      +    + K+  I D I M  +G   D + LV+  +  A
Sbjct: 4   VGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEA 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEY 106
           + Y+L     +  + L   ++ I+   
Sbjct: 64  RLYELRRGRPMSIKALATLLSNILNSS 90

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

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

 Score = 43.7 bits (104), Expect = 2e-06
 Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 2/91 (2%)

Query: 18  GAPSVGIKASNGIVLATEKKQK--TILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G  +VGIK  +G+VLA +K+      +      KV  I DYI M  +G   D + LV+  
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEY 106
           +  A+ Y+L     +  + L   ++ I+   
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNILNSN 91

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

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

 Score = 40.5 bits (96), Expect = 3e-05
 Identities = 19/88 (21%), Positives = 40/88 (45%), Gaps = 4/88 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           VGIK  +G+VLA + +      +   +   K+  I+D I +  +G   D + L +  ++ 
Sbjct: 4   VGIKGKDGVVLAADTRASAGSLVASRNF-DKIFKISDNILLGTAGSAADTQALTRLLKRN 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEY 106
            + Y+L     +  +     ++ I+  Y
Sbjct: 63  LRLYELRNGRELSVKAAANLLSNILYSY 90

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	111
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
KOG0184|consensus	254		100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
KOG0176|consensus	241		100.0
KOG0178|consensus	249		100.0
KOG0183|consensus	249		100.0
KOG0182|consensus	246		100.0
KOG0863|consensus	264		99.97
KOG0181|consensus	233		99.97
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	99.94
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	99.93
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	99.93
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	99.93
PTZ00488	247	Proteasome subunit beta type-5; Provisional	99.92
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	99.92
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	99.91
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	99.91
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	99.91
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	99.91
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	99.91
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	99.91
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	99.9
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	99.89
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	99.89
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	99.89
KOG0179|consensus	235		99.83
KOG0174|consensus	224		99.79
KOG0180|consensus	204		99.79
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.77
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.76
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.75
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.75
KOG0185|consensus	256		99.73
KOG0175|consensus	285		99.72
KOG0177|consensus	200		99.67
KOG0173|consensus	271		99.54
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	99.07
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	98.31
COG3484	255	Predicted proteasome-type protease [Posttranslatio	93.67
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	81.43

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=5.1e-38  Score=219.86  Aligned_cols=110  Identities=35%  Similarity=0.568  Sum_probs=106.6

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+|||+|++|+++++||+.+|++.+.+++|.++
T Consensus        13 p~Grl~Qveya~~a~~~G~tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~   92 (212)
T cd03751          13 PDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLADGRHLVSRAREEA   92 (212)
T ss_pred             CCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEEccccccccCcchhcceeEecCcEEEEEEEChHhHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999988777 777899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++|++.+|.+||++.++++|++++|.|||++
T Consensus        93 ~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~  123 (212)
T cd03751          93 ENYRDNYGTPIPVKVLADRVAMYMHAYTLYS  123 (212)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhccCC
Confidence            9999999999999999999999999999985

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=6.2e-38  Score=221.21  Aligned_cols=110  Identities=75%  Similarity=1.087  Sum_probs=106.9

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|++.++++. +++.+||++|++|++|+++|+.+|++.+++++|.++
T Consensus        10 p~Grl~QveyA~~av~~G~t~igik~~dgVvlaad~~~~~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~   89 (227)
T cd03750          10 PSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGMVYSGMGPDFRVLVKKARKIA   89 (227)
T ss_pred             CCCeEhHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecCCccccCCCCcceEEEEcCCEEEEEeEcHHhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999987777 788899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++|++.+|.+||++.++++|++++|.||+++
T Consensus        90 ~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~  120 (227)
T cd03750          90 QQYYLVYGEPIPVSQLVREIASVMQEYTQSG  120 (227)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCCC
Confidence            9999999999999999999999999999975

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

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=100.00  E-value=9.7e-38  Score=217.55  Aligned_cols=110  Identities=32%  Similarity=0.563  Sum_probs=106.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|++....+. ++..+||++|++|+++++||+.+|++.+.+++|.++
T Consensus        10 p~Gr~~Qveya~~av~~G~t~Igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~   89 (207)
T cd03755          10 PDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADARVLINRARLEC   89 (207)
T ss_pred             CCCeEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCCCCcccCCCccCcEEEECCCEEEEEecchhhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999887776 677899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +.|++++|++|+++.++++|++++|+||+++
T Consensus        90 ~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~  120 (207)
T cd03755          90 QSHRLTVEDPVTVEYITRYIAGLQQRYTQSG  120 (207)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHhccc
Confidence            9999999999999999999999999999874

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=1.7e-37  Score=217.13  Aligned_cols=110  Identities=45%  Similarity=0.650  Sum_probs=106.7

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++  .+..+||++|++++++++||+.+|++.+.+++|.+
T Consensus        12 p~Grl~Qveya~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~   91 (213)
T cd03752          12 PEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANILINYARLI   91 (213)
T ss_pred             CCCEEhHHHhHHHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHhHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998887  45889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++.|++++|++|+++.+++.|+.++|.|||++
T Consensus        92 ~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~  123 (213)
T cd03752          92 AQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYG  123 (213)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999875

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=2.7e-37  Score=216.57  Aligned_cols=111  Identities=38%  Similarity=0.540  Sum_probs=105.8

Q ss_pred             CCCcchhhhhHHHHHhc-CCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~-g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++ |+|+|||+++||||||+|+|.+.++. .+..+|||+|++++++++||+.+|++.+.+++|.+
T Consensus        11 p~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~   90 (215)
T cd03754          11 PEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIGCVMTGMIADSRSQVQRARYE   90 (215)
T ss_pred             CCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCcccCceEEEcCCEEEEEEechhhHHHHHHHHHHH
Confidence            99999999999999975 78999999999999999999988877 66779999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +..|+++++++||++.+|+.+++++|.||++.+
T Consensus        91 ~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~  123 (215)
T cd03754          91 AAEFKYKYGYEMPVDVLAKRIADINQVYTQHAY  123 (215)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCC
Confidence            999999999999999999999999999999753

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.

>KOG0184|consensus

Probab=100.00  E-value=8e-38  Score=215.52  Aligned_cols=110  Identities=35%  Similarity=0.586  Sum_probs=108.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      ||||+||||||+|||++++|+||||||||||+++||..+++++ ++.++|||.|++|++++++|+.+|.+.+.+++|.|+
T Consensus        17 pdGrvfQveYA~KAven~~T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~r~iG~avaGl~~Dg~~l~~~ar~ea   96 (254)
T KOG0184|consen   17 PDGRVFQVEYAQKAVENSGTCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVDRHIGMAVAGLIPDGRHLVNRARDEA   96 (254)
T ss_pred             CCCceehHHHHHHHHhcCCcEEEEecCCeEEEEEeeeecccccccCCCCceEeecccccEEEeccccchHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      .+|+.+|+.|+|...++.++++++|.||.++
T Consensus        97 ~~~~~~y~~piP~~~la~rva~yvh~~Tly~  127 (254)
T KOG0184|consen   97 ASWRKNYGDPIPGKHLADRVADYVHAFTLYS  127 (254)
T ss_pred             HHHHHhcCCCCchHHHHHHHHhhhheeehhh
Confidence            9999999999999999999999999999874

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=8.3e-37  Score=213.50  Aligned_cols=109  Identities=35%  Similarity=0.551  Sum_probs=103.9

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. +..+|||+|++++++++||+.+|++.+.+++|.++.
T Consensus        10 p~Grl~Qveya~~av~~G~t~IgIk~~dgVvlaad~r~~~~l~-~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~   88 (211)
T cd03749          10 PQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELS-SYQKKIFKVDDHIGIAIAGLTADARVLSRYMRQECL   88 (211)
T ss_pred             CCCeEeHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccCccccC-CccccEEEeCCCEEEEEEeChHhHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999887754 344899999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        81 ~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +|+++++++|+++.+|+.+++++|.|||+.
T Consensus        89 ~~~~~~~~~~~v~~la~~is~~~~~~t~~~  118 (211)
T cd03749          89 NYRFVYDSPIPVSRLVSKVAEKAQINTQRY  118 (211)
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHhccc
Confidence            999999999999999999999999999864

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.

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=2.7e-36  Score=215.84  Aligned_cols=110  Identities=34%  Similarity=0.561  Sum_probs=106.2

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-c-ccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-E-DCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~-~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ . ++.+|||+|+++++++++|+.+|++.+.+.+|.+
T Consensus        14 p~Grl~QvEYA~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~   93 (253)
T PTZ00246         14 PEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANILINQCRLY   93 (253)
T ss_pred             CCCEEhHHHHHHHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999987 4 4679999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +..|++.++.++|++.+++.+++++|.|||++
T Consensus        94 ~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~  125 (253)
T PTZ00246         94 AQRYRYTYGEPQPVEQLVVQICDLKQSYTQFG  125 (253)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHhcccc
Confidence            99999999999999999999999999999875

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=4.6e-36  Score=209.57  Aligned_cols=110  Identities=40%  Similarity=0.649  Sum_probs=106.5

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.++++. .++.+||++|++++++++||+.+|++.+.++++.++
T Consensus        11 p~G~l~Q~eya~~av~~G~t~igik~~dgvvla~d~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~l~~~~   90 (211)
T cd03756          11 PDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGAATSGLVADARVLIDRARVEA   90 (211)
T ss_pred             CCCeEhHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEecCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999987777 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ..|+++++++++++.+++.|++++|.||++.
T Consensus        91 ~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~  121 (211)
T cd03756          91 QIHRLTYGEPIDVEVLVKKICDLKQQYTQHG  121 (211)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCCC
Confidence            9999999999999999999999999999864

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=4.1e-36  Score=209.49  Aligned_cols=110  Identities=46%  Similarity=0.739  Sum_probs=106.3

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+||++++||||+|+|++.+.++. .++.+||++|++++++++||+.+|++.+.++++.++
T Consensus        10 ~~G~~~q~eya~~~~~~G~tvigi~~~dgVvlaaD~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~   89 (209)
T cd01911          10 PEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADARVLVNRARVEA   89 (209)
T ss_pred             CCCEEeHHHHHHHHHHcCCCEEEEEECCEEEEEEEecCCccccCCcccceEEEecCCeEEEeccCcHhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988776 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      .+|++++|++|+++.+|+++++++|.||++.
T Consensus        90 ~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~  120 (209)
T cd01911          90 QNYRYTYGEPIPVEVLVKRIADLAQVYTQYG  120 (209)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhccc
Confidence            9999999999999999999999999999864

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.

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=5.1e-36  Score=209.58  Aligned_cols=110  Identities=34%  Similarity=0.596  Sum_probs=106.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|++++++++||+.+|++.+.+++|.++
T Consensus        10 p~G~~~Q~eya~~a~~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~   89 (213)
T cd03753          10 PEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGCAMSGLIADARTLIDHARVEA   89 (213)
T ss_pred             CCCeEhHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccCCcCcCCCccceEEEEcCCEEEEEecCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988777 777899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +.|++++|++|+++.++++|++++|.||+..
T Consensus        90 ~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~  120 (213)
T cd03753          90 QNHRFTYNEPMTVESVTQAVSDLALQFGEGD  120 (213)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhCcc
Confidence            9999999999999999999999999999853

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=4.9e-36  Score=211.08  Aligned_cols=110  Identities=41%  Similarity=0.647  Sum_probs=106.3

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|++++++++||+.+|++.+.++++.++
T Consensus        12 p~Grl~Qieya~~av~~G~tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   91 (224)
T TIGR03633        12 PDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVADARVLIDRARIEA   91 (224)
T ss_pred             CCCeEeHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCccccCCCccceEEEECCCEEEEEeecHHhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999987776 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ..|+++++++++++.++++|++++|.|||+.
T Consensus        92 ~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~  122 (224)
T TIGR03633        92 QINRLTYGEPIDVETLAKKICDLKQQYTQHG  122 (224)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCCC
Confidence            9999999999999999999999999999864

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.

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1.3e-35  Score=210.97  Aligned_cols=110  Identities=39%  Similarity=0.625  Sum_probs=106.6

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.++++. .++.+||++|++++++++||+.+|++.++++++.++
T Consensus        19 p~Gr~~Q~eya~~av~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~   98 (241)
T PRK03996         19 PDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAASAGLVADARVLIDRARVEA   98 (241)
T ss_pred             CCCeEhHHHHHHHHHHhCCCEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEcccHHHHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999997777 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ..|++.++.+++++.+++++++++|.|||+.
T Consensus        99 ~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~  129 (241)
T PRK03996         99 QINRLTYGEPIGVETLTKKICDHKQQYTQHG  129 (241)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhcCCC
Confidence            9999999999999999999999999999875

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

Probab=100.00  E-value=2e-34  Score=204.58  Aligned_cols=109  Identities=44%  Similarity=0.708  Sum_probs=105.3

Q ss_pred             CCCcchhhhhHHHHHhcC-CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAG-APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARK   77 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g-~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~   77 (111)
                      ||||++|+|||++++++| +|+|||+++||||||+|+|.+++++  .++.+|||+|++|++|++||+.+|++.|++++|.
T Consensus        12 p~g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~aDa~~lv~~~r~   91 (236)
T COG0638          12 PEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYARA   91 (236)
T ss_pred             CCCchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcHhHHHHHHHHHH
Confidence            899999999999999885 9999999999999999999999987  6668999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHHHhhcc
Q psy6667          78 IAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        78 ~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~  109 (111)
                      +|+.|++.+|++|+++.+++++++++|.|||+
T Consensus        92 ~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~  123 (236)
T COG0638          92 EAQLYRLRYGEPISVEALAKLLSNILQEYTQS  123 (236)
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC
Confidence            99999999999999999999999999999983

>KOG0176|consensus

Probab=100.00  E-value=2.9e-35  Score=200.14  Aligned_cols=109  Identities=35%  Similarity=0.586  Sum_probs=106.3

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||||||||++|++.|+|.|||+.++|||||++||.+++++ +....||++||+||+|++||+.+|++.+++++|.+|
T Consensus        17 pEGRlfQVEYaieAikLGsTaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgca~SGl~aDarTlve~arv~~   96 (241)
T KOG0176|consen   17 PEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGCAMSGLIADARTLVERARVET   96 (241)
T ss_pred             CCceeeehhhHHHHHhcCCceeeeeccceEEEEEeccccCcccCchhhhhheehhhceeeeccccccchHHHHHHHHHHh
Confidence            8999999999999999999999999999999999999999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhcc
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~  109 (111)
                      ++|.+.||++|+++.+.+.+|++.-.|...
T Consensus        97 qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~  126 (241)
T KOG0176|consen   97 QNHWFTYGEPISVESLTQAVSDLALRFGEG  126 (241)
T ss_pred             hhceeecCCcccHHHHHHHHHHHHhHhCCC
Confidence            999999999999999999999999887654

>KOG0178|consensus

Probab=100.00  E-value=1.6e-34  Score=198.04  Aligned_cols=111  Identities=40%  Similarity=0.596  Sum_probs=108.3

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      ||||++|||||++++.+.+|+||+-.+||||||++++.+++++  ....+||+++++|++|+++|+.+|+..|++.+|..
T Consensus        14 pEGRLyQVEyAmeais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~DAnvL~n~aRi~   93 (249)
T KOG0178|consen   14 PEGRLYQVEYAMEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTSDANVLKNYARII   93 (249)
T ss_pred             CCcchHHHHHHHHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccccHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999998  55669999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      ++.|.++||.+||++.|+..++++-|.|||++|
T Consensus        94 AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG  126 (249)
T KOG0178|consen   94 AQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGG  126 (249)
T ss_pred             HHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccC
Confidence            999999999999999999999999999999987

>KOG0183|consensus

Probab=100.00  E-value=4.7e-35  Score=201.01  Aligned_cols=111  Identities=33%  Similarity=0.577  Sum_probs=109.0

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+.+|+|+||++++|+||+..++++..++. .+...||..+|+|++++++|+.+|++.+++++|-||
T Consensus        13 PDGhL~QVEYAqEAvrkGstaVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld~hV~mafaGl~aDArilinrArvec   92 (249)
T KOG0183|consen   13 PDGHLFQVEYAQEAVRKGSTAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLDDHVVMAFAGLTADARILINRARVEC   92 (249)
T ss_pred             CCCCEEeeHhHHHHHhcCceEEEeccCceEEEEEeecchhhhhhhhhhhhheeecceeeEEecCCCccceeehhhHhHhh
Confidence            9999999999999999999999999999999999999999999 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +.|++..+.|++++.++++|+.+-|+|||++|
T Consensus        93 qShrlt~edpvtveyitRyiA~~kQrYTqs~g  124 (249)
T KOG0183|consen   93 QSHRLTLEDPVTVEYITRYIAGLKQRYTQSNG  124 (249)
T ss_pred             hhhhcccCCCcHHHHHHHHHHHhhhhhhccCC
Confidence            99999999999999999999999999999986

>KOG0182|consensus

Probab=100.00  E-value=5.6e-33  Score=190.51  Aligned_cols=110  Identities=35%  Similarity=0.520  Sum_probs=107.3

Q ss_pred             CCCcchhhhhHHHHHhc-CCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~-g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++ |-|+||+++||++|+++.|+.+.++. ++....+|+|+++|+|+++|+.+|++..++++|.+
T Consensus        18 peGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~itk~ig~v~tG~~aDar~~v~rar~e   97 (246)
T KOG0182|consen   18 PEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRITKKIGCVITGMIADARSQVQRARYE   97 (246)
T ss_pred             CCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEeeccceEEEecCCcchHHHHHHHHHH
Confidence            89999999999999998 88999999999999999999999999 88889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      |.+++++||.+||++.||++++++.|.|||+.
T Consensus        98 Aa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a  129 (246)
T KOG0182|consen   98 AAEFRYKYGYEMPCDILAKRMADKSQVYTQNA  129 (246)
T ss_pred             HHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhh
Confidence            99999999999999999999999999999974

>KOG0863|consensus

Probab=99.97  E-value=2.5e-31  Score=184.29  Aligned_cols=110  Identities=32%  Similarity=0.498  Sum_probs=105.2

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (111)
                      |+|||+|||||++|+++|+++||+|+++.+||+|-+|..+.+. ...+|||+||+|++++++|+.+|++.|++++|.+|.
T Consensus        15 PqGrl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~seLs-s~QkKi~~iD~h~g~siAGLt~Darvl~~Ylr~ec~   93 (264)
T KOG0863|consen   15 PQGRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSELS-SHQKKIFKIDDHIGISIAGLTADARVLSRYLRQECL   93 (264)
T ss_pred             CcceehHHHHHHHHHhcccceEeecccceEEEeeeccchhHHH-HhhheeEecccccceEEeccCcchHHHHHHHHHHHh
Confidence            8999999999999999999999999999999999999988885 333799999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        81 ~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      .|+..+++++|+..|...|.+.+|..||..|
T Consensus        94 ~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~yg  124 (264)
T KOG0863|consen   94 NSRFIYGRPLPVLRLVEDLGDKAQENTQRYG  124 (264)
T ss_pred             hhhhccCCcccHHHHHHHHHHHHhhhhhhhC
Confidence            9999999999999999999999999999875

>KOG0181|consensus

Probab=99.97  E-value=1.1e-30  Score=177.39  Aligned_cols=111  Identities=70%  Similarity=0.993  Sum_probs=109.0

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |+|+|-|||||+.|+.+|.+.||++-.||||||++|+..+++. .+..+|+++|.++|+|.+||+.+|.+.+++..|..|
T Consensus        15 psGKL~QieyAL~Av~~G~~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~~~IG~vYSGmgpD~RvlV~~~rkiA   94 (233)
T KOG0181|consen   15 PSGKLVQIEYALTAVVNGQTSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKITPHIGCVYSGMGPDYRVLVHKSRKIA   94 (233)
T ss_pred             CCCceehHHHHHHHHhCCCCceeeeecCceEEEeccCCCCccchhhhhhhHhhccCCcceEEecCCCceeehhhHHHHHH
Confidence            8999999999999999999999999999999999999999999 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +.|...++++||+..|...++..+|+|||++|
T Consensus        95 e~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgG  126 (233)
T KOG0181|consen   95 EQYYRVYGEPIPTTQLVQEVASVMQEYTQSGG  126 (233)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCC
Confidence            99999999999999999999999999999987

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=99.94  E-value=7.4e-26  Score=155.68  Aligned_cols=91  Identities=14%  Similarity=0.273  Sum_probs=87.3

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++.+  +++.+|||+|++|++++++|+.+|++.|++++|.+++.|++++|++||++.+|
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            5899999999999999999998655  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.+|+.
T Consensus        81 ~~ls~~l~~~~~~   93 (188)
T cd03761          81 KLLSNMLYQYKGM   93 (188)
T ss_pred             HHHHHHHHhcCCC
Confidence            9999999999986

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=99.93  E-value=6.4e-25  Score=154.30  Aligned_cols=92  Identities=16%  Similarity=0.244  Sum_probs=87.3

Q ss_pred             cCCCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q psy6667          17 AGAPSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQ   94 (111)
Q Consensus        17 ~g~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~   94 (111)
                      +|+|+|||+++||||||+|+|.+++ +. +++.+|||+|++|++++++|+.+|++.|++++|.+++.|+++++.+|+++.
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~   80 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDG   80 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            4899999999999999999999985 44 778899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhc
Q psy6667          95 LVQRVAAIMQEYTQ  108 (111)
Q Consensus        95 la~~ls~~~~~~t~  108 (111)
                      ++++|++++|.+++
T Consensus        81 la~~ls~~~~~~~~   94 (219)
T TIGR03690        81 KANRLAAMVRGNLP   94 (219)
T ss_pred             HHHHHHHHHHhhhh
Confidence            99999999998875

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.

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=99.93  E-value=6.3e-25  Score=151.66  Aligned_cols=91  Identities=20%  Similarity=0.211  Sum_probs=86.8

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++.+  +++.+|||+|++++++++||+.+|++.|++++|.++..|++.++++++++.++
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            6899999999999999999987764  78889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.|+++
T Consensus        82 ~~l~~~~~~~~~~   94 (193)
T cd03758          82 NFTRRELAESLRS   94 (193)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999999875

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=99.93  E-value=7.3e-25  Score=151.50  Aligned_cols=90  Identities=18%  Similarity=0.262  Sum_probs=85.1

Q ss_pred             cCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q psy6667          17 AGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQ   94 (111)
Q Consensus        17 ~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~   94 (111)
                      +|+|+|||+++||||||+|++.+++++  .++.+|||+|++|+++++||+.+|++.+++++|.+++.|+++++.+||++.
T Consensus         2 ~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   81 (195)
T cd03759           2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKT   81 (195)
T ss_pred             CCceEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            699999999999999999999999987  556799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy6667          95 LVQRVAAIMQEY  106 (111)
Q Consensus        95 la~~ls~~~~~~  106 (111)
                      +|++|+++++..
T Consensus        82 la~~l~~~ly~~   93 (195)
T cd03759          82 FSSLISSLLYEK   93 (195)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998543

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=99.92  E-value=1.3e-24  Score=155.25  Aligned_cols=96  Identities=19%  Similarity=0.254  Sum_probs=89.5

Q ss_pred             HHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy6667          14 AVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (111)
Q Consensus        14 av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (111)
                      .+++|+|+|||+++||||||+|+|.+.+.+  +++.+|||+|++++++++||+.+|++.|++++|.+++.|++++|++|+
T Consensus        35 ~~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~is  114 (247)
T PTZ00488         35 EFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELIS  114 (247)
T ss_pred             ccCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCC
Confidence            357899999999999999999999986544  788899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcc
Q psy6667          92 TQQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        92 ~~~la~~ls~~~~~~t~~  109 (111)
                      ++.+|++|++++|.++..
T Consensus       115 v~~la~~ls~~l~~~R~~  132 (247)
T PTZ00488        115 VAAASKILANIVWNYKGM  132 (247)
T ss_pred             HHHHHHHHHHHHHhcCCC
Confidence            999999999999988643

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=99.92  E-value=1.7e-24  Score=151.45  Aligned_cols=92  Identities=18%  Similarity=0.217  Sum_probs=87.5

Q ss_pred             HhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy6667          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (111)
Q Consensus        15 v~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (111)
                      +++|+|+|||+++||||||+|++.+++++  +++.+|||+|++++++++||+.+|++.+.+++|.+++.|++++|.+|++
T Consensus         5 ~~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~   84 (212)
T cd03757           5 TDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMST   84 (212)
T ss_pred             cCCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCH
Confidence            36899999999999999999999999986  6788999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy6667          93 QQLVQRVAAIMQEY  106 (111)
Q Consensus        93 ~~la~~ls~~~~~~  106 (111)
                      +.++++|+++++..
T Consensus        85 ~~la~~ls~~ly~~   98 (212)
T cd03757          85 EAIAQLLSTILYSR   98 (212)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999999764

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=99.91  E-value=9.7e-24  Score=146.03  Aligned_cols=91  Identities=14%  Similarity=0.243  Sum_probs=82.7

Q ss_pred             cCCCEEEEEeCCeEEEEEeccCCC-Ccc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHH-HHHHHhCCCCCHH
Q psy6667          17 AGAPSVGIKASNGIVLATEKKQKT-ILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ-QYKLVYQENIPTQ   93 (111)
Q Consensus        17 ~g~t~vgi~~~dgVvlaad~~~~~-~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~-~~~~~~~~~i~~~   93 (111)
                      +|+|+|||+++||||||+|+|.++ .+. +++.+|||+|+++++++++|+.+|++.+++++|.+++ .|++.++.+|+++
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   80 (197)
T cd03760           1 TGTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPK   80 (197)
T ss_pred             CCceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            589999999999999999999985 445 7788999999999999999999999999999999997 5678899999999


Q ss_pred             HHHHHHHHHHHHhhcc
Q psy6667          94 QLVQRVAAIMQEYTQS  109 (111)
Q Consensus        94 ~la~~ls~~~~~~t~~  109 (111)
                      .++++|++++  |||+
T Consensus        81 ~la~~i~~~~--y~~~   94 (197)
T cd03760          81 EIHSYLTRVL--YNRR   94 (197)
T ss_pred             HHHHHHHHHH--HHHh
Confidence            9999999985  5554

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=99.91  E-value=1.3e-23  Score=144.28  Aligned_cols=90  Identities=14%  Similarity=0.207  Sum_probs=85.7

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++.+  +++.+|||+|+++++++++|+.+|++.+.++++.+++.|+..++.+++++.++
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            5899999999999999999998655  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      +++++++|.+|.
T Consensus        81 ~~l~~~~~~~~~   92 (188)
T cd03762          81 SLFKNLCYNYKE   92 (188)
T ss_pred             HHHHHHHHhccc
Confidence            999999999874

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=99.91  E-value=1.8e-23  Score=147.91  Aligned_cols=94  Identities=19%  Similarity=0.311  Sum_probs=85.6

Q ss_pred             hhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhC
Q psy6667           8 IEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQ   87 (111)
Q Consensus         8 ieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~   87 (111)
                      =|||+||+++|+|+|||+++||||||+|++.      +..+|||+|++|++|+++|+.+|++.++++++.+++.|++.++
T Consensus        17 ~EYA~kav~~g~T~VGIk~kdgVVLaaek~~------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~~~~   90 (228)
T TIGR03691        17 AELARKGIARGRSVVVLTYADGILFVAENPS------RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMRGYSYD   90 (228)
T ss_pred             HHHHHHHHHcCCcEEEEEeCCeEEEEEecCC------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhhhcC
Confidence            3999999999999999999999999999972      2458999999999999999999999999999999999999998


Q ss_pred             -CCCCHHHHHHHHHHHHHHhh
Q psy6667          88 -ENIPTQQLVQRVAAIMQEYT  107 (111)
Q Consensus        88 -~~i~~~~la~~ls~~~~~~t  107 (111)
                       .+++++.+|+.++..++.++
T Consensus        91 ~~~~~v~~la~~~tq~~~~~~  111 (228)
T TIGR03691        91 RRDVTGRGLANAYAQTLGTIF  111 (228)
T ss_pred             CCCccHHHHHHHHHhhccccc
Confidence             68999999987777776544

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.

>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=99.91  E-value=1.3e-23  Score=143.80  Aligned_cols=96  Identities=31%  Similarity=0.551  Sum_probs=89.0

Q ss_pred             HhcCCCEEEEEeCCeEEEEEeccCCCCcc---cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy6667          15 VEAGAPSVGIKASNGIVLATEKKQKTILF---EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (111)
Q Consensus        15 v~~g~t~vgi~~~dgVvlaad~~~~~~~~---~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (111)
                      |++|+|+|||+++||||||+|++.+.+..   ++..+|||+|++++++++||..+|++.+.++++.++..|++.++.+++
T Consensus         1 v~~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~   80 (190)
T PF00227_consen    1 VNNGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPIS   80 (190)
T ss_dssp             HHTSBEEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTC
T ss_pred             CCCCeEEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCcccc
Confidence            57999999999999999999999984443   343699999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhccC
Q psy6667          92 TQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        92 ~~~la~~ls~~~~~~t~~~  110 (111)
                      ++.+++.+++++|.+|++.
T Consensus        81 ~~~l~~~~~~~~~~~~~~~   99 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRS   99 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHT
T ss_pred             chhhhhhhHHHHhhhcccc
Confidence            9999999999999999865

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 ....

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=99.91  E-value=2e-23  Score=142.90  Aligned_cols=90  Identities=30%  Similarity=0.433  Sum_probs=85.2

Q ss_pred             CCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy6667          18 GAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (111)
Q Consensus        18 g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (111)
                      |+|+|||+++||||||+|+|.+.+.+  +++.+|||+|++++++++||..+|++.+.++++.+++.|+..++.++|++.+
T Consensus         1 G~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (185)
T TIGR03634         1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKAL   80 (185)
T ss_pred             CCcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            78999999999999999999986554  7788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q psy6667          96 VQRVAAIMQEYT  107 (111)
Q Consensus        96 a~~ls~~~~~~t  107 (111)
                      +++|++++|.+.
T Consensus        81 a~~l~~~~~~~~   92 (185)
T TIGR03634        81 ATLLSNILNSNR   92 (185)
T ss_pred             HHHHHHHHHhcC
Confidence            999999999874

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.

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=99.91  E-value=2.1e-23  Score=143.46  Aligned_cols=90  Identities=13%  Similarity=0.139  Sum_probs=85.6

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++.+  .++.+|||+|+++++++++|+.+|++.+.+++|.+++.|+++++++++++.++
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            5899999999999999999998765  67789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      ++|++.+|.|++
T Consensus        81 ~~l~~~l~~~~~   92 (189)
T cd03763          81 TMLKQHLFRYQG   92 (189)
T ss_pred             HHHHHHHHHcCC
Confidence            999999998865

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=99.90  E-value=8.4e-23  Score=138.87  Aligned_cols=91  Identities=40%  Similarity=0.638  Sum_probs=87.2

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|++.++++.  .++.+|||+|+++++++++|..+|++.+.+.++.++..|++.++.+++++.++
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            5899999999999999999998876  67789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.+|++
T Consensus        81 ~~l~~~~~~~~~~   93 (182)
T cd01906          81 KLLANLLYEYTQS   93 (182)
T ss_pred             HHHHHHHHHhCCC
Confidence            9999999999973

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=99.89  E-value=1.6e-22  Score=138.64  Aligned_cols=90  Identities=21%  Similarity=0.331  Sum_probs=86.7

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+||++++||||||+|+|.++++.  .+..+|||+|++++++++||+.+|++.+.++++.++..|+..++++++++.++
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            5899999999999999999998876  77789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      +++++++|.+++
T Consensus        81 ~~l~~~~~~~~~   92 (189)
T cd01912          81 NLLSNILYSYRG   92 (189)
T ss_pred             HHHHHHHHhcCC
Confidence            999999999986

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=99.89  E-value=2.3e-22  Score=138.04  Aligned_cols=89  Identities=26%  Similarity=0.368  Sum_probs=84.7

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++.+  +++.+||++|+++++++++|+.+|++.+.++++.+++.|++.++.+++++.++
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            5899999999999999999998655  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy6667          97 QRVAAIMQEYT  107 (111)
Q Consensus        97 ~~ls~~~~~~t  107 (111)
                      +++++++|.+.
T Consensus        81 ~~i~~~~~~~~   91 (188)
T cd03764          81 TLLSNILNSSK   91 (188)
T ss_pred             HHHHHHHHhcC
Confidence            99999999874

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.

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=99.89  E-value=2.4e-22  Score=142.68  Aligned_cols=91  Identities=12%  Similarity=0.087  Sum_probs=83.7

Q ss_pred             CEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEcc----CcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCC-CCCHH
Q psy6667          20 PSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPIT----DYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQE-NIPTQ   93 (111)
Q Consensus        20 t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~----~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~-~i~~~   93 (111)
                      =+|||+++||||||+|+|+++++. .++.+|||+|+    +|++|+.||+.+|++.+++++|.+++.|++++|. ++|++
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            479999999999999999999977 66779999998    9999999999999999999999999999999999 89999


Q ss_pred             HHHHHHHHHHH-HhhccC
Q psy6667          94 QLVQRVAAIMQ-EYTQSG  110 (111)
Q Consensus        94 ~la~~ls~~~~-~~t~~~  110 (111)
                      .+|++++++++ .+||++
T Consensus        82 ~la~~i~~~l~~~~~q~~   99 (236)
T cd03765          82 DAARYVGETLREVQEQDR   99 (236)
T ss_pred             HHHHHHHHHHHHHHhhcc
Confidence            99999999865 556654

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.

>KOG0179|consensus

Probab=99.83  E-value=2.4e-20  Score=128.12  Aligned_cols=90  Identities=20%  Similarity=0.205  Sum_probs=87.1

Q ss_pred             hcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy6667          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (111)
Q Consensus        16 ~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (111)
                      .+|+|+|||.+.|++|+|+|+|.++++.  +++.+|||+++++++++.||+++|...|...++.+.+.|++.++..|++.
T Consensus        27 ~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~  106 (235)
T KOG0179|consen   27 DNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSIH  106 (235)
T ss_pred             cCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccHH
Confidence            6899999999999999999999999887  89999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy6667          94 QLVQRVAAIMQE  105 (111)
Q Consensus        94 ~la~~ls~~~~~  105 (111)
                      .+|++||.+|+.
T Consensus       107 s~A~lls~~LY~  118 (235)
T KOG0179|consen  107 SAAQLLSTILYS  118 (235)
T ss_pred             HHHHHHHHHHhh
Confidence            999999999974

>KOG0174|consensus

Probab=99.79  E-value=4.4e-19  Score=120.79  Aligned_cols=95  Identities=20%  Similarity=0.297  Sum_probs=91.2

Q ss_pred             HHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy6667          14 AVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (111)
Q Consensus        14 av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (111)
                      .+..|+|++|+++++||||.+|.|++.+.+  ++..+|+-+|.|+|+||-||..+|.|.+.+.++..+..|..+++.+++
T Consensus        15 evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~   94 (224)
T KOG0174|consen   15 EVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPL   94 (224)
T ss_pred             ccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCch
Confidence            367899999999999999999999999977  899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhc
Q psy6667          92 TQQLVQRVAAIMQEYTQ  108 (111)
Q Consensus        92 ~~~la~~ls~~~~~~t~  108 (111)
                      +...|+.+.++.++|..
T Consensus        95 v~~aA~l~r~~~Y~~re  111 (224)
T KOG0174|consen   95 VHTAASLFREICYNYRE  111 (224)
T ss_pred             HHHHHHHHHHHHHhCHH
Confidence            99999999999999875

>KOG0180|consensus

Probab=99.79  E-value=6.9e-19  Score=117.96  Aligned_cols=92  Identities=17%  Similarity=0.252  Sum_probs=86.7

Q ss_pred             hcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy6667          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (111)
Q Consensus        16 ~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (111)
                      -+|+++||+++|+||.+|+|.|......  ..+.+|||++++++++|.+|+.+|.+.+.++++..-..|+++.++.|.|+
T Consensus         6 ynGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~   85 (204)
T KOG0180|consen    6 YNGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPE   85 (204)
T ss_pred             ecCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcH
Confidence            4799999999999999999999986655  77889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy6667          94 QLVQRVAAIMQEYT  107 (111)
Q Consensus        94 ~la~~ls~~~~~~t  107 (111)
                      .+++++|+++++..
T Consensus        86 ~~s~mvS~~lYekR   99 (204)
T KOG0180|consen   86 TFSSMVSSLLYEKR   99 (204)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999998753

>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=99.77  E-value=2.9e-18  Score=116.40  Aligned_cols=70  Identities=13%  Similarity=0.116  Sum_probs=66.4

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccC-cEEEEEecchhhHHHHHHHHHHHHHHHHHHhCC
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITD-YIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQE   88 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~   88 (111)
                      +|+||++++||||||+|+|.+.+.+  .++.+||++|++ |++|+++|..+|.+.|.++++.++++|+.+.++
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~   73 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR   73 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH
Confidence            5899999999999999999998876  888899999999 999999999999999999999999999999885

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.

>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=99.76  E-value=2.2e-17  Score=108.83  Aligned_cols=90  Identities=33%  Similarity=0.463  Sum_probs=85.8

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+||++++||||+|+|++.+.+..  .....|+++++++++++++|..+|.+.+.++++.++..|++.++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            5899999999999999999988876  56779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      +.+++.++.+|+
T Consensus        81 ~~~~~~~~~~~~   92 (164)
T cd01901          81 KELAKLLQVYTQ   92 (164)
T ss_pred             HHHHHHHHHhcC
Confidence            999999999986

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

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.75  E-value=9.4e-18  Score=114.22  Aligned_cols=80  Identities=10%  Similarity=0.082  Sum_probs=70.3

Q ss_pred             CCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEc-cCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q psy6667          18 GAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQ   94 (111)
Q Consensus        18 g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~   94 (111)
                      |+|+||++++||||||+|+|.+.+.+  +++.+||++| +++++|++||..+|.+.|.+.++.+++.|+.  +.   ++.
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~--~~---~~~   75 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQG--NL---LRA   75 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccC--cc---HHH
Confidence            68999999999999999999998876  8888999999 9999999999999999999999999999982  22   466


Q ss_pred             HHHHHHHH
Q psy6667          95 LVQRVAAI  102 (111)
Q Consensus        95 la~~ls~~  102 (111)
                      +++.+..+
T Consensus        76 ~a~l~~~l   83 (172)
T PRK05456         76 AVELAKDW   83 (172)
T ss_pred             HHHHHHHH
Confidence            66555444

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.75  E-value=6.5e-18  Score=114.72  Aligned_cols=79  Identities=13%  Similarity=0.127  Sum_probs=70.7

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEc-cCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (111)
                      +|+||++++||||||+|+|.+.+.+  +++.+||++| +++++|+++|..+|.+.|.++++.+++.|+.+.     .+.+
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            6899999999999999999998876  8888999999 599999999999999999999999999988754     3666


Q ss_pred             HHHHHHH
Q psy6667          96 VQRVAAI  102 (111)
Q Consensus        96 a~~ls~~  102 (111)
                      ++.++++
T Consensus        76 a~l~~~~   82 (171)
T TIGR03692        76 VELAKDW   82 (171)
T ss_pred             HHHHHHH
Confidence            7777764

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

>KOG0185|consensus

Probab=99.73  E-value=1.7e-17  Score=115.75  Aligned_cols=96  Identities=11%  Similarity=0.189  Sum_probs=86.6

Q ss_pred             HHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHH-HHhCC
Q psy6667          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYK-LVYQE   88 (111)
Q Consensus        12 ~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~-~~~~~   88 (111)
                      +.+.-+|+++||+|++|||+||||+..+.+.+  .++.+|+|+|++|+++++||..+|.|.|.+.+.....+.. +..|.
T Consensus        35 ~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~  114 (256)
T KOG0185|consen   35 LNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQ  114 (256)
T ss_pred             cCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHHHHHHHHHHHHHHhccccccccc
Confidence            34456899999999999999999999998877  8889999999999999999999999999999998888864 55679


Q ss_pred             CCCHHHHHHHHHHHHHHhh
Q psy6667          89 NIPTQQLVQRVAAIMQEYT  107 (111)
Q Consensus        89 ~i~~~~la~~ls~~~~~~t  107 (111)
                      .+.|+.++++|+++|+.-.
T Consensus       115 ~l~Pk~ih~yltrvlY~rR  133 (256)
T KOG0185|consen  115 SLGPKAIHSYLTRVLYARR  133 (256)
T ss_pred             ccChHHHHHHHHHHHHHhh
Confidence            9999999999999998644

>KOG0175|consensus

Probab=99.72  E-value=3.9e-17  Score=115.23  Aligned_cols=94  Identities=16%  Similarity=0.275  Sum_probs=89.8

Q ss_pred             hcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy6667          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (111)
Q Consensus        16 ~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (111)
                      .+|+|++|.+++.|||+|+|.|++.+.+  ....+||..|++++.-+.+|=.+|++..-+.+..+|.+|++++++.|+|.
T Consensus        69 ~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVs  148 (285)
T KOG0175|consen   69 AHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVS  148 (285)
T ss_pred             cCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehH
Confidence            5899999999999999999999998876  78889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcc
Q psy6667          94 QLVQRVAAIMQEYTQS  109 (111)
Q Consensus        94 ~la~~ls~~~~~~t~~  109 (111)
                      ..+++||++++.|.-.
T Consensus       149 aASKllsN~~y~YkGm  164 (285)
T KOG0175|consen  149 AASKLLSNMVYQYKGM  164 (285)
T ss_pred             HHHHHHHHHHhhccCc
Confidence            9999999999998643

>KOG0177|consensus

Probab=99.67  E-value=3.2e-16  Score=106.29  Aligned_cols=90  Identities=19%  Similarity=0.220  Sum_probs=83.7

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      .+++||++.|+|++|+|+....+.+  .++.+|++++++++.++++|..+|...+.+++...++.|+.++|.++||+.+|
T Consensus         2 e~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aa   81 (200)
T KOG0177|consen    2 ETLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAA   81 (200)
T ss_pred             ceEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHH
Confidence            4789999999999999999888776  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      +.+-+-+.++-.
T Consensus        82 hFtR~~La~~LR   93 (200)
T KOG0177|consen   82 HFTRRELAESLR   93 (200)
T ss_pred             HHHHHHHHHHHh
Confidence            999888876643

>KOG0173|consensus

Probab=99.54  E-value=1.7e-14  Score=101.66  Aligned_cols=98  Identities=13%  Similarity=0.175  Sum_probs=90.2

Q ss_pred             HHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCC
Q psy6667          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQEN   89 (111)
Q Consensus        12 ~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~   89 (111)
                      .++.+.|+|++|+.+|||||+++|+|++.+..  .++.+||+.+.++|+|+-+|-.+|...+.+.+..+..+|++..+++
T Consensus        31 p~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R~  110 (271)
T KOG0173|consen   31 PKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGRK  110 (271)
T ss_pred             CcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCCC
Confidence            34567899999999999999999999998876  7888999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHhhcc
Q psy6667          90 IPTQQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        90 i~~~~la~~ls~~~~~~t~~  109 (111)
                      ++|-..-.++-..|+.|--+
T Consensus       111 ~rVv~A~~mlkQ~LFrYqG~  130 (271)
T KOG0173|consen  111 PRVVTALRMLKQHLFRYQGH  130 (271)
T ss_pred             CceeeHHHHHHHHHHHhcCc
Confidence            99999999998888888544

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

Probab=99.07  E-value=6.4e-11  Score=54.68  Aligned_cols=14  Identities=57%  Similarity=1.092  Sum_probs=13.5

Q ss_pred             CCCcchhhhhHHHH
Q psy6667           1 PSGKLVQIEYALAA   14 (111)
Q Consensus         1 p~Gri~Qieya~~a   14 (111)
                      |||||+|||||+||
T Consensus        10 p~Grl~QVEYA~~A   23 (23)
T PF10584_consen   10 PDGRLFQVEYAMKA   23 (23)
T ss_dssp             TTSSBHHHHHHHHH
T ss_pred             CCCeEEeeEeeecC
Confidence            89999999999997

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

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

Probab=98.31  E-value=7.2e-07  Score=59.81  Aligned_cols=67  Identities=15%  Similarity=0.159  Sum_probs=55.7

Q ss_pred             cCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEc-cCcEEEEEecchhhHHHHHHHHHHHHHHHH
Q psy6667          17 AGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYK   83 (111)
Q Consensus        17 ~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~   83 (111)
                      +++|+++++-++-|+||+|...+.+..  ..+..|+.+| +.+++.+++|..+|+..|.+.+..+++.|.
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~   72 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQ   72 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHcc
Confidence            579999999999999999998876654  4444555444 458999999999999999999999998874

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

Probab=93.67  E-value=0.45  Score=33.56  Aligned_cols=85  Identities=11%  Similarity=0.063  Sum_probs=56.1

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEc---cCc-EEEEEecchhhHHHHHHHHHHHHHH--HHHHhCCCCC
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPI---TDY-IGMVYSGMGPDYRLLVKKARKIAQQ--YKLVYQENIP   91 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i---~~~-i~~~~sG~~~D~~~l~~~~~~~~~~--~~~~~~~~i~   91 (111)
                      +=|||++...|.|+++|.|+..+.= -...+|.|..   +++ +++..+|..+=.|.+...+.+..+.  .+...+ -.+
T Consensus         2 TYCv~l~l~~GlVf~sDsRTNAGvD~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n-~~s   80 (255)
T COG3484           2 TYCVGLILDFGLVFGSDSRTNAGVDYISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLN-IPS   80 (255)
T ss_pred             ceEEEEEeccceEEecccccccCchHHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhc-chh
Confidence            3489999999999999999876643 2223454433   233 4567899999999999888877752  222222 235


Q ss_pred             HHHHHHHHHHHHH
Q psy6667          92 TQQLVQRVAAIMQ  104 (111)
Q Consensus        92 ~~~la~~ls~~~~  104 (111)
                      +-..+.++++...
T Consensus        81 m~eattlvgetvr   93 (255)
T COG3484          81 MYEATTLVGETVR   93 (255)
T ss_pred             HHHHHHHHHHHHH
Confidence            5556666666554

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

Probab=81.43  E-value=1.1  Score=31.26  Aligned_cols=34  Identities=18%  Similarity=0.254  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHH-hCCCCCHHHHHHHHHHHHHHh
Q psy6667          73 KKARKIAQQYKLV-YQENIPTQQLVQRVAAIMQEY  106 (111)
Q Consensus        73 ~~~~~~~~~~~~~-~~~~i~~~~la~~ls~~~~~~  106 (111)
                      +++++.+..+-.. +...|+++.+.+.+-.++.+-
T Consensus       127 k~~K~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~  161 (194)
T PF09894_consen  127 KFTKEIANKELKKYWKPKMSLKDIENIFEKIMEEV  161 (194)
T ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            5556666665333 346789999999998888765

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	111
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		9e-47
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		9e-47
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		8e-29
1vsy_B	231	Proteasome Activator Complex Length = 231		5e-26
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		6e-20
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		7e-20
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		7e-20
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		7e-20
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		7e-20
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		8e-20
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		7e-18
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		7e-18
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		7e-18
1vsy_C	232	Proteasome Activator Complex Length = 232		8e-18
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		8e-18
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		7e-17
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		1e-16
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		1e-16
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		1e-16
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		2e-16
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		1e-15
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		1e-15
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		1e-15
1vsy_E	250	Proteasome Activator Complex Length = 250		1e-15
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		1e-15
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		1e-15
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		3e-15
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		3e-15
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		3e-15
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		3e-15
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		3e-15
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		3e-15
1vsy_D	227	Proteasome Activator Complex Length = 227		5e-15
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		1e-14
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		1e-14
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		7e-14
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		7e-14
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		1e-13
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		1e-13
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		1e-13
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		4e-13
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		5e-13
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		1e-12
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		1e-12
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		6e-09
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		7e-09
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		5e-08
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		5e-08
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		5e-08
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		5e-08
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		5e-08
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		2e-06
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		2e-06
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		5e-04
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		5e-04

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

Iteration: 1
 Score =  181 bits (459), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 14  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 73
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 74  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 124

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

Iteration: 1
 Score =  181 bits (459), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 89/111 (80%), Positives = 101/111 (90%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125

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

Iteration: 1
 Score =  121 bits (304), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 66/112 (58%), Positives = 81/112 (72%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTIL-FEDCIHKVEPITDYIGM 59
           PSGKL QI+YAL AV+ G  S+GIKA+NG+V+ATEKK  + L   + + KV  +T  IG 
Sbjct: 14  PSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGA 73
Query: 60  VYSGMGPDYRLLVKKARKIAQ-QYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV K+RK+A   YK +Y E  PT+ LV  VA IMQE TQSG
Sbjct: 74  VYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSG 125

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

Iteration: 1
 Score =  112 bits (280), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 61/106 (57%), Positives = 76/106 (71%), Gaps = 2/106 (1%)
Query: 7   QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTIL-FEDCIHKVEPITDYIGMVYSGMG 65
           QI+YAL AV+ G  S+GIKA+NG+V+ATEKK  + L   + + KV  +T  IG VYSGMG
Sbjct: 1   QIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMG 60
Query: 66  PDYRLLVKKARKIAQ-QYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           PDYR+LV K+RK+A   YK +Y E  PT+ LV  VA IMQE TQSG
Sbjct: 61  PDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSG 106

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

Iteration: 1
 Score = 92.4 bits (228), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 49/111 (44%), Positives = 74/111 (66%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G+ ++G+K +NG++L ++KK ++ L E + I K++ I DY+  
Sbjct: 11  PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA 70
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ G
Sbjct: 71  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 121

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

Iteration: 1
 Score = 92.0 bits (227), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 49/111 (44%), Positives = 74/111 (66%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G+ ++G+K +NG++L ++KK ++ L E + I K++ I DY+  
Sbjct: 17  PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ G
Sbjct: 77  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 127

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

Iteration: 1
 Score = 92.0 bits (227), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 49/111 (44%), Positives = 74/111 (66%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G+ ++G+K +NG++L ++KK ++ L E + I K++ I DY+  
Sbjct: 21  PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA 80
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ G
Sbjct: 81  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 131

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

Iteration: 1
 Score = 92.0 bits (227), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 49/111 (44%), Positives = 74/111 (66%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G+ ++G+K +NG++L ++KK ++ L E + I K++ I DY+  
Sbjct: 17  PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ G
Sbjct: 77  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 127

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

Iteration: 1
 Score = 92.0 bits (227), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 49/111 (44%), Positives = 74/111 (66%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G+ ++G+K +NG++L ++KK ++ L E + I K++ I DY+  
Sbjct: 17  PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ G
Sbjct: 77  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 127

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

Iteration: 1
 Score = 92.0 bits (227), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 49/111 (44%), Positives = 74/111 (66%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G+ ++G+K +NG++L ++KK ++ L E + I K++ I DY+  
Sbjct: 21  PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA 80
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ G
Sbjct: 81  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 131

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

Iteration: 1
 Score = 85.5 bits (210), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 45/112 (40%), Positives = 66/112 (58%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 15  PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 74
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ G
Sbjct: 75  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG 126

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

Iteration: 1
 Score = 85.5 bits (210), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 45/112 (40%), Positives = 66/112 (58%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 5   PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 64
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ G
Sbjct: 65  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG 116

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

Iteration: 1
 Score = 85.5 bits (210), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 45/112 (40%), Positives = 66/112 (58%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 14  PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 73
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ G
Sbjct: 74  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG 125

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

Iteration: 1
 Score = 85.5 bits (210), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 45/112 (40%), Positives = 66/112 (58%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 2   PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 61
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ G
Sbjct: 62  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG 113

>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 = 85.5 bits (210), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 45/112 (40%), Positives = 66/112 (58%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 15  PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 74
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ G
Sbjct: 75  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG 126

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

Iteration: 1
 Score = 82.0 bits (201), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 43/111 (38%), Positives = 67/111 (60%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ GA ++GIK   G++L  +K+  + L E D I K+  I ++I  
Sbjct: 8   PDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEADTIEKIYKIDEHICA 67
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             SG+  D R+L+ +AR  AQ  +L Y E I  ++L +++    Q+YTQ G
Sbjct: 68  ATSGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQYTQYG 118

>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 = 81.6 bits (200), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/112 (37%), Positives = 67/112 (59%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G + Q+EYAL AV+ G  +VG+K  N +VL  E++    L +  I   KV  I  ++ 
Sbjct: 13  PDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVV 72
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSG
Sbjct: 73  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG 124

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

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/112 (37%), Positives = 67/112 (59%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G + Q+EYAL AV+ G  +VG+K  N +VL  E++    L +  I   KV  I  ++ 
Sbjct: 13  PDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVV 72
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSG
Sbjct: 73  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG 124

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

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/112 (37%), Positives = 67/112 (59%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G + Q+EYAL AV+ G  +VG+K  N +VL  E++    L +  I   KV  I  ++ 
Sbjct: 11  PDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVV 70
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSG
Sbjct: 71  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG 122

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 42/111 (37%), Positives = 65/111 (58%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV  G  ++GI   +G+VLA +++  + L +   I K+  I D++  
Sbjct: 21  PEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAA 80
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             SG+  D R+L+ +AR  AQ Y+L Y E I  + L +++  I Q YTQ G
Sbjct: 81  ATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHG 131

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

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 42/111 (37%), Positives = 66/111 (59%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ GA ++GIK   G++L  +K+  + L E D I K+  I ++I  
Sbjct: 17  PDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICA 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             SG+  D R+L+ +AR  AQ  +L Y   I  ++L +++    Q+YTQ G
Sbjct: 77  ATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYG 127

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 1/112 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY+L A++ G+ ++GI    G+VL  EK+  + L E D I K+  I  +IG 
Sbjct: 9   PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGC 68
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +  S
Sbjct: 69  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 1/112 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY+L A++ G+ ++GI    G+VL  EK+  + L E D I K+  I  +IG 
Sbjct: 19  PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGC 78
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +  S
Sbjct: 79  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 130

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 1/112 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY+L A++ G+ ++GI    G+VL  EK+  + L E D I K+  I  +IG 
Sbjct: 17  PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGC 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +  S
Sbjct: 77  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 128

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 1/112 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY+L A++ G+ ++GI    G+VL  EK+  + L E D I K+  I  +IG 
Sbjct: 18  PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGC 77
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +  S
Sbjct: 78  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 129

>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 = 77.8 bits (190), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 1/112 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY+L A++ G+ ++GI    G+VL  EK+  + L E D I K+  I  +IG 
Sbjct: 17  PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGC 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +  S
Sbjct: 77  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 128

>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 = 77.0 bits (188), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 65/109 (59%), Gaps = 3/109 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEK--KQKTILFEDCIHKVEPITDYIG 58
           P G+  Q+EYA+ AVE G  S+GIK ++G+V A EK    K ++ +  + K++ +  +IG
Sbjct: 17  PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIG 75
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYT 107
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T
Sbjct: 76  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT 124

>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 = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 65/109 (59%), Gaps = 3/109 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEK--KQKTILFEDCIHKVEPITDYIG 58
           P G+  Q+EYA+ AVE G  S+GIK ++G+V A EK    K ++ +  + K++ +  +IG
Sbjct: 16  PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIG 74
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYT 107
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T
Sbjct: 75  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT 123

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

Iteration: 1
 Score = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 65/109 (59%), Gaps = 3/109 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEK--KQKTILFEDCIHKVEPITDYIG 58
           P G+  Q+EYA+ AVE G  S+GIK ++G+V A EK    K ++ +  + K++ +  +IG
Sbjct: 17  PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIG 75
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYT 107
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T
Sbjct: 76  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT 124

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

Iteration: 1
 Score = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 65/109 (59%), Gaps = 3/109 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEK--KQKTILFEDCIHKVEPITDYIG 58
           P G+  Q+EYA+ AVE G  S+GIK ++G+V A EK    K ++ +  + K++ +  +IG
Sbjct: 13  PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIG 71
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYT 107
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T
Sbjct: 72  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT 120

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

Iteration: 1
 Score = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 65/109 (59%), Gaps = 3/109 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEK--KQKTILFEDCIHKVEPITDYIG 58
           P G+  Q+EYA+ AVE G  S+GIK ++G+V A EK    K ++ +  + K++ +  +IG
Sbjct: 11  PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIG 69
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYT 107
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T
Sbjct: 70  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT 118

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

Iteration: 1
 Score = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 38/103 (36%), Positives = 59/103 (57%), Gaps = 1/103 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY+L A++ G+ ++GI    G+VL  EK+  + L E D I K+  I  +IG 
Sbjct: 17  PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGC 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAI 102
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +
Sbjct: 77  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDL 119

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

Iteration: 1
 Score = 76.3 bits (186), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 40/108 (37%), Positives = 65/108 (60%), Gaps = 2/108 (1%)
Query: 5   LVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIGMVYS 62
           + Q+EYAL AV+ G  +VG+K  N +VL  E++    L +  I   KV  I  ++ + +S
Sbjct: 1   IFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFS 60
Query: 63  GMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           G+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSG
Sbjct: 61  GLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG 108

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

Iteration: 1
 Score = 74.7 bits (182), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 40/112 (35%), Positives = 64/112 (57%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G+L Q+EYA+ A+      +GI A++G++LA E++    L ++     K+  + + + 
Sbjct: 14  PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMA 73
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
              +G+  D  +L  + R IAQ+Y L YQE IP +QLV  +  I Q YTQ G
Sbjct: 74  CSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFG 125

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

Iteration: 1
 Score = 74.7 bits (182), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 40/112 (35%), Positives = 64/112 (57%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G+L Q+EYA+ A+      +GI A++G++LA E++    L ++     K+  + + + 
Sbjct: 14  PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMA 73
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
              +G+  D  +L  + R IAQ+Y L YQE IP +QLV  +  I Q YTQ G
Sbjct: 74  CSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFG 125

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

Iteration: 1
 Score = 72.4 bits (176), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 35/111 (31%), Positives = 65/111 (58%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTIL-FEDCIHKVEPITDYIGM 59
           P G L Q+EYA  AV+ G+ +VG++  + +VL  EKK    L  E  + K+  + D + M
Sbjct: 12  PDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCM 71
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS 
Sbjct: 72  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122

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

Iteration: 1
 Score = 72.0 bits (175), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 35/111 (31%), Positives = 65/111 (58%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTIL-FEDCIHKVEPITDYIGM 59
           P G L Q+EYA  AV+ G+ +VG++  + +VL  EKK    L  E  + K+  + D + M
Sbjct: 12  PDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVEKKSVAKLQDERTVRKICALDDNVCM 71
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS 
Sbjct: 72  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122

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

Iteration: 1
 Score = 71.6 bits (174), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 36/107 (33%), Positives = 61/107 (57%), Gaps = 1/107 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA+ A++ G+ ++GI+ S G+ LA EK+  + L E   I K+  I  +IG 
Sbjct: 17  PEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGC 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEY 106
             SG+  D + L+ KAR   Q +   Y E +  + + Q V+ +  ++
Sbjct: 77  AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQF 123

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

Iteration: 1
 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 36/108 (33%), Positives = 62/108 (57%), Gaps = 1/108 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHK-VEPITDYIGM 59
           P G++ Q+EYA+ AVE  + ++GI+  +G+V   EK   + L+E+  +K +  +  ++GM
Sbjct: 16  PDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGM 75
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYT 107
             +G+  D R L   AR+ A  ++  +  NIP + L  RVA  +  YT
Sbjct: 76  AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYT 123

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

Iteration: 1
 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 36/108 (33%), Positives = 62/108 (57%), Gaps = 1/108 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHK-VEPITDYIGM 59
           P G++ Q+EYA+ AVE  + ++GI+  +G+V   EK   + L+E+  +K +  +  ++GM
Sbjct: 17  PDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGM 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYT 107
             +G+  D R L   AR+ A  ++  +  NIP + L  RVA  +  YT
Sbjct: 77  AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYT 124

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 34/111 (30%), Positives = 64/111 (57%), Gaps = 1/111 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTIL-FEDCIHKVEPITDYIGM 59
           P G L Q+EYA  AV+ G+ +VG++  + +VL   KK    L  E  + K+  + D + M
Sbjct: 12  PDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVAKKSVAKLQDERTVRKICALDDNVCM 71
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS 
Sbjct: 72  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122

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

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 35/107 (32%), Positives = 60/107 (56%), Gaps = 1/107 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY + A++ G+ ++GI+ S G+ LA EK+  + L E   I K+  I  +IG 
Sbjct: 17  PEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGC 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEY 106
             SG+  D + L+ KAR   Q +   Y E +  + + Q V+ +  ++
Sbjct: 77  AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQF 123

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/112 (36%), Positives = 61/112 (54%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAV-EAGAPSVGIKASNGIVLATEKK-QKTILFEDCIHKVEPITDYIG 58
           P G+L Q+EYA  A+ + G  SV ++  +  V+ T+KK    +L    +  +  IT+ IG
Sbjct: 18  PEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIG 77
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            V +GM  D R  V++AR  A  +K  Y   IP   L +R+A I Q YTQ+ 
Sbjct: 78  CVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNA 129

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/112 (36%), Positives = 61/112 (54%), Gaps = 2/112 (1%)
Query: 1   PSGKLVQIEYALAAV-EAGAPSVGIKASNGIVLATEKK-QKTILFEDCIHKVEPITDYIG 58
           P G+L Q+EYA  A+ + G  SV ++  +  V+ T+KK    +L    +  +  IT+ IG
Sbjct: 18  PEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITESIG 77
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            V +GM  D R  V++AR  A  +K  Y   IP   L +R+A I Q YTQ+ 
Sbjct: 78  CVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNA 129

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 34/110 (30%), Positives = 59/110 (53%), Gaps = 5/110 (4%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIH--KVEPITDYIG 58
           P G++ QIEYA+ AV+ G+ +VG+K+    VL   K+ ++ L     H  K+  + ++IG
Sbjct: 15  PQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSEL---AAHQKKILHVDNHIG 71
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           +  +G+  D RLL    R+     + V+   +P  +LV  + +  Q  TQ
Sbjct: 72  ISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQ 121

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 34/110 (30%), Positives = 59/110 (53%), Gaps = 5/110 (4%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIH--KVEPITDYIG 58
           P G++ QIEYA+ AV+ G+ +VG+K+    VL   K+ ++ L     H  K+  + ++IG
Sbjct: 15  PQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSEL---AAHQKKILHVDNHIG 71
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           +  +G+  D RLL    R+     + V+   +P  +LV  + +  Q  TQ
Sbjct: 72  ISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQ 121

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 14  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 72
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS 109
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS
Sbjct: 73  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 121

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 15  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 73
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS 109
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS
Sbjct: 74  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 122

>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 = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 15  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 73
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS 109
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS
Sbjct: 74  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 122

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 14  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 72
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS 109
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS
Sbjct: 73  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 121

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 16  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 74
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS 109
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS
Sbjct: 75  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 123

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/110 (30%), Positives = 58/110 (52%), Gaps = 2/110 (1%)
Query: 1   PSGKLVQIEYALAAV-EAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIG 58
           P G+L Q+EYA  A  +    S+ ++  +  V+ ++KK    L +   +  +  I+  IG
Sbjct: 21  PEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIG 80
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           MV +G  PD R    +A+  A +++  Y  ++P   L +R+A + Q YTQ
Sbjct: 81  MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQ 130

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/110 (30%), Positives = 58/110 (52%), Gaps = 2/110 (1%)
Query: 1   PSGKLVQIEYALAAV-EAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIG 58
           P G+L Q+EYA  A  +    S+ ++  +  V+ ++KK    L +   +  +  I+  IG
Sbjct: 12  PEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIG 71
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           MV +G  PD R    +A+  A +++  Y  ++P   L +R+A + Q YTQ
Sbjct: 72  MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQ 121

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

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/93 (22%), Positives = 49/93 (52%), Gaps = 2/93 (2%)
Query: 15  VEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLV 72
           +E G  +VGI   + +++ATE++   +  +      K+  I  Y GM  +G+  D ++LV
Sbjct: 5   LETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLV 64
Query: 73  KKARKIAQQYKLVYQENIPTQQLVQRVAAIMQE 105
           +  +   + Y+L  + N+P + +   ++ ++ +
Sbjct: 65  RYMKAELELYRLQRRVNMPIEAVATLLSNMLNQ 97

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

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/93 (22%), Positives = 49/93 (52%), Gaps = 2/93 (2%)
Query: 15  VEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLV 72
           +E G  +VGI   + +++ATE++   +  +      K+  I  Y GM  +G+  D ++LV
Sbjct: 5   LETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLV 64
Query: 73  KKARKIAQQYKLVYQENIPTQQLVQRVAAIMQE 105
           +  +   + Y+L  + N+P + +   ++ ++ +
Sbjct: 65  RYMKAELELYRLQRRVNMPIEAVATLLSNMLNQ 97

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	111
1iru_E	241	20S proteasome; cell cycle, immune response, prote	6e-48
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-46
1iru_D	248	20S proteasome; cell cycle, immune response, prote	9e-46
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	1e-45
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-45
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	2e-45
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	3e-45
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	4e-45
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	5e-45
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	5e-45
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	3e-44
1iru_F	263	20S proteasome; cell cycle, immune response, prote	4e-44
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	7e-44
1iru_C	261	20S proteasome; cell cycle, immune response, prote	1e-43
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	2e-43
1iru_G	254	20S proteasome; cell cycle, immune response, prote	3e-43
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	3e-43
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	8e-43
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	1e-19
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	2e-19
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	9e-16
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	2e-13
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	1e-11
1iru_I	234	20S proteasome; cell cycle, immune response, prote	3e-11
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	7e-11
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	5e-10
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	2e-09
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	7e-08
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	7e-08
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	1e-07
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	3e-07
1iru_L	204	20S proteasome; cell cycle, immune response, prote	6e-07
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	7e-07
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	1e-06
1iru_M	213	20S proteasome; cell cycle, immune response, prote	2e-06
1iru_J	205	20S proteasome; cell cycle, immune response, prote	6e-06
1iru_K	201	20S proteasome; cell cycle, immune response, prote	2e-05
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	2e-05
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	5e-05
1iru_H	205	20S proteasome; cell cycle, immune response, prote	9e-05
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	2e-04
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	5e-04

>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 =  152 bits (386), Expect = 6e-48
 Identities = 35/112 (31%), Positives = 62/112 (55%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY + A++ G+ ++GI+ S G+ LA EK+  + L E   I K+  I  +IG 
Sbjct: 17  PEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGC 76

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D + L+ KAR   Q +   Y E +  + + Q V+ +  ++ +  +
Sbjct: 77  AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDA 128

>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 =  148 bits (376), Expect = 1e-46
 Identities = 88/112 (78%), Positives = 101/112 (90%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL++   +HKVEPIT +IG+
Sbjct: 14  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 73

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG 
Sbjct: 74  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGG 125

>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 =  146 bits (372), Expect = 9e-46
 Identities = 34/112 (30%), Positives = 65/112 (58%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G L Q+EYA  AV+ G+ +VG++  + +VL  EKK    L +   + K+  + D + M
Sbjct: 12  PDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCM 71

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS  
Sbjct: 72  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNG 123

>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 =  146 bits (370), Expect = 1e-45
 Identities = 42/112 (37%), Positives = 63/112 (56%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+  Q+EYA+ AVE G  S+GIK ++G+V A EK   + L       K++ +  +IG 
Sbjct: 13  PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGC 72

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T   S
Sbjct: 73  VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNS 124

>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 =  146 bits (370), Expect = 1e-45
 Identities = 41/113 (36%), Positives = 60/113 (53%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVE-AGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIG 58
           P G+L Q+EYA  A+   G  SV ++  +  V+ T+KK    L +   +  +  IT+ IG
Sbjct: 18  PEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIG 77

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
            V +GM  D R  V++AR  A  +K  Y   IP   L +R+A I Q YTQ+  
Sbjct: 78  CVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAE 130

>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 =  145 bits (369), Expect = 2e-45
 Identities = 33/113 (29%), Positives = 57/113 (50%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVE-AGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIG 58
           P G+L Q+EYA  A       S+ ++  +  V+ ++KK    L +   +  +  I+  IG
Sbjct: 12  PEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIG 71

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           MV +G  PD R    +A+  A +++  Y  ++P   L +R+A + Q YTQ   
Sbjct: 72  MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAY 124

>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 =  146 bits (371), Expect = 3e-45
 Identities = 42/112 (37%), Positives = 63/112 (56%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+  Q+EYA+ AVE G  S+GIK ++G+V A EK   + L       K++ +  +IG 
Sbjct: 17  PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGC 76

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T   S
Sbjct: 77  VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNS 128

>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 =  144 bits (366), Expect = 4e-45
 Identities = 30/111 (27%), Positives = 57/111 (51%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 14  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 72

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS  
Sbjct: 73  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYG 123

>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 =  144 bits (366), Expect = 5e-45
 Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY+L A++ G+ ++GI    G+VL  EK+  + L E D I K+  I  +IG 
Sbjct: 9   PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGC 68

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +  S
Sbjct: 69  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

>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 =  145 bits (367), Expect = 5e-45
 Identities = 66/113 (58%), Positives = 81/113 (71%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           PSGKL QI+YAL AV+ G  S+GIKA+NG+V+ATEKK  + L   + + KV  +T  IG 
Sbjct: 14  PSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGA 73

Query: 60  VYSGMGPDYRLLVKKARKIAQQ-YKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           VYSGMGPDYR+LV K+RK+A   YK +Y E  PT+ LV  VA IMQE TQSG 
Sbjct: 74  VYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGG 126

>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 =  142 bits (360), Expect = 3e-44
 Identities = 49/112 (43%), Positives = 74/112 (66%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G+ ++G+K +NG++L ++KK ++ L E + I K++ I DY+  
Sbjct: 17  PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA 76

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ G 
Sbjct: 77  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGG 128

>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 =  143 bits (362), Expect = 4e-44
 Identities = 33/111 (29%), Positives = 58/111 (52%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P G++ QIEYA+ AV+ G+ +VG+K+    VL   K+ ++ L      K+  + ++IG+ 
Sbjct: 15  PQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAH-QKKILHVDNHIGIS 73

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
            +G+  D RLL    R+     + V+   +P  +LV  + +  Q  TQ   
Sbjct: 74  IAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYG 124

>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 =  141 bits (358), Expect = 7e-44
 Identities = 45/113 (39%), Positives = 66/113 (58%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED--CIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 14  PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 73

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ G 
Sbjct: 74  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGG 126

>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 =  141 bits (358), Expect = 1e-43
 Identities = 40/113 (35%), Positives = 64/113 (56%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G+L Q+EYA+ A+      +GI A++G++LA E++    L ++     K+  + + + 
Sbjct: 14  PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMA 73

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
              +G+  D  +L  + R IAQ+Y L YQE IP +QLV  +  I Q YTQ G 
Sbjct: 74  CSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGG 126

>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii} Length = 264

 Score =  141 bits (358), Expect = 2e-43
 Identities = 42/112 (37%), Positives = 65/112 (58%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV  G  ++GI   +G+VLA +++  + L +   I K+  I D++  
Sbjct: 21  PEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAA 80

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R+L+ +AR  AQ Y+L Y E I  + L +++  I Q YTQ G 
Sbjct: 81  ATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGG 132

>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 =  140 bits (355), Expect = 3e-43
 Identities = 35/112 (31%), Positives = 61/112 (54%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G++ Q+EYA+ AVE  + ++GI+  +G+V   EK   + L+E     ++  +  ++GM
Sbjct: 16  PDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGM 75

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             +G+  D R L   AR+ A  ++  +  NIP + L  RVA  +  YT   +
Sbjct: 76  AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSA 127

>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 =  140 bits (354), Expect = 3e-43
 Identities = 41/113 (36%), Positives = 66/113 (58%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G + Q+EYAL AV+ G  +VG+K  N +VL  E++    L +      KV  I  ++ 
Sbjct: 11  PDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVV 70

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSG 
Sbjct: 71  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGG 123

>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A {Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A* Length = 246

 Score =  139 bits (352), Expect = 8e-43
 Identities = 42/112 (37%), Positives = 66/112 (58%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ GA ++GIK   G++L  +K+  + L E D I K+  I ++I  
Sbjct: 17  PDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICA 76

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R+L+ +AR  AQ  +L Y   I  ++L +++    Q+YTQ G 
Sbjct: 77  ATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGG 128

>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 = 79.7 bits (196), Expect = 1e-19
 Identities = 18/106 (16%), Positives = 37/106 (34%), Gaps = 8/106 (7%)

Query: 7   QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGP 66
           + E A   +  G   V +   +G++   E     +      HKV  + D +G    G   
Sbjct: 16  RSELARKGIARGRSVVVLTFRDGVLFVAENPSTAL------HKVSELYDRLGFAAVGKYN 69

Query: 67  DYRLLVKKARKIAQQYKLVY-QENIPTQQLVQRVAAIM-QEYTQSG 110
           ++  L +     A      Y + ++  + L    A  +   +T+  
Sbjct: 70  EFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQP 115

>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 = 78.8 bits (194), Expect = 2e-19
 Identities = 16/113 (14%), Positives = 40/113 (35%), Gaps = 8/113 (7%)

Query: 1   PSGKLVQ-IEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGM 59
           P   + +  E A   +      V +  + G++   E   +++       K+  + D +G 
Sbjct: 9   PEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENPSRSL------QKISELYDRVGF 62

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVY-QENIPTQQLVQRVAAIMQEYTQSGS 111
             +G   ++  L +   + A      Y + ++  +QL    A  +       +
Sbjct: 63  AAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQA 115

>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 = 68.8 bits (169), Expect = 9e-16
 Identities = 11/89 (12%), Positives = 32/89 (35%), Gaps = 2/89 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
            G+   +G++L  + +    +++ +    K+  I   I    +G+  D  +  + A    
Sbjct: 4   AGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKM 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           + + L          + + +   +  Y  
Sbjct: 64  ELHALSTGREPRVATVTRILRQTLFRYQG 92

>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 = 63.1 bits (154), Expect = 2e-13
 Identities = 20/111 (18%), Positives = 42/111 (37%), Gaps = 3/111 (2%)

Query: 1   PSGKLVQIEYAL-AAVEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYI 57
            +  L +  +    A   G   VG+K +NG+V+A + +  Q  I+ +    K+  I+  I
Sbjct: 11  RNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKI 70

Query: 58  GMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
               +G   D   + +      + + L           +Q +   + +Y  
Sbjct: 71  WCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG 121

>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 = 58.1 bits (141), Expect = 1e-11
 Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 2/89 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           VG+K +NG+V+A + +  Q  I+ +    K+  I+  I    +G   D   + +      
Sbjct: 4   VGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNI 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           + + L           +Q +   + +Y  
Sbjct: 64  ELHSLYTSREPRVVSALQMLKQHLFKYQG 92

>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 = 56.5 bits (137), Expect = 3e-11
 Identities = 12/89 (13%), Positives = 31/89 (34%), Gaps = 2/89 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
            G+   +GIVL  + +  +  ++ +    K+  I+  I    +G   D  +  +      
Sbjct: 4   AGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNL 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           + + L            + +  ++  Y  
Sbjct: 64  ELHSLSTGRLPRVVTANRMLKQMLFRYRG 92

>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 = 55.7 bits (135), Expect = 7e-11
 Identities = 21/99 (21%), Positives = 49/99 (49%), Gaps = 2/99 (2%)

Query: 14  AVEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLL 71
            +E G  +VGI   + +++ATE++   +  +      K+  I  Y GM  +G+  D ++L
Sbjct: 4   TLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVL 63

Query: 72  VKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           V+  +   + Y+L  + N+P + +   ++ ++ +     
Sbjct: 64  VRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMP 102

>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 = 53.8 bits (129), Expect = 5e-10
 Identities = 15/101 (14%), Positives = 34/101 (33%), Gaps = 4/101 (3%)

Query: 9   EYALAAVEAGAPSVGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMG 65
             +      G   V +    G++LA +++      I   D    V    +Y     +G  
Sbjct: 56  MESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDV-EAVYVTDEYSAAGIAGTA 114

Query: 66  PDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEY 106
                LV+      + Y+ +    +       R+A++++  
Sbjct: 115 GIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGN 155

>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 = 52.1 bits (125), Expect = 2e-09
 Identities = 15/88 (17%), Positives = 33/88 (37%), Gaps = 4/88 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           V +    G++LA +++      I   D   KV    +Y     +G       LV+     
Sbjct: 4   VALTYKGGVLLAGDRRATQGNLIASRDV-EKVYVTDEYSAAGIAGTAGIAIELVRLFAVE 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEY 106
            + Y+ +    +       R+A++++  
Sbjct: 63  LEHYEKIEGVPLTFDGKANRLASMVRGN 90

>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4 Length = 202

 Score = 47.2 bits (113), Expect = 7e-08
 Identities = 19/92 (20%), Positives = 39/92 (42%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           VG+   +G+V+ATEK+      I  +    K+  I D + M  +G   D + L +  +  
Sbjct: 4   VGLVCKDGVVMATEKRATMGNFIASKAA-KKIYQIADRMAMTTAGSVGDAQFLARIIKIE 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           A  Y++  +     + +    + ++  Y    
Sbjct: 63  ANLYEIRRERKPTVRAIATLTSNLLNSYRYFP 94

>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 = 47.8 bits (114), Expect = 7e-08
 Identities = 13/92 (14%), Positives = 36/92 (39%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +  +   GI++A + +      +  +    KV  I  ++    +G   D +         
Sbjct: 79  LAFRFQGGIIVAVDSRATAGNWVASQTV-KKVIEINPFLLGTMAGGAADCQFWETWLGSQ 137

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            + ++L  +E I      + ++ ++ +Y  +G
Sbjct: 138 CRLHELREKERISVAAASKILSNLVYQYKGAG 169

>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 = 46.8 bits (111), Expect = 1e-07
 Identities = 14/89 (15%), Positives = 34/89 (38%), Gaps = 2/89 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           V +K   G+V+A +++  Q  ++    + KV    DY     +G         +      
Sbjct: 61  VALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVEL 120

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           + Y+ +    +     + R+A +++    
Sbjct: 121 EHYEKLEGVPLTFAGKINRLAIMVRGNLA 149

>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 = 45.7 bits (109), Expect = 3e-07
 Identities = 12/92 (13%), Positives = 36/92 (39%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +  +   GI++A + +      +  +    +V  I  ++    +G   D +         
Sbjct: 4   LAFRFQGGIIVAVDSRATAGNWVASQTV-KRVIEINPFLLGTMAGGAADCQFWETWLGSQ 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            + ++L  +E I      + ++ ++ +Y  +G
Sbjct: 63  CRLHELREKERISVAAASKILSNLVYQYKGAG 94

>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 = 44.5 bits (106), Expect = 6e-07
 Identities = 17/92 (18%), Positives = 37/92 (40%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +  K  +G+++A + +      I  +    KV  I  Y+    +G   D     +   + 
Sbjct: 4   LAFKFRHGVIVAADSRATAGAYIASQTV-KKVIEINPYLLGTMAGGAADCSFWERLLARQ 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            + Y+L  +E I      + +A ++ +Y   G
Sbjct: 63  CRIYELRNKERISVAAASKLLANMVYQYKGMG 94

>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 = 44.5 bits (106), Expect = 7e-07
 Identities = 15/92 (16%), Positives = 37/92 (40%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +GI+  + ++LA+ K      ++L +    K   ++ +  M ++G   D     +  +  
Sbjct: 5   LGIRVQDSVILASSKAVTRGISVLKDSD-DKTRQLSPHTLMSFAGEAGDTVQFAEYIQAN 63

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            Q Y +     +  Q +   V   + +  +S 
Sbjct: 64  IQLYSIREDYELSPQAVSSFVRQELAKSIRSR 95

>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 = 43.4 bits (103), Expect = 2e-06
 Identities = 16/88 (18%), Positives = 33/88 (37%), Gaps = 4/88 (4%)

Query: 22  VGIKASNGIVLATEK---KQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           + I   +  ++A++    +  +I   D   K   +TD   +  SG   D   L K     
Sbjct: 13  LAIAGEDFAIVASDTRLSEGFSIHTRDS-PKCYKLTDKTVIGCSGFHGDCLTLTKIIEAR 71

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEY 106
            + YK    + + T  +   ++ I+   
Sbjct: 72  LKMYKHSNNKAMTTGAIAAMLSTILYSR 99

>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 = 41.8 bits (99), Expect = 6e-06
 Identities = 17/92 (18%), Positives = 40/92 (43%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEK---KQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           + +K  N + +A ++    Q  ++  D   K+ P+ D + +  +G+  D + + ++ +  
Sbjct: 12  MAMKGKNCVAIAADRRFGIQAQLVTTDF-QKIFPMGDRLYIGLAGLATDVQTVAQRLKFR 70

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
              Y+L     I    L+  VA ++ E     
Sbjct: 71  LNLYELKEGRQIKPYTLMSMVANLLYEKRFGP 102

>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 = 40.7 bits (96), Expect = 2e-05
 Identities = 13/92 (14%), Positives = 37/92 (40%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +GI+  + +++A+++        + +D   K+  +++ I ++  G   D     +  +K 
Sbjct: 5   IGIQGPDYVLVASDRVAASNIVQMKDDH-DKMFKMSEKILLLCVGEAGDTVQFAEYIQKN 63

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            Q YK+     +            + +  +S 
Sbjct: 64  VQLYKMRNGYELSPTAAANFTRRNLADCLRSR 95

>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 = 40.3 bits (95), Expect = 2e-05
 Identities = 14/88 (15%), Positives = 32/88 (36%), Gaps = 4/88 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           + ++   G+V+ ++ +      ++      K+ P+   I    SG   D + +   A   
Sbjct: 4   MAVEFDGGVVVGSDSRVSAGTAVVNRVF-DKLSPLHQRIFCALSGSAADAQAIADMAAYQ 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEY 106
            + + L  +E          V  I  +Y
Sbjct: 63  LELHGLELEEPPLVLAAANVVKNISYKY 90

>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 = 39.6 bits (93), Expect = 5e-05
 Identities = 17/93 (18%), Positives = 32/93 (34%), Gaps = 5/93 (5%)

Query: 22  VGIKASNGIVLATEK---KQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +GI   +  VLA +       +I       KV    D I M  +G   D   LVK+ +  
Sbjct: 13  LGIAGEDFAVLAGDTRNITDYSINSRYE-PKVFDCGDNIVMSANGFAADGDALVKRFKNS 71

Query: 79  AQQYKLVYQE-NIPTQQLVQRVAAIMQEYTQSG 110
            + Y   + +  +      + +  ++       
Sbjct: 72  VKWYHFDHNDKKLSINSAARNIQHLLYGKRFFP 104

>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 = 38.7 bits (91), Expect = 9e-05
 Identities = 14/88 (15%), Positives = 26/88 (29%), Gaps = 4/88 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           + ++   G+VL  + +      I       K+ PI D I    SG   D + +       
Sbjct: 4   MAVQFDGGVVLGADSRTTTGSYIANRVT-DKLTPIHDRIFCCRSGSAADTQAVADAVTYQ 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEY 106
              + +   E             +   Y
Sbjct: 63  LGFHSIELNEPPLVHTAASLFKEMCYRY 90

>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 = 38.2 bits (89), Expect = 2e-04
 Identities = 14/97 (14%), Positives = 37/97 (38%), Gaps = 9/97 (9%)

Query: 18  GAPSVGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKK 74
           G   + +K  NG+++A +        + F     ++ P+ D   +  SG   D + + + 
Sbjct: 41  GTSVISMKYDNGVIIAADNLGSYGSLLRFNGV-ERLIPVGDNTVVGISGDISDMQHIERL 99

Query: 75  ARKIAQQYKLVYQ-----ENIPTQQLVQRVAAIMQEY 106
            + +  +           E +    + + +A +M + 
Sbjct: 100 LKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQR 136

>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 = 36.5 bits (85), Expect = 5e-04
 Identities = 13/93 (13%), Positives = 36/93 (38%), Gaps = 9/93 (9%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           + +K  NG+++A +        + F     ++ P+ D   +  SG   D + + +  + +
Sbjct: 12  ISMKYDNGVIIAADNLGSYGSLLRFNGV-ERLIPVGDNTVVGISGDISDMQHIERLLKDL 70

Query: 79  AQQYKLVYQ-----ENIPTQQLVQRVAAIMQEY 106
             +           E +    + + +A +M + 
Sbjct: 71  VTENAYDNPLADAEEALEPSYIFEYLATVMYQR 103

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	111
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	99.96
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	99.95
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	99.94
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	99.93
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	99.93
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	99.93
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	99.93
1iru_M	213	20S proteasome; cell cycle, immune response, prote	99.92
1iru_J	205	20S proteasome; cell cycle, immune response, prote	99.92
1iru_H	205	20S proteasome; cell cycle, immune response, prote	99.92
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	99.92
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	99.92
1iru_N	219	20S proteasome; cell cycle, immune response, prote	99.92
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	99.92
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	99.91
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	99.91
1iru_L	204	20S proteasome; cell cycle, immune response, prote	99.91
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	99.91
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	99.91
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	99.91
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	99.91
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	99.91
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	99.9
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	99.89
1iru_I	234	20S proteasome; cell cycle, immune response, prote	99.89
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	99.89
1iru_K	201	20S proteasome; cell cycle, immune response, prote	99.87
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.83
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.82
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.81

>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=4.5e-38  Score=222.54  Aligned_cols=110  Identities=30%  Similarity=0.466  Sum_probs=106.8

Q ss_pred             CCCcchhhhhHHHHHhc-CCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~-g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++ |+|+|||+++||||||+|+|.+.++. +++.+|||+|++|++++++|+.+|++.++++++.+
T Consensus        12 p~Grl~QvEYA~~av~~~Gtt~vgi~~~dgVvlaad~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~r~~   91 (243)
T 1ryp_A           12 PEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAE   91 (243)
T ss_dssp             TTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHHHHHHHHHHHHH
T ss_pred             CCCeeHHHHHHHHHHhcCCCcEEEEEeCCEEEEEEEecCCccccCCCcCCceEEECCCEEEEEEecHHHHHHHHHHHHHH
Confidence            99999999999999999 99999999999999999999997777 88889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +++|+++++++||++.+|++|++++|.||+++
T Consensus        92 ~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~  123 (243)
T 1ryp_A           92 AAEFRYKYGYDMPCDVLAKRMANLSQIYTQRA  123 (243)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBT
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhccC
Confidence            99999999999999999999999999999974

>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=1.5e-37  Score=219.65  Aligned_cols=110  Identities=37%  Similarity=0.572  Sum_probs=106.8

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++  .++.+||++|+++++++++|+.+|++.|.++++.+
T Consensus        11 p~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~   90 (241)
T 1ryp_D           11 PDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEKARVE   90 (241)
T ss_dssp             TTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988  44889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++.|+++++++||++.+|+++++++|.|||++
T Consensus        91 ~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~  122 (241)
T 1ryp_D           91 AQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG  122 (241)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTSST
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHccCC
Confidence            99999999999999999999999999999874

>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=1.3e-37  Score=220.98  Aligned_cols=110  Identities=32%  Similarity=0.565  Sum_probs=107.5

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.++++. .++.+||++|++|++++++|+.+|++.|.++++.++
T Consensus        12 p~Grl~QvEYA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   91 (248)
T 1iru_D           12 PDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADARIVINRARVEC   91 (248)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEcCCEEEEEeecHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999987 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++|+++++++||++.+++++++++|.|||++
T Consensus        92 ~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~  122 (248)
T 1iru_D           92 QSHRLTVEDPVTVEYITRYIASLKQRYTQSN  122 (248)
T ss_dssp             HHHHHHSSSCCCHHHHHHHHHHHHHHTTSBT
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHhccC
Confidence            9999999999999999999999999999975

>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=1.5e-37  Score=221.37  Aligned_cols=110  Identities=32%  Similarity=0.549  Sum_probs=107.6

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ .++.+||++|++|++++++|+.+|++.|.++++.++
T Consensus        16 p~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   95 (254)
T 1iru_G           16 PDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLADARSLADIAREEA   95 (254)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             cCCccHHHHhHHHHHhcCCCEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEECCCEEEEEecChHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999998 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +.|+++++++||++.+++++++++|.|||++
T Consensus        96 ~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~  126 (254)
T 1iru_G           96 SNFRSNFGYNIPLKHLADRVAMYVHAYTLYS  126 (254)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSBS
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999999999999999875

>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii}

Probab=100.00  E-value=8.2e-38  Score=223.94  Aligned_cols=110  Identities=38%  Similarity=0.631  Sum_probs=107.4

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|++|++++++|+.+|++.|+++++.++
T Consensus        21 p~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~r~~~  100 (264)
T 3h4p_A           21 PEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEA  100 (264)
T ss_dssp             SSSSCHHHHHHHHHHHHSCCEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEETTEEEEEEECSHHHHHHHTTHHHHH
T ss_pred             CCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEecCccCCccccCccccEEEecCcEEEEeccchHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999887 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +.|++.++.+||++.+|++|++++|.|||++
T Consensus       101 ~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~  131 (264)
T 3h4p_A          101 QIYRLTYGEEISIEMLAKKICDIKQAYTQHG  131 (264)
T ss_dssp             HHHHHTTCSCCCHHHHHHHHHHHHHHTTSBS
T ss_pred             HhhHHhcCCCCCHHHHHHHHHHHHHHHhhcc
Confidence            9999999999999999999999999999975

>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=1.7e-37  Score=224.61  Aligned_cols=110  Identities=37%  Similarity=0.587  Sum_probs=107.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ .+..+||++|++|++|+++|+.+|++.|++++|.++
T Consensus        17 P~Grl~QvEYA~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~e~   96 (288)
T 3nzj_F           17 PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEA   96 (288)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEETTTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHhcCCcEEEEEECCEEEEEEcCCcccCCccccccceEEEEcCCEEEEecCcHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988 667799999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++|+++++++||++.+|++|++++|.|||++
T Consensus        97 ~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~  127 (288)
T 3nzj_F           97 ASFKKLYKTPIPIPAFADRLGQYVQAHTLYN  127 (288)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHcCCcCCHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999974

>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=3.2e-37  Score=218.21  Aligned_cols=110  Identities=40%  Similarity=0.671  Sum_probs=107.0

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++.  .++.+||++|++++++++||+.+|++.+.++++.+
T Consensus        14 p~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~   93 (244)
T 1ryp_C           14 PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARIH   93 (244)
T ss_dssp             TTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHHHHHHHHHH
T ss_pred             cCCeeHHHHhHHHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999987  67789999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +++|+++++++||++.+++++++++|.|||++
T Consensus        94 ~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~  125 (244)
T 1ryp_C           94 AQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG  125 (244)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBS
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhccC
Confidence            99999999999999999999999999999864

>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=2.8e-37  Score=217.22  Aligned_cols=110  Identities=44%  Similarity=0.678  Sum_probs=107.2

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|++++++++||+.+|++.+.++++.++
T Consensus        17 p~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   96 (233)
T 1yar_A           17 PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISA   96 (233)
T ss_dssp             TTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHHHHHH
T ss_pred             cCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEeccCCcccccccccCeEEEecCCEEEEEeeCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999877 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++|++++++++|++.+|+++++++|.|||++
T Consensus        97 ~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~  127 (233)
T 1yar_A           97 QQEKVTYGSLVNIENLVKRVADQMQQYTQYG  127 (233)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTTBT
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCcC
Confidence            9999999999999999999999999999964

>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=2.2e-37  Score=217.71  Aligned_cols=110  Identities=81%  Similarity=1.191  Sum_probs=106.7

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.+.++. .++.+||++|+++++++++|+.+|++.+.++++.++
T Consensus        14 p~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   93 (233)
T 1iru_B           14 PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLA   93 (233)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCeEehhHhHHHHHHcCCcEEEEEeCCEEEEEEEecCCccccccccCCeEEEECCCEEEEEEEccHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999997777 788899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +.|+++++.+++++.+++++++++|.|||++
T Consensus        94 ~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~  124 (233)
T 1iru_B           94 QQYYLVYQEPIPTAQLVQRVASVMQEYTQSG  124 (233)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTTSB
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCcC
Confidence            9999999999999999999999999999974

>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=3.5e-37  Score=216.80  Aligned_cols=109  Identities=28%  Similarity=0.454  Sum_probs=105.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.++++. ++.+||++|++++++++||+.+|++.+.++++.+++
T Consensus        14 p~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~-~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~   92 (233)
T 1ryp_F           14 PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS-SYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCN   92 (233)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB-CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHHHHHHHHcCCCEEEEEcCCEEEEEEEeccccccc-cccCcEEEEcCCEEEEEEechHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998875 355999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        81 ~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +|+++++++||++.+++++++++|.|||+.
T Consensus        93 ~~~~~~~~~~~v~~la~~l~~~~~~~t~~~  122 (233)
T 1ryp_F           93 YSSLVFNRKLAVERAGHLLCDKAQKNTQSY  122 (233)
T ss_dssp             HHHHHHSCCCCHHHHHHHHHHHHHHHHHBT
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHhccc
Confidence            999999999999999999999999999875

>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=3e-37  Score=218.63  Aligned_cols=110  Identities=37%  Similarity=0.587  Sum_probs=106.6

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.+++++ .+..+||++|++++++++||+.+|++.+.++++.++
T Consensus        13 p~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   92 (244)
T 1ryp_G           13 PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEA   92 (244)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             cCCchHHHHhHHHHHHCCCCEEEEEECCEEEEEEecccCCCCccccccCceEEecCCEEEEEcccHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988 555699999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++|+++++++||++.+++++++++|.|||++
T Consensus        93 ~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~  123 (244)
T 1ryp_G           93 ASFKKLYKTPIPIPAFADRLGQYVQAHTLYN  123 (244)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhccc
Confidence            9999999999999999999999999999975

>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=4.7e-37  Score=217.71  Aligned_cols=111  Identities=37%  Similarity=0.612  Sum_probs=107.8

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|+++++++++|+.+|++.+.++++.++
T Consensus        17 p~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   96 (246)
T 1j2p_A           17 PDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVADARVLIDRARIEA   96 (246)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCccccccCccCcEEEECCCEEEEEeEccHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999888 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +.|+++++.++|++.+++++++++|.|||++|
T Consensus        97 ~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~  128 (246)
T 1j2p_A           97 QINRLTYDIPITVKELAKKICDFKQQYTQYGG  128 (246)
T ss_dssp             HHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTT
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhcccC
Confidence            99999999999999999999999999999753

>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=1.3e-37  Score=220.02  Aligned_cols=111  Identities=34%  Similarity=0.603  Sum_probs=108.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|++++++++||+.+|++.+.++++.++
T Consensus         9 p~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   88 (242)
T 1ryp_E            9 PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAA   88 (242)
T ss_dssp             TTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHHHHHHHHHHH
T ss_pred             CCCcChHHHhHHHHHHcCCCEEEEEECCEEEEEEeecCCCcCccCccCCceEEEcCCEEEEEeecHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      ++|++++++++|++.+++++++++|.|||++|
T Consensus        89 ~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~  120 (242)
T 1ryp_E           89 VTHNLYYDEDINVESLTQSVCDLALRFGEGAS  120 (242)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCT
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhccccC
Confidence            99999999999999999999999999999854

>1iru_C 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_B* 3une_B 3unf_B* 3unh_B

Probab=100.00  E-value=7.7e-37  Score=218.36  Aligned_cols=110  Identities=36%  Similarity=0.578  Sum_probs=106.4

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.+++++  .++.+||++|++|+++++||+.+|++.|+++++.+
T Consensus        14 p~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~   93 (261)
T 1iru_C           14 PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNELRLI   93 (261)
T ss_dssp             TTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHhHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988  44579999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++.|+++++++||++.+++++++++|.|||++
T Consensus        94 ~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~  125 (261)
T 1iru_C           94 AQRYLLQYQEPIPCEQLVTALCDIKQAYTQFG  125 (261)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBS
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHhcccc
Confidence            99999999999999999999999999999864

>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=4.9e-37  Score=216.97  Aligned_cols=111  Identities=31%  Similarity=0.546  Sum_probs=107.9

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|++++++++||..+|++.+.++++.++
T Consensus        17 p~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   96 (241)
T 1iru_E           17 PEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVET   96 (241)
T ss_dssp             TTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHcCCcEEEEEcCCEEEEEEecccCCcCcCccccceEEEEcCCEEEEEeeChHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988 788899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +.|+.++++++|++.+++++++++|.||+++|
T Consensus        97 ~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~  128 (241)
T 1iru_E           97 QNHWFTYNETMTVESVTQAVSNLALQFGEEDA  128 (241)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTC
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999999999999999998753

>1iru_A 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_G* 3une_G 3unf_G* 3unh_G

Probab=100.00  E-value=1.7e-36  Score=214.74  Aligned_cols=110  Identities=37%  Similarity=0.572  Sum_probs=106.4

Q ss_pred             CCCcchhhhhHHHHHhc-CCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~-g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||++|+++ |+|+|||+++||||||+|+|.+.++. .++.+||++|+++++++++|+.+|++.|.++++.+
T Consensus        18 p~Grl~QvEya~~av~~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~   97 (246)
T 1iru_A           18 PEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYE   97 (246)
T ss_dssp             TTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHHHHHHHhcCCCCEEEEEeCCEEEEEEeecCCCcccCCCccCceEEECCCEEEEEeccHHHHHHHHHHHHHH
Confidence            99999999999999999 99999999999999999999997777 78889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ++.|+++++++||++.+++++++++|.|||+.
T Consensus        98 ~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~  129 (246)
T 1iru_A           98 AANWKYKYGYEIPVDMLCKRIADISQVYTQNA  129 (246)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBS
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999864

>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-36  Score=215.17  Aligned_cols=109  Identities=30%  Similarity=0.472  Sum_probs=105.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.++++. ++.+||++|+++++++++|+.+|++.|.++++.+++
T Consensus        15 P~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl~-~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~   93 (263)
T 1iru_F           15 PQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA-AHQKKILHVDNHIGISIAGLTADARLLCNFMRQECL   93 (263)
T ss_dssp             TTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB-CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEecccccccc-cchhcEEEEcCCEEEEEeCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999875 455899999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        81 ~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      .|+++++++||++.+++++++++|.|||++
T Consensus        94 ~~~~~~~~~i~v~~la~~l~~~l~~~t~~~  123 (263)
T 1iru_F           94 DSRFVFDRPLPVSRLVSLIGSKTQIPTQRY  123 (263)
T ss_dssp             HHHHHHSSCCCHHHHHHHHHHHHHHHHHBT
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHHhhccc
Confidence            999999999999999999999999999865

>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=1.8e-35  Score=209.97  Aligned_cols=110  Identities=60%  Similarity=0.875  Sum_probs=106.3

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.+.++. .++.+||++|++++++++||+.+|++.+.++++.++
T Consensus        14 p~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~   93 (250)
T 1ryp_B           14 PSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVA   93 (250)
T ss_dssp             TTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCccHHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCCccccCcccCceEEECCCEEEEeeeCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999987777 888899999999999999999999999999999999


Q ss_pred             HH-HHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQ-YKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~-~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +. |+..++.+++++.+++.+++++|.+|++.
T Consensus        94 ~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~  125 (250)
T 1ryp_B           94 HTSYKRIYGEYPPTKLLVSEVAKIMQEATQSG  125 (250)
T ss_dssp             HHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSB
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcC
Confidence            99 99999999999999999999999999874

>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=99.96  E-value=1.1e-29  Score=181.36  Aligned_cols=102  Identities=18%  Similarity=0.285  Sum_probs=95.9

Q ss_pred             CCCcch-hhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLV-QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~-Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||++. |||||++|+++|+|+|||+++||||||+|+|      +++.+|||+|++|++|+++|+.+|++.|.++++.++
T Consensus         9 Pe~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~   82 (259)
T 1q5q_A            9 AEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP------STALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHA   82 (259)
T ss_dssp             CHHHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC------CCCcCcEEEeCCCEEEEEccCHHHHHHHHHHHHHHH
Confidence            899995 9999999999999999999999999999998      245589999999999999999999999999999999


Q ss_pred             HHHHHHhC-CCCCHHHHHHHHHH-HHHHhhc
Q psy6667          80 QQYKLVYQ-ENIPTQQLVQRVAA-IMQEYTQ  108 (111)
Q Consensus        80 ~~~~~~~~-~~i~~~~la~~ls~-~~~~~t~  108 (111)
                      +.|++.++ .+||++.+++++++ +.|.||.
T Consensus        83 ~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~  113 (259)
T 1q5q_A           83 DMRGYSYDRRDVTGRSLANAYAQTLGTIFTE  113 (259)
T ss_dssp             HHHHHHSCGGGCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCcCCCHHHHHHHHHHHHHHHhcc
Confidence            99999998 49999999999999 7788874

>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=99.95  E-value=4e-27  Score=167.21  Aligned_cols=96  Identities=17%  Similarity=0.313  Sum_probs=91.3

Q ss_pred             hhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHh
Q psy6667           7 QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVY   86 (111)
Q Consensus         7 Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~   86 (111)
                      ++|||+||+++|+|+|||+++||||||+|+|      +++.+|||+|++|++|+++|+.+|++.|.+.++.+++.|++.+
T Consensus        16 r~EYA~~av~~GtT~vgi~~kdgVVlaadkr------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~l~~~~~   89 (248)
T 3mi0_A           16 RSELARKGIARAKSVVALAYAGGVLFVAENP------SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQFADTRGYAY   89 (248)
T ss_dssp             HHHHHHHHHHTSCCEEEEEETTEEEEEEECC------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             chHHHHHHHhCCCcEEEEEeCCEEEEEEeCC------CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHHHHHHHHHhc
Confidence            5899999999999999999999999999999      2355899999999999999999999999999999999999999


Q ss_pred             C-CCCCHHHHHHHHH-HHHHHhhc
Q psy6667          87 Q-ENIPTQQLVQRVA-AIMQEYTQ  108 (111)
Q Consensus        87 ~-~~i~~~~la~~ls-~~~~~~t~  108 (111)
                      + .+|+++.|+++++ .+.|.|||
T Consensus        90 ~~~~i~v~~la~~l~~~l~q~yt~  113 (248)
T 3mi0_A           90 DRRDVTGRQLANVYAQTLGTIFTE  113 (248)
T ss_dssp             CGGGCCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhcc
Confidence            9 9999999999999 88899997

>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=99.94  E-value=7.4e-27  Score=161.21  Aligned_cols=97  Identities=16%  Similarity=0.225  Sum_probs=92.5

Q ss_pred             HHHHhcCCCEEEEEeCCeEEEEEeccCCCCc-c-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCC
Q psy6667          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTIL-F-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQEN   89 (111)
Q Consensus        12 ~~av~~g~t~vgi~~~dgVvlaad~~~~~~~-~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~   89 (111)
                      +||+++|+|+|||+++||||||+|+|.+++. . .++.+||++|++|++++++|+.+|++.+.++++.++++|++++++ 
T Consensus         3 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~-   81 (205)
T 1ryp_H            3 KGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT-   81 (205)
T ss_dssp             TTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS-
T ss_pred             CCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC-
Confidence            5789999999999999999999999999884 4 778899999999999999999999999999999999999999999 


Q ss_pred             CCHHHHHHHHHHHHHHhhcc
Q psy6667          90 IPTQQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        90 i~~~~la~~ls~~~~~~t~~  109 (111)
                      +|++.+++++++++|.||++
T Consensus        82 ~~v~~la~~l~~~~~~~~~~  101 (205)
T 1ryp_H           82 PSTETAASVFKELCYENKDN  101 (205)
T ss_dssp             CCHHHHHHHHHHHHHHTTTT
T ss_pred             CCHHHHHHHHHHHHHhhhcC
Confidence            99999999999999999874

>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=99.93  E-value=6.4e-26  Score=164.22  Aligned_cols=100  Identities=14%  Similarity=0.147  Sum_probs=82.0

Q ss_pred             hhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHH
Q psy6667           8 IEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLV   85 (111)
Q Consensus         8 ieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~   85 (111)
                      +|||++ +++|+|+|||+++||||||+|+|.+++.+  +++.+|||+|+++++++++|..+|++.|.++++.+++.|++.
T Consensus        48 ~~ya~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~~~  126 (291)
T 2jay_A           48 AGGDAQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKL  126 (291)
T ss_dssp             -----------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEEEEESCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEEEEcccHHHHHHHHHHHHHHHHHhhhh
Confidence            799999 99999999999999999999999998854  778899999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHhhc
Q psy6667          86 YQENIPTQQLVQRVAAIMQEYTQ  108 (111)
Q Consensus        86 ~~~~i~~~~la~~ls~~~~~~t~  108 (111)
                      ++.+++++.+++++++++|.+++
T Consensus       127 ~~~~i~v~~la~~la~~l~~~~~  149 (291)
T 2jay_A          127 EGVPLTFAGKINRLAIMVRGNLA  149 (291)
T ss_dssp             HSSCCCHHHHHHHHHHHHHTCHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHhhh
Confidence            99999999999999999999876

>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=99.93  E-value=6.4e-26  Score=163.97  Aligned_cols=100  Identities=13%  Similarity=0.214  Sum_probs=87.6

Q ss_pred             hHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhC
Q psy6667          10 YALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQ   87 (111)
Q Consensus        10 ya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~   87 (111)
                      ++..++++|+|+|||+++||||||+|+|.+.+.+  .++.+||++|+++++++++|..+|++.+.++++.+++.|+++++
T Consensus        67 ~~~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~l~~~lr~~~~~y~~~~~  146 (287)
T 3nzj_K           67 DCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREK  146 (287)
T ss_dssp             ---------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             chhhheccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence            6788999999999999999999999999998654  78889999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhcc
Q psy6667          88 ENIPTQQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        88 ~~i~~~~la~~ls~~~~~~t~~  109 (111)
                      ++|+++.+++++++++|.||++
T Consensus       147 ~~isv~~la~~ls~~l~~~r~~  168 (287)
T 3nzj_K          147 ERISVAAASKILSNLVYQYKGA  168 (287)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTTS
T ss_pred             CCCCHHHHHHHHHHHHHhhcCC
Confidence            9999999999999999999985

>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=99.93  E-value=5.3e-26  Score=164.86  Aligned_cols=98  Identities=14%  Similarity=0.150  Sum_probs=92.4

Q ss_pred             HHHHHhcCCCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCC
Q psy6667          11 ALAAVEAGAPSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQE   88 (111)
Q Consensus        11 a~~av~~g~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~   88 (111)
                      |+||+++|+|+|||+++||||||+|+|.+++ +. .++.+|||+|+++++++++|+.+|++.|+++++.++++|+++++.
T Consensus        58 a~~Av~~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g~  137 (294)
T 1q5r_H           58 SGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGV  137 (294)
T ss_dssp             --CCSCBCCCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHhcCceEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhCC
Confidence            8899999999999999999999999999985 44 788899999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhc
Q psy6667          89 NIPTQQLVQRVAAIMQEYTQ  108 (111)
Q Consensus        89 ~i~~~~la~~ls~~~~~~t~  108 (111)
                      +|+++.++++|++++|.+|+
T Consensus       138 ~isv~~la~~la~~l~~~~~  157 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLG  157 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHh
Confidence            99999999999999999987

>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=99.93  E-value=3.7e-25  Score=154.08  Aligned_cols=95  Identities=22%  Similarity=0.427  Sum_probs=85.4

Q ss_pred             HHHhcCCCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCC
Q psy6667          13 AAVEAGAPSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENI   90 (111)
Q Consensus        13 ~av~~g~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i   90 (111)
                      .++++|+|+|||+++||||||+|+|.+++ +. +++.+||++|++++++++||+.+|++.+.++++.+++.|++++++++
T Consensus         3 ~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T 1yar_H            3 QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNM   82 (217)
T ss_dssp             ------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CCCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            46789999999999999999999999986 44 78889999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhh
Q psy6667          91 PTQQLVQRVAAIMQEYT  107 (111)
Q Consensus        91 ~~~~la~~ls~~~~~~t  107 (111)
                      |++.+++++++++|.++
T Consensus        83 ~v~~la~~l~~~~~~~r   99 (217)
T 1yar_H           83 PIEAVATLLSNMLNQVK   99 (217)
T ss_dssp             CHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHhcC
Confidence            99999999999999875

>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=99.92  E-value=8.7e-25  Score=151.50  Aligned_cols=91  Identities=18%  Similarity=0.157  Sum_probs=86.7

Q ss_pred             HhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy6667          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (111)
Q Consensus        15 v~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (111)
                      +++|+|+|||+++||||||+|+|.+++++  .++.+||++|++++++++||+.+|++.|.++++.+++.|+++++++|++
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   85 (213)
T 1iru_M            6 VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             cCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCCH
Confidence            46899999999999999999999999887  5788999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy6667          93 QQLVQRVAAIMQE  105 (111)
Q Consensus        93 ~~la~~ls~~~~~  105 (111)
                      +.++++|+++++.
T Consensus        86 ~~la~~l~~~~y~   98 (213)
T 1iru_M           86 GAIAAMLSTILYS   98 (213)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999953

>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=99.92  E-value=8.9e-25  Score=150.68  Aligned_cols=93  Identities=17%  Similarity=0.289  Sum_probs=87.8

Q ss_pred             HhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy6667          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (111)
Q Consensus        15 v~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (111)
                      +.+|+|+|||+++||||||+|+|.+++++  .++.+||++|++|++++++|+.+|++.+.++++.+++.|++++++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   84 (205)
T 1iru_J            5 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   84 (205)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             cCCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCH
Confidence            36899999999999999999999999988  5588999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcc
Q psy6667          93 QQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        93 ~~la~~ls~~~~~~t~~  109 (111)
                      +.+++++++++  ||++
T Consensus        85 ~~la~~l~~~~--y~~r   99 (205)
T 1iru_J           85 YTLMSMVANLL--YEKR   99 (205)
T ss_dssp             HHHHHHHHHHH--HTTT
T ss_pred             HHHHHHHHHHH--HHhc
Confidence            99999999999  6654

>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=99.92  E-value=1.2e-24  Score=149.97  Aligned_cols=90  Identities=16%  Similarity=0.193  Sum_probs=86.4

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++ +. .++.+||++|++|++++++|+.+|++.+.++++.+++.|+++++++++++.++
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            68999999999999999999998 44 77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      +++++++|.||+
T Consensus        81 ~~l~~~~~~~~~   92 (205)
T 1iru_H           81 SLFKEMCYRYRE   92 (205)
T ss_dssp             HHHHHHHHHTTT
T ss_pred             HHHHHHHHhcCc
Confidence            999999999986

>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=99.92  E-value=1.3e-24  Score=155.29  Aligned_cols=97  Identities=18%  Similarity=0.196  Sum_probs=84.9

Q ss_pred             HHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCC
Q psy6667          11 ALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQE   88 (111)
Q Consensus        11 a~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~   88 (111)
                      .+||+++|+|+|||+++||||||+|+|.+++.+  .++.+||++|++|++++++|+.+|++.+.++++.+++.|++.+++
T Consensus        22 ~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~  101 (261)
T 3nzj_H           22 QPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSR  101 (261)
T ss_dssp             --------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             CCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhCC
Confidence            368999999999999999999999999998765  778899999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhh
Q psy6667          89 NIPTQQLVQRVAAIMQEYT  107 (111)
Q Consensus        89 ~i~~~~la~~ls~~~~~~t  107 (111)
                      +++++.+++++++.++.|.
T Consensus       102 ~~~v~~~a~~l~~~l~~~~  120 (261)
T 3nzj_H          102 EPRVVSALQMLKQHLFKYQ  120 (261)
T ss_dssp             CCCHHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHHhc
Confidence            9999999999999998764

>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=99.92  E-value=2.2e-24  Score=148.65  Aligned_cols=92  Identities=16%  Similarity=0.214  Sum_probs=87.2

Q ss_pred             HhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy6667          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (111)
Q Consensus        15 v~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (111)
                      +.+|+|+|||+++||||||+|+|.+++++  .++.+||++|+ +++++++|+.+|++.+.++++.+++.|++++++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   83 (204)
T 1ryp_J            5 SINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEP   83 (204)
T ss_dssp             GSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             CCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCH
Confidence            46899999999999999999999999988  55889999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcc
Q psy6667          93 QQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        93 ~~la~~ls~~~~~~t~~  109 (111)
                      +.+++++++++  ||++
T Consensus        84 ~~la~~l~~~~--y~~~   98 (204)
T 1ryp_J           84 ETFTQLVSSSL--YERR   98 (204)
T ss_dssp             HHHHHHHHHHH--HTTT
T ss_pred             HHHHHHHHHHH--HHhc
Confidence            99999999999  6665

>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=99.92  E-value=5.3e-25  Score=153.21  Aligned_cols=95  Identities=14%  Similarity=0.151  Sum_probs=89.1

Q ss_pred             HHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHH-HhCC
Q psy6667          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKL-VYQE   88 (111)
Q Consensus        12 ~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-~~~~   88 (111)
                      ++|+++|+|+|||+++||||||+|+|.+++.+  +++.+||++|+++++++++|+.+|++.|.++++.+++.|+. +++.
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (219)
T 1iru_N            2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (219)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            36789999999999999999999999987654  78889999999999999999999999999999999999998 9999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy6667          89 NIPTQQLVQRVAAIMQEY  106 (111)
Q Consensus        89 ~i~~~~la~~ls~~~~~~  106 (111)
                      +++++.+++++++++|.+
T Consensus        82 ~~~v~~la~~l~~~ly~~   99 (219)
T 1iru_N           82 SYSPRAIHSWLTRAMYSR   99 (219)
T ss_dssp             CCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHh
Confidence            999999999999999764

>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=99.92  E-value=2.3e-24  Score=149.34  Aligned_cols=91  Identities=12%  Similarity=0.217  Sum_probs=87.1

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++ +. .++.+||++|++|+++++||+.+|++.+.++++.+++.|++++++++|++.++
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            68999999999999999999985 44 78889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.||++
T Consensus        81 ~~l~~~~~~~~~~   93 (212)
T 1ryp_L           81 KILSNLVYQYKGA   93 (212)
T ss_dssp             HHHHHHHHHTTTS
T ss_pred             HHHHHHHHhhCCC
Confidence            9999999999985

>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=99.91  E-value=3.7e-24  Score=146.81  Aligned_cols=91  Identities=16%  Similarity=0.191  Sum_probs=87.0

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++++  +++.+||++|++|++++++|+.+|++.+.++++.+++.|++++++++|++.++
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            6999999999999999999998877  66889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.+|+.
T Consensus        82 ~~l~~~l~~~~~~   94 (198)
T 1ryp_K           82 SFVRQELAKSIRS   94 (198)
T ss_dssp             HHHHHHHHHHTTS
T ss_pred             HHHHHHHHHhccc
Confidence            9999999999854

>3h4p_a Proteasome subunit beta; core particle, cytoplasm, hydrolase, protease, threonine protease; 4.10A {Methanocaldococcus jannaschii}

Probab=99.91  E-value=2.3e-24  Score=150.30  Aligned_cols=91  Identities=24%  Similarity=0.331  Sum_probs=86.1

Q ss_pred             CCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy6667          18 GAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (111)
Q Consensus        18 g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (111)
                      |+|+|||+++||||||+|+|.+++.+  .++.+||++|++|++++++|+.+|++.+.++++.+++.|+++++.++|++.+
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLAC   80 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHH
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            79999999999999999999998755  7888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhc
Q psy6667          96 VQRVAAIMQEYTQ  108 (111)
Q Consensus        96 a~~ls~~~~~~t~  108 (111)
                      ++++++++|.++.
T Consensus        81 a~~l~~~~~~~~~   93 (219)
T 3h4p_a           81 ATLLSNILHSSRM   93 (219)
T ss_dssp             HHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhcC
Confidence            9999999998864

>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=99.91  E-value=3e-24  Score=147.90  Aligned_cols=91  Identities=16%  Similarity=0.292  Sum_probs=86.7

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++ +. .++.+||++|++|+++++||+.+|++.+.++++.+++.|+++++++++++.++
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            68999999999999999999986 44 77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.||+.
T Consensus        81 ~~l~~~~~~~r~~   93 (204)
T 1iru_L           81 KLLANMVYQYKGM   93 (204)
T ss_dssp             HHHHHHHHTTTTS
T ss_pred             HHHHHHHHHhCCC
Confidence            9999999999875

>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=99.91  E-value=9.8e-25  Score=153.27  Aligned_cols=95  Identities=14%  Similarity=0.230  Sum_probs=89.1

Q ss_pred             HHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHH-----
Q psy6667          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKL-----   84 (111)
Q Consensus        12 ~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-----   84 (111)
                      ++|+++|+|+|||+++||||||+|+|.+++.+  +++.+||++|++|++++++|+.+|++.|.++++.+++.|++     
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (233)
T 1ryp_N            2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             cccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchh
Confidence            36789999999999999999999999997654  77889999999999999999999999999999999999999     


Q ss_pred             HhCCCCCHHHHHHHHHHHHHHh
Q psy6667          85 VYQENIPTQQLVQRVAAIMQEY  106 (111)
Q Consensus        85 ~~~~~i~~~~la~~ls~~~~~~  106 (111)
                      +++.+|+++.++++++++++.+
T Consensus        82 ~~~~~~~v~~la~~l~~~ly~~  103 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVMYQR  103 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHH
T ss_pred             hcCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999664

>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=99.91  E-value=7.5e-24  Score=145.34  Aligned_cols=90  Identities=16%  Similarity=0.186  Sum_probs=85.8

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++.+  .++.+||++|++|++++++|+.+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999998844  78889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      +++++++|.+++
T Consensus        81 ~~l~~~l~~~~~   92 (199)
T 3unf_N           81 NVVKNISYKYRE   92 (199)
T ss_dssp             HHHHHHHHHTTT
T ss_pred             HHHHHHHHhcCC
Confidence            999999998864

>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=99.91  E-value=5.8e-24  Score=148.45  Aligned_cols=92  Identities=20%  Similarity=0.214  Sum_probs=87.4

Q ss_pred             HhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhC-CCCC
Q psy6667          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQ-ENIP   91 (111)
Q Consensus        15 v~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~   91 (111)
                      +++|+|+|||+++||||||+|+|.+++++  .++.+||++|+++++++++|+.+|++.|.++++.++++|+++++ ++|+
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T 1ryp_M            6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             ccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence            57899999999999999999999999886  77889999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy6667          92 TQQLVQRVAAIMQEY  106 (111)
Q Consensus        92 ~~~la~~ls~~~~~~  106 (111)
                      ++.+|++++++++..
T Consensus        86 v~~la~~l~~~ly~~  100 (222)
T 1ryp_M           86 INSAARNIQHLLYGK  100 (222)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999998643

>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=99.91  E-value=1.8e-24  Score=154.80  Aligned_cols=99  Identities=13%  Similarity=0.220  Sum_probs=90.3

Q ss_pred             hhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHH-
Q psy6667           8 IEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKL-   84 (111)
Q Consensus         8 ieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-   84 (111)
                      .+-+++|+++|+|+|||+++||||||+|+|.+.+.+  +++.+||++|+++++++++|+.+|++.|++++|.+++.|++ 
T Consensus        31 ~~~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~  110 (266)
T 1g0u_M           31 MVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYD  110 (266)
T ss_dssp             ---CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhhhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhc
Confidence            345678889999999999999999999999987654  77889999999999999999999999999999999999998 


Q ss_pred             ----HhCCCCCHHHHHHHHHHHHHHh
Q psy6667          85 ----VYQENIPTQQLVQRVAAIMQEY  106 (111)
Q Consensus        85 ----~~~~~i~~~~la~~ls~~~~~~  106 (111)
                          +++.+++++.++++++++++.+
T Consensus       111 ~~~~~~~~~~~v~~la~~l~~~ly~~  136 (266)
T 1g0u_M          111 NPLADAEEALEPSYIFEYLATVMYQR  136 (266)
T ss_dssp             CTTTTTTTSCCHHHHHHHHHHHHHHH
T ss_pred             cchhhcCCCCCHHHHHHHHHHHHHHh
Confidence                9999999999999999999664

>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A {Archaeoglobus fulgidus} SCOP: d.153.1.4

Probab=99.91  E-value=1.5e-23  Score=144.24  Aligned_cols=89  Identities=20%  Similarity=0.366  Sum_probs=84.8

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++ +. +++.+||++|++|++++++|+.+|++.+.++++.+++.|+++++++||++.++
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            68999999999999999999986 44 78889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy6667          97 QRVAAIMQEYT  107 (111)
Q Consensus        97 ~~ls~~~~~~t  107 (111)
                      +++++++|.++
T Consensus        81 ~~l~~~~~~~r   91 (202)
T 1j2q_H           81 TLTSNLLNSYR   91 (202)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhhC
Confidence            99999999875

>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=99.90  E-value=8.2e-24  Score=148.86  Aligned_cols=91  Identities=15%  Similarity=0.177  Sum_probs=86.6

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++ +. +++.+||++|++++++++||+.+|++.|.++++.+++.|+++++.+||++.++
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            68999999999999999999985 45 78889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      ++|++++|.+|++
T Consensus        81 ~~l~~~~~~~~~~   93 (235)
T 1q5q_H           81 NRLASMVRGNLGA   93 (235)
T ss_dssp             HHHHHHHHTTHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998864

>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=99.89  E-value=5.5e-23  Score=144.81  Aligned_cols=89  Identities=12%  Similarity=0.178  Sum_probs=85.4

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++++  .++.+||++|++|++++++|+.+|++.+.++++.++++|++++|++++++.++
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            6899999999999999999999886  67889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy6667          97 QRVAAIMQEYT  107 (111)
Q Consensus        97 ~~ls~~~~~~t  107 (111)
                      +++++++|.|+
T Consensus        81 ~~l~~~l~~~~   91 (234)
T 3unf_H           81 RILRQTLFRYQ   91 (234)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhcC
Confidence            99999999875

>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=99.89  E-value=1e-22  Score=143.28  Aligned_cols=90  Identities=13%  Similarity=0.134  Sum_probs=86.0

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++++  .++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999887  56779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      +++++.+|.|+.
T Consensus        81 ~~l~~~l~~~~~   92 (234)
T 1iru_I           81 RMLKQMLFRYRG   92 (234)
T ss_dssp             HHHHHHHHHTTT
T ss_pred             HHHHHHHHhcCC
Confidence            999999998864

>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=99.89  E-value=9.8e-23  Score=142.28  Aligned_cols=89  Identities=17%  Similarity=0.188  Sum_probs=85.0

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++++  .++.+||++|++|++++++|+.+|++.+.++++.+++.|+++++++|+++.++
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            6899999999999999999998886  66789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy6667          97 QRVAAIMQEYT  107 (111)
Q Consensus        97 ~~ls~~~~~~t  107 (111)
                      +++++.+|.|.
T Consensus        81 ~~l~~~l~~~~   91 (222)
T 1ryp_I           81 QMLKQHLFKYQ   91 (222)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHhhcC
Confidence            99999998874

>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=99.87  E-value=1e-21  Score=134.97  Aligned_cols=85  Identities=14%  Similarity=0.164  Sum_probs=80.5

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCC-cc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTI-LF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~-~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+++ +. .++.+||++|++|++++++|+.+|++.+.++++.+++.|++++++++|++.++
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            69999999999999999999986 44 78889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHH
Q psy6667          97 QRVAAIM  103 (111)
Q Consensus        97 ~~ls~~~  103 (111)
                      +++++.+
T Consensus        82 ~~~~~~l   88 (201)
T 1iru_K           82 NFTRRNL   88 (201)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998765

>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=99.83  E-value=2.7e-20  Score=126.30  Aligned_cols=85  Identities=11%  Similarity=0.132  Sum_probs=72.4

Q ss_pred             hcCCCEEEEEeCCeEEEEEeccCCCC-c-c-cccceeEEEc-cCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy6667          16 EAGAPSVGIKASNGIVLATEKKQKTI-L-F-EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (111)
Q Consensus        16 ~~g~t~vgi~~~dgVvlaad~~~~~~-~-~-~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (111)
                      .+|+|+|||+++||||||+|+|.+++ + . +++.+||++| ++|++++++|+.+|++.|.++++.+++.|+   |    
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g----   75 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G----   75 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T----
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C----
Confidence            57999999999999999999999874 6 6 8888999999 999999999999999999999999999988   3    


Q ss_pred             HHHHHHHHHHHHHHhhcc
Q psy6667          92 TQQLVQRVAAIMQEYTQS  109 (111)
Q Consensus        92 ~~~la~~ls~~~~~~t~~  109 (111)
                        .+.+.++++.|.++++
T Consensus        76 --~~~~~~~~l~~~~~~~   91 (180)
T 2z3b_A           76 --NLKRAAVELAKEWRSD   91 (180)
T ss_dssp             --CHHHHHHHHHHHHHHC
T ss_pred             --ChHHHHHHHHHHHHhh
Confidence              2333444555555554

>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=99.82  E-value=3.1e-20  Score=125.19  Aligned_cols=82  Identities=9%  Similarity=0.103  Sum_probs=71.0

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCc-c-cccceeEEEc-cCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTIL-F-EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~-~-~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (111)
                      +|+|||+++||||||+|+|.+++. . +++.+||++| ++|++++++|+.+|++.|.++++.+++.|+.      ++   
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            689999999999999999999874 4 8888999999 9999999999999999999999999999885      33   


Q ss_pred             HHHHHHHHHHhhcc
Q psy6667          96 VQRVAAIMQEYTQS  109 (111)
Q Consensus        96 a~~ls~~~~~~t~~  109 (111)
                      ...++.+.+.+|++
T Consensus        72 ~~~~~~l~~~~~~~   85 (174)
T 1g3k_A           72 LKSAVELAKDWRTD   85 (174)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhc
Confidence            44555556666665

>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine residue, hydrolase; 2.10A {Thermotoga maritima} SCOP: d.153.1.4

Probab=99.81  E-value=8.3e-20  Score=122.73  Aligned_cols=67  Identities=9%  Similarity=0.058  Sum_probs=62.2

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCc-c-cccceeEEEc-cCcEEEEEecchhhHHHHHHHHHHHHHHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTIL-F-EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLV   85 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~-~-~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~   85 (111)
                      +|+|||+++||||||+|+|.+++. . +++.+||++| ++|++++++|+.+|++.+.++++.+++.|+.+
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~   70 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN   70 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc
Confidence            689999999999999999999864 4 7888999999 99999999999999999999999999998744

---

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	111
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	6e-30
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	1e-29
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	2e-28
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	5e-28
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	8e-28
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	3e-27
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	4e-27
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	8e-27
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	1e-26
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-26
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	1e-26
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	3e-26
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-25
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-25
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	6e-25
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	9e-25
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-21
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-12
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-12
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	1e-11
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	1e-10
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	2e-10
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-10
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-10
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	3e-10
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	1e-09
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-09
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-09
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	3e-09
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-09
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	4e-09
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	6e-09
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-08
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-07

>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 =  105 bits (262), Expect = 6e-30
 Identities = 35/111 (31%), Positives = 60/111 (54%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G++ Q+EYA+ AVE  + ++GI+  +G+V   EK   + L+E     ++  +  ++GM
Sbjct: 16  PDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGM 75

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             +G+  D R L   AR+ A  ++  +  NIP + L  RVA  +  YT   
Sbjct: 76  AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYS 126

>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 =  104 bits (260), Expect = 1e-29
 Identities = 30/111 (27%), Positives = 57/111 (51%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 14  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 72

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS  
Sbjct: 73  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYG 123

>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 =  101 bits (252), Expect = 2e-28
 Identities = 41/111 (36%), Positives = 62/111 (55%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+  Q+EYA+ AVE G  S+GIK ++G+V A EK   + L       K++ +  +IG 
Sbjct: 13  PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGC 72

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T   
Sbjct: 73  VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN 123

>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 = 99.8 bits (248), Expect = 5e-28
 Identities = 49/112 (43%), Positives = 73/112 (65%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ G+ ++G+K +NG++L ++KK ++ L E   I K++ I DY+  
Sbjct: 5   PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA 64

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ G 
Sbjct: 65  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGG 116

>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 = 99.7 bits (248), Expect = 8e-28
 Identities = 41/112 (36%), Positives = 60/112 (53%), Gaps = 2/112 (1%)

Query: 1   PSGKLVQIEYALAAVE-AGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIG 58
           P G+L Q+EYA  A+   G  SV ++  +  V+ T+KK    L +   +  +  IT+ IG
Sbjct: 17  PEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIG 76

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            V +GM  D R  V++AR  A  +K  Y   IP   L +R+A I Q YTQ+ 
Sbjct: 77  CVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNA 128

>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 = 98.2 bits (244), Expect = 3e-27
 Identities = 35/112 (31%), Positives = 62/112 (55%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           P G+L Q+EY + A++ G+ ++GI+ S G+ LA EK+  + L E   I K+  I  +IG 
Sbjct: 10  PEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGC 69

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D + L+ KAR   Q +   Y E +  + + Q V+ +  ++ +  +
Sbjct: 70  AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDA 121

>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 = 97.8 bits (243), Expect = 4e-27
 Identities = 45/113 (39%), Positives = 66/113 (58%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 14  PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 73

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ G 
Sbjct: 74  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGG 126

>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 = 97.0 bits (241), Expect = 8e-27
 Identities = 41/113 (36%), Positives = 66/113 (58%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G + Q+EYAL AV+ G  +VG+K  N +VL  E++    L +      KV  I  ++ 
Sbjct: 11  PDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVV 70

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSG 
Sbjct: 71  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGG 123

>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 = 96.7 bits (240), Expect = 1e-26
 Identities = 66/112 (58%), Positives = 81/112 (72%), Gaps = 2/112 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           PSGKL QI+YAL AV+ G  S+GIKA+NG+V+ATEKK  + L   + + KV  +T  IG 
Sbjct: 14  PSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGA 73

Query: 60  VYSGMGPDYRLLVKKARKIAQ-QYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV K+RK+A   YK +Y E  PT+ LV  VA IMQE TQSG
Sbjct: 74  VYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSG 125

>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 = 96.7 bits (240), Expect = 1e-26
 Identities = 40/113 (35%), Positives = 63/113 (55%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYA+ A+      +GI A++G++LA E++    L +      K+  + + + 
Sbjct: 13  PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMA 72

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
              +G+  D  +L  + R IAQ+Y L YQE IP +QLV  +  I Q YTQ G 
Sbjct: 73  CSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGG 125

>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 = 96.3 bits (239), Expect = 1e-26
 Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EY+L A++ G+ ++GI    G+VL  EK+  + L E D I K+  I  +IG 
Sbjct: 9   PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGC 68

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +  S
Sbjct: 69  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

>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 = 95.5 bits (237), Expect = 3e-26
 Identities = 33/111 (29%), Positives = 58/111 (52%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P G++ QIEYA+ AV+ G+ +VG+K+    VL   K+ ++ L      K+  + ++IG+ 
Sbjct: 12  PQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAH-QKKILHVDNHIGIS 70

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
            +G+  D RLL    R+     + V+   +P  +LV  + +  Q  TQ   
Sbjct: 71  IAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYG 121

>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 = 93.9 bits (233), Expect = 1e-25
 Identities = 42/111 (37%), Positives = 66/111 (59%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
           P G+L Q+EYA  AV+ GA ++GIK   G++L  +K+  + L E D I K+  I ++I  
Sbjct: 14  PDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICA 73

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             SG+  D R+L+ +AR  AQ  +L Y   I  ++L +++    Q+YTQ G
Sbjct: 74  ATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYG 124

>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 = 93.6 bits (232), Expect = 1e-25
 Identities = 33/113 (29%), Positives = 57/113 (50%), Gaps = 2/113 (1%)

Query: 1   PSGKLVQIEYALAAVE-AGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIG 58
           P G+L Q+EYA  A       S+ ++  +  V+ ++KK    L +   +  +  I+  IG
Sbjct: 12  PEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIG 71

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           MV +G  PD R    +A+  A +++  Y  ++P   L +R+A + Q YTQ   
Sbjct: 72  MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAY 124

>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 = 91.7 bits (227), Expect = 6e-25
 Identities = 88/111 (79%), Positives = 102/111 (91%), Gaps = 1/111 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+++  +HKVEPIT +IG+
Sbjct: 14  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 73

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSG
Sbjct: 74  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 124

>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 = 91.6 bits (227), Expect = 9e-25
 Identities = 34/112 (30%), Positives = 66/112 (58%), Gaps = 1/112 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           P G L Q+EYA  AV+ G+ +VG++  + +VL  EKK    L ++  + K+  + D + M
Sbjct: 11  PDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCM 70

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS  
Sbjct: 71  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNG 122

>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 = 82.4 bits (203), Expect = 2e-21
 Identities = 17/105 (16%), Positives = 32/105 (30%), Gaps = 6/105 (5%)

Query: 7   QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGP 66
           + E A   +  G   V +   +G++   E     +      HKV  + D +G    G   
Sbjct: 8   RSELARKGIARGRSVVVLTFRDGVLFVAENPSTAL------HKVSELYDRLGFAAVGKYN 61

Query: 67  DYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
           ++  L +     A      Y     T + +    A       +  
Sbjct: 62  EFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQ 106

>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 = 58.6 bits (141), Expect = 2e-12
 Identities = 13/103 (12%), Positives = 36/103 (34%), Gaps = 5/103 (4%)

Query: 14  AVEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLL 71
            +  G   + +K  NG+++A +      ++L  + + ++ P+ D   +  SG   D + +
Sbjct: 4   PIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHI 63

Query: 72  VKKARKIAQQYKLVYQENIPTQQLVQRVAAIM---QEYTQSGS 111
            +  + +  +           + L             Y +   
Sbjct: 64  ERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSK 106

>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 = 58.3 bits (140), Expect = 3e-12
 Identities = 19/95 (20%), Positives = 33/95 (34%), Gaps = 5/95 (5%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G   +GI   +  VLA + +      +      KV    D I M  +G   D   LVK+ 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           +   + Y   + +   +   +   A  +Q      
Sbjct: 69  KNSVKWYHFDHNDKKLS---INSAARNIQHLLYGK 100

>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 = 56.3 bits (135), Expect = 1e-11
 Identities = 15/91 (16%), Positives = 37/91 (40%), Gaps = 2/91 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           +GI+  + ++LA+ K   +   + +D   K   ++ +  M ++G   D     +  +   
Sbjct: 5   LGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANI 64

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           Q Y +     +  Q +   V   + +  +S 
Sbjct: 65  QLYSIREDYELSPQAVSSFVRQELAKSIRSR 95

>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 = 53.6 bits (128), Expect = 1e-10
 Identities = 20/93 (21%), Positives = 49/93 (52%), Gaps = 4/93 (4%)

Query: 21  SVGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARK 77
           +VGI   + +++ATE++   +  I+ ++   K+  I  Y GM  +G+  D ++LV+  + 
Sbjct: 3   TVGITLKDAVIMATERRVTMENFIMHKNG-KKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61

Query: 78  IAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
             + Y+L  + N+P + +   ++ ++ +     
Sbjct: 62  ELELYRLQRRVNMPIEAVATLLSNMLNQVKYMP 94

>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 = 53.3 bits (127), Expect = 2e-10
 Identities = 17/93 (18%), Positives = 40/93 (43%), Gaps = 2/93 (2%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G   + +K  N + +A +++   +  L      K+ P+ D + +  +G+  D + + ++ 
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           +     Y+L     I    L+  VA ++ E   
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRF 99

>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 = 52.8 bits (126), Expect = 2e-10
 Identities = 17/92 (18%), Positives = 37/92 (40%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +  K  +G+++A + +      I  +    KV  I  Y+    +G   D     +   + 
Sbjct: 4   LAFKFRHGVIVAADSRATAGAYIASQTV-KKVIEINPYLLGTMAGGAADCSFWERLLARQ 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            + Y+L  +E I      + +A ++ +Y   G
Sbjct: 63  CRIYELRNKERISVAAASKLLANMVYQYKGMG 94

>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 = 53.0 bits (126), Expect = 3e-10
 Identities = 15/93 (16%), Positives = 33/93 (35%), Gaps = 2/93 (2%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G   + I   +  ++A++ +  +   +      K   +TD   +  SG   D   L K  
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
               + YK    + + T  +   ++ I+     
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRF 101

>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 = 52.6 bits (125), Expect = 3e-10
 Identities = 13/91 (14%), Positives = 37/91 (40%), Gaps = 2/91 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           +GI+  + +++A+++      +  +D   K+  +++ I ++  G   D     +  +K  
Sbjct: 5   IGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNV 64

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           Q YK+     +            + +  +S 
Sbjct: 65  QLYKMRNGYELSPTAAANFTRRNLADCLRSR 95

>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 = 50.9 bits (121), Expect = 1e-09
 Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 2/89 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           VG+K +NG+V+A + +  Q  I+ +    K+  I+  I    +G   D   + +      
Sbjct: 4   VGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNI 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           + + L           +Q +   + +Y  
Sbjct: 64  ELHSLYTSREPRVVSALQMLKQHLFKYQG 92

>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 = 50.9 bits (121), Expect = 2e-09
 Identities = 13/96 (13%), Positives = 37/96 (38%), Gaps = 3/96 (3%)

Query: 14  AVEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLL 71
            +  G   +G+K   G+V+A +      ++     I ++  + +   +  SG   D++ L
Sbjct: 4   PMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYL 63

Query: 72  VKKARKIAQQYKLVYQ-ENIPTQQLVQRVAAIMQEY 106
            +   ++    +L+    +   + +   +   M   
Sbjct: 64  KQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSR 99

>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 = 50.5 bits (120), Expect = 2e-09
 Identities = 12/89 (13%), Positives = 31/89 (34%), Gaps = 2/89 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
            G+   +GIVL  + +  +  ++ +    K+  I+  I    +G   D  +  +      
Sbjct: 4   AGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNL 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           + + L            + +  ++  Y  
Sbjct: 64  ELHSLSTGRLPRVVTANRMLKQMLFRYRG 92

>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 = 49.8 bits (118), Expect = 3e-09
 Identities = 12/92 (13%), Positives = 36/92 (39%), Gaps = 4/92 (4%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +  +   GI++A + +      +  +    +V  I  ++    +G   D +         
Sbjct: 4   LAFRFQGGIIVAVDSRATAGNWVASQTV-KRVIEINPFLLGTMAGGAADCQFWETWLGSQ 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
            + ++L  +E I      + ++ ++ +Y  +G
Sbjct: 63  CRLHELREKERISVAAASKILSNLVYQYKGAG 94

>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 = 49.7 bits (118), Expect = 3e-09
 Identities = 13/89 (14%), Positives = 28/89 (31%), Gaps = 2/89 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           + ++   G+VL  + +    + +      K+ PI D I    SG   D + +        
Sbjct: 4   MAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQL 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
             + +   E             +   Y +
Sbjct: 64  GFHSIELNEPPLVHTAASLFKEMCYRYRE 92

>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 = 49.9 bits (118), Expect = 4e-09
 Identities = 14/91 (15%), Positives = 36/91 (39%), Gaps = 2/91 (2%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           V +    G++LA +++  Q  ++    + KV    +Y     +G       LV+      
Sbjct: 4   VALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVEL 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
           + Y+ +    +       R+A++++    + 
Sbjct: 64  EHYEKIEGVPLTFDGKANRLASMVRGNLGAA 94

>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 = 49.0 bits (116), Expect = 6e-09
 Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 2/90 (2%)

Query: 21  SVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +VG+   +G+V+ATEK+      +      K+  I D + M  +G   D + L +  +  
Sbjct: 3   TVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIE 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           A  Y++  +     + +    + ++  Y  
Sbjct: 63  ANLYEIRRERKPTVRAIATLTSNLLNSYRY 92

>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 = 48.3 bits (114), Expect = 1e-08
 Identities = 15/93 (16%), Positives = 37/93 (39%), Gaps = 3/93 (3%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G   V +   + + +A + +   +++   +   K+     ++ +  +G+  D   L +  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMF 66

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           R     YKL  +  I  +   Q V++ + E   
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRF 99

>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 = 44.7 bits (105), Expect = 2e-07
 Identities = 13/79 (16%), Positives = 27/79 (34%), Gaps = 2/79 (2%)

Query: 15 VEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLV 72
          V  GA  + +   +G++L  + +      +      K+  + D I    SG   D + + 
Sbjct: 6  VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 73 KKARKIAQQYKLVYQENIP 91
             +   + Y   Y     
Sbjct: 66 DIVQYHLELYTSQYGTPST 84

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	111
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	99.94
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.92
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	99.91
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.91
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	99.91
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	99.91
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	99.91
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.9
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.9
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	99.89
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	99.89
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.89
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.89
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	99.88
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.87
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.87
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.86
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.86
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.5
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.49
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.37
d1l0oc_	57	SigmaF {Bacillus stearothermophilus [TaxId: 1422]}	81.07

>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=9.7e-39  Score=224.85  Aligned_cols=111  Identities=32%  Similarity=0.548  Sum_probs=107.7

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+.+++ .++.+|||+|++|+++++||+.+|++.+++++|.++
T Consensus        16 p~Grl~QvEYa~~av~~G~t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~   95 (245)
T d1irug_          16 PDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLADARSLADIAREEA   95 (245)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEeccccccccccCccceEEEcCCCEEEEeccCchhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988888 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      .+|++++|.++|++.++++|++++|.|||+++
T Consensus        96 ~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~  127 (245)
T d1irug_          96 SNFRSNFGYNIPLKHLADRVAMYVHAYTLYSA  127 (245)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSS
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhcccc
Confidence            99999999999999999999999999999863

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.9e-38  Score=221.93  Aligned_cols=111  Identities=32%  Similarity=0.562  Sum_probs=107.5

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|++..+. +++.+|||+|+++++|++||+.+|++.++++++.++
T Consensus        11 p~Grl~QvEya~kav~~G~Tvvgik~~dgVvla~d~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   90 (243)
T d1irud_          11 PDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADARIVINRARVEC   90 (243)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccccCcccCCCccccEEECCCCEEEEEEEchhhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999887777 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      ..|++.+|.+|+++.++++|++++|.|||+.+
T Consensus        91 ~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~  122 (243)
T d1irud_          91 QSHRLTVEDPVTVEYITRYIASLKQRYTQSNG  122 (243)
T ss_dssp             HHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTT
T ss_pred             HHHHHhcCCCccHHHHHHHHHHHHHHHHhccc
Confidence            99999999999999999999999999999864

>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=8.7e-38  Score=220.25  Aligned_cols=111  Identities=36%  Similarity=0.574  Sum_probs=107.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+++++  ++..+|||+|++|+++++||+.+|++.+++++|.+
T Consensus        13 p~Grl~QvEyA~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~   92 (250)
T d1iruc_          13 PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNELRLI   92 (250)
T ss_dssp             TTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccchHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998887  66779999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +..|++.+|.++|++.+++.+++++|.||++.+
T Consensus        93 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~  125 (250)
T d1iruc_          93 AQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGG  125 (250)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSS
T ss_pred             HHHHHHHcCCCcchHHHHHHHHHHHHHHhhhcc
Confidence            999999999999999999999999999999753

>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=4.1e-38  Score=220.01  Aligned_cols=111  Identities=31%  Similarity=0.546  Sum_probs=107.8

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+.++. .++.+||++|++++++++||+.+|++.++++++.++
T Consensus        10 p~G~l~QvEYa~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~   89 (234)
T d1irue_          10 PEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVET   89 (234)
T ss_dssp             TTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCccCCCcccCcccCEEEccCcEEEEEeeccchHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998888 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      ..|++.+|++++++.++++|++++|.|||+++
T Consensus        90 ~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~  121 (234)
T d1irue_          90 QNHWFTYNETMTVESVTQAVSNLALQFGEEDA  121 (234)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTC
T ss_pred             HHHHHhhCCCCCHHHHHHHHHHHHHHHhhccc
Confidence            99999999999999999999999999999864

>d1rypd_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.2e-37  Score=218.56  Aligned_cols=111  Identities=37%  Similarity=0.568  Sum_probs=107.4

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+++++  .++.+|||+|++|++|++||+.+|++.++++++.+
T Consensus        11 p~Grl~QvEya~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~   90 (241)
T d1rypd_          11 PDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEKARVE   90 (241)
T ss_dssp             TTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCcEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999987  56779999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +..|++.+|.+|+++.+++++++++|.||++.+
T Consensus        91 ~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~  123 (241)
T d1rypd_          91 AQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGG  123 (241)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTT
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccc
Confidence            999999999999999999999999999999863

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.1e-37  Score=219.21  Aligned_cols=111  Identities=38%  Similarity=0.588  Sum_probs=107.2

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.++++. .+..+||++|+++++++++|+.+|++.++++++.++
T Consensus        13 p~Grl~QvEya~kav~~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~   92 (244)
T d1rypg_          13 PDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEA   92 (244)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCCCccccccceEEEccCceEEEEccchhhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999987 666689999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +.|++.++++++++.+++.++.++|.||++++
T Consensus        93 ~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~  124 (244)
T d1rypg_          93 ASFKKLYKTPIPIPAFADRLGQYVQAHTLYNS  124 (244)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTT
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHHhhcccc
Confidence            99999999999999999999999999999863

>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=1.4e-37  Score=217.30  Aligned_cols=110  Identities=27%  Similarity=0.451  Sum_probs=105.3

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.++++. ...+||++|+++++|++||+.+|++.+++++|.+++
T Consensus        14 pdGrl~QvEyA~kav~~g~t~igi~~~dgvvlaad~~~~~~l~-~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~   92 (233)
T d1rypf_          14 PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS-SYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCN   92 (233)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB-CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             CCCcChHHHHHHHHHHcCCCEEEEEECCeEEEEEeccccccCC-cchheEEEcCCCEEEEEeeccccHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998874 445899999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        81 ~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +|++.++++|+++.+|+.|++++|.|||+.+
T Consensus        93 ~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~  123 (233)
T d1rypf_          93 YSSLVFNRKLAVERAGHLLCDKAQKNTQSYG  123 (233)
T ss_dssp             HHHHHHSCCCCHHHHHHHHHHHHHHHHHBTT
T ss_pred             hhhhhcCCCCcHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999999999999999863

>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=1.9e-37  Score=217.78  Aligned_cols=111  Identities=37%  Similarity=0.612  Sum_probs=107.7

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ .++.+|||+|++++++++||+.+|++.+.++++.++
T Consensus        14 p~Grl~QvEya~kav~~G~t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~   93 (243)
T d1j2pa_          14 PDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVADARVLIDRARIEA   93 (243)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHcCCCEEEEEECCEEEEEEecCccccCccccccccEeecCCcEEEEeeecccHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988 777799999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      ..|+++++.+++++.+++.+++++|.+|++.+
T Consensus        94 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~  125 (243)
T d1j2pa_          94 QINRLTYDIPITVKELAKKICDFKQQYTQYGG  125 (243)
T ss_dssp             HHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTT
T ss_pred             HHHHHhhCCCCcHHHHHHHHHHHHHHHhhhcc
Confidence            99999999999999999999999999999753

>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=2.1e-37  Score=214.73  Aligned_cols=111  Identities=43%  Similarity=0.674  Sum_probs=107.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+.++. ++..+|||+|++|++++++|+.+|++.+.+++|.++
T Consensus         5 p~G~l~QvEYa~~av~~G~t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~   84 (221)
T d1yara1           5 PDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISA   84 (221)
T ss_dssp             TTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCccceEEEecCCceEEeeeccchHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999887777 777899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      ..|++.++++++++.+++.+++++|.||++.+
T Consensus        85 ~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~  116 (221)
T d1yara1          85 QQEKVTYGSLVNIENLVKRVADQMQQYTQYGG  116 (221)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTT
T ss_pred             HHHHHHcCCcchHHHHHHHHHHHHHHHhhhcc
Confidence            99999999999999999999999999999753

>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=2.1e-37  Score=217.73  Aligned_cols=111  Identities=37%  Similarity=0.573  Sum_probs=106.3

Q ss_pred             CCCcchhhhhHHHHHhcCC-CEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGA-PSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~-t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++|+ |+|||+++||||||+|+|.++++. .++.+|||+|++|+++++||+.+|++.+++++|.+
T Consensus        17 p~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~   96 (244)
T d1irua_          17 PEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYE   96 (244)
T ss_dssp             TTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEecCCcEEEEecchHHHHHHHHHHHHH
Confidence            9999999999999999975 899999999999999999988887 77789999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      ++.|++.++++++++.+++.+++++|.+|++.+
T Consensus        97 ~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~  129 (244)
T d1irua_          97 AANWKYKYGYEIPVDMLCKRIADISQVYTQNAE  129 (244)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSS
T ss_pred             HHHHHHHcCCCCCchHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999999999998853

>d1rype_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.3e-37  Score=216.97  Aligned_cols=110  Identities=34%  Similarity=0.602  Sum_probs=107.0

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+.++. .++.+|||+|++++++++||+.+|++.++++++.++
T Consensus         9 p~G~l~Qveya~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   88 (242)
T d1rype_           9 PEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAA   88 (242)
T ss_dssp             TTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCccCcCcccCccceEEEcCCCEEEEEeecchhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998877 777899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ..|++.++++++++.++++|++++|.|||+.
T Consensus        89 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~  119 (242)
T d1rype_          89 VTHNLYYDEDINVESLTQSVCDLALRFGEGA  119 (242)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHTTTTCCBSSC
T ss_pred             HHHHHHcCCCCchhHHHHHHHHHHHHHhccc
Confidence            9999999999999999999999999999975

>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=7.6e-37  Score=214.16  Aligned_cols=110  Identities=30%  Similarity=0.469  Sum_probs=105.1

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.++++. .+.+||++|++++++++||+.+|++.++++++.++.
T Consensus        12 p~Grl~QvEYA~kav~~G~t~vgik~~dgVvlaad~~~~~~~~-~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~   90 (238)
T d1iruf_          12 PQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA-AHQKKILHVDNHIGISIAGLTADARLLCNFMRQECL   90 (238)
T ss_dssp             TTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB-CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccccCCC-CccceEEEeCCceEEEEeccchHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998886 223799999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        81 ~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      .|++++|++++++.+++.++++.|.||++.+
T Consensus        91 ~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~  121 (238)
T d1iruf_          91 DSRFVFDRPLPVSRLVSLIGSKTQIPTQRYG  121 (238)
T ss_dssp             HHHHHHSSCCCHHHHHHHHHHHHHHHHHBTT
T ss_pred             HHHHHcCCCcchHHHHHHHHHHHHHHhhccC
Confidence            9999999999999999999999999999853

>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=8e-37  Score=214.44  Aligned_cols=111  Identities=30%  Similarity=0.457  Sum_probs=106.0

Q ss_pred             CCCcchhhhhHHHHHhc-CCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~-g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++ |+|+|||+++||||||+|+|.++++. .+..+||++|+++++|++||+.+|++.+.+++|.+
T Consensus        12 p~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   91 (243)
T d1rypa_          12 PEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAE   91 (243)
T ss_dssp             TTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccccccccCcccceEecCCCEEEEEecCcHHHHHHHHHHHHH
Confidence            99999999999999987 55899999999999999999988877 78889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccCC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS  111 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~  111 (111)
                      +++|++.++.++|++.+++.+++++|.||++.+
T Consensus        92 ~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~  124 (243)
T d1rypa_          92 AAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAY  124 (243)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTT
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccc
Confidence            999999999999999999999999999998753

>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-36  Score=214.37  Aligned_cols=110  Identities=60%  Similarity=0.876  Sum_probs=105.7

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ .++.+||++|++|+++++||+.+|++.++++++.++
T Consensus        14 p~G~l~QvEyA~kav~~G~tvvgi~~~dgVvlaad~r~~~~~~~~~~~~ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~   93 (250)
T d1rypb_          14 PSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVA   93 (250)
T ss_dssp             TTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCccccccccceeEeccCCEEEEeeecccHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988887 777899999999999999999999999999999999


Q ss_pred             H-HHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 Q-QYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~-~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      . +|++.++.++|++.+++.+++++|.||++.
T Consensus        94 ~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~  125 (250)
T d1rypb_          94 HTSYKRIYGEYPPTKLLVSEVAKIMQEATQSG  125 (250)
T ss_dssp             HHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSB
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhc
Confidence            7 489999999999999999999999999875

>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=2.2e-36  Score=210.49  Aligned_cols=110  Identities=81%  Similarity=1.191  Sum_probs=106.9

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc-cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ .++.+|||+|+++++++++|+.+|++.++++++.++
T Consensus        14 p~Gr~~Qveya~kav~~G~tvigik~~dgVvlaaD~r~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   93 (233)
T d1irub_          14 PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLA   93 (233)
T ss_dssp             TTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCCcChHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCcccCCccccccceEEEecCceEEEEeccchHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998888 788899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      ..|+.+++++++++.+++.+++++|.+|++.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  124 (233)
T d1irub_          94 QQYYLVYQEPIPTAQLVQRVASVMQEYTQSG  124 (233)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTTSB
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcc
Confidence            9999999999999999999999999999864

>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-36  Score=210.17  Aligned_cols=110  Identities=40%  Similarity=0.671  Sum_probs=106.7

Q ss_pred             CCCcchhhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHH
Q psy6667           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (111)
Q Consensus         1 p~Gri~Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (111)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++  +++.+||++|+++++++++|+.+|++.++++++.+
T Consensus        14 p~G~~~Qveya~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   93 (244)
T d1rypc_          14 PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARIH   93 (244)
T ss_dssp             TTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCcChHHHHHHHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCcHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998877  66779999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHhhccC
Q psy6667          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG  110 (111)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~  110 (111)
                      +..|++.++.+++++.+++.+++++|.|+++.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  125 (244)
T d1rypc_          94 AQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG  125 (244)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBS
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHhhhhhcc
Confidence            99999999999999999999999999999875

>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=99.94  E-value=9.6e-27  Score=161.59  Aligned_cols=94  Identities=18%  Similarity=0.296  Sum_probs=87.6

Q ss_pred             hhhhHHHHHhcCCCEEEEEeCCeEEEEEeccCCCCcccccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHh
Q psy6667           7 QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVY   86 (111)
Q Consensus         7 Qieya~~av~~g~t~vgi~~~dgVvlaad~~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~   86 (111)
                      |+|||+||+++|+|+|||+++||||||+|+|+++      .+||++|++|++|+++|+.+|++.|++++|.+|..|++.+
T Consensus         8 q~eyA~~av~~GtT~vgi~~~~GVvlaad~r~~s------~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~   81 (227)
T d1q5qa_           8 RSELARKGIARGRSVVVLTFRDGVLFVAENPSTA------LHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSY   81 (227)
T ss_dssp             HHHHHHHHHHTSCCEEEEECSSEEEEEECCSCSS------SCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhcCCCEEEEEECCEEEEEEccCCCC------cceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999998653      3799999999999999999999999999999999999999


Q ss_pred             CC-CCCHHHHHHHHHHHHHHh
Q psy6667          87 QE-NIPTQQLVQRVAAIMQEY  106 (111)
Q Consensus        87 ~~-~i~~~~la~~ls~~~~~~  106 (111)
                      +. +++++.+++.++++++..
T Consensus        82 ~~~~~~~~~la~~~~~~~~~~  102 (227)
T d1q5qa_          82 DRRDVTGRSLANAYAQTLGTI  102 (227)
T ss_dssp             CGGGCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHHHHH
Confidence            84 689999999999986543

>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=99.92  E-value=3.6e-25  Score=150.91  Aligned_cols=94  Identities=17%  Similarity=0.249  Sum_probs=89.4

Q ss_pred             hcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy6667          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (111)
Q Consensus        16 ~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (111)
                      -+|+|+|||+++||||||+|+|.+.+.+  .++.+|||+|+++++++++|..+|++.+.++++.+++.|+..++.+++++
T Consensus         5 ~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1iruj_           5 YNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPY   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHH
T ss_pred             eCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccchH
Confidence            4799999999999999999999998876  77889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcc
Q psy6667          94 QLVQRVAAIMQEYTQS  109 (111)
Q Consensus        94 ~la~~ls~~~~~~t~~  109 (111)
                      .+++++++++|.+++.
T Consensus        85 ~~a~~l~~~~~~~~~~  100 (204)
T d1iruj_          85 TLMSMVANLLYEKRFG  100 (204)
T ss_dssp             HHHHHHHHHHHTTTTS
T ss_pred             HHHHHHHHHHHHhhhc
Confidence            9999999999988753

>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=99.91  E-value=1.7e-24  Score=147.34  Aligned_cols=91  Identities=22%  Similarity=0.391  Sum_probs=86.2

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      ||+|||+++||||||+|+|.+.+.+  +++.+|||+|++++++++||..+|++.++++++.+++.|+..++.+||++.++
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            6999999999999999999886655  78889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.+++.
T Consensus        81 ~~l~~~~~~~~~~   93 (203)
T d1yarh1          81 TLLSNMLNQVKYM   93 (203)
T ss_dssp             HHHHHHHHHTTTS
T ss_pred             HHHHHHHHhhccC
Confidence            9999999998753

>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=99.91  E-value=1.4e-24  Score=147.70  Aligned_cols=91  Identities=16%  Similarity=0.302  Sum_probs=86.8

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      ||+|||+++||||||+|+|.+.+.+  .++.+|||+|+++++|+++|..+|++.+.+.++.+++.|+..++.+++++.++
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            6999999999999999999987766  77779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.+++.
T Consensus        81 ~~l~~~~~~~~~~   93 (201)
T d1irul_          81 KLLANMVYQYKGM   93 (201)
T ss_dssp             HHHHHHHHTTTTS
T ss_pred             HHHHHHhhhccCC
Confidence            9999999999875

>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=99.91  E-value=1.9e-24  Score=148.15  Aligned_cols=91  Identities=12%  Similarity=0.222  Sum_probs=86.6

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      ||+|||++|||||||+|+|.+++.+  .++.+|||+|+++++++++|..+|++.++++++.++..|++.++.+++++.++
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            6999999999999999999988766  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.|++.
T Consensus        81 ~~ls~~~~~~~~~   93 (212)
T d1rypl_          81 KILSNLVYQYKGA   93 (212)
T ss_dssp             HHHHHHHHHTTTS
T ss_pred             HHHHHHHHHhccC
Confidence            9999999998754

>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=99.91  E-value=5.3e-24  Score=144.38  Aligned_cols=91  Identities=21%  Similarity=0.346  Sum_probs=86.5

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      ||+|||+++||||||+|+|.+.+.+  +++.+|||+|+++++|++||..+|++.+.++++.+++.|++.++.+++++.++
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            6999999999999999999886655  77779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +++++++|.+|+.
T Consensus        81 ~~~~~~~~~~~~~   93 (202)
T d1j2qh_          81 TLTSNLLNSYRYF   93 (202)
T ss_dssp             HHHHHHHHHTTTS
T ss_pred             HHHHHHHhhhccc
Confidence            9999999999875

>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=99.91  E-value=6.4e-24  Score=144.06  Aligned_cols=91  Identities=16%  Similarity=0.191  Sum_probs=86.9

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+.+.+  .++.+|||+|++|++++++|..+|++.+.++++.+++.|+++++.+++++.++
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            6999999999999999999998877  67889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      ++++.++|.++++
T Consensus        82 ~~i~~~~~~~~~~   94 (198)
T d1rypk_          82 SFVRQELAKSIRS   94 (198)
T ss_dssp             HHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998764

>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=99.90  E-value=6.9e-24  Score=144.29  Aligned_cols=90  Identities=16%  Similarity=0.201  Sum_probs=86.2

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      ||+|||+++||||||+|+|.+++.+  .++.+||++|+++++++++|..+|++.+.+.++.+++.|+++++.+++++.++
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            6999999999999999999998776  77789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy6667          97 QRVAAIMQEYTQ  108 (111)
Q Consensus        97 ~~ls~~~~~~t~  108 (111)
                      +++++++|.+++
T Consensus        81 ~~l~~~l~~~~~   92 (202)
T d1iruh_          81 SLFKEMCYRYRE   92 (202)
T ss_dssp             HHHHHHHHHTTT
T ss_pred             HHHHHHHHhhcc
Confidence            999999999875

>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=99.90  E-value=5.8e-24  Score=144.57  Aligned_cols=94  Identities=16%  Similarity=0.113  Sum_probs=89.5

Q ss_pred             hcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy6667          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (111)
Q Consensus        16 ~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (111)
                      .+|+|+|||+++||||||+|+|.+.+.+  .++.+||++|+++++++++|..+|++.+.++++.+++.|+..++.+++++
T Consensus         7 ~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   86 (213)
T d1iru1_           7 FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTG   86 (213)
T ss_dssp             CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             CCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhHH
Confidence            5899999999999999999999988866  66779999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcc
Q psy6667          94 QLVQRVAAIMQEYTQS  109 (111)
Q Consensus        94 ~la~~ls~~~~~~t~~  109 (111)
                      .++++++..+|.+++.
T Consensus        87 ~~~~~~~~~~~~~~~~  102 (213)
T d1iru1_          87 AIAAMLSTILYSRRFF  102 (213)
T ss_dssp             HHHHHHHHHHHTTTTS
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999999998864

>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=99.89  E-value=2.8e-23  Score=141.01  Aligned_cols=93  Identities=16%  Similarity=0.180  Sum_probs=87.2

Q ss_pred             hcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy6667          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (111)
Q Consensus        16 ~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (111)
                      .+|+|+|||+++||||||+|+|.+.+.+  .+..+|||++ ++++++++|..+|++.+.++++.++++|+++++.+++++
T Consensus         6 ~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1rypj_           6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPE   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             cCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcch
Confidence            4799999999999999999999998876  6777999999 599999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcc
Q psy6667          94 QLVQRVAAIMQEYTQS  109 (111)
Q Consensus        94 ~la~~ls~~~~~~t~~  109 (111)
                      .+++++++.+|.+++.
T Consensus        85 ~la~~l~~~l~~~~~~  100 (204)
T d1rypj_          85 TFTQLVSSSLYERRFG  100 (204)
T ss_dssp             HHHHHHHHHHHTTTTS
T ss_pred             HHHHHHHHHHHhhccc
Confidence            9999999999988753

>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=99.89  E-value=4.5e-23  Score=140.69  Aligned_cols=92  Identities=17%  Similarity=0.257  Sum_probs=85.3

Q ss_pred             HhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy6667          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (111)
Q Consensus        15 v~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (111)
                      +++|+|+|||+++||||||+|+|.+.+.+  +++.+||++|++|++++++|..+|++.+.++++.+++.|+++++.+ ++
T Consensus         6 v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~~   84 (205)
T d1ryph_           6 VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-ST   84 (205)
T ss_dssp             CBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-CH
T ss_pred             ccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-cH
Confidence            68999999999999999999999987766  7778999999999999999999999999999999999999999966 57


Q ss_pred             HHHHHHHHHHHHHhh
Q psy6667          93 QQLVQRVAAIMQEYT  107 (111)
Q Consensus        93 ~~la~~ls~~~~~~t  107 (111)
                      ..+++.++.+++.+.
T Consensus        85 ~~~~~~~~~~~~~~~   99 (205)
T d1ryph_          85 ETAASVFKELCYENK   99 (205)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCc
Confidence            889999999998764

>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=99.89  E-value=8.6e-23  Score=140.47  Aligned_cols=89  Identities=13%  Similarity=0.139  Sum_probs=85.0

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      ||+|||+++||||||+|+|.+++.+  .++.+||++|++|++++++|..+|++.+.+.++.+++.|++++|.+++++.++
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            6999999999999999999998877  67779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy6667          97 QRVAAIMQEYT  107 (111)
Q Consensus        97 ~~ls~~~~~~t  107 (111)
                      ++++++++.+.
T Consensus        81 ~~l~~~~y~~~   91 (220)
T d1irui_          81 RMLKQMLFRYR   91 (220)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHhhhhhcc
Confidence            99999998765

>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=99.89  E-value=5e-23  Score=141.42  Aligned_cols=91  Identities=14%  Similarity=0.155  Sum_probs=86.5

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      ||+|||+++||||||+|+|.+++.+  .++.+||++|+++++++++|..+|++.+.++++.++..|+++++.+++++.++
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            6999999999999999999988765  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +.+++++|.|++.
T Consensus        81 ~~~~~~~~~~~~~   93 (224)
T d1q5qh_          81 NRLASMVRGNLGA   93 (224)
T ss_dssp             HHHHHHHHTTHHH
T ss_pred             HHHHHHHHHhhcc
Confidence            9999999998764

>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=99.88  E-value=6.4e-23  Score=142.10  Aligned_cols=94  Identities=14%  Similarity=0.241  Sum_probs=85.3

Q ss_pred             HHHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHh----
Q psy6667          13 AAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVY----   86 (111)
Q Consensus        13 ~av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~----   86 (111)
                      +++.+|+|+|||+++||||||+|+|.+.+.+  +++.+|||+|+++++++++|..+|++.+.++++.++..|++++    
T Consensus         3 ~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~   82 (233)
T d1ryp2_           3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLAD   82 (233)
T ss_dssp             CCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTT
T ss_pred             CCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCCC
Confidence            4678999999999999999999999875544  7778999999999999999999999999999999999999876    


Q ss_pred             -CCCCCHHHHHHHHHHHHHHh
Q psy6667          87 -QENIPTQQLVQRVAAIMQEY  106 (111)
Q Consensus        87 -~~~i~~~~la~~ls~~~~~~  106 (111)
                       +.++++..++++++++++..
T Consensus        83 ~~~~~~~~~~a~~l~~~~y~~  103 (233)
T d1ryp2_          83 AEEALEPSYIFEYLATVMYQR  103 (233)
T ss_dssp             TTTSCCHHHHHHHHHHHHHHH
T ss_pred             CCcccCHHHHHHHHHHHHHhh
Confidence             67899999999999987543

>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=99.87  E-value=5.6e-22  Score=132.69  Aligned_cols=91  Identities=14%  Similarity=0.183  Sum_probs=85.9

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      +|+|||+++||||||+|+|.+.+.+  +++.+|||+|+++++++++|..+|++.+.++++.+++.|+..++.+++++.++
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            6899999999999999999988776  67779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcc
Q psy6667          97 QRVAAIMQEYTQS  109 (111)
Q Consensus        97 ~~ls~~~~~~t~~  109 (111)
                      +.++.+++.+.+.
T Consensus        82 ~~l~~~~~~~~~~   94 (199)
T d1iruk_          82 NFTRRNLADCLRS   94 (199)
T ss_dssp             HHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999887654

>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=99.87  E-value=1.1e-21  Score=135.20  Aligned_cols=89  Identities=17%  Similarity=0.188  Sum_probs=84.0

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (111)
                      ||+|||+++||||||+|+|.+.+.+  .++.+|||+|+++++++++|..+|++.+.++++.++..|+..++.++++..++
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            6999999999999999999987766  77779999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy6667          97 QRVAAIMQEYT  107 (111)
Q Consensus        97 ~~ls~~~~~~t  107 (111)
                      +++++.++.+.
T Consensus        81 ~~l~~~~~~~~   91 (222)
T d1rypi_          81 QMLKQHLFKYQ   91 (222)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhhh
Confidence            99999988764

>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=99.86  E-value=4.8e-22  Score=136.36  Aligned_cols=94  Identities=14%  Similarity=0.176  Sum_probs=84.7

Q ss_pred             HHhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHH-hCCCC
Q psy6667          14 AVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLV-YQENI   90 (111)
Q Consensus        14 av~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~-~~~~i   90 (111)
                      ++.+|+|+|||+++||||||+|+|.+.+.+  .++.+||++|+++++++++|..+|++.+.+.++.++..|+.. ++.++
T Consensus         4 ~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   83 (217)
T d1iru2_           4 PMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSY   83 (217)
T ss_dssp             CCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCC
T ss_pred             CcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCCC
Confidence            567899999999999999999999887655  778899999999999999999999999999999999988764 57999


Q ss_pred             CHHHHHHHHHHHHHHhh
Q psy6667          91 PTQQLVQRVAAIMQEYT  107 (111)
Q Consensus        91 ~~~~la~~ls~~~~~~t  107 (111)
                      +++.++++++++++...
T Consensus        84 ~v~~~a~~l~~~~y~~~  100 (217)
T d1iru2_          84 SPRAIHSWLTRAMYSRR  100 (217)
T ss_dssp             CHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhc
Confidence            99999999999875543

>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=99.86  E-value=5.4e-22  Score=136.23  Aligned_cols=93  Identities=19%  Similarity=0.211  Sum_probs=84.7

Q ss_pred             HhcCCCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHHHHhC-CCCC
Q psy6667          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQ-ENIP   91 (111)
Q Consensus        15 v~~g~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~   91 (111)
                      +.+|+|+|||+++||||||+|+|.+.+++  .++.+||++|++++++++||..+|++.+.++++.++..|++.++ .+++
T Consensus         6 ~~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T d1ryp1_           6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             cCCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCc
Confidence            36899999999999999999999998876  67789999999999999999999999999999999999998875 5689


Q ss_pred             HHHHHHHHHHHHHHhh
Q psy6667          92 TQQLVQRVAAIMQEYT  107 (111)
Q Consensus        92 ~~~la~~ls~~~~~~t  107 (111)
                      +..++++++.+++...
T Consensus        86 ~~~~~~~~~~~~~~~~  101 (222)
T d1ryp1_          86 INSAARNIQHLLYGKR  101 (222)
T ss_dssp             HHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHhhh
Confidence            9999998888887654

>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=99.50  E-value=4.3e-15  Score=97.31  Aligned_cols=65  Identities=5%  Similarity=-0.111  Sum_probs=58.1

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHHHHHHHHHHHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYK   83 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~   83 (111)
                      ||+|||+++||||||+|+|.+.+.+  +++.+|+++|+++++++.+|..+|.+.+...+..+..++.
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~   67 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREW   67 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHT
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHh
Confidence            6999999999999999999998876  8889999999999999999999999988877776655544

>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=99.49  E-value=6e-15  Score=97.59  Aligned_cols=68  Identities=10%  Similarity=0.048  Sum_probs=57.6

Q ss_pred             cCCCEEEEEeCCeEEEEEeccCCCCcc--c-ccceeEEEccCc-EEEEEecchhhHHHHHHHHHHHHHHHHH
Q psy6667          17 AGAPSVGIKASNGIVLATEKKQKTILF--E-DCIHKVEPITDY-IGMVYSGMGPDYRLLVKKARKIAQQYKL   84 (111)
Q Consensus        17 ~g~t~vgi~~~dgVvlaad~~~~~~~~--~-~~~~ki~~i~~~-i~~~~sG~~~D~~~l~~~~~~~~~~~~~   84 (111)
                      +|+|+|||+++||||||+|+|++.+.+  . +..+|+++++++ ++++.+|...|.+.+.+.++.+...++.
T Consensus         4 ~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~   75 (180)
T d2z3ba1           4 HATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNG   75 (180)
T ss_dssp             CCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTT
T ss_pred             CCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhcc
Confidence            699999999999999999999997654  4 456899999875 7788899999999999988877766543

>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=99.37  E-value=3.9e-12  Score=83.12  Aligned_cols=53  Identities=9%  Similarity=0.018  Sum_probs=43.1

Q ss_pred             CCEEEEEeCCeEEEEEeccCCCCcc--cccceeEEEccCcEEEEEecchhhHHHH
Q psy6667          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLL   71 (111)
Q Consensus        19 ~t~vgi~~~dgVvlaad~~~~~~~~--~~~~~ki~~i~~~i~~~~sG~~~D~~~l   71 (111)
                      ||+|||+++||||||+|+|++.+.+  +++.+||++|+++++++.+|..+|.+..
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~   55 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFT   55 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHH
Confidence            6999999999999999999998877  8999999999887555544444444433

>d1l0oc_ a.4.13.2 (C:) SigmaF {Bacillus stearothermophilus [TaxId: 1422]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors
family: Sigma4 domain
domain: SigmaF
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=81.07  E-value=2.2  Score=21.49  Aligned_cols=33  Identities=9%  Similarity=0.134  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Q psy6667          68 YRLLVKKARKIAQQYKLVYQENIPTQQLVQRVA  100 (111)
Q Consensus        68 ~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls  100 (111)
                      .+.+..+++.....+....|++++++.+|..+.
T Consensus        10 ~~e~~~ki~~~~~~l~q~lgRePT~~EiA~~l~   42 (57)
T d1l0oc_          10 LKEMGNKIRKAKDELSKTRGRAPTVTEIADHLG   42 (57)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSCCBHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHC
Confidence            456777888888889999999999999998774