Psyllid ID: psy2869

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350--
Protein Sequence
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHccccEEEEEcccEEEEEEEcccccccccccccEEEEEcccEEEEEEccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccccEEEEEEEEEccccEEEEEcccccccccEEEEEccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccccccEEEEEEccccEEEccHHHHHHHHHccccccHHHHcccccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccccEEEEEEEEEccccEEEEEcccccccccEEEEEccccHHHHHHHHHHHcccccHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccEEHHHHHHHHHHHHcccEEEEEccccEEEEEEccccccccccccccEEEEEccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccEcccccccEEEEEEEEEccEEEEEEEcccccEEEEcEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccccccccEEEEEEccccEEEccHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHccccccccccHHHHcccccHHHHHHHHHHHHHHccccccEccccEEEEEEEEcccEEEEEEEcccccEEEEcEEEEcccHHHHHHHHHHHHHcccccHHHHHHHHHHc
Coil and Loop (DISEMBL)
PSGKLVQIEYALAAVEagapsvgikasngivLATEKkqktilfedcihkvepitDYIGMvysgmgpdYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTqsggvrpfgVSLLIcgwdnkrpylyqcdpsgayFAWKATAmgrnyvngKTFLEKRysedleldDAVHTAILTLkegfegqmtaenieigiadengfrrlDVATVRDHLSNIPQSVHTAILTLkegfegqmtaenieigiadengfrrldvateniptQQLVQRVAAIMQEYTqsggvrpfgVSLLIcgwdnkrpylyqcdpsgayFAWKATAmgrnyvngktflekreklrvpnfcgyhiaesli
Flexible Loop (DISEMBL)
PSGKLVQIEYALAAveagapsvgikasNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKtflekreklrvpnfcgyhiaesli
Low Complexity Region (SEG)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI
Disordered region (IsUnstruct)
****LVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIA****
Disordered Region (DISOPRED)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI
Disordered Region (DISEMBL)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI
Disordered Region (DISPRO)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI
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	352	2.2.26 [Sep-21-2011]
P40301	234	Proteasome subunit alpha	yes	N/A	0.622	0.935	0.790	1e-101
P17220	234	Proteasome subunit alpha	yes	N/A	0.619	0.931	0.794	1e-101
P49722	234	Proteasome subunit alpha	yes	N/A	0.619	0.931	0.794	1e-101
P25787	234	Proteasome subunit alpha	yes	N/A	0.619	0.931	0.789	1e-100
Q3T0Y5	234	Proteasome subunit alpha	yes	N/A	0.619	0.931	0.789	1e-100
O73672	234	Proteasome subunit alpha	N/A	N/A	0.619	0.931	0.803	5e-97
P24495	234	Proteasome subunit alpha	N/A	N/A	0.619	0.931	0.799	3e-96
Q10KF0	235	Proteasome subunit alpha	yes	N/A	0.619	0.927	0.631	3e-78
A2YVR7	235	Proteasome subunit alpha	N/A	N/A	0.619	0.927	0.631	3e-78
O23708	235	Proteasome subunit alpha	yes	N/A	0.619	0.927	0.622	1e-77

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

 Score =  367 bits (942), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 174/220 (79%), Positives = 197/220 (89%), Gaps = 1/220 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYRLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRLLVKQARKIAQTYYLTYKEPIPVSQLVQRVATLMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWDN RPYLYQ DPSGAYFAWKATAMG+N VNGKTFLEKRYSEDLELDDAVHTAILT
Sbjct: 135 LICGWDNDRPYLYQSDPSGAYFAWKATAMGKNAVNGKTFLEKRYSEDLELDDAVHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
           LKEGFEG+MTA+NIEIGI D+NGF+RLD A+++D+L++IP
Sbjct: 195 LKEGFEGKMTADNIEIGICDQNGFQRLDPASIKDYLASIP 234

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: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

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

 Score =  367 bits (942), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 174/219 (79%), Positives = 197/219 (89%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    VRD+L+ I
Sbjct: 195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVRDYLAAI 233

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

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  367 bits (942), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 174/219 (79%), Positives = 197/219 (89%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    VRD+L+ I
Sbjct: 195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVRDYLAAI 233

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

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  365 bits (938), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 173/219 (78%), Positives = 197/219 (89%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    V+D+L+ I
Sbjct: 195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI 233

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

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  365 bits (938), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 173/219 (78%), Positives = 197/219 (89%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    V+D+L+ I
Sbjct: 195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI 233

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

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  354 bits (909), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 176/219 (80%), Positives = 199/219 (90%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI GWD  RPYL+Q DPSGAYFAWKATAMG++YVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LIAGWDEDRPYLFQSDPSGAYFAWKATAMGKSYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT ENIE+GI +E GFRRL  A V+D+L+ I
Sbjct: 195 LKESFEGQMTEENIEVGICNEAGFRRLSPAEVKDYLAAI 233

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

Carassius auratus (taxid: 7957)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  352 bits (902), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 175/219 (79%), Positives = 198/219 (90%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVRRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI GWD  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LIAGWDEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GF+RL  A V+D+L+ I
Sbjct: 195 LKESFEGQMTEDNIEVGICNEAGFKRLTPAEVKDYLAAI 233

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

Xenopus laevis (taxid: 8355)

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 =  291 bits (746), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 139/220 (63%), Positives = 177/220 (80%), Gaps = 2/220 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPD+R+LV+K+RK AQQY  +Y+E IP  QLV+  AA+MQE+TQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDFRVLVRKSRKQAQQYYRLYKETIPVTQLVRETAAVMQEFTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G+D+  P LYQ DPSG+YF+WKA+AMG+N  N KTFLEKRY+ED+ELDDA+HTAILT
Sbjct: 135 LIAGYDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTEDMELDDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIA-DENGFRRLDVATVRDHLSNI 218
           LKEG+EGQ++A NIEIGI   +  F+ L  A ++D L  +
Sbjct: 195 LKEGYEGQISANNIEIGIIRSDREFKVLSPAEIKDFLEEV 234

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 =  291 bits (746), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 139/220 (63%), Positives = 177/220 (80%), Gaps = 2/220 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPD+R+LV+K+RK AQQY  +Y+E IP  QLV+  AA+MQE+TQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDFRVLVRKSRKQAQQYYRLYKETIPVTQLVRETAAVMQEFTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G+D+  P LYQ DPSG+YF+WKA+AMG+N  N KTFLEKRY+ED+ELDDA+HTAILT
Sbjct: 135 LIAGYDDNGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTEDMELDDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIA-DENGFRRLDVATVRDHLSNI 218
           LKEG+EGQ++A NIEIGI   +  F+ L  A ++D L  +
Sbjct: 195 LKEGYEGQISANNIEIGIIRSDREFKVLSPAEIKDFLEEV 234

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

 Score =  290 bits (741), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 137/220 (62%), Positives = 180/220 (81%), Gaps = 2/220 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDC-IHKVEPITDYIGM 59
           PSGKLVQIE+AL AV +G  S+GIKASNG+V+ATEKK  +IL ++  + K++ +T  IG+
Sbjct: 15  PSGKLVQIEHALTAVGSGQTSLGIKASNGVVIATEKKLPSILVDEASVQKIQHLTPNIGV 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPD+R+LV+K+RK A+QY  +Y+E IP  QLV+  A +MQE+TQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDFRVLVRKSRKQAEQYLRLYKEPIPVTQLVRETATVMQEFTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           L+ G+D+K P LYQ DPSG+YF+WKA+AMG+N  N KTFLEKRY+ED+ELDDA+HTAILT
Sbjct: 135 LVAGYDDKGPQLYQVDPSGSYFSWKASAMGKNVSNAKTFLEKRYTEDMELDDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIG-IADENGFRRLDVATVRDHLSNI 218
           LKEGFEG+++++NIEIG I  +  FR L  A + D+L+ +
Sbjct: 195 LKEGFEGEISSKNIEIGKIGADKVFRVLTPAEIDDYLAEV 234

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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	352
157112080	233	proteasome subunit alpha type [Aedes aeg	0.619	0.935	0.794	1e-100
195391646	234	GJ24473 [Drosophila virilis] gi|19415255	0.622	0.935	0.781	2e-99
195110811	234	GI24829 [Drosophila mojavensis] gi|19391	0.622	0.935	0.786	2e-99
195055881	234	GH13898 [Drosophila grimshawi] gi|193892	0.622	0.935	0.786	3e-99
195500484	234	GE26194 [Drosophila yakuba] gi|194183494	0.622	0.935	0.790	3e-99
194901732	234	GG18927 [Drosophila erecta] gi|190652108	0.622	0.935	0.786	4e-99
389611553	233	proteasome 25kD subunit, partial [Papili	0.622	0.939	0.790	4e-99
17737927	234	proteasome 25kD subunit [Drosophila mela	0.622	0.935	0.790	5e-99
8394063	234	proteasome subunit alpha type-2 [Rattus	0.619	0.931	0.794	5e-99
378792303	234	Chain A, Mouse Constitutive 20s Proteaso	0.619	0.931	0.794	5e-99

>gi|157112080|ref|XP_001651784.1| proteasome subunit alpha type [Aedes aegypti] gi|108878177|gb|EAT42402.1| AAEL006061-PA [Aedes aegypti]

 Score =  372 bits (955), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 174/219 (79%), Positives = 199/219 (90%), Gaps = 1/219 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV AGAPSVGIKASNG+V+ATE KQK+IL+ E  +HKVE +T++IGM
Sbjct: 15  PSGKLVQIEYALAAVSAGAPSVGIKASNGVVIATENKQKSILYDEHSVHKVEMVTNHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           +YSGMGPDYRLLVK+ARKIAQ Y L Y+E IPT QLVQ++A +MQEYTQSGGVRPFGVSL
Sbjct: 75  IYSGMGPDYRLLVKQARKIAQNYYLTYREPIPTSQLVQKIANVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWD  RPYL+QCDPSGAYFAWKATAMG+N +NGKTFLEKRYSEDLELDDAVHTAILT
Sbjct: 135 LICGWDEGRPYLFQCDPSGAYFAWKATAMGKNAINGKTFLEKRYSEDLELDDAVHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKEGFEGQM A+NIE+GI D +GFRRL+ + V+D+L+NI
Sbjct: 195 LKEGFEGQMNADNIEVGICDASGFRRLNPSDVKDYLANI 233

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195391646|ref|XP_002054471.1| GJ24473 [Drosophila virilis] gi|194152557|gb|EDW67991.1| GJ24473 [Drosophila virilis]

 Score =  368 bits (945), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 172/220 (78%), Positives = 197/220 (89%), Gaps = 1/220 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           PSGKLVQ+EYALAAV  GAPSVGI ASNG+V+ATE K K+ L+E+  +H+VE +  +IGM
Sbjct: 15  PSGKLVQLEYALAAVSGGAPSVGIMASNGVVIATENKYKSSLYEEHSVHRVEMVNKHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYRLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRLLVKQARKIAQSYYLTYKEPIPVSQLVQRVATLMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWDN RPYLYQ DPSGAYFAWKATAMG+N VNGKTFLEKRYSEDLEL+DAVHTAILT
Sbjct: 135 LICGWDNDRPYLYQSDPSGAYFAWKATAMGKNAVNGKTFLEKRYSEDLELEDAVHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
           LKEGFEG+MT++NIE+GI D+NGF+RLD AT++D+L+NIP
Sbjct: 195 LKEGFEGKMTSDNIEVGICDQNGFKRLDPATIKDYLANIP 234

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195110811|ref|XP_001999973.1| GI24829 [Drosophila mojavensis] gi|193916567|gb|EDW15434.1| GI24829 [Drosophila mojavensis]

 Score =  368 bits (944), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 173/220 (78%), Positives = 197/220 (89%), Gaps = 1/220 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           PSGKLVQ+EYALAAV  GAPSVGI ASNG+V+ATE K K+ L+E+  +H+VE I  +IGM
Sbjct: 15  PSGKLVQLEYALAAVSGGAPSVGIMASNGVVIATENKYKSPLYEEHSVHRVEMINKHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYRLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRLLVKQARKIAQSYYLTYKEPIPVSQLVQRVATLMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWDN RPYLYQ DPSGAYFAWKATAMG+N VNGKTFLEKRYSEDLEL+DAVHTAILT
Sbjct: 135 LICGWDNDRPYLYQSDPSGAYFAWKATAMGKNAVNGKTFLEKRYSEDLELEDAVHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
           LKEGFEG+MT++NIE+GI D+NGF+RLD AT++D+L+NIP
Sbjct: 195 LKEGFEGKMTSDNIEVGICDQNGFKRLDPATIKDYLANIP 234

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195055881|ref|XP_001994841.1| GH13898 [Drosophila grimshawi] gi|193892604|gb|EDV91470.1| GH13898 [Drosophila grimshawi]

 Score =  368 bits (944), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 173/220 (78%), Positives = 197/220 (89%), Gaps = 1/220 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           PSGKLVQ+EYALAAV  GAPSVGI ASNG+V+ATE K K+ L+E+  +H+VE I  +IGM
Sbjct: 15  PSGKLVQLEYALAAVSGGAPSVGIMASNGVVIATENKYKSPLYEEHSVHRVEMINKHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYRLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRLLVKQARKIAQTYYLTYKEPIPVSQLVQRVATLMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWDN RPYLYQ DPSGAYFAWKATAMG+N VNGKTFLEKRYSEDLEL+DAVHTAILT
Sbjct: 135 LICGWDNDRPYLYQSDPSGAYFAWKATAMGKNAVNGKTFLEKRYSEDLELEDAVHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
           LKEGFEG+MT++NIE+GI D+NGF+RLD AT++D+L+NIP
Sbjct: 195 LKEGFEGKMTSDNIEVGICDQNGFKRLDPATIKDYLANIP 234

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195500484|ref|XP_002097393.1| GE26194 [Drosophila yakuba] gi|194183494|gb|EDW97105.1| GE26194 [Drosophila yakuba]

 Score =  367 bits (943), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 174/220 (79%), Positives = 197/220 (89%), Gaps = 1/220 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           PSGKLVQ+EYALAAV  GAPSVGI ASNG+V+ATE K K+ L+E+  +H+VE I  +IGM
Sbjct: 15  PSGKLVQLEYALAAVSGGAPSVGIMASNGVVIATENKHKSPLYEEHSVHRVEMIYKHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYRLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRLLVKQARKIAQTYYLTYKEPIPVSQLVQRVATLMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWDN RPYLYQ DPSGAYFAWKATAMG+N VNGKTFLEKRYSEDLELDDAVHTAILT
Sbjct: 135 LICGWDNDRPYLYQSDPSGAYFAWKATAMGKNAVNGKTFLEKRYSEDLELDDAVHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
           LKEGFEG+MTA+NIEIGI D+NGF+RLD A+++D+L++IP
Sbjct: 195 LKEGFEGKMTADNIEIGICDQNGFQRLDPASIKDYLASIP 234

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194901732|ref|XP_001980405.1| GG18927 [Drosophila erecta] gi|190652108|gb|EDV49363.1| GG18927 [Drosophila erecta]

 Score =  367 bits (942), Expect = 4e-99,   Method: Compositional matrix adjust.
 Identities = 173/220 (78%), Positives = 198/220 (90%), Gaps = 1/220 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
           PSGKLVQ+EYALAAV  GAPSVGI ASNG+V+ATE K K+ L+E+  +H+VE I ++IGM
Sbjct: 15  PSGKLVQLEYALAAVSGGAPSVGIMASNGVVIATENKHKSPLYEEHSVHRVEMIYNHIGM 74

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPD+RLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDFRLLVKQARKIAQTYYLTYKEPIPVSQLVQRVATLMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWDN RPYLYQ DPSGAYFAWKATAMG+N VNGKTFLEKRYSEDLELDDAVHTAILT
Sbjct: 135 LICGWDNDRPYLYQSDPSGAYFAWKATAMGKNAVNGKTFLEKRYSEDLELDDAVHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
           LKEGFEG+MTA+NIEIGI D+NGF+RLD A+++D+L++IP
Sbjct: 195 LKEGFEGKMTADNIEIGICDQNGFQRLDPASIKDYLASIP 234

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389611553|dbj|BAM19378.1| proteasome 25kD subunit, partial [Papilio xuthus]

 Score =  367 bits (942), Expect = 4e-99,   Method: Compositional matrix adjust.
 Identities = 174/220 (79%), Positives = 197/220 (89%), Gaps = 1/220 (0%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV AG  SVGIKASNG+V+ATE K K+IL+ E  ++KVE IT +IGM
Sbjct: 14  PSGKLVQIEYALAAVAAGGTSVGIKASNGVVIATENKHKSILYDEHSVNKVEMITGHIGM 73

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYRLLV +ARK+AQQY L+Y E IPT QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct: 74  VYSGMGPDYRLLVTRARKMAQQYYLMYHEPIPTAQLVQRVATVMQEYTQSGGVRPFGVSL 133

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWD  RPYL+QCDPSGAYFAWKATAMG+N+ NGKTFLEKRY+E+LELDDAVHTAILT
Sbjct: 134 LICGWDEGRPYLFQCDPSGAYFAWKATAMGKNFNNGKTFLEKRYTEELELDDAVHTAILT 193

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
           LKEGFEGQMTA+NIE+GI D NGFRRL+ + V+D+L+NIP
Sbjct: 194 LKEGFEGQMTADNIEVGICDANGFRRLEPSHVKDYLANIP 233

Source: Papilio xuthus

Species: Papilio xuthus

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17737927|ref|NP_524328.1| proteasome 25kD subunit [Drosophila melanogaster] gi|195329530|ref|XP_002031463.1| GM24033 [Drosophila sechellia] gi|195571423|ref|XP_002103702.1| GD18834 [Drosophila simulans] gi|730372|sp|P40301.1|PSA2_DROME RecName: Full=Proteasome subunit alpha type-2; AltName: Full=PROS-Dm25; AltName: Full=Proteasome 25 kDa subunit gi|397850|emb|CAA49783.1| proteasome, 25kDa subunit [Drosophila melanogaster] gi|7299630|gb|AAF54814.1| proteasome 25kD subunit [Drosophila melanogaster] gi|17861896|gb|AAL39425.1| GM13604p [Drosophila melanogaster] gi|194120406|gb|EDW42449.1| GM24033 [Drosophila sechellia] gi|194199629|gb|EDX13205.1| GD18834 [Drosophila simulans] gi|220943850|gb|ACL84468.1| Pros25-PA [synthetic construct] gi|220953688|gb|ACL89387.1| Pros25-PA [synthetic construct]

 Score =  367 bits (942), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 174/220 (79%), Positives = 197/220 (89%), Gaps = 1/220 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYRLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRLLVKQARKIAQTYYLTYKEPIPVSQLVQRVATLMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGWDN RPYLYQ DPSGAYFAWKATAMG+N VNGKTFLEKRYSEDLELDDAVHTAILT
Sbjct: 135 LICGWDNDRPYLYQSDPSGAYFAWKATAMGKNAVNGKTFLEKRYSEDLELDDAVHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
           LKEGFEG+MTA+NIEIGI D+NGF+RLD A+++D+L++IP
Sbjct: 195 LKEGFEGKMTADNIEIGICDQNGFQRLDPASIKDYLASIP 234

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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 =  367 bits (942), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 174/219 (79%), Positives = 197/219 (89%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    VRD+L+ I
Sbjct: 195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVRDYLAAI 233

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 =  367 bits (942), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 174/219 (79%), Positives = 197/219 (89%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    VRD+L+ I
Sbjct: 195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVRDYLAAI 233

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

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	352
ZFIN|ZDB-GENE-060503-941	234	si:rp71-45k5.4 "si:rp71-45k5.4	0.619	0.931	0.808	1.9e-92
ZFIN|ZDB-GENE-050522-479	234	psma2 "proteasome (prosome, ma	0.619	0.931	0.808	2.4e-92
UNIPROTKB|O73672	234	psma2 "Proteasome subunit alph	0.619	0.931	0.803	3.9e-92
UNIPROTKB|P24495	234	psma2 "Proteasome subunit alph	0.619	0.931	0.799	2.1e-91
FB|FBgn0086134	234	Prosalpha2 "Proteasome alpha2	0.622	0.935	0.790	2.7e-91
MGI|MGI:104885	234	Psma2 "proteasome (prosome, ma	0.619	0.931	0.789	2.7e-91
RGD|61842	234	Psma2 "proteasome (prosome, ma	0.619	0.931	0.789	2.7e-91
UNIPROTKB|Q3T0Y5	234	PSMA2 "Proteasome subunit alph	0.619	0.931	0.785	5.7e-91
UNIPROTKB|P25787	234	PSMA2 "Proteasome subunit alph	0.619	0.931	0.785	5.7e-91
UNIPROTKB|I3LAB6	234	LOC100620420 "Proteasome subun	0.619	0.931	0.785	5.7e-91

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

 Score = 921 (329.3 bits), Expect = 1.9e-92, P = 1.9e-92
 Identities = 177/219 (80%), Positives = 199/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LI GWD  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LIAGWDEDRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT +NIE+GI +E GFRRL  A V+D+L+ I
Sbjct:   195 LKESFEGQMTEDNIEVGICNEAGFRRLSPAEVKDYLAAI 233

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

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

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

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

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

 Score = 920 (328.9 bits), Expect = 2.4e-92, P = 2.4e-92
 Identities = 177/219 (80%), Positives = 199/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LI GWD  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LIAGWDEDRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT +NIE+GI +E GFRRL  A V+D+L+ I
Sbjct:   195 LKESFEGQMTEDNIEVGICNEAGFRRLTPAEVKDYLAAI 233

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

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

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

 Score = 918 (328.2 bits), Expect = 3.9e-92, P = 3.9e-92
 Identities = 176/219 (80%), Positives = 199/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVRRARKLAQQYFLVYQEPIPTGQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LI GWD  RPYL+Q DPSGAYFAWKATAMG++YVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LIAGWDEDRPYLFQSDPSGAYFAWKATAMGKSYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT ENIE+GI +E GFRRL  A V+D+L+ I
Sbjct:   195 LKESFEGQMTEENIEVGICNEAGFRRLSPAEVKDYLAAI 233

GO:0005839 "proteasome core complex" evidence=ISS

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

 Score = 911 (325.7 bits), Expect = 2.1e-91, P = 2.1e-91
 Identities = 175/219 (79%), Positives = 198/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV++ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVRRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LI GWD  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LIAGWDEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT +NIE+GI +E GF+RL  A V+D+L+ I
Sbjct:   195 LKESFEGQMTEDNIEVGICNEAGFKRLTPAEVKDYLAAI 233

GO:0005839 "proteasome core complex" evidence=ISS

FB|FBgn0086134 Prosalpha2 "Proteasome alpha2 subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 174/220 (79%), Positives = 197/220 (89%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYRLLVK+ARKIAQ Y L Y+E IP  QLVQRVA +MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRLLVKQARKIAQTYYLTYKEPIPVSQLVQRVATLMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LICGWDN RPYLYQ DPSGAYFAWKATAMG+N VNGKTFLEKRYSEDLELDDAVHTAILT
Sbjct:   135 LICGWDNDRPYLYQSDPSGAYFAWKATAMGKNAVNGKTFLEKRYSEDLELDDAVHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP 219
             LKEGFEG+MTA+NIEIGI D+NGF+RLD A+++D+L++IP
Sbjct:   195 LKEGFEGKMTADNIEIGICDQNGFQRLDPASIKDYLASIP 234

GO:0005839 "proteasome core complex" evidence=ISS

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

GO:0000502 "proteasome complex" evidence=NAS

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

GO:0006508 "proteolysis" evidence=NAS

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

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

GO:0009987 "cellular process" evidence=IMP

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0008283 "cell proliferation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

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

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 173/219 (78%), Positives = 198/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT +NIE+GI +E GFRRL    VRD+L+ I
Sbjct:   195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVRDYLAAI 233

GO:0000502 "proteasome complex" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IDA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

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

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

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 173/219 (78%), Positives = 198/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT +NIE+GI +E GFRRL    VRD+L+ I
Sbjct:   195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVRDYLAAI 233

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

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

GO:0005634 "nucleus" evidence=IEA

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

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

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

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

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

 Score = 907 (324.3 bits), Expect = 5.7e-91, P = 5.7e-91
 Identities = 172/219 (78%), Positives = 198/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT +NIE+GI +E GFRRL    V+D+L+ I
Sbjct:   195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI 233

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

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005634 "nucleus" evidence=IEA

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

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

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

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

 Score = 907 (324.3 bits), Expect = 5.7e-91, P = 5.7e-91
 Identities = 172/219 (78%), Positives = 198/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT +NIE+GI +E GFRRL    V+D+L+ I
Sbjct:   195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI 233

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 = 907 (324.3 bits), Expect = 5.7e-91, P = 5.7e-91
 Identities = 172/219 (78%), Positives = 198/219 (90%)

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

Query:    60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct:    75 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134

Query:   120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
             LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct:   135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194

Query:   180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             LKE FEGQMT +NIE+GI +E GFRRL    V+D+L+ I
Sbjct:   195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI 233

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

---

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)
Q8TYB7	PSA_METKA	3, ., 4, ., 2, 5, ., 1	0.3972	0.6193	0.8861	yes	N/A
O59219	PSA_PYRHO	3, ., 4, ., 2, 5, ., 1	0.4063	0.6079	0.8230	yes	N/A
P25156	PSA_THEAC	3, ., 4, ., 2, 5, ., 1	0.4147	0.6107	0.9227	yes	N/A
P40301	PSA2_DROME	3, ., 4, ., 2, 5, ., 1	0.7909	0.6221	0.9358	yes	N/A
P17220	PSA2_RAT	3, ., 4, ., 2, 5, ., 1	0.7945	0.6193	0.9316	yes	N/A
B0R2T2	PSA_HALS3	3, ., 4, ., 2, 5, ., 1	0.3693	0.6107	0.8498	yes	N/A
P25787	PSA2_HUMAN	3, ., 4, ., 2, 5, ., 1	0.7899	0.6193	0.9316	yes	N/A
O23708	PSA2A_ARATH	3, ., 4, ., 2, 5, ., 1	0.6227	0.6193	0.9276	yes	N/A
P24495	PSA2_XENLA	3, ., 4, ., 2, 5, ., 1	0.7990	0.6193	0.9316	N/A	N/A
Q8PTU1	PSA_METMA	3, ., 4, ., 2, 5, ., 1	0.3901	0.6136	0.8674	yes	N/A
C5A2C2	PSA_THEGJ	3, ., 4, ., 2, 5, ., 1	0.4109	0.6079	0.8230	yes	N/A
Q8L4A7	PSA2B_ARATH	3, ., 4, ., 2, 5, ., 1	0.6227	0.6193	0.9276	yes	N/A
O26782	PSA_METTH	3, ., 4, ., 2, 5, ., 1	0.3846	0.6193	0.8790	yes	N/A
Q54DM7	PSA2_DICDI	3, ., 4, ., 2, 5, ., 1	0.5799	0.6193	0.9396	yes	N/A
Q5JIU9	PSA_PYRKO	3, ., 4, ., 2, 5, ., 1	0.4072	0.6136	0.8307	yes	N/A
Q27488	PSA2_CAEEL	3, ., 4, ., 2, 5, ., 1	0.6227	0.6136	0.9350	yes	N/A
Q10KF0	PSA2_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.6318	0.6193	0.9276	yes	N/A
Q3T0Y5	PSA2_BOVIN	3, ., 4, ., 2, 5, ., 1	0.7899	0.6193	0.9316	yes	N/A
B6YSH9	PSA_THEON	3, ., 4, ., 2, 5, ., 1	0.3990	0.6051	0.8192	yes	N/A
P57697	PSA_HALSA	3, ., 4, ., 2, 5, ., 1	0.3693	0.6107	0.8498	yes	N/A
O73672	PSA2_CARAU	3, ., 4, ., 2, 5, ., 1	0.8036	0.6193	0.9316	N/A	N/A
P49722	PSA2_MOUSE	3, ., 4, ., 2, 5, ., 1	0.7945	0.6193	0.9316	yes	N/A
P23639	PSA2_YEAST	3, ., 4, ., 2, 5, ., 1	0.5951	0.5710	0.804	yes	N/A
O94579	PSA2_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5948	0.6193	0.8897	yes	N/A
Q8U0L6	PSA_PYRFU	3, ., 4, ., 2, 5, ., 1	0.4155	0.6079	0.8230	yes	N/A

EC Number Prediction by EFICAz Software

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	352
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	1e-141
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-103
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	4e-74
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	1e-70
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	1e-69
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	2e-64
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	8e-61
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	2e-57
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	5e-57
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	1e-55
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	1e-47
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	9e-47
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	3e-46
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	5e-45
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	1e-44
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	2e-44
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-37
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	3e-36
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	2e-25
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	5e-24
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	6e-24
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	1e-23
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	6e-23
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	3e-22
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	8e-22
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	3e-21
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	4e-20
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	9e-20
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	1e-19
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	1e-18
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	5e-18
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	8e-18
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	2e-16
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	7e-14
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	8e-09
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	2e-06
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	2e-04
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	3e-04
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	7e-04
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	7e-04
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	0.002

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  399 bits (1028), Expect = e-141
 Identities = 160/218 (73%), Positives = 186/218 (85%), Gaps = 2/218 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPD+R+LVKKARKIAQQY LVY E IP  QLV+ +A++MQEYTQSGGVRPFGVSL
Sbjct: 70  VYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSL 129

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI GWD   PYLYQ DPSG+YF WKATA+G+NY N KTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 130 LIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAILT 189

Query: 180 LKEGFEGQMTAENIEIGIA-DENGFRRLDVATVRDHLS 216
           LKEGFEGQMT +NIEIGI  +  GFR L  A ++D+L+
Sbjct: 190 LKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYLA 227

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

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

 Score =  301 bits (773), Expect = e-103
 Identities = 101/199 (50%), Positives = 134/199 (67%), Gaps = 2/199 (1%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             +G+  D R+LV +AR  AQ Y+  Y E IP + LV+R+A + Q YTQ GGVRPFGVSL
Sbjct: 70  AVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSL 129

Query: 120 LICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
           LI G+D +  P LYQ DPSG YF +KATA+G+     KTFLEKRY +DL L++A+  A+ 
Sbjct: 130 LIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALK 189

Query: 179 TLKEGFEGQMTAENIEIGI 197
            LKE  E    A+NIEI +
Sbjct: 190 ALKEVLEEDKKAKNIEIAV 208

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

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

 Score =  228 bits (585), Expect = 4e-74
 Identities = 95/225 (42%), Positives = 138/225 (61%), Gaps = 7/225 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             +G+  D R+L+ +AR  AQ  +L Y E I  + L +++    Q+YTQ GGVRPFGV+L
Sbjct: 79  ASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVAL 138

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAI 177
           LI G D+  P L++ DPSGAY  +KATA+G  R+ V    FLEK Y EDL L++A+  A+
Sbjct: 139 LIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVM--EFLEKNYKEDLSLEEAIELAL 196

Query: 178 LTLKEGFEGQMTAENIEIGIAD--ENGFRRLDVATVRDHLSNIPQ 220
             L +  EG++  EN+EI   D     FR+L V  +  +L  + +
Sbjct: 197 KALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKLLK 241

Length = 241

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

 Score =  219 bits (560), Expect = 1e-70
 Identities = 92/211 (43%), Positives = 128/211 (60%), Gaps = 3/211 (1%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R+L+ +AR  AQ  +L Y E I  + L +++  + Q+YTQ GGVRPFGV+L
Sbjct: 72  ATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVAL 131

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G D+  P L++ DPSGA   +KATA+G        FLEK Y EDL LD+A+  A+  
Sbjct: 132 LIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKA 191

Query: 180 LKEGFEGQMTAENIEIGIADENG--FRRLDV 208
           L    E ++T EN+E+         FR+L V
Sbjct: 192 LYSAVEDKLTPENVEVAYITVEDKKFRKLSV 222

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

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score =  216 bits (553), Expect = 1e-69
 Identities = 87/201 (43%), Positives = 124/201 (61%), Gaps = 1/201 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R+L+ +AR  AQ ++L Y E I  + LV+++  + Q+YTQ GGVRPFGV+L
Sbjct: 71  ATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVAL 130

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G D+  P L++ DPSGAY  +KATA+G        FLEK Y ED+ L++A+  A+  
Sbjct: 131 LIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKA 190

Query: 180 LKEGFEGQMTAENIEIGIADE 200
           L    E   T EN+EI     
Sbjct: 191 LYAALEENETPENVEIAYVTV 211

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

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

 Score =  204 bits (520), Expect = 2e-64
 Identities = 90/223 (40%), Positives = 134/223 (60%), Gaps = 7/223 (3%)

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  GMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGV 117
           GM  +G+  D ++LV+ AR  AQ Y+L Y E I  + L + ++ I+QEYTQS   RP+GV
Sbjct: 72  GMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGV 129

Query: 118 SLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
           SLL+ G D+  P LY  DPSG+Y  +KATA+G        FLEK Y EDL L++A+  A+
Sbjct: 130 SLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAV 189

Query: 178 LTLKEGFE-GQMTAENIEIGIAD-ENGFRRLDVATVRDHLSNI 218
             L+   E    +   IE+ +   + GFR+LD   ++  L ++
Sbjct: 190 KALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDL 232

Length = 236

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

 Score =  193 bits (492), Expect = 8e-61
 Identities = 78/188 (41%), Positives = 111/188 (59%), Gaps = 6/188 (3%)

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  VKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPY 130
           V  AR  AQ Y+L Y   I  + L +R+A  +Q YTQ  G RP+GVSLLI G+D    P+
Sbjct: 61  VDYARAEAQLYRLRYGRPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPH 119

Query: 131 LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MT 189
           LY  DPSG+   +KATA+G        FLEK Y  D+ L++AV  A+  LKE  E   ++
Sbjct: 120 LYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDALS 179

Query: 190 AENIEIGI 197
             NIE+ +
Sbjct: 180 GGNIEVAV 187

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 =  184 bits (470), Expect = 2e-57
 Identities = 79/199 (39%), Positives = 120/199 (60%), Gaps = 4/199 (2%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
            ++G+  D R+L+ +AR   Q ++L  ++ +  + + + +A + Q YTQSGGVRPFG+S 
Sbjct: 70  AFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGIST 129

Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
           LI G+D +  P LYQ DPSG Y AWKA A+GRN    + FLEK Y E++  DD +  AI 
Sbjct: 130 LIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIK 189

Query: 179 TLKEGFEGQMTAENIEIGI 197
            L E    Q  ++NIE+ +
Sbjct: 190 ALLEVV--QSGSKNIELAV 206

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|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  184 bits (468), Expect = 5e-57
 Identities = 85/201 (42%), Positives = 121/201 (60%), Gaps = 4/201 (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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
              +G+  D  +L+  AR IAQ+Y   YQE IP +QLVQR+  I Q YTQ GG+RPFGVS
Sbjct: 72  CAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVS 131

Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            L  GWD    + LYQ DPSG Y  WKATA+G N    ++ L++ Y +D+ L++A+  A+
Sbjct: 132 FLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEALALAV 191

Query: 178 LTLKEGFEG-QMTAENIEIGI 197
             L +  +  ++T+E +E   
Sbjct: 192 KVLSKTMDSTKLTSEKLEFAT 212

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|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  179 bits (457), Expect = 1e-55
 Identities = 71/181 (39%), Positives = 107/181 (59%), Gaps = 6/181 (3%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
           AQ Y+L Y E IP + L + +A ++ EYTQS  +RP GVSLL+ G D +  P LY  DPS
Sbjct: 63  AQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPS 120

Query: 138 GAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQM-TAENIEIG 196
           G+Y  +KATA+G         LEK Y  D+ L++A+  A+  LK   E  + +  NIE+ 
Sbjct: 121 GSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIEVA 180

Query: 197 I 197
           +
Sbjct: 181 V 181

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|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  160 bits (406), Expect = 1e-47
 Identities = 56/75 (74%), Positives = 63/75 (84%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E IP  QLV+ +A++MQEYTQSGGVRPFGVSLLI GWD   PYLYQ DPSG+YF WKATA
Sbjct: 98  EPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATA 157

Query: 320 MGRNYVNGKTFLEKR 334
           +G+NY N KTFLEKR
Sbjct: 158 IGKNYSNAKTFLEKR 172

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|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score =  157 bits (399), Expect = 9e-47
 Identities = 74/203 (36%), Positives = 119/203 (58%), Gaps = 9/203 (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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D R+L +  R+    Y+ VY   IP  +LV +VA   Q  TQ  G RP+GV 
Sbjct: 67  IAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVG 126

Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS--EDLELDDAVHTA 176
           LLI G+D   P+L+Q  PSG YF +KAT++G    + +T+LE+ +   ED  L++ +  A
Sbjct: 127 LLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHA 186

Query: 177 ILTLKEGF--EGQMTAENIEIGI 197
           +  L+E    E ++T +N+ I I
Sbjct: 187 LRALRETLPGEQELTIKNVSIAI 209

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

>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score =  156 bits (396), Expect = 3e-46
 Identities = 67/177 (37%), Positives = 98/177 (55%), Gaps = 7/177 (3%)

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  IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFG 116
           IG+  +G+  D R LV +AR+ A+ Y+  Y   IP + L  RVA  M  YT    VRPFG
Sbjct: 70  IGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFG 129

Query: 117 VSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAV 173
            S+L+ G+D+  P LY  +PSG  + +   A+G+     KT LEK    +L   +AV
Sbjct: 130 CSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELTCREAV 186

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

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score =  153 bits (388), Expect = 5e-45
 Identities = 73/205 (35%), Positives = 108/205 (52%), Gaps = 7/205 (3%)

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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            V +GM  D R  V++AR  A ++K  Y   +P   L +R+A I Q YTQ   +RP GVS
Sbjct: 71  CVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVS 130

Query: 119 LLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSED----LELDDAV 173
           +++ G D    P LY+CDP+G +  +KATA G        FLEK+  +        ++ V
Sbjct: 131 MILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETV 190

Query: 174 HTAILTLKEGFEGQMTAENIEIGIA 198
             AI  L+        A  IE+G+ 
Sbjct: 191 ELAISCLQTVLSTDFKATEIEVGVV 215

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

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score =  152 bits (385), Expect = 1e-44
 Identities = 68/201 (33%), Positives = 114/201 (56%), Gaps = 6/201 (2%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGV-----RP 114
             SG+  D R L+  AR  AQ ++  Y E +  + + Q V+ +  ++ +         RP
Sbjct: 70  AMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRP 129

Query: 115 FGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH 174
           FGV+LLI G D   P L+  DPSG +    A A+G      ++ L+++Y +D+ L++A  
Sbjct: 130 FGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEK 189

Query: 175 TAILTLKEGFEGQMTAENIEI 195
            A+  LK+  E ++ + N+E+
Sbjct: 190 LALSILKQVMEEKLNSTNVEL 210

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

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

 Score =  152 bits (386), Expect = 2e-44
 Identities = 74/201 (36%), Positives = 112/201 (55%), Gaps = 4/201 (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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
              +G+  D  +L+ + R  AQ+Y+  Y E  P +QLV ++  + Q YTQ GG+RPFGVS
Sbjct: 74  CAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVS 133

Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            L  G+D    Y LY  DPSG Y  WKATA+G+N    ++ L++ + EDL L+  +  A 
Sbjct: 134 FLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAA 193

Query: 178 LTLKEGFEGQM-TAENIEIGI 197
             L +  +     A+ IE+GI
Sbjct: 194 KVLTKSMDSTSPKADKIEVGI 214

Length = 253

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

 Score =  133 bits (338), Expect = 1e-37
 Identities = 47/76 (61%), Positives = 56/76 (73%), Gaps = 1/76 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E IP + LV+R+A + Q YTQ GGVRPFGVSLLI G+D +  P LYQ DPSG YF +KAT
Sbjct: 98  EPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKAT 157

Query: 319 AMGRNYVNGKTFLEKR 334
           A+G+     KTFLEKR
Sbjct: 158 AIGKGSQEAKTFLEKR 173

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|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 =  128 bits (324), Expect = 3e-36
 Identities = 58/165 (35%), Positives = 83/165 (50%), Gaps = 6/165 (3%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG 138
            Q Y+L Y E I    L + +A ++Q YTQ    RPFGV+L++ G D     LY  DPSG
Sbjct: 63  LQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDEGGGNLYYIDPSG 119

Query: 139 AYFAW-KATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKE 182
                  A A G      K+ LEK Y  D+ L++AV  A+  LK 
Sbjct: 120 PVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALKS 164

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

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  101 bits (253), Expect = 2e-25
 Identities = 47/90 (52%), Positives = 55/90 (61%), Gaps = 2/90 (2%)

Query: 237 MTAE-NIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICG 295
           +T++ NI I  A     R L    E IP +QLVQR+  I Q YTQ GG+RPFGVS L  G
Sbjct: 77  ITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAG 136

Query: 296 WDNKRPY-LYQCDPSGAYFAWKATAMGRNY 324
           WD    + LYQ DPSG Y  WKATA+G N 
Sbjct: 137 WDKHYGFQLYQSDPSGNYSGWKATAIGNNN 166

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

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

 Score = 98.4 bits (246), Expect = 5e-24
 Identities = 39/76 (51%), Positives = 51/76 (67%), Gaps = 4/76 (5%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E I  + L +++    Q+YTQ GGVRPFGV+LLI G D+  P L++ DPSGAY  +KATA
Sbjct: 107 EPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATA 166

Query: 320 MG--RNYVNGKTFLEK 333
           +G  R+ V    FLEK
Sbjct: 167 IGAGRDTVM--EFLEK 180

Length = 241

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 97.4 bits (243), Expect = 6e-24
 Identities = 38/74 (51%), Positives = 50/74 (67%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E I  + LV+++  + Q+YTQ GGVRPFGV+LLI G D+  P L++ DPSGAY  +KATA
Sbjct: 99  EPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATA 158

Query: 320 MGRNYVNGKTFLEK 333
           +G        FLEK
Sbjct: 159 IGSGRQAVTEFLEK 172

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|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score = 96.3 bits (240), Expect = 1e-23
 Identities = 45/82 (54%), Positives = 55/82 (67%), Gaps = 4/82 (4%)

Query: 254 RLDVATENIPTQQLVQR-VAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGA 311
           RL V  E+  T + + R +A + Q YTQSGGVRPFG+S LI G+D +  P LYQ DPSG 
Sbjct: 93  RLTV--EDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGT 150

Query: 312 YFAWKATAMGRNYVNGKTFLEK 333
           Y AWKA A+GRN    + FLEK
Sbjct: 151 YSAWKANAIGRNSKTVREFLEK 172

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

 Score = 95.0 bits (237), Expect = 6e-23
 Identities = 36/74 (48%), Positives = 48/74 (64%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E I  + L +++  + Q+YTQ GGVRPFGV+LLI G D+  P L++ DPSGA   +KATA
Sbjct: 100 EPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATA 159

Query: 320 MGRNYVNGKTFLEK 333
           +G        FLEK
Sbjct: 160 IGAGRQAVTEFLEK 173

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|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit

 Score = 91.9 bits (229), Expect = 3e-22
 Identities = 55/199 (27%), Positives = 93/199 (46%), Gaps = 27/199 (13%)

Query: 22  VGIKASNGIVLATEKK--------QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVK 73
           VGI   +G+VLA +K+         K +       K+  I D I M  +G   D + LV+
Sbjct: 4   VGIVCKDGVVLAADKRASMGNFIASKNV------KKIFQIDDKIAMTIAGSVGDAQSLVR 57

Query: 74  KARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQ 133
             +  A+ Y+L     +  + L   ++ I+     S    P+ V LLI G D + P+LY 
Sbjct: 58  ILKAEARLYELRRGRPMSIKALATLLSNIL----NSSKYFPYIVQLLIGGVDEEGPHLYS 113

Query: 134 CDPSGAYFAWKATAMGRNYVNGKTF----LEKRYSEDLELDDAVHTAILTLKEGFEGQM- 188
            DP G+    K TA G    +G  +    LE  Y ED+ +++A   AI  +K   E    
Sbjct: 114 LDPLGSIIEDKYTATG----SGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSA 169

Query: 189 TAENIEIGIADENGFRRLD 207
           + + I++ +  ++G++ L+
Sbjct: 170 SGDGIDVVVITKDGYKELE 188

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|215805 pfam00227, Proteasome, Proteasome subunit

 Score = 91.1 bits (227), Expect = 8e-22
 Identities = 35/76 (46%), Positives = 45/76 (59%), Gaps = 2/76 (2%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKAT 318
             I  + L +R+A  +Q YTQ  G RP+GVSLLI G+D    P+LY  DPSG+   +KAT
Sbjct: 77  RPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHLYSIDPSGSVIEYKAT 135

Query: 319 AMGRNYVNGKTFLEKR 334
           A+G        FLEK 
Sbjct: 136 AIGSGSQYAYGFLEKL 151

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|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score = 89.5 bits (223), Expect = 3e-21
 Identities = 35/76 (46%), Positives = 46/76 (60%), Gaps = 3/76 (3%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E IP + L + +A ++ EYTQS  +RP GVSLL+ G D +  P LY  DPSG+Y  +KAT
Sbjct: 72  EPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKAT 129

Query: 319 AMGRNYVNGKTFLEKR 334
           A+G         LEK 
Sbjct: 130 AIGSGSQYALGILEKL 145

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|238893 cd01912, proteasome_beta, proteasome beta subunit

 Score = 86.3 bits (215), Expect = 4e-20
 Identities = 43/192 (22%), Positives = 85/192 (44%), Gaps = 14/192 (7%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
            + Y+L     +  +     ++ I+  Y +     P+ VSL++ G D    P+LY  DP 
Sbjct: 63  LRLYELRNGRELSVKAAANLLSNILYSY-RGF---PYYVSLIVGGVDKGGGPFLYYVDPL 118

Query: 138 GAYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTA-ENIE 194
           G+       A G    Y      L++ Y  D+ L++AV      +    E  +++   ++
Sbjct: 119 GSLIEAPFVATGSGSKY--AYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVD 176

Query: 195 IGIADENGFRRL 206
           + +  ++G   L
Sbjct: 177 VAVITKDGVEEL 188

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

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

 Score = 85.3 bits (212), Expect = 9e-20
 Identities = 55/193 (28%), Positives = 89/193 (46%), Gaps = 15/193 (7%)

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

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCD 135
           +  A+ Y+L     +  + L   ++ I+     S    PF V LL+ G D + P+LY  D
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNILN----SNRFFPFIVQLLVGGVDEEGPHLYSLD 116

Query: 136 PSGAYFAWKATAMGRNYVNGKTF----LEKRYSEDLELDDAVHTAILTLKEGFE-GQMTA 190
           P+G       TA G    +G       LE  Y ED+ +++A   A+  +K   E    + 
Sbjct: 117 PAGGIIEDDYTATG----SGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASG 172

Query: 191 ENIEIGIADENGF 203
             I++ +  ++G 
Sbjct: 173 NGIDVAVITKDGV 185

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

 Score = 86.2 bits (214), Expect = 1e-19
 Identities = 36/77 (46%), Positives = 48/77 (62%), Gaps = 2/77 (2%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E I  + L + ++ I+QEYTQS   RP+GVSLL+ G D+  P LY  DPSG+Y  +KATA
Sbjct: 102 EPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATA 159

Query: 320 MGRNYVNGKTFLEKREK 336
           +G        FLEK  +
Sbjct: 160 IGSGSQFAYGFLEKEYR 176

Length = 236

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

 Score = 83.7 bits (207), Expect = 1e-18
 Identities = 36/75 (48%), Positives = 48/75 (64%), Gaps = 1/75 (1%)

Query: 263 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMG 321
           P +QLV ++  + Q YTQ GG+RPFGVS L  G+D    Y LY  DPSG Y  WKATA+G
Sbjct: 106 PVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIG 165

Query: 322 RNYVNGKTFLEKREK 336
           +N    ++ L++  K
Sbjct: 166 QNNQTAQSILKQEWK 180

Length = 253

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score = 81.2 bits (201), Expect = 5e-18
 Identities = 35/78 (44%), Positives = 48/78 (61%)

Query: 257 VATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK 316
           V    IP  +LV +VA   Q  TQ  G RP+GV LLI G+D   P+L+Q  PSG YF +K
Sbjct: 93  VYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYK 152

Query: 317 ATAMGRNYVNGKTFLEKR 334
           AT++G    + +T+LE+ 
Sbjct: 153 ATSIGARSQSARTYLERH 170

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|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score = 80.4 bits (199), Expect = 8e-18
 Identities = 31/74 (41%), Positives = 41/74 (55%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             IP + L  RVA  M  YT    VRPFG S+L+ G+D+  P LY  +PSG  + +   A
Sbjct: 101 TPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCA 160

Query: 320 MGRNYVNGKTFLEK 333
           +G+     KT LEK
Sbjct: 161 IGKGKQAAKTELEK 174

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

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score = 76.5 bits (189), Expect = 2e-16
 Identities = 33/77 (42%), Positives = 45/77 (58%), Gaps = 1/77 (1%)

Query: 261 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATA 319
            +P   L +R+A I Q YTQ   +RP GVS+++ G D    P LY+CDP+G +  +KATA
Sbjct: 101 EMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATA 160

Query: 320 MGRNYVNGKTFLEKREK 336
            G        FLEK+ K
Sbjct: 161 AGVKEQEATNFLEKKLK 177

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|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 = 7e-14
 Identities = 30/78 (38%), Positives = 38/78 (48%), Gaps = 4/78 (5%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAW-KAT 318
           E I    L + +A ++Q YTQ    RPFGV+L++ G D     LY  DPSG       A 
Sbjct: 72  EPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAV 128

Query: 319 AMGRNYVNGKTFLEKREK 336
           A G      K+ LEK  K
Sbjct: 129 ATGSRSQRAKSLLEKLYK 146

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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 54.7 bits (132), Expect = 8e-09
 Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 5/67 (7%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGV-----RPFGVSLLICGWDNKRPYLYQCDPSGAYFA 314
           E +  + + Q V+ +  ++ +         RPFGV+LLI G D   P L+  DPSG +  
Sbjct: 98  EPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTR 157

Query: 315 WKATAMG 321
             A A+G
Sbjct: 158 CDAKAIG 164

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|239732 cd03763, proteasome_beta_type_7, proteasome beta type-7 subunit

 Score = 47.6 bits (114), Expect = 2e-06
 Identities = 17/58 (29%), Positives = 27/58 (46%)

Query: 116 GVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAV 173
           G +L++ G D   P+LY   P G+        MG   +   + LE RY  D+  ++A 
Sbjct: 95  GAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAK 152

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

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

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 47/205 (22%), Positives = 86/205 (41%), Gaps = 32/205 (15%)

Query: 21  SVGIKASNGIVLATEKKQKT--ILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
            +GIK  + ++LA +       ++ +D   K+  ++D+  M  SG   D     +  +K 
Sbjct: 4   LIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKN 63

Query: 79  AQQYKLVYQENIPTQQLVQRVAA-----IMQEYTQSGGVRPFGVSLLICGWDNK-RPYLY 132
            Q YK   +       L  + AA      + E  +S    P+ V+LL+ G+D    P LY
Sbjct: 64  IQLYK--MRNGYE---LSPKAAANFTRRELAESLRSRT--PYQVNLLLAGYDKVEGPSLY 116

Query: 133 QCDPSGAYFA------WKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT---AILTLKEG 183
             D    Y        + A   G  +      L++ Y  D+ +++A+      I  LK+ 
Sbjct: 117 YID----YLGTLVKVPYAAHGYGAYFCLS--ILDRYYKPDMTVEEALELMKKCIKELKKR 170

Query: 184 FEGQMTAENIEIGIADENGFRRLDV 208
           F   +   N  + + D++G R L++
Sbjct: 171 F--IINLPNFTVKVVDKDGIRDLEL 193

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

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

 Score = 40.9 bits (97), Expect = 3e-04
 Identities = 19/79 (24%), Positives = 28/79 (35%), Gaps = 21/79 (26%)

Query: 264 TQQLVQRVAAIMQEYTQSGGVR--------------------PFGVSLLICGWDNKR-PY 302
           TQ L + +   ++ Y    G                      P+ VSL++ G D    P+
Sbjct: 52  TQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPF 111

Query: 303 LYQCDPSGAYFAWKATAMG 321
           LY  DP G+       A G
Sbjct: 112 LYYVDPLGSLIEAPFVATG 130

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

>gnl|CDD|239726 cd03757, proteasome_beta_type_1, proteasome beta type-1 subunit

 Score = 39.9 bits (94), Expect = 7e-04
 Identities = 40/173 (23%), Positives = 72/173 (41%), Gaps = 25/173 (14%)

Query: 49  KVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
           K+  +TD   +  SG   D   L K+ +   + YK  + + + T+ + Q ++ I+  Y++
Sbjct: 41  KIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTIL--YSR 98

Query: 109 SGGVR--PFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGR----------NYVNG 155
               R  P+ V  ++ G D + +  +Y  DP G+Y     +A G           N V  
Sbjct: 99  ----RFFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGR 154

Query: 156 KTFLEKRYSEDLELDDA---VHTAILTLKEGFEGQMTAENIEIGIADENGFRR 205
           K          L L++A   V  A  +  E      T +++EI I  ++G   
Sbjct: 155 KNQNNVE-RTPLSLEEAVSLVKDAFTSAAE--RDIYTGDSLEIVIITKDGIEE 204

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|239730 cd03761, proteasome_beta_type_5, proteasome beta type-5 subunit

 Score = 39.9 bits (94), Expect = 7e-04
 Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 16/98 (16%)

Query: 47  IHKVEPITDYIGMVYSGMGPD----YRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAI 102
           + KV  I  Y+    +G   D     R+L ++ R     Y+L  +E I      + ++ +
Sbjct: 31  VKKVIEINPYLLGTMAGGAADCQYWERVLGRECR----LYELRNKERISVAAASKLLSNM 86

Query: 103 MQEYTQSGGVRPFGVSL--LICGWDNKRPYLYQCDPSG 138
           + +Y      +  G+S+  +ICGWD   P LY  D  G
Sbjct: 87  LYQY------KGMGLSMGTMICGWDKTGPGLYYVDSDG 118

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

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

 Score = 39.2 bits (91), Expect = 0.002
 Identities = 35/159 (22%), Positives = 61/159 (38%), Gaps = 10/159 (6%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G  ++  K   GI++A + K      +    + KV  I   +    +G   D     ++ 
Sbjct: 39  GTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL 98

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL--LICGWDNKRPYLYQ 133
               + Y+L   E I      + +A I+  Y      +  G+S+  +ICGWD K P L+ 
Sbjct: 99  AMQCRLYELRNGELISVAAASKILANIVWNY------KGMGLSMGTMICGWDKKGPGLFY 152

Query: 134 CDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
            D  G        + G         L+  +  DL  ++A
Sbjct: 153 VDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEA 191

Length = 247

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	352
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
KOG0176|consensus	241		100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
KOG0178|consensus	249		100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
KOG0183|consensus	249		100.0
KOG0184|consensus	254		100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
KOG0181|consensus	233		100.0
KOG0182|consensus	246		100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
KOG0863|consensus	264		100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
KOG0177|consensus	200		100.0
KOG0174|consensus	224		100.0
KOG0175|consensus	285		100.0
KOG0173|consensus	271		100.0
KOG0179|consensus	235		100.0
KOG0185|consensus	256		100.0
KOG0181|consensus	233		99.97
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.97
KOG0180|consensus	204		99.97
KOG0183|consensus	249		99.97
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.96
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.96
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.96
KOG0178|consensus	249		99.96
KOG0176|consensus	241		99.96
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	99.95
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	99.95
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	99.95
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	99.94
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	99.94
KOG0863|consensus	264		99.94
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	99.94
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	99.94
KOG0182|consensus	246		99.93
PTZ00246	253	proteasome subunit alpha; Provisional	99.93
KOG0184|consensus	254		99.93
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	99.93
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	99.92
PRK03996	241	proteasome subunit alpha; Provisional	99.92
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	99.92
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	99.92
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	99.92
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	99.91
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	99.91
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	99.91
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	99.91
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	99.9
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	99.9
KOG0175|consensus	285		99.9
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	99.9
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	99.9
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	99.89
PTZ00488	247	Proteasome subunit beta type-5; Provisional	99.89
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	99.89
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	99.88
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	99.87
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	99.87
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	99.87
KOG0173|consensus	271		99.74
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.74
KOG0179|consensus	235		99.63
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.47
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.46
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.45
KOG0174|consensus	224		99.43
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.35
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.35
KOG0177|consensus	200		99.27
KOG0180|consensus	204		99.14
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	98.53
KOG0185|consensus	256		98.2
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	96.25
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	95.25
COG4079	293	Uncharacterized protein conserved in archaea [Func	92.46
COG3484	255	Predicted proteasome-type protease [Posttranslatio	91.61

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=3.8e-55  Score=396.43  Aligned_cols=215  Identities=75%  Similarity=1.171  Sum_probs=209.2

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|++.++++. +++.+||++|++|++|+++|+.+|++.+.++++.++
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            9999999999999999999999999999999999999997777 788999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|++.++++++++.++++|++++|.|+++++.|||+|++||+|||++||+||.+||+|++.+++++|+|+|+..++++|
T Consensus        90 ~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~L  169 (227)
T cd03750          90 QQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFL  169 (227)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCCCCEEEEECCCCCEEeeeEEEECCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999998899999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCC-CeEEcChhHHHHHH
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADEN-GFRRLDVATVRDHL  215 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~-g~~~l~~~ei~~~l  215 (352)
                      |++|+++||++||++++++||+.+.++++++.+++|++|+++ |++.++++||++++
T Consensus       170 e~~~~~~ms~eeai~l~~~~l~~~~~~~l~~~~iev~iv~~~~~~~~~~~~ei~~~~  226 (227)
T cd03750         170 EKRYNEDLELEDAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYL  226 (227)
T ss_pred             HhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCEEECCHHHHHHHh
Confidence            999999999999999999999999998899999999999985 79999999999876

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

>KOG0176|consensus

Probab=100.00  E-value=4.1e-55  Score=366.89  Aligned_cols=218  Identities=33%  Similarity=0.601  Sum_probs=209.3

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|++.|+|.|||+.++||||+++||.+++++ ++..+||++|++||+|++||+.+|++.+++++|.++
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             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC-----CccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCch
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG-----VRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVN  154 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~-----~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~  154 (352)
                      ++|++.||++++++.+++.++++.-.|.....     .|||||++|+||+|++||+||+.||+|++.+|++-|+|+|+.-
T Consensus        97 qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~gpqL~h~dPSGtf~~~~AKAIGSgsEg  176 (241)
T KOG0176|consen   97 QNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDETGPQLYHLDPSGTFIRYKAKAIGSGSEG  176 (241)
T ss_pred             hhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCCCceEEEeCCCCceEEecceeccccchH
Confidence            99999999999999999999999977765422     4999999999999999999999999999999999999999999


Q ss_pred             hHHHHHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC-eEEcChhHHHHHHhhC
Q psy2869         155 GKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG-FRRLDVATVRDHLSNI  218 (352)
Q Consensus       155 ~~~~Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g-~~~l~~~ei~~~l~~i  218 (352)
                      +.+.|++.|+++|+++||+.+++..|+.+++..++.+|++|++|++.| |++++++|+++++.++
T Consensus       177 a~~~L~~e~~~~ltL~ea~~~~L~iLkqVMeeKl~~~Nvev~~vt~e~~f~~~t~EE~~~~i~~~  241 (241)
T KOG0176|consen  177 AESSLQEEYHKDLTLKEAEKIVLKILKQVMEEKLNSNNVEVAVVTPEGEFHIYTPEEVEQVIKRL  241 (241)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHhcCccceEEEEEcccCceEecCHHHHHHHHhcC
Confidence            999999999999999999999999999999988999999999999885 9999999999988653

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=4.9e-54  Score=395.15  Aligned_cols=222  Identities=34%  Similarity=0.599  Sum_probs=213.4

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.+++++  .++.+|||+|+++++|+++|..+|++.+.+.++.+
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            9999999999999999999999999999999999999999988  45689999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|++.++.+++++.+++.++..+|.|++++++|||+|++||||||+ +||+||.+||+|++.+++++|+|+|+.++++
T Consensus        94 ~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~~~~~~~a~G~gs~~~~~  173 (253)
T PTZ00246         94 AQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQS  173 (253)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECCCCCEecceEEEECCCcHHHHH
Confidence            999999999999999999999999999999999999999999999996 5899999999999999999999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC------eEEcChhHHHHHHhhCccch
Q psy2869         158 FLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENG------FRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       158 ~Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g------~~~l~~~ei~~~l~~i~~~~  222 (352)
                      +||+.|+++|+++||++++++||..+.+++ .++++++|++|+++|      +++++++||+++++++....
T Consensus       174 ~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l~~~ei~~~l~~~~~~~  245 (253)
T PTZ00246        174 ILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAELLKKVTQEY  245 (253)
T ss_pred             HHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEECCHHHHHHHHHHHhhhh
Confidence            999999999999999999999999999999 899999999998764      89999999999999986544

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=4e-53  Score=386.67  Aligned_cols=218  Identities=42%  Similarity=0.698  Sum_probs=211.3

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|++.++++. .++.+||++|+++++|++||..+|++.++++++.++
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 788999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++.+++++.+++++++.+|.|+++++.|||+|++||||||++||+||.+||+|++.+++++|+|.|+..++++|
T Consensus        99 ~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L  178 (241)
T PRK03996         99 QINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFL  178 (241)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCCcCEEEEECCCCCeecceEEEECCCcHHHHHHH
Confidence            99999999999999999999999999999999999999999999998899999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC--eEEcChhHHHHHHhhC
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG--FRRLDVATVRDHLSNI  218 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g--~~~l~~~ei~~~l~~i  218 (352)
                      |+.|+++|+++||++++++||..+.+++.++++++|++++++|  ++.++++|++++++++
T Consensus       179 e~~~~~~~s~eeai~l~~~al~~~~~~~~~~~~i~i~ii~~~~~~~~~~~~~ei~~~~~~~  239 (241)
T PRK03996        179 EKNYKEDLSLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKL  239 (241)
T ss_pred             HHhcccCCCHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCcEEECCHHHHHHHHHHh
Confidence            9999999999999999999999998866889999999999887  9999999999998875

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=3.6e-52  Score=376.41  Aligned_cols=209  Identities=44%  Similarity=0.704  Sum_probs=202.7

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|+++++|++||+.+|++.+.++++.++
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            8999999999999999999999999999999999999987766 788999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      ..|+++++++++++.+++++++.+|.|+++++.|||+|++||||+|+++|+||.+||.|++.+++++++|+++..++++|
T Consensus        92 ~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~L  171 (224)
T TIGR03633        92 QINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFL  171 (224)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeCCcCEEEEECCCCCeecceEEEECCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999998899999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC--eEEcChhH
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENG--FRRLDVAT  210 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g--~~~l~~~e  210 (352)
                      ++.|+++|+++||++++++||..+.+ | .+++.++|++|+++|  ++.++++|
T Consensus       172 ~~~~~~~~~~eeai~l~~~al~~~~~-d~~~~~~i~i~ii~~~g~~~~~~~~~~  224 (224)
T TIGR03633       172 EKEYREDLSLDEAIELALKALYSAVE-DKLTPENVEVAYITVEDKKFRKLSVEE  224 (224)
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEEEEEEEcCCCcEEECCCCC
Confidence            99999999999999999999999888 7 999999999999987  99988875

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

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=3.1e-52  Score=373.01  Aligned_cols=198  Identities=34%  Similarity=0.522  Sum_probs=192.7

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|++.++.+. .++.+|||+|++|++|+++|+.+|++.+.++++.++
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 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|++.++.+++++.++++|++++|.|++++++|||+|++||||||++||+||.+||+|++.+++++|+|+|+..++++|
T Consensus        93 ~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~gp~Ly~~D~~Gs~~~~~~~a~G~g~~~a~~~L  172 (212)
T cd03751          93 ENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTEL  172 (212)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCCcCEEEEECCCCCEEeeEEEEECCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999998899999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEE
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIA  198 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii  198 (352)
                      |+.|+++||++||+++++++|+.+.+.+ ....++||+++
T Consensus       173 ek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         173 EKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            9999999999999999999999999977 88999999875

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

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

Probab=100.00  E-value=2e-51  Score=372.81  Aligned_cols=217  Identities=42%  Similarity=0.710  Sum_probs=209.4

Q ss_pred             CCcceehhhhHHHHhcCC-CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAG-APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARK   77 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G-~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~   77 (352)
                      ||||++|+|||.+++++| +|+|||+++||||||+|||.+++++  .++.+|||+|+|||+|++||+.+|++.++++++.
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            899999999999999986 9999999999999999999999988  6779999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          78 IAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        78 ~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      +++.|++.++++++++.+++++++++|.++++  .|||+|++||||+|+++|+||.+||+|++.+++++|+|+|++.+++
T Consensus        92 ~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~rP~gv~~iiaG~d~~~p~Ly~~Dp~G~~~~~~~~a~Gsgs~~a~~  169 (236)
T COG0638          92 EAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYG  169 (236)
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--cccceEEEEEEEEcCCCCeEEEECCCCceeecCEEEEcCCcHHHHH
Confidence            99999999999999999999999999999987  8999999999999998899999999999999999999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeC-CCeEEcChhHHHHHHhhCc
Q psy2869         158 FLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADE-NGFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       158 ~Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~-~g~~~l~~~ei~~~l~~i~  219 (352)
                      +||+.|+++|++|||++++++||+.+.+|| .++++++|+++++ +|++.+.++++..++..+.
T Consensus       170 ~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~~~~~~~~  233 (236)
T COG0638         170 FLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLS  233 (236)
T ss_pred             HHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHHHHHHHHh
Confidence            999999999999999999999999999999 7999999999988 6899999999998887664

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=2.5e-51  Score=368.06  Aligned_cols=198  Identities=43%  Similarity=0.714  Sum_probs=193.0

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++  +++.+||++|++|++|++||+.+|++.+.++++.+
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            9999999999999999999999999999999999999999988  45899999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|+++++++++++.+++.|+..+|.|+++++.|||+|++||+|||+ .||+||.+||+|++.+++++|+|+++..+++
T Consensus        92 ~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d~~G~~~~~~~~a~G~gs~~~~~  171 (213)
T cd03752          92 AQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQS  171 (213)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEECCCCCeeeeeEEEECCCcHHHHH
Confidence            999999999999999999999999999999999999999999999996 5999999999999999999999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEE
Q psy2869         158 FLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIA  198 (352)
Q Consensus       158 ~Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii  198 (352)
                      +||+.|+++||++||++++++||..+.+|+ .++.++||+++
T Consensus       172 ~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         172 LLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             HHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            999999999999999999999999999999 99999999875

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=4.9e-51  Score=364.61  Aligned_cols=196  Identities=40%  Similarity=0.688  Sum_probs=189.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|++.+.++. +++.+||++|++|++|++||+.+|++.+.++++.++
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            9999999999999999999999999999999999999888777 678899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTF  158 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~  158 (352)
                      +.|+++++++++++.+++++++++|.|+++++.|||+|++||||||++ +|+||.+||+|++.+++++++|+|+..++++
T Consensus        90 ~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~a~G~gs~~~~~~  169 (207)
T cd03755          90 QSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREF  169 (207)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCcCEEcceEEEECCCCHHHHHH
Confidence            999999999999999999999999999999999999999999999975 9999999999999999999999999999999


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEE
Q psy2869         159 LEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIA  198 (352)
Q Consensus       159 Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii  198 (352)
                      ||+.|+++||++||++++++||..+.+  .++.++||+++
T Consensus       170 Le~~~~~~ms~eeai~l~~~~l~~~~~--~~~~~~e~~~~  207 (207)
T cd03755         170 LEKNYKEEMTRDDTIKLAIKALLEVVQ--SGSKNIELAVM  207 (207)
T ss_pred             HHhhccCCCCHHHHHHHHHHHHHHHhC--CCCCeEEEEEC
Confidence            999999999999999999999999987  67889999985

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.

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=1.3e-50  Score=362.80  Aligned_cols=198  Identities=37%  Similarity=0.663  Sum_probs=190.7

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. ++.+|||+|+++++|++||+.+|++.+.++++.+++
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            9999999999999999999999999999999999999888754 455999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHH
Q psy2869          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLE  160 (352)
Q Consensus        81 ~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le  160 (352)
                      .|+++++++++++.+++++++++|.++++++.|||+|++||+|||++||+||.+||+|++.+++++|+|+|++.++++||
T Consensus        89 ~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~gp~Ly~~Dp~G~~~~~~~~a~G~g~~~a~~~Le  168 (211)
T cd03749          89 NYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLE  168 (211)
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCCCeEEEECCCcCEeeeeEEEECCCcHHHHHHHH
Confidence            99999999999999999999999999999999999999999999988999999999999999999999999999999999


Q ss_pred             hhcC--CCCCHHHHHHHHHHHHHHhhccC--CCCCceEEEEEe
Q psy2869         161 KRYS--EDLELDDAVHTAILTLKEGFEGQ--MTAENIEIGIAD  199 (352)
Q Consensus       161 ~~~~--~~~s~~eai~l~~~~l~~~~~~d--~~~~~iei~ii~  199 (352)
                      ++|+  ++||++|++++++++|+.+++++  .++.++||++|+
T Consensus       169 ~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         169 RHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             HhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            9999  59999999999999999999977  899999999983

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.

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=1.8e-50  Score=362.17  Aligned_cols=199  Identities=43%  Similarity=0.702  Sum_probs=194.2

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|++.++++. .++.+||++|+++++|++||+.+|++.+.+.++.++
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            8999999999999999999999999999999999999987777 788999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++++++++.+++++++.+|.++++++.|||+|++||||||+++|+||.+||+|++.+++++++|++++.++++|
T Consensus        91 ~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~~~ly~vd~~G~~~~~~~~a~G~g~~~~~~~L  170 (211)
T cd03756          91 QIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFL  170 (211)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCCCCEEEEECCCCCeeeeEEEEECCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999998899999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEe
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIAD  199 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~  199 (352)
                      |+.|+++|+++||++++++||..+.+++.++.+++|++|+
T Consensus       171 e~~~~~~m~~~ea~~l~~~~l~~~~~~~~~~~~~~v~ii~  210 (211)
T cd03756         171 EKEYKEDMSLEEAIELALKALYAALEENETPENVEIAYVT  210 (211)
T ss_pred             HhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEe
Confidence            9999999999999999999999999888999999999986

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.

>KOG0178|consensus

Probab=100.00  E-value=5.6e-51  Score=345.28  Aligned_cols=222  Identities=38%  Similarity=0.620  Sum_probs=213.4

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||++++.+.+|+||+.++|||||+++++.+++++  +...+||++|+|||+|+++|+.+|+..|++++|..
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            8999999999999999999999999999999999999999999  67889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      +|.|.++||+++|.+.|++.++++.|.|||+++.||||||+|.+|||+. |.+||..||+|++..|++.++|.++..++.
T Consensus        94 AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gWka~ciG~N~~Aa~s  173 (249)
T KOG0178|consen   94 AQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGWKATCIGANSGAAQS  173 (249)
T ss_pred             HHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCccccceeeeccchHHHHH
Confidence            9999999999999999999999999999999999999999999999998 899999999999999999999999999999


Q ss_pred             HHHhhcCCC-CCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC----eEEcChhHHHHHHhhCccch
Q psy2869         158 FLEKRYSED-LELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENG----FRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       158 ~Le~~~~~~-~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g----~~~l~~~ei~~~l~~i~~~~  222 (352)
                      +|+..|+++ ++++||+.++++.|....+.. ++.+.+|++.++++.    ++.++++||.+++++....+
T Consensus       174 ~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k~v~~i~~~~ev~kll~k~~~~~  244 (249)
T KOG0178|consen  174 MLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNKTVLKILKKDEVLKLLEKYHETQ  244 (249)
T ss_pred             HHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCceEEEecCHHHHHHHHHHhhhhh
Confidence            999999987 459999999999999999999 999999999997653    79999999999999885443

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=2.3e-50  Score=362.02  Aligned_cols=198  Identities=37%  Similarity=0.602  Sum_probs=190.8

Q ss_pred             CCcceehhhhHHHHhcC-CCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~-G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||+||+++ |+|+|||+++||||||+|+|.+.+++ .++.+|||+|+++++|++||+.+|++.+.+++|.+
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            99999999999999985 78999999999999999999998887 66889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|+++++++++++.+|+++++++|.|+++++.|||+|++||||||+ +||+||.+||+|++.+++++|+|+|++.+++
T Consensus        91 ~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~~~~a~G~gs~~~~~  170 (215)
T cd03754          91 AAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATN  170 (215)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCccEEeEEEEEECCCcHHHHH
Confidence            999999999999999999999999999999999999999999999996 5999999999999999999999999999999


Q ss_pred             HHHhhcCCC--C--CHHHHHHHHHHHHHHhhccCCCCCceEEEEE
Q psy2869         158 FLEKRYSED--L--ELDDAVHTAILTLKEGFEGQMTAENIEIGIA  198 (352)
Q Consensus       158 ~Le~~~~~~--~--s~~eai~l~~~~l~~~~~~d~~~~~iei~ii  198 (352)
                      +||+.|+++  |  |++||++++++||..+.+||.+++++||+||
T Consensus       171 ~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~~~~~ei~~~  215 (215)
T cd03754         171 FLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFKATEIEVGVV  215 (215)
T ss_pred             HHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            999999995  7  9999999999999999999977999999985

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

>KOG0183|consensus

Probab=100.00  E-value=1e-50  Score=344.61  Aligned_cols=224  Identities=35%  Similarity=0.601  Sum_probs=214.6

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||+|||||||++|+++|+|+||++++|+|||+.+++...++. .+...||..+++|++|+++|+.+|++.+++++|.+|
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 888999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTF  158 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~  158 (352)
                      ++|+++.+.|++++.++++|+.+.|.|||..+.||||++.+|+|+|++ .|+||.+||+|.+.+|++.|+|.+++.++.+
T Consensus        93 qShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePsG~f~ewka~aiGr~sk~VrEf  172 (249)
T KOG0183|consen   93 QSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPSGIFSEWKANAIGRSSKTVREF  172 (249)
T ss_pred             hhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCCcchhhhhccccccccHHHHHH
Confidence            999999999999999999999999999999999999999999999998 6999999999999999999999999999999


Q ss_pred             HHhhcCCC--CCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC-eEEcChhHHHHHHhhCccchHHHH
Q psy2869         159 LEKRYSED--LELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG-FRRLDVATVRDHLSNIPQSVHTAI  226 (352)
Q Consensus       159 Le~~~~~~--~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g-~~~l~~~ei~~~l~~i~~~~~~~~  226 (352)
                      ||++|.+.  .+..++++|++++|.++...+  +.++|++++++.+ +++++.++|++++..++.+...+.
T Consensus       173 lEK~y~e~~~~~~~~~ikL~ir~LleVvqs~--~~nie~aVm~~~~~~~~l~~~~I~~~v~~ie~E~e~e~  241 (249)
T KOG0183|consen  173 LEKNYKEEAIATEGETIKLAIRALLEVVQSG--GKNIEVAVMKRRKDLKMLESEEIDDIVKEIEQEEEAEA  241 (249)
T ss_pred             HHHhcccccccccccHHHHHHHHHHHHhhcC--CCeeEEEEEecCCceeecCHHHHHHHHHHHHHHHHHHH
Confidence            99999886  789999999999999998866  8899999999887 999999999999999976644443

>KOG0184|consensus

Probab=100.00  E-value=1.4e-50  Score=345.47  Aligned_cols=218  Identities=31%  Similarity=0.519  Sum_probs=208.4

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      ||||+||||||+|||.+|+|||||||||||||++||..+++++ +..+.|||.|++||+|+++|+.+|.+.+.+++|.++
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            8999999999999999999999999999999999999999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      .+|+.+|+.++|...++.+++++.|.||.++..||||++.++++||.+||+||++||+|..+.|+++|+|.|.+.+++.|
T Consensus        97 ~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~~g~~LymiepSG~~~~Y~~aaiGKgrq~aKtEl  176 (254)
T KOG0184|consen   97 ASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDDEGPQLYMIEPSGSSYGYKGAAIGKGRQAAKTEL  176 (254)
T ss_pred             HHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeCCCceEEEEcCCCCccceeeeeccchhHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEE--eCCCeEEcChhHHHHHHhhC
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIA--DENGFRRLDVATVRDHLSNI  218 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii--~~~g~~~l~~~ei~~~l~~i  218 (352)
                      ||.--.+|+.+|+++.+.+.++.+.+.. .....+|+.|+  ..+|.+...|+|+.+..++.
T Consensus       177 EKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eTnG~h~~vp~el~~ea~~~  238 (254)
T KOG0184|consen  177 EKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEETNGLHEKVPSELLEEAEKY  238 (254)
T ss_pred             HhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEeecCCccccCcHHHHHHHHHH
Confidence            9998889999999999999999998888 78889999999  46788888888887755544

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=1.1e-49  Score=357.52  Aligned_cols=198  Identities=34%  Similarity=0.609  Sum_probs=190.4

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.++++. .++.+||++|++|++|+++|+.+|++.+.+.++.++
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 778999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcC-----CCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCch
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSG-----GVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVN  154 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~-----~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~  154 (352)
                      +.|+++++++++++.+++++++++|.|++..     ..|||+|++||||||++||+||.+||+|++.+++++++|++++.
T Consensus        90 ~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~gp~Ly~vd~~G~~~~~~~~a~G~~~~~  169 (213)
T cd03753          90 QNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEG  169 (213)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCCCCEEEEECCCCCeecccEEEECCCcHH
Confidence            9999999999999999999999999998753     46999999999999988999999999999999999999999999


Q ss_pred             hHHHHHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEE
Q psy2869         155 GKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIA  198 (352)
Q Consensus       155 ~~~~Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii  198 (352)
                      ++++|+++|+++||++||++++++||+.+.++++++.++||++|
T Consensus       170 ~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~~~~~~~ei~~~  213 (213)
T cd03753         170 AQSSLQEKYHKDMTLEEAEKLALSILKQVMEEKLNSTNVELATV  213 (213)
T ss_pred             HHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            99999999999999999999999999998887799999999985

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=1.5e-49  Score=355.61  Aligned_cols=198  Identities=51%  Similarity=0.832  Sum_probs=192.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++++++|+|+||++++||||||+|++.+.++. .++.+||++|+++++|+++|..+|++.+.+.++..+
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            8999999999999999999999999999999999999998877 788999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTF  158 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~  158 (352)
                      ..|+++++++++++.+|+++++++|.|+++++.|||+|++||+|||++ +|+||.+||.|++.+++++++|+|+..++++
T Consensus        90 ~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~a~G~g~~~~~~~  169 (209)
T cd01911          90 QNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTF  169 (209)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCCCeeeeeEEEeCCCcHHHHHH
Confidence            999999999999999999999999999999999999999999999986 9999999999999999999999999999999


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEE
Q psy2869         159 LEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIA  198 (352)
Q Consensus       159 Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii  198 (352)
                      ||+.|+++|+++||++++++||..+.+||.+++.++|+++
T Consensus       170 L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~~~~~~~i~i~  209 (209)
T cd01911         170 LEKRYKKDLTLEEAIKLALKALKEVLEEDKKAKNIEIAVV  209 (209)
T ss_pred             HHHhcccCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEEC
Confidence            9999999999999999999999999999998889999875

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.

>KOG0181|consensus

Probab=100.00  E-value=7.6e-50  Score=334.55  Aligned_cols=218  Identities=73%  Similarity=1.126  Sum_probs=213.8

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |+|||-|+|||+.|+.+|.+.||++-.||||||++++..+.+. ....+|+++|.+||+|..||+.+|++.+++..|+.+
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 888999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|...|+++||+..+++.++..+|+|||.++.||||+++++||||+++|.||.+||+|++..|+++|+|.+...++++|
T Consensus        95 e~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~~p~LyQvdPSGsyf~wkatA~Gkn~v~aktFl  174 (233)
T KOG0181|consen   95 EQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEGGPLLYQVDPSGSYFAWKATAMGKNYVNAKTFL  174 (233)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCCceeEEEECCccceeehhhhhhccCcchHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEcChhHHHHHHhhC
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI  218 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i  218 (352)
                      |++|+++|.+++++..++..|++..+...+.+++||+++..++|++++++||++++..+
T Consensus       175 EkR~~edleldd~ihtailtlkE~fege~~~~nieigv~~~~~F~~lt~~eI~d~l~~l  233 (233)
T KOG0181|consen  175 EKRYNEDLELDDAIHTAILTLKESFEGEMTAKNIEIGVCGENGFRRLTPAEIEDYLASL  233 (233)
T ss_pred             HHHhccccccchHHHHHHHHHHHHhccccccCceEEEEecCCceeecCHHHHHHHHhcC
Confidence            99999999999999999999999999889999999999999999999999999998754

>KOG0182|consensus

Probab=100.00  E-value=3.2e-46  Score=316.63  Aligned_cols=219  Identities=34%  Similarity=0.599  Sum_probs=212.6

Q ss_pred             CCcceehhhhHHHHhcC-CCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~-G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||.||+++ |-|.|+++++|++|+++.|+...+++ ++....+|+|.++|+|+++|..+|++..++++|.+
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            89999999999999999 77999999999999999999999999 88899999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      +.+++++||++||++.||++++++.|.|+|+..+||+||.+++.|+|++ ||.+|.+||.|.+..+++++.|.....+.+
T Consensus        98 Aa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~vYk~DpAGyy~g~kAtaaG~Kq~e~ts  177 (246)
T KOG0182|consen   98 AAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSVYKTDPAGYYYGFKATAAGVKQQEATS  177 (246)
T ss_pred             HHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcceEeecCccccccceeeecccchhhHHH
Confidence            9999999999999999999999999999999999999999999999998 999999999999999999999999999999


Q ss_pred             HHHhhcCCC--CCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC--eEEcChhHHHHHHhhCc
Q psy2869         158 FLEKRYSED--LELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG--FRRLDVATVRDHLSNIP  219 (352)
Q Consensus       158 ~Le~~~~~~--~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g--~~~l~~~ei~~~l~~i~  219 (352)
                      +||++|+++  ++.+|++++++.||..++.-|+....+||.+++++.  |+.|+.+||+++|..|.
T Consensus       178 fLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~se~EVgvv~~~~p~f~~Ls~~eie~hL~~IA  243 (246)
T KOG0182|consen  178 FLEKKYKKDIDLTFEETVETAISALQSSLGIDFKSSELEVGVVTVDNPEFRILSAEEIEEHLQAIA  243 (246)
T ss_pred             HHHHhhccCccchHHHHHHHHHHHHHHHHhcccCCcceEEEEEEcCCcceeeccHHHHHHHHHHhh
Confidence            999999997  789999999999999999999889999999998765  99999999999999884

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=2.1e-44  Score=328.54  Aligned_cols=204  Identities=18%  Similarity=0.275  Sum_probs=191.6

Q ss_pred             HhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy2869          14 AVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (352)
Q Consensus        14 av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (352)
                      .+++|+|+|||+++||||||+|+|.+.+.+  +++.+|||+|++|++++++|+.+|++.+.++++.+++.|+++++++++
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            357899999999999999999999997655  788999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHH
Q psy2869          92 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDD  171 (352)
Q Consensus        92 ~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~e  171 (352)
                      ++.+|++|++++|.++    ..|+.+++||||||++||+||++||+|++.+++++++|+|+.+++++||+.|+++||++|
T Consensus       115 v~~la~~ls~~l~~~R----~~~~~v~~iiaG~D~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~eE  190 (247)
T PTZ00488        115 VAAASKILANIVWNYK----GMGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEE  190 (247)
T ss_pred             HHHHHHHHHHHHHhcC----CCCeeEEEEEEEEeCCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCCCHHH
Confidence            9999999999998864    224555589999998899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhCccc
Q psy2869         172 AVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNIPQS  221 (352)
Q Consensus       172 ai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~~~  221 (352)
                      |++++++||+.+.+|| .++++++|++|+++|++.++++||+++++++...
T Consensus       191 ai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g~~~l~~~ei~~~l~~~~~~  241 (247)
T PTZ00488        191 AQDLGRRAIYHATFRDAYSGGAINLYHMQKDGWKKISADDCFDLHQKYAAE  241 (247)
T ss_pred             HHHHHHHHHHHHHHhccccCCCeEEEEEcCCccEECCHHHHHHHHHHHhhh
Confidence            9999999999999999 9999999999999999999999999999988643

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=3.7e-44  Score=322.71  Aligned_cols=204  Identities=21%  Similarity=0.296  Sum_probs=189.8

Q ss_pred             CCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q psy2869          17 AGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQ   94 (352)
Q Consensus        17 ~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~   94 (352)
                      +|+|+|||+++||||||+|+|.+++.+  +++.+|||+|++|++|+++|..+|++.+.++++.+++.|+++++++++++.
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            489999999999999999999998655  778999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCccceEEEeEEEEeC--CCCEEEEECCCC-cEEecceEEecCCCchhHHHHHhhcCCCCCHHH
Q psy2869          95 LVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPSG-AYFAWKATAMGRNYVNGKTFLEKRYSEDLELDD  171 (352)
Q Consensus        95 la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~--~gp~Ly~iDp~G-~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~e  171 (352)
                      ++++|++++|.++ ...+|||+|++||||||+  ++|+||.+||+| ++..++++|+|+|++.++++||+.|+++||++|
T Consensus        81 la~~ls~~~~~~~-~~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~ee  159 (219)
T TIGR03690        81 KANRLAAMVRGNL-PAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDD  159 (219)
T ss_pred             HHHHHHHHHHhhh-hhccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHH
Confidence            9999999999877 445899999999999996  479999999999 577778999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCCc-------eEEEEEeCCCeEEcChhHHHHHHhhCccc
Q psy2869         172 AVHTAILTLKEGFEGQ-MTAEN-------IEIGIADENGFRRLDVATVRDHLSNIPQS  221 (352)
Q Consensus       172 ai~l~~~~l~~~~~~d-~~~~~-------iei~ii~~~g~~~l~~~ei~~~l~~i~~~  221 (352)
                      |++++++||..+.++| .+++.       ++|++|+++|++.++++||+++++++.+.
T Consensus       160 ai~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~g~~~l~~~ei~~~~~~~~~~  217 (219)
T TIGR03690       160 ALRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITADGARRVPESELEELARAIVES  217 (219)
T ss_pred             HHHHHHHHHHHHHhcccccCCcccccccccEEEEEccCceEEcCHHHHHHHHHHHHhc
Confidence            9999999999999999 56653       39999999999999999999999887543

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.

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=4.1e-44  Score=322.91  Aligned_cols=201  Identities=21%  Similarity=0.349  Sum_probs=185.9

Q ss_pred             hhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhC
Q psy2869           8 IEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQ   87 (352)
Q Consensus         8 veYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~   87 (352)
                      -|||++|+++|+|+|||+++||||||+|++.      ++.+|||+|+|||+|+++|+.+|++.+++.++.+++.|++.++
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            4999999999999999999999999999972      4578999999999999999999999999999999999999998


Q ss_pred             -CCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC--CCCEEEEECCCCcEEecc-eEEecCCCchhHHHHHhhc
Q psy2869          88 -ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLEKRY  163 (352)
Q Consensus        88 -~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~~-~~a~G~gs~~~~~~Le~~~  163 (352)
                       .+++++.+|+++++.++.++ +++.|||+|++|++|||+  +||+||.+||+|++.+++ ++|+|+|++.++++||++|
T Consensus        91 ~~~~~v~~la~~~tq~~~~~~-~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~Lek~y  169 (228)
T TIGR03691        91 RRDVTGRGLANAYAQTLGTIF-TEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESY  169 (228)
T ss_pred             CCCccHHHHHHHHHhhccccc-ccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChHHHHHHHHHhc
Confidence             78999999998888887766 567899999999999985  489999999999999976 8999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHhh--ccC-CCCCceEEEEEeCCC----eEEcChhHHHHHH
Q psy2869         164 SEDLELDDAVHTAILTLKEGF--EGQ-MTAENIEIGIADENG----FRRLDVATVRDHL  215 (352)
Q Consensus       164 ~~~~s~~eai~l~~~~l~~~~--~~d-~~~~~iei~ii~~~g----~~~l~~~ei~~~l  215 (352)
                      +++||++||++++++||+.+.  +++ +++.++||+++++++    |+.|+++||++++
T Consensus       170 ~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~~l~~~ei~~~l  228 (228)
T TIGR03691       170 RDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRITGEALERLL  228 (228)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceEECCHHHHHhhC
Confidence            999999999999999999995  466 899999999998653    9999999998763

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.

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=8.9e-44  Score=313.16  Aligned_cols=184  Identities=18%  Similarity=0.361  Sum_probs=177.7

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+|||+|++|++|+++|+.+|++.|+++++.+++.|+++++++++++.++
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            5899999999999999999999766  67899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++++|.+++    +||+|++||||||++||+||++||+|++.+++++++|+|+.+++++||+.|+++||++||++++
T Consensus        81 ~~ls~~l~~~~~----~~~~v~~li~G~D~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  156 (188)
T cd03761          81 KLLSNMLYQYKG----MGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLA  156 (188)
T ss_pred             HHHHHHHHhcCC----CCeEEEEEEEEEeCCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHH
Confidence            999999999984    4899999999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEc
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRL  206 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l  206 (352)
                      .+||+.+.+|| .++++++|++|+++|++++
T Consensus       157 ~~~l~~~~~rd~~sg~~~~v~ii~~~g~~~~  187 (188)
T cd03761         157 RRAIYHATHRDAYSGGNVNLYHVREDGWRKI  187 (188)
T ss_pred             HHHHHHHHHhcccCCCCeEEEEEcCCceEEc
Confidence            99999999999 9999999999999998765

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

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=1.2e-43  Score=313.54  Aligned_cols=186  Identities=23%  Similarity=0.318  Sum_probs=178.4

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+|||+|+++++|+++|..+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999988775  78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++++|.+++..  |||++++||||||+ .+|+||++||+|++.+++++|+|+|+.+++++||+.|+++||++||+++
T Consensus        82 ~~l~~~~~~~~~~~--rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l  159 (193)
T cd03758          82 NFTRRELAESLRSR--TPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALEL  159 (193)
T ss_pred             HHHHHHHHHHhhcC--CCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHH
Confidence            99999999887653  89999999999996 5899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEEc
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRRL  206 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l  206 (352)
                      +.+||+.+.+|| .++++++|++|+++|++.+
T Consensus       160 ~~~a~~~~~~rd~~~~~~i~i~ii~~~g~~~~  191 (193)
T cd03758         160 MKKCIKELKKRFIINLPNFTVKVVDKDGIRDL  191 (193)
T ss_pred             HHHHHHHHHHhccccCCceEEEEEcCCCeEeC
Confidence            999999999999 9999999999999998764

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.

>KOG0863|consensus

Probab=100.00  E-value=1.1e-43  Score=304.83  Aligned_cols=217  Identities=32%  Similarity=0.562  Sum_probs=207.4

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (352)
                      |+|||+|||||++|+++|++.||+|.++..||++-+|..+.+ ++.++|||+|++|+++.++|+++|++.|.++++.+|.
T Consensus        15 PqGrl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~seL-ss~QkKi~~iD~h~g~siAGLt~Darvl~~Ylr~ec~   93 (264)
T KOG0863|consen   15 PQGRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSEL-SSHQKKIFKIDDHIGISIAGLTADARVLSRYLRQECL   93 (264)
T ss_pred             CcceehHHHHHHHHHhcccceEeecccceEEEeeeccchhHH-HHhhheeEecccccceEEeccCcchHHHHHHHHHHHh
Confidence            899999999999999999999999999999999999887776 4677999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHH
Q psy2869          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLE  160 (352)
Q Consensus        81 ~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le  160 (352)
                      .++..+++++++..+...|++.+|..||+.+.|||||.++++|+|+.||+||.++|+|++.++++.+||+.|+.++++||
T Consensus        94 ~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~G~hl~e~~Psg~v~e~~g~sIGsRSQsARTyLE  173 (264)
T KOG0863|consen   94 NSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDESGPHLYEFCPSGNVFECKGMSIGSRSQSARTYLE  173 (264)
T ss_pred             hhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCCCceeEEEcCCccEEEEeeeecccchhhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCC--CCCHHHHHHHHHHHHHHhhccC--CCCCceEEEEEeCCC-eEEcChhHHHHHHhhC
Q psy2869         161 KRYSE--DLELDDAVHTAILTLKEGFEGQ--MTAENIEIGIADENG-FRRLDVATVRDHLSNI  218 (352)
Q Consensus       161 ~~~~~--~~s~~eai~l~~~~l~~~~~~d--~~~~~iei~ii~~~g-~~~l~~~ei~~~l~~i  218 (352)
                      ++..+  +++.||.+..++.+|+.....|  +++.+++|.|+.++. |+.++.+++.+++...
T Consensus       174 r~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~~~d~~~~~k~~~~~  236 (264)
T KOG0863|consen  174 RNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFTILDQKDVAKYVDLF  236 (264)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceEeecHHHHHHHHHHh
Confidence            98864  8999999999999999999866  899999999999886 9999999999877655

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=2.2e-43  Score=312.38  Aligned_cols=184  Identities=17%  Similarity=0.229  Sum_probs=175.1

Q ss_pred             CCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q psy2869          17 AGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQ   94 (352)
Q Consensus        17 ~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~   94 (352)
                      +|+|+|||+++||||||+|++.+++++  .++.+|||+|++|++|+++|..+|++.+.++++.+++.|+++++.+++++.
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  557899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecc-eEEecCCCchhHHHHHhhcCCCCCHHHH
Q psy2869          95 LVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLEKRYSEDLELDDA  172 (352)
Q Consensus        95 la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~ea  172 (352)
                      +|++|++.++.++    .|||+|++||||||++ +|+||.+||+|++..++ ++|+|+|++.++++||+.|+++||++||
T Consensus        82 la~~l~~~ly~~r----~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  157 (195)
T cd03759          82 FSSLISSLLYEKR----FGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDEL  157 (195)
T ss_pred             HHHHHHHHHHHhc----CCCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHH
Confidence            9999999986543    5899999999999965 79999999999998887 9999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCCceEEEEEeCCCeE
Q psy2869         173 VHTAILTLKEGFEGQ-MTAENIEIGIADENGFR  204 (352)
Q Consensus       173 i~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~  204 (352)
                      ++++++||+.+.+|| .++++++|++|+++|++
T Consensus       158 ~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~  190 (195)
T cd03759         158 FETISQALLSAVDRDALSGWGAVVYIITKDKVT  190 (195)
T ss_pred             HHHHHHHHHHHHhhCcccCCceEEEEEcCCcEE
Confidence            999999999999999 99999999999999964

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

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=2.7e-43  Score=312.43  Aligned_cols=190  Identities=16%  Similarity=0.226  Sum_probs=177.8

Q ss_pred             CCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHH-HHHHHhCCCCCHH
Q psy2869          17 AGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ-QYKLVYQENIPTQ   93 (352)
Q Consensus        17 ~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~-~~~~~~~~~i~~~   93 (352)
                      .|+|+|||+++||||||+|+|.+.+.+  +++.+|||+|++|++|+++|..+|++.+++++|.+++ .+++.++.+++++
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            489999999999999999999985544  7889999999999999999999999999999999987 5678899999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCC--CCCHH
Q psy2869          94 QLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE--DLELD  170 (352)
Q Consensus        94 ~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~~s~~  170 (352)
                      .+++++++++  |++++++|||+|++||||||+ ++|+||.+||+|++.+++++|+|+|+.+++++||+.|++  +||++
T Consensus        81 ~la~~i~~~~--y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~e  158 (197)
T cd03760          81 EIHSYLTRVL--YNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEE  158 (197)
T ss_pred             HHHHHHHHHH--HHHhhcCCCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHH
Confidence            9999999986  566677999999999999997 589999999999999999999999999999999999999  99999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcCh
Q psy2869         171 DAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDV  208 (352)
Q Consensus       171 eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~  208 (352)
                      ||++++++||+.+.+|| .++++++|++|+++|++.-.|
T Consensus       159 ea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~~~  197 (197)
T cd03760         159 EARALIEECMKVLYYRDARSINKYQIAVVTKEGVEIEGP  197 (197)
T ss_pred             HHHHHHHHHHHHHHHhccccCCceEEEEECCCCEEeCCC
Confidence            99999999999999999 999999999999999876543

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=2.2e-42  Score=303.76  Aligned_cols=182  Identities=30%  Similarity=0.464  Sum_probs=175.6

Q ss_pred             CCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy2869          18 GAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (352)
Q Consensus        18 G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (352)
                      |+|+|||+++||||||+|+|.+.+.+  +++.+|||+|+++++|+++|..+|++.+.++++.+++.|+..++.+++++.+
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            78999999999999999999986655  7789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          96 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        96 a~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      ++++++++|.+    .+|||+|++||||||++||+||.+||+|++.+++++++|+++.+++++||+.|+++||++||+++
T Consensus        81 a~~l~~~~~~~----~~rP~~v~~ivaG~d~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l  156 (185)
T TIGR03634        81 ATLLSNILNSN----RFFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKL  156 (185)
T ss_pred             HHHHHHHHHhc----CCCCeEEEEEEEEEeCCCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHH
Confidence            99999999887    38999999999999988999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCe
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGF  203 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~  203 (352)
                      +++||+.+.+|+ .++++++|++|+++|+
T Consensus       157 ~~~~l~~~~~r~~~~~~~~~v~ii~~~g~  185 (185)
T TIGR03634       157 AVRAIKSAIERDVASGNGIDVAVITKDGV  185 (185)
T ss_pred             HHHHHHHHHHhcccCCCCEEEEEEcCCCC
Confidence            999999999999 9999999999999984

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.

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=1.7e-42  Score=310.40  Aligned_cols=187  Identities=21%  Similarity=0.282  Sum_probs=177.7

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (352)
                      +++|+|+|||+++||||||+|++.+++++  +++.+|||+|+++++|+++|..+|++.+.+.++.+++.|++++++++++
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            46899999999999999999999999987  6789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcC-------
Q psy2869          93 QQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS-------  164 (352)
Q Consensus        93 ~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~-------  164 (352)
                      +.++++++++++.++    .|||+|++||||||++ +|+||.+||+|++.+++++|+|+|+.+++++||+.|+       
T Consensus        85 ~~la~~ls~~ly~~R----~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~  160 (212)
T cd03757          85 EAIAQLLSTILYSRR----FFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNV  160 (212)
T ss_pred             HHHHHHHHHHHHhhc----CCCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcC
Confidence            999999999997643    4799999999999965 6999999999999999999999999999999999985       


Q ss_pred             --CCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEE
Q psy2869         165 --EDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRR  205 (352)
Q Consensus       165 --~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~  205 (352)
                        ++||++||++++++||+.+.+|| .++++++|++|+++|++.
T Consensus       161 ~~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g~~~  204 (212)
T cd03757         161 ERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGIEE  204 (212)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCCEEE
Confidence              89999999999999999999999 999999999999999653

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

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=4.3e-42  Score=302.63  Aligned_cols=185  Identities=29%  Similarity=0.447  Sum_probs=178.2

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            6899999999999999999999766  78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++.+|.++    +|||+|++||||+|+++|+||.+||+|++.+++++|+|+|+++++++||+.|+++|+++||++++
T Consensus        81 ~~i~~~~~~~~----~~P~~~~~lvaG~d~~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~  156 (188)
T cd03764          81 TLLSNILNSSK----YFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLA  156 (188)
T ss_pred             HHHHHHHHhcC----CCCcEEEEEEEEEeCCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHH
Confidence            99999998864    79999999999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEcC
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRLD  207 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~  207 (352)
                      ++||+.+.+|| .++++++|++|+++|+++++
T Consensus       157 ~~~l~~~~~rd~~~~~~i~i~iv~~~g~~~~~  188 (188)
T cd03764         157 IRAIKSAIERDSASGDGIDVVVITKDGYKELE  188 (188)
T ss_pred             HHHHHHHHhhcCCCCCcEEEEEECCCCeEeCC
Confidence            99999999999 99999999999999988764

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=100.00  E-value=7.3e-42  Score=308.59  Aligned_cols=207  Identities=14%  Similarity=0.201  Sum_probs=181.1

Q ss_pred             cEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEec----CcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCC-CCCHH
Q psy2869          20 PSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPIT----DYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQE-NIPTQ   93 (352)
Q Consensus        20 tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~----~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~-~i~~~   93 (352)
                      =+|||+++||||||+|+|++++++ .++.+|||+|+    +||+|+.||+.+|++.+++++|.+++.|++++|+ +++++
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            379999999999999999999987 66789999998    8999999999999999999999999999999999 89999


Q ss_pred             HHHHHHHHHHHH-HhhcCC-----CccceEEEeEEEEeC-CCCEEEEECCCCcEEec----ceEEecCCCchhHHHHHhh
Q psy2869          94 QLVQRVAAIMQE-YTQSGG-----VRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAW----KATAMGRNYVNGKTFLEKR  162 (352)
Q Consensus        94 ~la~~l~~~~~~-~~~~~~-----~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~----~~~a~G~gs~~~~~~Le~~  162 (352)
                      .+|+++++++++ ++++.+     .|||+|++||||||+ +||+||.+||+|++.++    +++|+|. +.+++++||++
T Consensus        82 ~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek~  160 (236)
T cd03765          82 DAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDRV  160 (236)
T ss_pred             HHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHHh
Confidence            999999998654 555554     489999999999995 58999999999999999    4589996 79999999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEE-----cChhH--HHHHHhhCccchHHHHh
Q psy2869         163 YSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRR-----LDVAT--VRDHLSNIPQSVHTAIL  227 (352)
Q Consensus       163 ~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~-----l~~~e--i~~~l~~i~~~~~~~~~  227 (352)
                      |+++||++||++++++||..+++|| .++.+++|++|+++|++.     ++.++  ..++-..+.+..-.+.+
T Consensus       161 yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (236)
T cd03765         161 ITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERDSLQVGHYRRIEEDDPYFAMIRKAWSEALREAFD  233 (236)
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECCCeeeeeeEEecCCCHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999 999999999999999643     44444  44444444444444443

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

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=9.1e-42  Score=300.71  Aligned_cols=185  Identities=18%  Similarity=0.264  Sum_probs=177.0

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++.+  .++.+|||+|+++++|+++|..+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999865  77899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++.+|.++     .||+|++||||||++||+||.+||+|++.+++++++|+++..++++||+.|+++||++||++++
T Consensus        81 ~~l~~~l~~~~-----~p~~v~~ivaG~d~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l~  155 (189)
T cd03763          81 TMLKQHLFRYQ-----GHIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLV  155 (189)
T ss_pred             HHHHHHHHHcC-----CccceeEEEEeEcCCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHHH
Confidence            99999998764     3999999999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEcCh
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRLDV  208 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~  208 (352)
                      ++||+.+.+|| .++++++|++|+++|++...|
T Consensus       156 ~~~l~~~~~rd~~~~~~~~v~ii~~~g~~~~~~  188 (189)
T cd03763         156 CEAIEAGIFNDLGSGSNVDLCVITKDGVEYLRN  188 (189)
T ss_pred             HHHHHHHHHhcCcCCCceEEEEEcCCcEEEecC
Confidence            99999999999 899999999999999887654

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=5.6e-41  Score=295.49  Aligned_cols=182  Identities=14%  Similarity=0.250  Sum_probs=174.7

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+|||+|++|++|+++|+.+|++.+.++++.+++.|+++++++++++.++
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            5899999999999999999999766  77899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++++|.++     |||+|++||||+|+ +||+||.+||+|++.+++++++|+|+.+++++||+.|+++||++||+++
T Consensus        81 ~~l~~~~~~~~-----~~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l  155 (188)
T cd03762          81 SLFKNLCYNYK-----EMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKF  155 (188)
T ss_pred             HHHHHHHHhcc-----ccceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHH
Confidence            99999998876     78999999999996 5899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEE
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRR  205 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~  205 (352)
                      +++||+.+.+|| .++++++|++|+++|++.
T Consensus       156 ~~~al~~~~~rd~~~~~~~~i~~i~~~g~~~  186 (188)
T cd03762         156 VKNALSLAMSRDGSSGGVIRLVIITKDGVER  186 (188)
T ss_pred             HHHHHHHHHHhccccCCCEEEEEECCCCEEE
Confidence            999999999999 999999999999999754

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=3e-40  Score=291.02  Aligned_cols=184  Identities=23%  Similarity=0.403  Sum_probs=177.6

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|++.++++.  .++.+|||+|+++++++++|+.+|++.+.++++.+++.|++.++++++++.++
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            6899999999999999999999988  78899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++.+|.+++    |||++++||||+|+ ++|+||.+||+|++.+++++++|.++++++++||+.|+++||++||+++
T Consensus        81 ~~l~~~~~~~~~----~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~  156 (189)
T cd01912          81 NLLSNILYSYRG----FPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVEL  156 (189)
T ss_pred             HHHHHHHHhcCC----CCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHH
Confidence            999999999885    89999999999998 5899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEEc
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRRL  206 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l  206 (352)
                      +.+||..+.++| .++++++|++|+++|++..
T Consensus       157 ~~~~l~~~~~~d~~~~~~~~v~vi~~~g~~~~  188 (189)
T cd01912         157 VKKAIDSAIERDLSSGGGVDVAVITKDGVEEL  188 (189)
T ss_pred             HHHHHHHHHHhcCccCCcEEEEEECCCCEEEc
Confidence            999999999999 9999999999999997653

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

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

Probab=100.00  E-value=1.1e-39  Score=287.55  Aligned_cols=184  Identities=36%  Similarity=0.647  Sum_probs=176.1

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccc-cccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDC-IHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~-~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (352)
                      |++|+|+|||+++||||||+|++.+.+..  .++ .+|||+|++|++++++|..+|++.+.++++.+++.|++.++.+++
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            57999999999999999999999996655  344 699999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCC-CEEEEECCCCcEEec-ceEEecCCCchhHHHHHhhcCCCCCH
Q psy2869          92 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAW-KATAMGRNYVNGKTFLEKRYSEDLEL  169 (352)
Q Consensus        92 ~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~  169 (352)
                      ++.+++.++++++.++++.++||+++++|+||||+++ |+||.+||+|++.++ +++++|+|++.++++|++.|+++|++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~  160 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLSL  160 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSSH
T ss_pred             chhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhccCCCCH
Confidence            9999999999999999999999999999999999875 999999999999999 69999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCCceEEEEE
Q psy2869         170 DDAVHTAILTLKEGFEGQ-MTAENIEIGIA  198 (352)
Q Consensus       170 ~eai~l~~~~l~~~~~~d-~~~~~iei~ii  198 (352)
                      +||++++++||+.+.++| .++++++|++|
T Consensus       161 ~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  161 EEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            999999999999999999 99999999987

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 ....

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=7.5e-39  Score=280.26  Aligned_cols=178  Identities=40%  Similarity=0.675  Sum_probs=172.5

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|++.++++.  .++.+|||+|+++++++++|..+|++.+.++++.++..|+++++++++++.++
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            6899999999999999999999987  67899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++++|.++++  .|||++++||||+|+ ++|+||.+||+|++.+++++++|+++.+++++||+.|+++||++||+++
T Consensus        81 ~~l~~~~~~~~~~--~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l  158 (182)
T cd01906          81 KLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIEL  158 (182)
T ss_pred             HHHHHHHHHhCCC--ccChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHH
Confidence            9999999999976  899999999999997 6999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEE
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIA  198 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii  198 (352)
                      +++||..+.+++ .++.+++|+++
T Consensus       159 ~~~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         159 ALKALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             HHHHHHHHHcccCCCCCCEEEEEC
Confidence            999999999999 79999999875

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

>KOG0177|consensus

Probab=100.00  E-value=3.5e-37  Score=257.79  Aligned_cols=187  Identities=21%  Similarity=0.300  Sum_probs=180.8

Q ss_pred             cEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Q psy2869          20 PSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQ   97 (352)
Q Consensus        20 tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~   97 (352)
                      +++||++.|+|++|+||...++.+  +++++|++++++++.|+++|..+|+.++.+++.+.++.|++++|.+++|+.+|+
T Consensus         3 ~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aah   82 (200)
T KOG0177|consen    3 TLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAH   82 (200)
T ss_pred             eEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHH
Confidence            689999999999999999999988  889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          98 RVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        98 ~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      ++++.+.++.+.  .+||.|++++||+|++ ||.||++|..|+..+.++++.|.++.++.++|++.|+||||.+||+++.
T Consensus        83 FtR~~La~~LRs--r~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lm  160 (200)
T KOG0177|consen   83 FTRRELAESLRS--RTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLM  160 (200)
T ss_pred             HHHHHHHHHHhc--CCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHH
Confidence            999999998864  6899999999999997 8999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEcCh
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRLDV  208 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~  208 (352)
                      .+|+.++.+|. .+..+|.|.||+|||++.++.
T Consensus       161 kKCv~El~kRlvin~~~f~v~IVdkdGir~~~~  193 (200)
T KOG0177|consen  161 KKCVLELKKRLVINLPGFIVKIVDKDGIRKLDD  193 (200)
T ss_pred             HHHHHHHHHhcccCCCCcEEEEEcCCCceeccc
Confidence            99999999999 999999999999999887764

>KOG0174|consensus

Probab=100.00  E-value=1.5e-34  Score=242.57  Aligned_cols=197  Identities=18%  Similarity=0.266  Sum_probs=186.4

Q ss_pred             HhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy2869          14 AVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (352)
Q Consensus        14 av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (352)
                      .+..|+|++||++++||||++|+|++.|.+  ++..+|+.+|.|+|+||-||.++|.|.+.+.++.++..|...++.+++
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            467899999999999999999999999988  899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHH
Q psy2869          92 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELD  170 (352)
Q Consensus        92 ~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~  170 (352)
                      +...|+.++++.|+|+..     +.+.+||||||+. |.++|.+--.|+..+.+++.-|+||.+++++++..|+|+|++|
T Consensus        95 v~~aA~l~r~~~Y~~re~-----L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~E  169 (224)
T KOG0174|consen   95 VHTAASLFREICYNYREM-----LSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTLE  169 (224)
T ss_pred             HHHHHHHHHHHHHhCHHh-----hhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCCCHH
Confidence            999999999999998865     8899999999997 8999999888888888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC--eEEcChhHHHHHH
Q psy2869         171 DAVHTAILTLKEGFEGQ-MTAENIEIGIADENG--FRRLDVATVRDHL  215 (352)
Q Consensus       171 eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g--~~~l~~~ei~~~l  215 (352)
                      |++++.++++..+++|| .+++-+.+.+|+++|  .+.+.++++.++.
T Consensus       170 E~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~~~~  217 (224)
T KOG0174|consen  170 ECVRFVKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLGQFA  217 (224)
T ss_pred             HHHHHHHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCcccccc
Confidence            99999999999999999 999999999999999  4688888887643

>KOG0175|consensus

Probab=100.00  E-value=2.5e-34  Score=250.83  Aligned_cols=200  Identities=18%  Similarity=0.309  Sum_probs=191.9

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (352)
                      ..+|||.+|++++.|||+|+|+|.+.|.+  .+.++||.+||++.+-.++|-++|++..-+.+.++|+.|++++++.|++
T Consensus        68 ~~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSV  147 (285)
T KOG0175|consen   68 FAHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISV  147 (285)
T ss_pred             ecCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceeh
Confidence            36899999999999999999999999988  8899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHH
Q psy2869          93 QQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA  172 (352)
Q Consensus        93 ~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea  172 (352)
                      ...++.|++++++|+.++    +.+..+|||||+.||.||++|..|+-...+-+++|+|+.+|.++|++.|++|||.+||
T Consensus       148 saASKllsN~~y~YkGmG----LsmGtMi~G~Dk~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~eEA  223 (285)
T KOG0175|consen  148 SAASKLLSNMVYQYKGMG----LSMGTMIAGWDKKGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDEEA  223 (285)
T ss_pred             HHHHHHHHHHHhhccCcc----hhheeeEeeccCCCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCCHHHH
Confidence            999999999999999654    7889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhC
Q psy2869         173 VHTAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNI  218 (352)
Q Consensus       173 i~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i  218 (352)
                      .+|+++++..+..|| .+++.+.++.|+++|+..+++.++.+++..+
T Consensus       224 ~~L~rrAI~hAThRDaySGG~vnlyHv~edGW~~v~~~Dv~~L~~~~  270 (285)
T KOG0175|consen  224 YDLARRAIYHATHRDAYSGGVVNLYHVKEDGWVKVSNTDVSELHYHY  270 (285)
T ss_pred             HHHHHHHHHHHHhcccccCceEEEEEECCccceecCCccHHHHHHHH
Confidence            999999999999999 9999999999999999999999999985444

>KOG0173|consensus

Probab=100.00  E-value=1.1e-33  Score=246.30  Aligned_cols=187  Identities=18%  Similarity=0.305  Sum_probs=177.4

Q ss_pred             HHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCC
Q psy2869          13 AAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENI   90 (352)
Q Consensus        13 ~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i   90 (352)
                      ++.+.|+|++||.++|||||++|+|.+.|.+  +.+.+||+.|.++|+||.+|-++|...+.+.+..+++.|+++.++.+
T Consensus        32 ~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R~~  111 (271)
T KOG0173|consen   32 KATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGRKP  111 (271)
T ss_pred             cccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCCCC
Confidence            3457899999999999999999999999988  88999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHH
Q psy2869          91 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELD  170 (352)
Q Consensus        91 ~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~  170 (352)
                      .+-...+++.+.+..|..+     .++.+|++|+|+.|||||.+.|.|+....+|.+.|+|+..++++||.+|+|||++|
T Consensus       112 rVv~A~~mlkQ~LFrYqG~-----IgA~LiiGGvD~TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k~dlt~e  186 (271)
T KOG0173|consen  112 RVVTALRMLKQHLFRYQGH-----IGAALILGGVDPTGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWKPDLTKE  186 (271)
T ss_pred             ceeeHHHHHHHHHHHhcCc-----ccceeEEccccCCCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcCcccCHH
Confidence            9999999999999777744     78999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeE
Q psy2869         171 DAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFR  204 (352)
Q Consensus       171 eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~  204 (352)
                      ||++|+.+++...+..| -++.++++|||++.+..
T Consensus       187 ea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~~~  221 (271)
T KOG0173|consen  187 EAIKLVCEAIAAGIFNDLGSGSNVDLCVITKKGVE  221 (271)
T ss_pred             HHHHHHHHHHHhhhccccCCCCceeEEEEeCCCcc
Confidence            99999999999999999 89999999999987743

>KOG0179|consensus

Probab=100.00  E-value=4.7e-33  Score=236.17  Aligned_cols=186  Identities=22%  Similarity=0.277  Sum_probs=176.4

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (352)
                      ..+|+|+|||++.|+.|+|+|||.+++..  ++..+|||+++|++.++.+|..+|+..|...++..++.|+..++..|++
T Consensus        26 ~~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~  105 (235)
T KOG0179|consen   26 EDNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSI  105 (235)
T ss_pred             ccCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccH
Confidence            46899999999999999999999999877  8999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcC-------
Q psy2869          93 QQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS-------  164 (352)
Q Consensus        93 ~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~-------  164 (352)
                      ..+|+.|+..+|..+    +.||.+..|+||+|++ .+.+|..||.|++.+..+.|.|+++.+++|+|+....       
T Consensus       106 ~s~A~lls~~LY~kR----FFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e  181 (235)
T KOG0179|consen  106 HSAAQLLSTILYSKR----FFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLE  181 (235)
T ss_pred             HHHHHHHHHHHhhcc----cccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCcCcccc
Confidence            999999999998877    8899999999999996 6999999999999999999999999999999998543       


Q ss_pred             ----CCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeE
Q psy2869         165 ----EDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFR  204 (352)
Q Consensus       165 ----~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~  204 (352)
                          ..+|+|+|+.++.+++..+.+|| .+++.++|+|++++|++
T Consensus       182 ~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~gV~  226 (235)
T KOG0179|consen  182 NAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKDGVE  226 (235)
T ss_pred             cCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecCCEE
Confidence                24899999999999999999999 99999999999999954

>KOG0185|consensus

Probab=100.00  E-value=1.6e-32  Score=236.85  Aligned_cols=197  Identities=15%  Similarity=0.226  Sum_probs=183.0

Q ss_pred             HhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHH-HHhCCCC
Q psy2869          14 AVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYK-LVYQENI   90 (352)
Q Consensus        14 av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~-~~~~~~i   90 (352)
                      ..-.|++|||+|++||||+|+|+..++|++  .++++|||+|+||+++|+||..+|.|.+.+.+.....+.. +..|+.+
T Consensus        37 p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l  116 (256)
T KOG0185|consen   37 PIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQSL  116 (256)
T ss_pred             ceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHHHHHHHHHHHHHHhccccccccccc
Confidence            445799999999999999999999999999  8999999999999999999999999999999988766643 5667999


Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcC---CC
Q psy2869          91 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS---ED  166 (352)
Q Consensus        91 ~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~---~~  166 (352)
                      .|+.++.+|...+|..+  +.+.|++.+++|||+|++ .|+|-++|-.|..++.+..|+|.|.+.++++|++.|+   ++
T Consensus       117 ~Pk~ih~yltrvlY~rR--sKmnPlwntlvVgGv~~~g~~~lg~V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~  194 (256)
T KOG0185|consen  117 GPKAIHSYLTRVLYARR--SKMNPLWNTLVVGGVDNTGEPFLGYVDLLGVAYESPVVATGFGAHLALPLLRDEWEKKGED  194 (256)
T ss_pred             ChHHHHHHHHHHHHHhh--hccCchhhheeEeeecCCCCeeEEEEeeccccccCchhhhhhHHHhhhHHHHHhhhccchh
Confidence            99999999999997766  668999999999999995 7999999999999999999999999999999999998   47


Q ss_pred             CCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHH
Q psy2869         167 LELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVR  212 (352)
Q Consensus       167 ~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~  212 (352)
                      ++.+||.+++.+||+....|| .+..+|+|++|+++|++.-.|..+.
T Consensus       195 ~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~eGv~i~~p~qv~  241 (256)
T KOG0185|consen  195 LSREEAEALIEKCMRVLYYRDARASNEFQVATVDEEGVTISKPYQVK  241 (256)
T ss_pred             hHHHHHHHHHHHHHHHHhccccccccceEEEEEcccceEecCceeee
Confidence            999999999999999999999 8999999999999999888887765

>KOG0181|consensus

Probab=99.97  E-value=1.4e-31  Score=224.78  Aligned_cols=129  Identities=51%  Similarity=0.752  Sum_probs=122.2

Q ss_pred             HHhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEE
Q psy2869         214 HLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLI  293 (352)
Q Consensus       214 ~l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll  293 (352)
                      -++.+..++++.+       |||..|+|.|+++.|..+..|...|+++||+.+|.+.++..+|.|||.++.||||+++++
T Consensus        64 KV~~i~~~IG~vY-------SGmgpD~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslli  136 (233)
T KOG0181|consen   64 KVEKITPHIGCVY-------SGMGPDYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLI  136 (233)
T ss_pred             hHhhccCCcceEE-------ecCCCceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEE
Confidence            3677777777766       999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccc
Q psy2869         294 CGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAE  349 (352)
Q Consensus       294 ~G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~  349 (352)
                      +|||+++|.||++||||+|..|+++|+|.++..|++||||+|++++.-..+.|.|.
T Consensus       137 aG~~~~~p~LyQvdPSGsyf~wkatA~Gkn~v~aktFlEkR~~edleldd~ihtai  192 (233)
T KOG0181|consen  137 AGWDEGGPLLYQVDPSGSYFAWKATAMGKNYVNAKTFLEKRYNEDLELDDAIHTAI  192 (233)
T ss_pred             eecCCCceeEEEECCccceeehhhhhhccCcchHHHHHHHHhccccccchHHHHHH
Confidence            99999999999999999999999999999999999999999999998888877764

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.97  E-value=7.5e-30  Score=219.73  Aligned_cols=164  Identities=15%  Similarity=0.097  Sum_probs=143.4

Q ss_pred             CCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q psy2869          18 GAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQ   94 (352)
Q Consensus        18 G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~   94 (352)
                      |+|+|||+++||||||+|+|++.|.+  +++.+||++| +++++|+++|..+|++.|.+.++.+++.|+.  +.   ++.
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            68999999999999999999999988  8899999999 9999999999999999999999999999882  22   455


Q ss_pred             HHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEec--ceEEecCCCchhHHHHHhhcC-CCCCHHH
Q psy2869          95 LVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAW--KATAMGRNYVNGKTFLEKRYS-EDLELDD  171 (352)
Q Consensus        95 la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~--~~~a~G~gs~~~~~~Le~~~~-~~~s~~e  171 (352)
                      +++.+..    ++.+...+|+.+++|++  |+  |+||.+||.|++.+.  +++++|+|+.++.++||+.|+ ++|   |
T Consensus        76 ~a~l~~~----l~~~~~~~~l~~~~lv~--d~--~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---e  144 (172)
T PRK05456         76 AVELAKD----WRTDRYLRRLEAMLIVA--DK--EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---S  144 (172)
T ss_pred             HHHHHHH----HHhccCCCccEEEEEEE--cC--CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---C
Confidence            5544432    22223347888999994  43  799999999999777  799999999999999999999 999   9


Q ss_pred             HHHHHHHHHHHhhccC-CCCCceEEEE
Q psy2869         172 AVHTAILTLKEGFEGQ-MTAENIEIGI  197 (352)
Q Consensus       172 ai~l~~~~l~~~~~~d-~~~~~iei~i  197 (352)
                      |++++++|++.+.+|| .++++++|-.
T Consensus       145 A~~la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        145 AEEIAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             HHHHHHHHHHHHHHhCeeCCCcEEEEE
Confidence            9999999999999999 9999998854

>KOG0180|consensus

Probab=99.97  E-value=6.9e-30  Score=210.58  Aligned_cols=184  Identities=17%  Similarity=0.237  Sum_probs=176.3

Q ss_pred             cCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy2869          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (352)
Q Consensus        16 ~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (352)
                      -+|++|||+++|+||.+|+|.|....+.  ..+.+|||++.|++++|.+|+..|++.+.++++...+.|+++.++.+.|+
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            4799999999999999999999988777  78999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEec-ceEEecCCCchhHHHHHhhcCCCCCHHH
Q psy2869          94 QLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAW-KATAMGRNYVNGKTFLEKRYSEDLELDD  171 (352)
Q Consensus        94 ~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~e  171 (352)
                      .++.++|.++|+.+    +-||-+..+|||+|++ .|++..+|..|..... ++.+.|.++....+++|..|+|||..|+
T Consensus        86 ~~s~mvS~~lYekR----fgpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~  161 (204)
T KOG0180|consen   86 TFSSMVSSLLYEKR----FGPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDE  161 (204)
T ss_pred             HHHHHHHHHHHHhh----cCCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHH
Confidence            99999999999988    6699999999999997 8999999999998766 6999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCCceEEEEEeCCCe
Q psy2869         172 AVHTAILTLKEGFEGQ-MTAENIEIGIADENGF  203 (352)
Q Consensus       172 ai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~  203 (352)
                      ..+.+..+|-.+.+|| ++++...|++|+||.+
T Consensus       162 LFetisQa~Lna~DRDalSGwGa~vyiI~kdkv  194 (204)
T KOG0180|consen  162 LFETISQALLNAVDRDALSGWGAVVYIITKDKV  194 (204)
T ss_pred             HHHHHHHHHHhHhhhhhhccCCeEEEEEccchh
Confidence            9999999999999999 9999999999999974

>KOG0183|consensus

Probab=99.97  E-value=3.4e-31  Score=225.51  Aligned_cols=118  Identities=35%  Similarity=0.502  Sum_probs=109.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCC-CeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~g-p~ly~~dp~G  310 (352)
                      .|||+.||++.|++.+|-+|+.|+++.+.|++++.++++|+.+.|.|||.+++||||++.||+|+|++| |+||++||||
T Consensus        73 afaGl~aDArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePsG  152 (249)
T KOG0183|consen   73 AFAGLTADARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPSG  152 (249)
T ss_pred             EecCCCccceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCCc
Confidence            459999999999999999999999999999999999999999999999999999999999999999876 9999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCC--CCCcccccccc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLR--VPNFCGYHIAE  349 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~--~~~~~~~~~~~  349 (352)
                      .|.+|+|.|+|.+|+.++.||||+|++.  .++-++-.|+.
T Consensus       153 ~f~ewka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~i  193 (249)
T KOG0183|consen  153 IFSEWKANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAI  193 (249)
T ss_pred             chhhhhccccccccHHHHHHHHHhcccccccccccHHHHHH
Confidence            9999999999999999999999999987  33444444443

>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=99.96  E-value=1.3e-28  Score=210.50  Aligned_cols=162  Identities=14%  Similarity=0.034  Sum_probs=139.6

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecC-cEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITD-YIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (352)
                      +|+|||+++||||||+|+|++.|.+  +++.+||++|++ |++|+++|..+|++.|.++++.+++.|+.+.++     .+
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~a   75 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HH
Confidence            6899999999999999999999988  889999999999 999999999999999999999999999988773     34


Q ss_pred             HHHHHHHHHHHhhcCCCccce-EEEeEEEEeCCCCEEEEECCCCcEEecc--eEEecCCCchhHHHHHhhcCCC-CCHHH
Q psy2869          96 VQRVAAIMQEYTQSGGVRPFG-VSLLICGWDNKRPYLYQCDPSGAYFAWK--ATAMGRNYVNGKTFLEKRYSED-LELDD  171 (352)
Q Consensus        96 a~~l~~~~~~~~~~~~~rP~~-v~~ivaG~D~~gp~Ly~iDp~G~~~~~~--~~a~G~gs~~~~~~Le~~~~~~-~s~~e  171 (352)
                      ++.+..++ .+    ..+|+. +.++++++    ++||.+||.|++.+.+  +.++|+|+.++.++||..|+++ ||   
T Consensus        76 a~l~~~l~-~~----~~~~~l~a~~iv~~~----~~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms---  143 (171)
T cd01913          76 VELAKDWR-TD----RYLRRLEAMLIVADK----EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLS---  143 (171)
T ss_pred             HHHHHHHH-hc----cCcCceEEEEEEeCC----CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC---
Confidence            44433322 12    245555 66776644    4999999999999995  9999999999999999999995 99   


Q ss_pred             HHHHHHHHHHHhhccC-CCCCceEEEE
Q psy2869         172 AVHTAILTLKEGFEGQ-MTAENIEIGI  197 (352)
Q Consensus       172 ai~l~~~~l~~~~~~d-~~~~~iei~i  197 (352)
                      +.++++++++.+.+|| .++++++|-.
T Consensus       144 ~~~la~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         144 AEEIARKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             HHHHHHHHHHHHHhhCcccCCCEEEEe
Confidence            5599999999999999 9999998754

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=99.96  E-value=5e-28  Score=206.26  Aligned_cols=160  Identities=37%  Similarity=0.534  Sum_probs=155.1

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+||++++||||+|+|++.+.+..  .....|+++++++++++++|..+|++.+.++++.+++.|++.++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            5899999999999999999999888  67889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEec-ceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAW-KATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +.+++.++.+++   .||+++++|+||+|+++|+||.+||+|++.++ .++++|.++..+.++|++.|+++|+++|++++
T Consensus        81 ~~~~~~~~~~~~---~~p~~~~~iiag~~~~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~  157 (164)
T cd01901          81 KELAKLLQVYTQ---GRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVEL  157 (164)
T ss_pred             HHHHHHHHHhcC---CCCcceEEEEEEEcCCCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHH
Confidence            999999999987   79999999999999989999999999999999 99999999999999999999999999999999


Q ss_pred             HHHHHH
Q psy2869         176 AILTLK  181 (352)
Q Consensus       176 ~~~~l~  181 (352)
                      +.+||.
T Consensus       158 ~~~~l~  163 (164)
T cd01901         158 ALKALK  163 (164)
T ss_pred             HHHHHh
Confidence            999985

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

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.96  E-value=2.8e-28  Score=208.46  Aligned_cols=163  Identities=15%  Similarity=0.106  Sum_probs=138.9

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (352)
                      +|+|||+++||||||+|+|++.|.+  +++.+||++| ++|++|+++|..+|++.|.++++.+++.|+...     .+.+
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            6899999999999999999999988  8899999999 599999999999999999999999999988643     3555


Q ss_pred             HHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEec--ceEEecCCCchhHHHHHhhc-CCCCCHHHH
Q psy2869          96 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAW--KATAMGRNYVNGKTFLEKRY-SEDLELDDA  172 (352)
Q Consensus        96 a~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~--~~~a~G~gs~~~~~~Le~~~-~~~~s~~ea  172 (352)
                      ++.+++    ++.+...+.+.+.+|++++    ++||.+||.|++.+.  ++.++|+|+.++.++||..| +++|+   |
T Consensus        76 a~l~~~----~~~~~~~~~l~a~~iv~~~----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s---a  144 (171)
T TIGR03692        76 VELAKD----WRTDRYLRRLEAMLIVADK----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS---A  144 (171)
T ss_pred             HHHHHH----HhhcccccccEEEEEEEcC----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC---H
Confidence            555444    3222223334577777644    499999999999997  59999999999999999999 47778   9


Q ss_pred             HHHHHHHHHHhhccC-CCCCceEEEE
Q psy2869         173 VHTAILTLKEGFEGQ-MTAENIEIGI  197 (352)
Q Consensus       173 i~l~~~~l~~~~~~d-~~~~~iei~i  197 (352)
                      ++++.++++.+.+|| .++++++|-.
T Consensus       145 ~~la~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       145 EEIAREALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             HHHHHHHHHHHHhhCccCCCCEEEEe
Confidence            999999999999999 9999998754

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

>KOG0178|consensus

Probab=99.96  E-value=2e-29  Score=214.17  Aligned_cols=153  Identities=33%  Similarity=0.413  Sum_probs=128.5

Q ss_pred             ceEEEEEeCCCeEEcCh-hHHHHH------HhhC-ccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCC
Q psy2869         192 NIEIGIADENGFRRLDV-ATVRDH------LSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIP  263 (352)
Q Consensus       192 ~iei~ii~~~g~~~l~~-~ei~~~------l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~  263 (352)
                      ..-|.++.+||+-.... .+..++      .+++ .-+.+++|     ..+|+++|+.+|++.+|..+++|.++||++||
T Consensus        32 Gt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC-----~vaGlt~DAnvL~n~aRi~AQ~yl~~y~e~iP  106 (249)
T KOG0178|consen   32 GTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIAC-----AVAGLTSDANVLKNYARIIAQRYLFRYGEEIP  106 (249)
T ss_pred             cceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEE-----EEecccccHHHHHHHHHHHHHHHHHHhCCCCc
Confidence            45677888888422221 222222      3344 34455555     45999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCC-C
Q psy2869         264 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVP-N  341 (352)
Q Consensus       264 ~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~-~  341 (352)
                      +++|++.|+++.|.||||+|.||||||+|.+|||+ .|.+||+.||||+|..|||+|+|.+++.|++.|...|+++.. -
T Consensus       107 ~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gWka~ciG~N~~Aa~s~Lkqdykdd~~~~  186 (249)
T KOG0178|consen  107 CEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGWKATCIGANSGAAQSMLKQDYKDDENDL  186 (249)
T ss_pred             HHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCccccceeeeccchHHHHHHHHhhhccccccH
Confidence            99999999999999999999999999999999997 489999999999999999999999999999999999999976 6


Q ss_pred             cccccccc
Q psy2869         342 FCGYHIAE  349 (352)
Q Consensus       342 ~~~~~~~~  349 (352)
                      .+|-++|.
T Consensus       187 ~eA~~lai  194 (249)
T KOG0178|consen  187 EEAKALAI  194 (249)
T ss_pred             HHHHHHHH
Confidence            66666653

>KOG0176|consensus

Probab=99.96  E-value=4e-29  Score=210.36  Aligned_cols=152  Identities=24%  Similarity=0.347  Sum_probs=127.0

Q ss_pred             ceEEEEEeCCCe------EEcChhHHHHHHhhC-ccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCH
Q psy2869         192 NIEIGIADENGF------RRLDVATVRDHLSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPT  264 (352)
Q Consensus       192 ~iei~ii~~~g~------~~l~~~ei~~~l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~  264 (352)
                      .--|.|-+++|+      |..+|--...-++++ +.+.|+.|     .+||+.||++.|++.+|.++++|++.||++|+|
T Consensus        35 sTaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgc-----a~SGl~aDarTlve~arv~~qnh~f~Y~e~i~V  109 (241)
T KOG0176|consen   35 STAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGC-----AMSGLIADARTLVERARVETQNHWFTYGEPISV  109 (241)
T ss_pred             CceeeeeccceEEEEEeccccCcccCchhhhhheehhhceee-----eccccccchHHHHHHHHHHhhhceeecCCcccH
Confidence            345666677773      333333222333444 55666666     569999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcC-----CccccceeeEEEEEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCC
Q psy2869         265 QQLVQRVAAIMQEYTQSG-----GVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRV  339 (352)
Q Consensus       265 ~~l~~~ls~~~q~~t~~~-----~~RP~g~~~ll~G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~  339 (352)
                      +.+++.+|++.-+|....     ..|||||++|++|+|++||+||+.||||+|..|+|.|||+||+.|++.|++.|.+++
T Consensus       110 Es~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~gpqL~h~dPSGtf~~~~AKAIGSgsEga~~~L~~e~~~~l  189 (241)
T KOG0176|consen  110 ESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDETGPQLYHLDPSGTFIRYKAKAIGSGSEGAESSLQEEYHKDL  189 (241)
T ss_pred             HHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCCCceEEEeCCCCceEEecceeccccchHHHHHHHHHHhhcc
Confidence            999999999999987663     259999999999999999999999999999999999999999999999999999999


Q ss_pred             CCccccccc
Q psy2869         340 PNFCGYHIA  348 (352)
Q Consensus       340 ~~~~~~~~~  348 (352)
                      +--+|..++
T Consensus       190 tL~ea~~~~  198 (241)
T KOG0176|consen  190 TLKEAEKIV  198 (241)
T ss_pred             cHHHHHHHH
Confidence            987776554

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=99.95  E-value=1.5e-28  Score=220.05  Aligned_cols=121  Identities=31%  Similarity=0.421  Sum_probs=116.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|+.+|++.|.+++|.++.+|+..++++||++.+++.||+++|.||++++.|||+|++||+|||++||+||++||+|+
T Consensus        73 ~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~gp~Ly~~D~~Gs  152 (212)
T cd03751          73 AVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGV  152 (212)
T ss_pred             EEEEChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCCcCEEEEECCCCC
Confidence            44999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.+++++|+|+|+..|+++||++|+++|+.++|..++.++|
T Consensus       153 ~~~~~~~a~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L  193 (212)
T cd03751         153 SYGYFGCAIGKGKQAAKTELEKLKFSELTCREAVKEAAKII  193 (212)
T ss_pred             EEeeEEEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999988887653

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

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

Probab=99.95  E-value=4e-28  Score=220.32  Aligned_cols=119  Identities=33%  Similarity=0.435  Sum_probs=115.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|++++|.+++.|++.++++|+++.++++||+++|.||++  .|||||++|++|+|+++|+||++||+|+
T Consensus        74 ~~sG~~aDa~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~rP~gv~~iiaG~d~~~p~Ly~~Dp~G~  151 (236)
T COG0638          74 AIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDDGGPRLYSTDPSGS  151 (236)
T ss_pred             EeccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--cccceEEEEEEEEcCCCCeEEEECCCCc
Confidence            45999999999999999999999999999999999999999999999998  9999999999999987799999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.+++++|+|+|++.|+++||++|+++|+..+|.++|.+||
T Consensus       152 ~~~~~~~a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al  192 (236)
T COG0638         152 YNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKAL  192 (236)
T ss_pred             eeecCEEEEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988764

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=99.95  E-value=1.1e-27  Score=214.48  Aligned_cols=121  Identities=31%  Similarity=0.410  Sum_probs=115.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|.+.+|.++.+|+++++++||++.+|+.+++++|.||++++.|||+|++||+|||++||+||++||+|+
T Consensus        68 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~gp~Ly~~Dp~G~  147 (211)
T cd03749          68 AIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGN  147 (211)
T ss_pred             EEEeChHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCCCeEEEECCCcC
Confidence            44999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhc--CCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREK--LRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~--~~~~~~~~~~~~~~~~  352 (352)
                      +.+++++|+|+|++.|+++||++|+  ++|+.+++..+|.++|
T Consensus       148 ~~~~~~~a~G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l  190 (211)
T cd03749         148 YFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRAL  190 (211)
T ss_pred             EeeeeEEEECCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999  4899999988887653

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=99.94  E-value=1.2e-27  Score=214.67  Aligned_cols=131  Identities=40%  Similarity=0.570  Sum_probs=121.6

Q ss_pred             HhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEE
Q psy2869         215 LSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC  294 (352)
Q Consensus       215 l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~  294 (352)
                      +.++..++.++       +||+.+|++.+.+.+|.++..|+++++++|+++.+++.||.++|.||++++.|||+|++|++
T Consensus        63 I~~I~~~i~~~-------~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~  135 (213)
T cd03752          63 IYKIDDHIACA-------VAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYA  135 (213)
T ss_pred             EEEecCCEEEE-------EecChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEE
Confidence            44445555554       49999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeC-CCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         295 GWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       295 G~d~-~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |||+ .||+||.+||+|++.+++++|+|++++.++++||++|+++|+.+++..++.++|
T Consensus       136 G~D~~~g~~ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al  194 (213)
T cd03752         136 GWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEALALAVKVL  194 (213)
T ss_pred             EEeCCCCCEEEEECCCCCeeeeeEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            9995 689999999999999999999999999999999999999999999999987764

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=99.94  E-value=1.3e-27  Score=213.46  Aligned_cols=121  Identities=37%  Similarity=0.563  Sum_probs=116.4

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .++|+.+|++.|.+.+|.++..|+.+++++|+++.+++.|++++|.||+.++.|||+|++||+|||+ +||+||++||+|
T Consensus        70 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G  149 (207)
T cd03755          70 AFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSG  149 (207)
T ss_pred             EEecchhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCc
Confidence            4499999999999999999999999999999999999999999999999999999999999999996 489999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.+++++|+|+|++.++++||++|+++|+.+++.+++.++|
T Consensus       150 ~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l  191 (207)
T cd03755         150 TYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIKAL  191 (207)
T ss_pred             CEEcceEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987653

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.

>KOG0863|consensus

Probab=99.94  E-value=1.4e-26  Score=199.51  Aligned_cols=128  Identities=26%  Similarity=0.419  Sum_probs=119.8

Q ss_pred             EcChhHHHHHHhhC-ccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCC
Q psy2869         205 RLDVATVRDHLSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGG  283 (352)
Q Consensus       205 ~l~~~ei~~~l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~  283 (352)
                      .-..+|+..+.+++ +.+.|+.+     .+||+++|+++|.++||.+|.+|+..|++++||..|...|.+.+|..||.++
T Consensus        50 ~r~~seLss~QkKi~~iD~h~g~-----siAGLt~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~yg  124 (264)
T KOG0863|consen   50 KRAQSELSSHQKKIFKIDDHIGI-----SIAGLTADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYG  124 (264)
T ss_pred             ccchhHHHHhhheeEecccccce-----EEeccCcchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhC
Confidence            34578888888888 77777766     6799999999999999999999999999999999999999999999999999


Q ss_pred             ccccceeeEEEEEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcC
Q psy2869         284 VRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKL  337 (352)
Q Consensus       284 ~RP~g~~~ll~G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~  337 (352)
                      +|||||+++++|+|+.|||||.++|+|.+.++++++||+.||.|+++||++...
T Consensus       125 rRpYGVGllv~gYDe~G~hl~e~~Psg~v~e~~g~sIGsRSQsARTyLEr~~e~  178 (264)
T KOG0863|consen  125 RRPYGVGLLVAGYDESGPHLYEFCPSGNVFECKGMSIGSRSQSARTYLERNLEE  178 (264)
T ss_pred             CccccceEEEEeecCCCceeEEEcCCccEEEEeeeecccchhhHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999997654

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=99.94  E-value=3.5e-27  Score=213.58  Aligned_cols=120  Identities=51%  Similarity=0.768  Sum_probs=116.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|+.+|++.|.+.+|.++.+|+..+|++||++.+++.|++++|.||++++.|||+|++|++|||++||+||++||+|+
T Consensus        70 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~g~~Ly~~d~~G~  149 (227)
T cd03750          70 VYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGS  149 (227)
T ss_pred             EEeEcHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCCCCEEEEECCCCC
Confidence            44999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      +.+++++|+|+|++.|+++||++|+++|+.+++.+++..+
T Consensus       150 ~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eeai~l~~~~  189 (227)
T cd03750         150 YFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAILT  189 (227)
T ss_pred             EEeeeEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999988764

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

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=99.94  E-value=4.7e-27  Score=210.96  Aligned_cols=121  Identities=31%  Similarity=0.439  Sum_probs=115.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .++|+.+|++.|.+.+|.++..|+++++++||++.+|+.+|+++|.||++++.|||||++||+|+|+ +||+||.+||+|
T Consensus        72 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~G  151 (215)
T cd03754          72 VMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAG  151 (215)
T ss_pred             EEEechhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCc
Confidence            4599999999999999999999999999999999999999999999999999999999999999996 689999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCC--C--CCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLR--V--PNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~--~--~~~~~~~~~~~~~  352 (352)
                      ++.+++++|+|+|++.|+++||++|+++  |  +.+++.+++.++|
T Consensus       152 s~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al  197 (215)
T cd03754         152 YFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCL  197 (215)
T ss_pred             cEEeEEEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999995  6  8899988887653

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

>KOG0182|consensus

Probab=99.93  E-value=1.8e-26  Score=196.49  Aligned_cols=140  Identities=28%  Similarity=0.410  Sum_probs=124.9

Q ss_pred             EcChhHHHHHHhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCc
Q psy2869         205 RLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGV  284 (352)
Q Consensus       205 ~l~~~ei~~~l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~  284 (352)
                      .|...+...++.++++.+++++       +|+.+|++..+.++|.++.++++.||-+||++.||+.++++.|.|||...+
T Consensus        59 KLld~~tvt~~f~itk~ig~v~-------tG~~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~m  131 (246)
T KOG0182|consen   59 KLLDSSTVTHLFRITKKIGCVI-------TGMIADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAM  131 (246)
T ss_pred             cccccccceeEEEeeccceEEE-------ecCCcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhh
Confidence            3334443446788888888888       999999999999999999999999999999999999999999999999999


Q ss_pred             cccceeeEEEEEeC-CCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         285 RPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       285 RP~g~~~ll~G~d~-~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ||+||.++|.|+|+ .||.+|++||+|.|.+++|+|.|...+.+..+|||+||++.. |...++.+.||
T Consensus       132 Rplg~~~~~i~~D~E~gP~vYk~DpAGyy~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~-~t~~e~ve~ai  199 (246)
T KOG0182|consen  132 RPLGVAATLIGVDEERGPSVYKTDPAGYYYGFKATAAGVKQQEATSFLEKKYKKDID-LTFEETVETAI  199 (246)
T ss_pred             cccceeEEEEEeccccCcceEeecCccccccceeeecccchhhHHHHHHHhhccCcc-chHHHHHHHHH
Confidence            99999999999997 589999999999999999999999999999999999999744 66666655543

>PTZ00246 proteasome subunit alpha; Provisional

Probab=99.93  E-value=3.8e-26  Score=210.12  Aligned_cols=131  Identities=34%  Similarity=0.520  Sum_probs=121.6

Q ss_pred             HhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEE
Q psy2869         215 LSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC  294 (352)
Q Consensus       215 l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~  294 (352)
                      +.++..++.+++       +|+.+|++.+.+.+|.++.+|++.+++++|+..+++.++..+|.|||+++.|||+|++||+
T Consensus        65 I~~I~~~i~~~~-------sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~  137 (253)
T PTZ00246         65 IYKIDSHIFCAV-------AGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFA  137 (253)
T ss_pred             EEEecCCEEEEE-------EEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEE
Confidence            445555555555       9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeC-CCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         295 GWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       295 G~d~-~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |||+ .||+||++||+|++.+++++|+|+|++.|+++||++|+++|+.++|.+++..+|
T Consensus       138 G~D~~~gp~Ly~~D~~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al  196 (253)
T PTZ00246        138 GYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVL  196 (253)
T ss_pred             EEeCCCCcEEEEECCCCCEecceEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            9995 689999999999999999999999999999999999999999999999987653

>KOG0184|consensus

Probab=99.93  E-value=7.8e-26  Score=193.87  Aligned_cols=129  Identities=25%  Similarity=0.409  Sum_probs=117.4

Q ss_pred             cChhHHHHHHhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCcc
Q psy2869         206 LDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVR  285 (352)
Q Consensus       206 l~~~ei~~~l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~R  285 (352)
                      |-..+.+..+.++.+++++++       +|+.+|.+.|...+|.++.+|+.+|+.|+|+..++.+++++.|.||.++..|
T Consensus        58 Ly~p~sn~ri~~V~r~iG~av-------aGl~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vR  130 (254)
T KOG0184|consen   58 LYEPGSNERIFSVDRHIGMAV-------AGLIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVR  130 (254)
T ss_pred             ccccCCCCceEeecccccEEE-------eccccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccc
Confidence            333444556777788888888       9999999999999999999999999999999999999999999999999999


Q ss_pred             ccceeeEEEEEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCC
Q psy2869         286 PFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPN  341 (352)
Q Consensus       286 P~g~~~ll~G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~  341 (352)
                      |||++.++++||.+|||||.+||||.+.+|+++|+|+|.|.|++.|||.--+.|+-
T Consensus       131 pfG~~~~~~~yd~~g~~LymiepSG~~~~Y~~aaiGKgrq~aKtElEKL~~~~mt~  186 (254)
T KOG0184|consen  131 PFGASTILGSYDDEGPQLYMIEPSGSSYGYKGAAIGKGRQAAKTELEKLKIDEMTC  186 (254)
T ss_pred             cccceEEEEEEeCCCceEEEEcCCCCccceeeeeccchhHHHHHHHHhcccccccH
Confidence            99999999999999999999999999999999999999999999999865444543

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=99.93  E-value=3.6e-26  Score=202.00  Aligned_cols=128  Identities=16%  Similarity=0.116  Sum_probs=117.2

Q ss_pred             HhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEE
Q psy2869         215 LSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC  294 (352)
Q Consensus       215 l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~  294 (352)
                      +.++..+..+++       +|+.+|++.|++.+|.++..|+++++++||++.+++.|++++|.|++..  |||++++|++
T Consensus        35 I~~I~~~i~~~~-------sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~--rP~~~~~li~  105 (193)
T cd03758          35 IYKLSDHKLMAC-------SGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSR--TPYQVNLLLA  105 (193)
T ss_pred             EEEeCCCeEEEE-------ccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcC--CCeEEEEEEE
Confidence            444555555555       9999999999999999999999999999999999999999999998764  9999999999


Q ss_pred             EEeC-CCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         295 GWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       295 G~d~-~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      |||+ .||+||++||+|++.+++++|+|+|++.|+++||++|+++|+.+++.+++..+
T Consensus       106 G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~a  163 (193)
T cd03758         106 GYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKC  163 (193)
T ss_pred             EEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHHHHHH
Confidence            9996 68999999999999999999999999999999999999999999999887654

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.

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=99.92  E-value=8.3e-26  Score=202.47  Aligned_cols=121  Identities=36%  Similarity=0.488  Sum_probs=116.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|+.+|++.+.+.++.++..|++++++++|++.+++.||..+|.|+++++.|||+|++||+|+|+.||+||.+||+|+
T Consensus        71 ~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~~~ly~vd~~G~  150 (211)
T cd03756          71 ATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGA  150 (211)
T ss_pred             EEecCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCCCCEEEEECCCCC
Confidence            45999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.+++++|+|++++.|+++||+.|+++|+..++.+++.+++
T Consensus       151 ~~~~~~~a~G~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l  191 (211)
T cd03756         151 YNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKAL  191 (211)
T ss_pred             eeeeEEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999887653

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=99.92  E-value=1.1e-25  Score=205.75  Aligned_cols=121  Identities=35%  Similarity=0.471  Sum_probs=117.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|+.+|++.+.+.+|.++..|+.+++++||++.+++.|++.+|.||++++.|||+|++||+|+|++||+||.+||+|+
T Consensus        79 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~gp~Ly~id~~G~  158 (241)
T PRK03996         79 ASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGA  158 (241)
T ss_pred             EEcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCCcCEEEEECCCCC
Confidence            45999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.+++++|+|+|+..|+++||++|+++|+..+|.+++.++|
T Consensus       159 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al  199 (241)
T PRK03996        159 YLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKAL  199 (241)
T ss_pred             eecceEEEECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987653

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=99.92  E-value=5.4e-26  Score=200.07  Aligned_cols=126  Identities=15%  Similarity=0.217  Sum_probs=117.5

Q ss_pred             HhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEE
Q psy2869         215 LSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC  294 (352)
Q Consensus       215 l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~  294 (352)
                      +.++..+..+++       +|+.+|++.|++.+|.++.+|+++++++||++.+|+.|++++|.+|++    ||+|++||+
T Consensus        34 I~~I~~~i~~~~-------sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la~~ls~~l~~~~~~----~~~v~~li~  102 (188)
T cd03761          34 VIEINPYLLGTM-------AGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNMLYQYKGM----GLSMGTMIC  102 (188)
T ss_pred             EEEccCcEEEEe-------CccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCC----CeEEEEEEE
Confidence            445556655555       999999999999999999999999999999999999999999999876    799999999


Q ss_pred             EEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         295 GWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       295 G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      |||++||+||++||+|++.++++.|+|+|++.|+++||+.|+++|+.+++.+++.++
T Consensus       103 G~D~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~~~~  159 (188)
T cd03761         103 GWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRA  159 (188)
T ss_pred             EEeCCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            999889999999999999999999999999999999999999999999999988765

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

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=99.92  E-value=1.7e-25  Score=200.81  Aligned_cols=121  Identities=23%  Similarity=0.354  Sum_probs=115.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcC-----CccccceeeEEEEEeCCCCeEEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSG-----GVRPFGVSLLICGWDNKRPYLYQC  306 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~-----~~RP~g~~~ll~G~d~~gp~ly~~  306 (352)
                      .++|+.+|++.+.+.+|.++.+|+.+++++||++.+++.|+..+|.|++..     ..|||+|++||+|||++||+||.+
T Consensus        70 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~gp~Ly~v  149 (213)
T cd03753          70 AMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHT  149 (213)
T ss_pred             EEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCCCCEEEEE
Confidence            459999999999999999999999999999999999999999999999854     469999999999999989999999


Q ss_pred             CCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         307 DPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       307 dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ||+|++.+++++|+|++++.|+++||++|+++|+.++|.+++.++|
T Consensus       150 d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l  195 (213)
T cd03753         150 DPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSIL  195 (213)
T ss_pred             CCCCCeecccEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988764

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=99.92  E-value=4.5e-25  Score=199.47  Aligned_cols=121  Identities=33%  Similarity=0.469  Sum_probs=116.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|.+.++.++..|+.+++++++++.+++.|++.+|.|++.++.|||+|++||+|+|+++|+||.+||+|+
T Consensus        72 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~~~~~Ly~~D~~G~  151 (224)
T TIGR03633        72 ATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGA  151 (224)
T ss_pred             EEeecHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeCCcCEEEEECCCCC
Confidence            55999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.+++++|+|+++..|+++||+.|+++|+..++.+++.+++
T Consensus       152 ~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al  192 (224)
T TIGR03633       152 LLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKAL  192 (224)
T ss_pred             eecceEEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987753

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.

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=99.91  E-value=5.4e-25  Score=198.89  Aligned_cols=120  Identities=13%  Similarity=0.107  Sum_probs=109.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCC-CCCHHHHHHHHHHHH-HHhhhcCC-----ccccceeeEEEEEe-CCCCeE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATE-NIPTQQLVQRVAAIM-QEYTQSGG-----VRPFGVSLLICGWD-NKRPYL  303 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~-~~~~~~l~~~ls~~~-q~~t~~~~-----~RP~g~~~ll~G~d-~~gp~l  303 (352)
                      ..||+.||++.|++.+|.++.+|++++|+ +||++.+|+.+++++ |.++|+.+     .|||||++|++||| +.||+|
T Consensus        47 ~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~L  126 (236)
T cd03765          47 LTAGNLATTQAVISLLQRDLEDPEETNLLNAPTMFDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRL  126 (236)
T ss_pred             EcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCHHHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEE
Confidence            34999999999999999999999999999 899999999999985 56777775     48999999999999 468999


Q ss_pred             EEECCCCceeceeE----EEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         304 YQCDPSGAYFAWKA----TAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       304 y~~dp~G~~~~~~~----~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |++||+|++.++++    +|+|+ ++.|+++||++|+++|+.++|..+|.++|
T Consensus       127 Y~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek~yk~~ms~eeai~la~~al  178 (236)
T cd03765         127 FLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDRVITPDTSLEDAAKCALVSM  178 (236)
T ss_pred             EEECCCCCEEeecCCCceeeeCC-chhhHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            99999999999976    79996 79999999999999999999999987664

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=5.1e-25  Score=195.32  Aligned_cols=128  Identities=13%  Similarity=0.125  Sum_probs=115.6

Q ss_pred             HhhCccchHHHHhhccccccCCccchhHHHHHHHHHHh-hhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEE
Q psy2869         215 LSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGF-RRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLI  293 (352)
Q Consensus       215 l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~-~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll  293 (352)
                      +.++..++.+++       +|+.+|++.|++.+|.++. .|+..++++||++.+++.|+++  .||++++.|||+|++|+
T Consensus        36 I~~i~~~i~~~~-------sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~i~~~--~y~~~~~~rP~~v~~ii  106 (197)
T cd03760          36 IFKVGDNTLLGA-------SGDYADFQYLKRLLDQLVIDDECLDDGHSLSPKEIHSYLTRV--LYNRRSKMNPLWNTLVV  106 (197)
T ss_pred             EEEecCcEEEEe-------CcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HHHHhhcCCCceEEEEE
Confidence            444455555555       9999999999999999986 5778899999999999999997  58888899999999999


Q ss_pred             EEEeC-CCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcC--CCCCcccccccccc
Q psy2869         294 CGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKL--RVPNFCGYHIAESL  351 (352)
Q Consensus       294 ~G~d~-~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~--~~~~~~~~~~~~~~  351 (352)
                      +|||+ .||+||++||+|++.++++.|+|+|++.++++||+.|++  +|+..++.+++.++
T Consensus       107 aG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea~~l~~~~  167 (197)
T cd03760         107 GGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEEC  167 (197)
T ss_pred             EEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHH
Confidence            99997 689999999999999999999999999999999999999  99999999888665

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=99.91  E-value=1e-24  Score=196.35  Aligned_cols=129  Identities=14%  Similarity=0.110  Sum_probs=116.1

Q ss_pred             hhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEE
Q psy2869         216 SNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICG  295 (352)
Q Consensus       216 ~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G  295 (352)
                      .++..+..++       ++|+.+|++.|.+.+|.++..|+.+++++||++.+++.||+++|.+++ +..|||+|++||+|
T Consensus        37 ~~i~~~i~~~-------~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~-~~~rp~~v~~iiaG  108 (219)
T TIGR03690        37 YPTDEYSAVG-------IAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAMVRGNLP-AAMQGLAVVPLLAG  108 (219)
T ss_pred             EEcCCcEEEE-------ecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhhh-hccCCceEEEEEEE
Confidence            3444555544       499999999999999999999999999999999999999999999884 45899999999999


Q ss_pred             EeC--CCCeEEEECCCC-ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         296 WDN--KRPYLYQCDPSG-AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       296 ~d~--~gp~ly~~dp~G-~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ||+  .+|+||++||+| ++.+++++|+|+|++.|+++||++|+++|+.+++.+++.++|
T Consensus       109 ~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al  168 (219)
T TIGR03690       109 YDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRVAVEAL  168 (219)
T ss_pred             ECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHHHHHHHHHHH
Confidence            995  469999999999 688889999999999999999999999999999999887653

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.

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=99.91  E-value=9.1e-25  Score=197.13  Aligned_cols=154  Identities=11%  Similarity=0.050  Sum_probs=126.5

Q ss_pred             CceEEEEEeCCCeEEcChh--HHHHHHhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcC-CCCCHHHH
Q psy2869         191 ENIEIGIADENGFRRLDVA--TVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVAT-ENIPTQQL  267 (352)
Q Consensus       191 ~~iei~ii~~~g~~~l~~~--ei~~~l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~l  267 (352)
                      +.--|++..++|+-...+.  +-.+-+.+|..++++++       +|+.+|++.|++.++.++..|++.++ .+++++.+
T Consensus        27 g~T~VGIk~kdgVVLaaek~~~~~~KI~~I~d~ig~~~-------sG~~~D~~~lv~~~r~~a~~~~~~~~~~~~~v~~l   99 (228)
T TIGR03691        27 GRSVVVLTYADGILFVAENPSRSLHKISELYDRIGFAA-------VGKYNEFENLRRAGIRYADMRGYSYDRRDVTGRGL   99 (228)
T ss_pred             CCcEEEEEeCCeEEEEEecCCCCcCcEEEecCCEEEEE-------cCCHHHHHHHHHHHHHHHHHHhhhcCCCCccHHHH
Confidence            3566788888884332221  11122444456666555       99999999999999999999999998 78999999


Q ss_pred             HHHHHHHHHHhhhcCCccccceeeEEEEEeC--CCCeEEEECCCCceecee-EEEecCCchHHHHHHHHhhcCCCCCccc
Q psy2869         268 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLEKREKLRVPNFCG  344 (352)
Q Consensus       268 ~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~--~gp~ly~~dp~G~~~~~~-~~a~G~~s~~a~~~Le~~~~~~~~~~~~  344 (352)
                      |+.+++.+..++ +++.|||||++|++|||+  +||+||.+||+|++.+++ ++|+|+|++.|+++||++|+++|+.+++
T Consensus       100 a~~~tq~~~~~~-~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~Lek~y~~~ms~eea  178 (228)
T TIGR03691       100 ANAYAQTLGTIF-TEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADA  178 (228)
T ss_pred             HHHHHhhccccc-ccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChHHHHHHHHHhcCCCCCHHHH
Confidence            987777776666 567899999999999984  689999999999999976 7999999999999999999999999999


Q ss_pred             cccccccC
Q psy2869         345 YHIAESLI  352 (352)
Q Consensus       345 ~~~~~~~~  352 (352)
                      .++|.++|
T Consensus       179 i~la~~aL  186 (228)
T TIGR03691       179 LGLAVQAL  186 (228)
T ss_pred             HHHHHHHH
Confidence            99987653

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.

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=99.90  E-value=3.1e-24  Score=188.43  Aligned_cols=116  Identities=20%  Similarity=0.193  Sum_probs=110.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|+.+|++.|.+.++.+++.|+..++++||++.+++.|+..+|.+    ..|||+|++|++|+|++||+||.+||+|+
T Consensus        45 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~----~~rP~~v~~ivaG~d~~g~~Ly~~d~~G~  120 (185)
T TIGR03634        45 TIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNILNSN----RFFPFIVQLLVGGVDEEGPHLYSLDPAGG  120 (185)
T ss_pred             EcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc----CCCCeEEEEEEEEEeCCCCEEEEECCCCC
Confidence            45999999999999999999999999999999999999999999887    57999999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      +.++++.|+|++++.++++||+.|+++|+..+|..++..+
T Consensus       121 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~  160 (185)
T TIGR03634       121 IIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRA  160 (185)
T ss_pred             eEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999988664

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.

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=99.90  E-value=4.3e-24  Score=191.12  Aligned_cols=120  Identities=43%  Similarity=0.618  Sum_probs=115.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~dp~G  310 (352)
                      +++|..+|++.+.+.++.++..|+..+|++|+++.+|+.+|.++|.|+++++.|||+|++||+|+|++ ||+||.+||+|
T Consensus        70 ~~sG~~~D~~~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G  149 (209)
T cd01911          70 AVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSG  149 (209)
T ss_pred             EeccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCC
Confidence            45999999999999999999999999999999999999999999999999999999999999999975 89999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      ++.++.++|+|+|+..++++||+.|+++|+..+|.+++.++
T Consensus       150 ~~~~~~~~a~G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~  190 (209)
T cd01911         150 TYFGYKATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKA  190 (209)
T ss_pred             CeeeeeEEEeCCCcHHHHHHHHHhcccCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988765

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.

>KOG0175|consensus

Probab=99.90  E-value=1.1e-24  Score=190.66  Aligned_cols=126  Identities=17%  Similarity=0.243  Sum_probs=119.1

Q ss_pred             HHHHhh-ccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCC
Q psy2869         223 HTAILT-LKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRP  301 (352)
Q Consensus       223 ~~~~~~-l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp  301 (352)
                      .+++.. |.+++||..|||++|.+.|..+|++|++++++.|||...++.||+++.+|+.++    +.++.||+|||++||
T Consensus       105 VIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVsaASKllsN~~y~YkGmG----LsmGtMi~G~Dk~GP  180 (285)
T KOG0175|consen  105 VIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVSAASKLLSNMVYQYKGMG----LSMGTMIAGWDKKGP  180 (285)
T ss_pred             eeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehHHHHHHHHHHHhhccCcc----hhheeeEeeccCCCC
Confidence            333433 567889999999999999999999999999999999999999999999999886    899999999999999


Q ss_pred             eEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         302 YLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       302 ~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      .||++|..|+-.+.+-+++||||..|.++|+..|+.+|++.|||+||+|||
T Consensus       181 ~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~eEA~~L~rrAI  231 (285)
T KOG0175|consen  181 GLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDEEAYDLARRAI  231 (285)
T ss_pred             ceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999997

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=99.90  E-value=6.1e-24  Score=187.03  Aligned_cols=116  Identities=22%  Similarity=0.185  Sum_probs=110.4

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      +++|+.+|++.|.++++.++..|+..++++++++.+++.+++++|.+    ..|||+|++|++|+|+++|+||.+||+|+
T Consensus        44 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~----~~~P~~~~~lvaG~d~~~~~ly~~D~~G~  119 (188)
T cd03764          44 TIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSS----KYFPYIVQLLIGGVDEEGPHLYSLDPLGS  119 (188)
T ss_pred             EcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc----CCCCcEEEEEEEEEeCCCCEEEEECCCCC
Confidence            55999999999999999999999999999999999999999999886    46899999999999988899999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      +.++++.|+|+|++.++++||+.|+++|+..++.+++..+
T Consensus       120 ~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~~~~  159 (188)
T cd03764         120 IIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRA  159 (188)
T ss_pred             EEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999888664

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.

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=99.90  E-value=4.5e-24  Score=188.89  Aligned_cols=127  Identities=11%  Similarity=0.066  Sum_probs=113.1

Q ss_pred             HhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEE
Q psy2869         215 LSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC  294 (352)
Q Consensus       215 l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~  294 (352)
                      +.++..++.+++       +|+.+|++.|++.+|.++..|++.++++||++.+|+.|++.+  |++.  .|||+|++|++
T Consensus        37 I~~I~~~i~~~~-------sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~la~~l~~~l--y~~r--~~P~~v~~ii~  105 (195)
T cd03759          37 VFRIGDRLYIGL-------AGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLL--YEKR--FGPYFVEPVVA  105 (195)
T ss_pred             EEEeCCCEEEEc-------cchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH--HHhc--CCCceEEEEEE
Confidence            344455555555       999999999999999999999999999999999999999987  4443  47999999999


Q ss_pred             EEeCC-CCeEEEECCCCceecee-EEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         295 GWDNK-RPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       295 G~d~~-gp~ly~~dp~G~~~~~~-~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |||++ ||+||++||+|++.+++ +.|+|+|++.|+++||+.|+++|+..+|.+++.+++
T Consensus       106 G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l  165 (195)
T cd03759         106 GLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQAL  165 (195)
T ss_pred             EEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHHH
Confidence            99964 69999999999999998 889999999999999999999999999999987653

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

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=99.89  E-value=8.2e-24  Score=186.39  Aligned_cols=126  Identities=16%  Similarity=0.147  Sum_probs=114.8

Q ss_pred             HhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEE
Q psy2869         215 LSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC  294 (352)
Q Consensus       215 l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~  294 (352)
                      +.++..+..+++       +|+.+|++.|.+.+|.++..|+.+++++|+++.+++.|++.+|.|++     ||+|++|++
T Consensus        34 i~~i~~~i~~~~-------sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~-----p~~v~~iva  101 (189)
T cd03763          34 IHYIAPNIYCCG-------AGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQG-----HIGAALVLG  101 (189)
T ss_pred             eEEecCCEEEEc-------CccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHcCC-----ccceeEEEE
Confidence            444555555444       99999999999999999999999999999999999999999987643     999999999


Q ss_pred             EEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         295 GWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       295 G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |||++||+||.+||+|++.++++.|+|+++..++++||++|+++|+..+|.+++.+++
T Consensus       102 G~d~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l~~~~l  159 (189)
T cd03763         102 GVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAI  159 (189)
T ss_pred             eEcCCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Confidence            9998899999999999999999999999999999999999999999999999987653

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=99.89  E-value=1.2e-23  Score=192.08  Aligned_cols=150  Identities=17%  Similarity=0.190  Sum_probs=124.6

Q ss_pred             CCCceEEEEEeCCCeEE-----cC------hhHHHHHHhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhh
Q psy2869         189 TAENIEIGIADENGFRR-----LD------VATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDV  257 (352)
Q Consensus       189 ~~~~iei~ii~~~g~~~-----l~------~~ei~~~l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~  257 (352)
                      +.+.--|++..+||+-.     ..      +...+ -+.++..++.+++       +|+.+|++.|.+.+|.++.+|+.+
T Consensus        37 ~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~-KI~~I~~~i~~~~-------sG~~aD~~~l~~~lr~~~~~y~~~  108 (247)
T PTZ00488         37 AHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVK-KVIEINPTLLGTM-------AGGAADCSFWERELAMQCRLYELR  108 (247)
T ss_pred             CCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcC-ceEEcCCCEEEEe-------CcCHHHHHHHHHHHHHHHHHHHHH
Confidence            44566777778887422     11      11111 2334445555544       999999999999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhhhcCCcccccee--eEEEEEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhh
Q psy2869         258 ATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS--LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRE  335 (352)
Q Consensus       258 ~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~--~ll~G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~  335 (352)
                      +|++||++.+|+.|++++|.+      |||++.  +||+|||++||+||++||+|++.++++.|+|+|+..|+++||+.|
T Consensus       109 ~g~~isv~~la~~ls~~l~~~------R~~~~~v~~iiaG~D~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~  182 (247)
T PTZ00488        109 NGELISVAAASKILANIVWNY------KGMGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGF  182 (247)
T ss_pred             HCCCCCHHHHHHHHHHHHHhc------CCCCeeEEEEEEEEeCCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcC
Confidence            999999999999999999766      676665  799999988999999999999999999999999999999999999


Q ss_pred             cCCCCCccccccccccC
Q psy2869         336 KLRVPNFCGYHIAESLI  352 (352)
Q Consensus       336 ~~~~~~~~~~~~~~~~~  352 (352)
                      |++|+..++.+++.++|
T Consensus       183 k~dms~eEai~l~~kal  199 (247)
T PTZ00488        183 KWDLNDEEAQDLGRRAI  199 (247)
T ss_pred             cCCCCHHHHHHHHHHHH
Confidence            99999999999987653

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=99.89  E-value=1.8e-23  Score=184.08  Aligned_cols=116  Identities=9%  Similarity=0.032  Sum_probs=109.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .++|+.+|++.|.+.++.+++.|+.+++++||++.+++.+++++|.++     |||+|++||+|+|+ +||+||.+||+|
T Consensus        44 ~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~-----~~~~~~~ii~G~d~~~gp~ly~~d~~G  118 (188)
T cd03762          44 CRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYK-----EMLSAGIIVAGWDEQNGGQVYSIPLGG  118 (188)
T ss_pred             EecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHhcc-----ccceeeEEEEEEcCCCCcEEEEECCCC
Confidence            459999999999999999999999999999999999999999998775     79999999999996 789999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.+.|+|++.++++||+.|+++|+..+|.+++.+++
T Consensus       119 ~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~al  160 (188)
T cd03762         119 MLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNAL  160 (188)
T ss_pred             CEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999988763

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=99.88  E-value=8.8e-23  Score=178.47  Aligned_cols=118  Identities=33%  Similarity=0.429  Sum_probs=113.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .++|+.+|++.|.+.++.++..|+.+++++++++.+++.|++++|.+|++  .|||++++|++|+|+ .+|+||.+||+|
T Consensus        44 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~--~~p~~~~~lv~G~d~~~~~~Ly~id~~G  121 (182)
T cd01906          44 AFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPSG  121 (182)
T ss_pred             EEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCC--ccChheEEEEEEEeCCCCcEEEEECCCC
Confidence            55999999999999999999999999999999999999999999999997  899999999999997 789999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      ++.+++++|+|++++.++++||+.|+++|+..++.+++..+
T Consensus       122 ~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l~~~~  162 (182)
T cd01906         122 SYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKA  162 (182)
T ss_pred             CEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988765

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

>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=99.87  E-value=1.1e-22  Score=179.13  Aligned_cols=121  Identities=31%  Similarity=0.434  Sum_probs=116.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCC-CeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~g-p~ly~~dp~G  310 (352)
                      .++|..+|++.+.+.++.++..|++.++++++++.+++.++.++|.++++.+.||+++++|++|+|+++ |+||.+||+|
T Consensus        49 ~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G  128 (190)
T PF00227_consen   49 GFSGLTADFQYLIRRLREEAQEYRFSYGRPISPEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSG  128 (190)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHHSSGTCHHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTS
T ss_pred             eccccccchHHHHhhhcccchhhhhccCccccchhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeecccc
Confidence            559999999999999999999999999999999999999999999999999999999999999999866 9999999999


Q ss_pred             ceece-eEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAW-KATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~-~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++ .+.|+|+|++.|+++||+.|+++|+..++.+++..++
T Consensus       129 ~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~~ea~~~~~~~l  171 (190)
T PF00227_consen  129 SYIECKRFAAIGSGSQFAQPILEKLYKPDLSLEEAIELALKAL  171 (190)
T ss_dssp             EEEEBSSEEEESTTHHHHHHHHHHHHTTTSSHHHHHHHHHHHH
T ss_pred             ccccccccccchhcchhhhHHHHhhccCCCCHHHHHHHHHHHH
Confidence            99999 5999999999999999999999999999999987653

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 ....

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=99.87  E-value=6.9e-23  Score=183.62  Aligned_cols=126  Identities=13%  Similarity=0.097  Sum_probs=111.6

Q ss_pred             HhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEE
Q psy2869         215 LSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC  294 (352)
Q Consensus       215 l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~  294 (352)
                      +.++..++.+++       +|+.+|++.|.+.+|.++..|++.+|++|+++.+++.|+.+++..+    .|||+|++||+
T Consensus        42 I~~I~~~i~~~~-------sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~ly~~R----~~P~~~~~iia  110 (212)
T cd03757          42 IFKLTDKCVLGS-------SGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRR----FFPYYVFNILA  110 (212)
T ss_pred             EEEcCCCEEEEc-------cchHHHHHHHHHHHHHHHHHHhHHhCCCCCHHHHHHHHHHHHHhhc----CCCeEEEEEEE
Confidence            334445555555       9999999999999999999999999999999999999999984321    36999999999


Q ss_pred             EEeCC-CCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhc---------CCCCCcccccccccc
Q psy2869         295 GWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREK---------LRVPNFCGYHIAESL  351 (352)
Q Consensus       295 G~d~~-gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~---------~~~~~~~~~~~~~~~  351 (352)
                      |||++ +|+||++||+|++.+++++|+|+|+..|+++||+.|+         ++|+.++|.+++.++
T Consensus       111 G~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~~~~ms~eea~~l~~~~  177 (212)
T cd03757         111 GIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDA  177 (212)
T ss_pred             EEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcCCCCCCCHHHHHHHHHHH
Confidence            99964 6999999999999999999999999999999999986         789999999998765

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=99.87  E-value=2e-22  Score=177.45  Aligned_cols=116  Identities=18%  Similarity=0.211  Sum_probs=111.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      +++|+.+|++.|.+.++.++..|+..++++++++.+++.+++++|.+++    |||++++|++|+|+ ++|+||.+||+|
T Consensus        44 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~----~P~~~~~iv~G~d~~~~~~l~~id~~G  119 (189)
T cd01912          44 GTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRG----FPYYVSLIVGGVDKGGGPFLYYVDPLG  119 (189)
T ss_pred             EccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCC----CCeEEEEEEEEEcCCCCeEEEEECCCC
Confidence            4599999999999999999999999999999999999999999999887    89999999999997 689999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      ++.++++.|+|++++.++++||+.|+++|+..++.+++.++
T Consensus       120 ~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~~~~~  160 (189)
T cd01912         120 SLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKA  160 (189)
T ss_pred             CeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988765

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.

>KOG0173|consensus

Probab=99.74  E-value=3.6e-18  Score=149.55  Aligned_cols=152  Identities=15%  Similarity=0.166  Sum_probs=130.4

Q ss_pred             CCCCceEEEEEeCCCe-----------EEcChhHHHHHHhhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhh
Q psy2869         188 MTAENIEIGIADENGF-----------RRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLD  256 (352)
Q Consensus       188 ~~~~~iei~ii~~~g~-----------~~l~~~ei~~~l~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~  256 (352)
                      .+.+..-+.++.++|+           -++.+...++ +..+...+-++-       +|-.||...+.+++..+..+|++
T Consensus        34 tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~K-IH~ia~~IyccG-------AGtAADte~vt~m~ss~l~Lh~l  105 (271)
T KOG0173|consen   34 TKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEK-IHFIAPNIYCCG-------AGTAADTEMVTRMISSNLELHRL  105 (271)
T ss_pred             cccCcEEEEEEeCCeEEEeecccccCCCeeecchhHH-HhhcccceEEcc-------CCchhhHHHHHHHHHHHHHHHHh
Confidence            4555667777788874           1333333333 555555555554       89999999999999999999999


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhc
Q psy2869         257 VATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREK  336 (352)
Q Consensus       257 ~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~  336 (352)
                      +.++.++|-...+.|-+.++.|..+     .|..++++|+|..|||||.+.|.|+.....+.|+||||..|+++||.+||
T Consensus       106 ~t~R~~rVv~A~~mlkQ~LFrYqG~-----IgA~LiiGGvD~TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k  180 (271)
T KOG0173|consen  106 NTGRKPRVVTALRMLKQHLFRYQGH-----IGAALILGGVDPTGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWK  180 (271)
T ss_pred             ccCCCCceeeHHHHHHHHHHHhcCc-----ccceeEEccccCCCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcC
Confidence            9999999999999999999888766     89999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCccccccccccC
Q psy2869         337 LRVPNFCGYHIAESLI  352 (352)
Q Consensus       337 ~~~~~~~~~~~~~~~~  352 (352)
                      ++|+.++|-.|+..||
T Consensus       181 ~dlt~eea~~Lv~eAi  196 (271)
T KOG0173|consen  181 PDLTKEEAIKLVCEAI  196 (271)
T ss_pred             cccCHHHHHHHHHHHH
Confidence            9999999999998775

>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=99.74  E-value=9.1e-18  Score=142.78  Aligned_cols=118  Identities=29%  Similarity=0.289  Sum_probs=112.8

Q ss_pred             ccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCC
Q psy2869         231 EGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG  310 (352)
Q Consensus       231 ~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G  310 (352)
                      ..++|+.+|++.+.+.++.++..|+..+++++++..+++.+++.++.+++   .||+++++|++|+|+++|+||.+||+|
T Consensus        43 ~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~p~~~~~iiag~~~~~~~l~~id~~g  119 (164)
T cd01901          43 WGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDEGGGNLYYIDPSG  119 (164)
T ss_pred             EEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcC---CCCcceEEEEEEEcCCCCEEEEECCCc
Confidence            36799999999999999999999999999999999999999999999998   899999999999998889999999999


Q ss_pred             ceece-eEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         311 AYFAW-KATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       311 ~~~~~-~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      ++.++ .+.++|+++..++++||+.++++++..++.+++..+
T Consensus       120 ~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  161 (164)
T cd01901         120 PVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKA  161 (164)
T ss_pred             CEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            99999 999999999999999999999999999998887654

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

>KOG0179|consensus

Probab=99.63  E-value=9.4e-16  Score=131.01  Aligned_cols=103  Identities=17%  Similarity=0.199  Sum_probs=97.2

Q ss_pred             ccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCcc--ccceeeEEEEEeCCC-CeEEEECCC
Q psy2869         233 FEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVR--PFGVSLLICGWDNKR-PYLYQCDPS  309 (352)
Q Consensus       233 ~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~R--P~g~~~ll~G~d~~g-p~ly~~dp~  309 (352)
                      .+|+.||+..|...++...+.|+..+++.|++..+|++||..+      ++.|  ||++..+|+|+|++| +.+|+.||.
T Consensus        74 ~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~s~A~lls~~L------Y~kRFFPYYv~~ilaGiDeeGKG~VySyDPv  147 (235)
T KOG0179|consen   74 SSGFYADTLALVKVIKSRIKQYEHDHNKKMSIHSAAQLLSTIL------YSKRFFPYYVFNILAGIDEEGKGAVYSYDPV  147 (235)
T ss_pred             cccchhhHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHH------hhcccccceeeeeeecccccCceeEEeecCC
Confidence            3999999999999999999999999999999999999999999      6677  999999999999865 999999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHhhcCCCCC
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKREKLRVPN  341 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~  341 (352)
                      |+|.+..+.|-|+++...+++|+...+...+.
T Consensus       148 Gsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~  179 (235)
T KOG0179|consen  148 GSYERVTCRAGGSAASMIQPFLDNQIGHKNQN  179 (235)
T ss_pred             cceeeeeeecCCcchhhhhhhhhhhccCcCcc
Confidence            99999999999999999999999998877654

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

Probab=99.47  E-value=1e-12  Score=112.09  Aligned_cols=183  Identities=15%  Similarity=0.192  Sum_probs=147.5

Q ss_pred             cEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEe----cCcEEEEEecChhhHHHHHHHHHHHHHHHHHH-hCCCCCHH
Q psy2869          20 PSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPI----TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLV-YQENIPTQ   93 (352)
Q Consensus        20 tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i----~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~-~~~~i~~~   93 (352)
                      =|||++.+.|.|+++|+|++.|.- .+..+|+|..    +.-+.++.+|+.+-.|.+++.+.+..+...-. .-.-+++-
T Consensus         3 YCv~l~l~~GlVf~sDsRTNAGvD~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~sm~   82 (255)
T COG3484           3 YCVGLILDFGLVFGSDSRTNAGVDYISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPSMY   82 (255)
T ss_pred             eEEEEEeccceEEecccccccCchHHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcchhHH
Confidence            489999999999999999999988 6777888755    33456778999999999999998877632111 11234566


Q ss_pred             HHHHHHHHHHHHHhhcCC------CccceEEEeEEEEeCC-CCEEEEECCCCcEEec----ceEEecCCCchhHHHHHhh
Q psy2869          94 QLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAW----KATAMGRNYVNGKTFLEKR  162 (352)
Q Consensus        94 ~la~~l~~~~~~~~~~~~------~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~----~~~a~G~gs~~~~~~Le~~  162 (352)
                      ..+..++....+-.-+..      .--|.|++|++|.=.+ .|.||.+.|.|++.+.    ++..+|. +.+.+++|++.
T Consensus        83 eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPildR~  161 (255)
T COG3484          83 EATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPILDRT  161 (255)
T ss_pred             HHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEccc-cccCchhhhhh
Confidence            666777666644322211      1248999999998766 5899999999999887    4999998 57899999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCe
Q psy2869         163 YSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGF  203 (352)
Q Consensus       163 ~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~  203 (352)
                      +..+++++|+.++++-++...++.+ ..+-.+++.++.+|.+
T Consensus       162 i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds~  203 (255)
T COG3484         162 ITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADSF  203 (255)
T ss_pred             hhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccce
Confidence            9999999999999999999999999 8888999999999874

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.46  E-value=1.4e-13  Score=118.75  Aligned_cols=105  Identities=12%  Similarity=0.078  Sum_probs=84.4

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||..||+|.|.+.++.++++|+..+     ++.++...    +.+..+...+|+.+.+|++  |+  |+||.+||.|+
T Consensus        46 ~~aG~~aD~q~l~~~l~~~~~~y~~~~-----~~~~a~l~----~~l~~~~~~~~l~~~~lv~--d~--~~ly~id~~G~  112 (172)
T PRK05456         46 GFAGSTADAFTLFERFEAKLEEHQGNL-----LRAAVELA----KDWRTDRYLRRLEAMLIVA--DK--EHSLIISGNGD  112 (172)
T ss_pred             EEeccHHHHHHHHHHHHHHHHHccCcc-----HHHHHHHH----HHHHhccCCCccEEEEEEE--cC--CcEEEECCCCc
Confidence            449999999999999999999999322     34444333    3332233356888999983  54  79999999999


Q ss_pred             eece--eEEEecCCchHHHHHHHHhhc-CCCCCccccccccccC
Q psy2869         312 YFAW--KATAMGRNYVNGKTFLEKREK-LRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~--~~~a~G~~s~~a~~~Le~~~~-~~~~~~~~~~~~~~~~  352 (352)
                      ..+.  ++.|+||||..|.++||++|| ++|   +|.+|+.+||
T Consensus       113 ~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---eA~~la~kai  153 (172)
T PRK05456        113 VIEPEDGIIAIGSGGNYALAAARALLENTDL---SAEEIAEKAL  153 (172)
T ss_pred             EeccCCCeEEEecCHHHHHHHHHHhhhcCCC---CHHHHHHHHH
Confidence            9777  799999999999999999999 999   9988887764

>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=99.45  E-value=7.9e-14  Score=119.52  Aligned_cols=104  Identities=11%  Similarity=-0.019  Sum_probs=80.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccc-eeeEEEEEeCCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFG-VSLLICGWDNKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g-~~~ll~G~d~~gp~ly~~dp~G  310 (352)
                      .+||..+|++.|.++++.++++|+.+.++     .+++.+..++ .    +..+|+. +.++++  |+  ++||.+||.|
T Consensus        45 ~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~aa~l~~~l~-~----~~~~~~l~a~~iv~--~~--~~ly~id~~G  110 (171)
T cd01913          45 GFAGSTADAFTLFERFEAKLEQYPGNLLR-----AAVELAKDWR-T----DRYLRRLEAMLIVA--DK--EHTLLISGNG  110 (171)
T ss_pred             EecccHHHHHHHHHHHHHHHHHhhchHHH-----HHHHHHHHHH-h----ccCcCceEEEEEEe--CC--CcEEEECCCC
Confidence            34999999999999999999999998874     3333322221 1    1345776 444443  33  4999999999


Q ss_pred             ceecee--EEEecCCchHHHHHHHHhhcCC-CCCccccccccccC
Q psy2869         311 AYFAWK--ATAMGRNYVNGKTFLEKREKLR-VPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~--~~a~G~~s~~a~~~Le~~~~~~-~~~~~~~~~~~~~~  352 (352)
                      +..+.+  +.++||||..|.++||.+||++ |+   +.++|.+||
T Consensus       111 ~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms---~~~la~~Av  152 (171)
T cd01913         111 DVIEPDDGIAAIGSGGNYALAAARALLDHTDLS---AEEIARKAL  152 (171)
T ss_pred             CEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC---HHHHHHHHH
Confidence            999995  9999999999999999999995 88   447776653

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.

>KOG0174|consensus

Probab=99.43  E-value=4.4e-14  Score=119.44  Aligned_cols=113  Identities=11%  Similarity=0.056  Sum_probs=101.2

Q ss_pred             cCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCCce
Q psy2869         234 EGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAY  312 (352)
Q Consensus       234 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G~~  312 (352)
                      ||..||.|.+.++++++...|...++++++|...|....++...|+..     +..++|++|||+ +|.++|.+---|+.
T Consensus        65 SGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v~~aA~l~r~~~Y~~re~-----L~AgliVAGwD~~~gGqVY~iplGG~l  139 (224)
T KOG0174|consen   65 SGSAADTQAIADIVRYHLELYTIQENKPPLVHTAASLFREICYNYREM-----LSAGLIVAGWDEKEGGQVYSIPLGGSL  139 (224)
T ss_pred             CCchhhHHHHHHHHHHHHHHhhhhcCCCchHHHHHHHHHHHHHhCHHh-----hhcceEEeecccccCceEEEeecCceE
Confidence            999999999999999999999999999999999999999999888776     889999999997 58999999666666


Q ss_pred             eceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         313 FAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       313 ~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      .+-....-||||...++|++.+|++.|+.+|..+....|
T Consensus       140 ~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE~~~fvk~A  178 (224)
T KOG0174|consen  140 TRQPFAIGGSGSTFIYGFCDANWRPNMTLEECVRFVKNA  178 (224)
T ss_pred             eecceeeccCCceeeeeeehhhcCCCCCHHHHHHHHHHH
Confidence            666666667999999999999999999999987765443

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.35  E-value=1.2e-12  Score=112.21  Aligned_cols=104  Identities=12%  Similarity=0.025  Sum_probs=77.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccc-eeeEEEEEeCCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFG-VSLLICGWDNKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g-~~~ll~G~d~~gp~ly~~dp~G  310 (352)
                      .+||..||++.|.+.++.++++|+.+.     .+.+++.+.+    +..+ ..+|+- +.++++  |+  ++||.+||.|
T Consensus        45 ~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~a~l~~~----~~~~-~~~~~l~a~~iv~--~~--~~ly~i~~~G  110 (171)
T TIGR03692        45 GFAGSTADAFTLFERFEAKLEEYQGNL-----TRAAVELAKD----WRTD-RYLRRLEAMLIVA--DK--ETSLLISGTG  110 (171)
T ss_pred             EecchHHHHHHHHHHHHHHHHHccCch-----HHHHHHHHHH----Hhhc-ccccccEEEEEEE--cC--CCEEEEcCCC
Confidence            459999999999999999999999743     3455554443    2222 223443 555544  43  4999999999


Q ss_pred             ceece--eEEEecCCchHHHHHHHHhhc-CCCCCccccccccccC
Q psy2869         311 AYFAW--KATAMGRNYVNGKTFLEKREK-LRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~--~~~a~G~~s~~a~~~Le~~~~-~~~~~~~~~~~~~~~~  352 (352)
                      ++.++  ++.++||||..|.++||.+|| ++|+   |-++|.+||
T Consensus       111 ~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s---a~~la~~Av  152 (171)
T TIGR03692       111 DVIEPEDGIAAIGSGGNYALAAARALLRNTDLS---AEEIAREAL  152 (171)
T ss_pred             cEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC---HHHHHHHHH
Confidence            99997  599999999999999999995 4444   777777653

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

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

Probab=99.35  E-value=1.6e-11  Score=101.40  Aligned_cols=166  Identities=16%  Similarity=0.142  Sum_probs=131.2

Q ss_pred             CCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEec-CcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy2869          17 AGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPIT-DYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (352)
Q Consensus        17 ~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~-~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (352)
                      +++|||+++-++-|++++|..++-|..  ..+..|+.+|. .+++.+++|..+|+..|.+.+..+++.|.         .
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~---------g   73 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQ---------G   73 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHcc---------C
Confidence            689999999999999999999998877  67777776664 48999999999999999999999999874         3


Q ss_pred             HHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEec--ceEEecCCCchhHHHHHhhcCC-CCCHH
Q psy2869          94 QLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAW--KATAMGRNYVNGKTFLEKRYSE-DLELD  170 (352)
Q Consensus        94 ~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~-~~s~~  170 (352)
                      .|.+..-++...++....+|-+.+-++|+  |  .-.++-+...|-..+.  ..++||+|..++.+.....++. ++|  
T Consensus        74 ~L~raavelaKdwr~Dk~lr~LEAmllVa--d--~~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~ls--  147 (178)
T COG5405          74 DLFRAAVELAKDWRTDKYLRKLEAMLLVA--D--KTHILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELS--  147 (178)
T ss_pred             cHHHHHHHHHHhhhhhhHHHHHhhheeEe--C--CCcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCC--
Confidence            34445555556666555677788888887  3  3557888888877665  3999999999999999888765 677  


Q ss_pred             HHHHHHHHHHHHhhccC-CCCCceEEEEE
Q psy2869         171 DAVHTAILTLKEGFEGQ-MTAENIEIGIA  198 (352)
Q Consensus       171 eai~l~~~~l~~~~~~d-~~~~~iei~ii  198 (352)
                       |.+++.++|..+.+-. .+..++.|-.+
T Consensus       148 -A~eIa~~sl~iA~eiciyTN~ni~ve~l  175 (178)
T COG5405         148 -AREIAEKSLKIAGDICIYTNHNIVVEEL  175 (178)
T ss_pred             -HHHHHHHHHhhhheEEEecCCcEEEEEe
Confidence             6677888888776655 66666666554

>KOG0177|consensus

Probab=99.27  E-value=1e-11  Score=104.97  Aligned_cols=124  Identities=14%  Similarity=0.086  Sum_probs=110.3

Q ss_pred             hhCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEE
Q psy2869         216 SNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICG  295 (352)
Q Consensus       216 ~~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G  295 (352)
                      .++....-|.+       +|=..|+-...+.+...+..|+.++|-++|++.+|..+-..+..+-  -+.+||-|++|+||
T Consensus        36 ~~ls~~~lm~~-------~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aahFtR~~La~~L--Rsr~~yqV~~LvaG  106 (200)
T KOG0177|consen   36 HRLSDHILMAT-------VGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAHFTRRELAESL--RSRTPYQVNILVAG  106 (200)
T ss_pred             EEeccceeeee-------ecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHHHHHHHHHHHH--hcCCCceEEEEEec
Confidence            34444455555       8999999999999999999999999999999999998877776654  35789999999999


Q ss_pred             EeC-CCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccc
Q psy2869         296 WDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIA  348 (352)
Q Consensus       296 ~d~-~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~  348 (352)
                      +|+ +||.||++|--|+..+-++.+-|=++-...++|++.|+++|+.++|+.+-
T Consensus       107 Yd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lm  160 (200)
T KOG0177|consen  107 YDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLM  160 (200)
T ss_pred             cCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHH
Confidence            996 58999999999999999999999999999999999999999999998764

>KOG0180|consensus

Probab=99.14  E-value=8.1e-11  Score=98.01  Aligned_cols=119  Identities=13%  Similarity=0.070  Sum_probs=105.3

Q ss_pred             ccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEEC
Q psy2869         229 LKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCD  307 (352)
Q Consensus       229 l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~d  307 (352)
                      +.-+.+|+..|.|.|.++++..-.+|+++.+++|-++.++.++|.++...+--    ||.+.-+++|+|++ .|.+...|
T Consensus        49 ~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~~~s~mvS~~lYekRfg----pYf~~PvVAGl~~~~kPfIc~mD  124 (204)
T KOG0180|consen   49 LYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPETFSSMVSSLLYEKRFG----PYFTEPVVAGLDDDNKPFICGMD  124 (204)
T ss_pred             eEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcHHHHHHHHHHHHHhhcC----CcccceeEeccCCCCCeeEeecc
Confidence            44577999999999999999999999999999999999999999999544322    99999999999874 69999999


Q ss_pred             CCCceec-eeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         308 PSGAYFA-WKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       308 p~G~~~~-~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      ..|.... ....+.|..++..++..|..|+++|.+.+-|+.--||
T Consensus       125 ~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~LFetisQa  169 (204)
T KOG0180|consen  125 LIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDELFETISQA  169 (204)
T ss_pred             cccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            9999876 5788999999999999999999999998877665443

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

Probab=98.53  E-value=3e-08  Score=55.25  Aligned_cols=14  Identities=57%  Similarity=1.092  Sum_probs=13.4

Q ss_pred             CCcceehhhhHHHH
Q psy2869           1 PSGKLVQIEYALAA   14 (352)
Q Consensus         1 p~Grl~QveYa~~a   14 (352)
                      |||||+|||||++|
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            89999999999987

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

>KOG0185|consensus

Probab=98.20  E-value=1.4e-06  Score=76.51  Aligned_cols=117  Identities=13%  Similarity=0.123  Sum_probs=97.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhh-hhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCC-CeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRL-DVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~-~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~g-p~ly~~dp~  309 (352)
                      +++|=.+|.|.|.+.+........ .--|..+.++.+..+|+..+..-+  +.+-|+-..++++|+|++| |.|=++|--
T Consensus        85 G~sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvlY~rR--sKmnPlwntlvVgGv~~~g~~~lg~V~~~  162 (256)
T KOG0185|consen   85 GASGDISDFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVLYARR--SKMNPLWNTLVVGGVDNTGEPFLGYVDLL  162 (256)
T ss_pred             ecCccHHHHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHHHHhh--hccCchhhheeEeeecCCCCeeEEEEeec
Confidence            669999999999999988766633 233489999999999999995544  3345999999999999855 999999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHhhc---CCCCCccccccccc
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKREK---LRVPNFCGYHIAES  350 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~~~---~~~~~~~~~~~~~~  350 (352)
                      |...+-+..|+|-|...|.++|++.+.   ++++.++|..+.|.
T Consensus       163 G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~  206 (256)
T KOG0185|consen  163 GVAYESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEK  206 (256)
T ss_pred             cccccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHH
Confidence            999999999999999999999999888   33556666665543

>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=96.25  E-value=0.34  Score=42.10  Aligned_cols=151  Identities=16%  Similarity=0.207  Sum_probs=90.0

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQR   98 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~   98 (352)
                      +.+||.-+++|.|+|.|+|.                    +++-|.-.....|-+.+         ..|.=-+=+.|.+.
T Consensus         2 SLII~y~GknGaViaGDkR~--------------------I~F~G~~~~re~LEeeL---------YsG~IktdeEL~kk   52 (194)
T PF09894_consen    2 SLIIAYYGKNGAVIAGDKRN--------------------IAFRGDEEKREKLEEEL---------YSGKIKTDEELLKK   52 (194)
T ss_pred             eEEEEEecCCCcEEecccee--------------------eeecCCHHHHHHHHHHH---------hCCccCCHHHHHHH
Confidence            45899999999999999972                    46667766655444433         12222233444443


Q ss_pred             HHHHH---HHHhhcCCCccceEEEeEEE------EeCCCCEEEEE-------CCCCcEEecceEEecCCC----------
Q psy2869          99 VAAIM---QEYTQSGGVRPFGVSLLICG------WDNKRPYLYQC-------DPSGAYFAWKATAMGRNY----------  152 (352)
Q Consensus        99 l~~~~---~~~~~~~~~rP~~v~~ivaG------~D~~gp~Ly~i-------Dp~G~~~~~~~~a~G~gs----------  152 (352)
                      ...+=   +..-.....+-.+- ++++-      .|...-++|.+       |-.|.-..  -...|.++          
T Consensus        53 A~Elgv~i~I~D~r~KV~~~~~-vlvGEV~s~~g~~skRRRiY~t~g~~~Ivei~~~~i~--~~~~g~~sgiIVfGNk~~  129 (194)
T PF09894_consen   53 AEELGVKIKITDDREKVRKIGD-VLVGEVTSISGKDSKRRRIYATKGKYAIVEIENDEIT--NKSRGEGSGIIVFGNKFT  129 (194)
T ss_pred             HHHcCCEEEEecCchheEEeCC-EEEEEEEEEcCccceeeEEEecCCCEEEEEecCCeEE--EEecCCceeEEEECCHHH
Confidence            32211   00000001111222 33332      23323455543       33333222  23344444          


Q ss_pred             -chhHHHHHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCC
Q psy2869         153 -VNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADEN  201 (352)
Q Consensus       153 -~~~~~~Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~  201 (352)
                       +.+...|.++|++.|+++++.++..++|..+.... ..+..+++...++.
T Consensus       130 K~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~  180 (194)
T PF09894_consen  130 KEIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKK  180 (194)
T ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEeccc
Confidence             66788899999999999999999999999987777 78889999888654

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

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

Probab=95.25  E-value=0.057  Score=45.35  Aligned_cols=108  Identities=13%  Similarity=0.124  Sum_probs=70.7

Q ss_pred             ccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECC
Q psy2869         229 LKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDP  308 (352)
Q Consensus       229 l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp  308 (352)
                      +-++|+|.+||++.|.+++...++.|.-         .|.+..-++...++-.-..|-+=.-++++  |+  -++|-+--
T Consensus        46 vlaGFAGstADaftLfe~fe~kle~~~g---------~L~raavelaKdwr~Dk~lr~LEAmllVa--d~--~~il~isG  112 (178)
T COG5405          46 VLAGFAGSTADAFTLFERFEAKLEQYQG---------DLFRAAVELAKDWRTDKYLRKLEAMLLVA--DK--THILIITG  112 (178)
T ss_pred             EEEEecccchhHHHHHHHHHHHHHHccC---------cHHHHHHHHHHhhhhhhHHHHHhhheeEe--CC--CcEEEEec
Confidence            4578999999999999999998887763         23333333333333222334444444444  54  46777778


Q ss_pred             CCceece--eEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         309 SGAYFAW--KATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       309 ~G~~~~~--~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      .|.+.+.  ...|||||...|..----.++  +++..|.++|+.+
T Consensus       113 ~gdV~epe~~~~aIGSGgnyAl~AarAl~~--~~~lsA~eIa~~s  155 (178)
T COG5405         113 NGDVIEPEDDIIAIGSGGNYALSAARALME--NTELSAREIAEKS  155 (178)
T ss_pred             CcceecCCCCeEEEcCCchHHHHHHHHHHh--ccCCCHHHHHHHH
Confidence            8887763  489999998877765544443  3477777777765

>COG4079 Uncharacterized protein conserved in archaea [Function unknown]

Probab=92.46  E-value=1.6  Score=39.38  Aligned_cols=152  Identities=16%  Similarity=0.230  Sum_probs=90.7

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQR   98 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~   98 (352)
                      +.+|+.-+++|.|+|.|+|.                    +.+-|.-.|-+.|-+.+         ..|.--+-+.|++.
T Consensus         2 tLviay~gknGaviaGDrR~--------------------i~frgdee~re~lEekL---------YsGeIkteEEL~r~   52 (293)
T COG4079           2 TLVIAYIGKNGAVIAGDRRE--------------------ITFRGDEEDREKLEEKL---------YSGEIKTEEELARK   52 (293)
T ss_pred             eEEEEEecCCCcEEeccceE--------------------EEEecChhHHHHHHHHh---------hcCccccHHHHHHH
Confidence            45799999999999999872                    45566666655544433         23444455556555


Q ss_pred             HHHHHHHHhhc---CCCccceEEEeEEEEeCCC------CEEEEE-------CCCCcEEecceEEecCCC----------
Q psy2869          99 VAAIMQEYTQS---GGVRPFGVSLLICGWDNKR------PYLYQC-------DPSGAYFAWKATAMGRNY----------  152 (352)
Q Consensus        99 l~~~~~~~~~~---~~~rP~~v~~ivaG~D~~g------p~Ly~i-------Dp~G~~~~~~~~a~G~gs----------  152 (352)
                      ..++--..+..   ...|-..-+++++-+..-+      -++|.+       +-.|+-..  ....|.|+          
T Consensus        53 aeel~Vki~vtDdr~KVrk~~d~VvvGEV~s~~~~~vkRRRvYAT~Ga~aIvel~gs~vt--s~~~g~g~aiIv~Gnk~~  130 (293)
T COG4079          53 AEELGVKITVTDDRNKVRKRNDGVVVGEVSSVERGIVKRRRVYATAGAYAIVELRGSEVT--STSQGKGSAIIVFGNKFT  130 (293)
T ss_pred             HHHcCCEEEEEcchHhhhcccCcEEEEEeecccccceeeeEEeecCCceEEEEecCCeeE--eeecCCCceEEEECcHHH
Confidence            54432111100   0112222334444443322      234432       22222111  22223322          


Q ss_pred             -chhHHHHHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCC
Q psy2869         153 -VNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADEN  201 (352)
Q Consensus       153 -~~~~~~Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~  201 (352)
                       +.+..+|.++|.+.++++++.+....+|..+...- ..+..++++.++++
T Consensus       131 Ke~aneflk~~l~~k~~lqd~~dal~elfe~vss~tpsVskeydiy~vs~~  181 (293)
T COG4079         131 KEVANEFLKDNLTKKSKLQDAVDALMELFETVSSKTPSVSKEYDIYQVSSN  181 (293)
T ss_pred             HHHHHHHHHhhccCCCCHHHHHHHHHHHHHHhhcCCCcccceeEEEEecCC
Confidence             45677899999999999999999999999988666 88889999998765

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

Probab=91.61  E-value=0.99  Score=39.47  Aligned_cols=117  Identities=17%  Similarity=0.164  Sum_probs=79.4

Q ss_pred             ccCCccchhHHHHHHHHHHh--hhhhhcCCCCCHHHHHHHHHHHHHHhh-hcCC-----ccccceeeEEEEEeCC-CCeE
Q psy2869         233 FEGQMTAENIEIGIADENGF--RRLDVATENIPTQQLVQRVAAIMQEYT-QSGG-----VRPFGVSLLICGWDNK-RPYL  303 (352)
Q Consensus       233 ~aG~~aD~~~l~~~~~~~~~--~~~~~~~~~~~~~~l~~~ls~~~q~~t-~~~~-----~RP~g~~~ll~G~d~~-gp~l  303 (352)
                      .+|--|=.|.+++.+....+  ...... ..+++-+.+..+++..-.-- +...     .--|-|++|++|.=.. -|.|
T Consensus        49 taGNLA~tQaV~~ll~e~~~~d~~~~L~-n~~sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~L  127 (255)
T COG3484          49 TAGNLAITQAVLHLLDERIQRDDGDSLL-NIPSMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRL  127 (255)
T ss_pred             ecCccHHHHHHHHHHHHHhhccchhhhh-cchhHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCcee
Confidence            47777778888888776653  111111 25566677777776653321 1111     1258899999997543 4899


Q ss_pred             EEECCCCceec----eeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         304 YQCDPSGAYFA----WKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       304 y~~dp~G~~~~----~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      |.+-|.|++.+    ..+.-+|.. ..-+++|++.+..+++-+++-..|.-+
T Consensus       128 y~IYpqGNFIqaT~etpf~QiGEt-KYGKPildR~i~~~~pLeea~kcaLvS  178 (255)
T COG3484         128 YLIYPQGNFIQATPETPFLQIGET-KYGKPILDRTITYDTPLEEAAKCALVS  178 (255)
T ss_pred             EEEccCCCeeecCCCCceeEcccc-ccCchhhhhhhhccCCHHHHhhheEEe
Confidence            99999999986    356667754 456789999999999888876666543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	352
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		1e-102
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		9e-36
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		1e-101
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		8e-36
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		4e-62
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		5e-22
1vsy_B	231	Proteasome Activator Complex Length = 231		3e-59
1vsy_B	231	Proteasome Activator Complex Length = 231		4e-22
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		5e-40
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		4e-14
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		8e-39
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		2e-13
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		8e-38
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		1e-14
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		8e-38
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		1e-14
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		8e-38
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		1e-14
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		8e-38
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		1e-14
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		8e-38
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		1e-14
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		9e-38
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		1e-14
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		1e-37
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		9e-15
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		1e-37
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		1e-14
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		1e-37
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		1e-14
1vsy_C	232	Proteasome Activator Complex Length = 232		1e-37
1vsy_C	232	Proteasome Activator Complex Length = 232		1e-14
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		1e-37
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		9e-15
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		2e-36
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		9e-14
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		5e-35
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		1e-15
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		5e-35
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		1e-15
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		6e-35
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		1e-15
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		3e-34
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		6e-15
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		1e-33
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		6e-15
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		1e-33
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		7e-15
1vsy_D	227	Proteasome Activator Complex Length = 227		2e-33
1vsy_D	227	Proteasome Activator Complex Length = 227		1e-15
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		2e-33
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		7e-15
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		7e-33
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		7e-15
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		6e-29
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		5e-05
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		7e-29
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		4e-12
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		9e-29
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		4e-12
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		3e-28
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		5e-05
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		2e-27
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		1e-09
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		2e-27
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		2e-08
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		3e-27
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		2e-08
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		3e-27
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		2e-08
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		4e-27
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		2e-08
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		4e-27
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		2e-08
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		1e-26
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		1e-09
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		2e-26
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		5e-05
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		6e-26
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		1e-04
1vsy_E	250	Proteasome Activator Complex Length = 250		6e-26
1vsy_E	250	Proteasome Activator Complex Length = 250		1e-04
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		6e-26
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		1e-04
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		6e-26
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		1e-04
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		7e-26
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		1e-04
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		6e-22
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		1e-07
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		7e-22
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		1e-07
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		1e-19
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		2e-06
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		1e-19
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		2e-06
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		3e-19
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		5e-06
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		3e-19
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		5e-06
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		3e-19
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		5e-06
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		5e-18
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		1e-06
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		5e-18
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		1e-06
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		7e-11
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		7e-11
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		2e-09
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		2e-08
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		1e-07
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		2e-06
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		4e-06
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		2e-05
1ryp_K	198	Crystal Structure Of The 20s Proteasome From Yeast		5e-05

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

Iteration: 1
 Score =  367 bits (942), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 174/219 (79%), Positives = 197/219 (89%), Gaps = 1/219 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 15  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 74
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 75  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 134
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 135 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 194
Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    VRD+L+ I
Sbjct: 195 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVRDYLAAI 233

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

Iteration: 1
 Score =  147 bits (371), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 66/78 (84%), Positives = 71/78 (91%)
Query: 257 VATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK 316
           V  E IPT QLVQRVA++MQEYTQSGGVRPFGVSLLICGW+  RPYL+Q DPSGAYFAWK
Sbjct: 100 VYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWK 159
Query: 317 ATAMGRNYVNGKTFLEKR 334
           ATAMG+NYVNGKTFLEKR
Sbjct: 160 ATAMGKNYVNGKTFLEKR 177

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

Iteration: 1
 Score =  365 bits (938), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 173/219 (78%), Positives = 197/219 (89%), Gaps = 1/219 (0%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGM 59
           PSGKLVQIEYALAAV  GAPSVGIKA+NG+VLATEKKQK+IL+ E  +HKVEPIT +IG+
Sbjct: 14  PSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGL 73
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 74  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 133
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 134 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 193
Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    V+D+L+ I
Sbjct: 194 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI 232

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

Iteration: 1
 Score =  147 bits (371), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 66/78 (84%), Positives = 71/78 (91%)
Query: 257 VATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK 316
           V  E IPT QLVQRVA++MQEYTQSGGVRPFGVSLLICGW+  RPYL+Q DPSGAYFAWK
Sbjct: 99  VYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWK 158
Query: 317 ATAMGRNYVNGKTFLEKR 334
           ATAMG+NYVNGKTFLEKR
Sbjct: 159 ATAMGKNYVNGKTFLEKR 176

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

Iteration: 1
 Score =  234 bits (598), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 122/205 (59%), Positives = 151/205 (73%), Gaps = 4/205 (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-QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           VYSGMGPDYR+LV K+RK+A   YK +Y E  PT+ LV  VA IMQE TQSGGVRPFGVS
Sbjct: 74  VYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVS 133
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
           LLI G D    + LYQ DPSG+YF WKATA+G+  V  KTFLEKR++++LEL+DA+H A+
Sbjct: 134 LLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIAL 193
Query: 178 LTLKEGFEGQMTAENIEIG-IADEN 201
           LTLKE  EG+   + IE+  I DEN
Sbjct: 194 LTLKESVEGEFNGDTIELAIIGDEN 218

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

Iteration: 1
 Score =  102 bits (253), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 50/73 (68%), Positives = 55/73 (75%), Gaps = 1/73 (1%)
Query: 263 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMG 321
           PT+ LV  VA IMQE TQSGGVRPFGVSLLI G D    + LYQ DPSG+YF WKATA+G
Sbjct: 106 PTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIG 165
Query: 322 RNYVNGKTFLEKR 334
           +  V  KTFLEKR
Sbjct: 166 KGSVAAKTFLEKR 178

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

Iteration: 1
 Score =  225 bits (574), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 117/199 (58%), Positives = 146/199 (73%), Gaps = 4/199 (2%)
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-QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGW 124
           PDYR+LV K+RK+A   YK +Y E  PT+ LV  VA IMQE TQSGGVRPFGVSLLI G 
Sbjct: 61  PDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGH 120
Query: 125 DNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG 183
           D    + LYQ DPSG+YF WKATA+G+  V  KTFLEKR++++LEL+DA+H A+LTLKE 
Sbjct: 121 DEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKES 180
Query: 184 FEGQMTAENIEIG-IADEN 201
            EG+   + IE+  I DEN
Sbjct: 181 VEGEFNGDTIELAIIGDEN 199

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

Iteration: 1
 Score =  102 bits (253), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 50/73 (68%), Positives = 55/73 (75%), Gaps = 1/73 (1%)
Query: 263 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMG 321
           PT+ LV  VA IMQE TQSGGVRPFGVSLLI G D    + LYQ DPSG+YF WKATA+G
Sbjct: 87  PTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIG 146
Query: 322 RNYVNGKTFLEKR 334
           +  V  KTFLEKR
Sbjct: 147 KGSVAAKTFLEKR 159

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

Iteration: 1
 Score =  161 bits (408), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 90/211 (42%), Positives = 128/211 (60%), Gaps = 8/211 (3%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R+L+ +AR  AQ  +L Y E I  ++L +++    Q+YTQ GGVRPFGVSL
Sbjct: 68  ATSGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQYTQYGGVRPFGVSL 127
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATA--MGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
           LI G D + P LY+ DPSGA   +KATA  MGRN V    F EK Y +DL  DDA+   +
Sbjct: 128 LIAGVD-EVPKLYETDPSGALLEYKATAIGMGRNAVT--EFFEKEYRDDLSFDDAMVLGL 184
Query: 178 LTLKEGFEGQMTAENIEIGI--ADENGFRRL 206
           + +    E ++  ENIE+G    D+  F+ +
Sbjct: 185 VAMGLSIESELVPENIEVGYVKVDDRTFKEV 215

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

Iteration: 1
 Score = 75.5 bits (184), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/76 (53%), Positives = 50/76 (65%), Gaps = 5/76 (6%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E I  ++L +++    Q+YTQ GGVRPFGVSLLI G D + P LY+ DPSGA   +KATA
Sbjct: 96  EPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVD-EVPKLYETDPSGALLEYKATA 154
Query: 320 --MGRNYVNGKTFLEK 333
             MGRN V    F EK
Sbjct: 155 IGMGRNAVT--EFFEK 168

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

Iteration: 1
 Score =  157 bits (397), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 85/209 (40%), Positives = 125/209 (59%), Gaps = 4/209 (1%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R+L+ +AR  AQ  +L Y   I  ++L +++    Q+YTQ GGVRPFGVSL
Sbjct: 77  ATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSL 136
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G  N+ P LY+ DPSGA   +KATA+G   +    F EK Y +DL  DDA+   ++ 
Sbjct: 137 LIAGV-NEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVA 195
Query: 180 LKEGFEGQMTAENIEIGI--ADENGFRRL 206
           +    E ++  ENIE+G    D+  F+ +
Sbjct: 196 MGLSIESELVPENIEVGYVKVDDRTFKEV 224

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

Iteration: 1
 Score = 73.6 bits (179), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 38/77 (49%), Positives = 50/77 (64%), Gaps = 3/77 (3%)
Query: 259 TENIP--TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK 316
           T +IP   ++L +++    Q+YTQ GGVRPFGVSLLI G  N+ P LY+ DPSGA   +K
Sbjct: 102 TYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGV-NEVPKLYETDPSGALLEYK 160
Query: 317 ATAMGRNYVNGKTFLEK 333
           ATA+G   +    F EK
Sbjct: 161 ATAIGMGRMAVTEFFEK 177

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

Iteration: 1
 Score =  154 bits (389), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 82/186 (44%), Positives = 117/186 (62%), Gaps = 1/186 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ GGVRP+GVSL
Sbjct: 81  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSL 140
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           +  G D   P L+ CDP+G    +KATA+G       +FLE+ Y E+L   +AV   I  
Sbjct: 141 IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKA 200
Query: 180 LKEGFE 185
           LK   E
Sbjct: 201 LKSSLE 206

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

Iteration: 1
 Score = 77.0 bits (188), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 50/79 (63%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           +  + LV+RVA  MQ+YTQ GGVRP+GVSL+  G D   P L+ CDP+G    +KATA+G
Sbjct: 111 VNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIG 170
Query: 322 RNYVNGKTFLEKREKLRVP 340
                  +FLE+  K  +P
Sbjct: 171 SGKDAVVSFLEREYKENLP 189

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

Iteration: 1
 Score =  154 bits (389), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 90/217 (41%), Positives = 128/217 (58%), Gaps = 2/217 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ GGVRP+GVSL
Sbjct: 77  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSL 136
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           +  G D   P L+ CDP+G    +KATA+G       +FLE+ Y E+L   +AV   I  
Sbjct: 137 IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKA 196
Query: 180 LKEGFEGQMTAENIEIG-IADENGFRRLDVATVRDHL 215
           LK   E     +  EI  I   N +R  D   V+  L
Sbjct: 197 LKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

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

Iteration: 1
 Score = 77.0 bits (188), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 50/79 (63%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           +  + LV+RVA  MQ+YTQ GGVRP+GVSL+  G D   P L+ CDP+G    +KATA+G
Sbjct: 107 VNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIG 166
Query: 322 RNYVNGKTFLEKREKLRVP 340
                  +FLE+  K  +P
Sbjct: 167 SGKDAVVSFLEREYKENLP 185

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

Iteration: 1
 Score =  154 bits (388), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 82/186 (44%), Positives = 117/186 (62%), Gaps = 1/186 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ GGVRP+GVSL
Sbjct: 81  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSL 140
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           +  G D   P L+ CDP+G    +KATA+G       +FLE+ Y E+L   +AV   I  
Sbjct: 141 IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKA 200
Query: 180 LKEGFE 185
           LK   E
Sbjct: 201 LKSSLE 206

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

Iteration: 1
 Score = 77.0 bits (188), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 50/79 (63%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           +  + LV+RVA  MQ+YTQ GGVRP+GVSL+  G D   P L+ CDP+G    +KATA+G
Sbjct: 111 VNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIG 170
Query: 322 RNYVNGKTFLEKREKLRVP 340
                  +FLE+  K  +P
Sbjct: 171 SGKDAVVSFLEREYKENLP 189

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

Iteration: 1
 Score =  154 bits (388), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 90/217 (41%), Positives = 128/217 (58%), Gaps = 2/217 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ GGVRP+GVSL
Sbjct: 77  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSL 136
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           +  G D   P L+ CDP+G    +KATA+G       +FLE+ Y E+L   +AV   I  
Sbjct: 137 IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKA 196
Query: 180 LKEGFEGQMTAENIEIG-IADENGFRRLDVATVRDHL 215
           LK   E     +  EI  I   N +R  D   V+  L
Sbjct: 197 LKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

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

Iteration: 1
 Score = 77.0 bits (188), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 50/79 (63%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           +  + LV+RVA  MQ+YTQ GGVRP+GVSL+  G D   P L+ CDP+G    +KATA+G
Sbjct: 107 VNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIG 166
Query: 322 RNYVNGKTFLEKREKLRVP 340
                  +FLE+  K  +P
Sbjct: 167 SGKDAVVSFLEREYKENLP 185

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

Iteration: 1
 Score =  154 bits (388), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 90/217 (41%), Positives = 128/217 (58%), Gaps = 2/217 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ GGVRP+GVSL
Sbjct: 71  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSL 130
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           +  G D   P L+ CDP+G    +KATA+G       +FLE+ Y E+L   +AV   I  
Sbjct: 131 IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKA 190
Query: 180 LKEGFEGQMTAENIEIG-IADENGFRRLDVATVRDHL 215
           LK   E     +  EI  I   N +R  D   V+  L
Sbjct: 191 LKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 227

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

Iteration: 1
 Score = 77.4 bits (189), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 50/79 (63%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           +  + LV+RVA  MQ+YTQ GGVRP+GVSL+  G D   P L+ CDP+G    +KATA+G
Sbjct: 101 VNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIG 160
Query: 322 RNYVNGKTFLEKREKLRVP 340
                  +FLE+  K  +P
Sbjct: 161 SGKDAVVSFLEREYKENLP 179

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

Iteration: 1
 Score =  154 bits (388), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 90/217 (41%), Positives = 128/217 (58%), Gaps = 2/217 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ GGVRP+GVSL
Sbjct: 77  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSL 136
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           +  G D   P L+ CDP+G    +KATA+G       +FLE+ Y E+L   +AV   I  
Sbjct: 137 IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKA 196
Query: 180 LKEGFEGQMTAENIEIG-IADENGFRRLDVATVRDHL 215
           LK   E     +  EI  I   N +R  D   V+  L
Sbjct: 197 LKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

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

Iteration: 1
 Score = 77.0 bits (188), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/79 (46%), Positives = 50/79 (63%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           +  + LV+RVA  MQ+YTQ GGVRP+GVSL+  G D   P L+ CDP+G    +KATA+G
Sbjct: 107 VNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIG 166
Query: 322 RNYVNGKTFLEKREKLRVP 340
                  +FLE+  K  +P
Sbjct: 167 SGKDAVVSFLEREYKENLP 185

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

Iteration: 1
 Score =  153 bits (387), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 81/215 (37%), Positives = 123/215 (57%), Gaps = 15/215 (6%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED--CIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 15  PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 74
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ GG+RPFGVS
Sbjct: 75  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVS 134
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            +  G+D++  Y LY  +PSG Y  WKA ++G N    +T L+  Y +D+++DDA+  A+
Sbjct: 135 FIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELAL 194
Query: 178 LTLKEGFEGQMTAENIEIGIADENGFRRLDVATVR 212
            TL +  +                 + RL+ AT+R
Sbjct: 195 KTLSKTTDSSALT------------YDRLEFATIR 217

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 51/79 (64%), Gaps = 1/79 (1%)
Query: 255 LDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYF 313
           L    E+IP + LV+R++ I Q YTQ GG+RPFGVS +  G+D++  Y LY  +PSG Y 
Sbjct: 99  LKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYT 158
Query: 314 AWKATAMGRNYVNGKTFLE 332
            WKA ++G N    +T L+
Sbjct: 159 GWKAISVGANTSAAQTLLQ 177

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

Iteration: 1
 Score =  153 bits (387), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 81/215 (37%), Positives = 123/215 (57%), Gaps = 15/215 (6%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ GG+RPFGVS
Sbjct: 74  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVS 133
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            +  G+D++  Y LY  +PSG Y  WKA ++G N    +T L+  Y +D+++DDA+  A+
Sbjct: 134 FIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELAL 193
Query: 178 LTLKEGFEGQMTAENIEIGIADENGFRRLDVATVR 212
            TL +  +                 + RL+ AT+R
Sbjct: 194 KTLSKTTDSSALT------------YDRLEFATIR 216

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

Iteration: 1
 Score = 77.4 bits (189), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 51/79 (64%), Gaps = 1/79 (1%)
Query: 255 LDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYF 313
           L    E+IP + LV+R++ I Q YTQ GG+RPFGVS +  G+D++  Y LY  +PSG Y 
Sbjct: 98  LKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYT 157
Query: 314 AWKATAMGRNYVNGKTFLE 332
            WKA ++G N    +T L+
Sbjct: 158 GWKAISVGANTSAAQTLLQ 176

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

Iteration: 1
 Score =  153 bits (387), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 81/215 (37%), Positives = 123/215 (57%), Gaps = 15/215 (6%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED--CIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 5   PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 64
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ GG+RPFGVS
Sbjct: 65  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVS 124
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            +  G+D++  Y LY  +PSG Y  WKA ++G N    +T L+  Y +D+++DDA+  A+
Sbjct: 125 FIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELAL 184
Query: 178 LTLKEGFEGQMTAENIEIGIADENGFRRLDVATVR 212
            TL +  +                 + RL+ AT+R
Sbjct: 185 KTLSKTTDSSALT------------YDRLEFATIR 207

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

Iteration: 1
 Score = 77.4 bits (189), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 51/79 (64%), Gaps = 1/79 (1%)
Query: 255 LDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYF 313
           L    E+IP + LV+R++ I Q YTQ GG+RPFGVS +  G+D++  Y LY  +PSG Y 
Sbjct: 89  LKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYT 148
Query: 314 AWKATAMGRNYVNGKTFLE 332
            WKA ++G N    +T L+
Sbjct: 149 GWKAISVGANTSAAQTLLQ 167

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

Iteration: 1
 Score =  153 bits (387), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 81/215 (37%), Positives = 123/215 (57%), Gaps = 15/215 (6%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED--CIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 2   PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 61
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ GG+RPFGVS
Sbjct: 62  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVS 121
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            +  G+D++  Y LY  +PSG Y  WKA ++G N    +T L+  Y +D+++DDA+  A+
Sbjct: 122 FIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELAL 181
Query: 178 LTLKEGFEGQMTAENIEIGIADENGFRRLDVATVR 212
            TL +  +                 + RL+ AT+R
Sbjct: 182 KTLSKTTDSSALT------------YDRLEFATIR 204

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

Iteration: 1
 Score = 77.4 bits (189), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 51/79 (64%), Gaps = 1/79 (1%)
Query: 255 LDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYF 313
           L    E+IP + LV+R++ I Q YTQ GG+RPFGVS +  G+D++  Y LY  +PSG Y 
Sbjct: 86  LKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYT 145
Query: 314 AWKATAMGRNYVNGKTFLE 332
            WKA ++G N    +T L+
Sbjct: 146 GWKAISVGANTSAAQTLLQ 164

>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 =  153 bits (387), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 81/215 (37%), Positives = 123/215 (57%), Gaps = 15/215 (6%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED--CIHKVEPITDYIG 58
           P G+L Q+EYAL ++     ++GI AS+GIVLA E+K  + L E      K+  + D I 
Sbjct: 15  PEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIA 74
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ GG+RPFGVS
Sbjct: 75  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVS 134
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            +  G+D++  Y LY  +PSG Y  WKA ++G N    +T L+  Y +D+++DDA+  A+
Sbjct: 135 FIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELAL 194
Query: 178 LTLKEGFEGQMTAENIEIGIADENGFRRLDVATVR 212
            TL +  +                 + RL+ AT+R
Sbjct: 195 KTLSKTTDSSALT------------YDRLEFATIR 217

>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 = 77.8 bits (190), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 51/79 (64%), Gaps = 1/79 (1%)
Query: 255 LDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYF 313
           L    E+IP + LV+R++ I Q YTQ GG+RPFGVS +  G+D++  Y LY  +PSG Y 
Sbjct: 99  LKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYT 158
Query: 314 AWKATAMGRNYVNGKTFLE 332
            WKA ++G N    +T L+
Sbjct: 159 GWKAISVGANTSAAQTLLQ 177

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

Iteration: 1
 Score =  149 bits (376), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 80/198 (40%), Positives = 116/198 (58%), Gaps = 2/198 (1%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R+L+ +AR  AQ Y+L Y E I  + L +++  I Q YTQ GGVRPFGVSL
Sbjct: 81  ATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSL 140
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G D     L++ DPSGA   +KATA+G         LEK Y +D+ LD+ +  AI  
Sbjct: 141 LIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITA 200
Query: 180 LKEGFEGQMTAENIEIGI 197
           L +  E  +  EN+++ I
Sbjct: 201 LTKANE-DIKPENVDVCI 217

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

Iteration: 1
 Score = 74.3 bits (181), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 36/74 (48%), Positives = 44/74 (59%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E I  + L +++  I Q YTQ GGVRPFGVSLLI G D     L++ DPSGA   +KATA
Sbjct: 109 EEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATA 168
Query: 320 MGRNYVNGKTFLEK 333
           +G         LEK
Sbjct: 169 IGSGRPVVMELLEK 182

>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 =  145 bits (365), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 81/202 (40%), Positives = 116/202 (57%), Gaps = 5/202 (2%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSGGVRPFGVS
Sbjct: 73  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVS 132
Query: 119 LLICGWD--NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA 176
            LI G+D  +  P LYQ +PSG Y +W A  +GRN    + FLEK Y             
Sbjct: 133 TLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECV 192
Query: 177 ILTLKEGFE-GQMTAENIEIGI 197
            LT++   E  Q  A+NIEI +
Sbjct: 193 KLTVRSLLEVVQTGAKNIEITV 214

>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 = 80.5 bits (197), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/81 (48%), Positives = 50/81 (61%), Gaps = 2/81 (2%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD--NKRPYLYQCDPSGAYFAWKATA 319
           +  + L + VA + Q YTQSGGVRPFGVS LI G+D  +  P LYQ +PSG Y +W A  
Sbjct: 104 VTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQT 163
Query: 320 MGRNYVNGKTFLEKREKLRVP 340
           +GRN    + FLEK    + P
Sbjct: 164 IGRNSKTVREFLEKNYDRKEP 184

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

Iteration: 1
 Score =  144 bits (364), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 81/202 (40%), Positives = 116/202 (57%), Gaps = 5/202 (2%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSGGVRPFGVS
Sbjct: 71  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVS 130
Query: 119 LLICGWD--NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA 176
            LI G+D  +  P LYQ +PSG Y +W A  +GRN    + FLEK Y             
Sbjct: 131 TLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECV 190
Query: 177 ILTLKEGFE-GQMTAENIEIGI 197
            LT++   E  Q  A+NIEI +
Sbjct: 191 KLTVRSLLEVVQTGAKNIEITV 212

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/81 (48%), Positives = 50/81 (61%), Gaps = 2/81 (2%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD--NKRPYLYQCDPSGAYFAWKATA 319
           +  + L + VA + Q YTQSGGVRPFGVS LI G+D  +  P LYQ +PSG Y +W A  
Sbjct: 102 VTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQT 161
Query: 320 MGRNYVNGKTFLEKREKLRVP 340
           +GRN    + FLEK    + P
Sbjct: 162 IGRNSKTVREFLEKNYDRKEP 182

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

Iteration: 1
 Score =  144 bits (364), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 81/202 (40%), Positives = 116/202 (57%), Gaps = 5/202 (2%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSGGVRPFGVS
Sbjct: 73  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVS 132
Query: 119 LLICGWD--NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA 176
            LI G+D  +  P LYQ +PSG Y +W A  +GRN    + FLEK Y             
Sbjct: 133 TLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECV 192
Query: 177 ILTLKEGFE-GQMTAENIEIGI 197
            LT++   E  Q  A+NIEI +
Sbjct: 193 KLTVRSLLEVVQTGAKNIEITV 214

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/81 (48%), Positives = 50/81 (61%), Gaps = 2/81 (2%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD--NKRPYLYQCDPSGAYFAWKATA 319
           +  + L + VA + Q YTQSGGVRPFGVS LI G+D  +  P LYQ +PSG Y +W A  
Sbjct: 104 VTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQT 163
Query: 320 MGRNYVNGKTFLEKREKLRVP 340
           +GRN    + FLEK    + P
Sbjct: 164 IGRNSKTVREFLEKNYDRKEP 184

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

Iteration: 1
 Score =  142 bits (358), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 120/204 (58%), Gaps = 12/204 (5%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS G RPFG+S 
Sbjct: 72  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISA 131
Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
           LI G+D +  P LYQ DPSG Y AWKA A+GR   + + FLEK Y+     DDA+ T  L
Sbjct: 132 LIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYT-----DDAIETDDL 186
Query: 179 TLKEGFEG-----QMTAENIEIGI 197
           T+K   +      Q   +NIE+ +
Sbjct: 187 TIKLVIKALLEVVQSGGKNIELAV 210

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

Iteration: 1
 Score = 78.2 bits (191), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 36/73 (49%), Positives = 49/73 (67%), Gaps = 1/73 (1%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAM 320
           +  + + + +A++ Q YTQS G RPFG+S LI G+D +  P LYQ DPSG Y AWKA A+
Sbjct: 102 VTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI 161
Query: 321 GRNYVNGKTFLEK 333
           GR   + + FLEK
Sbjct: 162 GRGAKSVREFLEK 174

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

Iteration: 1
 Score =  140 bits (353), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 120/204 (58%), Gaps = 12/204 (5%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS G RPFG+S 
Sbjct: 72  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISA 131
Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
           LI G+D +  P LYQ DPSG Y AWKA A+GR   + + FLEK Y+     D+A+ T  L
Sbjct: 132 LIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYT-----DEAIETDDL 186
Query: 179 TLKEGFEG-----QMTAENIEIGI 197
           T+K   +      Q   +NIE+ +
Sbjct: 187 TIKLVIKALLEVVQSGGKNIELAV 210

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

Iteration: 1
 Score = 78.2 bits (191), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 36/73 (49%), Positives = 49/73 (67%), Gaps = 1/73 (1%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAM 320
           +  + + + +A++ Q YTQS G RPFG+S LI G+D +  P LYQ DPSG Y AWKA A+
Sbjct: 102 VTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI 161
Query: 321 GRNYVNGKTFLEK 333
           GR   + + FLEK
Sbjct: 162 GRGAKSVREFLEK 174

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

Iteration: 1
 Score =  140 bits (353), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 81/208 (38%), Positives = 120/208 (57%), Gaps = 6/208 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G+L Q+EYA+ A+      +GI A++G++LA E++    L ++     K+  + + + 
Sbjct: 14  PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMA 73
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
              +G+  D  +L  + R IAQ+Y L YQE IP +QLV  +  I Q YTQ GG RPFGVS
Sbjct: 74  CSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVS 133
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE-DLELDDAVHTA 176
           LL  GWD    + LYQ DPSG Y  WKAT +G N     + L++ Y E ++ L  A+  A
Sbjct: 134 LLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALA 193
Query: 177 ILTLKEGFE-GQMTAENIEIG-IADENG 202
           I  L +  +  +++AE +EI  +  ENG
Sbjct: 194 IKVLNKTMDVSKLSAEKVEIATLTRENG 221

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 40/78 (51%), Positives = 47/78 (60%), Gaps = 1/78 (1%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKAT 318
           E IP +QLV  +  I Q YTQ GG RPFGVSLL  GWD    + LYQ DPSG Y  WKAT
Sbjct: 103 EPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKAT 162
Query: 319 AMGRNYVNGKTFLEKREK 336
            +G N     + L++  K
Sbjct: 163 CIGNNSAAAVSMLKQDYK 180

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

Iteration: 1
 Score =  139 bits (351), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 79/198 (39%), Positives = 114/198 (57%), Gaps = 5/198 (2%)
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  GMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC 122
           G+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSGGVRPFGVS LI 
Sbjct: 61  GLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIA 120
Query: 123 GWD--NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTL 180
           G+D  +  P LYQ +PSG Y +W A  +GRN    + FLEK Y              LT+
Sbjct: 121 GFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTV 180
Query: 181 KEGFE-GQMTAENIEIGI 197
           +   E  Q  A+NIEI +
Sbjct: 181 RSLLEVVQTGAKNIEITV 198

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/69 (55%), Positives = 46/69 (66%), Gaps = 2/69 (2%)
Query: 267 LVQRVAAIMQEYTQSGGVRPFGVSLLICGWD--NKRPYLYQCDPSGAYFAWKATAMGRNY 324
           L + VA + Q YTQSGGVRPFGVS LI G+D  +  P LYQ +PSG Y +W A  +GRN 
Sbjct: 93  LTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNS 152
Query: 325 VNGKTFLEK 333
              + FLEK
Sbjct: 153 KTVREFLEK 161

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

Iteration: 1
 Score =  139 bits (351), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 119/204 (58%), Gaps = 12/204 (5%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS G RPFG+S 
Sbjct: 72  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISA 131
Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
           LI G+D +  P LYQ DPSG Y AWKA A+GR   + + FLEK Y+     DDA+ T  L
Sbjct: 132 LIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYT-----DDAIETDDL 186
Query: 179 TLKEGFEG-----QMTAENIEIGI 197
           T+K   +      Q   +NIE+ +
Sbjct: 187 TIKLVIKALLEVVQSGGKNIELAV 210

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

Iteration: 1
 Score = 78.2 bits (191), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 36/73 (49%), Positives = 49/73 (67%), Gaps = 1/73 (1%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAM 320
           +  + + + +A++ Q YTQS G RPFG+S LI G+D +  P LYQ DPSG Y AWKA A+
Sbjct: 102 VTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI 161
Query: 321 GRNYVNGKTFLEK 333
           GR   + + FLEK
Sbjct: 162 GRGAKSVREFLEK 174

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

Iteration: 1
 Score =  137 bits (346), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 116/201 (57%), Gaps = 5/201 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
           P G+L Q+EYA+ A+      +GI A++G++LA E++    L ++     K+  + + + 
Sbjct: 14  PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMA 73
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
              +G+  D  +L  + R IAQ+Y L YQE IP +QLV  +  I Q YTQ GG RPFGVS
Sbjct: 74  CSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVS 133
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE-DLELDDAVHTA 176
           LL  GWD    + LYQ DPSG Y  WKAT +G N     + L++ Y E ++ L  A+  A
Sbjct: 134 LLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALA 193
Query: 177 ILTLKEGFE-GQMTAENIEIG 196
           +  L +  +  +++AE +EI 
Sbjct: 194 VKVLNKTMDVSKLSAEKVEIA 214

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

Iteration: 1
 Score = 78.2 bits (191), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 40/78 (51%), Positives = 47/78 (60%), Gaps = 1/78 (1%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKAT 318
           E IP +QLV  +  I Q YTQ GG RPFGVSLL  GWD    + LYQ DPSG Y  WKAT
Sbjct: 103 EPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKAT 162
Query: 319 AMGRNYVNGKTFLEKREK 336
            +G N     + L++  K
Sbjct: 163 CIGNNSAAAVSMLKQDYK 180

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

Iteration: 1
 Score =  124 bits (312), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 66/202 (32%), Positives = 112/202 (55%), Gaps = 6/202 (2%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG-----VRP 114
             SG+  D + L+ KAR   Q +   Y E +  + + Q V+ +  ++ +         RP
Sbjct: 77  AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRP 136
Query: 115 FGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH 174
           FGV+LL  G D K P L+  DPSG +    A A+G      ++ L++ Y + + L +A+ 
Sbjct: 137 FGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQEVYHKSMTLKEAIK 196
Query: 175 TAILTLKEGFEGQMTAENIEIG 196
           ++++ LK+  E ++ A NIE+ 
Sbjct: 197 SSLIILKQVMEEKLNATNIELA 218

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 285 RPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK 333
           RPFGV+LL  G D K P L+  DPSG +    A A+G      ++ L++
Sbjct: 135 RPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQE 183

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

Iteration: 1
 Score =  124 bits (311), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 79/222 (35%), Positives = 116/222 (52%), Gaps = 7/222 (3%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            V +GM  D R  V++AR  A  +K  Y   IP   L +R+A I Q YTQ+  +RP G  
Sbjct: 78  CVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCC 137
Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE--DLELDDAVHT 175
           +++ G D ++ P +Y+CDP+G Y  +KATA G       +FLEK+  +  D   +  V T
Sbjct: 138 MILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVET 197
Query: 176 AILTLKEGFEGQMTAENIEIGIAD-EN-GFRRLDVATVRDHL 215
           AI  L            IE+G+   EN  FR L  A +  HL
Sbjct: 198 AITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHL 239

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

Iteration: 1
 Score = 68.9 bits (167), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 47/77 (61%), Gaps = 1/77 (1%)
Query: 261 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKATA 319
            IP   L +R+A I Q YTQ+  +RP G  +++ G D ++ P +Y+CDP+G Y  +KATA
Sbjct: 108 EIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATA 167
Query: 320 MGRNYVNGKTFLEKREK 336
            G       +FLEK+ K
Sbjct: 168 AGVKQTESTSFLEKKVK 184

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

Iteration: 1
 Score =  124 bits (311), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 79/222 (35%), Positives = 116/222 (52%), Gaps = 7/222 (3%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            V +GM  D R  V++AR  A  +K  Y   IP   L +R+A I Q YTQ+  +RP G  
Sbjct: 78  CVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCC 137
Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE--DLELDDAVHT 175
           +++ G D ++ P +Y+CDP+G Y  +KATA G       +FLEK+  +  D   +  V T
Sbjct: 138 MILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVET 197
Query: 176 AILTLKEGFEGQMTAENIEIGIAD-EN-GFRRLDVATVRDHL 215
           AI  L            IE+G+   EN  FR L  A +  HL
Sbjct: 198 AITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHL 239

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

Iteration: 1
 Score = 68.9 bits (167), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 47/76 (61%), Gaps = 1/76 (1%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKATAM 320
           IP   L +R+A I Q YTQ+  +RP G  +++ G D ++ P +Y+CDP+G Y  +KATA 
Sbjct: 109 IPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAA 168
Query: 321 GRNYVNGKTFLEKREK 336
           G       +FLEK+ K
Sbjct: 169 GVKQTESTSFLEKKVK 184

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

Iteration: 1
 Score =  122 bits (306), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 65/202 (32%), Positives = 111/202 (54%), Gaps = 6/202 (2%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG-----VRP 114
             SG+  D + L+ KAR   Q +   Y E +  + + Q V+ +  ++ +         RP
Sbjct: 77  AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRP 136
Query: 115 FGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH 174
           FGV+LL  G D K P L+  DPSG +    A A+G      ++ L++ Y + + L +A+ 
Sbjct: 137 FGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIK 196
Query: 175 TAILTLKEGFEGQMTAENIEIG 196
           ++++ LK+  E ++ A NIE+ 
Sbjct: 197 SSLIILKQVMEEKLNATNIELA 218

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 285 RPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK 333
           RPFGV+LL  G D K P L+  DPSG +    A A+G      ++ L++
Sbjct: 135 RPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQE 183

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

Iteration: 1
 Score =  119 bits (299), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 75/230 (32%), Positives = 124/230 (53%), Gaps = 13/230 (5%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D RLL    R+     + V+   +P  +LV  + +  Q  TQ  G RP+GV 
Sbjct: 72  ISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVG 131
Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLE--LDDAVHTA 176
           LLI G+D+  P+++Q  PS  YF  +A ++G    + +T+LE+  SE +E  LD+ V   
Sbjct: 132 LLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLDELVKHG 191
Query: 177 ILTLKEGF--EGQMTAENIEIGIADENG----FRRLDVATVRDHLSNIPQ 220
           +  L+E    E  +T +N+ IGI  ++     +   DV+   D L   PQ
Sbjct: 192 LRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLDGLEERPQ 241

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 44/72 (61%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           +P  +LV  + +  Q  TQ  G RP+GV LLI G+D+  P+++Q  PS  YF  +A ++G
Sbjct: 103 LPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIG 162
Query: 322 RNYVNGKTFLEK 333
               + +T+LE+
Sbjct: 163 ARSQSARTYLER 174

>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 =  119 bits (298), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 68/181 (37%), Positives = 102/181 (56%), Gaps = 6/181 (3%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T    VRPFGVS
Sbjct: 76  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVS 135
Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK---RYSEDLELDDAVHT 175
            +  G D    +LY  +PSG+Y+ +K  A G+   + K  LEK    + E L   +AV  
Sbjct: 136 TIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQ 195
Query: 176 A 176
           A
Sbjct: 196 A 196

>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 = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 38/72 (52%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           IP      R+   +Q +T    VRPFGVS +  G D    +LY  +PSG+Y+ +K  A G
Sbjct: 107 IPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATG 166
Query: 322 RNYVNGKTFLEK 333
           +   + K  LEK
Sbjct: 167 KGRQSAKAELEK 178

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

Iteration: 1
 Score =  119 bits (298), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 68/181 (37%), Positives = 102/181 (56%), Gaps = 6/181 (3%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T    VRPFGVS
Sbjct: 75  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVS 134
Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK---RYSEDLELDDAVHT 175
            +  G D    +LY  +PSG+Y+ +K  A G+   + K  LEK    + E L   +AV  
Sbjct: 135 TIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQ 194
Query: 176 A 176
           A
Sbjct: 195 A 195

>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 = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 38/72 (52%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           IP      R+   +Q +T    VRPFGVS +  G D    +LY  +PSG+Y+ +K  A G
Sbjct: 106 IPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATG 165
Query: 322 RNYVNGKTFLEK 333
           +   + K  LEK
Sbjct: 166 KGRQSAKAELEK 177

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

Iteration: 1
 Score =  119 bits (298), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 68/181 (37%), Positives = 102/181 (56%), Gaps = 6/181 (3%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T    VRPFGVS
Sbjct: 76  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVS 135
Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK---RYSEDLELDDAVHT 175
            +  G D    +LY  +PSG+Y+ +K  A G+   + K  LEK    + E L   +AV  
Sbjct: 136 TIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQ 195
Query: 176 A 176
           A
Sbjct: 196 A 196

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 38/72 (52%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           IP      R+   +Q +T    VRPFGVS +  G D    +LY  +PSG+Y+ +K  A G
Sbjct: 107 IPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATG 166
Query: 322 RNYVNGKTFLEK 333
           +   + K  LEK
Sbjct: 167 KGRQSAKAELEK 178

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

Iteration: 1
 Score =  119 bits (297), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 68/181 (37%), Positives = 102/181 (56%), Gaps = 6/181 (3%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T    VRPFGVS
Sbjct: 70  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVS 129
Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK---RYSEDLELDDAVHT 175
            +  G D    +LY  +PSG+Y+ +K  A G+   + K  LEK    + E L   +AV  
Sbjct: 130 TIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQ 189
Query: 176 A 176
           A
Sbjct: 190 A 190

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

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 38/72 (52%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           IP      R+   +Q +T    VRPFGVS +  G D    +LY  +PSG+Y+ +K  A G
Sbjct: 101 IPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATG 160
Query: 322 RNYVNGKTFLEK 333
           +   + K  LEK
Sbjct: 161 KGRQSAKAELEK 172

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

Iteration: 1
 Score =  119 bits (297), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 68/181 (37%), Positives = 102/181 (56%), Gaps = 6/181 (3%)
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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T    VRPFGVS
Sbjct: 72  CVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVS 131
Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK---RYSEDLELDDAVHT 175
            +  G D    +LY  +PSG+Y+ +K  A G+   + K  LEK    + E L   +AV  
Sbjct: 132 TIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQ 191
Query: 176 A 176
           A
Sbjct: 192 A 192

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

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 38/72 (52%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           IP      R+   +Q +T    VRPFGVS +  G D    +LY  +PSG+Y+ +K  A G
Sbjct: 103 IPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATG 162
Query: 322 RNYVNGKTFLEK 333
           +   + K  LEK
Sbjct: 163 KGRQSAKAELEK 174

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

Iteration: 1
 Score =  117 bits (292), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 68/203 (33%), Positives = 114/203 (56%), Gaps = 9/203 (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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D RLL    R+     + V+   +P  +LV  + +  Q  TQ  G RP+GV 
Sbjct: 72  ISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVG 131
Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLE--LDDAVHTA 176
           LLI G+D+  P+++Q  PS  YF  +A ++G    + +T+LE+  SE +E  L++ V   
Sbjct: 132 LLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHG 191
Query: 177 ILTLKEGF--EGQMTAENIEIGI 197
           +  L+E    E  +T +N+ IGI
Sbjct: 192 LRALRETLPAEQDLTTKNVSIGI 214

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 44/72 (61%)
Query: 262 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
           +P  +LV  + +  Q  TQ  G RP+GV LLI G+D+  P+++Q  PS  YF  +A ++G
Sbjct: 103 LPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIG 162
Query: 322 RNYVNGKTFLEK 333
               + +T+LE+
Sbjct: 163 ARSQSARTYLER 174

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

Iteration: 1
 Score =  116 bits (290), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 69/210 (32%), Positives = 109/210 (51%), Gaps = 6/210 (2%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +      S   RPFGV+L
Sbjct: 77  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLAAAAAMS---RPFGVAL 133
Query: 120 LICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
           LI G D    Y L+  +PSG ++ + A A+G      +  L   +   L L +A    + 
Sbjct: 134 LIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLK 193
Query: 179 TLKEGFEGQMTAENIEIG-IADENGFRRLD 207
            LK+  E ++   N ++  I  ++GF+  D
Sbjct: 194 ILKQVMEEKLDENNAQLSCITKQDGFKIYD 223

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKAT 318
           E+I  + L Q V  +      S   RPFGV+LLI G D    Y L+  +PSG ++ + A 
Sbjct: 105 EDINVESLTQSVCDLAAAAAMS---RPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAK 161
Query: 319 AMG 321
           A+G
Sbjct: 162 AIG 164

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

Iteration: 1
 Score =  114 bits (286), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 68/216 (31%), Positives = 110/216 (50%), Gaps = 9/216 (4%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VR 113
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +          R
Sbjct: 69  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSR 128
Query: 114 PFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
           PFGV+LLI G D    Y L+  +PSG ++ + A A+G      +  L   +   L L +A
Sbjct: 129 PFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 188
Query: 173 VHTAILTLKEGFEGQMTAENIEIG-IADENGFRRLD 207
               +  LK+  E ++   N ++  I  ++GF+  D
Sbjct: 189 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYD 224

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWDNKRPY-LYQCDPSGAY 312
           E+I  + L Q V  +   + +          RPFGV+LLI G D    Y L+  +PSG +
Sbjct: 97  EDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTF 156
Query: 313 FAWKATAMG 321
           + + A A+G
Sbjct: 157 YRYNAKAIG 165

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

Iteration: 1
 Score =  114 bits (286), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 68/216 (31%), Positives = 110/216 (50%), Gaps = 9/216 (4%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VR 113
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +          R
Sbjct: 77  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSR 136
Query: 114 PFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
           PFGV+LLI G D    Y L+  +PSG ++ + A A+G      +  L   +   L L +A
Sbjct: 137 PFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 196
Query: 173 VHTAILTLKEGFEGQMTAENIEIG-IADENGFRRLD 207
               +  LK+  E ++   N ++  I  ++GF+  D
Sbjct: 197 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYD 232

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWDNKRPY-LYQCDPSGAY 312
           E+I  + L Q V  +   + +          RPFGV+LLI G D    Y L+  +PSG +
Sbjct: 105 EDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTF 164
Query: 313 FAWKATAMG 321
           + + A A+G
Sbjct: 165 YRYNAKAIG 173

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

Iteration: 1
 Score =  114 bits (286), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 68/216 (31%), Positives = 110/216 (50%), Gaps = 9/216 (4%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VR 113
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +          R
Sbjct: 78  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSR 137
Query: 114 PFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
           PFGV+LLI G D    Y L+  +PSG ++ + A A+G      +  L   +   L L +A
Sbjct: 138 PFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 197
Query: 173 VHTAILTLKEGFEGQMTAENIEIG-IADENGFRRLD 207
               +  LK+  E ++   N ++  I  ++GF+  D
Sbjct: 198 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYD 233

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWDNKRPY-LYQCDPSGAY 312
           E+I  + L Q V  +   + +          RPFGV+LLI G D    Y L+  +PSG +
Sbjct: 106 EDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTF 165
Query: 313 FAWKATAMG 321
           + + A A+G
Sbjct: 166 YRYNAKAIG 174

>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 =  114 bits (286), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 68/216 (31%), Positives = 110/216 (50%), Gaps = 9/216 (4%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VR 113
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +          R
Sbjct: 77  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSR 136
Query: 114 PFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
           PFGV+LLI G D    Y L+  +PSG ++ + A A+G      +  L   +   L L +A
Sbjct: 137 PFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 196
Query: 173 VHTAILTLKEGFEGQMTAENIEIG-IADENGFRRLD 207
               +  LK+  E ++   N ++  I  ++GF+  D
Sbjct: 197 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYD 232

>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 = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWDNKRPY-LYQCDPSGAY 312
           E+I  + L Q V  +   + +          RPFGV+LLI G D    Y L+  +PSG +
Sbjct: 105 EDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTF 164
Query: 313 FAWKATAMG 321
           + + A A+G
Sbjct: 165 YRYNAKAIG 173

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

Iteration: 1
 Score =  114 bits (286), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 68/216 (31%), Positives = 110/216 (50%), Gaps = 9/216 (4%)
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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VR 113
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +          R
Sbjct: 79  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSR 138
Query: 114 PFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
           PFGV+LLI G D    Y L+  +PSG ++ + A A+G      +  L   +   L L +A
Sbjct: 139 PFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 198
Query: 173 VHTAILTLKEGFEGQMTAENIEIG-IADENGFRRLD 207
               +  LK+  E ++   N ++  I  ++GF+  D
Sbjct: 199 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYD 234

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWDNKRPY-LYQCDPSGAY 312
           E+I  + L Q V  +   + +          RPFGV+LLI G D    Y L+  +PSG +
Sbjct: 107 EDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTF 166
Query: 313 FAWKATAMG 321
           + + A A+G
Sbjct: 167 YRYNAKAIG 175

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

Iteration: 1
 Score =  101 bits (252), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 57/175 (32%), Positives = 94/175 (53%), Gaps = 2/175 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHK-VEPITDYIGM 59
           P G++ Q+EYA+ AVE  + ++GI+  +G+V   EK   + L+E+  +K +  +  ++GM
Sbjct: 17  PDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGM 76
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             +G+  D R L   AR+ A  ++  +  NIP + L  RVA  +  YT    VRPFG S 
Sbjct: 77  AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSF 136
Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAV 173
           ++  +  N    LY  DPSG  + +   A+G+     KT +EK   +++   D V
Sbjct: 137 MLGSYSANDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDVV 191

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 261 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATA 319
           NIP + L  RVA  +  YT    VRPFG S ++  +  N    LY  DPSG  + +   A
Sbjct: 106 NIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSANDGAQLYMIDPSGVSYGYWGCA 165
Query: 320 MGRNYVNGKTFLEK 333
           +G+     KT +EK
Sbjct: 166 IGKARQAAKTEIEK 179

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

Iteration: 1
 Score =  101 bits (251), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 57/175 (32%), Positives = 94/175 (53%), Gaps = 2/175 (1%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHK-VEPITDYIGM 59
           P G++ Q+EYA+ AVE  + ++GI+  +G+V   EK   + L+E+  +K +  +  ++GM
Sbjct: 16  PDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGM 75
Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             +G+  D R L   AR+ A  ++  +  NIP + L  RVA  +  YT    VRPFG S 
Sbjct: 76  AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSF 135
Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAV 173
           ++  +  N    LY  DPSG  + +   A+G+     KT +EK   +++   D V
Sbjct: 136 MLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIV 190

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 261 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATA 319
           NIP + L  RVA  +  YT    VRPFG S ++  +  N    LY  DPSG  + +   A
Sbjct: 105 NIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCA 164
Query: 320 MGRNYVNGKTFLEK 333
           +G+     KT +EK
Sbjct: 165 IGKARQAAKTEIEK 178

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

Iteration: 1
 Score = 94.0 bits (232), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 56/206 (27%), Positives = 104/206 (50%), Gaps = 6/206 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 15  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 73
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS G RP+GV LL
Sbjct: 74  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSAGGRPYGVGLL 133
Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLEL----DDAVHTA 176
           I G+D    +L +  PSG       TA+G      KT+LE+     +++    D+ +   
Sbjct: 134 IIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 193
Query: 177 ILTLKEGFEGQ-MTAENIEIGIADEN 201
           +  + +    + +T +N+ I I  ++
Sbjct: 194 VEAISQSLRDESLTVDNLSIAIVGKD 219

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/58 (43%), Positives = 33/58 (56%)
Query: 276 QEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK 333
           Q+ TQS G RP+GV LLI G+D    +L +  PSG       TA+G      KT+LE+
Sbjct: 117 QKNTQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 174

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

Iteration: 1
 Score = 94.0 bits (232), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 56/206 (27%), Positives = 104/206 (50%), Gaps = 6/206 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 14  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 72
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS G RP+GV LL
Sbjct: 73  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSAGGRPYGVGLL 132
Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLEL----DDAVHTA 176
           I G+D    +L +  PSG       TA+G      KT+LE+     +++    D+ +   
Sbjct: 133 IIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 192
Query: 177 ILTLKEGFEGQ-MTAENIEIGIADEN 201
           +  + +    + +T +N+ I I  ++
Sbjct: 193 VEAISQSLRDESLTVDNLSIAIVGKD 218

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/58 (43%), Positives = 33/58 (56%)
Query: 276 QEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK 333
           Q+ TQS G RP+GV LLI G+D    +L +  PSG       TA+G      KT+LE+
Sbjct: 116 QKNTQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 173

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

Iteration: 1
 Score = 92.4 bits (228), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 56/206 (27%), Positives = 104/206 (50%), Gaps = 6/206 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 14  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 72
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS G RP+GV LL
Sbjct: 73  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLL 132
Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLEL----DDAVHTA 176
           I G+D    +L +  PSG       TA+G      KT+LE+     +++    D+ +   
Sbjct: 133 IIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 192
Query: 177 ILTLKEGFEGQ-MTAENIEIGIADEN 201
           +  + +    + +T +N+ I I  ++
Sbjct: 193 VEAISQSLRDESLTVDNLSIAIVGKD 218

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 25/58 (43%), Positives = 33/58 (56%)
Query: 276 QEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK 333
           Q+ TQS G RP+GV LLI G+D    +L +  PSG       TA+G      KT+LE+
Sbjct: 116 QKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 173

>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 = 92.4 bits (228), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 56/206 (27%), Positives = 104/206 (50%), Gaps = 6/206 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 15  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 73
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS G RP+GV LL
Sbjct: 74  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLL 133
Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLEL----DDAVHTA 176
           I G+D    +L +  PSG       TA+G      KT+LE+     +++    D+ +   
Sbjct: 134 IIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 193
Query: 177 ILTLKEGFEGQ-MTAENIEIGIADEN 201
           +  + +    + +T +N+ I I  ++
Sbjct: 194 VEAISQSLRDESLTVDNLSIAIVGKD 219

>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 = 48.5 bits (114), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 25/58 (43%), Positives = 33/58 (56%)
Query: 276 QEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK 333
           Q+ TQS G RP+GV LLI G+D    +L +  PSG       TA+G      KT+LE+
Sbjct: 117 QKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 174

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

Iteration: 1
 Score = 92.4 bits (228), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 56/206 (27%), Positives = 104/206 (50%), Gaps = 6/206 (2%)
Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P+G+L Q+EYAL A++ G+ +VG++++   VL   K+    L      K+    +++G+ 
Sbjct: 16  PTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-SSYQKKIIKCDEHMGLS 74
Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS G RP+GV LL
Sbjct: 75  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLL 134
Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLEL----DDAVHTA 176
           I G+D    +L +  PSG       TA+G      KT+LE+     +++    D+ +   
Sbjct: 135 IIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 194
Query: 177 ILTLKEGFEGQ-MTAENIEIGIADEN 201
           +  + +    + +T +N+ I I  ++
Sbjct: 195 VEAISQSLRDESLTVDNLSIAIVGKD 220

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 25/58 (43%), Positives = 33/58 (56%)
Query: 276 QEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK 333
           Q+ TQS G RP+GV LLI G+D    +L +  PSG       TA+G      KT+LE+
Sbjct: 118 QKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLER 175

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

Iteration: 1
 Score = 88.6 bits (218), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 63/230 (27%), Positives = 111/230 (48%), Gaps = 10/230 (4%)
Query: 1   PSGKLVQIEYALAAV-EAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIG 58
           P G+L Q+EYA  A  +    S+ ++  +  V+ ++KK    L +   +  +  I+  IG
Sbjct: 21  PEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIG 80
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           MV +G  PD R    +A+  A +++  Y  ++P   L +R+A + Q YTQ   +RP GV 
Sbjct: 81  MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVI 140
Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE-------DLELD 170
           L     D +  P +Y+ DP+G Y  +KATA G       T LE  + +       +   +
Sbjct: 141 LTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWE 200
Query: 171 DAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQ 220
             V  AI  + +    + +  ++E+G+A ++ F  L    + + L  I +
Sbjct: 201 KVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLVAIAE 250

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 261 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKATA 319
           ++P   L +R+A + Q YTQ   +RP GV L     D +  P +Y+ DP+G Y  +KATA
Sbjct: 111 DMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATA 170
Query: 320 MG 321
            G
Sbjct: 171 TG 172

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

Iteration: 1
 Score = 88.6 bits (218), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 63/230 (27%), Positives = 111/230 (48%), Gaps = 10/230 (4%)
Query: 1   PSGKLVQIEYALAAV-EAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIG 58
           P G+L Q+EYA  A  +    S+ ++  +  V+ ++KK    L +   +  +  I+  IG
Sbjct: 12  PEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIG 71
Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           MV +G  PD R    +A+  A +++  Y  ++P   L +R+A + Q YTQ   +RP GV 
Sbjct: 72  MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVI 131
Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE-------DLELD 170
           L     D +  P +Y+ DP+G Y  +KATA G       T LE  + +       +   +
Sbjct: 132 LTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWE 191
Query: 171 DAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQ 220
             V  AI  + +    + +  ++E+G+A ++ F  L    + + L  I +
Sbjct: 192 KVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLVAIAE 241

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 261 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKATA 319
           ++P   L +R+A + Q YTQ   +RP GV L     D +  P +Y+ DP+G Y  +KATA
Sbjct: 102 DMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATA 161
Query: 320 MG 321
            G
Sbjct: 162 TG 163

>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 = 64.7 bits (156), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 46/170 (27%), Positives = 84/170 (49%), Gaps = 17/170 (10%)
Query: 15  VEAGAPSVGIKASNGIVLATEKKQKTILFEDCI-----HKVEPITDYIGMVYSGMGPDYR 69
           +E G  +VGI   + +++ATE++   +  E+ I      K+  I  Y GM  +G+  D +
Sbjct: 5   LETGTTTVGITLKDAVIMATERR---VTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQ 61
Query: 70  LLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRP 129
           +LV+  +   + Y+L  + N+P    ++ VA ++          P+ V LL+ G D   P
Sbjct: 62  VLVRYMKAELELYRLQRRVNMP----IEAVATLLSNMLNQVKYMPYMVQLLVGGIDTA-P 116
Query: 130 YLYQCDPSGAYF--AWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
           +++  D +G      + +T  G  +V G   LE +YSE + +D+ V   I
Sbjct: 117 HVFSIDAAGGSVEDIYASTGSGSPFVYG--VLESQYSEKMTVDEGVDLVI 164

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

Iteration: 1
 Score = 64.7 bits (156), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 46/170 (27%), Positives = 84/170 (49%), Gaps = 17/170 (10%)
Query: 15  VEAGAPSVGIKASNGIVLATEKKQKTILFEDCI-----HKVEPITDYIGMVYSGMGPDYR 69
           +E G  +VGI   + +++ATE++   +  E+ I      K+  I  Y GM  +G+  D +
Sbjct: 5   LETGTTTVGITLKDAVIMATERR---VTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQ 61
Query: 70  LLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRP 129
           +LV+  +   + Y+L  + N+P    ++ VA ++          P+ V LL+ G D   P
Sbjct: 62  VLVRYMKAELELYRLQRRVNMP----IEAVATLLSNMLNQVKYMPYMVQLLVGGIDTA-P 116
Query: 130 YLYQCDPSGAYF--AWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
           +++  D +G      + +T  G  +V G   LE +YSE + +D+ V   I
Sbjct: 117 HVFSIDAAGGSVEDIYASTGSGSPFVYG--VLESQYSEKMTVDEGVDLVI 164

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/164 (26%), Positives = 81/164 (49%), Gaps = 17/164 (10%)
Query: 21  SVGIKASNGIVLATEKKQKTILFEDCI-----HKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           +VGI   + +++ATE++   +  E+ I      K+  I  Y GM  +G+  D ++LV+  
Sbjct: 3   TVGITLKDAVIMATERR---VTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYM 59
Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCD 135
           +   + Y+L  + N+P    ++ VA ++          P+ V LL+ G D   P+++  D
Sbjct: 60  KAELELYRLQRRVNMP----IEAVATLLSNMLNQVKYMPYMVQLLVGGIDTA-PHVFSID 114
Query: 136 PSGAYF--AWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            +G      + +T  G  +V G   LE +YSE + +D+ V   I
Sbjct: 115 AAGGSVEDIYASTGSGSPFVYG--VLESQYSEKMTVDEGVDLVI 156

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 75/160 (46%), Gaps = 7/160 (4%)
Query: 21  SVGIKASNGIVLATEKKQK--TILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +VG+   +G+V+ATEK+      +      K+  I D + M  +G   D + L +  +  
Sbjct: 3   TVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIE 62
Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG 138
           A  Y+ + +E  PT   V+ +A +      S    P+ V LLI G D++   +Y  DP G
Sbjct: 63  ANLYE-IRRERKPT---VRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIG 118
Query: 139 AYFAWK-ATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
                K   A G   +     LE R++ ++ +D+AV  A+
Sbjct: 119 GAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAV 158

>pdb|3H4P|AA Chain a, Proteasome 20s Core Particle From Methanocaldococcus Jannaschii Length = 219

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 84/189 (44%), Gaps = 9/189 (4%)
Query: 21  SVGIKASNGIVLATEKKQK--TILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +VG+   + ++LAT+K+     ++ +    K+  I DYI M  +G   D + +V+     
Sbjct: 4   TVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAE 63
Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPS 137
           A+ YK+    NIP        A ++     S  + PF   ++I G+D  +   L+  DP 
Sbjct: 64  AKLYKMRTGRNIPPLA----CATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLDPL 119
Query: 138 GAYFAWKA-TAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAEN-IEI 195
           G     K  TA G         LE  Y  D+ +++ +  A+  LK   E    + N I +
Sbjct: 120 GGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFSGNGISL 179
Query: 196 GIADENGFR 204
            +  ++G +
Sbjct: 180 AVITKDGVK 188

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 46/209 (22%), Positives = 93/209 (44%), Gaps = 18/209 (8%)
Query: 21  SVGIKASNGIVLATEKKQKT--ILFEDCIHKVEPITDYIGMVYSGMGPDY----RLLVKK 74
           ++  K  +G+++A + +      +    + KV  I  Y+    +G   D     RLL ++
Sbjct: 3   TLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQ 62
Query: 75  ARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQC 134
            R     Y+L  +E I      + +A ++ +Y   G      +  +ICGWD + P LY  
Sbjct: 63  CR----IYELRNKERISVAAASKLLANMVYQYKGMG----LSMGTMICGWDKRGPGLYYV 114
Query: 135 DPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQMTAENI 193
           D  G   +  A ++G   V     +++ YS DL++++A   A   + +  +    +   +
Sbjct: 115 DSEGNRISGTAFSVGSGSVYAYGVMDRGYSYDLKVEEAYDLARRAIYQATYRDAYSGGAV 174
Query: 194 EIGIADENGFRRL---DVATVRDHLSNIP 219
            +    E+G+ R+   +VA + D  S++ 
Sbjct: 175 NLYHVREDGWIRVSSDNVADLHDKYSSVS 203

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 44/200 (22%), Positives = 85/200 (42%), Gaps = 15/200 (7%)
Query: 21  SVGIKASNGIVLATEKKQKT--ILFEDCIHKVEPITDYIGMVYSGMGPDY----RLLVKK 74
           ++  K  +G+++A + +      +    + KV  I  Y+    +G   D     RLL ++
Sbjct: 3   TLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQ 62
Query: 75  ARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQC 134
            R     Y+L  +E I      + +A ++ +Y   G      +  +ICGWD + P LY  
Sbjct: 63  CRI----YELRNKERISVAAASKLLANMVYQYKGMG----LSMGTMICGWDKRGPGLYYV 114
Query: 135 DPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQMTAENI 193
           D  G   +    ++G   V     +++ YS DLE++ A   A   + +  +    +   +
Sbjct: 115 DSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAV 174
Query: 194 EIGIADENGFRRLDVATVRD 213
            +    E+G+ R+    V D
Sbjct: 175 NLYHVREDGWIRVSSDNVAD 194

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 51/210 (24%), Positives = 93/210 (44%), Gaps = 31/210 (14%)
Query: 21  SVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIGMVYSGMGPDY----RLLVKK 74
           ++  K  +G+++A + +     +   +  +KV  I  Y+    SG   D     RLL K+
Sbjct: 3   TLAFKFQHGVIVAVDSRATAGSYISSLRMNKVIEINPYLLGTMSGCAADCQYWERLLAKE 62
Query: 75  ARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL--LICGWDNKRPYLY 132
            R     Y L   E I      + ++ +M +Y      R  G+S+  +ICGWD K P LY
Sbjct: 63  CR----LYYLRNGERISVSAASKLLSNMMLQY------RGMGLSMGSMICGWDKKGPGLY 112
Query: 133 QCDPSGAYFAWK--ATAMGRNYVNGKTFLEKRYSEDLELDDAVH-----TAILTLKEGFE 185
             D +G   + +  +T  G  Y  G   ++  Y +DL  ++A        A  T ++ + 
Sbjct: 113 YVDDNGTRLSGQMFSTGSGNTYAYG--VMDSGYRQDLSPEEAYDLGRRAIAYATHRDNYS 170
Query: 186 GQMTAENIEIGIADENGFRRLDVATVRDHL 215
           G +    + +    E+G+ +++ + V D L
Sbjct: 171 GGV----VNMYHMKEDGWVKVESSDVSDLL 196

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 44/193 (22%), Positives = 88/193 (45%), Gaps = 11/193 (5%)
Query: 22  VGIKASNGIVLATEK--KQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           +GI+  + ++LA+ K   +   + +D   K   ++ +  M ++G   D     +  +   
Sbjct: 5   LGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANI 64
Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQS-GGVRPFGVSLLICGWDNK--RPYLYQCDP 136
           Q Y +     +  Q +    + + QE  +S    RP+ V++LI G+D K  +P LYQ D 
Sbjct: 65  QLYSIREDYELSPQAVS---SFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDY 121
Query: 137 SGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAE--NIE 194
            G        A G +     + L+  Y  D+  ++ +    L ++E  E +M  +   + 
Sbjct: 122 LGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQE-LEKRMPMDFKGVI 180
Query: 195 IGIADENGFRRLD 207
           + I D++G R++D
Sbjct: 181 VKIVDKDGIRQVD 193

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	352
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-105
1iru_B	233	20S proteasome; cell cycle, immune response, prote	7e-36
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-101
1iru_E	241	20S proteasome; cell cycle, immune response, prote	6e-34
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	4e-99
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	2e-36
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	5e-98
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	2e-34
1iru_A	246	20S proteasome; cell cycle, immune response, prote	2e-97
1iru_A	246	20S proteasome; cell cycle, immune response, prote	2e-34
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-96
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	6e-36
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	4e-96
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	5e-34
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	5e-96
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	2e-33
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	1e-95
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	5e-31
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	9e-95
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	5e-36
1iru_D	248	20S proteasome; cell cycle, immune response, prote	2e-94
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-33
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	4e-94
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	7e-35
1iru_F	263	20S proteasome; cell cycle, immune response, prote	6e-94
1iru_F	263	20S proteasome; cell cycle, immune response, prote	3e-34
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	2e-92
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	3e-34
1iru_C	261	20S proteasome; cell cycle, immune response, prote	3e-91
1iru_C	261	20S proteasome; cell cycle, immune response, prote	2e-33
1iru_G	254	20S proteasome; cell cycle, immune response, prote	4e-91
1iru_G	254	20S proteasome; cell cycle, immune response, prote	4e-33
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	1e-88
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	5e-35
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	4e-87
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	1e-34
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	1e-58
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	9e-15
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	4e-53
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-12
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	2e-41
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	2e-13
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	6e-37
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	2e-10
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	6e-35
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	3e-10
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	3e-34
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	8e-09
1iru_I	234	20S proteasome; cell cycle, immune response, prote	5e-33
1iru_I	234	20S proteasome; cell cycle, immune response, prote	4e-09
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	1e-25
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	7e-04
1iru_L	204	20S proteasome; cell cycle, immune response, prote	2e-25
1iru_L	204	20S proteasome; cell cycle, immune response, prote	1e-06
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	4e-25
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	5e-25
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	1e-05
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	7e-25
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	4e-06
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	2e-24
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	2e-05
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	1e-23
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	1e-04
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	8e-23
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	5e-04
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	1e-22
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	2e-04
1iru_K	201	20S proteasome; cell cycle, immune response, prote	3e-21
1iru_K	201	20S proteasome; cell cycle, immune response, prote	4e-04
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	5e-19
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	9e-04
1iru_J	205	20S proteasome; cell cycle, immune response, prote	1e-17
1iru_H	205	20S proteasome; cell cycle, immune response, prote	3e-17
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	3e-17
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-05
1iru_M	213	20S proteasome; cell cycle, immune response, prote	1e-16
1iru_N	219	20S proteasome; cell cycle, immune response, prote	2e-15
1iru_N	219	20S proteasome; cell cycle, immune response, prote	2e-04
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	3e-15
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	9e-15
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	2e-14
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	8e-04
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	2e-14
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09

>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 =  306 bits (786), Expect = e-105
 Identities = 172/219 (78%), Positives = 197/219 (89%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 74  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 133

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 134 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 193

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    V+D+L+ I
Sbjct: 194 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI 232

>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 =  129 bits (326), Expect = 7e-36
 Identities = 65/75 (86%), Positives = 70/75 (93%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E IPT QLVQRVA++MQEYTQSGGVRPFGVSLLICGW+  RPYL+Q DPSGAYFAWKATA
Sbjct: 102 EPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATA 161

Query: 320 MGRNYVNGKTFLEKR 334
           MG+NYVNGKTFLEKR
Sbjct: 162 MGKNYVNGKTFLEKR 176

>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 =  298 bits (765), Expect = e-101
 Identities = 67/225 (29%), Positives = 117/225 (52%), Gaps = 7/225 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG-----VRP 114
             SG+  D + L+ KAR   Q +   Y E +  + + Q V+ +  ++ +         RP
Sbjct: 77  AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRP 136

Query: 115 FGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH 174
           FGV+LL  G D K P L+  DPSG +    A A+G      ++ L++ Y + + L +A+ 
Sbjct: 137 FGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIK 196

Query: 175 TAILTLKEGFEGQMTAENIEIGIADEN-GFRRLDVATVRDHLSNI 218
           ++++ LK+  E ++ A NIE+        F       + + + +I
Sbjct: 197 SSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 241

>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 =  124 bits (313), Expect = 6e-34
 Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 5/80 (6%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGG-----VRPFGVSLLICGWDNKRPYLYQCDPSGAYFA 314
           E +  + + Q V+ +  ++ +         RPFGV+LL  G D K P L+  DPSG +  
Sbjct: 105 ETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQ 164

Query: 315 WKATAMGRNYVNGKTFLEKR 334
             A A+G      ++ L++ 
Sbjct: 165 CDARAIGSASEGAQSSLQEL 184

>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 =  291 bits (748), Expect = 4e-99
 Identities = 89/217 (41%), Positives = 127/217 (58%), Gaps = 2/217 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ GGVRP+GVSL
Sbjct: 77  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSL 136

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           +  G D   P L+ CDP+G    +KATA+G       +FLE+ Y E+L   +AV   I  
Sbjct: 137 IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKA 196

Query: 180 LKEGFEGQMTAENIEIGIAD-ENGFRRLDVATVRDHL 215
           LK   E     +  EI      N +R  D   V+  L
Sbjct: 197 LKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A Length = 233

 Score =  130 bits (330), Expect = 2e-36
 Identities = 35/75 (46%), Positives = 47/75 (62%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             +  + LV+RVA  MQ+YTQ GGVRP+GVSL+  G D   P L+ CDP+G    +KATA
Sbjct: 105 SLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATA 164

Query: 320 MGRNYVNGKTFLEKR 334
           +G       +FLE+ 
Sbjct: 165 IGSGKDAVVSFLERE 179

>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 =  289 bits (742), Expect = 5e-98
 Identities = 63/228 (27%), Positives = 109/228 (47%), Gaps = 10/228 (4%)

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

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           MV +G  PD R    +A+  A +++  Y  ++P   L +R+A + Q YTQ   +RP GV 
Sbjct: 72  MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVI 131

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE-------DLELD 170
           L     D +  P +Y+ DP+G Y  +KATA G       T LE  + +       +   +
Sbjct: 132 LTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWE 191

Query: 171 DAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             V  AI  + +    + +  ++E+G+A ++ F  L    + + L  I
Sbjct: 192 KVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLVAI 239

>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 =  125 bits (317), Expect = 2e-34
 Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
            ++P   L +R+A + Q YTQ   +RP GV L     D +  P +Y+ DP+G Y  +KAT
Sbjct: 101 YDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKAT 160

Query: 319 AMGRNYVNGKTFLEKREK 336
           A G       T LE   K
Sbjct: 161 ATGPKQQEITTNLENHFK 178

>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 =  287 bits (738), Expect = 2e-97
 Identities = 77/225 (34%), Positives = 115/225 (51%), Gaps = 7/225 (3%)

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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            V +GM  D R  V++AR  A  +K  Y   IP   L +R+A I Q YTQ+  +RP G  
Sbjct: 78  CVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCC 137

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE--DLELDDAVHT 175
           +++ G D ++ P +Y+CDP+G Y  +KATA G       +FLEK+  +  D   +  V T
Sbjct: 138 MILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVET 197

Query: 176 AILTLKEGFEGQMTAENIEIGI--ADENGFRRLDVATVRDHLSNI 218
           AI  L            IE+G+   +   FR L  A +  HL  +
Sbjct: 198 AITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVAL 242

>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 =  125 bits (317), Expect = 2e-34
 Identities = 32/78 (41%), Positives = 47/78 (60%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
             IP   L +R+A I Q YTQ+  +RP G  +++ G D ++ P +Y+CDP+G Y  +KAT
Sbjct: 107 YEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKAT 166

Query: 319 AMGRNYVNGKTFLEKREK 336
           A G       +FLEK+ K
Sbjct: 167 AAGVKQTESTSFLEKKVK 184

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

 Score =  286 bits (735), Expect = 1e-96
 Identities = 82/223 (36%), Positives = 127/223 (56%), Gaps = 4/223 (1%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R+L+ +AR  AQ Y+L Y E I  + L +++  I Q YTQ GGVRPFGVSL
Sbjct: 81  ATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSL 140

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G D     L++ DPSGA   +KATA+G         LEK Y +D+ LD+ +  AI  
Sbjct: 141 LIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITA 200

Query: 180 LKEGFEGQMTAENIEIGI--ADENGFRRLDVATVRDHLSNIPQ 220
           L +  E  +  EN+++ I    +  F+++ V  ++  +  + +
Sbjct: 201 LTKANE-DIKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVKK 242

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

 Score =  130 bits (328), Expect = 6e-36
 Identities = 36/75 (48%), Positives = 44/75 (58%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E I  + L +++  I Q YTQ GGVRPFGVSLLI G D     L++ DPSGA   +KATA
Sbjct: 109 EEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATA 168

Query: 320 MGRNYVNGKTFLEKR 334
           +G         LEK 
Sbjct: 169 IGSGRPVVMELLEKE 183

>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 =  284 bits (730), Expect = 4e-96
 Identities = 124/237 (52%), Positives = 156/237 (65%), Gaps = 19/237 (8%)

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-YKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           VYSGMGPDYR+LV K+RK+A   YK +Y E  PT+ LV  VA IMQE TQSGGVRPFGVS
Sbjct: 74  VYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVS 133

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
           LLI G D      LYQ DPSG+YF WKATA+G+  V  KTFLEKR++++LEL+DA+H A+
Sbjct: 134 LLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIAL 193

Query: 178 LTLKEGFEGQMTAENIEIGIADENG----------------FRRLDVATVRDHLSNI 218
           LTLKE  EG+   + IE+ I  +                  FR+L    + D L  +
Sbjct: 194 LTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQEINDRLEAL 250

>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 =  125 bits (315), Expect = 5e-34
 Identities = 51/76 (67%), Positives = 55/76 (72%), Gaps = 1/76 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E  PT+ LV  VA IMQE TQSGGVRPFGVSLLI G D      LYQ DPSG+YF WKAT
Sbjct: 103 EYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKAT 162

Query: 319 AMGRNYVNGKTFLEKR 334
           A+G+  V  KTFLEKR
Sbjct: 163 AIGKGSVAAKTFLEKR 178

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

 Score =  284 bits (729), Expect = 5e-96
 Identities = 84/223 (37%), Positives = 129/223 (57%), Gaps = 4/223 (1%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R+L+ +AR  AQ  +L Y   I  ++L +++    Q+YTQ GGVRPFGVSL
Sbjct: 77  ATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSL 136

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G +   P LY+ DPSGA   +KATA+G   +    F EK Y +DL  DDA+   ++ 
Sbjct: 137 LIAGVNEV-PKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVA 195

Query: 180 LKEGFEGQMTAENIEIGI--ADENGFRRLDVATVRDHLSNIPQ 220
           +    E ++  ENIE+G    D+  F+ +    ++ ++    +
Sbjct: 196 MGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERANE 238

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

 Score =  123 bits (310), Expect = 2e-33
 Identities = 35/75 (46%), Positives = 46/75 (61%), Gaps = 1/75 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             I  ++L +++    Q+YTQ GGVRPFGVSLLI G +   P LY+ DPSGA   +KATA
Sbjct: 105 IPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNEV-PKLYETDPSGALLEYKATA 163

Query: 320 MGRNYVNGKTFLEKR 334
           +G   +    F EK 
Sbjct: 164 IGMGRMAVTEFFEKE 178

>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 =  283 bits (726), Expect = 1e-95
 Identities = 67/227 (29%), Positives = 112/227 (49%), Gaps = 9/227 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG------GVR 113
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +          R
Sbjct: 69  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSR 128

Query: 114 PFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
           PFGV+LLI G D      L+  +PSG ++ + A A+G      +  L   +   L L +A
Sbjct: 129 PFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 188

Query: 173 VHTAILTLKEGFEGQMTAENIEIG-IADENGFRRLDVATVRDHLSNI 218
               +  LK+  E ++   N ++  I  ++GF+  D     + +  +
Sbjct: 189 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKEL 235

>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 =  116 bits (293), Expect = 5e-31
 Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 7/82 (8%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSG------GVRPFGVSLLICGWDNKR-PYLYQCDPSGAY 312
           E+I  + L Q V  +   + +          RPFGV+LLI G D      L+  +PSG +
Sbjct: 97  EDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTF 156

Query: 313 FAWKATAMGRNYVNGKTFLEKR 334
           + + A A+G      +  L   
Sbjct: 157 YRYNAKAIGSGSEGAQAELLNE 178

>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 =  280 bits (719), Expect = 9e-95
 Identities = 60/221 (27%), Positives = 106/221 (47%), Gaps = 7/221 (3%)

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

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS G RP+GV LL
Sbjct: 73  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLL 132

Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE----DLELDDAVHTA 176
           I G+D    +L +  PSG       TA+G      KT+LE+        D   D+ +   
Sbjct: 133 IIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 192

Query: 177 ILTLKEGFEGQ-MTAENIEIGI-ADENGFRRLDVATVRDHL 215
           +  + +    + +T +N+ I I   +  F   D   V  ++
Sbjct: 193 VEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>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 =  129 bits (327), Expect = 5e-36
 Identities = 25/77 (32%), Positives = 37/77 (48%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             +  ++    +    Q+ TQS G RP+GV LLI G+D    +L +  PSG       TA
Sbjct: 100 RKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTA 159

Query: 320 MGRNYVNGKTFLEKREK 336
           +G      KT+LE+   
Sbjct: 160 IGARSQGAKTYLERTLD 176

>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 =  280 bits (718), Expect = 2e-94
 Identities = 75/225 (33%), Positives = 127/225 (56%), Gaps = 7/225 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS G RPFG+S 
Sbjct: 72  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISA 131

Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSED--LELDDAVHTA 176
           LI G+D +  P LYQ DPSG Y AWKA A+GR   + + FLEK Y+++     D  +   
Sbjct: 132 LIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLV 191

Query: 177 ILTLKEGFEGQMTAENIEIGIAD-ENGFRRLDVATVRDHLSNIPQ 220
           I  L E    Q   +NIE+ +   +   + L+   +  +++ I +
Sbjct: 192 IKALLE--VVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEK 234

>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 =  123 bits (312), Expect = 1e-33
 Identities = 36/78 (46%), Positives = 50/78 (64%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKAT 318
           + +  + + + +A++ Q YTQS G RPFG+S LI G+D +  P LYQ DPSG Y AWKA 
Sbjct: 100 DPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKAN 159

Query: 319 AMGRNYVNGKTFLEKREK 336
           A+GR   + + FLEK   
Sbjct: 160 AIGRGAKSVREFLEKNYT 177

>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 =  279 bits (716), Expect = 4e-94
 Identities = 80/228 (35%), Positives = 125/228 (54%), Gaps = 10/228 (4%)

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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ GG+RPFGVS
Sbjct: 74  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVS 133

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            +  G+D++    LY  +PSG Y  WKA ++G N    +T L+  Y +D+++DDA+  A+
Sbjct: 134 FIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELAL 193

Query: 178 LTLKEGFEGQ-MTAENIEIGI------ADENGFRRLDVATVRDHLSNI 218
            TL +  +   +T + +E           E   +      ++D L   
Sbjct: 194 KTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVKT 241

>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 =  127 bits (320), Expect = 7e-35
 Identities = 34/76 (44%), Positives = 49/76 (64%), Gaps = 1/76 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E+IP + LV+R++ I Q YTQ GG+RPFGVS +  G+D++    LY  +PSG Y  WKA 
Sbjct: 103 EDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAI 162

Query: 319 AMGRNYVNGKTFLEKR 334
           ++G N    +T L+  
Sbjct: 163 SVGANTSAAQTLLQMD 178

>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 =  279 bits (717), Expect = 6e-94
 Identities = 70/223 (31%), Positives = 119/223 (53%), Gaps = 6/223 (2%)

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

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+  D RLL    R+     + V+   +P  +LV  + +  Q  TQ  G RP+GV LL
Sbjct: 74  IAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLL 133

Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLE--LDDAVHTAIL 178
           I G+D+  P+++Q  PS  YF  +A ++G    + +T+LE+  SE +E  L++ V   + 
Sbjct: 134 IAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLR 193

Query: 179 TLKEGFEGQ--MTAENIEIGI-ADENGFRRLDVATVRDHLSNI 218
            L+E    +  +T +N+ IGI   +  F   D   V   L  +
Sbjct: 194 ALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGL 236

>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 =  125 bits (317), Expect = 3e-34
 Identities = 27/77 (35%), Positives = 44/77 (57%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             +P  +LV  + +  Q  TQ  G RP+GV LLI G+D+  P+++Q  PS  YF  +A +
Sbjct: 101 RPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMS 160

Query: 320 MGRNYVNGKTFLEKREK 336
           +G    + +T+LE+   
Sbjct: 161 IGARSQSARTYLERHMS 177

>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 =  275 bits (705), Expect = 2e-92
 Identities = 82/228 (35%), Positives = 127/228 (55%), Gaps = 10/228 (4%)

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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSGGVRPFGVS
Sbjct: 71  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVS 130

Query: 119 LLICGWD--NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE---DLELDDAV 173
            LI G+D  +  P LYQ +PSG Y +W A  +GRN    + FLEK Y        +++ V
Sbjct: 131 TLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECV 190

Query: 174 HTAILTLKEGFEGQMTAENIEIGIAD-ENGFRRLDVATVRDHLSNIPQ 220
              + +L E  +    A+NIEI +   ++    L    +  +++ I Q
Sbjct: 191 KLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQ 236

>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C* 1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C* 3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C* 3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ... Length = 241

 Score =  125 bits (315), Expect = 3e-34
 Identities = 39/84 (46%), Positives = 51/84 (60%), Gaps = 2/84 (2%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD--NKRPYLYQCDPSGAYFAWKA 317
           + +  + L + VA + Q YTQSGGVRPFGVS LI G+D  +  P LYQ +PSG Y +W A
Sbjct: 100 DPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSA 159

Query: 318 TAMGRNYVNGKTFLEKREKLRVPN 341
             +GRN    + FLEK    + P 
Sbjct: 160 QTIGRNSKTVREFLEKNYDRKEPP 183

>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 =  273 bits (699), Expect = 3e-91
 Identities = 81/229 (35%), Positives = 120/229 (52%), Gaps = 9/229 (3%)

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

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
              +G+  D  +L  + R IAQ+Y L YQE IP +QLV  +  I Q YTQ GG RPFGVS
Sbjct: 74  CSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVS 133

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE-DLELDDAVHTA 176
           LL  GWD      LYQ DPSG Y  WKAT +G N     + L++ Y E ++ L  A+  A
Sbjct: 134 LLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALA 193

Query: 177 ILTLKEGFE-GQMTAENIEIGIADENG----FRRLDVATVRDHLSNIPQ 220
           I  L +  +  +++AE +EI            R L    V   +    +
Sbjct: 194 IKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHEE 242

>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 =  123 bits (311), Expect = 2e-33
 Identities = 39/76 (51%), Positives = 45/76 (59%), Gaps = 1/76 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E IP +QLV  +  I Q YTQ GG RPFGVSLL  GWD      LYQ DPSG Y  WKAT
Sbjct: 103 EPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKAT 162

Query: 319 AMGRNYVNGKTFLEKR 334
            +G N     + L++ 
Sbjct: 163 CIGNNSAAAVSMLKQD 178

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F Length = 254

 Score =  272 bits (697), Expect = 4e-91
 Identities = 62/223 (27%), Positives = 105/223 (47%), Gaps = 5/223 (2%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             +G+  D R L   AR+ A  ++  +  NIP + L  RVA  +  YT    VRPFG S 
Sbjct: 76  AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSF 135

Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
           ++  +  N    LY  DPSG  + +   A+G+     KT +EK   +++   D V     
Sbjct: 136 MLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAK 195

Query: 179 TLKE-GFEGQMTAENIEIGI--ADENGFRRLDVATVRDHLSNI 218
            +     E +  A  +E+       NG   +    +R+     
Sbjct: 196 IIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKY 238

>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 =  122 bits (308), Expect = 4e-33
 Identities = 28/78 (35%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKAT 318
            NIP + L  RVA  +  YT    VRPFG S ++  +  N    LY  DPSG  + +   
Sbjct: 104 YNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGC 163

Query: 319 AMGRNYVNGKTFLEKREK 336
           A+G+     KT +EK + 
Sbjct: 164 AIGKARQAAKTEIEKLQM 181

>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 =  265 bits (680), Expect = 1e-88
 Identities = 73/223 (32%), Positives = 109/223 (48%), Gaps = 8/223 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T    VRPFGVS 
Sbjct: 73  VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVST 132

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK---RYSEDLELDDAVHTA 176
           +  G D    +LY  +PSG+Y+ +K  A G+   + K  LEK    + E L   +AV  A
Sbjct: 133 IFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQA 192

Query: 177 ILTLKEGFEGQM-TAENIEIGIA---DENGFRRLDVATVRDHL 215
              +    E        +EI      + NG  +     +    
Sbjct: 193 AKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEA 235

>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 =  127 bits (321), Expect = 5e-35
 Identities = 27/77 (35%), Positives = 38/77 (49%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             IP      R+   +Q +T    VRPFGVS +  G D    +LY  +PSG+Y+ +K  A
Sbjct: 101 TPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAA 160

Query: 320 MGRNYVNGKTFLEKREK 336
            G+   + K  LEK   
Sbjct: 161 TGKGRQSAKAELEKLVD 177

>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 =  263 bits (674), Expect = 4e-87
 Identities = 73/223 (32%), Positives = 110/223 (49%), Gaps = 8/223 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T    VRPFGVS 
Sbjct: 77  VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVST 136

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK---RYSEDLELDDAVHTA 176
           +  G D    +LY  +PSG+Y+ +K  A G+   + K  LEK    + E L   +AV  A
Sbjct: 137 IFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQA 196

Query: 177 ILTLKEGFEGQM-TAENIEIGI---ADENGFRRLDVATVRDHL 215
              +    E        +EI     ++ NG  +     +    
Sbjct: 197 AKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEA 239

>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 =  127 bits (322), Expect = 1e-34
 Identities = 27/77 (35%), Positives = 38/77 (49%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             IP      R+   +Q +T    VRPFGVS +  G D    +LY  +PSG+Y+ +K  A
Sbjct: 105 TPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAA 164

Query: 320 MGRNYVNGKTFLEKREK 336
            G+   + K  LEK   
Sbjct: 165 TGKGRQSAKAELEKLVD 181

>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 =  188 bits (480), Expect = 1e-58
 Identities = 43/238 (18%), Positives = 87/238 (36%), Gaps = 23/238 (9%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             +G   ++  L +   + A      Y     T + +  V A       +   +P+ V L
Sbjct: 63  AAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVEL 122

Query: 120 LICGW----DNKRPYLYQCDPSGAYF-AWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH 174
            +       + KRP LY+    G+         MG         L++ Y+E+  L DA+ 
Sbjct: 123 CVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDALR 182

Query: 175 TAILTLKEGFEGQ-------MTAENIEIGIADENG----FRRLDVATVRDHLSNIPQS 221
            A+  L+ G           +   ++E+ + D N     FRR+  + ++  L +    
Sbjct: 183 IAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLVDQESP 240

>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 = 72.3 bits (177), Expect = 9e-15
 Identities = 15/81 (18%), Positives = 28/81 (34%), Gaps = 6/81 (7%)

Query: 259 TENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGW----DNKRPYLYQCDPSGAYF- 313
             ++  +QL    A  +     +   +P+ V L +       + KRP LY+    G+   
Sbjct: 91  RRDVTGRQLANVYAQTLGT-IFTEQAKPYEVELCVAEVAHYGETKRPELYRITYDGSIAD 149

Query: 314 AWKATAMGRNYVNGKTFLEKR 334
                 MG         L++ 
Sbjct: 150 EPHFVVMGGTTEPIANALKES 170

>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 =  175 bits (444), Expect = 4e-53
 Identities = 43/231 (18%), Positives = 88/231 (38%), Gaps = 24/231 (10%)

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

Query: 67  DYRLLVKKARKIAQQYKLVY-QENIPTQQLVQRVAAIM-QEYTQSGGVRPFGVSLLI--- 121
           ++  L +     A      Y + ++  + L    A  +   +T+    +P+ V + +   
Sbjct: 70  EFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--QPKPYEVEICVAEV 127

Query: 122 -CGWDNKRPYLYQCDPSGAYFAWKAT-AMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
                 K P LY+    G+    +    MG       T + + Y  DL+L+ AV  A+  
Sbjct: 128 GRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNA 187

Query: 180 LKE-----GFEGQMTAENIEIGIADENG----FRRLDVATVRDHLSNIPQS 221
           L++     G +  +   ++E+ + D++     FRR+    +   +   P +
Sbjct: 188 LRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAEPAA 238

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A Length = 259

 Score = 65.8 bits (160), Expect = 2e-12
 Identities = 16/102 (15%), Positives = 32/102 (31%), Gaps = 8/102 (7%)

Query: 239 AENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIM-QEYTQSGGVRPFGVSLLI---- 293
            EN+          R       ++  + L    A  +   +T+    +P+ V + +    
Sbjct: 71  FENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--QPKPYEVEICVAEVG 128

Query: 294 CGWDNKRPYLYQCDPSGAYFAWKAT-AMGRNYVNGKTFLEKR 334
                K P LY+    G+    +    MG       T + + 
Sbjct: 129 RVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRES 170

>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 =  144 bits (365), Expect = 2e-41
 Identities = 33/188 (17%), Positives = 70/188 (37%), Gaps = 8/188 (4%)

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

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA 139
           + + L          + + +   +  Y         G SL++ G D   P LY+  P G+
Sbjct: 64  ELHALSTGREPRVATVTRILRQTLFRYQG-----HVGASLVVGGVDLNGPQLYEVHPHGS 118

Query: 140 YFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQMTAENIEIGIA 198
           Y     TA+G         LE R+  ++ L+ A    +  +  G      +  N++  + 
Sbjct: 119 YSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVI 178

Query: 199 DENGFRRL 206
              G +  
Sbjct: 179 TAGGAKLQ 186

>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 = 67.7 bits (166), Expect = 2e-13
 Identities = 18/75 (24%), Positives = 27/75 (36%), Gaps = 5/75 (6%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
                  + + +   +  Y         G SL++ G D   P LY+  P G+Y     TA
Sbjct: 72  REPRVATVTRILRQTLFRYQG-----HVGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTA 126

Query: 320 MGRNYVNGKTFLEKR 334
           +G         LE R
Sbjct: 127 LGSGQGAAVALLEDR 141

>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 =  132 bits (335), Expect = 6e-37
 Identities = 35/210 (16%), Positives = 78/210 (37%), Gaps = 9/210 (4%)

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  GMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGV 117
               +G   D   + +      + + L           +Q +   + +Y         G 
Sbjct: 71  WCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG-----HIGA 125

Query: 118 SLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            L++ G D    +L+     G+       ++G   +     LE  + +DL  ++A+  A 
Sbjct: 126 YLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLAS 185

Query: 178 LTLKEGFEG-QMTAENIEIGIADENGFRRL 206
             ++ G      +  N+++ + +       
Sbjct: 186 DAIQAGIWNDLGSGSNVDVCVMEIGKDAEY 215

>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 = 59.3 bits (144), Expect = 2e-10
 Identities = 11/75 (14%), Positives = 23/75 (30%), Gaps = 5/75 (6%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
                   +Q +   + +Y         G  L++ G D    +L+     G+       +
Sbjct: 101 REPRVVSALQMLKQHLFKYQG-----HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLS 155

Query: 320 MGRNYVNGKTFLEKR 334
           +G   +     LE  
Sbjct: 156 LGSGSLAAMAVLESH 170

>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 =  126 bits (319), Expect = 6e-35
 Identities = 32/188 (17%), Positives = 72/188 (38%), Gaps = 8/188 (4%)

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

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA 139
           + + L           +Q +   + +Y         G  L++ G D    +L+     G+
Sbjct: 64  ELHSLYTSREPRVVSALQMLKQHLFKYQG-----HIGAYLIVAGVDPTGSHLFSIHAHGS 118

Query: 140 YFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAENIEIGIA 198
                  ++G   +     LE  + +DL  ++A+  A   ++ G      +  N+++ + 
Sbjct: 119 TDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVM 178

Query: 199 DENGFRRL 206
           +       
Sbjct: 179 EIGKDAEY 186

>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 = 58.4 bits (142), Expect = 3e-10
 Identities = 11/75 (14%), Positives = 23/75 (30%), Gaps = 5/75 (6%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
                   +Q +   + +Y         G  L++ G D    +L+     G+       +
Sbjct: 72  REPRVVSALQMLKQHLFKYQG-----HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLS 126

Query: 320 MGRNYVNGKTFLEKR 334
           +G   +     LE  
Sbjct: 127 LGSGSLAAMAVLESH 141

>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 =  124 bits (313), Expect = 3e-34
 Identities = 46/216 (21%), Positives = 98/216 (45%), Gaps = 13/216 (6%)

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

Query: 72  VKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYL 131
           V+  +   + Y+L  + N+P + +   ++ ++ +        P+ V LL+ G D   P++
Sbjct: 64  VRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKY----MPYMVQLLVGGIDTA-PHV 118

Query: 132 YQCDPSGAYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQM 188
           +  D +G        + G    +V G   LE +YSE + +D+ V   I  +         
Sbjct: 119 FSIDAAGGSVEDIYASTGSGSPFVYG--VLESQYSEKMTVDEGVDLVIRAISAAKQRDSA 176

Query: 189 TAENIEIG-IADENGFRRLDVATVRDHLSNIPQSVH 223
           +   I++  I  ++G+ +L    +   +  +   +H
Sbjct: 177 SGGMIDVAVITRKDGYVQLPTDQIESRIRKLGLILH 212

>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 = 54.2 bits (131), Expect = 8e-09
 Identities = 12/62 (19%), Positives = 27/62 (43%), Gaps = 5/62 (8%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
            N+P + +   ++ ++ +        P+ V LL+ G D   P+++  D +G        +
Sbjct: 80  VNMPIEAVATLLSNMLNQVKY----MPYMVQLLVGGIDTA-PHVFSIDAAGGSVEDIYAS 134

Query: 320 MG 321
            G
Sbjct: 135 TG 136

>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 =  121 bits (306), Expect = 5e-33
 Identities = 32/190 (16%), Positives = 68/190 (35%), Gaps = 12/190 (6%)

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

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA 139
           + + L            + +  ++  Y         G +L++ G D   P+LY   P G+
Sbjct: 64  ELHSLSTGRLPRVVTANRMLKQMLFRYRG-----YIGAALVLGGVDVTGPHLYSIYPHGS 118

Query: 140 YFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAENIEIG 196
                   MG            E ++  D+E ++A +     +  G      +  NI++ 
Sbjct: 119 TDKLPYVTMGSGSLAAMA--VFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLC 176

Query: 197 IADENGFRRL 206
           +  +N    L
Sbjct: 177 VISKNKLDFL 186

>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 = 55.4 bits (134), Expect = 4e-09
 Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 5/62 (8%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
                    + +  ++  Y         G +L++ G D   P+LY   P G+        
Sbjct: 72  RLPRVVTANRMLKQMLFRYRG-----YIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVT 126

Query: 320 MG 321
           MG
Sbjct: 127 MG 128

>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 =  103 bits (259), Expect = 1e-25
 Identities = 38/231 (16%), Positives = 78/231 (33%), Gaps = 25/231 (10%)

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

Query: 66  PDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD 125
                LV+      + Y+ +    +       R+A++++       ++   V  L+ G+D
Sbjct: 115 GIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGN-LGAAMQGLAVVPLLVGYD 173

Query: 126 ------NKRPYLYQCDPSGAYFAWKA--TAMG--RNYVNGKTFLEKRYSEDLELDDAVHT 175
                 ++   +   D  G  +  +A   A+G    +      L+K YS D + + A+  
Sbjct: 174 LDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKS--ALKKIYSPDSDEETALRA 231

Query: 176 AILTLKEGFE------GQMTAENIEIGIA--DENGFRRLDVATVRDHLSNI 218
           AI +L +  +      G      I        + G   +   T  +    I
Sbjct: 232 AIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRI 282

>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 = 40.0 bits (93), Expect = 7e-04
 Identities = 13/85 (15%), Positives = 31/85 (36%), Gaps = 13/85 (15%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD------NKRPYLYQCDPSGAYF 313
             +       R+A++++       ++   V  L+ G+D      ++   +   D  G  +
Sbjct: 137 VPLTFDGKANRLASMVRGN-LGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRY 195

Query: 314 AWKA--TAMG--RNYVNGKTFLEKR 334
             +A   A+G    +      L+K 
Sbjct: 196 EERAGYHAVGSGSLFAKS--ALKKI 218

>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 =  100 bits (252), Expect = 2e-25
 Identities = 42/207 (20%), Positives = 82/207 (39%), Gaps = 13/207 (6%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG 138
            + Y+L  +E I      + +A ++ +Y          +  +ICGWD + P LY  D  G
Sbjct: 63  CRIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDKRGPGLYYVDSEG 118

Query: 139 AYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQMTAENIEI 195
              +    ++G    Y  G   +++ YS DLE++ A   A   + +  +    +   + +
Sbjct: 119 NRISGATFSVGSGSVYAYG--VMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNL 176

Query: 196 GIADENGFRRLDVATVRDHLSNIPQSV 222
               E+G+ R+    V D       S 
Sbjct: 177 YHVREDGWIRVSSDNVADLHEKYSGST 203

>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 = 47.6 bits (114), Expect = 1e-06
 Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 4/62 (6%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E I      + +A ++ +Y          +  +ICGWD + P LY  D  G   +    +
Sbjct: 72  ERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFS 127

Query: 320 MG 321
           +G
Sbjct: 128 VG 129

>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 =  100 bits (251), Expect = 4e-25
 Identities = 39/216 (18%), Positives = 79/216 (36%), Gaps = 21/216 (9%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD------NKRPYLY 132
            + Y+ +    +       R+A++++       ++   V  L+ G+D      ++   + 
Sbjct: 63  LEHYEKIEGVPLTFDGKANRLASMVRGN-LGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 133 QCDPSGAYFAWKA--TAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE----- 185
             D  G  +  +A   A+G   +  K+ L+K YS D + + A+  AI +L +  +     
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSAT 181

Query: 186 -GQMTAENIEIGIA--DENGFRRLDVATVRDHLSNI 218
            G      I        + G   +   T  +    I
Sbjct: 182 GGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRI 217

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

 Score = 99.6 bits (249), Expect = 5e-25
 Identities = 44/204 (21%), Positives = 85/204 (41%), Gaps = 17/204 (8%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG 138
           A  Y++  +     + +    + ++  Y       P+ V LLI G D++   +Y  DP G
Sbjct: 63  ANLYEIRRERKPTVRAIATLTSNLLNSYRY----FPYLVQLLIGGIDSEGKSIYSIDPIG 118

Query: 139 A-YFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAENIE 194
                    A G       G   LE R++ ++ +D+AV  A+  +    +    + + I+
Sbjct: 119 GAIEEKDIVATGSGSLTAYG--VLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGID 176

Query: 195 IGIADENGFRRL---DVATVRDHL 215
           +    E+ F +    +V  +    
Sbjct: 177 VVKITEDEFYQYSPEEVEQILAKF 200

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

 Score = 44.9 bits (107), Expect = 1e-05
 Identities = 14/63 (22%), Positives = 23/63 (36%), Gaps = 5/63 (7%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA-YFAWKAT 318
                + +    + ++  Y       P+ V LLI G D++   +Y  DP G         
Sbjct: 72  RKPTVRAIATLTSNLLNSYRY----FPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIV 127

Query: 319 AMG 321
           A G
Sbjct: 128 ATG 130

>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 = 98.8 bits (247), Expect = 7e-25
 Identities = 42/194 (21%), Positives = 84/194 (43%), Gaps = 13/194 (6%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR--PYLYQCDP 136
            Q Y +     +  Q +   V   + +  +S    P+ V++LI G+D K+  P LYQ D 
Sbjct: 64  IQLYSIREDYELSPQAVSSFVRQELAKSIRSRR--PYQVNVLIGGYDKKKNKPELYQIDY 121

Query: 137 SGAYFAWKATAMGR--NYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAENI 193
            G        A G    Y      L+  Y  D+  ++ +    L ++E  +   M  + +
Sbjct: 122 LGTKVELPYGAHGYSGFYTFS--LLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGV 179

Query: 194 EIGIADENGFRRLD 207
            + I D++G R++D
Sbjct: 180 IVKIVDKDGIRQVD 193

>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 = 46.0 bits (110), Expect = 4e-06
 Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 4/64 (6%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR--PYLYQCDPSGAYFAWKA 317
             +  Q +   V   + +  +S    P+ V++LI G+D K+  P LYQ D  G       
Sbjct: 73  YELSPQAVSSFVRQELAKSIRSRR--PYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPY 130

Query: 318 TAMG 321
            A G
Sbjct: 131 GAHG 134

>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 =  100 bits (250), Expect = 2e-24
 Identities = 30/197 (15%), Positives = 71/197 (36%), Gaps = 10/197 (5%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
            + ++L  +E I      + ++ ++ +Y          +  +ICG+  K  P +Y  D  
Sbjct: 138 CRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSD 193

Query: 138 GAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQMTAENIEIG 196
           G         +G         L+  Y  DL ++DA++    ++         +  ++ + 
Sbjct: 194 GTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLY 253

Query: 197 IADENGFRRLDVATVRD 213
              E+G+       V +
Sbjct: 254 HVTEDGWIYHGNHDVGE 270

>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 = 44.4 bits (105), Expect = 2e-05
 Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 5/63 (7%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E I      + ++ ++ +Y          +  +ICG+  K  P +Y  D  G        
Sbjct: 147 ERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIF 202

Query: 319 AMG 321
            +G
Sbjct: 203 CVG 205

>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 = 96.2 bits (240), Expect = 1e-23
 Identities = 30/199 (15%), Positives = 74/199 (37%), Gaps = 14/199 (7%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
            + ++L  +E I      + ++ ++ +Y          +  +ICG+  K  P +Y  D  
Sbjct: 63  CRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSD 118

Query: 138 GAYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQMTAENIE 194
           G         +G  + +  G   L+  Y  DL ++DA++    ++         +  ++ 
Sbjct: 119 GTRLKGDIFCVGSGQTFAYG--VLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVN 176

Query: 195 IGIADENGFRRLDVATVRD 213
           +    E+G+       V +
Sbjct: 177 LYHVTEDGWIYHGNHDVGE 195

>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 = 41.8 bits (99), Expect = 1e-04
 Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 5/63 (7%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E I      + ++ ++ +Y          +  +ICG+  K  P +Y  D  G        
Sbjct: 72  ERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIF 127

Query: 319 AMG 321
            +G
Sbjct: 128 CVG 130

>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 = 95.0 bits (236), Expect = 1e-22
 Identities = 32/217 (14%), Positives = 75/217 (34%), Gaps = 23/217 (10%)

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

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD------NKRPYLYQ 133
           + Y+ +    +     + R+A +++    +   +      L+ G+D           +  
Sbjct: 121 EHYEKLEGVPLTFAGKINRLAIMVRGNLAAAM-QGLLALPLLAGYDIHASDPQSAGRIVS 179

Query: 134 CDPSGAYFAWKA--TAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE---- 185
            D +G +   +    A+G    +      ++K YS+  + D  +  A+  L +  +    
Sbjct: 180 FDAAGGWNIEEEGYQAVGSGSLFAKS--SMKKLYSQVTDGDSGLRVAVEALYDAADDDSA 237

Query: 186 --GQMTAENIEIGIA--DENGFRRLDVATVRDHLSNI 218
             G      I       D +G   +  + + +    I
Sbjct: 238 TGGPDLVRGIFPTAVIIDADGAVDVPESRIAELARAI 274

>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 = 41.4 bits (97), Expect = 2e-04
 Identities = 9/70 (12%), Positives = 24/70 (34%), Gaps = 9/70 (12%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD------NKRPYLYQCDPSGAYF 313
             +     + R+A +++    +   +      L+ G+D           +   D +G + 
Sbjct: 129 VPLTFAGKINRLAIMVRGNLAAAM-QGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWN 187

Query: 314 AWKA--TAMG 321
             +    A+G
Sbjct: 188 IEEEGYQAVG 197

>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 = 89.2 bits (222), Expect = 3e-21
 Identities = 38/193 (19%), Positives = 76/193 (39%), Gaps = 12/193 (6%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
            Q YK+     +            + +  +S    P+ V+LL+ G+D    P LY  D  
Sbjct: 64  VQLYKMRNGYELSPTAAANFTRRNLADCLRSRT--PYHVNLLLAGYDEHEGPALYYMDYL 121

Query: 138 GAYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAENIE 194
            A       A G           L++ Y+  +  + AV      L+E  +   +      
Sbjct: 122 AALAKAPFAAHGYGAFLTLS--ILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFS 179

Query: 195 IGIADENGFRRLD 207
           + I D+NG   LD
Sbjct: 180 VRIIDKNGIHDLD 192

>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 = 40.3 bits (95), Expect = 4e-04
 Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 3/63 (4%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
             +            + +  +S    P+ V+LL+ G+D    P LY  D   A       
Sbjct: 73  YELSPTAAANFTRRNLADCLRSRT--PYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFA 130

Query: 319 AMG 321
           A G
Sbjct: 131 AHG 133

>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 = 83.0 bits (206), Expect = 5e-19
 Identities = 26/190 (13%), Positives = 59/190 (31%), Gaps = 14/190 (7%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG 138
            + + L  +E          V  I  +Y +          L++ GWD +          G
Sbjct: 63  LELHGLELEEPPLVLAAANVVKNISYKYRE-----DLLAHLIVAGWDQREGGQVYGTMGG 117

Query: 139 AYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQMTAENIEI 195
                  T  G   +Y+ G  +++  Y   +  ++        +         +   I +
Sbjct: 118 MLIRQPFTIGGSGSSYIYG--YVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYL 175

Query: 196 GIADENGFRR 205
                 G   
Sbjct: 176 VTITAAGVDH 185

>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 = 39.1 bits (92), Expect = 9e-04
 Identities = 11/62 (17%), Positives = 16/62 (25%), Gaps = 5/62 (8%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E          V  I  +Y +          L++ GWD +          G       T 
Sbjct: 72  EPPLVLAAANVVKNISYKYRE-----DLLAHLIVAGWDQREGGQVYGTMGGMLIRQPFTI 126

Query: 320 MG 321
            G
Sbjct: 127 GG 128

>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 = 79.5 bits (197), Expect = 1e-17
 Identities = 31/201 (15%), Positives = 75/201 (37%), Gaps = 16/201 (7%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR--PYLYQCDP 136
              Y+L     I    L+  VA ++ E        P+    +I G D K   P++   D 
Sbjct: 71  LNLYELKEGRQIKPYTLMSMVANLLYEKRFG----PYYTEPVIAGLDPKTFKPFICSLDL 126

Query: 137 SGAYFA---WKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAEN 192
            G       +  +      + G    E  +  +++ D    T    +    +   ++   
Sbjct: 127 IGCPMVTDDFVVSGTCAEQMYG--MCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMG 184

Query: 193 IEIGIADENGFRRLDVATVRD 213
           + + I +++      +    D
Sbjct: 185 VIVHIIEKDKITTRTLKARMD 205

>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 = 78.4 bits (194), Expect = 3e-17
 Identities = 31/191 (16%), Positives = 60/191 (31%), Gaps = 15/191 (7%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
              + +   E             +   Y +          ++I GWD +    +Y     
Sbjct: 63  LGFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMG 117

Query: 138 GAYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAENIE 194
           G          G   +Y+ G  +++  Y E +  ++ +      L    E    +   I 
Sbjct: 118 GMMVRQSFAIGGSGSSYIYG--YVDATYREGMTKEECLQFTANALALAMERDGSSGGVIR 175

Query: 195 IGIADENGFRR 205
           +    E+G  R
Sbjct: 176 LAAIAESGVER 186

>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 = 78.5 bits (194), Expect = 3e-17
 Identities = 43/214 (20%), Positives = 74/214 (34%), Gaps = 26/214 (12%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPS 137
            + Y   + +   +   +   A  +Q         P+ V  +I G D   +  +Y  DP 
Sbjct: 72  VKWYHFDHNDKKLS---INSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPV 128

Query: 138 GAYFAWKATAMG-----------------RNYVNGKTFLEKRYSEDLELDDAVHTAILTL 180
           G+Y   +  A G                   Y  G     K+  + L +++ +     + 
Sbjct: 129 GSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSF 188

Query: 181 KEGFEGQ-MTAENIEIGIADENGFRRLDVATVRD 213
               E      + +EI I  ++G R+      RD
Sbjct: 189 TSATERHIQVGDGLEILIVTKDGVRKEFYELKRD 222

>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 = 44.3 bits (105), Expect = 2e-05
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 1/55 (1%)

Query: 268 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMG 321
           +   A  +Q         P+ V  +I G D   +  +Y  DP G+Y   +  A G
Sbjct: 86  INSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGG 140

>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 = 76.9 bits (190), Expect = 1e-16
 Identities = 43/207 (20%), Positives = 74/207 (35%), Gaps = 21/207 (10%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPS 137
            + YK    + + T  +   ++ I+          P+ V  +I G D + +  +Y  DP 
Sbjct: 72  LKMYKHSNNKAMTTGAIAAMLSTILYSRRFF----PYYVYNIIGGLDEEGKGAVYSFDPV 127

Query: 138 GAYFAWKATAMG----------RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE-G 186
           G+Y      A G           N V  K  ++      L LD A+           E  
Sbjct: 128 GSYQRDSFKAGGSASAMLQPLLDNQVGFKN-MQNVEHVPLSLDRAMRLVKDVFISAAERD 186

Query: 187 QMTAENIEIGIADENGFRRLDVATVRD 213
             T + + I I  + G R   V+  +D
Sbjct: 187 VYTGDALRICIVTKEGIREETVSLRKD 213

>1iru_N 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_M* 3une_M 3unf_M* 3unh_M Length = 219

 Score = 73.0 bits (180), Expect = 2e-15
 Identities = 25/195 (12%), Positives = 63/195 (32%), Gaps = 14/195 (7%)

Query: 22  VGIKASNGIVLATEKKQ---KTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +G+K   G+V+A +          F +   ++  + +   +  SG   D++ L +   ++
Sbjct: 12  LGVKFEGGVVIAADMLGSYGSLARFRNI-SRIMRVNNSTMLGASGDYADFQYLKQVLGQM 70

Query: 79  AQQYKLVY-QENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPS 137
               +L+    +   + +   +   M          P   +++I G+ +   +L   D  
Sbjct: 71  VIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMN--PLWNTMVIGGYADGESFLGYVDML 128

Query: 138 GAYFAWKATAMG--RNYVNGKTFLEKRYSE--DLELDDAVHTAILTLKEGFEG-QMTAEN 192
           G  +   + A G           L +   +   L   +A       ++  +     +   
Sbjct: 129 GVAYEAPSLATGYGAYLAQP--LLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYNR 186

Query: 193 IEIGIADENGFRRLD 207
            +     E G     
Sbjct: 187 FQTATVTEKGVEIEG 201

>1iru_N 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_M* 3une_M 3unf_M* 3unh_M Length = 219

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 9/62 (14%), Positives = 21/62 (33%), Gaps = 2/62 (3%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
            +   + +   +   M          P   +++I G+ +   +L   D  G  +   + A
Sbjct: 81  HSYSPRAIHSWLTRAMYSRRSKMN--PLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLA 138

Query: 320 MG 321
            G
Sbjct: 139 TG 140

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ... Length = 204

 Score = 72.6 bits (179), Expect = 3e-15
 Identities = 32/201 (15%), Positives = 73/201 (36%), Gaps = 17/201 (8%)

Query: 22  VGIKASNGIVLATEK---KQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           V +   + + +A +     Q   +      K+     ++ +  +G+  D   L +  R  
Sbjct: 12  VAMTGKDCVAIACDLRLGSQSLGVSNKF-EKIFHY-GHVFLGITGLATDVTTLNEMFRYK 69

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK--RPYLYQCDP 136
              YKL  +  I  +   Q V++ + E        P+ V  ++ G ++K  +P++   D 
Sbjct: 70  TNLYKLKEERAIEPETFTQLVSSSLYERRFG----PYFVGPVVAGINSKSGKPFIAGFDL 125

Query: 137 SGAYF---AWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAEN 192
            G       +  +    + + G    E  Y  +LE +D   T    L    +   ++   
Sbjct: 126 IGCIDEAKDFIVSGTASDQLFG--MCESLYEPNLEPEDLFETISQALLNAADRDALSGWG 183

Query: 193 IEIGIADENGFRRLDVATVRD 213
             + I  ++   +  +   +D
Sbjct: 184 AVVYIIKKDEVVKRYLKMRQD 204

>1ryp_H 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 3nzj_N* 3nzw_N* 3nzx_N* 1vsy_H 3l5q_B 1g65_N* 1fnt_H 1g0u_N* 1jd2_N* 1z7q_H 2f16_N* 2fak_N* 2fny_N* 2gpl_N* 2zcy_N* 3bdm_N* 3d29_N* 3dy3_N* 3dy4_N* 3e47_N* ... Length = 205

 Score = 71.1 bits (175), Expect = 9e-15
 Identities = 27/190 (14%), Positives = 63/190 (33%), Gaps = 12/190 (6%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           + +   +G++L  + +      I       K+  + D I    SG   D + +    +  
Sbjct: 13  MAVTFKDGVILGADSRTTTGAYIANRVT-DKLTRVHDKIWCCRSGSAADTQAIADIVQYH 71

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPS 137
            + Y   Y     T+        +  E             +++ G+D+K +  +Y     
Sbjct: 72  LELYTSQYGTPS-TETAASVFKELCYENK-----DNLTAGIIVAGYDDKNKGEVYTIPLG 125

Query: 138 GAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAENIEIG 196
           G+         G        + +K + E++  ++ V     +L +  +    +   I + 
Sbjct: 126 GSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMV 185

Query: 197 IADENGFRRL 206
           +    G  RL
Sbjct: 186 VLTAAGVERL 195

>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 = 71.7 bits (176), Expect = 2e-14
 Identities = 29/202 (14%), Positives = 70/202 (34%), Gaps = 22/202 (10%)

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

Query: 75  ARKIAQQYKLVYQ-----ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKR 128
            + +  +           E +    + + +A +M +        P   ++++ G   N  
Sbjct: 100 LKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMN--PLWNAIIVAGVQSNGD 157

Query: 129 PYLYQCDPSGAYFAWKATAMG--RNYVNGKTFLEKRY-----SEDLELDDAVHTAILTLK 181
            +L   +  G  ++    A G   +  N    L K            +  A    +  ++
Sbjct: 158 QFLRYVNLLGVTYSSPTLATGFGAHMANP--LLRKVVDRESDIPKTTVQVAEEAIVNAMR 215

Query: 182 EGFE-GQMTAENIEIGIADENG 202
             +     ++ N  + I D+N 
Sbjct: 216 VLYYRDARSSRNFSLAIIDKNT 237

>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 = 39.7 bits (93), Expect = 8e-04
 Identities = 13/87 (14%), Positives = 31/87 (35%), Gaps = 3/87 (3%)

Query: 236 QMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICG 295
           Q     ++  + +      L  A E +    + + +A +M +        P   ++++ G
Sbjct: 94  QHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMN--PLWNAIIVAG 151

Query: 296 WD-NKRPYLYQCDPSGAYFAWKATAMG 321
              N   +L   +  G  ++    A G
Sbjct: 152 VQSNGDQFLRYVNLLGVTYSSPTLATG 178

>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 = 70.8 bits (174), Expect = 2e-14
 Identities = 27/196 (13%), Positives = 68/196 (34%), Gaps = 18/196 (9%)

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

Query: 79  AQQYKLVYQENIPTQQL-VQRVAAIMQE--YTQSGGVRPFGVSLLICGWD-NKRPYLYQC 134
             +           + L    +   +    Y +   + P   ++++ G   N   +L   
Sbjct: 71  VTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYV 130

Query: 135 DPSGAYFAWKATAMG--RNYVNGKTFLEKRYSED-----LELDDAVHTAILTLKEGFE-G 186
           +  G  ++    A G   +  N    L K    +       +  A    +  ++  +   
Sbjct: 131 NLLGVTYSSPTLATGFGAHMANP--LLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRD 188

Query: 187 QMTAENIEIGIADENG 202
             ++ N  + I D+N 
Sbjct: 189 ARSSRNFSLAIIDKNT 204

>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 = 40.8 bits (96), Expect = 3e-04
 Identities = 13/87 (14%), Positives = 31/87 (35%), Gaps = 3/87 (3%)

Query: 236 QMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICG 295
           Q     ++  + +      L  A E +    + + +A +M +        P   ++++ G
Sbjct: 61  QHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMN--PLWNAIIVAG 118

Query: 296 WD-NKRPYLYQCDPSGAYFAWKATAMG 321
              N   +L   +  G  ++    A G
Sbjct: 119 VQSNGDQFLRYVNLLGVTYSSPTLATG 145

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 58.3 bits (140), Expect = 2e-09
 Identities = 46/394 (11%), Positives = 101/394 (25%), Gaps = 117/394 (29%)

Query: 2   SGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVY 61
           SGK       +A     +  V  K    I     K   +   E  +  ++ +        
Sbjct: 161 SGKTW-----VALDVCLSYKVQCKMDFKIFWLNLKNCNSP--ETVLEMLQKL-------L 206

Query: 62  SGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLI 121
             + P++      +  I                +   +  +++        +P+   LL+
Sbjct: 207 YQIDPNWTSRSDHSSNIKL----------RIHSIQAELRRLLKS-------KPYENCLLV 249

Query: 122 CG--WDNK--RPYLYQC-------DPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELD 170
                + K    +   C             F   AT    +  +    L     + L L 
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL-LL 308

Query: 171 DAVHTAILTLKEGFEGQMTAEN---IEIGIADENGFRRLDVATVRDHLSNIPQSVHTAIL 227
             +      L      ++   N   + I IA           ++RD L+      H    
Sbjct: 309 KYLDCRPQDLPR----EVLTTNPRRLSI-IA----------ESIRDGLATWDNWKHVNCD 353

Query: 228 TLKEGFEGQMTAENIEIGIADENGFRRL---------DVATENIPTQQLV--------QR 270
            L    E   +   +     +   +R++              +IPT  L           
Sbjct: 354 KLTTIIE--SSLNVL-----EPAEYRKMFDRLSVFPPSA---HIPTILLSLIWFDVIKSD 403

Query: 271 VAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTF 330
           V  ++ +  +         SL+          +        Y   K        ++ ++ 
Sbjct: 404 VMVVVNKLHKY--------SLVEKQPKESTISIPSI-----YLELKVKLENEYALH-RSI 449

Query: 331 LEKREKLR-------VP--------NFCGYHIAE 349
           ++     +       +P        +  G+H+  
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	352
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	100.0
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	100.0
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	99.93
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	99.93
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	99.93
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	99.93
1iru_D	248	20S proteasome; cell cycle, immune response, prote	99.93
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	99.93
1iru_B	233	20S proteasome; cell cycle, immune response, prote	99.93
1iru_F	263	20S proteasome; cell cycle, immune response, prote	99.93
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	99.93
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	99.93
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	99.92
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	99.92
1iru_G	254	20S proteasome; cell cycle, immune response, prote	99.92
1iru_A	246	20S proteasome; cell cycle, immune response, prote	99.92
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	99.92
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	99.92
1iru_C	261	20S proteasome; cell cycle, immune response, prote	99.92
1iru_E	241	20S proteasome; cell cycle, immune response, prote	99.92
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	99.91
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	99.91
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	99.91
1iru_L	204	20S proteasome; cell cycle, immune response, prote	99.91
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	99.91
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	99.91
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	99.91
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	99.9
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	99.9
1iru_H	205	20S proteasome; cell cycle, immune response, prote	99.9
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	99.9
1iru_N	219	20S proteasome; cell cycle, immune response, prote	99.9
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	99.89
1iru_M	213	20S proteasome; cell cycle, immune response, prote	99.89
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	99.89
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	99.89
1iru_I	234	20S proteasome; cell cycle, immune response, prote	99.89
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	99.89
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	99.88
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	99.88
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	99.88
1iru_J	205	20S proteasome; cell cycle, immune response, prote	99.88
1iru_K	201	20S proteasome; cell cycle, immune response, prote	99.88
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	99.88
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	99.88
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	99.87
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	99.85
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.76
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.74
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.73

>1ryp_A 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_G* 1g65_G 1vsy_A 2f16_G* 2fak_G* 2fny_G* 2gpl_G* 3d29_G* 3dy3_G* 3dy4_G* 3e47_G* 3gpj_G* 3gpt_G* 3gpw_G* 3hye_G* 3l5q_A 3mg0_G* 3mg4_G* 3oeu_G* 3oev_G* ...

Probab=100.00  E-value=7.7e-56  Score=403.99  Aligned_cols=219  Identities=29%  Similarity=0.483  Sum_probs=213.2

Q ss_pred             CCcceehhhhHHHHhcC-CCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~-G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||||||||+||+++ |+|+|||+++||||||+|+|.+.+++ +++.+|||+|++||+|+++|+.+|++.++++++.+
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 88999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|+++++++++++.+++++++++|.|++++++|||+|++||||||+ +||+||.+||+|++.+++++++|+|++.+++
T Consensus        92 ~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~~~~~~~a~G~gs~~a~~  171 (243)
T 1ryp_A           92 AAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITT  171 (243)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcCCCCEEEEEEEEECCCcHHHHH
Confidence            999999999999999999999999999999999999999999999997 6999999999999999999999999999999


Q ss_pred             HHHhhcCC-------CCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEcChhHHHHHHhhCc
Q psy2869         158 FLEKRYSE-------DLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       158 ~Le~~~~~-------~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~  219 (352)
                      +||+.|++       +||++||++++++||..+.++|.++++++|++|+++|+++++++|++++++++.
T Consensus       172 ~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd~s~~~iev~vi~~~g~~~l~~~ei~~~~~~~~  240 (243)
T 1ryp_A          172 NLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLVAIA  240 (243)
T ss_dssp             HHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETTEEEECCHHHHHHHHHHHT
T ss_pred             HHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCeEECCHHHHHHHHHHhh
Confidence            99999999       999999999999999999999988999999999999999999999999998874

>1iru_B 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_A* 3une_A 3unf_A* 3unh_A

Probab=100.00  E-value=1.1e-55  Score=400.49  Aligned_cols=218  Identities=79%  Similarity=1.258  Sum_probs=212.7

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.++++. +++.+||++|++|++|+++|+.+|++.+.++++.++
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            9999999999999999999999999999999999999998777 888999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++.+++++.+++++++++|.|++++++|||++++||||||++||+||.+||+|++.+++++++|+|+++++++|
T Consensus        94 ~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiG~gs~~a~~~L  173 (233)
T 1iru_B           94 QQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFL  173 (233)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCCCCeEEEECCCCCEEEeeEEEECCCCHHHHHHH
Confidence            99999999999999999999999999999989999999999999998899999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEcChhHHHHHHhhC
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI  218 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i  218 (352)
                      |+.|+++||++||++++++||..+.++|.++++++|++|+++|++.++++|++++++++
T Consensus       174 e~~~~~~ms~eea~~la~~al~~~~~~d~sg~~i~v~vi~~~g~~~l~~~ei~~~~~~~  232 (233)
T 1iru_B          174 EKRYNEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI  232 (233)
T ss_dssp             HHHCCTTCCHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETTEEEECCHHHHHHHHTTC
T ss_pred             HHHhccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCCEEECCHHHHHHHHHhc
Confidence            99999999999999999999999999997799999999999999999999999998876

>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=5.3e-55  Score=396.08  Aligned_cols=214  Identities=40%  Similarity=0.637  Sum_probs=209.2

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++ .++.+||++|++|++|+++|+.+|++.+.++++.++
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            9999999999999999999999999999999999999999987 888999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++++++++.+++++++++|.++++++.|||++++||||||++||+||.+||+|++.+++++++|+|+++++++|
T Consensus        97 ~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiG~gs~~a~~~L  176 (233)
T 1yar_A           97 QQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFL  176 (233)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeCCCCEEEEECCCCCEEeeeEEEEcCCcHHHHHHH
Confidence            99999999999999999999999999999999999999999999998899999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC-eEEcChhHHHHH
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG-FRRLDVATVRDH  214 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g-~~~l~~~ei~~~  214 (352)
                      |+.|+++||++||++++++||..+.++|.++++++|++|+++| +++++++|++++
T Consensus       177 e~~~~~~~s~eea~~la~~al~~~~~~d~s~~~i~v~vi~~~~~~~~~~~~ei~~~  232 (233)
T 1yar_A          177 EREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKF  232 (233)
T ss_dssp             HHHCCTTCCHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTT
T ss_pred             HHHhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCEEECCHHHHHhh
Confidence            9999999999999999999999999999779999999999998 999999999865

>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=2e-54  Score=394.90  Aligned_cols=219  Identities=36%  Similarity=0.638  Sum_probs=212.7

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++  +++.+||++|++||+|+++|+.+|++.+.++++.+
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            9999999999999999999999999999999999999999988  78899999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEe-CCCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|+++++++++++.+++++++++|.|++++++|||++++|||||| ++||+||.+||+|++.+++++++|+|++++++
T Consensus        94 ~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~  173 (244)
T 1ryp_C           94 AQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQT  173 (244)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCCccEEeeeEEEECCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999 66999999999999999999999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEe--CCC----eEEcChhHHHHHHhhCc
Q psy2869         158 FLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIAD--ENG----FRRLDVATVRDHLSNIP  219 (352)
Q Consensus       158 ~Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~--~~g----~~~l~~~ei~~~l~~i~  219 (352)
                      +||+.|+++||++||++++++||..+.++| .++++++|++|+  ++|    ++.++++|++++++++.
T Consensus       174 ~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l~~~ei~~~~~~~~  242 (244)
T 1ryp_C          174 LLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVKTG  242 (244)
T ss_dssp             HHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHHHHT
T ss_pred             HHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEECCHHHHHHHHHHhh
Confidence            999999999999999999999999999995 889999999999  886    89999999999998774

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

Probab=100.00  E-value=2.8e-55  Score=403.96  Aligned_cols=218  Identities=38%  Similarity=0.647  Sum_probs=212.2

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++ .++.+||++|++||+|+++|+.+|++.|+++++.++
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            9999999999999999999999999999999999999999988 889999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++.+++++.+|+++++++|.|++++++|||+|++||||||++||+||.+||+|++.+++++|+|+|+..++++|
T Consensus       101 ~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~L  180 (264)
T 3h4p_A          101 QIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELL  180 (264)
T ss_dssp             HHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETTEEEEEEECTTCCCEEESEEEESTTHHHHTTTH
T ss_pred             HhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCCcCEEEEECCCceEEecCeEEECCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998899999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCC--CeEEcChhHHHHHHhhCc
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADEN--GFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~--g~~~l~~~ei~~~l~~i~  219 (352)
                      |+.|+++||++||++++++||..+.++ .++++++|++|+++  +|++++++||+++++++.
T Consensus       181 e~~~~~~ms~eea~~la~~al~~a~~~-~sg~~iev~vi~~~~~~~~~l~~~ei~~~~~~~~  241 (264)
T 3h4p_A          181 EKEYRDDITLDEGLELAITALTKANED-IKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVK  241 (264)
T ss_dssp             HHHCCTTCCSHHHHHHHHHHHHHHSSS-CCTTSEEEEEEETTTTEEEECCTTTTGGGTTTTT
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHHHhc-cCCCeEEEEEEEeCCCcEEECCHHHHHHHHHHHH
Confidence            999999999999999999999999988 89999999999975  499999999999998885

>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=4e-54  Score=396.43  Aligned_cols=219  Identities=37%  Similarity=0.606  Sum_probs=212.6

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++  .++.+||++|++||+|+++|+.+|++.|+++++.+
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            9999999999999999999999999999999999999999998  45589999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|+++++.+++++.+++++++++|.++++++.|||+|++||||||+ +||+||.+||+|++.+++++++|+|+.++++
T Consensus        94 ~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~  173 (261)
T 1iru_C           94 AQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVS  173 (261)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSEEEESTTTTHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECCCceEEeeeeEEeCcccHHHHH
Confidence            999999999999999999999999999999999999999999999996 5899999999999999999999999999999


Q ss_pred             HHHhhcCC-CCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC----eEEcChhHHHHHHhhCc
Q psy2869         158 FLEKRYSE-DLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENG----FRRLDVATVRDHLSNIP  219 (352)
Q Consensus       158 ~Le~~~~~-~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g----~~~l~~~ei~~~l~~i~  219 (352)
                      +||+.|++ +||++||++++++||..+.++| .++++++|++|+++|    +++++++||++++.++.
T Consensus       174 ~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~~~ei~~~l~~~~  241 (261)
T 1iru_C          174 MLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHE  241 (261)
T ss_dssp             HHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHHHHH
T ss_pred             HHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECCHHHHHHHHHHHH
Confidence            99999999 9999999999999999999999 899999999999887    79999999999999884

>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=1.7e-54  Score=395.00  Aligned_cols=220  Identities=29%  Similarity=0.545  Sum_probs=213.4

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++ +++.+||++|++|++|+++|+.+|++.+.++++.++
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            9999999999999999999999999999999999999999998 888999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC------CccceEEEeEEEEe-CCCCEEEEECCCCcEEecceEEecCCC
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNY  152 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~------~rP~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~a~G~gs  152 (352)
                      +.|+++++.+++++.+++++++++|.|+++++      .|||++++|||||| ++||+||.+||+|++.+++++++|+|+
T Consensus        89 ~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs  168 (242)
T 1ryp_E           89 VTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGS  168 (242)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEESTTH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEeccCEEEECCCC
Confidence            99999999999999999999999999999988      99999999999999 569999999999999999999999999


Q ss_pred             chhHHHHHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC-eEEcChhHHHHHHhhCcc
Q psy2869         153 VNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG-FRRLDVATVRDHLSNIPQ  220 (352)
Q Consensus       153 ~~~~~~Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g-~~~l~~~ei~~~l~~i~~  220 (352)
                      .+++++||+.|+++||++||++++++||..+.+++.++++++|++|+++| +++++++|++++++++.+
T Consensus       169 ~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~ei~~~~~~~~~  237 (242)
T 1ryp_E          169 EGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELKE  237 (242)
T ss_dssp             HHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCeEECCHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999988789999999999998 799999999999988743

>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=5.9e-54  Score=391.08  Aligned_cols=217  Identities=37%  Similarity=0.617  Sum_probs=210.5

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++  .++.+||++|++|++|+++|+.+|++.+.++++.+
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            9999999999999999999999999999999999999999998  44899999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC--CCCEEEEECCCCcEEecceEEecCCCchhH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPSGAYFAWKATAMGRNYVNGK  156 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~  156 (352)
                      ++.|+++++++++++.+++++++++|.+++++++|||++++||||||+  ++|+||.+||+|++.+++++++|+|++.++
T Consensus        91 ~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~  170 (241)
T 1ryp_D           91 AQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVR  170 (241)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEEESTTHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCCCCEEEeeeEEECCCcHHHH
Confidence            999999999999999999999999999999989999999999999998  799999999999999999999999999999


Q ss_pred             HHHHhhc---CCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC-eEEcChhHHHHHHhhCc
Q psy2869         157 TFLEKRY---SEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG-FRRLDVATVRDHLSNIP  219 (352)
Q Consensus       157 ~~Le~~~---~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g-~~~l~~~ei~~~l~~i~  219 (352)
                      ++||+.|   +++||++||++++++||..+.+  .++++++|++|+++| ++.++++|+++++.++.
T Consensus       171 ~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~--~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~~~  235 (241)
T 1ryp_D          171 EFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQIE  235 (241)
T ss_dssp             HHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC--SCSTTEEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             HHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc--CCCCcEEEEEEECCCcEEECCHHHHHHHHHHHh
Confidence            9999999   9999999999999999999987  789999999999986 99999999999998874

>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=6.7e-54  Score=391.87  Aligned_cols=219  Identities=35%  Similarity=0.601  Sum_probs=212.5

Q ss_pred             CCcceehhhhHHHHhcC-CCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~-G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||||||||++|+++ |+|+|||+++||||||+|+|.+.++. +++.+||++|++|++|+++|+.+|++.+.++++.+
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 88999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|+++++++++++.+++++++++|.|+++++.|||+|++||||||+ +||+||.+||+|++.+++++++|+|++.+++
T Consensus        98 ~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~  177 (246)
T 1iru_A           98 AANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTS  177 (246)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEEETTHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCeeEEEeeEEEECCCcHHHHH
Confidence            999999999999999999999999999999999999999999999997 6999999999999999999999999999999


Q ss_pred             HHHhhcCC--CCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC--eEEcChhHHHHHHhhCc
Q psy2869         158 FLEKRYSE--DLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG--FRRLDVATVRDHLSNIP  219 (352)
Q Consensus       158 ~Le~~~~~--~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g--~~~l~~~ei~~~l~~i~  219 (352)
                      +||+.|++  +||++||++++++||..+.++|.++++++|++|+++|  ++.++++|++++++++.
T Consensus       178 ~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~~~~~  243 (246)
T 1iru_A          178 FLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVALA  243 (246)
T ss_dssp             HHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHHHHHHHH
T ss_pred             HHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCeEEECCHHHHHHHHHHhh
Confidence            99999999  9999999999999999999999889999999999998  79999999999998874

>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=3.7e-54  Score=392.41  Aligned_cols=218  Identities=30%  Similarity=0.563  Sum_probs=211.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|+|.+++++ +++.+||++|++|++|+++|+.+|++.+.++++.++
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            9999999999999999999999999999999999999999998 889999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC-----CccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCch
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG-----VRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVN  154 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~-----~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~  154 (352)
                      +.|+++++++++++.+++++++++|.|+++.+     .|||++++||||||++||+||.+||+|++.+++++|+|+|+++
T Consensus        97 ~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~  176 (241)
T 1iru_E           97 QNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEG  176 (241)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEEESTTHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCCCCEEEEECCCCcEEecceEEECCCcHH
Confidence            99999999999999999999999999999888     8999999999999977999999999999999999999999999


Q ss_pred             hHHHHHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC-eEEcChhHHHHHHhhC
Q psy2869         155 GKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG-FRRLDVATVRDHLSNI  218 (352)
Q Consensus       155 ~~~~Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g-~~~l~~~ei~~~l~~i  218 (352)
                      ++++||+.|+++||++||++++++||..+.++..++++++|++|+++| ++.++++|++++++++
T Consensus       177 a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~~  241 (241)
T 1iru_E          177 AQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI  241 (241)
T ss_dssp             HHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHHHHHTTC
T ss_pred             HHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCCCeEECCHHHHHHHHHhC
Confidence            999999999999999999999999999999988789999999999998 8999999999998764

>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=4.2e-54  Score=393.54  Aligned_cols=219  Identities=34%  Similarity=0.613  Sum_probs=211.8

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++ .++.+||++|++||+|+++|+.+|++.+.++++.++
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            9999999999999999999999999999999999999999988 888999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEe-CCCCEEEEECCCCcEEecceEEecCCCchhHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTF  158 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~  158 (352)
                      +.|+++++++++++.+++++++++|.|+++++.|||+|++|||||| +++|+||.+||+|++.+++++++|+|++.++++
T Consensus        92 ~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~  171 (248)
T 1iru_D           92 QSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREF  171 (248)
T ss_dssp             HHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEESTTHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeEEEECCCcHHHHHH
Confidence            9999999999999999999999999999999999999999999999 669999999999999999999999999999999


Q ss_pred             HHhhcCCCC--CHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC-eEEcChhHHHHHHhhCccc
Q psy2869         159 LEKRYSEDL--ELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG-FRRLDVATVRDHLSNIPQS  221 (352)
Q Consensus       159 Le~~~~~~~--s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g-~~~l~~~ei~~~l~~i~~~  221 (352)
                      ||+.|+++|  |++||++++++||..+.+  .++++++|++|+++| +++++++|+++++.++...
T Consensus       172 Le~~~~~~m~~s~eea~~la~~al~~~~~--~sg~~i~v~vi~~~g~~~~l~~~ei~~~~~~~~~~  235 (248)
T 1iru_D          172 LEKNYTDEAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKE  235 (248)
T ss_dssp             HTTTCCSSTTCSHHHHHHHHHHHHHTTSC--TTSTTCCEEEEESSSCEECCCHHHHHHHTTTTTTT
T ss_pred             HHHhhcccccCCHHHHHHHHHHHHHHHHc--CCCCcEEEEEEECCCcEEECCHHHHHHHHHHHHhc
Confidence            999999999  999999999999999887  578999999999998 9999999999999988543

>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=1.3e-53  Score=389.90  Aligned_cols=221  Identities=37%  Similarity=0.654  Sum_probs=213.1

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.++++. +++.+||++|++||+|+++|..+|++.+.++++.++
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            9999999999999999999999999999999999999999988 889999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++.+++++.+++++++++|.|+++++.|||++++|||||| +||+||.+||+|++.+++++|+|+|+++++++|
T Consensus        97 ~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~L  175 (246)
T 1j2p_A           97 QINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLYETDPSGALLEYKATAIGMGRMAVTEFF  175 (246)
T ss_dssp             HHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-SSEEEEEECTTCCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-CCCEEEEECCCceEEeeeEEEECCCcHHHHHHH
Confidence            9999999999999999999999999999999999999999999999 999999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEe-CC-CeEEcChhHHHHHHhhCccch
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIAD-EN-GFRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~-~~-g~~~l~~~ei~~~l~~i~~~~  222 (352)
                      |+.|+++||++||++++++||..+.++..++++++|++|+ ++ |++.++++|++++++++.+++
T Consensus       176 e~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~l~~~ei~~~~~~~~~~~  240 (246)
T 1j2p_A          176 EKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERANERI  240 (246)
T ss_dssp             HHHCCTTCCHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHHHHHHHH
T ss_pred             HHHhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCceEECCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999977789999999999 64 799999999999998885433

>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=4.5e-54  Score=394.54  Aligned_cols=219  Identities=27%  Similarity=0.435  Sum_probs=211.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++ .++.+||++|++||+|+++|+.+|++.|.++++.++
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            9999999999999999999999999999999999999999999 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEe-CCCCEEEEECCCCcEEecceEEecCCCchhHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTF  158 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~  158 (352)
                      +.|+++++.+++++.+++++++++|.|++++++|||+|++|||||| ++||+||.+||+|++.+++++++|+|+++++++
T Consensus        96 ~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~  175 (254)
T 1iru_G           96 SNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTE  175 (254)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCCCEEeeeeEEecCccHHHHHH
Confidence            9999999999999999999999999999999999999999999999 669999999999999999999999999999999


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCC--C-eEEcChhHHHHHHhhCc
Q psy2869         159 LEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADEN--G-FRRLDVATVRDHLSNIP  219 (352)
Q Consensus       159 Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~--g-~~~l~~~ei~~~l~~i~  219 (352)
                      ||+.|+++||++||++++++||..+.+++ .++.+++|++|+++  | ++++++++++++++..+
T Consensus       176 Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~~~~i~~~~~~~~  240 (254)
T 1iru_G          176 IEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKYAK  240 (254)
T ss_dssp             HTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHHHHH
T ss_pred             HHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECCHHHHHHHHHHHH
Confidence            99999999999999999999999999988 68889999999977  6 99999999999988763

>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=1.1e-53  Score=393.60  Aligned_cols=218  Identities=32%  Similarity=0.557  Sum_probs=212.0

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.++++. ++.+||++|++||+|+++|+.+|++.|.++++.+++
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            9999999999999999999999999999999999999999975 467999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHH
Q psy2869          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLE  160 (352)
Q Consensus        81 ~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le  160 (352)
                      .|+++++++++++.+++++++++|.|+++++.|||+|++||||||++||+||.+||+|++.+++++++|+|++.++++||
T Consensus        94 ~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le  173 (263)
T 1iru_F           94 DSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLE  173 (263)
T ss_dssp             HHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEEEESTTHHHHHHHHH
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcCCCCEEEEECCCCCEEEeeEEEcCcccHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998999999999999999999999999999999999


Q ss_pred             hhcCC--CCCHHHHHHHHHHHHHHhhccC--CCCCceEEEEEeCC-CeEEcChhHHHHHHhhCc
Q psy2869         161 KRYSE--DLELDDAVHTAILTLKEGFEGQ--MTAENIEIGIADEN-GFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       161 ~~~~~--~~s~~eai~l~~~~l~~~~~~d--~~~~~iei~ii~~~-g~~~l~~~ei~~~l~~i~  219 (352)
                      +.|++  +||++||++++++||..+.++|  .++++++|++|+++ ++++++++|+++++.++.
T Consensus       174 ~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~~~ei~~~~~~~~  237 (263)
T 1iru_F          174 RHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLE  237 (263)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTCC
T ss_pred             HHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECCHHHHHHHHHHHh
Confidence            99998  9999999999999999999998  78999999999999 699999999999999884

>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=2.3e-53  Score=387.59  Aligned_cols=218  Identities=33%  Similarity=0.516  Sum_probs=209.6

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++ .+..+||++|++||+|+++|+.+|++.+.++++.++
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            9999999999999999999999999999999999999999998 555699999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++++++++.+++++++++|.|++++++|||++++||||||++||+||.+||+|++.+++++++|+|+++++++|
T Consensus        93 ~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~L  172 (244)
T 1ryp_G           93 ASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAEL  172 (244)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeCCcCEEEEECCCCCEEEeeEEEECCChHHHHHHH
Confidence            99999999999999999999999999999988999999999999998899999999999999999999999999999999


Q ss_pred             Hhh---cCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeC---CCeEEcChhHHHHHHhhC
Q psy2869         160 EKR---YSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADE---NGFRRLDVATVRDHLSNI  218 (352)
Q Consensus       160 e~~---~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~---~g~~~l~~~ei~~~l~~i  218 (352)
                      |+.   |+++||++||++++++||..+.++| .++++++|++|++   +|++.+.++++.+..++.
T Consensus       173 e~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~~~~~~~~~~~~~~  238 (244)
T 1ryp_G          173 EKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDF  238 (244)
T ss_dssp             HHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHHHH
T ss_pred             HHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeeeeChHHHHHHHHHH
Confidence            997   9999999999999999999999999 7899999999998   789999999987766554

>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=9.9e-54  Score=387.68  Aligned_cols=212  Identities=28%  Similarity=0.482  Sum_probs=204.8

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+.++. ++.+||++|++||+|+++|+.+|++.+.++++.+++
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            9999999999999999999999999999999999999999875 467999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHH
Q psy2869          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLE  160 (352)
Q Consensus        81 ~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le  160 (352)
                      .|+++++++++++.+++++++++|.|+++.+.|||+|++||||||++||+||.+||+|++.+++++|+|+|++.++++||
T Consensus        93 ~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le  172 (233)
T 1ryp_F           93 YSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLE  172 (233)
T ss_dssp             HHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSCEEEESEEEESTTHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCCcCEEEEECCCCCeeeeeEEEECCCcHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998999999999999999999999999999999999


Q ss_pred             hhcCC--CC--CHHHHHHHHHHHHHHhhccC--CCCCceEEEEEeCC-CeEEcChhHHHHH
Q psy2869         161 KRYSE--DL--ELDDAVHTAILTLKEGFEGQ--MTAENIEIGIADEN-GFRRLDVATVRDH  214 (352)
Q Consensus       161 ~~~~~--~~--s~~eai~l~~~~l~~~~~~d--~~~~~iei~ii~~~-g~~~l~~~ei~~~  214 (352)
                      +.|++  +|  |++||+++++++|..+. +|  .++++++|++|+++ |+++++++|++++
T Consensus       173 ~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~~~~~~~l~~~ei~~~  232 (233)
T 1ryp_F          173 RTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPFTIYDGEAVAKY  232 (233)
T ss_dssp             HHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEETTEEEEEEEGGGGGGG
T ss_pred             HHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEECCCCEEECCHHHHHhh
Confidence            99999  99  99999999999999999 55  68999999999999 6999999999765

>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=8.6e-53  Score=385.37  Aligned_cols=218  Identities=57%  Similarity=0.913  Sum_probs=209.5

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+.++. +++.+||++|++|++|+++|..+|++.+.++++.++
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            9999999999999999999999999999999999999997777 889999999999999999999999999999999999


Q ss_pred             HH-HHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          80 QQ-YKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        80 ~~-~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      +. |+..++.+++++.+++.++++++.++++.++|||++++||||||+ +||+||.+||+|++.+++++++|+|++++++
T Consensus        94 ~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~  173 (250)
T 1ryp_B           94 HTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKT  173 (250)
T ss_dssp             HHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHH
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEECCCCCEEeeceeEecCccHHHHH
Confidence            99 999999999999999999999999999988999999999999997 4899999999999999999999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCC----------------CeEEcChhHHHHHHhhC
Q psy2869         158 FLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADEN----------------GFRRLDVATVRDHLSNI  218 (352)
Q Consensus       158 ~Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~----------------g~~~l~~~ei~~~l~~i  218 (352)
                      +||+.|+++||++||++++++||..+.+++.++++++|++|+++                +|++++++||+++++++
T Consensus       174 ~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~~~~~~~~~~~~l~~~ei~~~l~~~  250 (250)
T 1ryp_B          174 FLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQEINDRLEAL  250 (250)
T ss_dssp             HHHHHCCTTCCHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEECCHHHHHHHHTTC
T ss_pred             HHHHHhccCCCHHHHHHHHHHHHHHHhccccCCCCEEEEEEEccccccccccccccCCCCCeEECCHHHHHHHHHhC
Confidence            99999999999999999999999999998888999999999875                28999999999998764

>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=8e-53  Score=391.11  Aligned_cols=213  Identities=34%  Similarity=0.527  Sum_probs=203.0

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||||||||++|+++|+|+|||+++||||||+|+|.+++++ .+..+|||+|++||+|+++|+.+|++.|+++++.++
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            9999999999999999999999999999999999999999998 667899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++++++++.+|+++++++|.|++++++|||+|++||||||++||+||.+||+|++.+++++++|+|++.++++|
T Consensus        97 ~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~L  176 (288)
T 3nzj_F           97 ASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAEL  176 (288)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Hhh---cCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeC---CCeEEcChhHHHH
Q psy2869         160 EKR---YSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADE---NGFRRLDVATVRD  213 (352)
Q Consensus       160 e~~---~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~---~g~~~l~~~ei~~  213 (352)
                      |+.   |+++||++||++++++||..+.+++ .++..+||+||++   +|++++.|+++.+
T Consensus       177 ek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~~~~~~~~~~vp~~~~~  237 (288)
T 3nzj_F          177 EKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQ  237 (288)
T ss_dssp             HHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEETTTSTTCCEECCHHHHH
T ss_pred             HHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEecCCCceEEECCHHHHH
Confidence            999   9999999999999999999999998 8899999999998   3565555555533

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A

Probab=100.00  E-value=2.2e-48  Score=357.43  Aligned_cols=217  Identities=20%  Similarity=0.337  Sum_probs=196.4

Q ss_pred             CCccee-hhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLV-QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~-QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||++. |||||++|+++|+|+|||+++||||||+|+|      +++.+|||+|++||+|+++|+.+|++.|+++++.++
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 9999999999999999999999999999999      357799999999999999999999999999999999


Q ss_pred             HHHHHHhC-CCCCHHHHHHHHHH-HHHHHhhcCCCccceEEEeEEEEe----CCCCEEEEECCCCcEE-ecceEEecCCC
Q psy2869          80 QQYKLVYQ-ENIPTQQLVQRVAA-IMQEYTQSGGVRPFGVSLLICGWD----NKRPYLYQCDPSGAYF-AWKATAMGRNY  152 (352)
Q Consensus        80 ~~~~~~~~-~~i~~~~la~~l~~-~~~~~~~~~~~rP~~v~~ivaG~D----~~gp~Ly~iDp~G~~~-~~~~~a~G~gs  152 (352)
                      +.|++.++ .+++++.+++++++ +.|.|+  .+.|||+|++||||||    ++||+||.+||+|++. +++++++|+|+
T Consensus        83 ~~~~~~~~~~~i~v~~la~~l~~~l~q~yt--~~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs  160 (259)
T 1q5q_A           83 DMRGYSYDRRDVTGRSLANAYAQTLGTIFT--EQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTT  160 (259)
T ss_dssp             HHHHHHSCGGGCCHHHHHHHHHHHHHHHHH--HSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSH
T ss_pred             HHHHHHcCCcCCCHHHHHHHHHHHHHHHhc--cCCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCCCEEEECCCh
Confidence            99999988 49999999999999 667777  3589999999999999    5799999999999999 88999999999


Q ss_pred             chhHHHHHhhcCCCCCHHHHHHHHHHHHHHhh-----ccCCCCCceEEEEEeCC----CeEEcChhHHHHHHhhCccchH
Q psy2869         153 VNGKTFLEKRYSEDLELDDAVHTAILTLKEGF-----EGQMTAENIEIGIADEN----GFRRLDVATVRDHLSNIPQSVH  223 (352)
Q Consensus       153 ~~~~~~Le~~~~~~~s~~eai~l~~~~l~~~~-----~~d~~~~~iei~ii~~~----g~~~l~~~ei~~~l~~i~~~~~  223 (352)
                      +.++++||+.|+++||++||++++++||..+.     ++|.++++++|++|+++    +|++++++|+.+++.++.....
T Consensus       161 ~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~sg~~iev~vi~~~~~~~~~~~l~~~ei~~~~~~~~~~~~  240 (259)
T 1q5q_A          161 EPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAEPAAAS  240 (259)
T ss_dssp             HHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSCCC-----
T ss_pred             HHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccCCCCcEEEEEEECCCCcCCeEECCHHHHHHHHHHhhhccc
Confidence            99999999999999999999999999999998     78888999999999988    6999999999999988855443


Q ss_pred             HH
Q psy2869         224 TA  225 (352)
Q Consensus       224 ~~  225 (352)
                      .+
T Consensus       241 ~~  242 (259)
T 1q5q_A          241 ES  242 (259)
T ss_dssp             --
T ss_pred             cc
Confidence            33

>3mi0_A Proteasome subunit alpha; enzyme inhibitors, lactones, proteasome endopeptidase comple mycobacterium tuberculosis, hydrolase; HET: SA6; 2.20A {Mycobacterium tuberculosis} SCOP: d.153.1.4 PDB: 3h6f_A 3krd_A* 3h6i_A* 3mka_A 2fhh_A* 2fhg_A 3hfa_D 3hf9_A 3mfe_D

Probab=100.00  E-value=4.6e-47  Score=345.59  Aligned_cols=205  Identities=21%  Similarity=0.362  Sum_probs=188.1

Q ss_pred             hhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHh
Q psy2869           7 QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVY   86 (352)
Q Consensus         7 QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~   86 (352)
                      ++|||+||+++|+|+|||+++||||||+|+|      .++.+|||+|++||+|+++|+.+|++.|.+.++.+++.|++++
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      3577999999999999999999999999999999999999999


Q ss_pred             C-CCCCHHHHHHHHH-HHHHHHhhcCCCccceEEEeEEEEeC----CCCEEEEECCCCcEEe-cceEEecCCCchhHHHH
Q psy2869          87 Q-ENIPTQQLVQRVA-AIMQEYTQSGGVRPFGVSLLICGWDN----KRPYLYQCDPSGAYFA-WKATAMGRNYVNGKTFL  159 (352)
Q Consensus        87 ~-~~i~~~~la~~l~-~~~~~~~~~~~~rP~~v~~ivaG~D~----~gp~Ly~iDp~G~~~~-~~~~a~G~gs~~~~~~L  159 (352)
                      + .+++++.++++++ .+.|.|++  ++|||+|++||||||+    +||+||.+||+|++.. ++++|+|+|++.++++|
T Consensus        90 ~~~~i~v~~la~~l~~~l~q~yt~--~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~~L  167 (248)
T 3mi0_A           90 DRRDVTGRQLANVYAQTLGTIFTE--QAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANAL  167 (248)
T ss_dssp             CGGGCCHHHHHHHHHHHHHHHHHH--SSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEEEESSCHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhcc--CCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEEEECccHHHHHHHH
Confidence            9 9999999999999 67788887  5899999999999998    6999999999999995 99999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhh-------ccCCCCCceEEEEEeCCC----eEEcChhHHHHHHhhCc
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGF-------EGQMTAENIEIGIADENG----FRRLDVATVRDHLSNIP  219 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~-------~~d~~~~~iei~ii~~~g----~~~l~~~ei~~~l~~i~  219 (352)
                      |+.|+++||++||++++++||..+.       +++++++++||++|+++|    |++++++||+++++++.
T Consensus       168 e~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~~~~~~iev~vv~~~g~~~~f~~l~~~ei~~~l~~~~  238 (248)
T 3mi0_A          168 KESYAENASLTDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLVDQE  238 (248)
T ss_dssp             HHHCCTTCCHHHHHHHHHHHHHHC------------CCTTEEEEEEETTSSSCCEEECCHHHHHHTC----
T ss_pred             HhhcCCCCCHHHHHHHHHHHHHHHHhhcccCcccccCCCcEEEEEEECCCCcccEEECCHHHHHHHHHHcC
Confidence            9999999999999999999999999       556889999999999997    99999999999988773

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

Probab=100.00  E-value=3.6e-46  Score=334.86  Aligned_cols=201  Identities=23%  Similarity=0.368  Sum_probs=191.4

Q ss_pred             CCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy2869          18 GAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (352)
Q Consensus        18 G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (352)
                      |+|+|||+++||||||+|+|.+++.+  +++.+||++|++||+|+++|+.+|++.+.++++.+++.|+++++.+++++.+
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            79999999999999999999999865  7899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecc-eEEecCCCchhHHHHHhhcCCCCCHHHHH
Q psy2869          96 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLEKRYSEDLELDDAV  173 (352)
Q Consensus        96 a~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~eai  173 (352)
                      ++++++++|.++    .|||+|++||||||+ +||+||.+||+|++.+++ ++++|+|+++++++||+.|+++||++||+
T Consensus        81 a~~l~~~~~~~~----~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~  156 (219)
T 3h4p_a           81 ATLLSNILHSSR----MFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGI  156 (219)
T ss_dssp             HHHHHHHHHHTT----TTTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHH
T ss_pred             HHHHHHHHHHhc----CCCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHH
Confidence            999999999875    689999999999998 699999999999999999 99999999999999999999999999999


Q ss_pred             HHHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhCccch
Q psy2869         174 HTAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       174 ~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~~~~  222 (352)
                      +++++||..+.++| .++++++|++|+++|+++++++||++++.+++.+.
T Consensus       157 ~la~~al~~~~~rd~~sg~~i~v~vi~~~g~~~l~~~ei~~~l~~~~~~~  206 (219)
T 3h4p_a          157 KLALNALKSAMERDTFSGNGISLAVITKDGVKIFEDEEIEKILDSMKAKP  206 (219)
T ss_dssp             HHHHHHHHHHHTSCSSCCSCCCEEEEETTEEEECCHHHHHHHHHHCC---
T ss_pred             HHHHHHHHHHHhhcCCCCCcEEEEEEeCCCeEEcCHHHHHHHHHHhhccc
Confidence            99999999999999 89999999999999999999999999999996544

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H

Probab=100.00  E-value=9.3e-46  Score=331.75  Aligned_cols=202  Identities=21%  Similarity=0.394  Sum_probs=189.1

Q ss_pred             HHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCC
Q psy2869          13 AAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENI   90 (352)
Q Consensus        13 ~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i   90 (352)
                      .++++|+|+|||+++||||||+|+|.+++.+  +++.+||++|+++++|+++|+.+|++.+.++++.+++.|++++++++
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            4678999999999999999999999998644  78999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHH
Q psy2869          91 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELD  170 (352)
Q Consensus        91 ~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~  170 (352)
                      +++.+++++++.+|.++    .|||++++|||||| +||+||.+||+|++.+++++|+|+|+++++++||+.|+++||++
T Consensus        83 ~v~~la~~l~~~~~~~r----~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~e  157 (217)
T 1yar_H           83 PIEAVATLLSNMLNQVK----YMPYMVQLLVGGID-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVD  157 (217)
T ss_dssp             CHHHHHHHHHHHHHHTT----TSCCCEEEEEEEES-SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHH
T ss_pred             CHHHHHHHHHHHHHhcC----CCCceEEEEEEEEC-CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCCCHH
Confidence            99999999999998864    78999999999999 89999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCCceEEEEEeC-CCeEEcChhHHHHHHhhCc
Q psy2869         171 DAVHTAILTLKEGFEGQ-MTAENIEIGIADE-NGFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       171 eai~l~~~~l~~~~~~d-~~~~~iei~ii~~-~g~~~l~~~ei~~~l~~i~  219 (352)
                      ||++++++||..+.++| .++++++|++|++ +|++.++++|++++++++.
T Consensus       158 ea~~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei~~~~~~~~  208 (217)
T 1yar_H          158 EGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKLG  208 (217)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHHHHHHHHHH
Confidence            99999999999999999 8899999999998 8999999999999998764

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

Probab=100.00  E-value=2.8e-45  Score=325.22  Aligned_cols=197  Identities=23%  Similarity=0.386  Sum_probs=189.8

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+||++|++|++|+++|+.+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999998754  78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecc-eEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++.+|.++    .|||++++||||||++||+||.+||+|++.+++ ++++|+|+++++++||+.|+++||++||+++
T Consensus        81 ~~l~~~~~~~r----~rp~~~~~lvaG~D~~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l  156 (202)
T 1j2q_H           81 TLTSNLLNSYR----YFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL  156 (202)
T ss_dssp             HHHHHHHHHTT----TSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhC----CCCceEEEEEEEEeCCCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHH
Confidence            99999998864    789999999999999899999999999999999 9999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhCc
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~  219 (352)
                      +++||..+.++| .++++++|++|+++|++.++++|+++++++++
T Consensus       157 a~~al~~~~~~d~~s~~~i~v~vi~~~g~~~l~~~ei~~~~~~~~  201 (202)
T 1j2q_H          157 AVRAIYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVEQILAKFR  201 (202)
T ss_dssp             HHHHHHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHHHHGGGTT
T ss_pred             HHHHHHHHHhcCCCCCCcEEEEEEeCCCeEEeCHHHHHHHHHHhh
Confidence            999999999999 89999999999999999999999999998774

>3nzj_K Proteasome component PRE2; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_K* 3nzx_K* 4b4t_5

Probab=100.00  E-value=6.4e-45  Score=337.83  Aligned_cols=207  Identities=14%  Similarity=0.256  Sum_probs=190.5

Q ss_pred             hHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhC
Q psy2869          10 YALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQ   87 (352)
Q Consensus        10 Ya~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~   87 (352)
                      ++.+++++|+|+|||+++||||||+|+|.+.|.+  +++.+||++|+++++|+++|..+|++.+.++++.+++.|+++++
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            6788999999999999999999999999998765  78999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCC
Q psy2869          88 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSED  166 (352)
Q Consensus        88 ~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~  166 (352)
                      ++++++.+++++++++|.+++    +||++++||||||+ +||+||.+||+|++.+++++++|+|+.+++++||+.|+++
T Consensus       147 ~~isv~~la~~ls~~l~~~r~----~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~~~~~AiGsgs~~a~~~Le~~y~~d  222 (287)
T 3nzj_K          147 ERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWD  222 (287)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTT----SCCCEEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHTSCCTT
T ss_pred             CCCCHHHHHHHHHHHHHhhcC----CCceEEEEEEEEcCCCCCEEEEECCCceEEEcCeEEEecchHHHHHHHHHhhcCC
Confidence            999999999999999999885    49999999999994 5899999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhCcc
Q psy2869         167 LELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNIPQ  220 (352)
Q Consensus       167 ~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~~  220 (352)
                      ||++||++++++||..+.+|| .++++++|++|+++|+++++++|+++++.++.+
T Consensus       223 ms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkdg~~~l~~~ev~~~l~~~~e  277 (287)
T 3nzj_K          223 LSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKE  277 (287)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCCCEEEeCHHHHHHHHHHHHH
Confidence            999999999999999999999 899999999999999999999999998887754

>1q5r_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, hydrolase; 3.10A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_H

Probab=100.00  E-value=1.6e-44  Score=336.16  Aligned_cols=211  Identities=17%  Similarity=0.183  Sum_probs=196.5

Q ss_pred             HHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCC
Q psy2869          11 ALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQE   88 (352)
Q Consensus        11 a~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~   88 (352)
                      |++|+++|+|+|||+++||||||+|+|.+++.+  +++.+|||+|+++++|+++|..+|++.|+++++.+++.|+++++.
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            899999999999999999999999999998655  789999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-C-----CEEEEECCCCcEEec--ceEEecCCCchhHHHHH
Q psy2869          89 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-R-----PYLYQCDPSGAYFAW--KATAMGRNYVNGKTFLE  160 (352)
Q Consensus        89 ~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-g-----p~Ly~iDp~G~~~~~--~~~a~G~gs~~~~~~Le  160 (352)
                      +++++.++++|++++|.++++. +|||+|++||||||++ +     |+||.+||+|++.++  +++++|+|+++++++||
T Consensus       138 ~isv~~la~~la~~l~~~~~~~-~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~Le  216 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALK  216 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHH-TTTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhh-cCCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHHH
Confidence            9999999999999999998865 8999999999999986 6     999999999999999  89999999999999999


Q ss_pred             hhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCc--e-----EEEEEeCCCeEEcChhHHHHHHhhCccch
Q psy2869         161 KRYSEDLELDDAVHTAILTLKEGFEGQ-MTAEN--I-----EIGIADENGFRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       161 ~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~--i-----ei~ii~~~g~~~l~~~ei~~~l~~i~~~~  222 (352)
                      +.|+++||++||++++++||..+.++| .+++.  +     +|++|+++|+++++++|+++++.++.+.+
T Consensus       217 ~~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~~~g~~~l~~~ei~~~l~~i~~~~  286 (294)
T 1q5r_H          217 KIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAER  286 (294)
T ss_dssp             HHCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHCC--
T ss_pred             HhccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEECCCEEEcCHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999 55442  5     99999999999999999999999885543

>1iru_L 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_K* 3une_K 3unf_K* 3unh_K

Probab=100.00  E-value=1.7e-44  Score=320.70  Aligned_cols=198  Identities=20%  Similarity=0.354  Sum_probs=190.4

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.++|.+  +++.+||++|++|++|+++|+.+|++.+.++++.+++.|+++++.+++++.++
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            6899999999999999999999755  78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++.+|.+++    +||++++||||||++||+||.+||+|++.+++++|+|+|+++++++||+.|+++||++||++++
T Consensus        81 ~~l~~~~~~~r~----~~~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~  156 (204)
T 1iru_L           81 KLLANMVYQYKG----MGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLA  156 (204)
T ss_dssp             HHHHHHHHTTTT----SCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHhCC----CCeeEEEEEEEEeCCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHHH
Confidence            999999998873    5899999999999989999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhCcc
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNIPQ  220 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~~  220 (352)
                      ++||..+.++| .++++++|++|+++|++.++++|++++++++..
T Consensus       157 ~~al~~~~~rd~~s~~~i~v~vi~~~g~~~l~~~ei~~~~~~~~~  201 (204)
T 1iru_L          157 RRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHEKYSG  201 (204)
T ss_dssp             HHHHHHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHHHHHHHHTC
T ss_pred             HHHHHHHHHhCccCCCceEEEEEeCCceEEeCHHHHHHHHHHhcc
Confidence            99999999999 899999999999999999999999999988754

>1iru_N 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_M* 3une_M 3unf_M* 3unh_M

Probab=100.00  E-value=7.7e-45  Score=326.32  Aligned_cols=201  Identities=13%  Similarity=0.153  Sum_probs=191.2

Q ss_pred             HHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHH-HhCC
Q psy2869          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKL-VYQE   88 (352)
Q Consensus        12 ~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-~~~~   88 (352)
                      ++|+++|+|+|||+++||||||+|+|.+++.+  +++.+||++|++|++|+++|..+|++.|.++++.+++.|++ +++.
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            47899999999999999999999999998766  78999999999999999999999999999999999999998 9999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCC--C
Q psy2869          89 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE--D  166 (352)
Q Consensus        89 ~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~  166 (352)
                      +++++.+++++++.++.++  +++|||++++||||+|+++|+||.+||+|++.+++++++|+|+++++++||+.|++  +
T Consensus        82 ~~~v~~la~~l~~~ly~~r--~~~~P~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~  159 (219)
T 1iru_N           82 SYSPRAIHSWLTRAMYSRR--SKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPV  159 (219)
T ss_dssp             CCCHHHHHHHHHHHHHHHH--HTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSC
T ss_pred             CCCHHHHHHHHHHHHHHhc--ccCCCceEEEEEEEEECCCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCCC
Confidence            9999999999999997654  56899999999999998899999999999999999999999999999999999999  9


Q ss_pred             CCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHH
Q psy2869         167 LELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDH  214 (352)
Q Consensus       167 ~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~  214 (352)
                      ||++||++++++||..+.++| .++++++|++|+++|++.+++++++..
T Consensus       160 mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~i~~~  208 (219)
T 1iru_N          160 LSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTETN  208 (219)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCCCC
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCEEEcCCeeccch
Confidence            999999999999999999999 899999999999999999999988653

>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L 1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K* 2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K* 3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ...

Probab=100.00  E-value=7e-44  Score=318.52  Aligned_cols=198  Identities=14%  Similarity=0.265  Sum_probs=189.5

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.++|.+  +++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++.+++++.++
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            6899999999999999999999644  78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEe-CCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++++|.++++    ||++++|||||| +++|+||.+||+|++.+++++|+|+|+++++++||+.|+++||++||+++
T Consensus        81 ~~l~~~~~~~~~~----p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l  156 (212)
T 1ryp_L           81 KILSNLVYQYKGA----GLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  156 (212)
T ss_dssp             HHHHHHHHHTTTS----CCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhCCC----CceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHH
Confidence            9999999999954    899999999999 45999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhCcc
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNIPQ  220 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~~  220 (352)
                      +++||..+.++| .++++++|++|+++|+++++++|+++++.++.+
T Consensus       157 a~~al~~~~~rd~~s~~~i~v~vi~~~g~~~~~~~ei~~~~~~~~~  202 (212)
T 1ryp_L          157 GKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKE  202 (212)
T ss_dssp             HHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCceEEEEEcCCceEEECHHHHHHHHHHHHH
Confidence            999999999999 899999999999999999999999999887743

>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB: 3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H* 3h6i_C 3h6f_C 3hf9_H 3mfe_H

Probab=100.00  E-value=5.7e-44  Score=332.28  Aligned_cols=213  Identities=16%  Similarity=0.179  Sum_probs=176.8

Q ss_pred             hhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHH
Q psy2869           8 IEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLV   85 (352)
Q Consensus         8 veYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~   85 (352)
                      +|||++ +++|+|+|||+++||||||+|+|.+++.+  +++.+|||+|++|++|+++|..+|++.+.++++.+++.|++.
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 99999999999999999999999999855  788999999999999999999999999999999999999999


Q ss_pred             hCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-C-----CEEEEECCCCcEE--ecceEEecCCCchhHH
Q psy2869          86 YQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-R-----PYLYQCDPSGAYF--AWKATAMGRNYVNGKT  157 (352)
Q Consensus        86 ~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-g-----p~Ly~iDp~G~~~--~~~~~a~G~gs~~~~~  157 (352)
                      ++.+++++.+++++++++|.+++ ..+|||+|++||||||++ +     |+||.+||+|++.  +++++++|+|++++++
T Consensus       127 ~~~~i~v~~la~~la~~l~~~~~-~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~  205 (291)
T 2jay_A          127 EGVPLTFAGKINRLAIMVRGNLA-AAMQGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKS  205 (291)
T ss_dssp             HSSCCCHHHHHHHHHHHHHTCHH-HHHHTCCCEEEEEEECTTCSCSTTCEEEEEECTTSCEEECSSSEEEESTTHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHhhh-hhccccceeEEEEEEeCCCCcCCCCCEEEEECCCCcEEecCCCEEEEecCHHHHHH
Confidence            99999999999999999999876 357999999999999986 4     8999999999998  8899999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCc-------eEEEEEeCCCeEEcChhHHHHHHhhCccch
Q psy2869         158 FLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAEN-------IEIGIADENGFRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       158 ~Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~-------iei~ii~~~g~~~l~~~ei~~~l~~i~~~~  222 (352)
                      +||+.|+++||++||++++++||..+.++| .+++.       ++|++|+++|+++++++|++++++++.+.+
T Consensus       206 ~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~v~vi~~dg~~~l~~~ei~~~~~~~~~~~  278 (291)
T 2jay_A          206 SMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIIDADGAVDVPESRIAELARAIIESR  278 (291)
T ss_dssp             HHHHHGGGCCSHHHHHHHHHHHHHHC----------------CCEEEEEETTEEEECCHHHHHHHHHHC----
T ss_pred             HHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCEEEEEECCCeEEcCHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999 54542       269999999999999999999999985543

>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4

Probab=100.00  E-value=4.4e-43  Score=318.06  Aligned_cols=201  Identities=17%  Similarity=0.200  Sum_probs=189.5

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.++|.+  +++.+||++|+++++|+++|+.+|++.+.++++.+++.|+++++.+++++.++
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            6899999999999999999998644  88999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCC-C-----CEEEEECCCCcEEec--ceEEecCCCchhHHHHHhhcCCCCC
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-R-----PYLYQCDPSGAYFAW--KATAMGRNYVNGKTFLEKRYSEDLE  168 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-g-----p~Ly~iDp~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~s  168 (352)
                      ++|++++|.++++. +|||+|++||||||++ +     |+||.+||+|++.++  +++++|+|+.+++++||+.|+++||
T Consensus        81 ~~l~~~~~~~~~~~-~rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms  159 (235)
T 1q5q_H           81 NRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSD  159 (235)
T ss_dssp             HHHHHHHHTTHHHH-TTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHHHHhh-hcccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCC
Confidence            99999999988775 8999999999999987 7     999999999999999  9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhccC-CCCCc--e-----EEEEEeCCCeEEcChhHHHHHHhhCcc
Q psy2869         169 LDDAVHTAILTLKEGFEGQ-MTAEN--I-----EIGIADENGFRRLDVATVRDHLSNIPQ  220 (352)
Q Consensus       169 ~~eai~l~~~~l~~~~~~d-~~~~~--i-----ei~ii~~~g~~~l~~~ei~~~l~~i~~  220 (352)
                      ++||++++++||..+.++| .+++.  +     +|++|+++|++.++++|+++++.++.+
T Consensus       160 ~eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~~~g~~~l~~~ei~~~~~~~~~  219 (235)
T 1q5q_H          160 EETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVA  219 (235)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEeCCCeEEeCHHHHHHHHHHHHH
Confidence            9999999999999999999 55542  2     999999999999999999999988843

>1iru_H 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_N* 3une_N

Probab=100.00  E-value=1.9e-43  Score=314.19  Aligned_cols=194  Identities=15%  Similarity=0.209  Sum_probs=185.5

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+||++|++|++|+++|+.+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999944  78899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++.+|.+++     ||++++||||||+ +||+||.+||+|++.+++++++|+|+++++++||+.|+++||++||+++
T Consensus        81 ~~l~~~~~~~~~-----p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l  155 (205)
T 1iru_H           81 SLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQF  155 (205)
T ss_dssp             HHHHHHHHHTTT-----TCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhcCc-----CccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            999999999884     9999999999998 5899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCC--eEEcChhHHHHHHhh
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENG--FRRLDVATVRDHLSN  217 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g--~~~l~~~ei~~~l~~  217 (352)
                      +++||..+.++| .++++++|++|+++|  ++.++++||++++++
T Consensus       156 ~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~~~  200 (205)
T 1iru_H          156 TANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAVA  200 (205)
T ss_dssp             HHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCCCC
T ss_pred             HHHHHHHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHHhh
Confidence            999999999999 899999999999998  578999999877654

>1ryp_N 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_N* 1jd2_M* 1g65_M 1vsy_N 1z7q_N 2f16_M* 2fak_M* 2fny_M* 2gpl_M* 3d29_M* 3dy3_M* 3dy4_M* 3e47_M* 3gpj_M* 3gpt_M* 3gpw_M* 3hye_M* 3l5q_R 3mg0_M* 3mg4_M* ...

Probab=100.00  E-value=5e-44  Score=323.96  Aligned_cols=201  Identities=14%  Similarity=0.222  Sum_probs=191.1

Q ss_pred             HHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHH-----
Q psy2869          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKL-----   84 (352)
Q Consensus        12 ~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-----   84 (352)
                      ++|+++|+|+|||+++||||||+|+|.+.+.+  +++.+||++|++|++|+++|..+|++.|.++++.+++.|++     
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            46889999999999999999999999998755  78999999999999999999999999999999999999999     


Q ss_pred             HhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhc
Q psy2869          85 VYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRY  163 (352)
Q Consensus        85 ~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~  163 (352)
                      +++.+++++.+++++++.++.++  .++|||++++||||||++ +|+||.+||+|++.+++++++|+|+++++++||+.|
T Consensus        82 ~~~~~~~v~~la~~l~~~ly~~r--~~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~  159 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVMYQRR--SKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHHH--HTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             hcCCCCCHHHHHHHHHHHHHHhc--CCCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhh
Confidence            89999999999999999996654  568999999999999986 999999999999999999999999999999999999


Q ss_pred             CC-----CCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCC-CeEEcChhHHHHH
Q psy2869         164 SE-----DLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADEN-GFRRLDVATVRDH  214 (352)
Q Consensus       164 ~~-----~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~-g~~~l~~~ei~~~  214 (352)
                      ++     +||++||++++++||..+.++| .++++++|++|+++ |++.++++|++++
T Consensus       160 ~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~~~~~~~~i~~~  217 (233)
T 1ryp_N          160 DRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM  217 (233)
T ss_dssp             SSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSC
T ss_pred             ccccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCeEEcChHhcccc
Confidence            99     9999999999999999999999 89999999999999 8999999998764

>3unf_H Proteasome subunit beta type-10; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_H

Probab=100.00  E-value=5.5e-43  Score=316.58  Aligned_cols=190  Identities=17%  Similarity=0.279  Sum_probs=183.2

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|.+++++  +++.+|||+|++||+|+++|..+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999987  68899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++.++.+     .+||++++||||||++||+||.+||+|++.+++++|+|+|+..++++||+.|+++||++||++++
T Consensus        81 ~~l~~~l~~~-----~~p~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la  155 (234)
T 3unf_H           81 RILRQTLFRY-----QGHVGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELL  155 (234)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHH
T ss_pred             HHHHHHHHhc-----CCCccEEEEEEEEeCCCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHHH
Confidence            9999999865     36999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHH
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRD  213 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~  213 (352)
                      ++||..+.++| .++++++|++|+++|++.+++.+++.
T Consensus       156 ~~al~~~~~~D~~sg~~iev~vi~~dg~~~l~~~~i~~  193 (234)
T 3unf_H          156 VEAITAGILSDLGSGGNVDACVITAGGAKLQRALSTPT  193 (234)
T ss_dssp             HHHHHHHHHHBTTCCSCEEEEEEESSCEEEEEEEECCC
T ss_pred             HHHHHHHHhhcCCCCCcEEEEEEECCCEEEeCceeccc
Confidence            99999999999 79999999999999999999999864

>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_H* 3nzx_H* 4b4t_2

Probab=100.00  E-value=9.8e-43  Score=319.38  Aligned_cols=195  Identities=17%  Similarity=0.220  Sum_probs=178.3

Q ss_pred             HHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCC
Q psy2869          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQEN   89 (352)
Q Consensus        12 ~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~   89 (352)
                      .||+++|+|+|||+++||||||+|+|.+++.+  +++.+||++|++||+|+++|..+|++.+.++++.+++.|+++++++
T Consensus        23 ~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~~  102 (261)
T 3nzj_H           23 PKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSRE  102 (261)
T ss_dssp             -------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred             CcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhCCC
Confidence            68999999999999999999999999999876  7889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCH
Q psy2869          90 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLEL  169 (352)
Q Consensus        90 i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~  169 (352)
                      ++++.+++++++.++.+     .+||++++||||||++||+||.+||+|++.+++++|+|+|++.++++||+.|+++||+
T Consensus       103 ~~v~~~a~~l~~~l~~~-----~~~~gv~llvaG~D~~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~  177 (261)
T 3nzj_H          103 PRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTK  177 (261)
T ss_dssp             CCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCH
T ss_pred             CCHHHHHHHHHHHHHHh-----cCcccEEEEEEEEeCCCCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhccCCCH
Confidence            99999999999988764     3699999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC-eEEcChhHH
Q psy2869         170 DDAVHTAILTLKEGFEGQ-MTAENIEIGIADENG-FRRLDVATV  211 (352)
Q Consensus       170 ~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g-~~~l~~~ei  211 (352)
                      |||++++++||..+.++| .++++++|++|+++| ++.+.+-.+
T Consensus       178 eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~~~~~~~~~  221 (261)
T 3nzj_H          178 EEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLT  221 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEEC
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcEEEeccccC
Confidence            999999999999999999 899999999999999 666655443

>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K 1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J* 2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J* 3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ...

Probab=100.00  E-value=1.1e-42  Score=307.51  Aligned_cols=188  Identities=22%  Similarity=0.317  Sum_probs=180.0

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++++  +++.+||++|++|++|+++|+.+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999887  67899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC--CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH  174 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~  174 (352)
                      +++++.+|.+++.  .+||++++||||||+  ++|+||.+||+|++.+++++++|+|+++++++||+.|+++||++||++
T Consensus        82 ~~l~~~l~~~~~~--r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~  159 (198)
T 1ryp_K           82 SFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLD  159 (198)
T ss_dssp             HHHHHHHHHHTTS--SSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHHhccc--CCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHH
Confidence            9999999998743  359999999999996  699999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcCh
Q psy2869         175 TAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDV  208 (352)
Q Consensus       175 l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~  208 (352)
                      ++++||..+.++| .++++++|++|+++|++.+++
T Consensus       160 l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~~  194 (198)
T 1ryp_K          160 LLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDD  194 (198)
T ss_dssp             HHHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECC
T ss_pred             HHHHHHHHHHHhCccCCCceEEEEEcCCCEEEecc
Confidence            9999999999999 899999999999999998876

>1ryp_H 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 3nzj_N* 3nzw_N* 3nzx_N* 1vsy_H 3l5q_B 1g65_N* 1fnt_H 1g0u_N* 1jd2_N* 1z7q_H 2f16_N* 2fak_N* 2fny_N* 2gpl_N* 2zcy_N* 3bdm_N* 3d29_N* 3dy3_N* 3dy4_N* 3e47_N* ...

Probab=100.00  E-value=9.6e-43  Score=309.59  Aligned_cols=189  Identities=15%  Similarity=0.255  Sum_probs=180.6

Q ss_pred             HHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCC
Q psy2869          11 ALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQE   88 (352)
Q Consensus        11 a~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~   88 (352)
                      .++|+++|+|+|||+++||||||+|+|.+++.+  +++.+||++|++|++|+++|..+|++.+.++++.+++.|++++++
T Consensus         2 ~~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   81 (205)
T 1ryp_H            2 KKGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT   81 (205)
T ss_dssp             CTTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            368999999999999999999999999999954  788999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCC
Q psy2869          89 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDL  167 (352)
Q Consensus        89 ~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~  167 (352)
                       ++++.+++++++.+|.+++.     |++++||||||+ +||+||.+||+|++.+++++++|+|+++++++||+.|+++|
T Consensus        82 -~~v~~la~~l~~~~~~~~~~-----~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~  155 (205)
T 1ryp_H           82 -PSTETAASVFKELCYENKDN-----LTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENM  155 (205)
T ss_dssp             -CCHHHHHHHHHHHHHHTTTT-----CCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTC
T ss_pred             -CCHHHHHHHHHHHHHhhhcC-----ceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCC
Confidence             99999999999999999853     999999999997 58999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEE
Q psy2869         168 ELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRR  205 (352)
Q Consensus       168 s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~  205 (352)
                      |++||++++++||..+.++| .++++++|++|+++|++.
T Consensus       156 s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~~~  194 (205)
T 1ryp_H          156 SKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVER  194 (205)
T ss_dssp             CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEE
T ss_pred             CHHHHHHHHHHHHHHHHHhCCccCCeEEEEEEcCCCEEE
Confidence            99999999999999999999 899999999999999543

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L

Probab=100.00  E-value=3e-42  Score=308.18  Aligned_cols=187  Identities=21%  Similarity=0.241  Sum_probs=177.9

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (352)
                      +++|+|+|||+++||||||+|+|.+++++  +++.+||++|++|++|+++|+.+|++.+.++++.+++.|++++++++++
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            57899999999999999999999999987  6789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhh---------
Q psy2869          93 QQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKR---------  162 (352)
Q Consensus        93 ~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~---------  162 (352)
                      +.+++++++.++.  ++  .|||++++||||||++ +|+||.+||+|++.+++++|+|+|+++++++||+.         
T Consensus        86 ~~la~~l~~~~y~--~r--~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~  161 (213)
T 1iru_M           86 GAIAAMLSTILYS--RR--FFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNV  161 (213)
T ss_dssp             HHHHHHHHHHHHH--TT--TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSC
T ss_pred             HHHHHHHHHHHHh--hC--CCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhcccccccccc
Confidence            9999999999954  33  7999999999999976 59999999999999999999999999999999999         


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEE
Q psy2869         163 YSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRR  205 (352)
Q Consensus       163 ~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~  205 (352)
                      |+++||++||++++++||..+.++| .++++++|++|+++|++.
T Consensus       162 ~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  205 (213)
T 1iru_M          162 EHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIRE  205 (213)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEE
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCCeEE
Confidence            8899999999999999999999999 899999999999999653

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=2.7e-43  Score=324.90  Aligned_cols=205  Identities=14%  Similarity=0.218  Sum_probs=192.2

Q ss_pred             hhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHH-
Q psy2869           8 IEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKL-   84 (352)
Q Consensus         8 veYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-   84 (352)
                      .+.+++++++|+|+|||+++||||||+|+|.+.+.+  +++.+||++|++||+|+++|+.+|++.|+++++.+++.|++ 
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            456678999999999999999999999999998755  78899999999999999999999999999999999999998 


Q ss_pred             ----HhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          85 ----VYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        85 ----~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                          +++.+++++.++++++++++.++  .++|||+|++||||||++ +|+||.+||+|++.+++++++|+|+.+++++|
T Consensus       111 ~~~~~~~~~~~v~~la~~l~~~ly~~r--~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~L  188 (266)
T 1g0u_M          111 NPLADAEEALEPSYIFEYLATVMYQRR--SKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLL  188 (266)
T ss_dssp             CTTTTTTTSCCHHHHHHHHHHHHHHHH--HTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHHHHH
T ss_pred             cchhhcCCCCCHHHHHHHHHHHHHHhc--cCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHHHHH
Confidence                89999999999999999996654  568999999999999986 99999999999999999999999999999999


Q ss_pred             HhhcCC-----CCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCC-CeEEcChhHHHHH
Q psy2869         160 EKRYSE-----DLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADEN-GFRRLDVATVRDH  214 (352)
Q Consensus       160 e~~~~~-----~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~-g~~~l~~~ei~~~  214 (352)
                      |+.|++     +||++||++++++||..+.++| .++++++|++|+++ |++.++++||+++
T Consensus       189 e~~~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~~~~~~~ei~~~  250 (266)
T 1g0u_M          189 RKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM  250 (266)
T ss_dssp             TTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCCC
T ss_pred             HHhhcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCeEEcCHHHhhhh
Confidence            999999     9999999999999999999999 89999999999999 9999999998764

>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H* 1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H* 2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H* 3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ...

Probab=100.00  E-value=1.6e-41  Score=305.19  Aligned_cols=187  Identities=17%  Similarity=0.216  Sum_probs=179.1

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++++  +++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999987  67889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++.++.+     .|||++++||||+|++||+||.+||+|++.+++++|+|+|++.++++||+.|+++||++||++++
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la  155 (222)
T 1ryp_I           81 QMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLA  155 (222)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHH
T ss_pred             HHHHHHHhhc-----CCCCCeeEEEEEEeCCCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHHH
Confidence            9999998765     37999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCC-eEEcChhH
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENG-FRRLDVAT  210 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g-~~~l~~~e  210 (352)
                      ++||..+.++| .++++++|++|+++| ++.+.+.+
T Consensus       156 ~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~~  191 (222)
T 1ryp_I          156 SDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYL  191 (222)
T ss_dssp             HHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEE
T ss_pred             HHHHHHHHhccccCCCcEEEEEEECCCCEEEEecee
Confidence            99999999999 789999999999999 98876655

>1ryp_M 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_M* 1jd2_L* 1g65_L 1vsy_M 1z7q_M 2f16_L* 2fak_L* 2fny_L* 2gpl_L* 3d29_L* 3dy3_L* 3dy4_L* 3e47_L* 3gpj_L* 3gpt_L* 3gpw_L* 3hye_L* 3l5q_Q 3mg0_L* 3mg4_L* ...

Probab=100.00  E-value=1e-41  Score=306.48  Aligned_cols=188  Identities=21%  Similarity=0.279  Sum_probs=178.3

Q ss_pred             HhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhC-CCC
Q psy2869          14 AVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQ-ENI   90 (352)
Q Consensus        14 av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i   90 (352)
                      .+++|+|+|||+++||||||+|+|.+++++  +++.+||++|+++++|+++|..+|++.|.++++.+++.|+++++ +++
T Consensus         5 ~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (222)
T 1ryp_M            5 YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKL   84 (222)
T ss_dssp             CCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             cccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            467999999999999999999999999987  78999999999999999999999999999999999999999999 999


Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhh-------
Q psy2869          91 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKR-------  162 (352)
Q Consensus        91 ~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~-------  162 (352)
                      +++.+|+++++.++.++    .|||++++||||||++ +|+||.+||+|++.+++++|+|+|+.+++++||+.       
T Consensus        85 ~v~~la~~l~~~ly~~r----~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~  160 (222)
T 1ryp_M           85 SINSAARNIQHLLYGKR----FFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQY  160 (222)
T ss_dssp             CHHHHHHHHHHHHHTTT----TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCB
T ss_pred             CHHHHHHHHHHHHHhcC----CCCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhccccccccc
Confidence            99999999999996533    6899999999999976 59999999999999999999999999999999998       


Q ss_pred             ----------cCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEE
Q psy2869         163 ----------YSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRR  205 (352)
Q Consensus       163 ----------~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~  205 (352)
                                |+++||++||++++++||..+.++| .++++++|++|+++|++.
T Consensus       161 ~~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi~~~g~~~  214 (222)
T 1ryp_M          161 EPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRK  214 (222)
T ss_dssp             CTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEE
T ss_pred             ccccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEcCCCeEE
Confidence                      8899999999999999999999999 899999999999999653

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I

Probab=100.00  E-value=2.9e-41  Score=300.01  Aligned_cols=186  Identities=15%  Similarity=0.255  Sum_probs=175.1

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (352)
                      +.+|+|+|||+++||||||+|+|.+++++  +++.+||++|++|++|+++|..+|++.+.++++.+++.|++++++++++
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            46899999999999999999999999988  5689999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC--CCCEEEEECCCCcEEec-ceEEecCCCchhHHHHHhhcCCCCCH
Q psy2869          93 QQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPSGAYFAW-KATAMGRNYVNGKTFLEKRYSEDLEL  169 (352)
Q Consensus        93 ~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~  169 (352)
                      +.+++++++.+  |+++  ..||++++||||||+  ++|+||.+||+|++.++ .++++|+|+++++++||+.|+++||+
T Consensus        85 ~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~  160 (205)
T 1iru_J           85 YTLMSMVANLL--YEKR--FGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDP  160 (205)
T ss_dssp             HHHHHHHHHHH--HTTT--TSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHH--HHhc--CCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCH
Confidence            99999999999  4544  349999999999995  68999999999999776 56999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeE
Q psy2869         170 DDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFR  204 (352)
Q Consensus       170 ~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~  204 (352)
                      +||++++++||..+.++| .++++++|++|+++|++
T Consensus       161 eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~  196 (205)
T 1iru_J          161 DHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKIT  196 (205)
T ss_dssp             HHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEE
T ss_pred             HHHHHHHHHHHHHHHHhCcccCCceEEEEEcCCCEE
Confidence            999999999999999999 88999999999999954

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ...

Probab=100.00  E-value=5.7e-41  Score=297.91  Aligned_cols=185  Identities=16%  Similarity=0.189  Sum_probs=174.7

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (352)
                      +.+|+|+|||+++||||||+|+|.+++++  +++.+||++|+ |++|+++|..+|++.+.++++.+++.|++++++++++
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            57899999999999999999999999998  56899999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC--CCCEEEEECCCCcEEec-ceEEecCCCchhHHHHHhhcCCCCCH
Q psy2869          93 QQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPSGAYFAW-KATAMGRNYVNGKTFLEKRYSEDLEL  169 (352)
Q Consensus        93 ~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~  169 (352)
                      +.+++++++.+  |+++.  .||++++||||||+  ++|+||.+||+|++.++ .++++|+|+++++++||+.|+++||+
T Consensus        84 ~~la~~l~~~~--y~~~~--~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~  159 (204)
T 1ryp_J           84 ETFTQLVSSSL--YERRF--GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEP  159 (204)
T ss_dssp             HHHHHHHHHHH--HTTTT--SCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHH--HHhcC--CCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCCCcCH
Confidence            99999999999  55543  39999999999996  58999999999999777 56999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeE
Q psy2869         170 DDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFR  204 (352)
Q Consensus       170 ~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~  204 (352)
                      +||++++++||..+.++| .++++++|++|+++|++
T Consensus       160 eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~  195 (204)
T 1ryp_J          160 EDLFETISQALLNAADRDALSGWGAVVYIIKKDEVV  195 (204)
T ss_dssp             HHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEE
T ss_pred             HHHHHHHHHHHHHHHHhCcccCCcEEEEEEcCCCEE
Confidence            999999999999999999 89999999999999954

>1iru_K 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_J* 3une_J 3unf_J* 3unh_J

Probab=100.00  E-value=4.7e-41  Score=297.76  Aligned_cols=188  Identities=20%  Similarity=0.264  Sum_probs=175.3

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999744  78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++.+....+ . .|||++++||||||+ ++|+||.+||+|++.+++++++|+|+++++++||+.|+++||++||+++
T Consensus        82 ~~~~~~l~~~~~-~-~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l  159 (201)
T 1iru_K           82 NFTRRNLADCLR-S-RTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVEL  159 (201)
T ss_dssp             HHHHHHHHHHHT-S-SSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHh-c-CCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHH
Confidence            999887632221 2 379999999999998 5899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEEcCh
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRRLDV  208 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~  208 (352)
                      +++||..+.+|| .++++++|++|+++|++.+++
T Consensus       160 ~~~al~~a~~rd~~sg~~i~v~vi~~~g~~~~~~  193 (201)
T 1iru_K          160 LRKCLEELQKRFILNLPTFSVRIIDKNGIHDLDN  193 (201)
T ss_dssp             HHHHHHHHHHTBCBCCCCEEEEEEETTEEECCCC
T ss_pred             HHHHHHHHHhhccccCCceEEEEEcCCCeEEeec
Confidence            999999999999 889999999999999887764

>1iru_I 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_H* 3une_H

Probab=100.00  E-value=7.6e-41  Score=302.99  Aligned_cols=188  Identities=18%  Similarity=0.241  Sum_probs=179.6

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+++++  +++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999988  67889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++.++.++     +||++++||||||++||+||.+||+|++.+++++++|+|++.++++||+.|+++||++||++++
T Consensus        81 ~~l~~~l~~~~-----~~~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la  155 (234)
T 1iru_I           81 RMLKQMLFRYR-----GYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLV  155 (234)
T ss_dssp             HHHHHHHHHTT-----TCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHH
T ss_pred             HHHHHHHHhcC-----CCCceeEEEEEEcCCCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHHH
Confidence            99999998764     5999999999999989999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHH
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATV  211 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei  211 (352)
                      ++||..+.++| .++++++|++|+++|++.+.+.++
T Consensus       156 ~~al~~a~~~d~~sg~~i~v~vi~k~g~~~~~~~~~  191 (234)
T 1iru_I          156 SEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTV  191 (234)
T ss_dssp             HHHHHHHHHHCTTCCSCEEEEEEETTEEECCSEEEC
T ss_pred             HHHHHHHHHhcccCCCCEEEEEEECCcEEEEcceec
Confidence            99999999999 789999999999999987776554

>3unf_N Proteasome subunit beta type-9; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_N

Probab=100.00  E-value=1.6e-41  Score=300.39  Aligned_cols=190  Identities=14%  Similarity=0.189  Sum_probs=178.1

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|.+++.+  +++.+||++|++|++|+++|+.+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999999955  88999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC-CCCEEEEECCCCcEEecc-eEEecCCCchhHHHHHhhcCCCCCHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLEKRYSEDLELDDAVH  174 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~eai~  174 (352)
                      +++++.+|.++     |||++++||||||+ ++|+||.  |+|++.+++ ++++|+|+++++++||+.|+++||++||++
T Consensus        81 ~~l~~~l~~~~-----~p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~  153 (199)
T 3unf_N           81 NVVKNISYKYR-----EDLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRR  153 (199)
T ss_dssp             HHHHHHHHHTT-----TTCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHhcC-----CCceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHH
Confidence            99999998754     69999999999998 5899999  999976665 566799999999999999999999999999


Q ss_pred             HHHHHHHHhhccC-CCCCceEEEEEeCCC--eEEcChhHHHHHH
Q psy2869         175 TAILTLKEGFEGQ-MTAENIEIGIADENG--FRRLDVATVRDHL  215 (352)
Q Consensus       175 l~~~~l~~~~~~d-~~~~~iei~ii~~~g--~~~l~~~ei~~~l  215 (352)
                      ++++||..+.++| .++++++|++|+++|  ++.++++||++++
T Consensus       154 la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~  197 (199)
T 3unf_N          154 FTTNAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPKFY  197 (199)
T ss_dssp             HHHHHHHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSCCCC
T ss_pred             HHHHHHHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCcccc
Confidence            9999999999999 899999999999998  7889999987654

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=100.00  E-value=5.6e-34  Score=247.86  Aligned_cols=168  Identities=12%  Similarity=0.093  Sum_probs=151.9

Q ss_pred             cCCCcEEEEEeCCEEEEEEecCCCCC-c-C-ccccccEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy2869          16 EAGAPSVGIKASNGIVLATEKKQKTI-L-F-EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (352)
Q Consensus        16 ~~G~tvIgi~~~dgVvlaad~~~~~~-~-~-~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (352)
                      .+|+|+|||+++||||||+|+|.+.+ + + +++.+||++| ++|++|+++|..+|++.|.++++.+++.|+   +    
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            57999999999999999999999985 6 6 8899999999 999999999999999999999999999988   3    


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEec--ceEEecCCCchhHHHHHhhcCC---C
Q psy2869          92 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAW--KATAMGRNYVNGKTFLEKRYSE---D  166 (352)
Q Consensus        92 ~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~---~  166 (352)
                        .+.+.++++.+.++++...|||++++|||    ++|+||.+||+|++.++  +++|+|+|+++++++||+.|++   +
T Consensus        76 --~~~~~~~~l~~~~~~~~~~rp~~~~~lva----d~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~  149 (180)
T 2z3b_A           76 --NLKRAAVELAKEWRSDKVLRKLEAMLIVM----NQDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGES  149 (180)
T ss_dssp             --CHHHHHHHHHHHHHHCTTGGGCCCCEEEE----CSSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGG
T ss_pred             --ChHHHHHHHHHHHHhhhCcCcceEEEEEE----cCCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCC
Confidence              23444455666677778899999999999    47999999999999984  9999999999999999999998   9


Q ss_pred             CCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEe
Q psy2869         167 LELDDAVHTAILTLKEGFEGQ-MTAENIEIGIAD  199 (352)
Q Consensus       167 ~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~  199 (352)
                      ||.||   ++.+||..+.+|| .++++++|.+|+
T Consensus       150 mt~ee---l~~~al~~a~~rd~~sg~~i~v~~i~  180 (180)
T 2z3b_A          150 MSASE---IARAALETAGEICVYTNDQIILEELE  180 (180)
T ss_dssp             CCHHH---HHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             CCHHH---HHHHHHHHHHHhcCccCCeEEEEEEC
Confidence            99999   4679999999999 999999999883

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

Probab=100.00  E-value=1.5e-33  Score=243.31  Aligned_cols=164  Identities=13%  Similarity=0.112  Sum_probs=146.1

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+||++| ++|++++++|..+|++.+.++++.+++.|+.+         +
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~---------~   71 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN---------L   71 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC---------H
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc---------H
Confidence            6899999999999999999998754  8889999999 99999999999999999999999999998744         2


Q ss_pred             HHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecc--eEEecCCCchhHHHHHhhcC-CCCCHHHH
Q psy2869          96 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK--ATAMGRNYVNGKTFLEKRYS-EDLELDDA  172 (352)
Q Consensus        96 a~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~--~~a~G~gs~~~~~~Le~~~~-~~~s~~ea  172 (352)
                      .+.++++.+.++++...|||++++|++  |  +|+||.+||+|++.+++  ++++|+|+++++++||+.|+ ++||.   
T Consensus        72 ~~~~~~l~~~~~~~~~~~~~~~~~lv~--D--~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---  144 (171)
T 1m4y_A           72 TKAAVELAKDWRTDRVLRRLEALLLVA--D--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---  144 (171)
T ss_dssp             HHHHHHHHHHHHHCTTGGGCCCEEEEE--C--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---
T ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEEE--c--CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---
Confidence            333444444556666678999999998  5  89999999999999988  99999999999999999999 99996   


Q ss_pred             HHHHHHHHHHhhccC-CCCCceEEEEE
Q psy2869         173 VHTAILTLKEGFEGQ-MTAENIEIGIA  198 (352)
Q Consensus       173 i~l~~~~l~~~~~~d-~~~~~iei~ii  198 (352)
                      ++++++||..+.+|| .++++++|.++
T Consensus       145 ~~l~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          145 REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHHHHHHHHHHhCcccCCeEEEEEC
Confidence            678999999999999 89999999864

>1g3k_A ATP-dependent protease HSLV; hydrolase; 1.90A {Haemophilus influenzae} SCOP: d.153.1.4 PDB: 1g3i_G 1jjw_A 1kyi_G* 1ofh_G* 1ofi_G* 1e94_A* 1g4a_B* 1g4b_M 1hqy_A* 1ht1_C* 1ht2_A* 1ned_A

Probab=100.00  E-value=3.3e-33  Score=241.84  Aligned_cols=165  Identities=10%  Similarity=0.043  Sum_probs=146.9

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPI-TDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (352)
                      +|+|||+++||||||+|+|.+++.+  +++.+||++| ++|++++++|..+|++.|.++++.+++.|+.      +.   
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            6899999999999999999998854  8899999999 9999999999999999999999999999885      33   


Q ss_pred             HHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecc---eEEecCCCchhHHHHHhhcC-CCCCHHH
Q psy2869          96 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK---ATAMGRNYVNGKTFLEKRYS-EDLELDD  171 (352)
Q Consensus        96 a~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~---~~a~G~gs~~~~~~Le~~~~-~~~s~~e  171 (352)
                      .+.++.+.+.++++.+.||++  ++++|+|  +|+||.+||+|++.+++   ++|+|+|+++++++||+.|+ ++||.+ 
T Consensus        72 ~~~~~~l~~~~~~~~~~r~~~--~~l~g~d--~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~~-  146 (174)
T 1g3k_A           72 LKSAVELAKDWRTDRALRKLE--AMLIVAD--EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAH-  146 (174)
T ss_dssp             HHHHHHHHHHHHHSTTGGGCC--CEEEEEC--SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHH-
T ss_pred             HHHHHHHHHHHHhccCcCcce--EEEEEEC--CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHH-
Confidence            444455555666666678864  6777887  79999999999999988   99999999999999999999 999955 


Q ss_pred             HHHHHHHHHHHhhccC-CCCCceEEEEEe
Q psy2869         172 AVHTAILTLKEGFEGQ-MTAENIEIGIAD  199 (352)
Q Consensus       172 ai~l~~~~l~~~~~~d-~~~~~iei~ii~  199 (352)
                        +++++||..+.+|| .++++++|++|+
T Consensus       147 --~l~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          147 --EIVEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             --HHHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             --HHHHHHHHHHHHhccccCCceEEEEec
Confidence              79999999999999 899999999985

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

Probab=99.93  E-value=1.1e-27  Score=220.10  Aligned_cols=121  Identities=34%  Similarity=0.452  Sum_probs=117.4

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|++.+|.++.+|+++++++||++.+|+.|++++|.||++++.|||+|++||+|||++||+||++||+|+
T Consensus        81 ~~aG~~aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~gp~Ly~iDp~G~  160 (264)
T 3h4p_A           81 ATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGA  160 (264)
T ss_dssp             EEEECSHHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETTEEEEEEECTTCC
T ss_pred             EeccchHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCCcCEEEEECCCce
Confidence            56999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+..+|.++|.++|
T Consensus       161 ~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al  201 (264)
T 3h4p_A          161 LIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITAL  201 (264)
T ss_dssp             CEEESEEEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHH
T ss_pred             EEecCeEEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988763

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 4b4t_G 4g4s_G* 3bdm_F* 1fnt_G* 2zcy_F*

Probab=99.93  E-value=5e-27  Score=217.77  Aligned_cols=121  Identities=26%  Similarity=0.367  Sum_probs=117.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|++.+|.++.+|+++++++||++.+|++|++++|.||++++.|||+|++||+|||++||+||++||+|+
T Consensus        77 ~~aG~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~Gp~Ly~iDp~G~  156 (288)
T 3nzj_F           77 VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGS  156 (288)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EecCcHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCCCEEEEECCCCC
Confidence            56999999999999999999999999999999999999999999999999999999999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHh---hcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKR---EKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~---~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.   |+++|+..++.++|.++|
T Consensus       157 ~~~~~~~aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al  200 (288)
T 3nzj_F          157 YWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII  200 (288)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHH
T ss_pred             EEEcCEEEEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999   999999999999987764

>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=99.93  E-value=6.1e-27  Score=211.68  Aligned_cols=120  Identities=23%  Similarity=0.253  Sum_probs=116.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|.+.++.++.+|+.+++++||++.+++.+++++|.|||+++.|||++++|++|||++||+||++||+|+
T Consensus        72 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~  151 (233)
T 1ryp_F           72 SLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGN  151 (233)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EEEechHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCCcCEEEEECCCCC
Confidence            66999999999999999999999999999999999999999999999999999999999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcC--CC--CCcccccccccc
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKL--RV--PNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~--~~--~~~~~~~~~~~~  351 (352)
                      +.++++.|+|+|++.|+++||+.|++  +|  +.+++.+++.++
T Consensus       152 ~~~~~~~aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~a  195 (233)
T 1ryp_F          152 VTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEA  195 (233)
T ss_dssp             EEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHH
T ss_pred             eeeeeEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHH
Confidence            99999999999999999999999999  99  999999888765

>1ryp_A 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_G* 1g65_G 1vsy_A 2f16_G* 2fak_G* 2fny_G* 2gpl_G* 3d29_G* 3dy3_G* 3dy4_G* 3e47_G* 3gpj_G* 3gpt_G* 3gpw_G* 3hye_G* 3l5q_A 3mg0_G* 3mg4_G* 3oeu_G* 3oev_G* ...

Probab=99.93  E-value=5.1e-27  Score=213.52  Aligned_cols=121  Identities=26%  Similarity=0.269  Sum_probs=116.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .+||+.+|++.|++.+|.++.+|+++++++||++.+|+.|++++|.||++++.|||+|++||+|||+ +||+||++||+|
T Consensus        73 ~~aG~~aD~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G  152 (243)
T 1ryp_A           73 VVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAG  152 (243)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTS
T ss_pred             EEEecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcCCC
Confidence            5599999999999999999999999999999999999999999999999999999999999999997 789999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcC-------CCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKL-------RVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~-------~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|++       +|+..+|.+++.++|
T Consensus       153 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al  201 (243)
T 1ryp_A          153 YYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHM  201 (243)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHH
T ss_pred             CEEEEEEEEECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999       999999999987763

>1iru_D 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unf_C* 3une_C* 3unh_C 3unb_C*

Probab=99.93  E-value=6.5e-27  Score=213.40  Aligned_cols=121  Identities=34%  Similarity=0.534  Sum_probs=116.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEe-CCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d-~~gp~ly~~dp~G  310 (352)
                      .+||+.+|++.|.+.++.++.+|+.+++++||++.+++.+++++|.||++++.|||+|++||+||| ++||+||.+||+|
T Consensus        72 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G  151 (248)
T 1iru_D           72 AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSG  151 (248)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTS
T ss_pred             EEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCC
Confidence            559999999999999999999999999999999999999999999999999999999999999999 6789999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCC--CCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRV--PNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~--~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+++|  +..+|.+++.++|
T Consensus       152 ~~~~~~~~aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al  195 (248)
T 1iru_D          152 TYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKAL  195 (248)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHH
T ss_pred             cEEEeeEEEECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999  9999999988763

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A

Probab=99.93  E-value=1.7e-26  Score=208.80  Aligned_cols=121  Identities=32%  Similarity=0.492  Sum_probs=117.3

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|.+.++.++.+|+.+++++||++.+|+.+++++|.||++++.|||++++|++|||++||+||.+||+|+
T Consensus        77 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~gp~Ly~id~~G~  156 (233)
T 1yar_A           77 VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGT  156 (233)
T ss_dssp             EEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCC
T ss_pred             EEeeCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeCCCCEEEEECCCCC
Confidence            66999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+.++|.+++.+++
T Consensus       157 ~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al  197 (233)
T 1yar_A          157 INEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKAL  197 (233)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             EEeeeEEEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988753

>1iru_B 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_A* 3une_A 3unf_A* 3unh_A

Probab=99.93  E-value=1.9e-26  Score=208.44  Aligned_cols=121  Identities=58%  Similarity=0.869  Sum_probs=117.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|.+.++.++.+|+.+++++||++.+++.+++++|.||++++.|||++++|++|||++||+||.+||+|+
T Consensus        74 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~gp~Ly~id~~G~  153 (233)
T 1iru_B           74 VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGA  153 (233)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSC
T ss_pred             EEEEccHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCCCCeEEEECCCCC
Confidence            56999999999999999999999999999999999999999999999999999999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+.++|.+++.+++
T Consensus       154 ~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al  194 (233)
T 1iru_B          154 YFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTL  194 (233)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             EEEeeEEEECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987753

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E

Probab=99.93  E-value=2.2e-26  Score=211.52  Aligned_cols=121  Identities=24%  Similarity=0.349  Sum_probs=117.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|.+.++.++.+|+++++++||++.+++.+++++|.|||+++.|||+|++||+|||++||+||++||+|+
T Consensus        73 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~~gp~Ly~idp~G~  152 (263)
T 1iru_F           73 SIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSAN  152 (263)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSC
T ss_pred             EEeCCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcCCCCEEEEECCCCC
Confidence            56999999999999999999999999999999999999999999999999999999999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcC--CCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKL--RVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~--~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|++  +|+.+++.+++.++|
T Consensus       153 ~~~~~~~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al  195 (263)
T 1iru_F          153 YFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRAL  195 (263)
T ss_dssp             EEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             EEEeeEEEcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999998  999999999987653

>1ryp_C 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_B* 1g65_B 2f16_B* 2fak_B* 2fny_B* 2gpl_B* 3d29_B* 3dy3_B* 3dy4_B* 3e47_B* 3gpj_B* 3gpt_B* 3gpw_B* 3hye_B* 3mg0_B* 3mg4_B* 3okj_B* 3shj_B* 3tdd_B* 3nzj_B* ...

Probab=99.93  E-value=3.3e-26  Score=208.25  Aligned_cols=121  Identities=34%  Similarity=0.517  Sum_probs=116.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEe-CCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d-~~gp~ly~~dp~G  310 (352)
                      .+||+.+|++.|++.++.++.+|+.+++++||++.+++.+++++|.||++++.|||++++|++||| ++||+||.+||+|
T Consensus        75 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G  154 (244)
T 1ryp_C           75 AVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSG  154 (244)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTC
T ss_pred             EEEEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCCc
Confidence            569999999999999999999999999999999999999999999999999999999999999999 6789999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+++|+.++|.+++.++|
T Consensus       155 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al  196 (244)
T 1ryp_C          155 NYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTL  196 (244)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             cEEeeeEEEECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987653

>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F* 1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F* 3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F* 3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ...

Probab=99.93  E-value=3.5e-26  Score=207.99  Aligned_cols=121  Identities=26%  Similarity=0.367  Sum_probs=116.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|.+.++.++.+|+.+++++||++.+++.|++++|.||++++.|||++++|++|||++||+||++||+|+
T Consensus        73 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~  152 (244)
T 1ryp_G           73 VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGS  152 (244)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EEcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeCCcCEEEEECCCCC
Confidence            66999999999999999999999999999999999999999999999999989999999999999988999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHh---hcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKR---EKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~---~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.   |+++|+.++|.+++.++|
T Consensus       153 ~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al  196 (244)
T 1ryp_G          153 YWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII  196 (244)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHH
T ss_pred             EEEeeEEEECCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999997   999999999999987753

>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=99.92  E-value=1.6e-26  Score=210.23  Aligned_cols=153  Identities=16%  Similarity=0.107  Sum_probs=127.7

Q ss_pred             ceEEEEEeCCCeEEcChhHHHHHHhhC-ccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcC-CCCCHHHHHH
Q psy2869         192 NIEIGIADENGFRRLDVATVRDHLSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVAT-ENIPTQQLVQ  269 (352)
Q Consensus       192 ~iei~ii~~~g~~~l~~~ei~~~l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~l~~  269 (352)
                      .--|++..++|+-.-.+.. ..-.++| +.+.++.+     .++|+.+|++.|.+.++.+++.|+++++ ++||++.|++
T Consensus        28 tT~vgi~~kdgVVlaadkr-~~~~~KI~~I~d~i~~-----~~aG~~aD~~~l~~~~~~~~~l~~~~~~~~~i~v~~la~  101 (248)
T 3mi0_A           28 KSVVALAYAGGVLFVAENP-SRSLQKISELYDRVGF-----AAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLAN  101 (248)
T ss_dssp             CCEEEEEETTEEEEEEECC-CSSSCSEEEEETTEEE-----EEEECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHH
T ss_pred             CcEEEEEeCCEEEEEEeCC-CCCCCCeEEECCCEEE-----EEccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHH
Confidence            4557777777742221111 1123333 33444444     5599999999999999999999999999 9999999999


Q ss_pred             HHH-HHHHHhhhcCCccccceeeEEEEEeC----CCCeEEEECCCCceec-eeEEEecCCchHHHHHHHHhhcCCCCCcc
Q psy2869         270 RVA-AIMQEYTQSGGVRPFGVSLLICGWDN----KRPYLYQCDPSGAYFA-WKATAMGRNYVNGKTFLEKREKLRVPNFC  343 (352)
Q Consensus       270 ~ls-~~~q~~t~~~~~RP~g~~~ll~G~d~----~gp~ly~~dp~G~~~~-~~~~a~G~~s~~a~~~Le~~~~~~~~~~~  343 (352)
                      .|+ .+.|.|||  +.|||||++||+|||+    +||+||++||+|++.+ |++.|+|+|++.|+++||++|+++|+..+
T Consensus       102 ~l~~~l~q~yt~--~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~~Le~~y~~~mt~ee  179 (248)
T 3mi0_A          102 VYAQTLGTIFTE--QAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTD  179 (248)
T ss_dssp             HHHHHHHHHHHH--SSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEEEESSCHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHHhcc--CCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEEEECccHHHHHHHHHhhcCCCCCHHH
Confidence            999 88999998  7899999999999998    7899999999999995 99999999999999999999999999999


Q ss_pred             ccccccccC
Q psy2869         344 GYHIAESLI  352 (352)
Q Consensus       344 ~~~~~~~~~  352 (352)
                      +.++|.++|
T Consensus       180 ai~la~~aL  188 (248)
T 3mi0_A          180 ALRIAVAAL  188 (248)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987764

>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C* 1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C* 3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C* 3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ...

Probab=99.92  E-value=5.4e-26  Score=206.46  Aligned_cols=121  Identities=36%  Similarity=0.524  Sum_probs=116.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC--CCCeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~--~gp~ly~~dp~  309 (352)
                      .+||+.||++.|.+.++.++.+|+.+++++||++.+|+.+++++|.||++++.|||++++|++|||+  +||+||.+||+
T Consensus        72 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~  151 (241)
T 1ryp_D           72 SFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPS  151 (241)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTT
T ss_pred             EEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCC
Confidence            5699999999999999999999999999999999999999999999999999999999999999998  78999999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHhh---cCCCCCccccccccccC
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKRE---KLRVPNFCGYHIAESLI  352 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~~---~~~~~~~~~~~~~~~~~  352 (352)
                      |++.++++.|+|+|++.|+++||+.|   +++|+..+|.+++.+++
T Consensus       152 G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al  197 (241)
T 1ryp_D          152 GIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSL  197 (241)
T ss_dssp             SCEEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHH
T ss_pred             CCEEEeeeEEECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999   99999999999988763

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F

Probab=99.92  E-value=4e-26  Score=208.81  Aligned_cols=121  Identities=27%  Similarity=0.362  Sum_probs=116.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEe-CCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d-~~gp~ly~~dp~G  310 (352)
                      .+||+.||++.|.+.++.++.+|+++++++||++.+++.+++++|.||++++.|||+|++||+||| ++||+||++||+|
T Consensus        76 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G  155 (254)
T 1iru_G           76 AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSG  155 (254)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTC
T ss_pred             EEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCC
Confidence            569999999999999999999999999999999999999999999999999999999999999999 6789999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+++|+..+|.++|.++|
T Consensus       156 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al  197 (254)
T 1iru_G          156 VSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKII  197 (254)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHH
T ss_pred             CEEeeeeEEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887653

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

Probab=99.92  E-value=7.3e-26  Score=206.24  Aligned_cols=121  Identities=29%  Similarity=0.429  Sum_probs=116.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .+||+.||++.|.+.++.++.+|+.+++++||++.+++.+++++|.||++++.|||+|++|++|||+ +||+||.+||+|
T Consensus        79 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G  158 (246)
T 1iru_A           79 VMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAG  158 (246)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTS
T ss_pred             EEeccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCe
Confidence            5699999999999999999999999999999999999999999999999999999999999999997 789999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcC--CCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKL--RVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~--~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|++  +|+.++|.+++.++|
T Consensus       159 ~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al  202 (246)
T 1iru_A          159 YYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCL  202 (246)
T ss_dssp             CEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHH
T ss_pred             eEEEeeEEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999  999999999987763

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

Probab=99.92  E-value=7.9e-26  Score=205.98  Aligned_cols=120  Identities=32%  Similarity=0.437  Sum_probs=116.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|.+.++.++.+|++++++++|++.+++.+++++|.||++++.|||++++|++|+| +||+||.+||+|+
T Consensus        77 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~gp~Ly~idp~G~  155 (246)
T 1j2p_A           77 ATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLYETDPSGA  155 (246)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-SSEEEEEECTTCC
T ss_pred             EEeEccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-CCCEEEEECCCce
Confidence            669999999999999999999999999999999999999999999999999999999999999999 8999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+..+|.+++.+++
T Consensus       156 ~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al  196 (246)
T 1j2p_A          156 LLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAM  196 (246)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             EEeeeEEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987653

>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=99.92  E-value=5.7e-26  Score=206.46  Aligned_cols=121  Identities=21%  Similarity=0.333  Sum_probs=116.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCC------ccccceeeEEEEEe-CCCCeEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWD-NKRPYLY  304 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~------~RP~g~~~ll~G~d-~~gp~ly  304 (352)
                      .+||+.+|++.|.+.++.++.+|+.+++++||++.+++.+++++|.||++++      .|||++++|++||| ++||+||
T Consensus        69 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly  148 (242)
T 1ryp_E           69 AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLF  148 (242)
T ss_dssp             EEEESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEE
T ss_pred             EEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEE
Confidence            6699999999999999999999999999999999999999999999999998      99999999999999 6789999


Q ss_pred             EECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         305 QCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       305 ~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      .+||+|++.++++.|+|+|++.|+++||+.|+++|+..+|.+++.++|
T Consensus       149 ~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al  196 (242)
T 1ryp_E          149 HAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKIL  196 (242)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             EECCCCCEeccCEEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999987753

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

Probab=99.92  E-value=1.2e-25  Score=206.58  Aligned_cols=121  Identities=37%  Similarity=0.518  Sum_probs=116.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .+||+.+|++.|++.++.++.+|+++++++||++.+++.+++++|.||++++.|||+|++|++|||+ +||+||.+||+|
T Consensus        75 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G  154 (261)
T 1iru_C           75 SVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSG  154 (261)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTT
T ss_pred             EEeEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECCCc
Confidence            5699999999999999999999999999999999999999999999999999999999999999995 689999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcC-CCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKL-RVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~-~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|++ +|+..+|.+++.++|
T Consensus       155 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al  197 (261)
T 1iru_C          155 NYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVL  197 (261)
T ss_dssp             EEEECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHH
T ss_pred             eEEeeeeEEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999 999999999987653

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D

Probab=99.92  E-value=7.7e-26  Score=205.47  Aligned_cols=121  Identities=21%  Similarity=0.332  Sum_probs=116.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCC-----ccccceeeEEEEEeCCCCeEEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGG-----VRPFGVSLLICGWDNKRPYLYQC  306 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~-----~RP~g~~~ll~G~d~~gp~ly~~  306 (352)
                      .+||+.||++.|.+.++.++.+|+.++++++|++.+++.+++++|.||++++     .|||++++|++|+|++||+||.+
T Consensus        77 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~gp~Ly~i  156 (241)
T 1iru_E           77 AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHM  156 (241)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEE
T ss_pred             EEeeChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCCCCEEEEE
Confidence            6699999999999999999999999999999999999999999999999988     89999999999999888999999


Q ss_pred             CCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         307 DPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       307 dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ||+|++.++++.|+|+|++.|+++||+.|+++|+.++|.+++.+++
T Consensus       157 dp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al  202 (241)
T 1iru_E          157 DPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIIL  202 (241)
T ss_dssp             CTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             CCCCcEEecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988753

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

Probab=99.91  E-value=2.4e-25  Score=196.91  Aligned_cols=117  Identities=19%  Similarity=0.182  Sum_probs=111.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|.+.++.++.+|+.+++++||++.+++.+++.+|.++    .|||++++|++|||++||+||.+||+|+
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~r----~rp~~~~~lvaG~D~~gp~Ly~id~~G~  119 (202)
T 1j2q_H           44 TTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYR----YFPYLVQLLIGGIDSEGKSIYSIDPIGG  119 (202)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTT----TSCCCEEEEEEEEETTEEEEEEECTTCC
T ss_pred             EecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhC----CCCceEEEEEEEEeCCCCEEEEECCCCC
Confidence            569999999999999999999999999999999999999999998864    7899999999999988999999999999


Q ss_pred             eecee-EEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWK-ATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~-~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.+++ +.|+|+|++.|+++||+.|+++|+..+|.+++.+++
T Consensus       120 ~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~la~~al  161 (202)
T 1j2q_H          120 AIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAI  161 (202)
T ss_dssp             EEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             eeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHHHHHHH
Confidence            99999 999999999999999999999999999999987653

>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=99.91  E-value=6.4e-25  Score=196.30  Aligned_cols=116  Identities=15%  Similarity=0.153  Sum_probs=110.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.|.+.++.++.+|+.+++++||++.+++.+++.+|.++    .|||++++|++||| +||+||.+||+|+
T Consensus        52 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r----~rp~~v~~lvaG~D-~gp~Ly~idp~G~  126 (217)
T 1yar_H           52 TIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVK----YMPYMVQLLVGGID-TAPHVFSIDAAGG  126 (217)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTT----TSCCCEEEEEEEES-SSEEEEEECTTCC
T ss_pred             EeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcC----CCCceEEEEEEEEC-CCCEEEEECCCCC
Confidence            569999999999999999999999999999999999999999998864    78999999999999 8999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+.++|.+++.+++
T Consensus       127 ~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~al  167 (217)
T 1yar_H          127 SVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAI  167 (217)
T ss_dssp             EEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             eEecCEEEEcCCHHHHHHHHHhhcccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987653

>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=5.5e-25  Score=193.95  Aligned_cols=118  Identities=19%  Similarity=0.191  Sum_probs=111.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC--CCCeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~--~gp~ly~~dp~  309 (352)
                      .+||+.+|++.|.+.++.++.+|+.++++++|++.+++.+++.+|.+++.  ++||++++|++|||+  +||+||.+||+
T Consensus        45 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~~--r~p~~v~~lvaG~D~~~~~p~Ly~idp~  122 (198)
T 1ryp_K           45 SFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQIDYL  122 (198)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTS--SSCCCEEEEEEEEETTTTEEEEEEECTT
T ss_pred             EeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccc--CCCceEEEEEEEEeCCCCCcEEEEECCC
Confidence            56999999999999999999999999999999999999999999998853  349999999999996  68999999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      |++.++++.|+|+|++.|+++||+.|+++|+.++|.+++.++
T Consensus       123 G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l~~~a  164 (198)
T 1ryp_K          123 GTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLC  164 (198)
T ss_dssp             CCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             CCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999998765

>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=7.3e-25  Score=194.10  Aligned_cols=117  Identities=17%  Similarity=0.251  Sum_probs=112.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|.+.++.++.+|+.+++++||++.+++.+++.+|.+|++    ||++++|++|||++||+||.+||+|+
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r~~----~~~v~~lvaG~D~~gp~Ly~idp~G~  119 (204)
T 1iru_L           44 TMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGM----GLSMGTMICGWDKRGPGLYYVDSEGN  119 (204)
T ss_dssp             ECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTS----CCCBEEEEEEECSSSEEEEEEESSSC
T ss_pred             EccCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhCCC----CeeEEEEEEEEeCCCCEEEEECCCCc
Confidence            56999999999999999999999999999999999999999999999864    89999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||++|+++|+.++|.+++.+++
T Consensus       120 ~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al  160 (204)
T 1iru_L          120 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAI  160 (204)
T ss_dssp             EEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHH
T ss_pred             EEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987753

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

Probab=99.91  E-value=6.7e-25  Score=196.41  Aligned_cols=117  Identities=19%  Similarity=0.182  Sum_probs=111.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .+||+.||++.|.+.++.++.+|+++++++||++.+++.|++++|.++    .|||++++||+|||+ +||+||.+||+|
T Consensus        45 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~----~~P~~v~~lvaG~D~~~gp~Ly~idp~G  120 (219)
T 3h4p_a           45 TIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACATLLSNILHSSR----MFPFLTQIIIGGYDLLEGAKLFSLDPLG  120 (219)
T ss_dssp             ECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHTT----TTTCCCCCEEEEEETTTEEEEEEECSSC
T ss_pred             EeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhc----CCCceEEEEEEEEeCCCCcEEEEECCCC
Confidence            569999999999999999999999999999999999999999999874    589999999999998 789999999999


Q ss_pred             ceecee-EEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWK-ATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~-~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.+++ +.|+|+|++.|+++||+.|+++|+..+|.++|.++|
T Consensus       121 ~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al  163 (219)
T 3h4p_a          121 GMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNAL  163 (219)
T ss_dssp             CEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHH
T ss_pred             ceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            999999 999999999999999999999999999999988763

>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B 1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A* 2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A* 3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ...

Probab=99.91  E-value=8.1e-25  Score=199.75  Aligned_cols=121  Identities=45%  Similarity=0.604  Sum_probs=116.3

Q ss_pred             cccCCccchhHHHHHHHHHHhh-hhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFR-RLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~-~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~  309 (352)
                      .+||+.||++.|.+.++.++.. |+..++++++++.+++.+++++|.++++++.|||++++|++|||+ +||+||.+||+
T Consensus        74 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~  153 (250)
T 1ryp_B           74 VYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPS  153 (250)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTT
T ss_pred             EeeeCHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEECCC
Confidence            6699999999999999999999 999999999999999999999999999999999999999999997 58999999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |++.++++.|+|+|++.|+++||+.|+++|+.++|.++|.+++
T Consensus       154 G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al  196 (250)
T 1ryp_B          154 GSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTL  196 (250)
T ss_dssp             SCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             CCEEeeceeEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988753

>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=99.91  E-value=6.2e-25  Score=198.69  Aligned_cols=120  Identities=13%  Similarity=0.105  Sum_probs=114.4

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-C-----CeEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-R-----PYLYQ  305 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-g-----p~ly~  305 (352)
                      .+||+.||++.|.+.++.++.+|+++++++||++.+++.|++++|.+++++ .|||+|++||+|||++ |     |+||.
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~-~rp~~v~~lvaG~D~~~g~~~~~p~Ly~  122 (235)
T 1q5q_H           44 GIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVS  122 (235)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHHH-TTTCCEEEEEEEECTTCSSTTSCEEEEE
T ss_pred             EcCCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHHHHHHHHHHHHHHhh-hcccceEEEEEEEECCCCccCCCCEEEE
Confidence            569999999999999999999999999999999999999999999999885 8999999999999976 7     99999


Q ss_pred             ECCCCceece--eEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         306 CDPSGAYFAW--KATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       306 ~dp~G~~~~~--~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +||+|++.++  ++.|+|+|++.|+++||+.|+++|+.++|.++|.++|
T Consensus       123 idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al  171 (235)
T 1q5q_H          123 YDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESL  171 (235)
T ss_dssp             ECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             ECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Confidence            9999999999  9999999999999999999999999999999987653

>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=99.90  E-value=1.3e-24  Score=193.59  Aligned_cols=117  Identities=13%  Similarity=0.162  Sum_probs=112.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEe-CCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d-~~gp~ly~~dp~G  310 (352)
                      .+||+.+|++.|.+.++.++.+|+++++++||++.+++.+++++|.||++    ||++++|++||| ++||+||.+||+|
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~----p~~v~~lvaG~D~~~gp~Ly~idp~G  119 (212)
T 1ryp_L           44 TMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGA----GLSMGTMICGYTRKEGPTIYYVDSDG  119 (212)
T ss_dssp             ECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTS----CCCBEEEEEEEETTTEEEEEEEETTC
T ss_pred             EccccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhhCCC----CceEEEEEEEEeCCCCCEEEEEcCCc
Confidence            66999999999999999999999999999999999999999999999986    899999999999 5689999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+++|+.++|.+++.++|
T Consensus       120 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~al  161 (212)
T 1ryp_L          120 TRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSI  161 (212)
T ss_dssp             CEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             eeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987653

>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=99.90  E-value=1.3e-24  Score=196.14  Aligned_cols=116  Identities=18%  Similarity=0.192  Sum_probs=110.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|.+.++.++++|+++++++|+++.+++.+++.++.|     .|||++++|++|+|++||+||++||+|+
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~llvaG~D~~gp~Ly~idp~G~  118 (234)
T 3unf_H           44 CGAGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRY-----QGHVGASLVVGGVDLNGPQLYEVHPHGS  118 (234)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EecccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHhc-----CCCccEEEEEEEEeCCCCEEEEECCCCC
Confidence            55999999999999999999999999999999999999999999875     3699999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+.++|.++|.++|
T Consensus       119 ~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al  159 (234)
T 3unf_H          119 YSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAI  159 (234)
T ss_dssp             EEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             EEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988763

>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=99.90  E-value=1.3e-24  Score=192.61  Aligned_cols=116  Identities=9%  Similarity=0.039  Sum_probs=111.4

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .+||+.+|++.|.+.++.++.+|+++++++||++.+++.+++++|.||+     ||++++|++|||+ +||+||.+||+|
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~-----p~~~~~lvaG~D~~~gp~ly~~d~~G  118 (205)
T 1iru_H           44 CRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMGG  118 (205)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTT-----TCCEEEEEEEEETTTEEEEEEECTTS
T ss_pred             EcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCc-----CccEEEEEEEEeCCCCCEEEEECCCC
Confidence            5699999999999999999999999999999999999999999999987     9999999999997 689999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.++|+|++.|+++||+.|+++|+.++|.+++.++|
T Consensus       119 ~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l~~~al  160 (205)
T 1iru_H          119 MMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANAL  160 (205)
T ss_dssp             CCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             cEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987753

>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=99.90  E-value=2.4e-24  Score=193.19  Aligned_cols=116  Identities=14%  Similarity=0.099  Sum_probs=110.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|.+.++.++.+|+++++++|+++.+++.+++.++.|     .|||++++|++|+|++||+||.+||+|+
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~-----~~p~~v~~lvaG~D~~gp~Ly~idp~G~  118 (222)
T 1ryp_I           44 AGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGS  118 (222)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EecccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhhc-----CCCCCeeEEEEEEeCCCCEEEEECCCCC
Confidence            56999999999999999999999999999999999999999998775     4799999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+.++|.++|.++|
T Consensus       119 ~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al  159 (222)
T 1ryp_I          119 TDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAI  159 (222)
T ss_dssp             EEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             EEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999997763

>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=99.90  E-value=1.3e-24  Score=194.64  Aligned_cols=119  Identities=11%  Similarity=0.111  Sum_probs=112.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhh-hcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLD-VATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~-~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G  310 (352)
                      .+||+.||++.|.+.+|.++..|+. +++++||++.+++.+++.++  ++.++.|||++++|++|+|++||+||.+||+|
T Consensus        52 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly--~~r~~~~P~~v~~lvaG~D~~gp~Ly~id~~G  129 (219)
T 1iru_N           52 GASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMY--SRRSKMNPLWNTMVIGGYADGESFLGYVDMLG  129 (219)
T ss_dssp             EEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHH--HHHHTTCCCCEEEEEEEEETTEEEEEEECSSC
T ss_pred             EeccCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HhcccCCCceEEEEEEEEECCCCEEEEECCCC
Confidence            5699999999999999999999998 99999999999999999985  45567899999999999998899999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcC--CCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKL--RVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~--~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|++  +|+.++|.++++++|
T Consensus       130 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~mt~eea~~l~~~al  173 (219)
T 1iru_N          130 VAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCM  173 (219)
T ss_dssp             CEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHHHHHHHHHH
T ss_pred             CeEECCeEEECccHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999  999999999988763

>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=99.89  E-value=1.1e-24  Score=199.61  Aligned_cols=153  Identities=12%  Similarity=0.070  Sum_probs=126.2

Q ss_pred             ceEEEEEeCCCeEEcChhHHHHHHhhC-ccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcC-CCCCHHHHHH
Q psy2869         192 NIEIGIADENGFRRLDVATVRDHLSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVAT-ENIPTQQLVQ  269 (352)
Q Consensus       192 ~iei~ii~~~g~~~l~~~ei~~~l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~l~~  269 (352)
                      .--|++..++|+-...+.. ..-.++| +.+.++.+     .+||+.+|++.|.+.++.++..|+++++ ++||++.+++
T Consensus        28 tt~vgi~~~dgVVlaaD~r-s~~~~KI~~I~d~i~~-----~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~i~v~~la~  101 (259)
T 1q5q_A           28 RSVVVLTFRDGVLFVAENP-STALHKVSELYDRLGF-----AAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLAN  101 (259)
T ss_dssp             CCEEEEECSSEEEEEECCS-CSSSCSEEEEETTEEE-----EEEECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHH
T ss_pred             CcEEEEEeCCEEEEEEecC-CCCcCcEEEeCCCEEE-----EEccCHHHHHHHHHHHHHHHHHHHHHcCCcCCCHHHHHH
Confidence            5567777777742222211 1122333 23333333     5699999999999999999999999998 4999999999


Q ss_pred             HHHH-HHHHhhhcCCccccceeeEEEEEe----CCCCeEEEECCCCcee-ceeEEEecCCchHHHHHHHHhhcCCCCCcc
Q psy2869         270 RVAA-IMQEYTQSGGVRPFGVSLLICGWD----NKRPYLYQCDPSGAYF-AWKATAMGRNYVNGKTFLEKREKLRVPNFC  343 (352)
Q Consensus       270 ~ls~-~~q~~t~~~~~RP~g~~~ll~G~d----~~gp~ly~~dp~G~~~-~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~  343 (352)
                      .|++ +.|.||  ++.|||+|++||+|||    ++||+||++||+|++. ++++.|+|+|++.|+++||++|+++|+..+
T Consensus       102 ~l~~~l~q~yt--~~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~ee  179 (259)
T 1q5q_A          102 AYAQTLGTIFT--EQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEA  179 (259)
T ss_dssp             HHHHHHHHHHH--HSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHHhc--cCCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCCCEEEECCChHHHHHHHHhhccCCCCHHH
Confidence            9999 788899  4789999999999999    6789999999999999 889999999999999999999999999999


Q ss_pred             ccccccccC
Q psy2869         344 GYHIAESLI  352 (352)
Q Consensus       344 ~~~~~~~~~  352 (352)
                      |.+++.++|
T Consensus       180 a~~la~~al  188 (259)
T 1q5q_A          180 AVGIAVNAL  188 (259)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987763

>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=99.89  E-value=6e-24  Score=189.41  Aligned_cols=117  Identities=17%  Similarity=0.209  Sum_probs=109.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCC-CeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~g-p~ly~~dp~G  310 (352)
                      .+||+.||++.|.+.++.++.+|+.+++++||++.+++.|++.+  |++.  .|||++++|++|||++| |+||.+||+|
T Consensus        53 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~g~p~Ly~id~~G  128 (213)
T 1iru_M           53 GCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTIL--YSRR--FFPYYVYNIIGGLDEEGKGAVYSFDPVG  128 (213)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHH--HHTT--TSCCCEEEEEEEECTTSCEEEEEECTTS
T ss_pred             EccccHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HhhC--CCCceEEEEEEEEcCCCCEEEEEECCCC
Confidence            56999999999999999999999999999999999999999998  5554  69999999999999765 9999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHh---------hcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKR---------EKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~---------~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.         |+++|+.++|.+++.++|
T Consensus       129 ~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~~~~~~s~eea~~l~~~al  179 (213)
T 1iru_M          129 SYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVF  179 (213)
T ss_dssp             CEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCCHHHHHHHHHHHH
T ss_pred             CEEECCEEEEeeCHHHHHHHHhhccccccccccCCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999         778899999999987653

>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=99.89  E-value=9.7e-24  Score=193.20  Aligned_cols=116  Identities=14%  Similarity=0.099  Sum_probs=109.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|.+.++.++.+|+++++++++++.+++.+++.++.|     .|||++++||+|||++||+||++||+|+
T Consensus        73 ~~aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~-----~~~~gv~llvaG~D~~Gp~Ly~iDp~G~  147 (261)
T 3nzj_H           73 AGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGS  147 (261)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EeccCHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHHh-----cCcccEEEEEEEEeCCCCEEEEECCCcc
Confidence            55999999999999999999999999999999999999999988654     4799999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+.++|.+++.++|
T Consensus       148 ~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEA~~la~~al  188 (261)
T 3nzj_H          148 TDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAI  188 (261)
T ss_dssp             EEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             EEecCeEEeccchHHHHHHHHHHhccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998764

>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=99.89  E-value=8.7e-24  Score=196.53  Aligned_cols=120  Identities=13%  Similarity=0.105  Sum_probs=114.2

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-C-----CeEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-R-----PYLYQ  305 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-g-----p~ly~  305 (352)
                      .+||+.+|++.|++.++.++.+|+++++++|+++.+++.|++++|.+++++ .|||+|++||+|||++ |     |+||+
T Consensus       109 ~~aG~~aD~~~l~~~~r~~~~~y~~~~g~~isv~~la~~la~~l~~~~~~~-~rp~~v~lLvaG~D~~~g~~~~~p~Ly~  187 (294)
T 1q5r_H          109 GIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVS  187 (294)
T ss_dssp             EEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHH-TTTTCEEEEEEEECTTCSCTTSCEEEEE
T ss_pred             EEeecHHHHHHHHHHHHHHHHHhhHhhCCCCCHHHHHHHHHHHHHHHHhhh-cCCcceEEEEEEEeCCCCcCCCCCEEEE
Confidence            569999999999999999999999999999999999999999999999875 8999999999999975 6     99999


Q ss_pred             ECCCCceece--eEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         306 CDPSGAYFAW--KATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       306 ~dp~G~~~~~--~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +||+|++.++  ++.|+|+|++.|+++||+.|+++|+.++|.+++.++|
T Consensus       188 iDp~G~~~e~~~~~~AiGsgs~~a~~~Le~~y~~~ms~eEAi~la~~aL  236 (294)
T 1q5r_H          188 YDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESL  236 (294)
T ss_dssp             ECSSSCEEECCSSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             ECCCCeEEecCCCeEEEecCcHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            9999999999  9999999999999999999999999999999987653

>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=1.4e-23  Score=189.54  Aligned_cols=116  Identities=14%  Similarity=0.128  Sum_probs=110.4

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|.+.++.++.+|+++++++++++.+++.+++.+|.|+     +||++++|++|||++||+||.+||+|+
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-----~~~~v~llvaG~D~~gp~Ly~idp~G~  118 (234)
T 1iru_I           44 CGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYR-----GYIGAALVLGGVDVTGPHLYSIYPHGS  118 (234)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTT-----TCSCEEEEEEEECSSCEEEEEECTTSC
T ss_pred             EecCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC-----CCCceeEEEEEEcCCCCEEEEECCCCC
Confidence            569999999999999999999999999999999999999999998763     599999999999998999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+.++|.++|.++|
T Consensus       119 ~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al  159 (234)
T 1iru_I          119 TDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAI  159 (234)
T ss_dssp             EEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHH
T ss_pred             EEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998763

>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=99.89  E-value=1e-23  Score=195.45  Aligned_cols=117  Identities=13%  Similarity=0.162  Sum_probs=112.3

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEe-CCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d-~~gp~ly~~dp~G  310 (352)
                      .+||+.||++.|.+.++.++++|+++++++|+++.+++.+++++|.+|++    ||++++||+||| ++||+||++||+|
T Consensus       119 ~~aG~~AD~~~l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~~----p~~v~~lvaG~D~~~gp~Ly~iDp~G  194 (287)
T 3nzj_K          119 TMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGA----GLSMGTMICGYTRKEGPTIYYVDSDG  194 (287)
T ss_dssp             ECEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTS----CCCEEEEEEEEETTTEEEEEEEETTC
T ss_pred             EecCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcCC----CceEEEEEEEEcCCCCCEEEEECCCc
Confidence            56999999999999999999999999999999999999999999999985    999999999999 5689999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+++|+.++|.++|+++|
T Consensus       195 ~~~~~~~~AiGsgs~~a~~~Le~~y~~dms~eEAi~la~~aL  236 (287)
T 3nzj_K          195 TRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSI  236 (287)
T ss_dssp             CEEECSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHH
T ss_pred             eEEEcCeEEEecchHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999998764

>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=99.88  E-value=5.9e-24  Score=192.06  Aligned_cols=119  Identities=13%  Similarity=0.170  Sum_probs=111.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhh-----hcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLD-----VATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQ  305 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~-----~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~  305 (352)
                      .+||+.||++.|.+.++.++..|+.     +++++||++.+++.+++.+  |++.++.|||++++|++|+|++ ||+||.
T Consensus        52 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~~gp~Ly~  129 (233)
T 1ryp_N           52 GISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRY  129 (233)
T ss_dssp             EEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEE
T ss_pred             EccccHHHHHHHHHHHHHHHHHHhhccchhhcCCCCCHHHHHHHHHHHH--HHhcCCCCCceEEEEEEEEcCCCCEEEEE
Confidence            5699999999999999999999999     9999999999999999998  4455678999999999999975 899999


Q ss_pred             ECCCCceeceeEEEecCCchHHHHHHHHhhcC-----CCCCccccccccccC
Q psy2869         306 CDPSGAYFAWKATAMGRNYVNGKTFLEKREKL-----RVPNFCGYHIAESLI  352 (352)
Q Consensus       306 ~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~-----~~~~~~~~~~~~~~~  352 (352)
                      +||+|++.++++.|+|+|++.|+++||+.|++     +|+.++|.++++++|
T Consensus       130 id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~ms~eea~~la~~al  181 (233)
T 1ryp_N          130 VNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAM  181 (233)
T ss_dssp             EETTCCEECCSEEECTHHHHHHHHHHTTTCSSGGGGGGCCHHHHHHHHHHHH
T ss_pred             ECCCcCeEEcCEEEECcCHHHHHHHHHHhhccccccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999     999999999987753

>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=99.88  E-value=1.8e-23  Score=185.09  Aligned_cols=117  Identities=15%  Similarity=0.099  Sum_probs=108.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC--CCCeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~--~gp~ly~~dp~  309 (352)
                      .+||+.+|++.|.+.++.++.+|+++++++||++.+++.+++.+  |++.++  ||++++|++|||+  +||+||.+||+
T Consensus        51 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~--y~~~~~--P~~v~~lvaG~D~~~~gp~Ly~idp~  126 (204)
T 1ryp_J           51 GITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSL--YERRFG--PYFVGPVVAGINSKSGKPFIAGFDLI  126 (204)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHH--HTTTTS--CCCEEEEEEEECTTTCCEEEEEECTT
T ss_pred             EeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHH--HHhcCC--CceEEEEEEEEeCCCCceEEEEECCC
Confidence            67999999999999999999999999999999999999999999  776644  9999999999996  68999999999


Q ss_pred             CceeceeE-EEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         310 GAYFAWKA-TAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       310 G~~~~~~~-~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |++.+++. .|+|+|++.|+++||+.|+++|+.++|.+++.+++
T Consensus       127 G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al  170 (204)
T 1ryp_J          127 GCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQAL  170 (204)
T ss_dssp             CCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             CCccccCceeEeccCHHHHHHHHhhhcCCCcCHHHHHHHHHHHH
Confidence            99977755 99999999999999999999999999999987753

>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=99.88  E-value=1.7e-23  Score=185.49  Aligned_cols=115  Identities=9%  Similarity=0.053  Sum_probs=109.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .+||+.+|++.|.+.++.++.+|+.++++ +|++.+++.+++++|.||+.     |++++|++|||+ +||+||.+||+|
T Consensus        53 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~-~~v~~la~~l~~~~~~~~~~-----~~~~~lvaG~D~~~gp~Ly~id~~G  126 (205)
T 1ryp_H           53 CRSGSAADTQAIADIVQYHLELYTSQYGT-PSTETAASVFKELCYENKDN-----LTAGIIVAGYDDKNKGEVYTIPLGG  126 (205)
T ss_dssp             EEEEBHHHHHHHHHHHHHHHHHHHHHHSS-CCHHHHHHHHHHHHHHTTTT-----CCEEEEEEEEETTTEEEEEEECTTS
T ss_pred             EccCCHHHHHHHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhhcC-----ceEEEEEEEEecCCCcEEEEECCCc
Confidence            56999999999999999999999999999 99999999999999999874     999999999997 689999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+++|+.++|.+++.+++
T Consensus       127 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~~~al  168 (205)
T 1ryp_H          127 SVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSL  168 (205)
T ss_dssp             CCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             cEEecCEEEEEecHHHHHHHHHhccCCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987753

>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=99.88  E-value=2.8e-23  Score=184.05  Aligned_cols=117  Identities=15%  Similarity=0.078  Sum_probs=108.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC--CCCeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~--~gp~ly~~dp~  309 (352)
                      .+||+.||++.|.+.++.++.+|+++++++||++.+++.+++.+  |++.+  .||++++|++|||+  +||+||.+||+
T Consensus        52 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~--y~~r~--~P~~v~~lvaG~D~~~~~p~Ly~idp~  127 (205)
T 1iru_J           52 GLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLL--YEKRF--GPYYTEPVIAGLDPKTFKPFICSLDLI  127 (205)
T ss_dssp             ECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHH--HTTTT--SCCSCCCEEEEECTTSCCEEEEEECTT
T ss_pred             EccccHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHH--HHhcC--CCceEEEEEEEEeCCCCCeEEEEECCC
Confidence            56999999999999999999999999999999999999999999  66653  39999999999995  68999999999


Q ss_pred             CceeceeE-EEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         310 GAYFAWKA-TAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       310 G~~~~~~~-~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |++.++++ .|+|+|++.|+++||+.|+++|+.++|.+++.++|
T Consensus       128 G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al  171 (205)
T 1iru_J          128 GCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAM  171 (205)
T ss_dssp             CCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             CCccccCCeeEeeeCHHHHHHHHhcccCCCCCHHHHHHHHHHHH
Confidence            99977755 99999999999999999999999999999987753

>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=99.88  E-value=3.6e-23  Score=182.77  Aligned_cols=119  Identities=13%  Similarity=0.073  Sum_probs=107.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .+||+.||++.|.+.++.++.+|++++++++|++.+++.+++.+..+ . ...|||++++|++|||+ +||+||.+||+|
T Consensus        45 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~~~~~l~~~-~-~~~~p~~~~~lvaG~D~~~gp~Ly~id~~G  122 (201)
T 1iru_K           45 LCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADC-L-RSRTPYHVNLLLAGYDEHEGPALYYMDYLA  122 (201)
T ss_dssp             EEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHH-H-TSSSCCCEEEEEEEEETTTEEEEEEECTTC
T ss_pred             EeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH-H-hcCCCccEEEEEEEEeCCCCeEEEEECCCc
Confidence            55999999999999999999999999999999999999888765211 1 23479999999999997 689999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+++|+.++|.+++.+++
T Consensus       123 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~~~al  164 (201)
T 1iru_K          123 ALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCL  164 (201)
T ss_dssp             CEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             CeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987753

>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=99.88  E-value=5.7e-23  Score=184.25  Aligned_cols=117  Identities=13%  Similarity=0.112  Sum_probs=107.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcC-CCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCC-CeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVAT-ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~g-p~ly~~dp~  309 (352)
                      .+||+.||++.|.+.++.++.+|+++++ ++||++.+|+.+++.++.  +.  .|||++++|++|||++| |+||.+||+
T Consensus        53 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~--~r--~~P~~v~~ivaG~D~~g~p~Ly~~dp~  128 (222)
T 1ryp_M           53 SANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYG--KR--FFPYYVHTIIAGLDEDGKGAVYSFDPV  128 (222)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHT--TT--TSCCCEEEEEEEECTTSCEEEEEECTT
T ss_pred             EccccHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHh--cC--CCCceEEEEEEEEcCCCCeEEEEECCC
Confidence            5699999999999999999999999999 999999999999999843  22  56999999999999765 999999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHh-----------------hcCCCCCccccccccccC
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKR-----------------EKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~-----------------~~~~~~~~~~~~~~~~~~  352 (352)
                      |++.++++.|+|+|++.|+++||+.                 |+++|+.++|.+++.+++
T Consensus       129 G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~~s~eeA~~la~~al  188 (222)
T 1ryp_M          129 GSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSF  188 (222)
T ss_dssp             SCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHH
T ss_pred             cCEEecCEEEEcCcHHHHHHHHhcccccccccccccccccccCCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999998                 778899999999987653

>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=99.88  E-value=3.4e-23  Score=192.39  Aligned_cols=156  Identities=12%  Similarity=0.083  Sum_probs=127.8

Q ss_pred             CceEEEEEeCCCeEEcChhHHHH-------HHhhC-ccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCC
Q psy2869         191 ENIEIGIADENGFRRLDVATVRD-------HLSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENI  262 (352)
Q Consensus       191 ~~iei~ii~~~g~~~l~~~ei~~-------~l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~  262 (352)
                      +.--|++..++|+-.-.+..+..       -.+|| +.+.++.+     .+||+.||++.|++.++.++.+|++.++++|
T Consensus        57 GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~-----~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i  131 (291)
T 2jay_A           57 GTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTAT-----GIAGTAAVAVEFARLYAVELEHYEKLEGVPL  131 (291)
T ss_dssp             -CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEE-----EEESCHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEE-----EEcccHHHHHHHHHHHHHHHHHhhhhcCCCC
Confidence            45567777777742222222110       12233 23333333     6799999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-C-----CeEEEECCCCcee--ceeEEEecCCchHHHHHHHHh
Q psy2869         263 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-R-----PYLYQCDPSGAYF--AWKATAMGRNYVNGKTFLEKR  334 (352)
Q Consensus       263 ~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-g-----p~ly~~dp~G~~~--~~~~~a~G~~s~~a~~~Le~~  334 (352)
                      +++.+++.+++++|.+++ .+.|||+|++||+|||++ +     |+||++||+|++.  ++++.|+|+|++.|+++||+.
T Consensus       132 ~v~~la~~la~~l~~~~~-~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~  210 (291)
T 2jay_A          132 TFAGKINRLAIMVRGNLA-AAMQGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKL  210 (291)
T ss_dssp             CHHHHHHHHHHHHHTCHH-HHHHTCCCEEEEEEECTTCSCSTTCEEEEEECTTSCEEECSSSEEEESTTHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhhh-hhccccceeEEEEEEeCCCCcCCCCCEEEEECCCCcEEecCCCEEEEecCHHHHHHHHHHh
Confidence            999999999999999987 468999999999999975 4     8999999999999  899999999999999999999


Q ss_pred             hcCCCCCccccccccccC
Q psy2869         335 EKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~  352 (352)
                      |+++|+..+|.++|.++|
T Consensus       211 ~~~~ms~eEAi~la~~aL  228 (291)
T 2jay_A          211 YSQVTDGDSGLRVAVEAL  228 (291)
T ss_dssp             GGGCCSHHHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHH
Confidence            999999999999987763

>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=99.87  E-value=2.8e-23  Score=191.09  Aligned_cols=119  Identities=13%  Similarity=0.170  Sum_probs=111.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhh-----hcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLD-----VATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQ  305 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~-----~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~  305 (352)
                      .+||+.+|++.|++.+|.++..|+.     +++++|+++.+++.+++++  |++.++.|||++++||+|+|++ ||+||.
T Consensus        85 ~~aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~~gp~Ly~  162 (266)
T 1g0u_M           85 GISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRY  162 (266)
T ss_dssp             EEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEE
T ss_pred             EeccCHHHHHHHHHHHHHHHHHhhhccchhhcCCCCCHHHHHHHHHHHH--HHhccCCCCceEEEEEEEEcCCCCEEEEE
Confidence            5699999999999999999999998     9999999999999999998  4555678999999999999975 899999


Q ss_pred             ECCCCceeceeEEEecCCchHHHHHHHHhhcC-----CCCCccccccccccC
Q psy2869         306 CDPSGAYFAWKATAMGRNYVNGKTFLEKREKL-----RVPNFCGYHIAESLI  352 (352)
Q Consensus       306 ~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~-----~~~~~~~~~~~~~~~  352 (352)
                      +||+|++.++++.|+|+|++.|+++||+.|++     +|+.++|.++++++|
T Consensus       163 idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~ms~eeA~~la~~al  214 (266)
T 1g0u_M          163 VNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAM  214 (266)
T ss_dssp             EETTCCEECCSEEECTHHHHTHHHHHTTTCSSGGGGGGCCHHHHHHHHHHHH
T ss_pred             ECCCCCEEeCCEEEEccCHHHHHHHHHHhhcccccCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999     999999999988763

>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=99.85  E-value=3.2e-22  Score=176.33  Aligned_cols=114  Identities=13%  Similarity=0.103  Sum_probs=106.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .+||+.+|++.|.+.++.++.+|+++++++||++.+++++++.+|.+     .|||++++|++|+|+ +||+||.  |+|
T Consensus        44 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~-----~~p~~v~~lvaG~D~~~~p~ly~--p~G  116 (199)
T 3unf_N           44 ALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKY-----REDLLAHLIVAGWDQREGGQVYG--TMG  116 (199)
T ss_dssp             EECSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHT-----TTTCCCCEEEEEEETTTEEEEEE--CGG
T ss_pred             EecccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhc-----CCCceEEEEEEEEeCCCCcEEEE--ECC
Confidence            56999999999999999999999999999999999999999999865     469999999999997 5799999  999


Q ss_pred             ceeceeEEEe-cCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAM-GRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~-G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.+++++++ |+|++.|+++||+.|+++|+.++|.+++.++|
T Consensus       117 ~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~la~~al  159 (199)
T 3unf_N          117 GMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAI  159 (199)
T ss_dssp             GCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             CceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Confidence            9988887774 99999999999999999999999999988763

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

Probab=99.76  E-value=5.9e-19  Score=151.73  Aligned_cols=104  Identities=13%  Similarity=0.157  Sum_probs=91.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.||++.|.+.++.++.+|+.+         +.+.++++.|.++++.+.|||++++|++  |  ||+||.+||+|+
T Consensus        45 ~~aG~~aD~~~l~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~~~~~~lv~--D--~p~Ly~~d~~G~  111 (171)
T 1m4y_A           45 GFAGSVADAMTLFDRFEAKLREWGGN---------LTKAAVELAKDWRTDRVLRRLEALLLVA--D--KENIFIISGNGE  111 (171)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHHTTTC---------HHHHHHHHHHHHHHCTTGGGCCCEEEEE--C--SSCEEEECTTSC
T ss_pred             EeCccHHHHHHHHHHHHHHHHHhccc---------HHHHHHHHHHHHHHhCCCCceEEEEEEE--c--CCEEEEECCCCC
Confidence            66999999999999999999999854         3666677777888888889999998888  6  899999999999


Q ss_pred             eecee--EEEecCCchHHHHHHHHhhc-CCCCCcccccccccc
Q psy2869         312 YFAWK--ATAMGRNYVNGKTFLEKREK-LRVPNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~--~~a~G~~s~~a~~~Le~~~~-~~~~~~~~~~~~~~~  351 (352)
                      +.+++  +.|+|+|++.|+++||+.|+ ++|+.   .++++++
T Consensus       112 ~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---~~l~~~a  151 (171)
T 1m4y_A          112 VIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---REIVEKA  151 (171)
T ss_dssp             EECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---HHHHHHH
T ss_pred             EEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---HHHHHHH
Confidence            99998  99999999999999999999 88874   5566544

>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=99.74  E-value=1.2e-18  Score=151.04  Aligned_cols=99  Identities=12%  Similarity=0.077  Sum_probs=88.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      ++||+.||++.|.++++.++++|+   +      .+.+.++++.|.++++.+.|||++++|++  |  +|+||.+||+|+
T Consensus        51 ~~aG~~aD~~~l~~~~~~~~~~y~---g------~~~~~~~~l~~~~~~~~~~rp~~~~~lva--d--~p~ly~~d~~G~  117 (180)
T 2z3b_A           51 GFAGSVADAFTLFEKFEAKLEEYN---G------NLKRAAVELAKEWRSDKVLRKLEAMLIVM--N--QDTLLLVSGTGE  117 (180)
T ss_dssp             EECSCHHHHHHHHHHHHHHHHHTT---T------CHHHHHHHHHHHHHHCTTGGGCCCCEEEE--C--SSCEEEECTTCC
T ss_pred             EeCchHHHHHHHHHHHHHHHHHhc---C------ChHHHHHHHHHHHHhhhCcCcceEEEEEE--c--CCeEEEECCCCc
Confidence            569999999999999999999998   3      34556667788889999999999999999  4  799999999999


Q ss_pred             eece--eEEEecCCchHHHHHHHHhhcC---CCCCcc
Q psy2869         312 YFAW--KATAMGRNYVNGKTFLEKREKL---RVPNFC  343 (352)
Q Consensus       312 ~~~~--~~~a~G~~s~~a~~~Le~~~~~---~~~~~~  343 (352)
                      +.++  ++.|+|+|++.|+++||+.|++   +|+.++
T Consensus       118 ~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~mt~ee  154 (180)
T 2z3b_A          118 VIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASE  154 (180)
T ss_dssp             EECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCCHHH
T ss_pred             EEEeCCCEEEECCCHHHHHHHHHHhhhccCCCCCHHH
Confidence            9984  9999999999999999999998   888776

>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=99.73  E-value=2.1e-18  Score=148.67  Aligned_cols=104  Identities=11%  Similarity=0.080  Sum_probs=90.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      ++||+.||++.|.+.++.++++|+.         .+.+.++.+.|.++++.+.||++  .+++|+|  +|+||++||+|+
T Consensus        45 ~~aG~~aD~~~l~~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~r~~~--~~l~g~d--~p~Ly~~d~~G~  111 (174)
T 1g3k_A           45 GFAGGTADAFTLFELFERKLEMHQG---------HLLKSAVELAKDWRTDRALRKLE--AMLIVAD--EKESLIITGIGD  111 (174)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHHTTT---------CHHHHHHHHHHHHHHSTTGGGCC--CEEEEEC--SSCEEEEETTTE
T ss_pred             EeCccHHHHHHHHHHHHHHHHHhcC---------cHHHHHHHHHHHHHhccCcCcce--EEEEEEC--CCEEEEEcCCCc
Confidence            5699999999999999999999995         24666777788889988888864  6777887  799999999999


Q ss_pred             eecee---EEEecCCchHHHHHHHHhhc-CCCCCcccccccccc
Q psy2869         312 YFAWK---ATAMGRNYVNGKTFLEKREK-LRVPNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~---~~a~G~~s~~a~~~Le~~~~-~~~~~~~~~~~~~~~  351 (352)
                      +.+++   +.|+|+|++.|+++||+.|+ ++|+   +.++++++
T Consensus       112 ~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt---~~~l~~~a  152 (174)
T 1g3k_A          112 VVQPEEDQILAIGSGGNYALSAARALVENTELS---AHEIVEKS  152 (174)
T ss_dssp             EECCCTTCEEEESTTHHHHHHHHHHHHHHCCCC---HHHHHHHH
T ss_pred             EEecCCCcEEEEcccHHHHHHHHHHhcccCCCC---HHHHHHHH
Confidence            99998   99999999999999999999 8876   33666654

---

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	352
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	3e-60
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	3e-15
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-60
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-15
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	4e-59
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	2e-15
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	5e-59
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	7e-18
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-58
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	2e-17
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-58
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-15
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	4e-58
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	3e-15
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	5e-58
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	6e-14
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	5e-58
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	1e-14
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-57
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	4e-14
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	3e-57
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	3e-10
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-56
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	5e-09
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	9e-55
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	2e-09
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-54
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-12
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-53
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	6e-12
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-53
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	4e-14
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	8e-51
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	9e-10
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	4e-33
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	6e-06
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	7e-33
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	3e-05
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-32
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	5e-09
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	6e-31
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	1e-04
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-30
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-04
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	8e-30
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-05
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-29
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	7e-06
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	4e-29
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	7e-05
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	7e-28
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	8e-05
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	6e-27
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	2e-04
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-26
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-04
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	4e-26
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-04
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-25
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-24
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-22
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-22
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-18
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	4e-04

>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 =  191 bits (487), Expect = 3e-60
 Identities = 67/225 (29%), Positives = 117/225 (52%), Gaps = 7/225 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG-----VRP 114
             SG+  D + L+ KAR   Q +   Y E +  + + Q V+ +  ++ +         RP
Sbjct: 70  AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRP 129

Query: 115 FGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH 174
           FGV+LL  G D K P L+  DPSG +    A A+G      ++ L++ Y + + L +A+ 
Sbjct: 130 FGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIK 189

Query: 175 TAILTLKEGFEGQMTAENIEIGIADEN-GFRRLDVATVRDHLSNI 218
           ++++ LK+  E ++ A NIE+        F       + + + +I
Sbjct: 190 SSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 234

>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 = 72.0 bits (176), Expect = 3e-15
 Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 5/82 (6%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGG-----VRPFGVSLLICGWDNKRPYLYQCDPSGAYFA 314
           E +  + + Q V+ +  ++ +         RPFGV+LL  G D K P L+  DPSG +  
Sbjct: 98  ETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQ 157

Query: 315 WKATAMGRNYVNGKTFLEKREK 336
             A A+G      ++ L++   
Sbjct: 158 CDARAIGSASEGAQSSLQELYH 179

>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 =  191 bits (487), Expect = 3e-60
 Identities = 76/225 (33%), Positives = 113/225 (50%), Gaps = 7/225 (3%)

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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
            V +GM  D R  V++AR  A  +K  Y   IP   L +R+A I Q YTQ+  +RP G  
Sbjct: 77  CVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCC 136

Query: 119 LLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSED--LELDDAVHT 175
           +++ G D  + P +Y+CDP+G Y  +KATA G       +FLEK+  +      +  V T
Sbjct: 137 MILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVET 196

Query: 176 AILTLKEGFEGQMTAENIEIGI--ADENGFRRLDVATVRDHLSNI 218
           AI  L            IE+G+   +   FR L  A +  HL  +
Sbjct: 197 AITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVAL 241

>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 = 72.7 bits (178), Expect = 2e-15
 Identities = 32/78 (41%), Positives = 46/78 (58%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKAT 318
             IP   L +R+A I Q YTQ+  +RP G  +++ G D  + P +Y+CDP+G Y  +KAT
Sbjct: 106 YEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKAT 165

Query: 319 AMGRNYVNGKTFLEKREK 336
           A G       +FLEK+ K
Sbjct: 166 AAGVKQTESTSFLEKKVK 183

>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 =  188 bits (478), Expect = 4e-59
 Identities = 90/217 (41%), Positives = 127/217 (58%), Gaps = 2/217 (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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           V SG+  D R+LV  AR  AQQ K+ Y   +  + LV+RVA  MQ+YTQ GGVRP+GVSL
Sbjct: 65  VTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSL 124

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           +  G D   P L+ CDP+G    +KATA+G       +FLE+ Y E+L   +AV   I  
Sbjct: 125 IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKA 184

Query: 180 LKEGFEGQMTAENIEIG-IADENGFRRLDVATVRDHL 215
           LK   E     +  EI  I   N +R  D   V+  L
Sbjct: 185 LKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 221

>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 = 72.0 bits (176), Expect = 2e-15
 Identities = 36/77 (46%), Positives = 48/77 (62%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             +  + LV+RVA  MQ+YTQ GGVRP+GVSL+  G D   P L+ CDP+G    +KATA
Sbjct: 93  SLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATA 152

Query: 320 MGRNYVNGKTFLEKREK 336
           +G       +FLE+  K
Sbjct: 153 IGSGKDAVVSFLEREYK 169

>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 =  188 bits (478), Expect = 5e-59
 Identities = 70/225 (31%), Positives = 120/225 (53%), Gaps = 6/225 (2%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMV 60
           P G++ QIEYA+ AV+ G+ +VG+K+    VL   K+ ++ L      K+  + ++IG+ 
Sbjct: 12  PQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAH-QKKILHVDNHIGIS 70

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+  D RLL    R+     + V+   +P  +LV  + +  Q  TQ  G RP+GV LL
Sbjct: 71  IAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLL 130

Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELD--DAVHTAIL 178
           I G+D+  P+++Q  PS  YF  +A ++G    + +T+LE+  SE +E +  + V   + 
Sbjct: 131 IAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLR 190

Query: 179 TLKE--GFEGQMTAENIEIGIADEN-GFRRLDVATVRDHLSNIPQ 220
            L+E    E  +T +N+ IGI  ++  F   D   V   L  + +
Sbjct: 191 ALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEE 235

>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 = 79.3 bits (195), Expect = 7e-18
 Identities = 27/77 (35%), Positives = 44/77 (57%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             +P  +LV  + +  Q  TQ  G RP+GV LLI G+D+  P+++Q  PS  YF  +A +
Sbjct: 98  RPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMS 157

Query: 320 MGRNYVNGKTFLEKREK 336
           +G    + +T+LE+   
Sbjct: 158 IGARSQSARTYLERHMS 174

>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 =  187 bits (477), Expect = 1e-58
 Identities = 73/214 (34%), Positives = 108/214 (50%), Gaps = 8/214 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSG+ PD R LV + R+ A  +K +Y+  IP      R+   +Q +T    VRPFGVS 
Sbjct: 73  VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVST 132

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEK---RYSEDLELDDAVHTA 176
           +  G D    +LY  +PSG+Y+ +K  A G+   + K  LEK    + E L   +AV  A
Sbjct: 133 IFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQA 192

Query: 177 ILTLKEGFEGQM-TAENIEIGIA---DENGFRRL 206
              +    E        +EI      + NG  + 
Sbjct: 193 AKIIYLAHEDNKEKDFELEISWCSLSETNGLHKF 226

>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 = 78.1 bits (192), Expect = 2e-17
 Identities = 27/77 (35%), Positives = 38/77 (49%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             IP      R+   +Q +T    VRPFGVS +  G D    +LY  +PSG+Y+ +K  A
Sbjct: 101 TPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAA 160

Query: 320 MGRNYVNGKTFLEKREK 336
            G+   + K  LEK   
Sbjct: 161 TGKGRQSAKAELEKLVD 177

>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 =  187 bits (477), Expect = 1e-58
 Identities = 62/220 (28%), Positives = 105/220 (47%), Gaps = 5/220 (2%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             +G+  D R L   AR+ A  ++  +  NIP + L  RVA  +  YT    VRPFG S 
Sbjct: 76  AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSF 135

Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
           ++  +  N    LY  DPSG  + +   A+G+     KT +EK   +++   D V     
Sbjct: 136 MLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAK 195

Query: 179 TLKEGF-EGQMTAENIEIGI--ADENGFRRLDVATVRDHL 215
            +     E +  A  +E+       NG   +    +R+  
Sbjct: 196 IIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEA 235

>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 = 73.1 bits (179), Expect = 1e-15
 Identities = 28/78 (35%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKAT 318
            NIP + L  RVA  +  YT    VRPFG S ++  +  N    LY  DPSG  + +   
Sbjct: 104 YNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGC 163

Query: 319 AMGRNYVNGKTFLEKREK 336
           A+G+     KT +EK + 
Sbjct: 164 AIGKARQAAKTEIEKLQM 181

>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 =  186 bits (473), Expect = 4e-58
 Identities = 124/237 (52%), Positives = 156/237 (65%), Gaps = 19/237 (8%)

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-QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           VYSGMGPDYR+LV K+RK+A   YK +Y E  PT+ LV  VA IMQE TQSGGVRPFGVS
Sbjct: 74  VYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVS 133

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
           LLI G D      LYQ DPSG+YF WKATA+G+  V  KTFLEKR++++LEL+DA+H A+
Sbjct: 134 LLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIAL 193

Query: 178 LTLKEGFEGQMTAENIEIGIADENG----------------FRRLDVATVRDHLSNI 218
           LTLKE  EG+   + IE+ I  +                  FR+L    + D L  +
Sbjct: 194 LTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQEINDRLEAL 250

>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 = 72.1 bits (176), Expect = 3e-15
 Identities = 51/78 (65%), Positives = 55/78 (70%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E  PT+ LV  VA IMQE TQSGGVRPFGVSLLI G D      LYQ DPSG+YF WKAT
Sbjct: 103 EYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKAT 162

Query: 319 AMGRNYVNGKTFLEKREK 336
           A+G+  V  KTFLEKR  
Sbjct: 163 AIGKGSVAAKTFLEKRWN 180

>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 =  186 bits (472), Expect = 5e-58
 Identities = 63/228 (27%), Positives = 108/228 (47%), Gaps = 10/228 (4%)

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

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           MV +G  PD R    +A+  A +++  Y  ++P   L +R+A + Q YTQ   +RP GV 
Sbjct: 72  MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVI 131

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDL-------ELD 170
           L     D +  P +Y+ DP+G Y  +KATA G       T LE  + +           +
Sbjct: 132 LTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWE 191

Query: 171 DAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
             V  AI  + +    + +  ++E+G+A ++ F  L    + + L  I
Sbjct: 192 KVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLVAI 239

>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 = 68.2 bits (166), Expect = 6e-14
 Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
            ++P   L +R+A + Q YTQ   +RP GV L     D +  P +Y+ DP+G Y  +KAT
Sbjct: 101 YDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKAT 160

Query: 319 AMGRNYVNGKTFLEKREK 336
           A G       T LE   K
Sbjct: 161 ATGPKQQEITTNLENHFK 178

>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 =  185 bits (471), Expect = 5e-58
 Identities = 60/221 (27%), Positives = 106/221 (47%), Gaps = 7/221 (3%)

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

Query: 61  YSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 120
            +G+ PD R+L    R+      LV+   +  ++    +    Q+ TQS G RP+GV LL
Sbjct: 73  LAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLL 132

Query: 121 ICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE----DLELDDAVHTA 176
           I G+D    +L +  PSG       TA+G      KT+LE+        D   D+ +   
Sbjct: 133 IIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 192

Query: 177 ILTLKEGF-EGQMTAENIEIGIAD-ENGFRRLDVATVRDHL 215
           +  + +   +  +T +N+ I I   +  F   D   V  ++
Sbjct: 193 VEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>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 = 70.1 bits (171), Expect = 1e-14
 Identities = 25/92 (27%), Positives = 38/92 (41%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             +  ++    +    Q+ TQS G RP+GV LLI G+D    +L +  PSG       TA
Sbjct: 100 RKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTA 159

Query: 320 MGRNYVNGKTFLEKREKLRVPNFCGYHIAESL 351
           +G      KT+LE+     +            
Sbjct: 160 IGARSQGAKTYLERTLDTFIKIDGNPDELIKA 191

>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 =  184 bits (469), Expect = 1e-57
 Identities = 82/228 (35%), Positives = 127/228 (55%), Gaps = 10/228 (4%)

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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           + +SG+  D R+L++KAR  AQ ++L  ++ +  + L + VA + Q YTQSGGVRPFGVS
Sbjct: 71  LSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVS 130

Query: 119 LLICGWDNKR--PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE---DLELDDAV 173
            LI G+D +   P LYQ +PSG Y +W A  +GRN    + FLEK Y        +++ V
Sbjct: 131 TLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECV 190

Query: 174 HTAILTLKEGFEGQMTAENIEIGIAD-ENGFRRLDVATVRDHLSNIPQ 220
              + +L E  +    A+NIEI +   ++    L    +  +++ I Q
Sbjct: 191 KLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQ 236

>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 = 68.9 bits (168), Expect = 4e-14
 Identities = 38/77 (49%), Positives = 49/77 (63%), Gaps = 2/77 (2%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR--PYLYQCDPSGAYFAWKA 317
           + +  + L + VA + Q YTQSGGVRPFGVS LI G+D +   P LYQ +PSG Y +W A
Sbjct: 100 DPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSA 159

Query: 318 TAMGRNYVNGKTFLEKR 334
             +GRN    + FLEK 
Sbjct: 160 QTIGRNSKTVREFLEKN 176

>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 =  183 bits (466), Expect = 3e-57
 Identities = 172/219 (78%), Positives = 198/219 (90%), Gaps = 1/219 (0%)

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

Query: 60  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
           VYSGMGPDYR+LV +ARK+AQQY LVYQE IPT QLVQRVA++MQEYTQSGGVRPFGVSL
Sbjct: 74  VYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSL 133

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LICGW+  RPYL+Q DPSGAYFAWKATAMG+NYVNGKTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 134 LICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT 193

Query: 180 LKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI 218
           LKE FEGQMT +NIE+GI +E GFRRL    V+D+L+ I
Sbjct: 194 LKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI 232

>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 = 57.4 bits (138), Expect = 3e-10
 Identities = 65/77 (84%), Positives = 70/77 (90%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
           E IPT QLVQRVA++MQEYTQSGGVRPFGVSLLICGW+  RPYL+Q DPSGAYFAWKATA
Sbjct: 102 EPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATA 161

Query: 320 MGRNYVNGKTFLEKREK 336
           MG+NYVNGKTFLEKR  
Sbjct: 162 MGKNYVNGKTFLEKRYN 178

>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 =  182 bits (463), Expect = 1e-56
 Identities = 85/221 (38%), Positives = 129/221 (58%), Gaps = 4/221 (1%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
             SG+  D R+L+ +AR  AQ  +L Y   I  ++L +++    Q+YTQ GGVRPFGVSL
Sbjct: 74  ATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSL 133

Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
           LI G  N+ P LY+ DPSGA   +KATA+G   +    F EK Y +DL  DDA+   ++ 
Sbjct: 134 LIAGV-NEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVA 192

Query: 180 LKEGFEGQMTAENIEIGI--ADENGFRRLDVATVRDHLSNI 218
           +    E ++  ENIE+G    D+  F+ +    ++ ++   
Sbjct: 193 MGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERA 233

>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 = 53.9 bits (129), Expect = 5e-09
 Identities = 36/75 (48%), Positives = 47/75 (62%), Gaps = 1/75 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
             I  ++L +++    Q+YTQ GGVRPFGVSLLI G  N+ P LY+ DPSGA   +KATA
Sbjct: 102 IPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGV-NEVPKLYETDPSGALLEYKATA 160

Query: 320 MGRNYVNGKTFLEKR 334
           +G   +    F EK 
Sbjct: 161 IGMGRMAVTEFFEKE 175

>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 =  177 bits (450), Expect = 9e-55
 Identities = 67/227 (29%), Positives = 113/227 (49%), Gaps = 9/227 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VR 113
             SG+  D R +++ AR  A  + L Y E+I  + L Q V  +   + +          R
Sbjct: 69  AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSR 128

Query: 114 PFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
           PFGV+LLI G D +    L+  +PSG ++ + A A+G      +  L   +   L L +A
Sbjct: 129 PFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 188

Query: 173 VHTAILTLKEGFEGQMTAENIEIG-IADENGFRRLDVATVRDHLSNI 218
               +  LK+  E ++   N ++  I  ++GF+  D     + +  +
Sbjct: 189 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKEL 235

>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 = 55.1 bits (132), Expect = 2e-09
 Identities = 23/84 (27%), Positives = 37/84 (44%), Gaps = 7/84 (8%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWD-NKRPYLYQCDPSGAY 312
           E+I  + L Q V  +   + +          RPFGV+LLI G D +    L+  +PSG +
Sbjct: 97  EDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTF 156

Query: 313 FAWKATAMGRNYVNGKTFLEKREK 336
           + + A A+G      +  L     
Sbjct: 157 YRYNAKAIGSGSEGAQAELLNEWH 180

>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 =  177 bits (449), Expect = 2e-54
 Identities = 81/227 (35%), Positives = 118/227 (51%), Gaps = 9/227 (3%)

Query: 1   PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
           P G+L Q+EYA+ A+      +GI A++G++LA E++    L +      K+  + + + 
Sbjct: 13  PEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMA 72

Query: 59  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
              +G+  D  +L  + R IAQ+Y L YQE IP +QLV  +  I Q YTQ GG RPFGVS
Sbjct: 73  CSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVS 132

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSE-DLELDDAVHTA 176
           LL  GWD      LYQ DPSG Y  WKAT +G N     + L++ Y E ++ L  A+  A
Sbjct: 133 LLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALA 192

Query: 177 ILTLKEGFE-GQMTAENIEIGIADENG----FRRLDVATVRDHLSNI 218
           I  L +  +  +++AE +EI            R L    V   +   
Sbjct: 193 IKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKH 239

>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 = 63.9 bits (155), Expect = 2e-12
 Identities = 39/76 (51%), Positives = 45/76 (59%), Gaps = 1/76 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E IP +QLV  +  I Q YTQ GG RPFGVSLL  GWD      LYQ DPSG Y  WKAT
Sbjct: 102 EPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKAT 161

Query: 319 AMGRNYVNGKTFLEKR 334
            +G N     + L++ 
Sbjct: 162 CIGNNSAAAVSMLKQD 177

>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 =  174 bits (443), Expect = 1e-53
 Identities = 79/225 (35%), Positives = 125/225 (55%), Gaps = 10/225 (4%)

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  MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
           +  +G+  D  +L+  AR  AQ Y   Y E+IP + LV+R++ I Q YTQ GG+RPFGVS
Sbjct: 74  VAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVS 133

Query: 119 LLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
            +  G+D++    LY  +PSG Y  WKA ++G N    +T L+  Y +D+++DDA+  A+
Sbjct: 134 FIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELAL 193

Query: 178 LTLKEGFEGQ-MTAENIEIGIADENG------FRRLDVATVRDHL 215
            TL +  +   +T + +E     +         +      ++D L
Sbjct: 194 KTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDIL 238

>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 = 62.8 bits (152), Expect = 6e-12
 Identities = 35/78 (44%), Positives = 50/78 (64%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E+IP + LV+R++ I Q YTQ GG+RPFGVS +  G+D++    LY  +PSG Y  WKA 
Sbjct: 103 EDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAI 162

Query: 319 AMGRNYVNGKTFLEKREK 336
           ++G N    +T L+   K
Sbjct: 163 SVGANTSAAQTLLQMDYK 180

>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 =  174 bits (442), Expect = 1e-53
 Identities = 75/223 (33%), Positives = 126/223 (56%), Gaps = 7/223 (3%)

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  VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
            ++G+  D R+++ +AR   Q ++L  ++ +  + + + +A++ Q YTQS G RPFG+S 
Sbjct: 71  AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISA 130

Query: 120 LICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDD--AVHTA 176
           LI G+D    P LYQ DPSG Y AWKA A+GR   + + FLEK Y+++    D   +   
Sbjct: 131 LIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLV 190

Query: 177 ILTLKEGFEGQMTAENIEIGIAD-ENGFRRLDVATVRDHLSNI 218
           I  L E    Q   +NIE+ +   +   + L+   +  +++ I
Sbjct: 191 IKALLE--VVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEI 231

>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 = 68.9 bits (168), Expect = 4e-14
 Identities = 36/78 (46%), Positives = 49/78 (62%), Gaps = 1/78 (1%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           + +  + + + +A++ Q YTQS G RPFG+S LI G+D    P LYQ DPSG Y AWKA 
Sbjct: 99  DPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKAN 158

Query: 319 AMGRNYVNGKTFLEKREK 336
           A+GR   + + FLEK   
Sbjct: 159 AIGRGAKSVREFLEKNYT 176

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]} Length = 227

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

 Score =  167 bits (423), Expect = 8e-51
 Identities = 40/224 (17%), Positives = 80/224 (35%), Gaps = 20/224 (8%)

Query: 7   QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGP 66
           + E A   +  G   V +   +G++   E     +      HKV  + D +G    G   
Sbjct: 8   RSELARKGIARGRSVVVLTFRDGVLFVAENPSTAL------HKVSELYDRLGFAAVGKYN 61

Query: 67  DYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD- 125
           ++  L +     A      Y     T + +    A       +   +P+ V + +     
Sbjct: 62  EFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGR 121

Query: 126 ---NKRPYLYQCDPSGAYFAWKATAMGR-NYVNGKTFLEKRYSEDLELDDAVHTAILTLK 181
               K P LY+    G+    +   +         T + + Y  DL+L+ AV  A+  L+
Sbjct: 122 VGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALR 181

Query: 182 EGFEGQM-----TAENIEIGIADENG----FRRLDVATVRDHLS 216
           +G  G+         ++E+ + D++     FRR+    +   + 
Sbjct: 182 QGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP 225

>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 = 55.8 bits (134), Expect = 9e-10
 Identities = 13/103 (12%), Positives = 29/103 (28%), Gaps = 6/103 (5%)

Query: 239 AENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD- 297
            EN+          R       ++  + L    A        +   +P+ V + +     
Sbjct: 63  FENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQ-TLGTIFTEQPKPYEVEICVAEVGR 121

Query: 298 ---NKRPYLYQCDPSGAYFAWKATAMGR-NYVNGKTFLEKREK 336
               K P LY+    G+    +   +         T + +  +
Sbjct: 122 VGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYR 164

>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 =  119 bits (300), Expect = 4e-33
 Identities = 40/198 (20%), Positives = 79/198 (39%), Gaps = 9/198 (4%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG 138
            + Y+L  +E I      + +A ++ +Y          +  +ICGWD + P LY  D  G
Sbjct: 63  CRIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDKRGPGLYYVDSEG 118

Query: 139 AYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE-GQMTAENIEIGI 197
              +    ++G   V     +++ YS DLE++ A   A   + +       +   + +  
Sbjct: 119 NRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYH 178

Query: 198 ADENGFRRLDVATVRDHL 215
             E+G+ R+    V D  
Sbjct: 179 VREDGWIRVSSDNVADLH 196

>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 = 44.4 bits (104), Expect = 6e-06
 Identities = 12/65 (18%), Positives = 24/65 (36%)

Query: 272 AAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL 331
           + ++             +  +ICGWD + P LY  D  G   +    ++G   V     +
Sbjct: 80  SKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVM 139

Query: 332 EKREK 336
           ++   
Sbjct: 140 DRGYS 144

>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 =  119 bits (299), Expect = 7e-33
 Identities = 42/195 (21%), Positives = 86/195 (44%), Gaps = 7/195 (3%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           +GI+  + ++LA+ K   +   + +D   K   ++ +  M ++G   D     +  +   
Sbjct: 5   LGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANI 64

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK--RPYLYQCDPS 137
           Q Y +     +  Q +   V   + +  +S   RP+ V++LI G+D K  +P LYQ D  
Sbjct: 65  QLYSIREDYELSPQAVSSFVRQELAKSIRSR--RPYQVNVLIGGYDKKKNKPELYQIDYL 122

Query: 138 GAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEG-QMTAENIEIG 196
           G        A G +     + L+  Y  D+  ++ +    L ++E  +   M  + + + 
Sbjct: 123 GTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVK 182

Query: 197 IADENGFRRLDVATV 211
           I D++G R++D    
Sbjct: 183 IVDKDGIRQVDDFQA 197

>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 = 42.1 bits (98), Expect = 3e-05
 Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 4/78 (5%)

Query: 261 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK--RPYLYQCDPSGAYFAWKAT 318
            +  Q +   V   + +  +S   RP+ V++LI G+D K  +P LYQ D  G        
Sbjct: 74  ELSPQAVSSFVRQELAKSIRSR--RPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYG 131

Query: 319 AMGRNYVNGKTFLEKREK 336
           A G +     + L+   +
Sbjct: 132 AHGYSGFYTFSLLDHHYR 149

>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 =  118 bits (296), Expect = 3e-32
 Identities = 42/217 (19%), Positives = 75/217 (34%), Gaps = 24/217 (11%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G   +GI   +  VLA + +      +      KV    D I M  +G   D   LVK+ 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQC 134
           +   + Y   + +   +   +   A  +Q         P+ V  +I G D      +Y  
Sbjct: 69  KNSVKWYHFDHNDKKLS---INSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSF 125

Query: 135 DPSGAYFAWKATAMGRNYVNGKTFLEKRY-----------------SEDLELDDAVHTAI 177
           DP G+Y   +  A G        FL+ +                   + L +++ +    
Sbjct: 126 DPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVR 185

Query: 178 LTLKEGFEGQM-TAENIEIGIADENGFRRLDVATVRD 213
            +     E  +   + +EI I  ++G R+      RD
Sbjct: 186 DSFTSATERHIQVGDGLEILIVTKDGVRKEFYELKRD 222

>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 = 53.6 bits (128), Expect = 5e-09
 Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 1/72 (1%)

Query: 268 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVN 326
           +   A  +Q         P+ V  +I G D      +Y  DP G+Y   +  A G     
Sbjct: 86  INSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASL 145

Query: 327 GKTFLEKREKLR 338
              FL+ +   +
Sbjct: 146 IMPFLDNQVNFK 157

>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 =  114 bits (285), Expect = 6e-31
 Identities = 43/203 (21%), Positives = 93/203 (45%), Gaps = 11/203 (5%)

Query: 21  SVGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARK 77
           +VGI   + +++ATE++   +  I+ ++   K+  I  Y GM  +G+  D ++LV+  + 
Sbjct: 3   TVGITLKDAVIMATERRVTMENFIMHKNG-KKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61

Query: 78  IAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPS 137
             + Y+L  + N+P    ++ VA ++          P+ V LL+ G D   P+++  D +
Sbjct: 62  ELELYRLQRRVNMP----IEAVATLLSNMLNQVKYMPYMVQLLVGGIDTA-PHVFSIDAA 116

Query: 138 GAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE-GQMTAENIEIG 196
           G        + G         LE +YSE + +D+ V   I  +    +    +   I++ 
Sbjct: 117 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVA 176

Query: 197 IAD-ENGFRRLDVATVRDHLSNI 218
           +   ++G+ +L    +   +  +
Sbjct: 177 VITRKDGYVQLPTDQIESRIRKL 199

>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 = 40.2 bits (93), Expect = 1e-04
 Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 1/69 (1%)

Query: 268 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNG 327
           ++ VA ++          P+ V LL+ G D   P+++  D +G        + G      
Sbjct: 76  IEAVATLLSNMLNQVKYMPYMVQLLVGGIDTA-PHVFSIDAAGGSVEDIYASTGSGSPFV 134

Query: 328 KTFLEKREK 336
              LE +  
Sbjct: 135 YGVLESQYS 143

>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 =  113 bits (284), Expect = 1e-30
 Identities = 44/200 (22%), Positives = 84/200 (42%), Gaps = 8/200 (4%)

Query: 21  SVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
           +VG+   +G+V+ATEK+      +      K+  I D + M  +G   D + L +  +  
Sbjct: 3   TVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIE 62

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG 138
           A  Y++  +     + +      +      S    P+ V LLI G D++   +Y  DP G
Sbjct: 63  ANLYEIRRERKPTVRAIAT----LTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIG 118

Query: 139 AYFAWK-ATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE-GQMTAENIEIG 196
                K   A G   +     LE R++ ++ +D+AV  A+  +    +    + + I++ 
Sbjct: 119 GAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVV 178

Query: 197 IADENGFRRLDVATVRDHLS 216
              E+ F +     V   L+
Sbjct: 179 KITEDEFYQYSPEEVEQILA 198

>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 = 40.6 bits (94), Expect = 1e-04
 Identities = 20/70 (28%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 268 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK-ATAMGRNYVN 326
           V+ +A +      S    P+ V LLI G D++   +Y  DP G     K   A G   + 
Sbjct: 76  VRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLT 135

Query: 327 GKTFLEKREK 336
               LE R  
Sbjct: 136 AYGVLEDRFT 145

>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 =  111 bits (279), Expect = 8e-30
 Identities = 35/193 (18%), Positives = 72/193 (37%), Gaps = 8/193 (4%)

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

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA 139
           + + L            + +  ++  Y         G +L++ G D   P+LY   P G+
Sbjct: 64  ELHSLSTGRLPRVVTANRMLKQMLFRYR-----GYIGAALVLGGVDVTGPHLYSIYPHGS 118

Query: 140 YFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEG-FEGQMTAENIEIGIA 198
                   MG   +      E ++  D+E ++A +     +  G F    +  NI++ + 
Sbjct: 119 TDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVI 178

Query: 199 DENGFRRLDVATV 211
            +N    L   TV
Sbjct: 179 SKNKLDFLRPYTV 191

>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 = 43.2 bits (101), Expect = 2e-05
 Identities = 14/67 (20%), Positives = 23/67 (34%)

Query: 270 RVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKT 329
             A  M +          G +L++ G D   P+LY   P G+        MG   +    
Sbjct: 77  VTANRMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMA 136

Query: 330 FLEKREK 336
             E + +
Sbjct: 137 VFEDKFR 143

>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 =  110 bits (277), Expect = 2e-29
 Identities = 29/236 (12%), Positives = 75/236 (31%), Gaps = 21/236 (8%)

Query: 14  AVEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLL 71
            +  G   + +K  NG+++A +      ++L  + + ++ P+ D   +  SG   D + +
Sbjct: 4   PIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHI 63

Query: 72  VKKARKIAQQYKLVYQENIPTQQLVQRVAAIM---QEYTQSGGVRPFGVSLLICGWDNKR 128
            +  + +  +           + L             Y +   + P   ++++ G  +  
Sbjct: 64  ERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNG 123

Query: 129 P-YLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRY-----SEDLELDDAVHTAILTLKE 182
             +L   +  G  ++    A G         L K            +  A    +  ++ 
Sbjct: 124 DQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRV 183

Query: 183 GFEGQ-MTAENIEIGIAD-ENGFRRLDVATVRDHLSNIPQSVHTAILTLKEGFEGQ 236
            +     ++ N  + I D   G        V        +++        +G+  Q
Sbjct: 184 LYYRDARSSRNFSLAIIDKNTGLTFKKNLQV--------ENMKWDFAKDIKGYGTQ 231

>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 = 44.4 bits (104), Expect = 7e-06
 Identities = 16/115 (13%), Positives = 40/115 (34%), Gaps = 3/115 (2%)

Query: 223 HTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSG 282
           +T +    +  + Q     ++  + +      L  A E +    + + +A +M  Y +  
Sbjct: 48  NTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM--YQRRS 105

Query: 283 GVRPFGVSLLICGWDNKRP-YLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREK 336
            + P   ++++ G  +    +L   +  G  ++    A G         L K   
Sbjct: 106 KMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVD 160

>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 =  109 bits (273), Expect = 4e-29
 Identities = 29/204 (14%), Positives = 73/204 (35%), Gaps = 10/204 (4%)

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

Query: 79  AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
            + ++L  +E I      + ++ ++ +Y          +  +ICG+  K  P +Y  D  
Sbjct: 63  CRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSD 118

Query: 138 GAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE-GQMTAENIEIG 196
           G         +G         L+  Y  DL ++DA++    ++         +  ++ + 
Sbjct: 119 GTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLY 178

Query: 197 IADENGFRRLDVATVRDHLSNIPQ 220
              E+G+       V +    + +
Sbjct: 179 HVTEDGWIYHGNHDVGELFWKVKE 202

>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 = 40.9 bits (95), Expect = 7e-05
 Identities = 13/70 (18%), Positives = 21/70 (30%), Gaps = 1/70 (1%)

Query: 268 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVN 326
           V   + I+             +  +ICG+  K  P +Y  D  G         +G     
Sbjct: 76  VAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTF 135

Query: 327 GKTFLEKREK 336
               L+   K
Sbjct: 136 AYGVLDSNYK 145

>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 =  106 bits (265), Expect = 7e-28
 Identities = 35/199 (17%), Positives = 77/199 (38%), Gaps = 12/199 (6%)

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

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA 139
           + + L           +Q +   + +Y         G  L++ G D    +L+     G+
Sbjct: 64  ELHSLYTSREPRVVSALQMLKQHLFKYQG-----HIGAYLIVAGVDPTGSHLFSIHAHGS 118

Query: 140 YFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQM-TAENIEIGIA 198
                  ++G   +     LE  + +DL  ++A+  A   ++ G    + +  N+++ + 
Sbjct: 119 TDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVM 178

Query: 199 DENG----FRRLDVATVRD 213
           +        R      VR+
Sbjct: 179 EIGKDAEYLRNYLTPNVRE 197

>d1rypi_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 222

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.9 bits (95), Expect = 8e-05
 Identities = 12/65 (18%), Positives = 21/65 (32%)

Query: 272 AAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL 331
           A  M +          G  L++ G D    +L+     G+       ++G   +     L
Sbjct: 79  ALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVL 138

Query: 332 EKREK 336
           E   K
Sbjct: 139 ESHWK 143

>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 =  103 bits (258), Expect = 6e-27
 Identities = 29/202 (14%), Positives = 71/202 (35%), Gaps = 10/202 (4%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G   + +K  N + +A +++   +  L      K+ P+ D + +  +G+  D + + ++ 
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRP--YLYQ 133
           +     Y+L     I    L+  VA ++ E        P+    +I G D K    ++  
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRF----GPYYTEPVIAGLDPKTFKPFICS 122

Query: 134 CDPSGAYFAWKATAMGRNYVNG-KTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAE 191
            D  G         +            E  +  +++ D    T    +    +   ++  
Sbjct: 123 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGM 182

Query: 192 NIEIGIADENGFRRLDVATVRD 213
            + + I +++      +    D
Sbjct: 183 GVIVHIIEKDKITTRTLKARMD 204

>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 = 39.4 bits (91), Expect = 2e-04
 Identities = 7/69 (10%), Positives = 18/69 (26%), Gaps = 2/69 (2%)

Query: 268 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRP--YLYQCDPSGAYFAWKATAMGRNYV 325
              + +++          P+    +I G D K    ++   D  G         +     
Sbjct: 83  PYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCA 142

Query: 326 NGKTFLEKR 334
                + + 
Sbjct: 143 EQMYGMCES 151

>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 =  102 bits (255), Expect = 2e-26
 Identities = 28/188 (14%), Positives = 57/188 (30%), Gaps = 9/188 (4%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           + ++   G+VL  + +    + +      K+ PI D I    SG   D + +        
Sbjct: 4   MAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQL 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSG 138
             + +   E             +   Y +          ++I GWD +    +Y     G
Sbjct: 64  GFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMGG 118

Query: 139 AYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGI 197
                     G        +++  Y E +  ++ +      L    E    +   I +  
Sbjct: 119 MMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAA 178

Query: 198 ADENGFRR 205
             E+G  R
Sbjct: 179 IAESGVER 186

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 202

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 40.5 bits (94), Expect = 1e-04
 Identities = 9/78 (11%), Positives = 19/78 (24%), Gaps = 6/78 (7%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
           E             +   Y +          ++I GWD +    +Y     G        
Sbjct: 72  EPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFA 126

Query: 319 AMGRNYVNGKTFLEKREK 336
             G        +++   +
Sbjct: 127 IGGSGSSYIYGYVDATYR 144

>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 =  101 bits (253), Expect = 4e-26
 Identities = 26/207 (12%), Positives = 69/207 (33%), Gaps = 8/207 (3%)

Query: 14  AVEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLL 71
            +  G   +G+K   G+V+A +      ++     I ++  + +   +  SG   D++ L
Sbjct: 4   PMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYL 63

Query: 72  VKKARKIAQQYKLVYQ-ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY 130
            +   ++    +L+    +   + +   +   M  Y++   + P   +++I G+ +   +
Sbjct: 64  KQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYADGESF 121

Query: 131 LYQCDPSGAYFAWKA--TAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ- 187
           L   D  G  +   +  T  G                 L   +A       ++  +    
Sbjct: 122 LGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDA 181

Query: 188 MTAENIEIGIADENGFRRLDVATVRDH 214
            +    +     E G       +   +
Sbjct: 182 RSYNRFQTATVTEKGVEIEGPLSTETN 208

>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 = 38.6 bits (89), Expect = 5e-04
 Identities = 11/74 (14%), Positives = 28/74 (37%), Gaps = 2/74 (2%)

Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
            +   + +   +   M  Y++   + P   +++I G+ +   +L   D  G  +   + A
Sbjct: 81  HSYSPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLA 138

Query: 320 MGRNYVNGKTFLEK 333
            G      +  L +
Sbjct: 139 TGYGAYLAQPLLRE 152

>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 = 99.5 bits (247), Expect = 2e-25
 Identities = 37/195 (18%), Positives = 77/195 (39%), Gaps = 6/195 (3%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           +GI+  + +++A+++      +  +D   K+  +++ I ++  G   D     +  +K  
Sbjct: 5   IGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNV 64

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSG 138
           Q YK+     +            + +  +S    P+ V+LL+ G+D      LY  D   
Sbjct: 65  QLYKMRNGYELSPTAAANFTRRNLADCLRSRT--PYHVNLLLAGYDEHEGPALYYMDYLA 122

Query: 139 AYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGI 197
           A       A G       + L++ Y+  +  + AV      L+E  +   +      + I
Sbjct: 123 ALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVRI 182

Query: 198 ADENGFRRLDVATVR 212
            D+NG   LD  +  
Sbjct: 183 IDKNGIHDLDNISFP 197

>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 = 97.6 bits (242), Expect = 2e-24
 Identities = 38/215 (17%), Positives = 81/215 (37%), Gaps = 19/215 (8%)

Query: 22  VGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
           V +    G++LA +++  Q  ++    + KV    +Y     +G       LV+      
Sbjct: 4   VALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVEL 63

Query: 80  QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN------KRPYLYQ 133
           + Y+ +    +       R+A++++    +  ++   V  L+ G+D       +   +  
Sbjct: 64  EHYEKIEGVPLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVS 122

Query: 134 CDPSGAYFAWKA--TAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE------ 185
            D  G  +  +A   A+G   +  K+ L+K YS D + + A+  AI +L +  +      
Sbjct: 123 YDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATG 182

Query: 186 GQMTAENIEIGIA--DENGFRRLDVATVRDHLSNI 218
           G      I        + G   +   T  +    I
Sbjct: 183 GPDLTRGIYPTAVTITQAGAVHVSEETTSELARRI 217

>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 = 92.2 bits (228), Expect = 1e-22
 Identities = 31/202 (15%), Positives = 74/202 (36%), Gaps = 11/202 (5%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G   V +   + + +A + +   +++   +   K+     ++ +  +G+  D   L +  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMF 66

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD--NKRPYLYQ 133
           R     YKL  +  I  +   Q V++ + E        P+ V  ++ G +  + +P++  
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRF----GPYFVGPVVAGINSKSGKPFIAG 122

Query: 134 CDPSGAYFAWKATAMGRNYVNG-KTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAE 191
            D  G     K   +     +      E  Y  +LE +D   T    L    +   ++  
Sbjct: 123 FDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGW 182

Query: 192 NIEIGIADENGFRRLDVATVRD 213
              + I  ++   +  +   +D
Sbjct: 183 GAVVYIIKKDEVVKRYLKMRQD 204

>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 = 91.7 bits (227), Expect = 1e-22
 Identities = 29/196 (14%), Positives = 66/196 (33%), Gaps = 10/196 (5%)

Query: 15  VEAGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLV 72
           V  GA  + +   +G++L  + +      +      K+  + D I    SG   D + + 
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 73  KKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYL 131
              +   + Y   Y             AA + +             +++ G+D+K +  +
Sbjct: 66  DIVQYHLELYTSQYGTPS------TETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEV 119

Query: 132 YQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTA 190
           Y     G+         G        + +K + E++  ++ V     +L +  +    + 
Sbjct: 120 YTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSG 179

Query: 191 ENIEIGIADENGFRRL 206
             I + +    G  RL
Sbjct: 180 GVIRMVVLTAAGVERL 195

>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 = 80.7 bits (198), Expect = 2e-18
 Identities = 40/209 (19%), Positives = 71/209 (33%), Gaps = 17/209 (8%)

Query: 18  GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
           G   + I   +  ++A++ +  +   +      K   +TD   +  SG   D   L K  
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 76  RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYL-YQC 134
               + YK    + + T  +   ++ I+          P+ V  +I G D +     Y  
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRF----FPYYVYNIIGGLDEEGKGAVYSF 124

Query: 135 DPSGAYFAWKATAMG---------RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE 185
           DP G+Y      A G          +   G   ++      L LD A+           E
Sbjct: 125 DPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAE 184

Query: 186 GQ-MTAENIEIGIADENGFRRLDVATVRD 213
               T + + I I  + G R   V+  +D
Sbjct: 185 RDVYTGDALRICIVTKEGIREETVSLRKD 213

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]} Length = 180

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

 Score = 38.6 bits (89), Expect = 4e-04
 Identities = 22/183 (12%), Positives = 48/183 (26%), Gaps = 21/183 (11%)

Query: 22  VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMV-YSGMGPDYRLLVKKARK 77
             ++      ++ + +    + ++ +    KV  + +   +  ++G   D   L +K   
Sbjct: 9   FAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEA 68

Query: 78  IAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPS 137
             ++Y    +          R   ++++           V                    
Sbjct: 69  KLEEYNGNLKRAAVELAKEWRSDKVLRKL-----EAMLIVMNQDTLLLVSGTGEVIEPDD 123

Query: 138 GAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFE------GQMTAE 191
           G      A   G NY               E   A   A   L+   E       Q+  E
Sbjct: 124 GIL----AIGSGGNYALA--AGRALKKHAGESMSASEIARAALETAGEICVYTNDQIILE 177

Query: 192 NIE 194
            +E
Sbjct: 178 ELE 180

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	352
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.94
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	99.93
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.93
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.93
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.92
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	99.92
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.92
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.92
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.92
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	99.91
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	99.91
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.9
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	99.9
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	99.9
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.89
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	99.89
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	99.88
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.88
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.87
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.87
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	99.86
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	99.86
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.86
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	99.85
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.84
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.84
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	99.84
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	99.83
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.82
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	99.79
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	99.78
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.78
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.78
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.76
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.75
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.73
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.66
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	98.65
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	98.44
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	98.15

>d1yara1 d.153.1.4 (A:13-233) Proteasome alpha subunit (non-catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=1.5e-55  Score=394.42  Aligned_cols=215  Identities=40%  Similarity=0.638  Sum_probs=207.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.++++. +++.+|||+|++|++|+++|..+|++.+.++++.++
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            9999999999999999999999999999999999999987777 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++++++++.++++++.+++.+++++++|||++++||||+|++||+||.+||+|++.+++++|+|+|+..++++|
T Consensus        85 ~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L  164 (221)
T d1yara1          85 QQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFL  164 (221)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecCCCeEEEEcCCccEEEeeEEEECCchHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCC-CeEEcChhHHHHHH
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADEN-GFRRLDVATVRDHL  215 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~-g~~~l~~~ei~~~l  215 (352)
                      |+.|+++||++||++++++||+.+.+++.+.++++|++++++ +++.++++||+++|
T Consensus       165 e~~~~~~ms~~ea~~la~~~l~~~~~~~~~~~~~ei~~i~~~~~~r~l~~~ei~~~l  221 (221)
T d1yara1         165 EREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL  221 (221)
T ss_dssp             HHHCCTTCCHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             HHHhhccccHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCCEEECCHHHHHHhC
Confidence            999999999999999999999999988888889999999864 69999999998753

>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=2.4e-55  Score=400.13  Aligned_cols=221  Identities=37%  Similarity=0.608  Sum_probs=213.3

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+++++  +++.+|||+|++|++|++||..+|++.+++.++.+
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            9999999999999999999999999999999999999999988  67789999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|++.++.+++++.+++.+++++|.+++++++|||+|++||+|+|++ ||+||.+||+|++.+++++|+|+|++.+++
T Consensus        93 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~~~~~~~a~G~gs~~a~~  172 (250)
T d1iruc_          93 AQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVS  172 (250)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSEEEESTTTTHHHH
T ss_pred             HHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEcccccEeeeeEEEeCcChHHHHH
Confidence            9999999999999999999999999999999999999999999999986 899999999999999999999999999999


Q ss_pred             HHHhhcCC-CCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC----eEEcChhHHHHHHhhCccc
Q psy2869         158 FLEKRYSE-DLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENG----FRRLDVATVRDHLSNIPQS  221 (352)
Q Consensus       158 ~Le~~~~~-~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g----~~~l~~~ei~~~l~~i~~~  221 (352)
                      +||+.|++ +||++||++++++||+.+.++| .+++++||++|++++    ++.++++||+++++++.+.
T Consensus       173 ~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~~~Ei~~~l~~~~e~  242 (250)
T d1iruc_         173 MLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHEEE  242 (250)
T ss_dssp             HHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHHHHHTT
T ss_pred             HHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECCHHHHHHHHHHHHHH
Confidence            99999985 8999999999999999999999 999999999998876    8999999999999888544

>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=4.2e-55  Score=394.77  Aligned_cols=218  Identities=30%  Similarity=0.565  Sum_probs=210.6

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+.+++ .++.+||++|++|++|+++|..+|++.+++.++.++
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            9999999999999999999999999999999999999999988 888899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC-----CccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCch
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG-----VRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVN  154 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~-----~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~  154 (352)
                      ..|+++++++++++.+++++++++|.|+++.+     .|||+|++|+||||++||+||.+||+|++.+++++|+|+|++.
T Consensus        90 ~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~gp~Ly~idp~G~~~~~~~~a~G~gs~~  169 (234)
T d1irue_          90 QNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEG  169 (234)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEEESTTHHH
T ss_pred             HHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCCCEEEEEecCcccceeeeEEeCCchHH
Confidence            99999999999999999999999999998876     7999999999999999999999999999999999999999999


Q ss_pred             hHHHHHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCC-CeEEcChhHHHHHHhhC
Q psy2869         155 GKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADEN-GFRRLDVATVRDHLSNI  218 (352)
Q Consensus       155 ~~~~Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~-g~~~l~~~ei~~~l~~i  218 (352)
                      ++++||+.|+++|+++||++++++||+.+.+++.++.++||++|+++ +|++++++||++++++|
T Consensus       170 ~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~~~~~~iei~ii~~~~~~k~l~~~ei~~~l~~i  234 (234)
T d1irue_         170 AQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI  234 (234)
T ss_dssp             HHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHHHHHTTC
T ss_pred             HHHHHHHhhccCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEECCCCEEECCHHHHHHHHHhC
Confidence            99999999999999999999999999999888888889999999875 69999999999998865

>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=1.4e-54  Score=395.10  Aligned_cols=218  Identities=57%  Similarity=0.909  Sum_probs=209.7

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ .++.+||++|++|++|+++|..+|++.++++++.++
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            9999999999999999999999999999999999999999888 888999999999999999999999999999999998


Q ss_pred             HH-HHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          80 QQ-YKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        80 ~~-~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      +. |++.++.+++++.+++++++++|.++++++.|||++++||||+|++ ||+||.+||+|++.+++++|+|+|+.++++
T Consensus        94 ~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id~~G~~~~~~~~a~G~gs~~a~~  173 (250)
T d1rypb_          94 HTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKT  173 (250)
T ss_dssp             HHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEcCcEEEEEeeEEecCcchHHHHH
Confidence            74 8999999999999999999999999999999999999999999975 899999999999999999999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC----------------eEEcChhHHHHHHhhC
Q psy2869         158 FLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG----------------FRRLDVATVRDHLSNI  218 (352)
Q Consensus       158 ~Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g----------------~~~l~~~ei~~~l~~i  218 (352)
                      +||+.|+++||++||++++++||+.+.++|.++.++||++|++++                |++++++||+++++.+
T Consensus       174 ~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~vi~~~~~~~~~~~~v~~~~~~~fr~ls~eei~~~l~~l  250 (250)
T d1rypb_         174 FLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQEINDRLEAL  250 (250)
T ss_dssp             HHHHHCCTTCCHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEECCHHHHHHHHTTC
T ss_pred             HHHHhcccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEeCCCcccccccccccccCCceEECCHHHHHHHHHhC
Confidence            999999999999999999999999999999888999999998764                7999999999999864

>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=1.7e-54  Score=392.84  Aligned_cols=220  Identities=37%  Similarity=0.644  Sum_probs=211.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ .++.+|||+|+++++|++||..+|++.+.++++.++
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 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+++++.+++++.+++.+++.+|.++++++.|||+|++|+||+|+ +|+||.+||+|++.+++++|+|+|++.++++|
T Consensus        94 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~-~p~Ly~~Dp~G~~~~~~~~a~G~g~~~a~~~L  172 (243)
T d1j2pa_          94 QINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYKATAIGMGRMAVTEFF  172 (243)
T ss_dssp             HHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS-SEEEEEECTTCCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC-CceEEEEeccCceeeeeEEEeCCCcHHHHHHH
Confidence            99999999999999999999999999999999999999999999985 69999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCC--CeEEcChhHHHHHHhhCccc
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADEN--GFRRLDVATVRDHLSNIPQS  221 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~--g~~~l~~~ei~~~l~~i~~~  221 (352)
                      |+.|+++||++||++++++||+.+.++|.+.+++||++++++  ++++++++||+++++++.+.
T Consensus       173 e~~y~~~ms~eeai~la~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~l~~~ei~~~~~~~~e~  236 (243)
T d1j2pa_         173 EKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERANER  236 (243)
T ss_dssp             HHHCCTTCCHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHHHHHHH
T ss_pred             HhhcccCCCHHHHHHHHHHHHHHHHhcccCCCceEEEEEEeCCCcEEECCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999977789999999765  69999999999999988543

>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=2.6e-54  Score=391.81  Aligned_cols=219  Identities=35%  Similarity=0.595  Sum_probs=209.5

Q ss_pred             CCcceehhhhHHHHhcCCC-cEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGA-PSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~-tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||+||+++|+ |+|||+++||||||+|+|.+++++ .++.+|||+|++|++|++||..+|++.+.+.++.+
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 899999999999999999998887 77889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|++.++++++++.+++++++++|.+++++++|||+|++||||||++ ||+||.+||+|++.+++++|+|+|+..+++
T Consensus        97 ~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~a~G~gs~~~~~  176 (244)
T d1irua_          97 AANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTS  176 (244)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEEETTHHHHHH
T ss_pred             HHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCccEEecceEeccCchhHHHH
Confidence            9999999999999999999999999999999999999999999999975 799999999999999999999999999999


Q ss_pred             HHHhhcC--CCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCC--eEEcChhHHHHHHhhCc
Q psy2869         158 FLEKRYS--EDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENG--FRRLDVATVRDHLSNIP  219 (352)
Q Consensus       158 ~Le~~~~--~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g--~~~l~~~ei~~~l~~i~  219 (352)
                      +||++|+  ++|+++||++++++||+.+.++|.+.+++||+|+++++  +++++++||++++.++.
T Consensus       177 ~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~~~~iev~ii~~~~~~~~~l~~~ei~~~l~~~~  242 (244)
T d1irua_         177 FLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVALA  242 (244)
T ss_dssp             HHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHHHHHHHH
T ss_pred             HHHhccccccCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEeCCCcEEECCHHHHHHHHHHHh
Confidence            9999994  58999999999999999999999777889999998875  89999999999998874

>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=4.9e-54  Score=387.58  Aligned_cols=218  Identities=79%  Similarity=1.258  Sum_probs=213.4

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+++++ .++.+|||+|+++++|+++|..+|++.++++++.++
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            9999999999999999999999999999999999999999988 888999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|+.+++.+++++.+++.+++++|.+++....|||+++++++|+|+++|+||.+||+|++.+++++|+|+|+.+++++|
T Consensus        94 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~~~~ly~id~~G~~~~~~~~a~G~gs~~~~~~L  173 (233)
T d1irub_          94 QQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFL  173 (233)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccCCceEEEEcCCcceEeccceecCCcHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEcChhHHHHHHhhC
Q psy2869         160 EKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI  218 (352)
Q Consensus       160 e~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i  218 (352)
                      ++.|+++|+++||++++++||+.+.+++.+.+++||++++++|+++++++||++++.++
T Consensus       174 e~~~~~~ms~eea~~l~~~~L~~~~~~d~~~~~vev~ii~~~g~~~l~~~eI~~~l~~i  232 (233)
T d1irub_         174 EKRYNEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI  232 (233)
T ss_dssp             HHHCCTTCCHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETTEEEECCHHHHHHHHTTC
T ss_pred             HhhcccCccHHHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCCeEECCHHHHHHHHHHh
Confidence            99999999999999999999999999997778999999999999999999999999876

>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=9.9e-54  Score=388.12  Aligned_cols=217  Identities=36%  Similarity=0.655  Sum_probs=210.7

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+++++  +++.+||++|+++++++++|..+|++.+++.++.+
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            9999999999999999999999999999999999999999987  67789999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|+++++.+++++.+++.++++++.+++++++|||++++||||+|++ ||+||.+||+|++.+++++|+|+|+.++++
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~~~~~a~G~g~~~a~~  173 (244)
T d1rypc_          94 AQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQT  173 (244)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHH
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEecCCCcEeeeeeeeccchhHHHHH
Confidence            9999999999999999999999999999999999999999999999975 799999999999999999999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC------eEEcChhHHHHHHhh
Q psy2869         158 FLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENG------FRRLDVATVRDHLSN  217 (352)
Q Consensus       158 ~Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g------~~~l~~~ei~~~l~~  217 (352)
                      +|++.|+++||++||++++++||+.+.++| .+++++||++|+++|      ++.++++||++++.+
T Consensus       174 ~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~~~~~~~~~~~~~Ei~~~l~k  240 (244)
T d1rypc_         174 LLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVK  240 (244)
T ss_dssp             HHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHHH
T ss_pred             HHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCcccceeEEECCHHHHHHHHHH
Confidence            999999999999999999999999999999 999999999999876      689999999998876

>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=3.3e-54  Score=391.08  Aligned_cols=219  Identities=29%  Similarity=0.488  Sum_probs=210.4

Q ss_pred             CCcceehhhhHHHHhcC-CCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEA-GAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~-G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||+||+++ |+|+|||+++||||||+|+|.++++. .++.+||++|++|++|++||+.+|++.+.++++.+
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            99999999999999997 55899999999999999999998887 88889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKT  157 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~  157 (352)
                      ++.|++.++.+++++.+++++++++|.++++++.|||+|++||||||++ ||+||.+||+|++.+++++|+|+|+..+++
T Consensus        92 ~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~a~G~gs~~~~~  171 (243)
T d1rypa_          92 AAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITT  171 (243)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHH
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCCEEEEecceEEeCccHHHHHH
Confidence            9999999999999999999999999999999999999999999999976 899999999999999999999999999999


Q ss_pred             HHHhhcCC-------CCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEcChhHHHHHHhhCc
Q psy2869         158 FLEKRYSE-------DLELDDAVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       158 ~Le~~~~~-------~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~  219 (352)
                      +||++|++       +++++||++++++||+.+.+++.++++++|++++++|++.++++||++++.++.
T Consensus       172 ~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~~~~~iei~iitk~g~~~l~~eeI~~~l~~i~  240 (243)
T d1rypa_         172 NLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLVAIA  240 (243)
T ss_dssp             HHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETTEEEECCHHHHHHHHHHHT
T ss_pred             HHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCCceEEeCHHHHHHHHHHHh
Confidence            99999985       469999999999999999999988889999999999999999999999998874

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.8e-54  Score=389.02  Aligned_cols=213  Identities=28%  Similarity=0.475  Sum_probs=204.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.++++. .+.+||++|++|++|++||..+|++.++++++.+++
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            9999999999999999999999999999999999999988875 566899999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHH
Q psy2869          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLE  160 (352)
Q Consensus        81 ~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le  160 (352)
                      .|++.++++++++.+|+.+++++|.++++++.|||+|++||||+|++||+||.+||+|++.+++++|+|+|++.++++|+
T Consensus        93 ~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~g~~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le  172 (233)
T d1rypf_          93 YSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLE  172 (233)
T ss_dssp             HHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSCEEEESEEEESTTHHHHHHHHH
T ss_pred             hhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCCCCEEEEEccccceecccEEEecCchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hhc----CCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCC-eEEcChhHHHHH
Q psy2869         161 KRY----SEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENG-FRRLDVATVRDH  214 (352)
Q Consensus       161 ~~~----~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g-~~~l~~~ei~~~  214 (352)
                      +.|    +++|+++||++++++||..+.+++ .+++++||++|++++ +++++++||+++
T Consensus       173 ~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l~~~ei~~~  232 (233)
T d1rypf_         173 RTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKY  232 (233)
T ss_dssp             HHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGGGG
T ss_pred             HHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEECCHHHHHhh
Confidence            755    679999999999999999999999 999999999999884 999999999875

>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=3.1e-54  Score=389.94  Aligned_cols=219  Identities=32%  Similarity=0.553  Sum_probs=209.8

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQ   80 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~   80 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.++++. .+.+||++|+++++|++||+.+|++.+++.++.++.
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            9999999999999999999999999999999999999999887 345799999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHH
Q psy2869          81 QYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLE  160 (352)
Q Consensus        81 ~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le  160 (352)
                      .|+++++.+++++.+++.++++.|.|+++++.|||++++||||||++||+||.+||+|++.+++++|+|+|++.++++||
T Consensus        91 ~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le  170 (238)
T d1iruf_          91 DSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLE  170 (238)
T ss_dssp             HHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEEEESTTHHHHHHHHH
T ss_pred             HHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCCCceEEEEcCCCCEEeeeeEEECCCchhhHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCC--CHHHHHHHHHHHHHHhhccC--CCCCceEEEEEeCC-CeEEcChhHHHHHHhhCcc
Q psy2869         161 KRYSEDL--ELDDAVHTAILTLKEGFEGQ--MTAENIEIGIADEN-GFRRLDVATVRDHLSNIPQ  220 (352)
Q Consensus       161 ~~~~~~~--s~~eai~l~~~~l~~~~~~d--~~~~~iei~ii~~~-g~~~l~~~ei~~~l~~i~~  220 (352)
                      +.|+++|  +++||++++++||+.++.++  +++.+|||++|+++ +|++++++||+++++++++
T Consensus       171 k~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~~~ei~~~l~~i~e  235 (238)
T d1iruf_         171 RHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEE  235 (238)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTCCC
T ss_pred             hhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECCHHHHHHHHHHHHh
Confidence            9999855  99999999999999988765  68999999999998 5999999999999999854

>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=2e-54  Score=392.44  Aligned_cols=219  Identities=27%  Similarity=0.448  Sum_probs=208.5

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+++++ .++.+|||+|++|++|++||..+|++.++++++.++
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            9999999999999999999999999999999999999999888 788899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTF  158 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~  158 (352)
                      +.|+++++.+++++.+++++++++|.|++++++|||+|++||||+|++ ||+||.+||+|++.+++++|+|+|++.++++
T Consensus        96 ~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~a~~~  175 (245)
T d1irug_          96 SNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTE  175 (245)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCceEEeeeEEEECCccHHHHHH
Confidence            999999999999999999999999999999999999999999999965 8999999999999999999999999999999


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCC--CeEEcChhHHHHHHhhCc
Q psy2869         159 LEKRYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADEN--GFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       159 Le~~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~--g~~~l~~~ei~~~l~~i~  219 (352)
                      ||+.|+++||++||++++++||+.+.+++ .++.++||++|+++  +++++.++|+.+.++++.
T Consensus       176 Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~~~~e~~~~~~~~~  239 (245)
T d1irug_         176 IEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKYA  239 (245)
T ss_dssp             HTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHHHH
T ss_pred             HHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEEChHHHHHHHHHHH
Confidence            99999999999999999999999999887 88889999999764  688888888877776653

>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=3.9e-54  Score=390.37  Aligned_cols=222  Identities=29%  Similarity=0.546  Sum_probs=210.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|+|.+.++. .++.+|||+|+++++|++||+.+|++.++++++.++
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            9999999999999999999999999999999999999999977 778899999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCC------CccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCC
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNY  152 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~------~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs  152 (352)
                      +.|+++++++++++.+++++++++|.|+++.+      +|||+|++||||+|++ +|+||.+||+|++.+++++|+|+|+
T Consensus        89 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~~~~~a~G~gs  168 (242)
T d1rype_          89 VTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGS  168 (242)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEESTTH
T ss_pred             HHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceeccceeecccch
Confidence            99999999999999999999999999887754      7999999999999976 6999999999999999999999999


Q ss_pred             chhHHHHHhhcCCCCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeC-CCeEEcChhHHHHHHhhCccch
Q psy2869         153 VNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTAENIEIGIADE-NGFRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       153 ~~~~~~Le~~~~~~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~-~g~~~l~~~ei~~~l~~i~~~~  222 (352)
                      +.++++|+++|+++||++||++++++||+.+.+++.+.++++|++|++ +|++.+++++|++++.++.+..
T Consensus       169 ~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~~~~~~v~~i~~~~g~~~l~~~~i~~~~~~i~e~~  239 (242)
T d1rype_         169 EGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELKEKE  239 (242)
T ss_dssp             HHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCceEEEEEECCCCeEECCHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999887777899999975 5899999999999999986544

>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=2.9e-53  Score=384.80  Aligned_cols=220  Identities=33%  Similarity=0.516  Sum_probs=205.3

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+++++ .++.+||++|++|++|+++|+.+|++.++++++.++
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            9999999999999999999999999999999999999999988 666789999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFL  159 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~L  159 (352)
                      +.|++.++++++++.+++.+++++|.|+++++.|||+|++|+||||++||+||.+||+|++.+++++|+|+|+..++++|
T Consensus        93 ~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~gp~Ly~idp~Gs~~~~~~~a~G~gs~~~~~~L  172 (244)
T d1rypg_          93 ASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAEL  172 (244)
T ss_dssp             HHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHH
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCCCCEEEEEcCCccEEecCeEecCCccHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Hh---hcCCCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeC---CCe-EEcChhHHHHHHhhCcc
Q psy2869         160 EK---RYSEDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADE---NGF-RRLDVATVRDHLSNIPQ  220 (352)
Q Consensus       160 e~---~~~~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~---~g~-~~l~~~ei~~~l~~i~~  220 (352)
                      |+   .|+++||++||++++++||+.+.+++ .+..+++|++|+.   +++ +.++.++++++++..++
T Consensus       173 ek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~~~~~~~~~~~~e~~~~~~~~~~~  241 (244)
T d1rypg_         173 EKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFAQK  241 (244)
T ss_dssp             HHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHHHHHHH
T ss_pred             HHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEEcCCCeEEECCHHHHHHHHHHHHH
Confidence            96   69999999999999999999999888 7788999999963   454 56666666666665544

>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=8e-53  Score=381.38  Aligned_cols=219  Identities=37%  Similarity=0.620  Sum_probs=208.8

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI   78 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~   78 (352)
                      |||||+|||||+||+++|+|+|||+++||||||+|++.+++++  ..+.+|||+|++|++|++||..+|++.+++.++.+
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            9999999999999999999999999999999999999999998  56889999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC--CCEEEEECCCCcEEecceEEecCCCchhH
Q psy2869          79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK--RPYLYQCDPSGAYFAWKATAMGRNYVNGK  156 (352)
Q Consensus        79 ~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~--gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~  156 (352)
                      ++.|+++++.+++++.++++++.++|.+++++++|||+|++|+||+|+.  +|+||.+||+|++.+++++|+|+|++.++
T Consensus        91 ~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~~~~a~G~gs~~~~  170 (241)
T d1rypd_          91 AQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVR  170 (241)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEEESTTHHHHH
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEEEEeeCeEEECcCHHHHH
Confidence            9999999999999999999999999999999999999999999999963  89999999999999999999999999999


Q ss_pred             HHHHhhcCC---CCCHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCC-CeEEcChhHHHHHHhhCccc
Q psy2869         157 TFLEKRYSE---DLELDDAVHTAILTLKEGFEGQMTAENIEIGIADEN-GFRRLDVATVRDHLSNIPQS  221 (352)
Q Consensus       157 ~~Le~~~~~---~~s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~-g~~~l~~~ei~~~l~~i~~~  221 (352)
                      ++|++.|++   +|+++|+++++++||+.+.+++  +.++||++++++ ++++++++||++++.+++++
T Consensus       171 ~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~~--~~~iei~ii~~d~~~~~l~~~ei~~~l~~i~~~  237 (241)
T d1rypd_         171 EFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTG--AKNIEITVVKPDSDIVALSSEEINQYVTQIEQE  237 (241)
T ss_dssp             HHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCSC--STTEEEEEEETTTEEEECCHHHHHHHHHHHTHH
T ss_pred             HHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcCC--CCcEEEEEEECCCCEEECCHHHHHHHHHHHHHH
Confidence            999999965   6999999999999999987654  779999999987 59999999999999998544

>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-53  Score=384.71  Aligned_cols=219  Identities=34%  Similarity=0.609  Sum_probs=206.9

Q ss_pred             CCcceehhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC-ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q psy2869           1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILF-EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA   79 (352)
Q Consensus         1 p~Grl~QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~   79 (352)
                      |||||+|||||++|+++|+|+|||+++||||||+|++.+..+. +++.+|||+|+++++|++||..+|++.+++.++.++
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 888999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHH
Q psy2869          80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTF  158 (352)
Q Consensus        80 ~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~  158 (352)
                      +.|+++++.+++++.+++++++++|.+++++++|||+|++||+|||++ +|+||.+||+|++.+++++|+|+|+..++++
T Consensus        91 ~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~~~a~G~gs~~a~~~  170 (243)
T d1irud_          91 QSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREF  170 (243)
T ss_dssp             HHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEESTTHHHHHHH
T ss_pred             HHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcEEEEeccEEEECCChHHHHHH
Confidence            999999999999999999999999999999999999999999999976 8999999999999999999999999999999


Q ss_pred             HHhhcCCCC--CHHHHHHHHHHHHHHhhccCCCCCceEEEEEeCC-CeEEcChhHHHHHHhhCccc
Q psy2869         159 LEKRYSEDL--ELDDAVHTAILTLKEGFEGQMTAENIEIGIADEN-GFRRLDVATVRDHLSNIPQS  221 (352)
Q Consensus       159 Le~~~~~~~--s~~eai~l~~~~l~~~~~~d~~~~~iei~ii~~~-g~~~l~~~ei~~~l~~i~~~  221 (352)
                      ||+.|+++|  +.++++++++++|.....  .++.+++|++++++ ++++++++||++++.+++.+
T Consensus       171 Lek~~~~~~~~~~~~~i~~ai~~l~~~~~--~~~~~vei~ii~k~~~~~~l~~~eI~~~l~~i~~~  234 (243)
T d1irud_         171 LEKNYTDEAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKE  234 (243)
T ss_dssp             HTTTCCSSTTCSHHHHHHHHHHHHHTTSC--TTSTTCCEEEEESSSCEECCCHHHHHHHTTTTTTT
T ss_pred             HHHhcccCCCccHHHHHHHHHHHHHHHhc--CCCCcEEEEEEECCCCEEECCHHHHHHHHHHHHhh
Confidence            999999988  778899998888876554  45779999999986 69999999999999998543

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.4e-45  Score=322.32  Aligned_cols=196  Identities=20%  Similarity=0.355  Sum_probs=189.6

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|.+.+.+  +++.+|||+|+++++|+++|..+|++.+.+.++.+++.|++.++.+++++.++
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            7999999999999999999998877  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++++|.++    .+||++++++||+|+++|+||.+||+|++.+++++|+|+|+++++++||+.|+++||++||++++
T Consensus        81 ~~l~~~~~~~~----~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~  156 (201)
T d1irul_          81 KLLANMVYQYK----GMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLA  156 (201)
T ss_dssp             HHHHHHHHTTT----TSCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHH
T ss_pred             HHHHHHhhhcc----CCCceEEEEEEEEecCCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHH
Confidence            99999998877    57999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhC
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNI  218 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i  218 (352)
                      ++||+.+.++| .++++++|++|+++|+++++++|+.++.+++
T Consensus       157 ~~~l~~~~~~d~~sg~~~~v~~i~~~G~~~i~~~ev~~~~~~~  199 (201)
T d1irul_         157 RRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHEKY  199 (201)
T ss_dssp             HHHHHHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCCceEEEEEeCCceEEECHHHHHHHHHhh
Confidence            99999999999 9999999999999999999999999988765

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=5.3e-45  Score=326.58  Aligned_cols=203  Identities=21%  Similarity=0.352  Sum_probs=181.3

Q ss_pred             hhhhHHHHhcCCCcEEEEEeCCEEEEEEecCCCCCcCccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHh
Q psy2869           7 QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVY   86 (352)
Q Consensus         7 QveYa~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~   86 (352)
                      |||||+||+++|+|+|||+++||||||+|+|.      ++.+||++|++||+|+++|+.+|++.|+++++.+++.|++++
T Consensus         8 q~eyA~~av~~GtT~vgi~~~~GVvlaad~r~------~s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~   81 (227)
T d1q5qa_           8 RSELARKGIARGRSVVVLTFRDGVLFVAENPS------TALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSY   81 (227)
T ss_dssp             HHHHHHHHHHTSCCEEEEECSSEEEEEECCSC------SSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhcCCCEEEEEECCEEEEEEccCC------CCcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999985      345899999999999999999999999999999999999999


Q ss_pred             CC-CCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeC----CCCEEEEECCCCcEEecc-eEEecCCCchhHHHHH
Q psy2869          87 QE-NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN----KRPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLE  160 (352)
Q Consensus        87 ~~-~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~----~gp~Ly~iDp~G~~~~~~-~~a~G~gs~~~~~~Le  160 (352)
                      +. +++++.+++.++++++.... .++|||+|++||||||.    ++|+||.+||+|++.+++ +++.|.+++.++++|+
T Consensus        82 ~~~~~~~~~la~~~~~~~~~~~~-~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~Le  160 (227)
T d1q5qa_          82 DRRDVTGRSLANAYAQTLGTIFT-EQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMR  160 (227)
T ss_dssp             CGGGCCHHHHHHHHHHHHHHHHH-HSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHH-hcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHHHHHHH
Confidence            84 68999999999988764333 35799999999999986    379999999999998876 4666777889999999


Q ss_pred             hhcCCCCCHHHHHHHHHHHHHHhhccC-----CCCCceEEEEEeCCC----eEEcChhHHHHHHh
Q psy2869         161 KRYSEDLELDDAVHTAILTLKEGFEGQ-----MTAENIEIGIADENG----FRRLDVATVRDHLS  216 (352)
Q Consensus       161 ~~~~~~~s~~eai~l~~~~l~~~~~~d-----~~~~~iei~ii~~~g----~~~l~~~ei~~~l~  216 (352)
                      +.|+++||++||++++++||+.+.+++     +++.++||++++++|    |++++++||+++++
T Consensus       161 ~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~~~fr~l~~~ei~~~l~  225 (227)
T d1q5qa_         161 ESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP  225 (227)
T ss_dssp             HHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSC
T ss_pred             HhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCccceEEcCHHHHHHHhc
Confidence            999999999999999999999998876     356789999999876    99999999998765

>d1yarh1 d.153.1.4 (H:1-203) Proteasome beta subunit (catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=3.9e-44  Score=315.93  Aligned_cols=195  Identities=21%  Similarity=0.389  Sum_probs=186.6

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|.+.+.+  +++.+|||+|+++++|++||..+|++.+.++++.+++.|++.++.+++++.++
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            7999999999999999999988766  88999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      ++++++++.++    .|||++++|+||+|+ +|+||.+||+|++.+++++|+|+|++.++++|++.|+++||++||++++
T Consensus        81 ~~l~~~~~~~~----~~p~~~~~lvaG~d~-~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~  155 (203)
T d1yarh1          81 TLLSNMLNQVK----YMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLV  155 (203)
T ss_dssp             HHHHHHHHHTT----TSCCCEEEEEEEESS-SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHhhc----cCCccceeEEEEEcC-CCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHH
Confidence            99999988776    689999999999986 6999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeC-CCeEEcChhHHHHHHhhC
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADE-NGFRRLDVATVRDHLSNI  218 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~-~g~~~l~~~ei~~~l~~i  218 (352)
                      ++||+.+.++| .++++++|++|++ +|+++++++||+++++++
T Consensus       156 ~~~l~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei~~~~~~~  199 (203)
T d1yarh1         156 IRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKL  199 (203)
T ss_dssp             HHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCCeEEEEEEECCCCEEECCHHHHHHHHHHh
Confidence            99999999999 8999999999985 589999999999999875

>d1j2qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=1.1e-43  Score=312.61  Aligned_cols=197  Identities=22%  Similarity=0.381  Sum_probs=188.8

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|.+.+.+  +++.+|||+|+++++|+++|..+|++.+.++++.+++.|++.++.+++++.++
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            7999999999999999999987766  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEec-ceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAW-KATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++++|.++    .|||++++|+||+|+++|+||.+||+|+..++ .++|+|+|+.+++++|++.|+++||++||+++
T Consensus        81 ~~~~~~~~~~~----~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l  156 (202)
T d1j2qh_          81 TLTSNLLNSYR----YFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL  156 (202)
T ss_dssp             HHHHHHHHHTT----TSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHhhhc----ccceeeEEEEEEEcCCCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHH
Confidence            99999999988    57999999999999999999999999998776 58999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhCc
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNIP  219 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~  219 (352)
                      +++||..+.++| .++++++|++|+++|+++++++|+++++.+++
T Consensus       157 ~~~al~~~~~~d~~~g~~v~v~~i~~~g~~~~~~~ei~~~l~~~~  201 (202)
T d1j2qh_         157 AVRAIYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVEQILAKFR  201 (202)
T ss_dssp             HHHHHHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHHHHGGGTT
T ss_pred             HHHHHHHHHHhcCCCCCeEEEEEEECCCEEEeCHHHHHHHHHHhh
Confidence            999999999999 89999999999999999999999999998875

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.8e-44  Score=313.68  Aligned_cols=191  Identities=22%  Similarity=0.313  Sum_probs=183.6

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      +|+|||+++||||||+|+|.+.|.+  .++.+|||+|++|++|+++|..+|++.+.+.++.+++.|+++++.+++++.++
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            6899999999999999999999988  68899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCC--CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNK--RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH  174 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~--gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~  174 (352)
                      +++++.++.++++  .|||++++||||||+.  +|+||.+||+|++.+++++++|+|+.+++++|++.|+++||++||++
T Consensus        82 ~~i~~~~~~~~~~--~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~  159 (198)
T d1rypk_          82 SFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLD  159 (198)
T ss_dssp             HHHHHHHHHHTTS--SSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHHHHhc--ccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHHHHHH
Confidence            9999999887754  7999999999999973  89999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHH
Q psy2869         175 TAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATV  211 (352)
Q Consensus       175 l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei  211 (352)
                      ++++||+.+.++| .++++++|++|+++|+++++++++
T Consensus       160 l~~~~l~~~~~~d~~s~~~~~v~vi~~dG~~~~~~~~~  197 (198)
T d1rypk_         160 LLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQA  197 (198)
T ss_dssp             HHHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCCSC
T ss_pred             HHHHHHHHHHHhcCcCCCcEEEEEEcCCCeEEcchhcc
Confidence            9999999999999 899999999999999999998875

>d1rypl_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=8.3e-44  Score=315.92  Aligned_cols=200  Identities=15%  Similarity=0.256  Sum_probs=190.5

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+|+||||||+|+|.+++.+  .++.+|||+|+++++|+++|..+|++.+++.++.+++.|++.++.+++++.++
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            7999999999999999999998877  78899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++++|.++    .+|++++.+++|+|++ +|+||.+||+|++.+++++|+|+|+++++++||+.|+++||++||+++
T Consensus        81 ~~ls~~~~~~~----~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l  156 (212)
T d1rypl_          81 KILSNLVYQYK----GAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  156 (212)
T ss_dssp             HHHHHHHHHTT----TSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHhc----cCCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHHH
Confidence            99999998776    4689999999999876 899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHHHHhhCccch
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i~~~~  222 (352)
                      +++||+.+.+|| .++++++|++|+++|+++++++||.+++.++.+..
T Consensus       157 ~~~al~~~~~rd~~sg~~v~v~vi~~~g~~~~~~~ev~~~~~~~~~~~  204 (212)
T d1rypl_         157 GKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEE  204 (212)
T ss_dssp             HHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCceEEEEEcCCceEEeCHHHHHHHHHHHHHhh
Confidence            999999999999 99999999999999999999999999888885443

>d1ryph_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.4e-43  Score=311.37  Aligned_cols=194  Identities=14%  Similarity=0.232  Sum_probs=181.6

Q ss_pred             HhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy2869          14 AVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (352)
Q Consensus        14 av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (352)
                      .+++|+|+|||+++||||||+|+|.+.+.+  +++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++.+ +
T Consensus         5 ~v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~   83 (205)
T d1ryph_           5 EVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-S   83 (205)
T ss_dssp             CCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-C
T ss_pred             cccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-c
Confidence            478999999999999999999999998877  7788999999999999999999999999999999999999999965 5


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHH
Q psy2869          92 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELD  170 (352)
Q Consensus        92 ~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~  170 (352)
                      +..+++.++++++.++     +||++++||||+|++ +|+||.+||.|++.+++++|+|+|+.+++++||+.|+++||++
T Consensus        84 ~~~~~~~~~~~~~~~~-----~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~  158 (205)
T d1ryph_          84 TETAASVFKELCYENK-----DNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKE  158 (205)
T ss_dssp             HHHHHHHHHHHHHHTT-----TTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHH
T ss_pred             HHHHHHHHHHHHHhCc-----cCceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhcccCHH
Confidence            7889999999887643     799999999999975 8999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCe--EEcChhHHHH
Q psy2869         171 DAVHTAILTLKEGFEGQ-MTAENIEIGIADENGF--RRLDVATVRD  213 (352)
Q Consensus       171 eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~--~~l~~~ei~~  213 (352)
                      ||++++++||+.+.++| .++++++|++|+++|+  +.+.|+|+++
T Consensus       159 ea~~l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~~~~~e~~~  204 (205)
T d1ryph_         159 ETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQ  204 (205)
T ss_dssp             HHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECHHHHTC
T ss_pred             HHHHHHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEEecCcccccc
Confidence            99999999999999999 8999999999999995  4578898864

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=8.6e-42  Score=300.66  Aligned_cols=191  Identities=15%  Similarity=0.221  Sum_probs=181.8

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|.+.|.+  +++.+||++|++|++++++|..+|++.+.+.++.+++.|+++++.+++++.++
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            7999999999999999999998877  78899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +++++.++.++     +||++++|++|+|++ +|+||.+||.|++.+++++++|+|+.+++++|++.|+++|+++||+++
T Consensus        81 ~~l~~~l~~~~-----~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l  155 (202)
T d1iruh_          81 SLFKEMCYRYR-----EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQF  155 (202)
T ss_dssp             HHHHHHHHHTT-----TTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhc-----cceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHH
Confidence            99999998764     599999999999985 899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCe--EEcChhHHHHH
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGF--RRLDVATVRDH  214 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~--~~l~~~ei~~~  214 (352)
                      +++||..+.++| .++++++|++|+++|+  +.+++||+.++
T Consensus       156 ~~~al~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~  197 (202)
T d1iruh_         156 TANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKF  197 (202)
T ss_dssp             HHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCC
T ss_pred             HHHHHHHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhh
Confidence            999999999999 8999999999999995  55999887653

>d1irui_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=9.5e-42  Score=304.27  Aligned_cols=190  Identities=18%  Similarity=0.240  Sum_probs=182.2

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+|+||||||+|+|.+++.+  +++.+||++|++|++|+++|..+|++.+.+.++.+++.|+++++.+++++.++
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            7999999999999999999999988  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      ++++++++.++     +|+++++|+||+|++||+||.+||.|++.+++++|+|+|+.+++++|++.|+++||++||++++
T Consensus        81 ~~l~~~~y~~~-----~p~~~~~ivaG~D~~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~  155 (220)
T d1irui_          81 RMLKQMLFRYR-----GYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLV  155 (220)
T ss_dssp             HHHHHHHHHTT-----TCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHH
T ss_pred             HHHHhhhhhcc-----cccceeEEEEEEeCCCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHH
Confidence            99999997543     7999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHHH
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVRD  213 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~~  213 (352)
                      ++||+.+.++| .++++++|++|+++|++.+.+.+++.
T Consensus       156 ~~al~~~~~~D~~sg~~i~i~vitkdg~~~~~~~~~~~  193 (220)
T d1irui_         156 SEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPN  193 (220)
T ss_dssp             HHHHHHHHHHCTTCCSCEEEEEEETTEEECCSEEECCC
T ss_pred             HHHHHHhhccCCCCCCcEEEEEEECCCeEEeCcccccc
Confidence            99999999999 99999999999999999998887653

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=6e-42  Score=308.19  Aligned_cols=200  Identities=14%  Similarity=0.225  Sum_probs=185.1

Q ss_pred             HHHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHh---
Q psy2869          12 LAAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVY---   86 (352)
Q Consensus        12 ~~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~---   86 (352)
                      ++++..|+|+|||+++||||||+|+|.+.+.+  .++.+|||+|++|++|+++|..+|++.+.+.++.++..|++++   
T Consensus         2 ~~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~   81 (233)
T d1ryp2_           2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             CCCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCC
Confidence            46788999999999999999999999987655  7888999999999999999999999999999999999998876   


Q ss_pred             --CCCCCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhc
Q psy2869          87 --QENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRY  163 (352)
Q Consensus        87 --~~~i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~  163 (352)
                        +..++++.+++++++.++..  +..+|||+++++|+|+|++ +|+||.+||+|++.+++++|+|+|+++++++||+.|
T Consensus        82 ~~~~~~~~~~~a~~l~~~~y~~--~~~~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~  159 (233)
T d1ryp2_          82 DAEEALEPSYIFEYLATVMYQR--RSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHH--HHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             CCCcccCHHHHHHHHHHHHHhh--ccccCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHH
Confidence              56789999999999988554  4568999999999999987 688999999999999999999999999999999999


Q ss_pred             C-----CCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCC-CeEEcChhHHHH
Q psy2869         164 S-----EDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADEN-GFRRLDVATVRD  213 (352)
Q Consensus       164 ~-----~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~-g~~~l~~~ei~~  213 (352)
                      +     |+|+++||++++++||+.+.+|| .++++++|++|++| |++.+.++++++
T Consensus       160 ~~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~g~~~~~~~~ie~  216 (233)
T d1ryp2_         160 DRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVEN  216 (233)
T ss_dssp             CSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCS
T ss_pred             hhcccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCCCEEECChhcchh
Confidence            8     68999999999999999999999 99999999999997 699999999865

>d1rypi_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.3e-40  Score=293.19  Aligned_cols=185  Identities=17%  Similarity=0.225  Sum_probs=174.1

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|.+.+.+  +++.+|||+|+++++|+++|..+|++.+.+.++.+++.|++.++.++++..++
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            7999999999999999999998877  77889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTA  176 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l~  176 (352)
                      +++++.++.+     .+||++++++||+|++||+||.+||+|++.+++++|+|+|+++++++|++.|+++||++||++++
T Consensus        81 ~~l~~~~~~~-----~~p~~~~~l~aG~d~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l~  155 (222)
T d1rypi_          81 QMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLA  155 (222)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHH
T ss_pred             HHHHHHHHhh-----hhccceeEEEEEEcCCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHHH
Confidence            9999987653     47999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccC-CCCCceEEEEEeCCC-eEEcCh
Q psy2869         177 ILTLKEGFEGQ-MTAENIEIGIADENG-FRRLDV  208 (352)
Q Consensus       177 ~~~l~~~~~~d-~~~~~iei~ii~~~g-~~~l~~  208 (352)
                      ++||+.+.++| .++++++|+++++++ .+.+.+
T Consensus       156 ~~al~~a~~~D~~sg~~i~i~vi~~~~~~~~~~~  189 (222)
T d1rypi_         156 SDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRN  189 (222)
T ss_dssp             HHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEE
T ss_pred             HHHHHHHhcccCCCCCcEEEEEEEcCCCeEEecC
Confidence            99999999999 999999999998775 444433

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.1e-40  Score=296.61  Aligned_cols=198  Identities=13%  Similarity=0.162  Sum_probs=183.4

Q ss_pred             HHhcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHH-hCCC
Q psy2869          13 AAVEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLV-YQEN   89 (352)
Q Consensus        13 ~av~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~-~~~~   89 (352)
                      .++.+|+|+|||+++||||||+|+|.+.+.+  .++.+||++|+++++|+++|..+|++.+.+.++.++..++.. ++.+
T Consensus         3 ~~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T d1iru2_           3 NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHS   82 (217)
T ss_dssp             SCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             CCcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCC
Confidence            4567899999999999999999999988766  788999999999999999999999999999999999887754 5789


Q ss_pred             CCHHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcC--CCC
Q psy2869          90 IPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS--EDL  167 (352)
Q Consensus        90 i~~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~--~~~  167 (352)
                      ++++.+++++++.++.++  ...|||++++|++|+|+++|+||.+||+|++.+++++|+|+|+.+++++|++.|+  ++|
T Consensus        83 ~~v~~~a~~l~~~~y~~~--~~~~p~~~~~li~G~d~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~l  160 (217)
T d1iru2_          83 YSPRAIHSWLTRAMYSRR--SKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVL  160 (217)
T ss_dssp             CCHHHHHHHHHHHHHHHH--HTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCC
T ss_pred             CCHHHHHHHHHHHHHHhc--cccCcccceEEEEEEcCCCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCC
Confidence            999999999999885544  5689999999999999999999999999999999999999999999999999664  899


Q ss_pred             CHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHHH
Q psy2869         168 ELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATVR  212 (352)
Q Consensus       168 s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei~  212 (352)
                      |.+||++++++||+.+.+|| .++++++|++|+++|+++..|.+++
T Consensus       161 t~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G~~~~~~~~~~  206 (217)
T d1iru2_         161 SQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTE  206 (217)
T ss_dssp             CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCC
T ss_pred             CHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCCCEEEcCCeecc
Confidence            99999999999999999999 9999999999999999988887764

>d1iruj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=7.9e-40  Score=288.46  Aligned_cols=186  Identities=16%  Similarity=0.250  Sum_probs=175.7

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCH
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPT   92 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~   92 (352)
                      .-+|+|+|||+++||||||+|+|.+.+.+  .++.+|||+|++|++|+++|..+|++.+.++++.+++.|++.++.++++
T Consensus         4 ~~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1iruj_           4 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   83 (204)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             eeCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccch
Confidence            35899999999999999999999999987  7888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC--CCEEEEECCCCcEEec-ceEEecCCCchhHHHHHhhcCCCCCH
Q psy2869          93 QQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK--RPYLYQCDPSGAYFAW-KATAMGRNYVNGKTFLEKRYSEDLEL  169 (352)
Q Consensus        93 ~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~--gp~Ly~iDp~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~  169 (352)
                      +.+++++++.+|.++    ++||+|++||||+|++  +|.+|.+||.|....+ .++++|+|+++++++|++.|+++||+
T Consensus        84 ~~~a~~l~~~~~~~~----~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~  159 (204)
T d1iruj_          84 YTLMSMVANLLYEKR----FGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDP  159 (204)
T ss_dssp             HHHHHHHHHHHHTTT----TSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHHHHhh----hccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCCCH
Confidence            999999999998765    6799999999999976  5789999999987666 57999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeE
Q psy2869         170 DDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFR  204 (352)
Q Consensus       170 ~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~  204 (352)
                      +||++++++||+.+.++| .++++++|++|+++|++
T Consensus       160 ~ea~~l~~~al~~a~~rd~~sg~~~~v~ii~k~gi~  195 (204)
T d1iruj_         160 DHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKIT  195 (204)
T ss_dssp             HHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEE
T ss_pred             HHHHHHHHHHHHHHHhhcccCCCcEEEEEEeCCCEE
Confidence            999999999999999999 99999999999999965

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=1e-39  Score=291.60  Aligned_cols=203  Identities=17%  Similarity=0.194  Sum_probs=188.6

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|.+++.+  .++.+||++|++|++|+++|..+|++.+.+.++.+++.|++.++.+++++.++
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            7999999999999999999998877  78889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeC------CCCEEEEECCCCcEEec--ceEEecCCCchhHHHHHhhcCCCCC
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDN------KRPYLYQCDPSGAYFAW--KATAMGRNYVNGKTFLEKRYSEDLE  168 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~------~gp~Ly~iDp~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~s  168 (352)
                      +++++.+|.+++. ..+|+++.++++|+|.      .+|+||.+||+|+..++  +++|+|+|+.+++++||+.|+++||
T Consensus        81 ~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt  159 (224)
T d1q5qh_          81 NRLASMVRGNLGA-AMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSD  159 (224)
T ss_dssp             HHHHHHHHTTHHH-HTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHhhcc-cccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCC
Confidence            9999999988764 4789999999988873      37999999999998776  6799999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhccC-CCCC-------ceEEEEEeCCCeEEcChhHHHHHHhhCccch
Q psy2869         169 LDDAVHTAILTLKEGFEGQ-MTAE-------NIEIGIADENGFRRLDVATVRDHLSNIPQSV  222 (352)
Q Consensus       169 ~~eai~l~~~~l~~~~~~d-~~~~-------~iei~ii~~~g~~~l~~~ei~~~l~~i~~~~  222 (352)
                      ++||++++++||+.+.++| .+++       ++++++++++|+++++++|++++++++..++
T Consensus       160 ~~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~~~g~~~l~~~ei~~~~~~~~~~~  221 (224)
T d1q5qh_         160 EETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAER  221 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEeCCcEEEcCHHHHHHHHHHHHHHH
Confidence            9999999999999999999 7765       4789999999999999999999999986554

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.7e-39  Score=282.75  Aligned_cols=184  Identities=17%  Similarity=0.200  Sum_probs=173.7

Q ss_pred             cCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy2869          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (352)
Q Consensus        16 ~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (352)
                      .+|+|+|||+++||||||+|+|.+.+.+  .++.+|||++ ++++|+++|..+|++.+.++++.+++.|+++++.+++++
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            5799999999999999999999999877  7888999999 599999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC--CCEEEEECCCCcEEecc-eEEecCCCchhHHHHHhhcCCCCCHH
Q psy2869          94 QLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK--RPYLYQCDPSGAYFAWK-ATAMGRNYVNGKTFLEKRYSEDLELD  170 (352)
Q Consensus        94 ~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~--gp~Ly~iDp~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~  170 (352)
                      .+++++++.+|.++    .+||+++++++|||+.  .|+||.+||+|++.+++ ++++|+|+.+++++|++.|+++||++
T Consensus        85 ~la~~l~~~l~~~~----~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~  160 (204)
T d1rypj_          85 TFTQLVSSSLYERR----FGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPE  160 (204)
T ss_dssp             HHHHHHHHHHHTTT----TSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHH
T ss_pred             HHHHHHHHHHHhhc----ccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccCCCHH
Confidence            99999999998765    5799999999999964  48999999999998875 88889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeE
Q psy2869         171 DAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFR  204 (352)
Q Consensus       171 eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~  204 (352)
                      ||++++++||..+.++| .++++++|++|+++|++
T Consensus       161 ea~~l~~~al~~a~~~d~~sg~~~~v~ii~kdg~~  195 (204)
T d1rypj_         161 DLFETISQALLNAADRDALSGWGAVVYIIKKDEVV  195 (204)
T ss_dssp             HHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEE
T ss_pred             HHHHHHHHHHHHHHHhcCccCCeEEEEEEECCceE
Confidence            99999999999999999 89999999999999954

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=3.1e-39  Score=288.15  Aligned_cols=187  Identities=21%  Similarity=0.291  Sum_probs=173.3

Q ss_pred             hcCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhC-CCCC
Q psy2869          15 VEAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQ-ENIP   91 (352)
Q Consensus        15 v~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~   91 (352)
                      +.+|+|+|||+++||||||+|+|.+.+.+  .++.+||++|++|++++++|..+|++.+.++++.+++.|++.++ .+++
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            47899999999999999999999999887  77889999999999999999999999999999999999998876 5688


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcC------
Q psy2869          92 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS------  164 (352)
Q Consensus        92 ~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~------  164 (352)
                      +..++++++..++..    ..|||+++++|+|+|++ +|+||.+||+|++.+++++++|+|+++++++||+.|+      
T Consensus        86 ~~~~~~~~~~~~~~~----~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~  161 (222)
T d1ryp1_          86 INSAARNIQHLLYGK----RFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYE  161 (222)
T ss_dssp             HHHHHHHHHHHHHTT----TTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBC
T ss_pred             HHHHHHHHHHHHHhh----hhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhccccccC
Confidence            888888877766543    47999999999999987 5899999999999999999999999999999999997      


Q ss_pred             -----------CCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEE
Q psy2869         165 -----------EDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRR  205 (352)
Q Consensus       165 -----------~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~  205 (352)
                                 ++||++||++++++||..+.++| .++++++|++|++||+++
T Consensus       162 ~~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~iitkdGv~~  214 (222)
T d1ryp1_         162 PGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRK  214 (222)
T ss_dssp             TTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEE
T ss_pred             cccchhhhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEeCCCEEE
Confidence                       68999999999999999999999 899999999999999754

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.1e-38  Score=278.42  Aligned_cols=191  Identities=20%  Similarity=0.264  Sum_probs=181.7

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ++||||+++||||||+|+|.+.+..  +++.+|||+|+++++++++|..+|++.+.++++.+++.|+..++.+++++.++
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            6899999999999999999998888  67889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +.+++.++.+.+.  .+|++++++++|+|++ +|+||.+||.|.+..++++++|+|+++++++|++.|+++|+++||+++
T Consensus        82 ~~l~~~~~~~~~~--~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l  159 (199)
T d1iruk_          82 NFTRRNLADCLRS--RTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVEL  159 (199)
T ss_dssp             HHHHHHHHHHHTS--SSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHhhc--cCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHH
Confidence            9999999877644  7899999999999986 799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEeCCCeEEcChhHH
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIADENGFRRLDVATV  211 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~l~~~ei  211 (352)
                      +++||..+.++| .++++++|++|+++|++.+++..+
T Consensus       160 ~~~al~~~~~~d~~sg~~~~v~vv~~~g~~~~~~~~~  196 (199)
T d1iruk_         160 LRKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNISF  196 (199)
T ss_dssp             HHHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBCC
T ss_pred             HHHHHHHHHHhcCCcCCceEEEEEcCCCeEEcCCccC
Confidence            999999999999 999999999999999998877543

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2e-37  Score=274.00  Aligned_cols=186  Identities=20%  Similarity=0.234  Sum_probs=176.8

Q ss_pred             cCCCcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHH
Q psy2869          16 EAGAPSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQ   93 (352)
Q Consensus        16 ~~G~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~   93 (352)
                      .+|+|+|||+++||||||+|+|.+.+.+  .++.+||++|++|++++++|..+|++.+.++++.+++.|+..++.++++.
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            5899999999999999999999999877  77889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCC-CCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcC--------
Q psy2869          94 QLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS--------  164 (352)
Q Consensus        94 ~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~--------  164 (352)
                      .+++++++.+|.++    .+|++++.+++|+|.+ +|++|.+||.|++.+++++++|+|+.+++++||+.|+        
T Consensus        87 ~~~~~~~~~~~~~~----~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~  162 (213)
T d1iru1_          87 AIAAMLSTILYSRR----FFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVE  162 (213)
T ss_dssp             HHHHHHHHHHHTTT----TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCC
T ss_pred             HHHHHHHHHHHHHH----hhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhccc
Confidence            99999999998876    5799999999999987 7899999999999999999999999999999998765        


Q ss_pred             -CCCCHHHHHHHHHHHHHHhhccC-CCCCceEEEEEeCCCeEE
Q psy2869         165 -EDLELDDAVHTAILTLKEGFEGQ-MTAENIEIGIADENGFRR  205 (352)
Q Consensus       165 -~~~s~~eai~l~~~~l~~~~~~d-~~~~~iei~ii~~~g~~~  205 (352)
                       ++||++||++++++||..+.++| .++++++|++|+++|++.
T Consensus       163 ~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G~~~  205 (213)
T d1iru1_         163 HVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIRE  205 (213)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEE
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCCEEE
Confidence             68999999999999999999999 899999999999999764

>d1irug_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.94  E-value=3.1e-28  Score=219.47  Aligned_cols=120  Identities=26%  Similarity=0.338  Sum_probs=115.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .++|+.+|++.|.+.+|.++.+|++++|++||++.+++.|++++|.|||+++.|||+|++||+|+|+ +||+||++||+|
T Consensus        76 ~~sG~~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G  155 (245)
T d1irug_          76 AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSG  155 (245)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTC
T ss_pred             EeccCchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCc
Confidence            4599999999999999999999999999999999999999999999999999999999999999996 579999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      ++.+++++|+|+|++.|+++||+.|+++|+..++.+++..+
T Consensus       156 ~~~~~~~~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~  196 (245)
T d1irug_         156 VSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKI  196 (245)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHH
T ss_pred             eEEeeeEEEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999888654

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.93  E-value=1.4e-27  Score=213.62  Aligned_cols=120  Identities=23%  Similarity=0.246  Sum_probs=113.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|+.+|++.+++.+|.++.+|+.+++++|+++.+|+.|++++|.||++++.||||+++||+|+|++||+||++||+|+
T Consensus        72 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~g~~Ly~idp~G~  151 (233)
T d1rypf_          72 SLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGN  151 (233)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EEeeccccHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCCCCEEEEEccccc
Confidence            56999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhh----cCCCCCcccccccccc
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKRE----KLRVPNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~----~~~~~~~~~~~~~~~~  351 (352)
                      +.+++++|+|+|++.|+++||+.|    +.+|+..++..++.++
T Consensus       152 ~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~  195 (233)
T d1rypf_         152 VTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEA  195 (233)
T ss_dssp             EEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHH
T ss_pred             eecccEEEecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHH
Confidence            999999999999999999999876    5588888888877654

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.93  E-value=1e-26  Score=209.43  Aligned_cols=164  Identities=26%  Similarity=0.388  Sum_probs=134.0

Q ss_pred             HHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEc----------ChhHHHHHHhhCccchHHHHhhccccccCCccchhH
Q psy2869         173 VHTAILTLKEGFEGQMTAENIEIGIADENGFRRL----------DVATVRDHLSNIPQSVHTAILTLKEGFEGQMTAENI  242 (352)
Q Consensus       173 i~l~~~~l~~~~~~d~~~~~iei~ii~~~g~~~l----------~~~ei~~~l~~i~~~~~~~~~~l~~~~aG~~aD~~~  242 (352)
                      ++-|.++...       ++..-|++..++|+-..          .++... .+.++..++.++       ++|+.+|++.
T Consensus        24 vEYA~kav~~-------gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~-KI~~I~~~i~~~-------~sG~~~D~~~   88 (244)
T d1irua_          24 VEYAFKAINQ-------GGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVT-HLFKITENIGCV-------MTGMTADSRS   88 (244)
T ss_dssp             HHHHHHHHHT-------TCCEEEEEECSSEEEEEEECCCCCSSBCGGGCC-SEEESSSSCEEE-------EEECHHHHHH
T ss_pred             HHHHHHHHHh-------CCccEEEEEcCCEEEEEEecccccccccCCccc-eEEEecCCcEEE-------EecchHHHHH
Confidence            5666666653       33456666666663211          112221 133334444444       4999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCCceeceeEEEec
Q psy2869         243 EIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSGAYFAWKATAMG  321 (352)
Q Consensus       243 l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G~~~~~~~~a~G  321 (352)
                      |.+.+|.++.+|++.++++|+++.+++.+++++|.+|++++.|||+|++||+|||+ +||+||.+||+|++.+++++|+|
T Consensus        89 l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~a~G  168 (244)
T d1irua_          89 QVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAG  168 (244)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEEE
T ss_pred             HHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCccEEecceEecc
Confidence            99999999999999999999999999999999999999999999999999999997 47999999999999999999999


Q ss_pred             CCchHHHHHHHHhhcC--CCCCcccccccccc
Q psy2869         322 RNYVNGKTFLEKREKL--RVPNFCGYHIAESL  351 (352)
Q Consensus       322 ~~s~~a~~~Le~~~~~--~~~~~~~~~~~~~~  351 (352)
                      +|++.|+++||++|++  +|+.+++-+++.++
T Consensus       169 ~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~  200 (244)
T d1irua_         169 VKQTESTSFLEKKVKKKFDWTFEQTVETAITC  200 (244)
T ss_dssp             TTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHH
T ss_pred             CchhHHHHHHHhccccccCCCHHHHHHHHHHH
Confidence            9999999999999955  78889998888765

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.93  E-value=8.1e-27  Score=210.00  Aligned_cols=112  Identities=37%  Similarity=0.554  Sum_probs=107.3

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~dp~G  310 (352)
                      ++||+.+|++.+++.++.++..|++++|++|+++.+++.|++++|.||++++.|||+|++||+|+|++ ||+||++||+|
T Consensus        71 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G  150 (243)
T d1irud_          71 AFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSG  150 (243)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTS
T ss_pred             EEEEchhhHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcE
Confidence            45999999999999999999999999999999999999999999999999999999999999999975 79999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCcc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFC  343 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~  343 (352)
                      ++.+++++|+|+|++.|+++||++|+++|...+
T Consensus       151 ~~~~~~~~a~G~gs~~a~~~Lek~~~~~~~~~~  183 (243)
T d1irud_         151 TYHAWKANAIGRGAKSVREFLEKNYTDEAIETD  183 (243)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHTTTCCSSTTCSH
T ss_pred             EEEeccEEEECCChHHHHHHHHHhcccCCCccH
Confidence            999999999999999999999999999985544

>d1iruf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.92  E-value=5.4e-27  Score=210.47  Aligned_cols=120  Identities=24%  Similarity=0.339  Sum_probs=113.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .+||+.+|++.+++.++.++.+|+.++|++++++.+++.|+++.|.||++++.|||++++||+|||++||+||++||+|+
T Consensus        70 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~gp~Ly~~D~~G~  149 (238)
T d1iruf_          70 SIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSAN  149 (238)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSC
T ss_pred             EEeccchHHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCCCceEEEEcCCCC
Confidence            55999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCC--CCcccccccccc
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRV--PNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~--~~~~~~~~~~~~  351 (352)
                      +.+++++|+|+|++.|+++||++|+++|  +..++.++|.++
T Consensus       150 ~~~~~~~a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~a  191 (238)
T d1iruf_         150 YFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRA  191 (238)
T ss_dssp             EEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             EEeeeeEEECCCchhhHHHHHhhcccccCCCHHHHHHHHHHH
Confidence            9999999999999999999999999866  566777776554

>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=99.92  E-value=3.5e-26  Score=202.97  Aligned_cols=156  Identities=28%  Similarity=0.416  Sum_probs=133.2

Q ss_pred             ceEEEEEeCCCeEEcChhH------HHHHHhhC-ccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCH
Q psy2869         192 NIEIGIADENGFRRLDVAT------VRDHLSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPT  264 (352)
Q Consensus       192 ~iei~ii~~~g~~~l~~~e------i~~~l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~  264 (352)
                      .--|++..++|+-...+..      ......++ +.+.++.+     .++|+.+|++.|.+.+|.++.+|+.++++++++
T Consensus        23 ~t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~~~i~~-----~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   97 (221)
T d1yara1          23 STALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAA-----VTSGLVADARVLVDFARISAQQEKVTYGSLVNI   97 (221)
T ss_dssp             CCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEE-----EEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             CcEEEEEeCCEEEEEEecccCCcccccCccceEEEecCCceE-----EeeeccchHHHHHHHHHHHHHHHHHHcCCcchH
Confidence            4568888888853222211      11112233 33444444     569999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccc
Q psy2869         265 QQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCG  344 (352)
Q Consensus       265 ~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~  344 (352)
                      +.+++.++.++|.+|++++.|||++++|++|+|++||+||++||+|++.+++++|+|+|++.|+++||++|+++|+..+|
T Consensus        98 ~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea  177 (221)
T d1yara1          98 ENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEA  177 (221)
T ss_dssp             HHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHH
T ss_pred             HHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecCCCeEEEEcCCccEEEeeEEEECCchHHHHHHHHHHhhccccHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccC
Q psy2869         345 YHIAESLI  352 (352)
Q Consensus       345 ~~~~~~~~  352 (352)
                      ..+|.++|
T Consensus       178 ~~la~~~l  185 (221)
T d1yara1         178 VTLGIKAL  185 (221)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99887653

>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=99.92  E-value=3.4e-27  Score=211.30  Aligned_cols=120  Identities=22%  Similarity=0.327  Sum_probs=115.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCC-----ccccceeeEEEEEeCCCCeEEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGG-----VRPFGVSLLICGWDNKRPYLYQC  306 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~-----~RP~g~~~ll~G~d~~gp~ly~~  306 (352)
                      .++|+.+|++.|.+.++.++.+|++++|++|+++.+++.|++++|.|||+.+     .|||+|++|++|+|++||+||.+
T Consensus        70 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~gp~Ly~i  149 (234)
T d1irue_          70 AMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHM  149 (234)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEE
T ss_pred             EEeeccchHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCCCEEEEE
Confidence            5599999999999999999999999999999999999999999999999976     69999999999999999999999


Q ss_pred             CCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         307 DPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       307 dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      ||+|++.+++++|+|+|++.|+++||++|+++|+..++.++|.++
T Consensus       150 dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~a  194 (234)
T d1irue_         150 DPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLII  194 (234)
T ss_dssp             CTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             ecCcccceeeeEEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999888765

>d1iruc_ d.153.1.4 (C:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.92  E-value=8.6e-27  Score=210.67  Aligned_cols=120  Identities=38%  Similarity=0.522  Sum_probs=114.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~dp~G  310 (352)
                      .++|+.+|++.+++.+|.++.+|++.++++||++.+++.+++++|.+|++++.|||+|++||+|+|++ ||+||.+||+|
T Consensus        74 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G  153 (250)
T d1iruc_          74 SVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSG  153 (250)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTT
T ss_pred             EeecccchHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEcccc
Confidence            44999999999999999999999999999999999999999999999999999999999999999975 79999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcC-CCCCcccccccccc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKL-RVPNFCGYHIAESL  351 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~-~~~~~~~~~~~~~~  351 (352)
                      ++.+++++|+|+|++.|+++||++|++ +|+..+|..+|.++
T Consensus       154 ~~~~~~~~a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~a  195 (250)
T d1iruc_         154 NYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKV  195 (250)
T ss_dssp             EEEECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHH
T ss_pred             cEeeeeEEEeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHH
Confidence            999999999999999999999999996 79999999888765

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.92  E-value=2.9e-26  Score=206.40  Aligned_cols=120  Identities=25%  Similarity=0.367  Sum_probs=115.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|+.+|++.|++.++.++.+|++.++++++++.+++.++.++|.||++++.|||+|++|++|||++||+||.+||+|+
T Consensus        73 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~gp~Ly~idp~Gs  152 (244)
T d1rypg_          73 VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGS  152 (244)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EEccchhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCCCCEEEEEcCCcc
Confidence            44999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHH---hhcCCCCCcccccccccc
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEK---REKLRVPNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~---~~~~~~~~~~~~~~~~~~  351 (352)
                      +.+++++|+|+|++.|+++||+   .|+++|+..+|.+++..+
T Consensus       153 ~~~~~~~a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~  195 (244)
T d1rypg_         153 YWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKI  195 (244)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHH
T ss_pred             EEecCeEecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Confidence            9999999999999999999996   689999999999888664

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=99.91  E-value=5.2e-26  Score=204.65  Aligned_cols=120  Identities=32%  Similarity=0.436  Sum_probs=115.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|+.+|++.|.+.++.++..|+.+++++++++.+++.+++.+|.+|++++.|||+|++|++|+|+ +|+||.+||+|+
T Consensus        74 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~-~p~Ly~~Dp~G~  152 (243)
T d1j2pa_          74 ATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE-VPKLYETDPSGA  152 (243)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS-SEEEEEECTTCC
T ss_pred             EeeecccHHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC-CceEEEEeccCc
Confidence            4599999999999999999999999999999999999999999999999999999999999999985 599999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.+++++|+|+|++.|+++||+.|+++|+.++|.++|.+++
T Consensus       153 ~~~~~~~a~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l  193 (243)
T d1j2pa_         153 LLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAM  193 (243)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             eeeeeEEEeCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987653

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.91  E-value=2e-25  Score=201.65  Aligned_cols=121  Identities=45%  Similarity=0.604  Sum_probs=114.8

Q ss_pred             cccCCccchhHHHHHHHHHHh-hhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGF-RRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~-~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~  309 (352)
                      .++|+.+|++.|++.++.++. +|+..+++++|++.+++.+++++|.||++++.|||++++||+|+|+ +||+||++||+
T Consensus        74 ~~sG~~~D~~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id~~  153 (250)
T d1rypb_          74 VYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPS  153 (250)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTT
T ss_pred             EeeecccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEcCc
Confidence            349999999999999999986 5999999999999999999999999999999999999999999997 57999999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |++.+++++|+|+|++.|+++||++|+++|+..+|.+++.++|
T Consensus       154 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al  196 (250)
T d1rypb_         154 GSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTL  196 (250)
T ss_dssp             SCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             EEEEEeeEEecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999987653

>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=99.90  E-value=3.6e-24  Score=183.72  Aligned_cols=172  Identities=11%  Similarity=-0.095  Sum_probs=132.8

Q ss_pred             cCCCcEEEEEeCCEEEEEEecCCCCCcC--c-cccccEEEecCc-EEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCC
Q psy2869          16 EAGAPSVGIKASNGIVLATEKKQKTILF--E-DCIHKVEPITDY-IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIP   91 (352)
Q Consensus        16 ~~G~tvIgi~~~dgVvlaad~~~~~~~~--~-~~~~KI~~i~~~-i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~   91 (352)
                      -+|||+|||+++||||||+|+|++.|..  . ...+|+++++++ ++++.+|..+|.+.+.+..+.+.+.++...     
T Consensus         3 ~~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-----   77 (180)
T d2z3ba1           3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNL-----   77 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCH-----
T ss_pred             CCCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhcccc-----
Confidence            3799999999999999999999998865  4 467889999774 888889999999999888877766543222     


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHH
Q psy2869          92 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDD  171 (352)
Q Consensus        92 ~~~la~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~e  171 (352)
                      ...+.............+....++.......|++..++.++..++.|      +.++|+|+.+|+++|++.|+++|+.+|
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~a~GSGs~~A~g~l~~~~~~~~s~~e  151 (180)
T d2z3ba1          78 KRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPDDG------ILAIGSGGNYALAAGRALKKHAGESMS  151 (180)
T ss_dssp             HHHHHHHHHHHHHCTTGGGCCCCEEEECSSCEEEECTTCCEECCSSS------EEEESTTHHHHHHHHHHHHHHHGGGCC
T ss_pred             chhHHHHHHHHhHHHHHHHhhcceeeeeccccccccCCceeeccccc------EEEEcCchHHHHHHHHHHhhcCCCccC
Confidence            22222222222222222223445555666666766677777776665      789999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCCceEEEEE
Q psy2869         172 AVHTAILTLKEGFEGQ-MTAENIEIGIA  198 (352)
Q Consensus       172 ai~l~~~~l~~~~~~d-~~~~~iei~ii  198 (352)
                      |++++++||+.+.++| .++++++|..|
T Consensus       152 A~~l~~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         152 ASEIARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             HHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHHHHHHHHHhhcEEcCCcEEEEEe
Confidence            9999999999999999 99999999876

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.90  E-value=7.2e-25  Score=197.10  Aligned_cols=113  Identities=27%  Similarity=0.326  Sum_probs=107.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~dp~G  310 (352)
                      .++|+.+|++.+.+.+|.++.+|+..++++||++.+++.||+++|.||++++.|||+|++||+|||++ ||+||.+||+|
T Consensus        73 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G  152 (243)
T d1rypa_          73 VVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAG  152 (243)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTS
T ss_pred             EEecCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCCE
Confidence            45999999999999999999999999999999999999999999999999999999999999999965 79999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCG  344 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~  344 (352)
                      ++.+++++|+|+|++.|+++||++|+++|....+
T Consensus       153 ~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~~  186 (243)
T d1rypa_         153 YYVGYKATATGPKQQEITTNLENHFKKSKIDHIN  186 (243)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCC
T ss_pred             EEEecceEEeCccHHHHHHHHHHHhhcccccccc
Confidence            9999999999999999999999999988766543

>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=99.90  E-value=2e-25  Score=200.72  Aligned_cols=120  Identities=22%  Similarity=0.321  Sum_probs=113.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCC------ccccceeeEEEEEeCC-CCeEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLICGWDNK-RPYLY  304 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~------~RP~g~~~ll~G~d~~-gp~ly  304 (352)
                      .++|+.+|++.+++.++.++..|++++++++|++.+++.|++++|.|||+.+      .|||+|++||+|+|++ +|+||
T Consensus        69 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~  148 (242)
T d1rype_          69 AMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLF  148 (242)
T ss_dssp             EEEESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEE
T ss_pred             EEeecchhHHHHHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEE
Confidence            5599999999999999999999999999999999999999999999999864      6899999999999965 59999


Q ss_pred             EECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         305 QCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       305 ~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      ++||+|++.+++++|+|+|++.|+++||++|+++|+..+|..++.++
T Consensus       149 ~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~  195 (242)
T d1rype_         149 HAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKI  195 (242)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             EEcCCCceeccceeecccchHHHHHHHHHhccCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999888765

>d1rypc_ d.153.1.4 (C:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.89  E-value=1.8e-24  Score=194.56  Aligned_cols=164  Identities=30%  Similarity=0.477  Sum_probs=136.3

Q ss_pred             HHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEcC-----------hhHHHHHHhhCccchHHHHhhccccccCCccchh
Q psy2869         173 VHTAILTLKEGFEGQMTAENIEIGIADENGFRRLD-----------VATVRDHLSNIPQSVHTAILTLKEGFEGQMTAEN  241 (352)
Q Consensus       173 i~l~~~~l~~~~~~d~~~~~iei~ii~~~g~~~l~-----------~~ei~~~l~~i~~~~~~~~~~l~~~~aG~~aD~~  241 (352)
                      ++-|.+++..        +.--|++..++|+-...           ....+ .+.++..++.+++       +|+.+|++
T Consensus        21 veya~~ai~~--------G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~-KI~~i~~~i~~~~-------sG~~~D~~   84 (244)
T d1rypc_          21 VEYALESISH--------AGTAIGIMASDGIVLAAERKVTSTLLEQDTSTE-KLYKLNDKIAVAV-------AGLTADAE   84 (244)
T ss_dssp             HHHHHHHHTT--------SCCEEEEEETTEEEEEEECSSCCSSBCSTTCCS-SEEESSSSEEEEE-------EECHHHHH
T ss_pred             HHHHHHHHhc--------CCCEEEEEeCCEEEEEEeCCccCCCcccCCccc-eEEEcCCCeEEEE-------ecccCcHH
Confidence            4556655532        34566777777742221           11111 1334445555555       99999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEECCCCceeceeEEEe
Q psy2869         242 IEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAM  320 (352)
Q Consensus       242 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~dp~G~~~~~~~~a~  320 (352)
                      .+.+.++.++.+|+..++++++++.+++.+++++|.|+++++.|||++++||+|+|++ ||+||.+||+|++.+++++|+
T Consensus        85 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~~~~~a~  164 (244)
T d1rypc_          85 ILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISV  164 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEecCCCcEeeeeeeec
Confidence            9999999999999999999999999999999999999999999999999999999974 699999999999999999999


Q ss_pred             cCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         321 GRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       321 G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |+|++.|+++||++|+++|+..+|..++.+++
T Consensus       165 G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al  196 (244)
T d1rypc_         165 GANTSAAQTLLQMDYKDDMKVDDAIELALKTL  196 (244)
T ss_dssp             STTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHhcccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999987753

>d1rypd_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.89  E-value=4.1e-24  Score=191.86  Aligned_cols=155  Identities=31%  Similarity=0.431  Sum_probs=125.1

Q ss_pred             ceEEEEEeCCCeEEcChhHH-------HHHHhhC-ccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCC
Q psy2869         192 NIEIGIADENGFRRLDVATV-------RDHLSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIP  263 (352)
Q Consensus       192 ~iei~ii~~~g~~~l~~~ei-------~~~l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~  263 (352)
                      ..-|++..++|+-.......       ..-.+++ ..+.++.+     .++|+.+|++.|.+.+|.++..|+.+++++||
T Consensus        29 ~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~-----~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  103 (241)
T d1rypd_          29 TCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVL-----SFSGLNADSRILIEKARVEAQSHRLTLEDPVT  103 (241)
T ss_dssp             CCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEE-----EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             CCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEE-----EeeeccchHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            56677777777432221111       1112233 33334444     45999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC--CCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCC---
Q psy2869         264 TQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLR---  338 (352)
Q Consensus       264 ~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~--~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~---  338 (352)
                      ++.+++.++.++|.||++++.|||+|++|++|+|+  +||+||.+||+|++.+++++|+|+|++.|+++||+.|+++   
T Consensus       104 ~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~  183 (241)
T d1rypd_         104 VEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPP  183 (241)
T ss_dssp             HHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEEESTTHHHHHHHHHTTCCTTSCC
T ss_pred             HHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEEEEeeCeEEECcCHHHHHHHHHHhhhcccCC
Confidence            99999999999999999999999999999999995  4799999999999999999999999999999999999875   


Q ss_pred             CCCcccccccccc
Q psy2869         339 VPNFCGYHIAESL  351 (352)
Q Consensus       339 ~~~~~~~~~~~~~  351 (352)
                      |+..++..+|.++
T Consensus       184 ~t~~e~i~lal~a  196 (241)
T d1rypd_         184 ATVEECVKLTVRS  196 (241)
T ss_dssp             CSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            5555555555443

>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=99.88  E-value=1.5e-23  Score=182.68  Aligned_cols=119  Identities=19%  Similarity=0.198  Sum_probs=111.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC--CCCeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN--KRPYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~--~gp~ly~~dp~  309 (352)
                      .++|+.+|++.|.+.++.++..|+++++++++++.+++.++..++.+++.  .|||++++|++|||+  +||+||.+||+
T Consensus        45 ~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~~P~~~~~liaG~D~~~~~p~L~~id~~  122 (198)
T d1rypk_          45 SFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQIDYL  122 (198)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTS--SSCCCEEEEEEEEETTTTEEEEEEECTT
T ss_pred             EecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHhc--ccccceEEEEEEEecCCCceEEEEeccc
Confidence            56999999999999999999999999999999999999999999887764  699999999999996  37999999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |++.++++.|+|+|+..|+++||++|+++|+..+|.+++..+|
T Consensus       123 G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~l~~~~l  165 (198)
T d1rypk_         123 GTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCV  165 (198)
T ss_dssp             CCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             ccEEecceEEEeccchhhHHHHHhcccccCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999887653

>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=99.88  E-value=2.8e-22  Score=170.15  Aligned_cols=166  Identities=10%  Similarity=-0.080  Sum_probs=131.8

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEEEEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLV   96 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la   96 (352)
                      ||+|||+++||||||+|+|++.|.+  +++.+||++|+++++++.+|..+|.+.+..........+..     .......
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~-----~~~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWG-----GNLTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTT-----TCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhh-----ccchhhH
Confidence            7999999999999999999999888  89999999999999999999999998877766655544332     1222223


Q ss_pred             HHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcC-CCCCHHHHHHH
Q psy2869          97 QRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS-EDLELDDAVHT  175 (352)
Q Consensus        97 ~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~-~~~s~~eai~l  175 (352)
                      ...+..+....     .++....++.+.++++|+++..|+.|.....++.|+|+|+.+|++.|+..++ ++|+   |.++
T Consensus        76 ~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~---a~el  147 (171)
T d1m4ya_          76 VELAKDWRTDR-----VLRRLEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS---AREI  147 (171)
T ss_dssp             HHHHHHHHHCT-----TGGGCCCEEEEECSSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC---HHHH
T ss_pred             HHHHHHHHHhh-----hhcccccccceecCCcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCCC---HHHH
Confidence            33333332222     2233444555667779999999999999999999999999999999998765 5675   7778


Q ss_pred             HHHHHHHhhccC-CCCCceEEEE
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGI  197 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~i  197 (352)
                      +++||+.+.++| .++++++|..
T Consensus       148 ~~~Ai~~A~e~dvyTg~~~~i~~  170 (171)
T d1m4ya_         148 VEKAMTIAGEICIYTNQNIVIEE  170 (171)
T ss_dssp             HHHHHHHHHHHCTTCCSCCEEEE
T ss_pred             HHHHHHHHHhhceEcCCcEEEEE
Confidence            999999999999 9999999864

>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=99.87  E-value=3.2e-23  Score=180.99  Aligned_cols=117  Identities=17%  Similarity=0.250  Sum_probs=111.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|..+|++.+.+.++.+++.|+..++++++++.+++.+++++|.+++    |||+++++++|+|++||+||.+||+|+
T Consensus        44 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~----~p~~~~~lvaG~d~~~~~l~~~d~~G~  119 (201)
T d1irul_          44 TMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDKRGPGLYYVDSEGN  119 (201)
T ss_dssp             ECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTT----SCCCBEEEEEEECSSSEEEEEEESSSC
T ss_pred             EEcCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhhhccC----CCceEEEEEEEEecCCceEEEEccCce
Confidence            4599999999999999999999999999999999999999999998875    599999999999999999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+..+|.+++.++|
T Consensus       120 ~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~~~~l  160 (201)
T d1irul_         120 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAI  160 (201)
T ss_dssp             EEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHH
T ss_pred             EEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988753

>d1irub_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.87  E-value=1.7e-23  Score=186.89  Aligned_cols=128  Identities=55%  Similarity=0.821  Sum_probs=120.6

Q ss_pred             hCccchHHHHhhccccccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEE
Q psy2869         217 NIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGW  296 (352)
Q Consensus       217 ~i~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~  296 (352)
                      ++..+..+++       +|+.+|++.|.+.++.++.+|+.+++++++++.+++.++.++|.++++...|||+++++++|+
T Consensus        66 ~i~~~i~~~~-------sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~  138 (233)
T d1irub_          66 PITKHIGLVY-------SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGW  138 (233)
T ss_dssp             ESSSSEEEEE-------EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEE
T ss_pred             EecCceEEEE-------eccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeec
Confidence            4555555555       999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         297 DNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       297 d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      |++||+||.+||+|++.++++.|+|+|++.++++||+.|+++|+.+++.+++.++
T Consensus       139 d~~~~~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~  193 (233)
T d1irub_         139 NEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILT  193 (233)
T ss_dssp             CSSSEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             ccCCceEEEEcCCcceEeccceecCCcHHHHHHHHHhhcccCccHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999888765

>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=99.86  E-value=8.3e-23  Score=178.55  Aligned_cols=116  Identities=15%  Similarity=0.154  Sum_probs=109.3

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      +++|..+|++.|.+.++.++.+|+..++++||++.+++.+++++|.++    .|||++++|++|+|. +|+||.+||+|+
T Consensus        44 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~----~~p~~~~~lvaG~d~-~p~l~~~d~~G~  118 (203)
T d1yarh1          44 TIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVK----YMPYMVQLLVGGIDT-APHVFSIDAAGG  118 (203)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTT----TSCCCEEEEEEEESS-SEEEEEECTTCC
T ss_pred             ecCCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHhhc----cCCccceeEEEEEcC-CCeeEecCCccc
Confidence            459999999999999999999999999999999999999999988775    479999999999986 599999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||++|+++|+.++|.+++.+++
T Consensus       119 ~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~~~~l  159 (203)
T d1yarh1         119 SVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAI  159 (203)
T ss_dssp             EEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             eecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987653

>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=99.86  E-value=4.7e-23  Score=183.16  Aligned_cols=165  Identities=12%  Similarity=0.040  Sum_probs=126.4

Q ss_pred             HHHHHHHHHHHhhccCCCCCceEEEEEeCCCeEEcChhHHHHHHhhC-ccchHHHHhhccccccCCccchhHHHHHHHHH
Q psy2869         172 AVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVATVRDHLSNI-PQSVHTAILTLKEGFEGQMTAENIEIGIADEN  250 (352)
Q Consensus       172 ai~l~~~~l~~~~~~d~~~~~iei~ii~~~g~~~l~~~ei~~~l~~i-~~~~~~~~~~l~~~~aG~~aD~~~l~~~~~~~  250 (352)
                      =++.|.+++..        +.--|++..++|+-...+.... -.+++ ..+.++.+     .++|+.+|++.|++.+|.+
T Consensus         8 q~eyA~~av~~--------GtT~vgi~~~~GVvlaad~r~~-s~~KI~~i~~~i~~-----~~sG~~aD~~~l~~~~r~~   73 (227)
T d1q5qa_           8 RSELARKGIAR--------GRSVVVLTFRDGVLFVAENPST-ALHKVSELYDRLGF-----AAVGKYNEFENLRRAGIVH   73 (227)
T ss_dssp             HHHHHHHHHHT--------SCCEEEEECSSEEEEEECCSCS-SSCSEEEEETTEEE-----EEEECHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--------CCCEEEEEECCEEEEEEccCCC-CcceEEEecCceEE-----EecCchHHHHHHHHHHHHH
Confidence            34555555532        3556777777775333322211 12333 33334433     5699999999999999999


Q ss_pred             HhhhhhhcC-CCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC----CCCeEEEECCCCceeceeEEE-ecCCc
Q psy2869         251 GFRRLDVAT-ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN----KRPYLYQCDPSGAYFAWKATA-MGRNY  324 (352)
Q Consensus       251 ~~~~~~~~~-~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~----~gp~ly~~dp~G~~~~~~~~a-~G~~s  324 (352)
                      +.+|++.++ ++++++.+++.++++++... ..+.|||||++|++|||.    +||+||++||+|++.++++.+ .|+++
T Consensus        74 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~-~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s  152 (227)
T d1q5qa_          74 ADMRGYSYDRRDVTGRSLANAYAQTLGTIF-TEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTT  152 (227)
T ss_dssp             HHHHHHHSCGGGCCHHHHHHHHHHHHHHHH-HHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSH
T ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHHHHH-HhcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCch
Confidence            999999998 57999999999999876533 345799999999999985    469999999999999888755 56678


Q ss_pred             hHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         325 VNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       325 ~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      +.++++||++|+++|+..++.+||..+
T Consensus       153 ~~~~~~Le~~y~~~ms~eea~~la~~a  179 (227)
T d1q5qa_         153 EPIATAMRESYRADLDLEAAVGIAVNA  179 (227)
T ss_dssp             HHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHH
Confidence            899999999999999999999988765

>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=99.86  E-value=6.9e-22  Score=168.08  Aligned_cols=169  Identities=10%  Similarity=-0.070  Sum_probs=126.0

Q ss_pred             CcEEEEEeCCEEEEEEecCCCCCcC--ccccccEEEecCcEEE-EEecChhhHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q psy2869          19 APSVGIKASNGIVLATEKKQKTILF--EDCIHKVEPITDYIGM-VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQL   95 (352)
Q Consensus        19 ~tvIgi~~~dgVvlaad~~~~~~~~--~~~~~KI~~i~~~i~~-~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l   95 (352)
                      ||+|||+++||||||+|+|++.|.+  +++.+||++|++++++ +.+|...+.+.+.+..+.+.+.+      .......
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMH------QGHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHT------TTCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHhh------cCcchhH
Confidence            7999999999999999999999988  8999999999887555 45555555444443332222221      2233334


Q ss_pred             HHHHHHHHHHHhhcCCCccceEEEeEEEEeCCCCEEEEECCCCcEEecceEEecCCCchhHHHHHhhcCCCCCHHHHHHH
Q psy2869          96 VQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT  175 (352)
Q Consensus        96 a~~l~~~~~~~~~~~~~rP~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~eai~l  175 (352)
                      +..++..+....    ..+.....++++.+++++.++..|+.|...+..+.|+|+|+.+|++.|+..++  ++.+||.++
T Consensus        75 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~el  148 (173)
T d1g3ka_          75 AVELAKDWRTDR----ALRKLEAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAHEI  148 (173)
T ss_dssp             HHHHHHHHHHST----TGGGCCCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHHHH
T ss_pred             HHHHHHHHHHhh----hhcccccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHHHH
Confidence            444444443322    33445555555555568999999999999999999999999999999998875  344578999


Q ss_pred             HHHHHHHhhccC-CCCCceEEEEEe
Q psy2869         176 AILTLKEGFEGQ-MTAENIEIGIAD  199 (352)
Q Consensus       176 ~~~~l~~~~~~d-~~~~~iei~ii~  199 (352)
                      +++||+.+.++| .++++++|-.|+
T Consensus       149 a~~Ai~~Aae~dvyTgd~~~i~~~~  173 (173)
T d1g3ka_         149 VEKSLRIAGDICVFTNTNFTIEELP  173 (173)
T ss_dssp             HHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             HHHHHHHHHhhcEEcCCcEEEEECC
Confidence            999999999999 999999998763

>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=99.85  E-value=4.3e-22  Score=173.64  Aligned_cols=117  Identities=19%  Similarity=0.181  Sum_probs=110.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|..+|++.|.+.++.++..|+..++++++++.+++.+++++|.+++    |||++++|++|+|++||+||.+||+|+
T Consensus        44 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~----~p~~~~~lvaG~d~~~~~l~~~d~~G~  119 (202)
T d1j2qh_          44 TTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRY----FPYLVQLLIGGIDSEGKSIYSIDPIGG  119 (202)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTT----SCCCEEEEEEEEETTEEEEEEECTTCC
T ss_pred             EecCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHHHHHHHHHhhhcc----cceeeEEEEEEEcCCCceEEEEeCCCC
Confidence            4599999999999999999999999999999999999999999999885    599999999999999999999999999


Q ss_pred             eecee-EEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWK-ATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~-~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.+++ +.|+|+|++.|+++||++|+++|+..+|..++.++|
T Consensus       120 ~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~al  161 (202)
T d1j2qh_         120 AIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAI  161 (202)
T ss_dssp             EEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             eEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Confidence            88765 889999999999999999999999999998887653

>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=99.84  E-value=7.7e-22  Score=174.49  Aligned_cols=116  Identities=14%  Similarity=0.123  Sum_probs=109.8

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|..+|++.|.+.++.++..|++++|++++++.+++.+++.++.+     .|||++++|++|+|++||+||++||+|+
T Consensus        44 ~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~y~~-----~~p~~~~~ivaG~D~~g~~L~~id~~G~  118 (220)
T d1irui_          44 CGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRY-----RGYIGAALVLGGVDVTGPHLYSIYPHGS  118 (220)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEECSSCEEEEEECTTSC
T ss_pred             EEccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhhhhhc-----ccccceeEEEEEEeCCCcEEEEEeCCCc
Confidence            55999999999999999999999999999999999999999998654     4799999999999999999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +.++++.|+|+|++.|+++||+.|+++|+..+|.++++.+|
T Consensus       119 ~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~~~al  159 (220)
T d1irui_         119 TDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAI  159 (220)
T ss_dssp             EEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHH
T ss_pred             EEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988764

>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=99.84  E-value=1e-21  Score=174.00  Aligned_cols=115  Identities=13%  Similarity=0.089  Sum_probs=108.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      .++|..+|++.|.+.++.++..|+..++.++++..+++.+++.++.+     .|||+++++++|+|++||+||.+||+|+
T Consensus        44 ~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~-----~~p~~~~~l~aG~d~~g~~Ly~id~~G~  118 (222)
T d1rypi_          44 AGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDPTGSHLFSIHAHGS  118 (222)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EecccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHHHHHHHHHHhh-----hhccceeEEEEEEcCCCcEEEEEecCcc
Confidence            45999999999999999999999999999999999999998877543     4799999999999999999999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      +.++++.|+|+|++.|+++||++|+++|+..+|.+++.++
T Consensus       119 ~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l~~~a  158 (222)
T d1rypi_         119 TDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDA  158 (222)
T ss_dssp             EEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHH
T ss_pred             eEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998875

>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=99.84  E-value=1.3e-21  Score=171.98  Aligned_cols=117  Identities=13%  Similarity=0.156  Sum_probs=109.3

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      +++|+.+|++.|++.++.++..|+..++++|+++.+++.+++++|.|++    +|++++.+++|+|+ +||+||.+||+|
T Consensus        44 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~----~p~~~~~~l~G~~~~~g~~Ly~id~~G  119 (212)
T d1rypl_          44 TMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDG  119 (212)
T ss_dssp             ECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTT----SCCCBEEEEEEEETTTEEEEEEEETTC
T ss_pred             EeccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHhcc----CCcceEeeeeEeecCCCCEEEEECCCc
Confidence            5599999999999999999999999999999999999999999988754    48889999999886 479999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+++|+..+|.+++.++|
T Consensus       120 ~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l~~~al  161 (212)
T d1rypl_         120 TRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSI  161 (212)
T ss_dssp             CEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             eEEecceEEEccCcccchhHHHHhccCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987753

>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=99.83  E-value=1.7e-21  Score=170.43  Aligned_cols=115  Identities=10%  Similarity=0.051  Sum_probs=105.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~dp~G  310 (352)
                      .++|+.+|++.|.+.++.++..|+.+++++ ++..+++.++.+++.+     .|||++++|++|+|++ +|+||++||+|
T Consensus        53 ~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-----~~p~~~~~lvaG~d~~~~p~Ly~~d~~G  126 (205)
T d1ryph_          53 CRSGSAADTQAIADIVQYHLELYTSQYGTP-STETAASVFKELCYEN-----KDNLTAGIIVAGYDDKNKGEVYTIPLGG  126 (205)
T ss_dssp             EEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-CHHHHHHHHHHHHHHT-----TTTCCEEEEEEEEETTTEEEEEEECTTS
T ss_pred             eeccchhHHHHHHHHHHHHHHHHHHHcCCc-cHHHHHHHHHHHHHhC-----ccCceEEEEEEeecCCCCcEEEEECCCC
Confidence            559999999999999999999999999965 5788899999887554     4799999999999974 69999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|+..|+++||+.|+++|+..+|.++++++|
T Consensus       127 ~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~al  168 (205)
T d1ryph_         127 SVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSL  168 (205)
T ss_dssp             CCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             cEEecCeEEeecCcHHHHHHHHhhhhcccCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999988764

>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=99.82  E-value=7.1e-21  Score=166.00  Aligned_cols=116  Identities=9%  Similarity=0.036  Sum_probs=109.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~gp~ly~~dp~G  310 (352)
                      .++|+.+|++.+.+.++.++.+|+.+++++++++.+++.+++.++.++     +||++++|++|+|+ ++|+||.+||.|
T Consensus        44 ~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~-----~p~~~~~lvaG~d~~~~~~l~~~d~~g  118 (202)
T d1iruh_          44 CRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYR-----EDLMAGIIIAGWDPQEGGQVYSVPMGG  118 (202)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTT-----TTCCEEEEEEEEETTTEEEEEEECTTS
T ss_pred             EeccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhc-----cceeEEEEEEEeecCCCcEEEEECCCC
Confidence            459999999999999999999999999999999999999999998764     59999999999997 479999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|+..|+++||+.|+++|+..+|.+++.++|
T Consensus       119 ~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l~~~al  160 (202)
T d1iruh_         119 MMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANAL  160 (202)
T ss_dssp             CCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             ceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987764

>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=99.79  E-value=5.5e-20  Score=160.39  Aligned_cols=116  Identities=14%  Similarity=0.039  Sum_probs=107.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC-CC-CeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN-KR-PYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~-~g-p~ly~~dp~  309 (352)
                      +++|..+|++.|.+.++.++.+|++.++.+++++.+++.|++.+|.+++    |||+++++++|+|+ +| |+||++||+
T Consensus        51 ~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~~~----~p~~v~~li~G~d~~~g~~~L~~~D~~  126 (204)
T d1rypj_          51 GITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRF----GPYFVGPVVAGINSKSGKPFIAGFDLI  126 (204)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTT----SCCCEEEEEEEECTTTCCEEEEEECTT
T ss_pred             EecCcchHHHHHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhcc----cceeeeEEEEEEecCCCcceEEEeCCC
Confidence            5699999999999999999999999999999999999999999977654    69999999999996 44 899999999


Q ss_pred             Cceecee-EEEecCCchHHHHHHHHhhcCCCCCcccccccccc
Q psy2869         310 GAYFAWK-ATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESL  351 (352)
Q Consensus       310 G~~~~~~-~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~  351 (352)
                      |++.+++ +.+.|+|++.|++.||+.|+++|+..+|..+++++
T Consensus       127 G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~ea~~l~~~a  169 (204)
T d1rypj_         127 GCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQA  169 (204)
T ss_dssp             CCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHH
T ss_pred             CccccccCcEEeecchHHHHHHHHhccccCCCHHHHHHHHHHH
Confidence            9998886 56778999999999999999999999999988765

>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=99.78  E-value=2.2e-20  Score=166.45  Aligned_cols=118  Identities=12%  Similarity=0.155  Sum_probs=107.0

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhc-----CCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCC-CeEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVA-----TENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQ  305 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~-----~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~g-p~ly~  305 (352)
                      .++|+.+|++.|.+.++.++..|++.+     +++++++.+++.++..+  |++....|||++++|++|+|++| |.||.
T Consensus        52 ~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~--y~~~~~~~P~~~~~liaG~d~~g~~~ly~  129 (233)
T d1ryp2_          52 GISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRY  129 (233)
T ss_dssp             EEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEE
T ss_pred             EeccCchHHHHHHHHHHHHHHHHHHhhCCCCCCcccCHHHHHHHHHHHH--HhhccccCCceeEEEEEEEcCCCCeEEEE
Confidence            559999999999999999999999876     57899999999999865  66667789999999999999865 78999


Q ss_pred             ECCCCceeceeEEEecCCchHHHHHHHHhhc-----CCCCCcccccccccc
Q psy2869         306 CDPSGAYFAWKATAMGRNYVNGKTFLEKREK-----LRVPNFCGYHIAESL  351 (352)
Q Consensus       306 ~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~-----~~~~~~~~~~~~~~~  351 (352)
                      +||+|++.++++.|+|+|++.|+++||+.|+     ++|+.++|..+++.+
T Consensus       130 ~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~ms~eeA~~l~~~a  180 (233)
T d1ryp2_         130 VNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNA  180 (233)
T ss_dssp             EETTCCEECCSEEECTHHHHHHHHHHTTTCCSGGGGGGCCHHHHHHHHHHH
T ss_pred             EcCCCcEEeeeeEEecCccHHHHHHHHHHHhhcccccccCHHHHHHHHHHH
Confidence            9999999999999999999999999999998     578889998888765

>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=99.78  E-value=4e-20  Score=162.94  Aligned_cols=119  Identities=12%  Similarity=0.151  Sum_probs=108.4

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhh-cCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDV-ATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~-~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G  310 (352)
                      .++|+.+|++.|.+.++.++..|+.. ++.+++++.+++.+++.+  |++....|||++++|++|+|+++|+||.+||+|
T Consensus        52 ~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~--y~~~~~~~p~~~~~li~G~d~~~~~l~~~D~~G  129 (217)
T d1iru2_          52 GASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYADGESFLGYVDMLG  129 (217)
T ss_dssp             EEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEEETTEEEEEEECSSC
T ss_pred             EeccccHHHHHHHHHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHH--HHhccccCcccceEEEEEEcCCCcEEEEEecCc
Confidence            56999999999999999999888765 569999999999999865  777778899999999999998889999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhc--CCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREK--LRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~--~~~~~~~~~~~~~~~~  352 (352)
                      ++.++++.|+|+|++.|+++||+.|+  ++|+..+|.+++++++
T Consensus       130 ~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~lt~~ea~~l~~~al  173 (217)
T d1iru2_         130 VAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCM  173 (217)
T ss_dssp             CEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHHHHHHHHHH
T ss_pred             eeEeeeEEeccCcHHHHHHHHHHHhcccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999876  6799999999887653

>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=99.78  E-value=9.1e-20  Score=161.11  Aligned_cols=116  Identities=13%  Similarity=0.096  Sum_probs=101.1

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcC-CCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCC-CeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVAT-ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~g-p~ly~~dp~  309 (352)
                      .++|+.+|++.|.+.++.++..|++.++ +++++..++..++.+    ++....|||++++||+|+|++| |+||.+||+
T Consensus        53 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~p~~~~~li~G~d~~~~~~Ly~~D~~  128 (222)
T d1ryp1_          53 SANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHL----LYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPV  128 (222)
T ss_dssp             EEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHH----HHTTTTSCCCEEEEEEEECTTSCEEEEEECTT
T ss_pred             EeccChHHHHHHHHHHHHHhhhhhhhcCCCCCcHHHHHHHHHHH----HHhhhhhhheeeeeEEEEeCCCCeEEEEECCC
Confidence            5599999999999999999999998876 667877777666554    4556678999999999999875 799999999


Q ss_pred             CceeceeEEEecCCchHHHHHHHHhhc-----------------CCCCCcccccccccc
Q psy2869         310 GAYFAWKATAMGRNYVNGKTFLEKREK-----------------LRVPNFCGYHIAESL  351 (352)
Q Consensus       310 G~~~~~~~~a~G~~s~~a~~~Le~~~~-----------------~~~~~~~~~~~~~~~  351 (352)
                      |++.+++++|+|+|++.|+++||+.|+                 ++|+..+|..++.++
T Consensus       129 G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~lt~~ea~~l~~~a  187 (222)
T d1ryp1_         129 GSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDS  187 (222)
T ss_dssp             SCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHH
T ss_pred             cEEEEeceEEEcccHHHHHHHHHHhhccccccCcccchhhhcccccccHHHHHHHHHHH
Confidence            999999999999999999999999998                 568888888877654

>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=99.76  E-value=2.2e-19  Score=156.66  Aligned_cols=117  Identities=15%  Similarity=0.079  Sum_probs=106.3

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC--CCeEEEECCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK--RPYLYQCDPS  309 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~--gp~ly~~dp~  309 (352)
                      +++|..+|++.|.+.++.++..|+..++.+++++.+++.+++.+|.++    .+||++++||+|+|++  +|.+|.+||+
T Consensus        51 ~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~----~~p~~~~~lvaG~D~~~~~~~~~~~d~~  126 (204)
T d1iruj_          51 GLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKR----FGPYYTEPVIAGLDPKTFKPFICSLDLI  126 (204)
T ss_dssp             ECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHTTT----TSCCSCCCEEEEECTTSCCEEEEEECTT
T ss_pred             EeccCchHHHHHHHHHHHhhhhhhhhcccccchHHHHHHHHHHHHHhh----hccceeEEEEEEEcCCCCceEEEEecCC
Confidence            459999999999999999999999999999999999999999998765    4699999999999975  4789999999


Q ss_pred             Cceecee-EEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         310 GAYFAWK-ATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       310 G~~~~~~-~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      |.+..+. +.+.|+|++.|+++||+.|+++|+..+|.+++.+++
T Consensus       127 g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~ea~~l~~~al  170 (204)
T d1iruj_         127 GCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAM  170 (204)
T ss_dssp             CCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             CceeeecceEEechhHHHHHHHHHhccccCCCHHHHHHHHHHHH
Confidence            9987765 578899999999999999999999999999887653

>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=99.75  E-value=3.5e-19  Score=157.41  Aligned_cols=120  Identities=13%  Similarity=0.110  Sum_probs=109.7

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeC------CCCeEEE
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDN------KRPYLYQ  305 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~------~gp~ly~  305 (352)
                      .++|..+|++.+.+.++.++..|+++++.++++..+++.+++.+|.+++. ..|||++.++++|+|.      .+|+||.
T Consensus        44 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~g~d~~~~~~l~~  122 (224)
T d1q5qh_          44 GIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGA-AMQGLAVVPLLVGYDLDADDESRAGRIVS  122 (224)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHH-HTTTCCEEEEEEEECTTCSSTTSCEEEEE
T ss_pred             EecccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHHHHHHHHHHHhhcc-cccCccceeeEEEeecccccccCCceEEE
Confidence            56999999999999999999999999999999999999999999999874 5788999988888862      4699999


Q ss_pred             ECCCCceece--eEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         306 CDPSGAYFAW--KATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       306 ~dp~G~~~~~--~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      +||+|++.++  .+.|+|+|+..|+++||++|+++|+..+|.++++++|
T Consensus       123 ~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt~~ea~~l~~~al  171 (224)
T d1q5qh_         123 YDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESL  171 (224)
T ss_dssp             ECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             EEccCcEEEeccceeeecCccHHHHHHHHHhhcccCCHHHHHHHHHHHH
Confidence            9999998776  4589999999999999999999999999999988764

>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=99.73  E-value=2.2e-18  Score=148.54  Aligned_cols=119  Identities=13%  Similarity=0.079  Sum_probs=110.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~dp~G  310 (352)
                      .++|+.+|++.+.+.++.+++.|+..++.+++++.+++.++..++.+.+  ..+|++++++++|+|++ +|+||.+||+|
T Consensus        45 ~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~~~aG~d~~~~~~l~~~~~~g  122 (199)
T d1iruk_          45 LCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLR--SRTPYHVNLLLAGYDEHEGPALYYMDYLA  122 (199)
T ss_dssp             EEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHT--SSSCCCEEEEEEEEETTTEEEEEEECTTC
T ss_pred             EecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHHHHHHHHHHHHhh--ccCCcceeeeecceeccCCceEEeecccc
Confidence            5599999999999999999999999999999999999999998877654  46799999999999985 69999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      .+.++++.|+|+|++.|+++||+.|+++++..+|.++++.|+
T Consensus       123 ~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l~~~al  164 (199)
T d1iruk_         123 ALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCL  164 (199)
T ss_dssp             CEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             eEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887763

>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=99.66  E-value=4.6e-17  Score=142.11  Aligned_cols=116  Identities=16%  Similarity=0.149  Sum_probs=104.9

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCC-CCeEEEECCCC
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSG  310 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~-gp~ly~~dp~G  310 (352)
                      .++|..+|++.+.+.++.+++.|+..++.++++..+++.++..+|.+++    +|++++++++|+|.+ +|.+|.+||+|
T Consensus        53 ~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~g~d~~~~~~l~~~d~~g  128 (213)
T d1iru1_          53 GCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRF----FPYYVYNIIGGLDEEGKGAVYSFDPVG  128 (213)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTT----SCCCEEEEEEEECTTSCEEEEEECTTS
T ss_pred             EecCccchHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHh----hhcccccceEEEecCCCcEEEecCCcc
Confidence            5699999999999999999999999999999999999999999988764    499999999999975 58999999999


Q ss_pred             ceeceeEEEecCCchHHHHHHHHhhc---------CCCCCcccccccccc
Q psy2869         311 AYFAWKATAMGRNYVNGKTFLEKREK---------LRVPNFCGYHIAESL  351 (352)
Q Consensus       311 ~~~~~~~~a~G~~s~~a~~~Le~~~~---------~~~~~~~~~~~~~~~  351 (352)
                      ++.++++.|+|+|+..|++.||+.|+         ++|+..+|..++.++
T Consensus       129 ~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~~~~~s~~ea~~~~~~~  178 (213)
T d1iru1_         129 SYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDV  178 (213)
T ss_dssp             CEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCCHHHHHHHHHHH
T ss_pred             eeeecCeeeecCccHHHHHHHHHhhcccchhcccccCCCHHHHHHHHHHH
Confidence            99999999999999999999999886         356666777776654

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

Probab=98.65  E-value=5e-09  Score=87.93  Aligned_cols=110  Identities=10%  Similarity=-0.119  Sum_probs=78.5

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      ..+|..+|.+.+.+.++.+...++...     ...+.............+....++.+....+|+|..++.++..+++| 
T Consensus        51 ~~~g~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  124 (180)
T d2z3ba1          51 GFAGSVADAFTLFEKFEAKLEEYNGNL-----KRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPDDG-  124 (180)
T ss_dssp             EECSCHHHHHHHHHHHHHHHHHTTTCH-----HHHHHHHHHHHHHCTTGGGCCCCEEEECSSCEEEECTTCCEECCSSS-
T ss_pred             ccchHHHHHHHHHHHHHHHHHhhcccc-----chhHHHHHHHHhHHHHHHHhhcceeeeeccccccccCCceeeccccc-
Confidence            558999999999988887766555322     22233333333322223223335555666677777778888877776 


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                           +.|+|+|+..|+++||+.|+++|++++|.+|+++||
T Consensus       125 -----~~a~GSGs~~A~g~l~~~~~~~~s~~eA~~l~~~Al  160 (180)
T d2z3ba1         125 -----ILAIGSGGNYALAAGRALKKHAGESMSASEIARAAL  160 (180)
T ss_dssp             -----EEEESTTHHHHHHHHHHHHHHHGGGCCHHHHHHHHH
T ss_pred             -----EEEEcCchHHHHHHHHHHhhcCCCccCHHHHHHHHH
Confidence                 678999999999999999999999999999998874

>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=98.44  E-value=1.6e-08  Score=83.93  Aligned_cols=109  Identities=10%  Similarity=-0.047  Sum_probs=75.6

Q ss_pred             cccCCccchhHHHHHHHHHHhhhhhhcCCCCCHHHHHHHHHHHHHHhhhcCCccccceeeEEEEEeCCCCeEEEECCCCc
Q psy2869         232 GFEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGA  311 (352)
Q Consensus       232 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ls~~~q~~t~~~~~RP~g~~~ll~G~d~~gp~ly~~dp~G~  311 (352)
                      ..+|..+|.+.+...+..+...+...     .........+..+.....+     +....++.+.+..+|.++..|++|.
T Consensus        44 ~~~g~~ad~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~d~~g~  113 (171)
T d1m4ya_          44 AGFAGSVADAMTLFDRFEAKLREWGG-----NLTKAAVELAKDWRTDRVL-----RRLEALLLVADKENIFIISGNGEVI  113 (171)
T ss_dssp             EEEESCHHHHHHHHHHHHHHHHHTTT-----CHHHHHHHHHHHHHHCTTG-----GGCCCEEEEECSSCEEEECTTSCEE
T ss_pred             EEEeechhhHHHHHHHHHHHHHHhhc-----cchhhHHHHHHHHHHhhhh-----cccccccceecCCcceEEecCCcee
Confidence            34889999999888777665544432     2222233333333222222     2223344556677899999999999


Q ss_pred             eeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         312 YFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       312 ~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      .....+.|+|||+..|++.||..+++  ++++|.+|++.||
T Consensus       114 ~~~~~~~a~GSGs~~A~g~l~~~~~~--~~~~a~el~~~Ai  152 (171)
T d1m4ya_         114 QPDDDAAAIGSGGPYALAAAKALLRN--TDLSAREIVEKAM  152 (171)
T ss_dssp             CCSSSEEEESTTHHHHHHHHHHHHHH--CCCCHHHHHHHHH
T ss_pred             eecCCEEEEcchHHHHHHHHHhhccC--CCCCHHHHHHHHH
Confidence            99999999999999999999998765  4567888887764

>d1g3ka_ d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Haemophilus influenzae [TaxId: 727]

Probab=98.15  E-value=4.7e-07  Score=74.86  Aligned_cols=62  Identities=10%  Similarity=-0.033  Sum_probs=51.1

Q ss_pred             eeeEEEEEeCCCCeEEEECCCCceeceeEEEecCCchHHHHHHHHhhcCCCCCccccccccccC
Q psy2869         289 VSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREKLRVPNFCGYHIAESLI  352 (352)
Q Consensus       289 ~~~ll~G~d~~gp~ly~~dp~G~~~~~~~~a~G~~s~~a~~~Le~~~~~~~~~~~~~~~~~~~~  352 (352)
                      ...++++.+..+|.++..|+.|++.+..+.|+|||+..|++.|+.+++  +++++|.+||++||
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~ela~~Ai  153 (173)
T d1g3ka_          92 EAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAHEIVEKSL  153 (173)
T ss_dssp             CCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHHHHHHHHH
T ss_pred             ccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHHHHHHHHH
Confidence            334444444457999999999999999999999999999999998875  56778999988774