Citrus Sinensis ID: 029964

---

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----
Protein Sequence
MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM
Secondary Structure (PSIPRED)
ccEEEEcccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccEEEEEEEEEEcccccEEEEEcccccEEEEcEEEEccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccccccccEEEEEEccccEEEEEEcccccccHHHHcccccHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEcccccHHHHHHHHHHHHHHHcHHHHcccccHcHHHHHHHHHHHHHHccccccEEEEEEEEEcccEEEEEEEccccccEEEcEEEEcHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHEccccccEEEEEEEccEEEEEEEcHHccHHHHHHccccHHHHHHHHccccccccc
Coil and Loop (DISEMBL)
MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYnnknflqtgmivggwdkyeggkiygvplggtiieqpfaiggsgssylyGFFDQAWKEGMTKEEAEQLVVKAVSLAIArdgasggvVRTVTInsegvsrkfypgdtlplwheelepqnslldmmnvaspepmnm
Flexible Loop (DISEMBL)
MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAiardgasggvvrtvtinsegvsrkfypgdtLPLWHEELEPQNSLLDMMNVaspepmnm
Low Complexity Region (SEG)
MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIggsgssYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM
Disordered region (IsUnstruct)
**IDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHE**********************
Disordered Region (DISOPRED)
MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEP******************
Disordered Region (DISEMBL)
MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM
Disordered Region (DISPRO)
MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVA*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM
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	184	2.2.26 [Sep-21-2011]
Q8LD27	233	Proteasome subunit beta t	yes	no	0.940	0.742	0.867	4e-88
P93395	234	Proteasome subunit beta t	N/A	no	0.929	0.730	0.847	2e-83
Q55GJ6	214	Proteasome subunit beta t	yes	no	0.826	0.710	0.519	2e-43
O43063	226	Probable proteasome subun	yes	no	0.836	0.681	0.483	2e-39
Q3MHN0	239	Proteasome subunit beta t	yes	no	0.847	0.652	0.484	2e-38
P28072	239	Proteasome subunit beta t	yes	no	0.847	0.652	0.477	1e-37
Q60692	238	Proteasome subunit beta t	yes	no	0.847	0.655	0.471	2e-37
P28073	238	Proteasome subunit beta t	yes	no	0.847	0.655	0.471	2e-37
A7KII6	217	Proteasome subunit beta t	N/A	no	0.820	0.695	0.463	2e-36
A7KE01	217	Proteasome subunit beta t	N/A	no	0.820	0.695	0.463	3e-36

>sp|Q8LD27|PSB6_ARATH Proteasome subunit beta type-6 OS=Arabidopsis thaliana GN=PBA1 PE=1 SV=2

 Score =  323 bits (828), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 150/173 (86%), Positives = 162/173 (93%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVRYFLHQHTIQ GQPATVKV+ANL+R+L+YNNKN LQTG+IVGGWDKYEG
Sbjct: 61  AADSQVVSDYVRYFLHQHTIQHGQPATVKVSANLIRMLAYNNKNMLQTGLIVGGWDKYEG 120

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           GKIYG+PLGGT++EQPFAIGGSGSSYLYGFFDQAWK+ MTKEEAEQLVVKAVSLAIARDG
Sbjct: 121 GKIYGIPLGGTVVEQPFAIGGSGSSYLYGFFDQAWKDNMTKEEAEQLVVKAVSLAIARDG 180

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           ASGGVVRTV INSEGV+R FYPGD L LWHEELEPQNSLLD++N A PEPM M
Sbjct: 181 ASGGVVRTVIINSEGVTRNFYPGDKLQLWHEELEPQNSLLDILNAAGPEPMAM 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.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|P93395|PSB6_TOBAC Proteasome subunit beta type-6 OS=Nicotiana tabacum PE=2 SV=1

 Score =  307 bits (787), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 145/171 (84%), Positives = 158/171 (92%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVRYFLHQHTIQLGQPATVKVAANL RLLSYNNK+ LQTGMI+GGWDKYEG
Sbjct: 62  AADSQIVSDYVRYFLHQHTIQLGQPATVKVAANLTRLLSYNNKDRLQTGMIIGGWDKYEG 121

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           GKIYG+P GGT++EQPFAIGGSGSSYLYGFFDQAWKEGMT+EEAE+LVV AVSLAIARDG
Sbjct: 122 GKIYGIPPGGTVLEQPFAIGGSGSSYLYGFFDQAWKEGMTQEEAEKLVVTAVSLAIARDG 181

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPM 182
           ASGGVVRTVTIN +G +RKFY GD+L LWHEELEP NSLLD++  +SP PM
Sbjct: 182 ASGGVVRTVTINKDGATRKFYSGDSLQLWHEELEPVNSLLDVVFASSPVPM 232

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

Nicotiana tabacum (taxid: 4097)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q55GJ6|PSB6_DICDI Proteasome subunit beta type-6 OS=Dictyostelium discoideum GN=psmB6 PE=1 SV=1

 Score =  175 bits (443), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 79/152 (51%), Positives = 110/152 (72%)

Query: 11  QAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYE 70
            AAD+Q +SDYVRY+L  HT +L     VK AA+L +LL Y+NKN L  G+IV GWDK++
Sbjct: 62  SAADTQAISDYVRYYLEMHTSELCDEPDVKTAASLFQLLCYSNKNNLMAGIIVAGWDKHQ 121

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           GG +Y + LGG++++QPFAIGGSGS+Y+YG+ D  +K  MTK+E  + V  +++LA+ RD
Sbjct: 122 GGSVYNISLGGSMVKQPFAIGGSGSTYIYGYCDSKFKPKMTKDECIEFVQNSLALAMFRD 181

Query: 131 GASGGVVRTVTINSEGVSRKFYPGDTLPLWHE 162
           G+SGGV+R   I+  GV RK  PG+ LP + E
Sbjct: 182 GSSGGVIRLCIIDKNGVERKMIPGNNLPRFWE 213

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

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O43063|PSB1_SCHPO Probable proteasome subunit beta type-1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pre3 PE=3 SV=1

 Score =  161 bits (408), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 75/155 (48%), Positives = 107/155 (69%), Gaps = 1/155 (0%)

Query: 2   NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
           NI C R    AAD+QTV+D ++Y+L  + IQ G   +V  AA L   + Y NKN L  G+
Sbjct: 64  NIWCCRS-GSAADTQTVADLLKYYLSMYRIQFGHDPSVHTAATLASEMCYQNKNMLSAGL 122

Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
           IV G+D+  GG +Y +PLGG++ +QP AIGGSGS+++YGF D  ++E MT+EEA + +  
Sbjct: 123 IVAGYDEKTGGDVYSIPLGGSLHKQPLAIGGSGSAFIYGFCDANFRENMTQEEAVEFLKN 182

Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT 156
           AV+LA+ RDG+SGG +R V +N +G+ RKF+  DT
Sbjct: 183 AVALAMERDGSSGGTIRMVILNKDGMERKFFAIDT 217

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.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q3MHN0|PSB6_BOVIN Proteasome subunit beta type-6 OS=Bos taurus GN=PSMB6 PE=1 SV=1

 Score =  158 bits (400), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 76/157 (48%), Positives = 103/157 (65%), Gaps = 1/157 (0%)

Query: 2   NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
            I C R    AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+
Sbjct: 74  RIFCCRS-GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGI 132

Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
           I+ GWD  EGG++Y VP+GG ++ QPFAIGGSGSSY+YG+ D  ++EGMTKEE  Q    
Sbjct: 133 IIAGWDPQEGGQVYSVPMGGMMVRQPFAIGGSGSSYIYGYVDATYREGMTKEECLQFTAN 192

Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP 158
           A++LA+ RDG+SGGV+R   I   GV R+   GD +P
Sbjct: 193 ALALAMERDGSSGGVIRLAAIAEPGVERQVLLGDQIP 229

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

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P28072|PSB6_HUMAN Proteasome subunit beta type-6 OS=Homo sapiens GN=PSMB6 PE=1 SV=4

 Score =  155 bits (392), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 75/157 (47%), Positives = 102/157 (64%), Gaps = 1/157 (0%)

Query: 2   NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
            I C R    AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+
Sbjct: 74  RIFCCRS-GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGI 132

Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
           I+ GWD  EGG++Y VP+GG ++ Q FAIGGSGSSY+YG+ D  ++EGMTKEE  Q    
Sbjct: 133 IIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTAN 192

Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP 158
           A++LA+ RDG+SGGV+R   I   GV R+   GD +P
Sbjct: 193 ALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIP 229

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. This unit is responsible of the peptidyl glutamyl-like activity. May catalyze basal processing of intracellular antigens.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q60692|PSB6_MOUSE Proteasome subunit beta type-6 OS=Mus musculus GN=Psmb6 PE=1 SV=3

 Score =  155 bits (392), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 103/157 (65%), Gaps = 1/157 (0%)

Query: 2   NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
           +I C R    AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+
Sbjct: 73  HIFCCRS-GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGI 131

Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
           I+ GWD  EGG++Y VP+GG ++ Q FAIGGSGSSY+YG+ D  ++EGMTK+E  Q    
Sbjct: 132 IIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTAN 191

Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP 158
           A++LA+ RDG+SGGV+R   I   GV R+   GD +P
Sbjct: 192 ALALAMERDGSSGGVIRLAAIQESGVERQVLLGDQIP 228

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. May catalyze basal processing of intracellular antigens.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P28073|PSB6_RAT Proteasome subunit beta type-6 OS=Rattus norvegicus GN=Psmb6 PE=1 SV=3

 Score =  155 bits (391), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 103/157 (65%), Gaps = 1/157 (0%)

Query: 2   NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
           +I C R    AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+
Sbjct: 73  HIFCCRS-GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGI 131

Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
           I+ GWD  EGG++Y VP+GG ++ Q FAIGGSGSSY+YG+ D  ++EGMTK+E  Q    
Sbjct: 132 IIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTAN 191

Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP 158
           A++LA+ RDG+SGGV+R   I   GV R+   GD +P
Sbjct: 192 ALALAMERDGSSGGVIRLAAIQQSGVERQVLLGDQIP 228

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

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|A7KII6|PB6LB_SALSA Proteasome subunit beta type-6-B like protein OS=Salmo salar GN=psmb6l-b PE=3 SV=1

 Score =  151 bits (382), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 70/151 (46%), Positives = 97/151 (64%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGG 72
           AD+Q V+   ++ +  H+IQ+  P  VK AA++++ L YNNK  LQ G I  GWD+ +G 
Sbjct: 67  ADAQAVTKAAKFQISFHSIQMESPPLVKAAASVLKELCYNNKEELQAGFITAGWDRKKGP 126

Query: 73  KIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGA 132
           ++Y V LGG ++ QPF IGGSGS+Y+YG+ D  +K  M+KEE  Q    A++LA+ RD  
Sbjct: 127 QVYTVALGGMLLSQPFTIGGSGSTYIYGYADAKYKPDMSKEECLQFATNALALAMGRDNV 186

Query: 133 SGGVVRTVTINSEGVSRKFYPGDTLPLWHEE 163
           SGGV   V I  EGV     PGD LP +H+E
Sbjct: 187 SGGVAHLVVITEEGVEHVVIPGDKLPKFHDE 217

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. This subunit is involved in antigen processing to generate class I binding peptides.

Salmo salar (taxid: 8030)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|A7KE01|PB6LA_SALSA Proteasome subunit beta type-6-A like protein OS=Salmo salar GN=psmb6l-a PE=3 SV=1

 Score =  151 bits (381), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 70/151 (46%), Positives = 97/151 (64%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGG 72
           AD+Q V+   ++ +  H+IQ+  P  VK AA++++ L YNNK  LQ G I  GWD+ +G 
Sbjct: 67  ADAQAVTKAAKFQISFHSIQMESPPLVKAAASVLKELCYNNKEELQAGFITAGWDRKKGP 126

Query: 73  KIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGA 132
           ++Y V LGG ++ QPF IGGSGS+Y+YG+ D  +K  M+KEE  Q    A++LA+ RD  
Sbjct: 127 QVYTVALGGMLLSQPFTIGGSGSTYIYGYADAKYKPDMSKEECLQFAKNALALAMGRDNV 186

Query: 133 SGGVVRTVTINSEGVSRKFYPGDTLPLWHEE 163
           SGGV   V I  EGV     PGD LP +H+E
Sbjct: 187 SGGVAHLVVITEEGVEHVVIPGDKLPKFHDE 217

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. This subunit is involved in antigen processing to generate class I binding peptides.

Salmo salar (taxid: 8030)

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	184
255574159	231	proteasome subunit beta type 6,9, putati	0.940	0.748	0.895	1e-89
449442012	235	PREDICTED: proteasome subunit beta type-	0.940	0.736	0.890	7e-89
15235889	233	proteasome subunit beta type-6 [Arabidop	0.940	0.742	0.867	2e-86
297802906	234	hypothetical protein ARALYDRAFT_328593 [	0.940	0.739	0.873	3e-86
21592365	223	multicatalytic endopeptidase complex, pr	0.940	0.775	0.861	6e-86
388508100	233	unknown [Lotus japonicus]	0.929	0.733	0.872	2e-85
356507848	233	PREDICTED: proteasome subunit beta type-	0.929	0.733	0.872	4e-85
79325892	234	proteasome subunit beta type-6 [Arabidop	0.940	0.739	0.862	6e-85
351721274	233	uncharacterized protein LOC100305513 [Gl	0.929	0.733	0.867	4e-84
224118628	237	predicted protein [Populus trichocarpa]	0.929	0.721	0.906	8e-84

>gi|255574159|ref|XP_002527995.1| proteasome subunit beta type 6,9, putative [Ricinus communis] gi|223532621|gb|EEF34407.1| proteasome subunit beta type 6,9, putative [Ricinus communis]

 Score =  333 bits (855), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 155/173 (89%), Positives = 168/173 (97%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVRYFLHQHTIQLGQPATVKVAANLVRL+SYNNKN L+TG+IVGGWDKY+G
Sbjct: 59  AADSQIVSDYVRYFLHQHTIQLGQPATVKVAANLVRLISYNNKNMLETGLIVGGWDKYDG 118

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           GKIYG+PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTK+EAEQLVVKAVSLA+ARDG
Sbjct: 119 GKIYGIPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKDEAEQLVVKAVSLAMARDG 178

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           ASGGVVRTV INSEGV+R FYPGD+LPLWHEELEPQNSLLD++N +SPEPMN+
Sbjct: 179 ASGGVVRTVIINSEGVTRNFYPGDSLPLWHEELEPQNSLLDILNASSPEPMNI 231

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442012|ref|XP_004138776.1| PREDICTED: proteasome subunit beta type-6-like [Cucumis sativus] gi|449499516|ref|XP_004160837.1| PREDICTED: proteasome subunit beta type-6-like [Cucumis sativus]

 Score =  331 bits (849), Expect = 7e-89,   Method: Compositional matrix adjust.
 Identities = 154/173 (89%), Positives = 168/173 (97%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVRYFLHQHTIQLGQPATVKVAANLVRLL+Y+NKN LQTG+IVGGWDKY+G
Sbjct: 63  AADSQVVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLAYSNKNMLQTGLIVGGWDKYDG 122

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G+IYG+PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE M++EEAEQLVVKAVSLAIARDG
Sbjct: 123 GRIYGIPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEEMSREEAEQLVVKAVSLAIARDG 182

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           ASGGVVRTVTINSEGV+RKFYPGD LPLWHEELEP+NSLLD++N +SPEPMN+
Sbjct: 183 ASGGVVRTVTINSEGVTRKFYPGDQLPLWHEELEPKNSLLDVLNASSPEPMNI 235

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15235889|ref|NP_194858.1| proteasome subunit beta type-6 [Arabidopsis thaliana] gi|334187059|ref|NP_001190879.1| proteasome subunit beta type-6 [Arabidopsis thaliana] gi|82581522|sp|Q8LD27.2|PSB6_ARATH RecName: Full=Proteasome subunit beta type-6; AltName: Full=20S proteasome beta subunit A-1; AltName: Full=Proteasome component D; AltName: Full=Proteasome subunit beta type-1; Flags: Precursor gi|2511594|emb|CAA74028.1| multicatalytic endopeptidase complex, proteasome precursor, beta subunit [Arabidopsis thaliana] gi|2827525|emb|CAA16533.1| multicatalytic endopeptidase complex, proteasome precursor, beta subunit [Arabidopsis thaliana] gi|3421099|gb|AAC32065.1| 20S proteasome subunit PBA1 [Arabidopsis thaliana] gi|7270032|emb|CAB79848.1| multicatalytic endopeptidase complex, proteasome precursor, beta subunit [Arabidopsis thaliana] gi|15450505|gb|AAK96545.1| AT4g31300/F8F16_120 [Arabidopsis thaliana] gi|16323318|gb|AAL15414.1| AT4g31300/F8F16_120 [Arabidopsis thaliana] gi|332660487|gb|AEE85887.1| proteasome subunit beta type-6 [Arabidopsis thaliana] gi|332660489|gb|AEE85889.1| proteasome subunit beta type-6 [Arabidopsis thaliana]

 Score =  323 bits (828), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 150/173 (86%), Positives = 162/173 (93%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVRYFLHQHTIQ GQPATVKV+ANL+R+L+YNNKN LQTG+IVGGWDKYEG
Sbjct: 61  AADSQVVSDYVRYFLHQHTIQHGQPATVKVSANLIRMLAYNNKNMLQTGLIVGGWDKYEG 120

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           GKIYG+PLGGT++EQPFAIGGSGSSYLYGFFDQAWK+ MTKEEAEQLVVKAVSLAIARDG
Sbjct: 121 GKIYGIPLGGTVVEQPFAIGGSGSSYLYGFFDQAWKDNMTKEEAEQLVVKAVSLAIARDG 180

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           ASGGVVRTV INSEGV+R FYPGD L LWHEELEPQNSLLD++N A PEPM M
Sbjct: 181 ASGGVVRTVIINSEGVTRNFYPGDKLQLWHEELEPQNSLLDILNAAGPEPMAM 233

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297802906|ref|XP_002869337.1| hypothetical protein ARALYDRAFT_328593 [Arabidopsis lyrata subsp. lyrata] gi|297315173|gb|EFH45596.1| hypothetical protein ARALYDRAFT_328593 [Arabidopsis lyrata subsp. lyrata]

 Score =  322 bits (826), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 152/174 (87%), Positives = 163/174 (93%), Gaps = 1/174 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYE 70
           AADSQ VSDYVRYFLHQHTIQLGQPATVKV+ANL+R+L+YNNK N LQTG+IVGGWDKYE
Sbjct: 61  AADSQVVSDYVRYFLHQHTIQLGQPATVKVSANLIRMLAYNNKQNMLQTGLIVGGWDKYE 120

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           GGKIYG+PLGGT++EQPFAIGGSGSSYLYGFFDQAWKE MTKEEAEQLVVKAVSLAIARD
Sbjct: 121 GGKIYGIPLGGTVVEQPFAIGGSGSSYLYGFFDQAWKENMTKEEAEQLVVKAVSLAIARD 180

Query: 131 GASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           GASGGVVRTV INSEGV+R FYPGD L LWHEELEPQNSLLD++N A PEPM M
Sbjct: 181 GASGGVVRTVIINSEGVTRNFYPGDKLQLWHEELEPQNSLLDILNAAGPEPMAM 234

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21592365|gb|AAM64316.1| multicatalytic endopeptidase complex, proteasome precursor, beta subunit [Arabidopsis thaliana]

 Score =  322 bits (824), Expect = 6e-86,   Method: Compositional matrix adjust.
 Identities = 149/173 (86%), Positives = 162/173 (93%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVR+FLHQHTIQ GQPATVKV+ANL+R+L+YNNKN LQTG+IVGGWDKYEG
Sbjct: 51  AADSQVVSDYVRHFLHQHTIQHGQPATVKVSANLIRMLAYNNKNMLQTGLIVGGWDKYEG 110

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           GKIYG+PLGGT++EQPFAIGGSGSSYLYGFFDQAWK+ MTKEEAEQLVVKAVSLAIARDG
Sbjct: 111 GKIYGIPLGGTVVEQPFAIGGSGSSYLYGFFDQAWKDNMTKEEAEQLVVKAVSLAIARDG 170

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           ASGGVVRTV INSEGV+R FYPGD L LWHEELEPQNSLLD++N A PEPM M
Sbjct: 171 ASGGVVRTVIINSEGVTRNFYPGDKLQLWHEELEPQNSLLDILNAAGPEPMAM 223

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388508100|gb|AFK42116.1| unknown [Lotus japonicus]

 Score =  320 bits (819), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 151/173 (87%), Positives = 164/173 (94%), Gaps = 2/173 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFL+TG+IVGGWDKYEG
Sbjct: 63  AADSQVVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLETGLIVGGWDKYEG 122

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G+I+GVPLGGTI++QPFAIGGSGSSYLYGFFDQAWK+GMTK+EAE LV KAVSLAIARDG
Sbjct: 123 GQIFGVPLGGTIVQQPFAIGGSGSSYLYGFFDQAWKDGMTKDEAEDLVKKAVSLAIARDG 182

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           ASGGVVRTV INSEGV+R FYPGD LPLWHEELEPQNSLLD++   +PEPMN+
Sbjct: 183 ASGGVVRTVIINSEGVTRNFYPGDQLPLWHEELEPQNSLLDIL--GAPEPMNI 233

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507848|ref|XP_003522675.1| PREDICTED: proteasome subunit beta type-6-like [Glycine max]

 Score =  319 bits (817), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 151/173 (87%), Positives = 163/173 (94%), Gaps = 2/173 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFL+TG+IVGGWDKYEG
Sbjct: 63  AADSQIVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLETGLIVGGWDKYEG 122

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G+IYGVPLGGTI++QPFAIGGSGSSYLYGFFDQAWKEGMTK+EAE LV KAVSLAIARDG
Sbjct: 123 GQIYGVPLGGTIVQQPFAIGGSGSSYLYGFFDQAWKEGMTKDEAEDLVKKAVSLAIARDG 182

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           ASGGVVRTV INSEGV+R FYPGD LPLWHEE+EP NSLLD++   +PEPM+M
Sbjct: 183 ASGGVVRTVIINSEGVTRNFYPGDQLPLWHEEMEPHNSLLDIL--GAPEPMSM 233

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79325892|ref|NP_001031759.1| proteasome subunit beta type-6 [Arabidopsis thaliana] gi|332660488|gb|AEE85888.1| proteasome subunit beta type-6 [Arabidopsis thaliana]

 Score =  318 bits (815), Expect = 6e-85,   Method: Compositional matrix adjust.
 Identities = 150/174 (86%), Positives = 162/174 (93%), Gaps = 1/174 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYE 70
           AADSQ VSDYVRYFLHQHTIQ GQPATVKV+ANL+R+L+YNNK N LQTG+IVGGWDKYE
Sbjct: 61  AADSQVVSDYVRYFLHQHTIQHGQPATVKVSANLIRMLAYNNKQNMLQTGLIVGGWDKYE 120

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           GGKIYG+PLGGT++EQPFAIGGSGSSYLYGFFDQAWK+ MTKEEAEQLVVKAVSLAIARD
Sbjct: 121 GGKIYGIPLGGTVVEQPFAIGGSGSSYLYGFFDQAWKDNMTKEEAEQLVVKAVSLAIARD 180

Query: 131 GASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           GASGGVVRTV INSEGV+R FYPGD L LWHEELEPQNSLLD++N A PEPM M
Sbjct: 181 GASGGVVRTVIINSEGVTRNFYPGDKLQLWHEELEPQNSLLDILNAAGPEPMAM 234

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721274|ref|NP_001236436.1| uncharacterized protein LOC100305513 [Glycine max] gi|255625747|gb|ACU13218.1| unknown [Glycine max]

 Score =  315 bits (808), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 150/173 (86%), Positives = 161/173 (93%), Gaps = 2/173 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQ VSDYVRYFLHQHTIQLGQPATVKVAANLVRLL+YNNKNFLQTG+IVGGWDKYEG
Sbjct: 63  AADSQIVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLAYNNKNFLQTGLIVGGWDKYEG 122

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G+IYGVPLGGT ++QPFAIGGSGSSYLYGFFDQAWKEGMTK+EAE LV KAVSLAIARDG
Sbjct: 123 GQIYGVPLGGTTVQQPFAIGGSGSSYLYGFFDQAWKEGMTKDEAEDLVKKAVSLAIARDG 182

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
           ASGGVVRTV INSEGV+R FYPGD LPLWHEE+E  NSLLD++ V  PEPM+M
Sbjct: 183 ASGGVVRTVIINSEGVTRNFYPGDQLPLWHEEMEAHNSLLDILGV--PEPMSM 233

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118628|ref|XP_002331409.1| predicted protein [Populus trichocarpa] gi|118484942|gb|ABK94336.1| unknown [Populus trichocarpa] gi|222873623|gb|EEF10754.1| predicted protein [Populus trichocarpa]

 Score =  314 bits (805), Expect = 8e-84,   Method: Compositional matrix adjust.
 Identities = 155/171 (90%), Positives = 165/171 (96%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVR+LSYNNKNFLQTGMIVGGWDKYEG
Sbjct: 65  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRMLSYNNKNFLQTGMIVGGWDKYEG 124

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           GKIYGVPLGGT++E PF IGGSGSSYLYGFFDQAWK+GMT+EEAEQLVVKAVSLAIARDG
Sbjct: 125 GKIYGVPLGGTLLELPFTIGGSGSSYLYGFFDQAWKDGMTQEEAEQLVVKAVSLAIARDG 184

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPM 182
           ASGGVVRTVTINSEGVSRK+YP D LP WHEELEPQNSLLD+++ +SPEPM
Sbjct: 185 ASGGVVRTVTINSEGVSRKYYPEDKLPRWHEELEPQNSLLDILSSSSPEPM 235

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

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	184
TAIR|locus:2128111	234	PBA1 [Arabidopsis thaliana (ta	0.940	0.739	0.827	5e-76
DICTYBASE|DDB_G0267390	214	psmB6 "proteasome subunit beta	0.809	0.696	0.493	1.5e-37
POMBASE|SPBC4C3.10c	226	pre3 "20S proteasome complex s	0.836	0.681	0.451	2e-33
UNIPROTKB|Q3MHN0	239	PSMB6 "Proteasome subunit beta	0.798	0.615	0.455	5.2e-33
UNIPROTKB|F1RFV5	241	PSMB6 "Proteasome subunit beta	0.798	0.609	0.455	2.3e-32
RGD|3427	219	Psmb9 "proteasome (prosome, ma	0.820	0.689	0.434	2.3e-32
UNIPROTKB|E2R0B6	239	PSMB6 "Proteasome subunit beta	0.798	0.615	0.448	2.9e-32
UNIPROTKB|P28072	239	PSMB6 "Proteasome subunit beta	0.798	0.615	0.448	2.9e-32
MGI|MGI:104880	238	Psmb6 "proteasome (prosome, ma	0.847	0.655	0.433	2.9e-32
RGD|61881	238	Psmb6 "proteasome (prosome, ma	0.847	0.655	0.433	2.9e-32

TAIR|locus:2128111 PBA1 [Arabidopsis thaliana (taxid:3702)]

 Score = 766 (274.7 bits), Expect = 5.0e-76, P = 5.0e-76
 Identities = 144/174 (82%), Positives = 156/174 (89%)

Query:    12 AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYE 70
             AADSQ VSDYVRYFLHQHTIQ GQPATVKV+ANL+R+L+YNNK N LQTG+IVGGWDKYE
Sbjct:    61 AADSQVVSDYVRYFLHQHTIQHGQPATVKVSANLIRMLAYNNKQNMLQTGLIVGGWDKYE 120

Query:    71 GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
             GGKIYG+PLGGT++EQPFAI      YLYGFFDQAWK+ MTKEEAEQLVVKAVSLAIARD
Sbjct:   121 GGKIYGIPLGGTVVEQPFAIGGSGSSYLYGFFDQAWKDNMTKEEAEQLVVKAVSLAIARD 180

Query:   131 GASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNSLLDMMNVASPEPMNM 184
             GASGGVVRTV INSEGV+R FYPGD L LWHEELEPQNSLLD++N A PEPM M
Sbjct:   181 GASGGVVRTVIINSEGVTRNFYPGDKLQLWHEELEPQNSLLDILNAAGPEPMAM 234

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0008233 "peptidase activity" evidence=ISS;IMP

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

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

GO:0005773 "vacuole" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0009651 "response to salt stress" evidence=IEP;RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=IMP

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

GO:0000502 "proteasome complex" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006096 "glycolysis" evidence=RCA

GO:0006635 "fatty acid beta-oxidation" evidence=RCA

GO:0006833 "water transport" evidence=RCA

GO:0006972 "hyperosmotic response" evidence=RCA

GO:0007030 "Golgi organization" evidence=RCA

GO:0009266 "response to temperature stimulus" evidence=RCA

GO:0009407 "toxin catabolic process" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

GO:0046686 "response to cadmium ion" evidence=RCA

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

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

DICTYBASE|DDB_G0267390 psmB6 "proteasome subunit beta type 6" [Dictyostelium discoideum (taxid:44689)]

 Score = 403 (146.9 bits), Expect = 1.5e-37, P = 1.5e-37
 Identities = 74/150 (49%), Positives = 103/150 (68%)

Query:    12 AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
             AAD+Q +SDYVRY+L  HT +L     VK AA+L +LL Y+NKN L  G+IV GWDK++G
Sbjct:    63 AADTQAISDYVRYYLEMHTSELCDEPDVKTAASLFQLLCYSNKNNLMAGIIVAGWDKHQG 122

Query:    72 GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             G +Y + LGG++++QPFAI      Y+YG+ D  +K  MTK+E  + V  +++LA+ RDG
Sbjct:   123 GSVYNISLGGSMVKQPFAIGGSGSTYIYGYCDSKFKPKMTKDECIEFVQNSLALAMFRDG 182

Query:   132 ASGGVVRTVTINSEGVSRKFYPGDTLP-LW 160
             +SGGV+R   I+  GV RK  PG+ LP  W
Sbjct:   183 SSGGVIRLCIIDKNGVERKMIPGNNLPRFW 212

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

GO:0006508 "proteolysis" evidence=IEA;IDA

GO:0005737 "cytoplasm" evidence=IEA;IPI

GO:0005634 "nucleus" evidence=IEA;IPI

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

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

POMBASE|SPBC4C3.10c pre3 "20S proteasome complex subunit beta 1 Pre3 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 364 (133.2 bits), Expect = 2.0e-33, P = 2.0e-33
 Identities = 70/155 (45%), Positives = 101/155 (65%)

Query:     2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
             NI C R    AAD+QTV+D ++Y+L  + IQ G   +V  AA L   + Y NKN L  G+
Sbjct:    64 NIWCCRS-GSAADTQTVADLLKYYLSMYRIQFGHDPSVHTAATLASEMCYQNKNMLSAGL 122

Query:    62 IVGGWDKYEGGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVK 121
             IV G+D+  GG +Y +PLGG++ +QP AI      ++YGF D  ++E MT+EEA + +  
Sbjct:   123 IVAGYDEKTGGDVYSIPLGGSLHKQPLAIGGSGSAFIYGFCDANFRENMTQEEAVEFLKN 182

Query:   122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT 156
             AV+LA+ RDG+SGG +R V +N +G+ RKF+  DT
Sbjct:   183 AVALAMERDGSSGGTIRMVILNKDGMERKFFAIDT 217

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

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0007346 "regulation of mitotic cell cycle" evidence=IC

GO:0019774 "proteasome core complex, beta-subunit complex" evidence=ISO

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

GO:0004175 "endopeptidase activity" evidence=ISO

UNIPROTKB|Q3MHN0 PSMB6 "Proteasome subunit beta type-6" [Bos taurus (taxid:9913)]

 Score = 360 (131.8 bits), Expect = 5.2e-33, P = 5.2e-33
 Identities = 67/147 (45%), Positives = 94/147 (63%)

Query:    12 AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
             AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+I+ GWD  EG
Sbjct:    83 AADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEG 142

Query:    72 GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             G++Y VP+GG ++ QPFAI      Y+YG+ D  ++EGMTKEE  Q    A++LA+ RDG
Sbjct:   143 GQVYSVPMGGMMVRQPFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDG 202

Query:   132 ASGGVVRTVTINSEGVSRKFYPGDTLP 158
             +SGGV+R   I   GV R+   GD +P
Sbjct:   203 SSGGVIRLAAIAEPGVERQVLLGDQIP 229

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

UNIPROTKB|F1RFV5 PSMB6 "Proteasome subunit beta type" [Sus scrofa (taxid:9823)]

 Score = 354 (129.7 bits), Expect = 2.3e-32, P = 2.3e-32
 Identities = 67/147 (45%), Positives = 93/147 (63%)

Query:    12 AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
             AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+IV GWD  EG
Sbjct:    85 AADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIVAGWDPQEG 144

Query:    72 GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             G++Y VP+GG ++ Q FAI      Y+YG+ D  ++EGMTKEE  Q    A++LA+ RDG
Sbjct:   145 GQVYSVPMGGMMVRQAFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDG 204

Query:   132 ASGGVVRTVTINSEGVSRKFYPGDTLP 158
             +SGGV+R   I   GV R+   GD +P
Sbjct:   205 SSGGVIRLAAIAESGVERQVLLGDQIP 231

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

RGD|3427 Psmb9 "proteasome (prosome, macropain) subunit, beta type 9 (large multifunctional peptidase 2)" [Rattus norvegicus (taxid:10116)]

 Score = 354 (129.7 bits), Expect = 2.3e-32, P = 2.3e-32
 Identities = 66/152 (43%), Positives = 99/152 (65%)

Query:    12 AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
             AAD+Q ++D   Y L  H ++L +P  V  AAN+V+ +SY  +  L   ++V GWD++EG
Sbjct:    69 AADAQAIADMAAYQLELHGLELEEPPLVLAAANIVKNISYKYREDLLAHLMVAGWDQHEG 128

Query:    72 GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             G++YG  +GG +I QPFAI      Y+YG+ D A+K GMT EE  +    A++LA+ RDG
Sbjct:   129 GQVYGT-MGGMLIRQPFAIGGSGSTYIYGYVDAAYKPGMTPEECRRFTTDAITLAMNRDG 187

Query:   132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEE 163
             +SGGV+  VTI ++GV  +   GD LP +++E
Sbjct:   188 SSGGVIYLVTITADGVDHRVILGDELPKFYDE 219

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0019882 "antigen processing and presentation" evidence=IEA;ISO

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

UNIPROTKB|E2R0B6 PSMB6 "Proteasome subunit beta type" [Canis lupus familiaris (taxid:9615)]

 Score = 353 (129.3 bits), Expect = 2.9e-32, P = 2.9e-32
 Identities = 66/147 (44%), Positives = 93/147 (63%)

Query:    12 AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
             AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+I+ GWD  EG
Sbjct:    83 AADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEG 142

Query:    72 GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             G++Y VP+GG ++ Q FAI      Y+YG+ D  ++EGMTKEE  Q    A++LA+ RDG
Sbjct:   143 GQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDG 202

Query:   132 ASGGVVRTVTINSEGVSRKFYPGDTLP 158
             +SGGV+R   I   GV R+   GD +P
Sbjct:   203 SSGGVIRLAAIAESGVERQVLLGDQIP 229

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

UNIPROTKB|P28072 PSMB6 "Proteasome subunit beta type-6" [Homo sapiens (taxid:9606)]

 Score = 353 (129.3 bits), Expect = 2.9e-32, P = 2.9e-32
 Identities = 66/147 (44%), Positives = 93/147 (63%)

Query:    12 AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
             AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+I+ GWD  EG
Sbjct:    83 AADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEG 142

Query:    72 GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             G++Y VP+GG ++ Q FAI      Y+YG+ D  ++EGMTKEE  Q    A++LA+ RDG
Sbjct:   143 GQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDG 202

Query:   132 ASGGVVRTVTINSEGVSRKFYPGDTLP 158
             +SGGV+R   I   GV R+   GD +P
Sbjct:   203 SSGGVIRLAAIAESGVERQVLLGDQIP 229

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

GO:0019048 "virus-host interaction" evidence=IEA

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

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

GO:0004175 "endopeptidase activity" evidence=NAS

GO:0000278 "mitotic cell cycle" evidence=TAS

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

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

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

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

GO:0006915 "apoptotic process" evidence=TAS

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

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

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

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

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

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

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

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

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

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

GO: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

MGI|MGI:104880 Psmb6 "proteasome (prosome, macropain) subunit, beta type 6" [Mus musculus (taxid:10090)]

 Score = 353 (129.3 bits), Expect = 2.9e-32, P = 2.9e-32
 Identities = 68/157 (43%), Positives = 97/157 (61%)

Query:     2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
             +I C R    AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+
Sbjct:    73 HIFCCRS-GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGI 131

Query:    62 IVGGWDKYEGGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVK 121
             I+ GWD  EGG++Y VP+GG ++ Q FAI      Y+YG+ D  ++EGMTK+E  Q    
Sbjct:   132 IIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTAN 191

Query:   122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP 158
             A++LA+ RDG+SGGV+R   I   GV R+   GD +P
Sbjct:   192 ALALAMERDGSSGGVIRLAAIQESGVERQVLLGDQIP 228

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:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

RGD|61881 Psmb6 "proteasome (prosome, macropain) subunit, beta type 6" [Rattus norvegicus (taxid:10116)]

 Score = 353 (129.3 bits), Expect = 2.9e-32, P = 2.9e-32
 Identities = 68/157 (43%), Positives = 97/157 (61%)

Query:     2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
             +I C R    AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+
Sbjct:    73 HIFCCRS-GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGI 131

Query:    62 IVGGWDKYEGGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVK 121
             I+ GWD  EGG++Y VP+GG ++ Q FAI      Y+YG+ D  ++EGMTK+E  Q    
Sbjct:   132 IIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTAN 191

Query:   122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP 158
             A++LA+ RDG+SGGV+R   I   GV R+   GD +P
Sbjct:   192 ALALAMERDGSSGGVIRLAAIQQSGVERQVLLGDQIP 228

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0051603 "proteolysis involved in cellular 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)
Q8LD27	PSB6_ARATH	3, ., 4, ., 2, 5, ., 1	0.8670	0.9402	0.7424	yes	no
P93395	PSB6_TOBAC	3, ., 4, ., 2, 5, ., 1	0.8479	0.9293	0.7307	N/A	no
Q55GJ6	PSB6_DICDI	3, ., 4, ., 2, 5, ., 1	0.5197	0.8260	0.7102	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.991
3rd Layer	3.4.25	0.976

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh1_pm.C_scaffold_7000820	annotation not avaliable (234 aa)
		(Arabidopsis lyrata)
Predicted Functional Partners:
	fgenesh2_kg.6__2349__AT5G23540.1	annotation not avaliable (308 aa)				•	•	•	•		0.845
	scaffold_503316.1	annotation not avaliable (223 aa)			•	•	•	•	•	•	0.834
	fgenesh2_kg.7__60__AT4G38630.1	At4g38630-like protein (386 aa)				•	•	•	•		0.829
	fgenesh2_kg.7__1789__AT4G24820.1	annotation not avaliable (387 aa)				•	•	•			0.754
	fgenesh2_kg.1__4762__AT1G56450.1	annotation not avaliable (246 aa)			•	•	•	•	•	•	0.753
	fgenesh1_pg.C_scaffold_1000770	annotation not avaliable (245 aa)			•	•	•	•	•	•	0.741
	fgenesh1_pg.C_scaffold_1002584	annotation not avaliable (621 aa)				•	•	•	•		0.722
	fgenesh2_kg.7__2849__AT4G14800.1	annotation not avaliable (199 aa)			•	•	•	•	•	•	0.717
	scaffold_302707.1	annotation not avaliable (204 aa)			•	•	•	•	•	•	0.713
	scaffold_202707.1	annotation not avaliable (204 aa)			•	•	•	•	•	•	0.705

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	184
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	5e-85
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	9e-49
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	1e-37
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	4e-35
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	4e-30
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	9e-27
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	3e-24
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	5e-20
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	2e-16
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	4e-16
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	7e-13
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	7e-13
cd03759	195	cd03759, proteasome_beta_type_3, proteasome beta t	4e-08
cd03760	197	cd03760, proteasome_beta_type_4, proteasome beta t	1e-06
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	9e-06
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	1e-05
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	2e-05
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	5e-05
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	1e-04
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	2e-04
TIGR03690	219	TIGR03690, 20S_bact_beta, proteasome, beta subunit	0.001

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

 Score =  248 bits (635), Expect = 5e-85
 Identities = 79/140 (56%), Positives = 105/140 (75%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+Q ++DYVRY+L  H+I+LG+P  VK AA+L + L YN K  L  G+IV GWD+  G
Sbjct: 49  AADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYKEMLSAGIIVAGWDEQNG 108

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G++Y +PLGG +I QPFAIGGSGS+Y+YG+ D  +K GMT EE  + V  A+SLA++RDG
Sbjct: 109 GQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDG 168

Query: 132 ASGGVVRTVTINSEGVSRKF 151
           +SGGV+R V I  +GV RKF
Sbjct: 169 SSGGVIRLVIITKDGVERKF 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 = 188

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

 Score =  156 bits (396), Expect = 9e-49
 Identities = 57/141 (40%), Positives = 81/141 (57%), Gaps = 1/141 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           AAD+Q ++  ++  L  + ++ G+  +VK AANL+  + Y+ + F     +IVGG DK  
Sbjct: 49  AADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGG 108

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  +Y V   G++IE PF   GSGS Y YG  D+ +K  MT EEA +LV KA+  AI RD
Sbjct: 109 GPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERD 168

Query: 131 GASGGVVRTVTINSEGVSRKF 151
            +SGG V    I  +GV    
Sbjct: 169 LSSGGGVDVAVITKDGVEELR 189

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|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  127 bits (322), Expect = 1e-37
 Identities = 45/134 (33%), Positives = 69/134 (51%), Gaps = 3/134 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF---LQTGMIVGGWDK 68
           AAD+QT+ + +R     + ++ G+P  V+  A L+  L Y        L   ++V G D+
Sbjct: 49  AADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDE 108

Query: 69  YEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
             G ++Y V   G+ IE      GSGS Y  G  ++ +K  MT EEA +L +KA+  A+ 
Sbjct: 109 EGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALE 168

Query: 129 RDGASGGVVRTVTI 142
           RD  SGG +    I
Sbjct: 169 RDLYSGGNIEVAVI 182

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

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

 Score =  121 bits (306), Expect = 4e-35
 Identities = 47/135 (34%), Positives = 74/135 (54%), Gaps = 4/135 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS----YNNKNFLQTGMIVGGWD 67
           AAD+QT+ DY R     + ++ G+P +V++A  +   L     Y+ +      +++ G+D
Sbjct: 54  AADAQTLVDYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAGYD 113

Query: 68  KYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAI 127
           +  G  +Y +   G++IE      GSGS Y YGF ++ +K  MT EEA +L VKA+  AI
Sbjct: 114 EDGGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAI 173

Query: 128 ARDGASGGVVRTVTI 142
            RD  SGG +    I
Sbjct: 174 ERDALSGGNIEVAVI 188

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

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

 Score =  109 bits (275), Expect = 4e-30
 Identities = 46/157 (29%), Positives = 76/157 (48%), Gaps = 5/157 (3%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF---LQTGMIVGGWDK 68
           AAD+Q +  Y R     + ++ G+P +V+  A L+  +              ++V G D 
Sbjct: 79  AADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDD 138

Query: 69  YEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
             G ++Y     G+  E      GSGS + YGF ++ ++E ++ EEA +L VKA+  AI 
Sbjct: 139 -GGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIE 197

Query: 129 RDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELE 165
           RD ASGG +    I  +   RK   G+ +    ++L 
Sbjct: 198 RDAASGGGIEVAVITKDEGFRK-LDGEEIKKLLDDLS 233

Length = 236

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

 Score =  100 bits (250), Expect = 9e-27
 Identities = 46/142 (32%), Positives = 78/142 (54%), Gaps = 6/142 (4%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF---LQTGMIVGGWDKY 69
            D+Q++   ++     + ++ G+P ++K  A L+  +  ++K F   +Q   ++GG D+ 
Sbjct: 50  GDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQL--LIGGVDE- 106

Query: 70  EGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIAR 129
           EG  +Y +   G+IIE  +   GSGS Y YG  +  +KE MT EEA++L ++A+  AI R
Sbjct: 107 EGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIER 166

Query: 130 DGASGGVVRTVTINSEGVSRKF 151
           D ASG  +  V I  +G     
Sbjct: 167 DSASGDGIDVVVITKDGYKELE 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|234287 TIGR03634, arc_protsome_B, proteasome endopeptidase complex, archaeal, beta subunit

 Score = 93.4 bits (233), Expect = 3e-24
 Identities = 47/137 (34%), Positives = 77/137 (56%), Gaps = 4/137 (2%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEG 71
            D+Q++   ++     + ++ G+P +VK  A L+  +  +N+ F     ++VGG D+ EG
Sbjct: 51  GDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVDE-EG 109

Query: 72  GKIYGV-PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
             +Y + P GG IIE  +   GSGS   YG  +  ++E M+ EEA++L V+A+  AI RD
Sbjct: 110 PHLYSLDPAGG-IIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERD 168

Query: 131 GASGGVVRTVTINSEGV 147
            ASG  +    I  +GV
Sbjct: 169 VASGNGIDVAVITKDGV 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|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 = 81.7 bits (202), Expect = 5e-20
 Identities = 37/116 (31%), Positives = 58/116 (50%), Gaps = 4/116 (3%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVR--LLSYNNKNFLQTGMIVGGWDKY 69
           AAD+QT+   +R  L  + ++ G+P +V   A  +   L  Y         +IV G D+ 
Sbjct: 49  AADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDE- 107

Query: 70  EGGKIYGVPLGGTIIEQPFAI-GGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVS 124
            GG +Y +   G +IE P A+  GS S       ++ +K  MT EEA +L +KA+ 
Sbjct: 108 GGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALK 163

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

 Score = 73.0 bits (180), Expect = 2e-16
 Identities = 39/136 (28%), Positives = 67/136 (49%), Gaps = 1/136 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD++ V++ +   L  H +  G+   V  A  +++   +  +  +   +++GG D Y G
Sbjct: 49  AADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQGHIGAALVLGGVD-YTG 107

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             +Y +   G+  + PF   GSGS       +  +K  MT+EEA++LV +A+   I  D 
Sbjct: 108 PHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDL 167

Query: 132 ASGGVVRTVTINSEGV 147
            SG  V    I  +GV
Sbjct: 168 GSGSNVDLCVITKDGV 183

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

 Score = 71.9 bits (177), Expect = 4e-16
 Identities = 38/115 (33%), Positives = 59/115 (51%), Gaps = 4/115 (3%)

Query: 34  GQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEGGKIYGVPLGGTIIE-QPFAIG 91
            +  +V  A+ L+  + Y  K   L  G ++ GWDK  G  +Y V   GT ++   F++G
Sbjct: 71  KERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDK-TGPGLYYVDSDGTRLKGDLFSVG 129

Query: 92  GSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEG 146
            SGS+Y YG  D  ++  ++ EEA  L  +A+  A  RD  SGG V    +  +G
Sbjct: 130 -SGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVNLYHVREDG 183

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|239727 cd03758, proteasome_beta_type_2, proteasome beta type-2 subunit

 Score = 63.4 bits (155), Expect = 7e-13
 Identities = 32/115 (27%), Positives = 58/115 (50%), Gaps = 3/115 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVR--LLSYNNKNF-LQTGMIVGGWDK 68
           A D    ++Y++  +  + ++ G   + K AAN  R  L          Q  +++ G+DK
Sbjct: 50  AGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAGYDK 109

Query: 69  YEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAV 123
            EG  +Y +   GT+++ P+A  G G+ +     D+ +K  MT EEA +L+ K +
Sbjct: 110 VEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKCI 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 = 193

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

 Score = 64.2 bits (156), Expect = 7e-13
 Identities = 39/112 (34%), Positives = 58/112 (51%), Gaps = 8/112 (7%)

Query: 37  ATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEGGKIYGVPLGGT-IIEQPFAIGGSG 94
           A  K+ AN+V    +N K   L  G ++ GWDK +G  ++ V   GT +    F+ G SG
Sbjct: 117 AASKILANIV----WNYKGMGLSMGTMICGWDK-KGPGLFYVDNDGTRLHGNMFSCG-SG 170

Query: 95  SSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEG 146
           S+Y YG  D  +K  +  EEA+ L  +A+  A  RD  SGG +    +  +G
Sbjct: 171 STYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDG 222

Length = 247

>gnl|CDD|239728 cd03759, proteasome_beta_type_3, proteasome beta type-3 subunit

 Score = 50.7 bits (122), Expect = 4e-08
 Identities = 36/137 (26%), Positives = 63/137 (45%), Gaps = 6/137 (4%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF--LQTGMIVGGWDKY 69
           A D QT++  +R+ ++ + ++  +    K  ++L+  L Y  K F       +V G D  
Sbjct: 52  ATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLLYE-KRFGPYFVEPVVAGLDPD 110

Query: 70  EGGKIYGVPLGGTI-IEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
               I  + L G   I   F + G+ S  LYG  +  W+  M  +E  + + +A+  A+ 
Sbjct: 111 GKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVD 170

Query: 129 RDGAS--GGVVRTVTIN 143
           RD  S  G VV  +T +
Sbjct: 171 RDALSGWGAVVYIITKD 187

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 = 195

>gnl|CDD|239729 cd03760, proteasome_beta_type_4, proteasome beta type-4 subunit

 Score = 46.4 bits (111), Expect = 1e-06
 Identities = 34/110 (30%), Positives = 52/110 (47%), Gaps = 10/110 (9%)

Query: 45  LVRLLSYN--NK-NFLQTGMIVGGWDKYEGGKIY--GVPLGGTIIEQPFAIGGSGSSYLY 99
           L R+L YN  +K N L   ++VGG D    G+ +   V L GT  E P    G G+    
Sbjct: 86  LTRVL-YNRRSKMNPLWNTLVVGGVDN--EGEPFLGYVDLLGTAYEDPHVATGFGAYLAL 142

Query: 100 GFFDQAWKE--GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGV 147
               +AW++   +T+EEA  L+ + + +   RD  S    +   +  EGV
Sbjct: 143 PLLREAWEKKPDLTEEEARALIEECMKVLYYRDARSINKYQIAVVTKEGV 192

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 = 197

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

 Score = 44.2 bits (105), Expect = 9e-06
 Identities = 31/142 (21%), Positives = 60/142 (42%), Gaps = 14/142 (9%)

Query: 22  VRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEGGKIYGVPLG 80
           ++ + + H     +  + +  A L+  + Y+ + F      I+ G D+   G +Y     
Sbjct: 71  IKMYKYSH----NKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSYDPV 126

Query: 81  GTIIEQPFAIGGSGSSYLYGFFD---------QAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G+   + ++ GGS SS +    D            +  ++ EEA  LV  A + A  RD 
Sbjct: 127 GSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFTSAAERDI 186

Query: 132 ASGGVVRTVTINSEGVSRKFYP 153
            +G  +  V I  +G+  + +P
Sbjct: 187 YTGDSLEIVIITKDGIEEETFP 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 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 212

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

 Score = 43.7 bits (104), Expect = 1e-05
 Identities = 32/150 (21%), Positives = 68/150 (45%), Gaps = 16/150 (10%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
            AD++ + D  R     + +  G+P  V+    L + +  + + + Q G        +++
Sbjct: 84  VADARVLIDRARVEAQINRLTYGEPIGVET---LTKKICDHKQQYTQHGGVRPFGVALLI 140

Query: 64  GGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
            G D   G +++     G  +E +  AIG +G   +  F ++ +KE ++ EEA +L +KA
Sbjct: 141 AGVDD-GGPRLFETDPSGAYLEYKATAIG-AGRDTVMEFLEKNYKEDLSLEEAIELALKA 198

Query: 123 VSLAIARDGASGGV-VRTVTINSEGVSRKF 151
           ++ A         V +  + + ++   RK 
Sbjct: 199 LAKANEGKLDPENVEIAYIDVETKKF-RKL 227

Length = 241

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

 Score = 42.8 bits (102), Expect = 2e-05
 Identities = 31/119 (26%), Positives = 58/119 (48%), Gaps = 13/119 (10%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIVG 64
           AD++ + +  R     +    G+P  V+V   LV+ ++   + + Q G        +++ 
Sbjct: 76  ADARVLVNRARVEAQNYRYTYGEPIPVEV---LVKRIADLAQVYTQYGGVRPFGVSLLIA 132

Query: 65  GWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
           G+D+  G ++Y     GT    +  AI G GS     F ++ +K+ +T EEA +L +KA
Sbjct: 133 GYDEEGGPQLYQTDPSGTYFGYKATAI-GKGSQEAKTFLEKRYKKDLTLEEAIKLALKA 190

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

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 41.9 bits (99), Expect = 5e-05
 Identities = 33/125 (26%), Positives = 59/125 (47%), Gaps = 14/125 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
            AD++ + D  R     H +  G+P  V+    LV+ +    + + Q G        +++
Sbjct: 76  VADARVLIDRARVEAQIHRLTYGEPIDVE---VLVKKICDLKQQYTQHGGVRPFGVALLI 132

Query: 64  GGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
            G D   G +++     G   E +  AIG SG   +  F ++ +KE M+ EEA +L +KA
Sbjct: 133 AGVDD-GGPRLFETDPSGAYNEYKATAIG-SGRQAVTEFLEKEYKEDMSLEEAIELALKA 190

Query: 123 VSLAI 127
           +  A+
Sbjct: 191 LYAAL 195

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

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 34/124 (27%), Positives = 54/124 (43%), Gaps = 19/124 (15%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIVG 64
           +D+  + +Y R    ++     +P  V+    LV+ L    + + Q G         +  
Sbjct: 79  SDANILINYARLIAQRYLYSYQEPIPVEQ---LVQRLCDIKQGYTQYGGLRPFGVSFLYA 135

Query: 65  GWDKYEGGKIYGV-PLGGTIIEQPFAIGG---SGSSYLYGFFDQAWKEGMTKEEAEQLVV 120
           GWDK+ G ++Y   P G     +  AIG    +  S L     Q +K+ MT EEA  L V
Sbjct: 136 GWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLL----KQDYKDDMTLEEALALAV 191

Query: 121 KAVS 124
           K +S
Sbjct: 192 KVLS 195

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

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

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 30/144 (20%), Positives = 66/144 (45%), Gaps = 15/144 (10%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
            AD++ + D  R     + +  G+P  V+    L + +    + + Q G        +++
Sbjct: 77  VADARVLIDRARIEAQINRLTYGEPIDVET---LAKKICDLKQQYTQHGGVRPFGVALLI 133

Query: 64  GGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
            G D   G +++     G ++E +  AIG +G   +  F ++ ++E ++ +EA +L +KA
Sbjct: 134 AGVDD-GGPRLFETDPSGALLEYKATAIG-AGRQAVTEFLEKEYREDLSLDEAIELALKA 191

Query: 123 VSLAIARDGASGGV-VRTVTINSE 145
           +  A+        V V  +T+  +
Sbjct: 192 LYSAVEDKLTPENVEVAYITVEDK 215

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|163402 TIGR03690, 20S_bact_beta, proteasome, beta subunit, bacterial type

 Score = 37.8 bits (88), Expect = 0.001
 Identities = 24/88 (27%), Positives = 43/88 (48%), Gaps = 8/88 (9%)

Query: 70  EGGKIYGV-PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
             G+I+     GG   E+ +   GSGS +  G   + +   + +++A ++ V+A+  A  
Sbjct: 114 GAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRVAVEALYDAAD 173

Query: 129 RDGASGG--VVR-----TVTINSEGVSR 149
            D A+GG  +VR      V I ++G  R
Sbjct: 174 DDSATGGPDLVRGIYPTVVVITADGARR 201

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 [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 219

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	184
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
KOG0178	249	consensus 20S proteasome, regulatory subunit alpha	99.97
KOG0181	233	consensus 20S proteasome, regulatory subunit alpha	99.97
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	99.97
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	99.97
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	99.96
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	99.95
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	99.94
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	99.94
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	99.93
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.89
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.89
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.89
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.88
COG3484	255	Predicted proteasome-type protease [Posttranslatio	98.9
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	98.25
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	90.56
KOG3361	157	consensus Iron binding protein involved in Fe-S cl	89.62

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=3.6e-38  Score=248.55  Aligned_cols=150  Identities=21%  Similarity=0.260  Sum_probs=143.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||+.||++.+++++|.+++.|+++++++++++.+|+++++++|.+| +||+|++||||||++++|+||.+||+
T Consensus        43 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~la~~l~~~ly~~r~~P~~v~~ii~G~D~~~~p~Ly~~D~~  121 (195)
T cd03759          43 RLYIGL-AGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMDLI  121 (195)
T ss_pred             CEEEEc-cchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEcCCCCEEEEEEcCC
Confidence            799999 9999999999999999999999999999999999999999998764 69999999999998778999999999


Q ss_pred             CceeeeC-eEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEee
Q 029964           81 GTIIEQP-FAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFY  152 (184)
Q Consensus        81 G~~~~~~-~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~  152 (184)
                      |++..++ ++|+|+|+++++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|+.++.+
T Consensus       122 G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~~~  194 (195)
T cd03759         122 GCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVDRDALSGWGAVVYIITKDKVTTRTL  194 (195)
T ss_pred             CcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHhhCcccCCceEEEEEcCCcEEEEec
Confidence            9998887 99999999999999999999999999999999999999999999999999999999999987654

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

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=1.2e-37  Score=244.28  Aligned_cols=146  Identities=28%  Similarity=0.363  Sum_probs=141.8

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      |++|++ ||+.+|++.+++++|.+++.|++++|+++|++.+|+++++++|.+| .||+|++||||||+ .||+||++||+
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la~~ls~~l~~~~~~~~~v~~li~G~D~-~g~~L~~~dp~  117 (188)
T cd03761          40 YLLGTM-AGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDK-TGPGLYYVDSD  117 (188)
T ss_pred             cEEEEe-CccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEeC-CCCEEEEEcCC
Confidence            799999 9999999999999999999999999999999999999999999885 58999999999997 49999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      |++.+++++|+|+|+++++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|+++
T Consensus       118 G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~~~~l~~~~~rd~~sg~~~~v~ii~~~g~~~  186 (188)
T cd03761         118 GTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVNLYHVREDGWRK  186 (188)
T ss_pred             ceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEcCCceEE
Confidence            999999999999999999999999999999999999999999999999999999999999999999875

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=9.3e-38  Score=245.88  Aligned_cols=147  Identities=22%  Similarity=0.309  Sum_probs=141.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeCCCCcEEEEEC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDKYEGGKIYGVP   78 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~~~gp~Ly~id   78 (184)
                      ||+|++ ||+.||+|.+.+++|.+++.|+++++++++++.+++++++++|.+   +|||+|++|++|||+++||+||++|
T Consensus        41 ~i~~~~-sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~rP~~~~~li~G~d~~~~p~Ly~~d  119 (193)
T cd03758          41 HKLMAC-SGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYID  119 (193)
T ss_pred             CeEEEE-ccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCcEEEEEC
Confidence            799999 999999999999999999999999999999999999999998753   3699999999999976699999999


Q ss_pred             CCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           79 LGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        79 ~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      |+|++++++++|+|+|+++++++||+.|+++||.+||++++.+|++.+.+||+.++++++|++|+++|+++
T Consensus       120 ~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~a~~~~~~rd~~~~~~i~i~ii~~~g~~~  190 (193)
T cd03758         120 YLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKCIKELKKRFIINLPNFTVKVVDKDGIRD  190 (193)
T ss_pred             CCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEEcCCCeEe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999875

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

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=2.9e-37  Score=246.35  Aligned_cols=152  Identities=20%  Similarity=0.235  Sum_probs=144.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++++|++++++.+|+++++++|.+| +||+|++||||||++++|+||++||+
T Consensus        48 ~i~~~~-sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~ly~~R~~P~~~~~iiaG~D~~~~p~Ly~~D~~  126 (212)
T cd03757          48 KCVLGS-SGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSYDPV  126 (212)
T ss_pred             CEEEEc-cchHHHHHHHHHHHHHHHHHHhHHhCCCCCHHHHHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCEEEEEEcCc
Confidence            799999 9999999999999999999999999999999999999999999865 59999999999997778999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhc---------CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEe
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWK---------EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKF  151 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~---------~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~  151 (184)
                      |++.+++++|+|+|+++++++||+.|+         ++||++||++++++||+.+.+||+.++++++|++|+++|++++.
T Consensus       127 G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g~~~~~  206 (212)
T cd03757         127 GSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGIEEET  206 (212)
T ss_pred             cCeeecCEEEEeecHHHHHHHHHHHHHhhccCcCCCCCCCHHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCCEEEEe
Confidence            999999999999999999999999985         89999999999999999999999999999999999999998766


Q ss_pred             ecC
Q 029964          152 YPG  154 (184)
Q Consensus       152 ~~~  154 (184)
                      ++.
T Consensus       207 ~~~  209 (212)
T cd03757         207 FPL  209 (212)
T ss_pred             ecc
Confidence            543

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=4e-37  Score=241.05  Aligned_cols=147  Identities=54%  Similarity=0.991  Sum_probs=143.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||+.+|++.+.+++|.+++.|+.+++++++++.+|+++++++|.+|+||+|++||||+|++.||+||++||+|
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~~~~~~ii~G~d~~~gp~ly~~d~~G  118 (188)
T cd03762          40 RIYCCR-SGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYKEMLSAGIIVAGWDEQNGGQVYSIPLGG  118 (188)
T ss_pred             CEEEEe-cccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHhccccceeeEEEEEEcCCCCcEEEEECCCC
Confidence            799999 9999999999999999999999999999999999999999999999999999999999975689999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      ++.+++++++|+|+++++++||+.|+++||++||++++++||+.+.+||+.++++++|++|+++|+++
T Consensus       119 ~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~al~~~~~rd~~~~~~~~i~~i~~~g~~~  186 (188)
T cd03762         119 MLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSGGVIRLVIITKDGVER  186 (188)
T ss_pred             CEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhccccCCCEEEEEECCCCEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999975

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

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=6.3e-37  Score=247.47  Aligned_cols=146  Identities=18%  Similarity=0.142  Sum_probs=137.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHc----C-------CCceeEEEEEEEEeCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQ-PATVKVAANLVRLLSYN----N-------KNFLQTGMIVGGWDKY   69 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~-~i~~~~la~~is~~~~~----~-------r~p~~vs~iiaG~D~~   69 (184)
                      ||+||+ ||..||++.+++++|.+++.|++++|+ ++|++.+|+++++++++    +       +|||+|++||||||++
T Consensus        43 ~I~~~~-sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~  121 (236)
T cd03765          43 VIVLLT-AGNLATTQAVISLLQRDLEDPEETNLLNAPTMFDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKG  121 (236)
T ss_pred             EEEEEc-CCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCHHHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECC
Confidence            799999 999999999999999999999999999 89999999999998654    1       3799999999999965


Q ss_pred             CCcEEEEECCCCceeee----CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC
Q 029964           70 EGGKIYGVPLGGTIIEQ----PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE  145 (184)
Q Consensus        70 ~gp~Ly~id~~G~~~~~----~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd  145 (184)
                      .||+||++||+|++.++    +|.|+|. +++++++||++|+++||++||++++++||..++.||..++++++|++|+++
T Consensus       122 ~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~  200 (236)
T cd03765         122 EEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDRVITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERD  200 (236)
T ss_pred             CCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECC
Confidence            68999999999999998    5689996 799999999999999999999999999999999999999999999999999


Q ss_pred             CcEE
Q 029964          146 GVSR  149 (184)
Q Consensus       146 g~~~  149 (184)
                      |.+.
T Consensus       201 G~~~  204 (236)
T cd03765         201 SLQV  204 (236)
T ss_pred             Ceee
Confidence            9875

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=100.00  E-value=3.6e-37  Score=250.84  Aligned_cols=164  Identities=25%  Similarity=0.344  Sum_probs=153.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCC-ceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKN-FLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~-p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|++++|++++++.+|+++++++|.+|. |+.+++||||||++ ||+||++||+
T Consensus        79 ~i~~~~-sG~~aD~~~l~~~lr~~~~~y~~~~g~~isv~~la~~ls~~l~~~R~~~~~v~~iiaG~D~~-gp~Ly~vDp~  156 (247)
T PTZ00488         79 TLLGTM-AGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKK-GPGLFYVDND  156 (247)
T ss_pred             CEEEEe-CcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeeEEEEEEEEeCC-CCEEEEEcCC
Confidence            799999 99999999999999999999999999999999999999999998853 56677899999974 8999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchh
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLW  160 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~  160 (184)
                      |++.+++++|+|+|+.+++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|++.  ++++|+.+|
T Consensus       157 Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g~~~--l~~~ei~~~  234 (247)
T PTZ00488        157 GTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDGWKK--ISADDCFDL  234 (247)
T ss_pred             cceeecCCEEEccCHHHHHHHHHhcCcCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCccEE--CCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999754  999999999


Q ss_pred             hhhcCChhh
Q 029964          161 HEELEPQNS  169 (184)
Q Consensus       161 ~~~~~~~~~  169 (184)
                      ++++...-+
T Consensus       235 l~~~~~~~~  243 (247)
T PTZ00488        235 HQKYAAEKE  243 (247)
T ss_pred             HHHHhhhcc
Confidence            988765443

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

Probab=100.00  E-value=4.3e-37  Score=248.98  Aligned_cols=161  Identities=29%  Similarity=0.437  Sum_probs=151.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC---CceeEEEEEEEEeCCCCcEEEEEC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK---NFLQTGMIVGGWDKYEGGKIYGVP   78 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r---~p~~vs~iiaG~D~~~gp~Ly~id   78 (184)
                      ||+|++ ||+.+|+|.+++++|.+++.|++.+|++++++.+++++|+++|.++   |||+|++||||+|+ ++|+||.+|
T Consensus        70 ~i~~~~-sG~~aDa~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~~rP~gv~~iiaG~d~-~~p~Ly~~D  147 (236)
T COG0638          70 HIGMAI-AGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDD-GGPRLYSTD  147 (236)
T ss_pred             CEEEEe-ccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCcccceEEEEEEEEcC-CCCeEEEEC
Confidence            899999 9999999999999999999999999999999999999999999884   79999999999999 799999999


Q ss_pred             CCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC-CcEEEeecCCCC
Q 029964           79 LGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE-GVSRKFYPGDTL  157 (184)
Q Consensus        79 ~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd-g~~~~~~~~~~~  157 (184)
                      |+|++.+++++|+|+|+++++++||+.|+++|+.+||++++++||..+.+||..++++++|++|+++ |.+  .++.+++
T Consensus       148 p~G~~~~~~~~a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~--~~~~~~~  225 (236)
T COG0638         148 PSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFR--KLDGEEI  225 (236)
T ss_pred             CCCceeecCEEEEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeE--EcCHHHH
Confidence            9999999999999999999999999999999999999999999999999999988989999999995 544  3788888


Q ss_pred             chhhhhcCC
Q 029964          158 PLWHEELEP  166 (184)
Q Consensus       158 ~~~~~~~~~  166 (184)
                      ..+++.+..
T Consensus       226 ~~~~~~~~~  234 (236)
T COG0638         226 KKLLDDLSE  234 (236)
T ss_pred             HHHHHHHhh
Confidence            877766543

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=2.7e-36  Score=238.14  Aligned_cols=147  Identities=24%  Similarity=0.265  Sum_probs=139.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHH-HHHHHhCCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeCCCCcEEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLH-QHTIQLGQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDKYEGGKIYGV   77 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~-~~~~~~~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~~~gp~Ly~i   77 (184)
                      ||+|++ +|+.+|++.+++++|.+++ .|+++++++++++.+|+++++++|++   .|||+|++|+||||+++||+||++
T Consensus        42 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~i~~~~y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~  120 (197)
T cd03760          42 NTLLGA-SGDYADFQYLKRLLDQLVIDDECLDDGHSLSPKEIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEGEPFLGYV  120 (197)
T ss_pred             cEEEEe-CcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCEEEEEE
Confidence            799999 9999999999999999987 56688999999999999999999875   379999999999997569999999


Q ss_pred             CCCCceeeeCeEEEecChhhHHHHhhhhhcC--CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           78 PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE--GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        78 d~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~--~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      ||+|++.+++++|+|+|+++++++||+.|++  +||++||++++++||+.+.+||..++++++|++|+++|+++
T Consensus       121 D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~  194 (197)
T cd03760         121 DLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVLYYRDARSINKYQIAVVTKEGVEI  194 (197)
T ss_pred             cCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEECCCCEEe
Confidence            9999999999999999999999999999999  99999999999999999999999999999999999999864

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=6.3e-36  Score=234.58  Aligned_cols=146  Identities=28%  Similarity=0.433  Sum_probs=142.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||..+|++.+.+++|.+++.|+++++++++++.+|+++++.+|.++.||+|++|+||||+. ||+||.+||+|
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~p~~v~~ivaG~d~~-g~~ly~~d~~G  117 (189)
T cd03763          40 NIYCCG-AGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQGHIGAALVLGGVDYT-GPHLYSIYPHG  117 (189)
T ss_pred             CEEEEc-CccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHcCCccceeEEEEeEcCC-CCEEEEECCCC
Confidence            799999 9999999999999999999999999999999999999999999888899999999999975 89999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      ++.+++++|+|+|+++++++||++|+++||++||++++++||+.+.+||+.++++++|++|+++|++.
T Consensus       118 ~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l~~~~l~~~~~rd~~~~~~~~v~ii~~~g~~~  185 (189)
T cd03763         118 STDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGSNVDLCVITKDGVEY  185 (189)
T ss_pred             CEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCcCCCceEEEEEcCCcEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999874

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=1.7e-35  Score=231.25  Aligned_cols=144  Identities=31%  Similarity=0.467  Sum_probs=139.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ +|..+|++.+.+++|.+++.|+..++++++++.+|+++++++|.++ |||+|++|+||+|++ ||+||.+||+
T Consensus        41 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~rP~~v~~ivaG~d~~-g~~Ly~~d~~  118 (185)
T TIGR03634        41 YIAMTI-AGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVDEE-GPHLYSLDPA  118 (185)
T ss_pred             CEEEEc-CchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEeCC-CCEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999999874 799999999999985 8999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCc
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGV  147 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~  147 (184)
                      |++.+++++++|+|+++++++||+.|+++||++||++++++||+.+.+||..++++++|++|+++|+
T Consensus       119 G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~r~~~~~~~~~v~ii~~~g~  185 (185)
T TIGR03634       119 GGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNGIDVAVITKDGV  185 (185)
T ss_pred             CCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEcCCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999985

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.

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=7.7e-36  Score=239.27  Aligned_cols=161  Identities=21%  Similarity=0.251  Sum_probs=148.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC----CCceeEEEEEEEEeCC-CCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN----KNFLQTGMIVGGWDKY-EGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~----r~p~~vs~iiaG~D~~-~gp~Ly~   76 (184)
                      |++|++ ||+.+|++.+++++|.+++.|+++++++++++.+|+++++++|.+    .|||+|++||||||+. ++|+||+
T Consensus        42 ~i~~~~-sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~rp~~v~~iiaG~D~~~~~~~Ly~  120 (219)
T TIGR03690        42 YSAVGI-AGTAGLAIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAGRIFS  120 (219)
T ss_pred             cEEEEe-cccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhhhhccCCceEEEEEEEECCCCCCcEEEE
Confidence            799999 999999999999999999999999999999999999999999754    5799999999999964 6899999


Q ss_pred             ECCCCc-eeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCe-------EEEEEEeCCCcE
Q 029964           77 VPLGGT-IIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGV-------VRTVTINSEGVS  148 (184)
Q Consensus        77 id~~G~-~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~-------iev~iitkdg~~  148 (184)
                      +||+|+ +..++++|+|+|+++++++||+.|+++||.+||++++++||..+.+||..+++.       ++|++|+++|++
T Consensus       121 ~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~g~~  200 (219)
T TIGR03690       121 YDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITADGAR  200 (219)
T ss_pred             EeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHHHHHHHHHHHHHHHhcccccCCcccccccccEEEEEccCceE
Confidence            999995 677799999999999999999999999999999999999999999999876764       399999999965


Q ss_pred             EEeecCCCCchhhhhcC
Q 029964          149 RKFYPGDTLPLWHEELE  165 (184)
Q Consensus       149 ~~~~~~~~~~~~~~~~~  165 (184)
                      +  ++++|+++++..+.
T Consensus       201 ~--l~~~ei~~~~~~~~  215 (219)
T TIGR03690       201 R--VPESELEELARAIV  215 (219)
T ss_pred             E--cCHHHHHHHHHHHH
Confidence            4  99999999987654

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.

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=2.8e-35  Score=230.60  Aligned_cols=146  Identities=31%  Similarity=0.493  Sum_probs=141.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ +|+.+|++.+.+++|.+++.|++.++++++++.+++++++.+|.++ |||+|++|+||+|+ ++|+||.+||+
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~P~~~~~lvaG~d~-~~~~ly~~D~~  117 (188)
T cd03764          40 KIAMTI-AGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQLLIGGVDE-EGPHLYSLDPL  117 (188)
T ss_pred             CEEEEc-CccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEEEEeC-CCCEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999999874 79999999999998 68999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      |++.+++++|+|+|+++++++||+.|+++|+.+||++++++||+.+.+||+.++++++|++|+++|++.
T Consensus       118 G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~~~~l~~~~~rd~~~~~~i~i~iv~~~g~~~  186 (188)
T cd03764         118 GSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGIDVVVITKDGYKE  186 (188)
T ss_pred             CCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEECCCCeEe
Confidence            999999999999999999999999999999999999999999999999999999999999999999653

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.

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=2.1e-35  Score=241.36  Aligned_cols=164  Identities=15%  Similarity=0.209  Sum_probs=152.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+||+ +|+.+|++.+++.+|.+++.|++++++++++..+++.+++.++.+     .|||+|++||||||+++||+||.
T Consensus        71 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~  149 (253)
T PTZ00246         71 HIFCAV-AGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYH  149 (253)
T ss_pred             CEEEEE-EEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEE
Confidence            799999 999999999999999999999999999999999999999987653     47999999999999766999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCC----cEEEee
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEG----VSRKFY  152 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg----~~~~~~  152 (184)
                      +||+|++.+++++|+|+|+++++++||+.|+++|+++||++++++||..+..+|..++++++|++|+++|    ..++.+
T Consensus       150 ~D~~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l  229 (253)
T PTZ00246        150 TDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKML  229 (253)
T ss_pred             ECCCCCEecceEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEEC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999986    224569


Q ss_pred             cCCCCchhhhhcCC
Q 029964          153 PGDTLPLWHEELEP  166 (184)
Q Consensus       153 ~~~~~~~~~~~~~~  166 (184)
                      +++||+++++++..
T Consensus       230 ~~~ei~~~l~~~~~  243 (253)
T PTZ00246        230 SEKEIAELLKKVTQ  243 (253)
T ss_pred             CHHHHHHHHHHHhh
Confidence            99999999988743

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=1.8e-35  Score=238.18  Aligned_cols=155  Identities=14%  Similarity=0.186  Sum_probs=143.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++++|++++++.+|+.+++++|.+     .|||+|++||+|||+. ||+||.
T Consensus        66 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~-g~~Ly~  143 (227)
T cd03750          66 HIGMVY-SGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEG-GPYLYQ  143 (227)
T ss_pred             CEEEEE-eEcHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCC-CCEEEE
Confidence            899999 999999999999999999999999999999999999999998643     4799999999999975 999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC-CcEEEeecCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE-GVSRKFYPGD  155 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd-g~~~~~~~~~  155 (184)
                      +||+|++.+++++|+|+|+++++++||++|+++||++||++++++||..+.+||. ++.+++|++|+++ |.+  .++++
T Consensus       144 ~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l-~~~~iev~iv~~~~~~~--~~~~~  220 (227)
T cd03750         144 VDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQM-TEKNIEIGICGETKGFR--LLTPA  220 (227)
T ss_pred             ECCCCCEEeeeEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEECCCCEE--ECCHH
Confidence            9999999999999999999999999999999999999999999999999999876 6889999999996 443  47778


Q ss_pred             CCchhh
Q 029964          156 TLPLWH  161 (184)
Q Consensus       156 ~~~~~~  161 (184)
                      |+.+++
T Consensus       221 ei~~~~  226 (227)
T cd03750         221 EIKDYL  226 (227)
T ss_pred             HHHHHh
Confidence            877665

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=7.3e-35  Score=227.99  Aligned_cols=147  Identities=39%  Similarity=0.521  Sum_probs=142.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCC-ceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKN-FLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~-p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||+.+|++.+.+++|.+++.|++.++++++++.+++++++.+|.+++ ||+|++||||+|++++|+||.+||+
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~P~~~~~iv~G~d~~~~~~l~~id~~  118 (189)
T cd01912          40 NILLGT-AGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPL  118 (189)
T ss_pred             CEEEEc-cccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEcCCCCeEEEEECCC
Confidence            799999 99999999999999999999999999999999999999999998864 9999999999998669999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      |++.+++++|+|.++++++++||+.|+++||.+||++++++||+.+.+||+.++++++|++|+++|++.
T Consensus       119 G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi~~~g~~~  187 (189)
T cd01912         119 GSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVDVAVITKDGVEE  187 (189)
T ss_pred             CCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhcCccCCcEEEEEECCCCEEE
Confidence            999999999999999999999999999999999999999999999999999999999999999999864

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=2.7e-35  Score=239.13  Aligned_cols=160  Identities=19%  Similarity=0.246  Sum_probs=150.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++.+|.+     +|||+|++||||+|+ .||+||.
T Consensus        75 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~-~gp~Ly~  152 (241)
T PRK03996         75 HIGAAS-AGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFE  152 (241)
T ss_pred             CEEEEE-cccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeC-CcCEEEE
Confidence            799999 999999999999999999999999999999999999999998654     479999999999998 4899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +||+|++.+++++|+|+|++.++++||+.|+++|+++||++++++||..+.++ ..++++++|++|+++|..++.++++|
T Consensus       153 id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~-~~~~~~i~i~ii~~~~~~~~~~~~~e  231 (241)
T PRK03996        153 TDPSGAYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEG-KLDPENVEIAYIDVETKKFRKLSVEE  231 (241)
T ss_pred             ECCCCCeecceEEEECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEECCCCcEEECCHHH
Confidence            99999999999999999999999999999999999999999999999999875 55788999999999997667799999


Q ss_pred             Cchhhhhc
Q 029964          157 LPLWHEEL  164 (184)
Q Consensus       157 ~~~~~~~~  164 (184)
                      +..+++++
T Consensus       232 i~~~~~~~  239 (241)
T PRK03996        232 IEKYLEKL  239 (241)
T ss_pred             HHHHHHHh
Confidence            99998765

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=2e-34  Score=231.61  Aligned_cols=152  Identities=19%  Similarity=0.274  Sum_probs=142.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+.+++|.++..|+++++++++++.+|+++++++|.+     +|||+|++||||+|+ ++|+||.
T Consensus        68 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~-~~~~Ly~  145 (224)
T TIGR03633        68 HIGAAT-SGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFE  145 (224)
T ss_pred             CEEEEE-eecHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeC-CcCEEEE
Confidence            799999 999999999999999999999999999999999999999998654     579999999999997 5999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +||+|++.+++++|+|+|+.+++++||+.|+++|+.+||++++++||..+.+ |+.++++++|++|+++|..++.++++|
T Consensus       146 ~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~~-d~~~~~~i~i~ii~~~g~~~~~~~~~~  224 (224)
T TIGR03633       146 TDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAVE-DKLTPENVEVAYITVEDKKFRKLSVEE  224 (224)
T ss_pred             ECCCCCeecceEEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEEEEEEEcCCCcEEECCCCC
Confidence            9999999999999999999999999999999999999999999999999888 888999999999999997555676664

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.

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

Probab=100.00  E-value=9.5e-35  Score=222.94  Aligned_cols=159  Identities=21%  Similarity=0.293  Sum_probs=146.3

Q ss_pred             CcEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc----------CCCceeEEEEEEEEeCCC
Q 029964            1 MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYN----------NKNFLQTGMIVGGWDKYE   70 (184)
Q Consensus         1 ~~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~----------~r~p~~vs~iiaG~D~~~   70 (184)
                      .||+|++ ||+.||++.+++++|.+++++++.||++++++.+.+.+|++.-.          .+|||||++++||+|++ 
T Consensus        72 ~HIgca~-SGl~aDarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~-  149 (241)
T KOG0176|consen   72 DHIGCAM-SGLIADARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDET-  149 (241)
T ss_pred             hceeeec-cccccchHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCC-
Confidence            3899999 99999999999999999999999999999999999999998532          15899999999999985 


Q ss_pred             CcEEEEECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEE
Q 029964           71 GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRK  150 (184)
Q Consensus        71 gp~Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~  150 (184)
                      ||+||..||+|+|+.+++.|+|+|+.-+.+.|++.|+++++++||+.+++..|+.+++.... .+|++|++|+++|-. +
T Consensus       150 gpqL~h~dPSGtf~~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMeeKl~-~~Nvev~~vt~e~~f-~  227 (241)
T KOG0176|consen  150 GPQLYHLDPSGTFIRYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVMEEKLN-SNNVEVAVVTPEGEF-H  227 (241)
T ss_pred             CceEEEeCCCCceEEecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHhcC-ccceEEEEEcccCce-E
Confidence            99999999999999999999999999999999999999999999999999999999987654 678999999999766 4


Q ss_pred             eecCCCCchhhhh
Q 029964          151 FYPGDTLPLWHEE  163 (184)
Q Consensus       151 ~~~~~~~~~~~~~  163 (184)
                      +++++|++.++..
T Consensus       228 ~~t~EE~~~~i~~  240 (241)
T KOG0176|consen  228 IYTPEEVEQVIKR  240 (241)
T ss_pred             ecCHHHHHHHHhc
Confidence            5888888877654

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=1.4e-33  Score=227.36  Aligned_cols=159  Identities=11%  Similarity=0.159  Sum_probs=142.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHHHHc----CCCceeEEEEEEEEeC-CCCcEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLG-QPATVKVAANLVRLLSYN----NKNFLQTGMIVGGWDK-YEGGKIY   75 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~-~~i~~~~la~~is~~~~~----~r~p~~vs~iiaG~D~-~~gp~Ly   75 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|++.++ .+++++.+|+.+++.++.    +.|||+|++|++|||+ +.||+||
T Consensus        59 ~ig~~~-sG~~~D~~~lv~~~r~~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~~~~~RP~gvs~Li~G~d~~~~gp~Ly  137 (228)
T TIGR03691        59 RIGFAA-VGKYNEFENLRRAGIRYADMRGYSYDRRDVTGRGLANAYAQTLGTIFTEQQKPYEVEICVAEVGETPDQDQLY  137 (228)
T ss_pred             CEEEEE-cCCHHHHHHHHHHHHHHHHHHhhhcCCCCccHHHHHHHHHhhcccccccccCcceEEEEEEEEcCCCCCCEEE
Confidence            899999 99999999999999999999999998 689999999988887653    3689999999999985 4689999


Q ss_pred             EECCCCceeeeC-eEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHH--hcCCCCCeEEEEEEeCCC--cEEE
Q 029964           76 GVPLGGTIIEQP-FAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA--RDGASGGVVRTVTINSEG--VSRK  150 (184)
Q Consensus        76 ~id~~G~~~~~~-~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~--rd~~s~~~iev~iitkdg--~~~~  150 (184)
                      ++||+|++.+++ ++|+|+|++.++++||++|+++||.+||++++++||..+.+  ||..++.++||++|++++  ..++
T Consensus       138 ~vDpsG~~~~~~~~~aiG~gs~~a~~~Lek~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~  217 (228)
T TIGR03691       138 RITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFR  217 (228)
T ss_pred             EECCCCCceeccceEEECCChHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceE
Confidence            999999999976 89999999999999999999999999999999999999964  667888999999999765  2345


Q ss_pred             eecCCCCchhh
Q 029964          151 FYPGDTLPLWH  161 (184)
Q Consensus       151 ~~~~~~~~~~~  161 (184)
                      .++++|+++++
T Consensus       218 ~l~~~ei~~~l  228 (228)
T TIGR03691       218 RITGEALERLL  228 (228)
T ss_pred             ECCHHHHHhhC
Confidence            68888887664

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.

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=2.1e-33  Score=224.23  Aligned_cols=140  Identities=19%  Similarity=0.254  Sum_probs=133.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+.+++|.+++.|+++++++++++.+|+.++..++.+     +|||+|++|++|||++.||+||.
T Consensus        69 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~  147 (213)
T cd03752          69 HIACAV-AGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQ  147 (213)
T ss_pred             CEEEEE-ecChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEE
Confidence            799999 999999999999999999999999999999999999999986543     57999999999999756999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +||+|++.+++++|+|+|+.+++++||++|+++||++||++++++||..+.+||..++.+++|++|
T Consensus       148 ~d~~G~~~~~~~~a~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         148 SDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             ECCCCCeeeeeEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            999999999999999999999999999999999999999999999999999999888999999875

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=2.4e-33  Score=223.63  Aligned_cols=140  Identities=16%  Similarity=0.199  Sum_probs=132.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|+++++++++++.+|+.+++.+|.+     +|||+|++||+|||+. ||+||+
T Consensus        64 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~-gp~Ly~  141 (211)
T cd03749          64 HIGIAI-AGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDES-GPHLFQ  141 (211)
T ss_pred             CEEEEE-EeChHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCC-CCeEEE
Confidence            799999 999999999999999999999999999999999999999987642     5799999999999975 899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhc--CCCCHHHHHHHHHHHHHHHHHhcC-CCCCeEEEEEEe
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWK--EGMTKEEAEQLVVKAVSLAIARDG-ASGGVVRTVTIN  143 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~--~~~s~~eai~l~~~~l~~~~~rd~-~s~~~iev~iit  143 (184)
                      +||+|++.+++++|+|+|+++++++||++|+  ++||.+||+++++++|+.++.+|. .++.+|||++|+
T Consensus       142 ~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         142 TCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             ECCCcCEeeeeEEEECCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            9999999999999999999999999999999  599999999999999999999987 888999999984

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=3e-33  Score=222.40  Aligned_cols=137  Identities=17%  Similarity=0.228  Sum_probs=130.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+.+++|.+++.|+++++++++++.+++.+++++|.+     +|||+|++||+|||++++|+||+
T Consensus        66 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~  144 (207)
T cd03755          66 HVCLAF-AGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQ  144 (207)
T ss_pred             CEEEEE-ecchhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEE
Confidence            799999 999999999999999999999999999999999999999998554     47999999999999867999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +||+|++.+++++|+|+|+++++++||++|+++||.+||++++++||..+.+   .++.++||+++
T Consensus       145 iD~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~---~~~~~~e~~~~  207 (207)
T cd03755         145 TDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVVQ---SGSKNIELAVM  207 (207)
T ss_pred             ECCCcCEEcceEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhC---CCCCeEEEEEC
Confidence            9999999999999999999999999999999999999999999999999987   57789999875

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

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=4.1e-33  Score=222.49  Aligned_cols=139  Identities=17%  Similarity=0.111  Sum_probs=131.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|++++|++++++.+|+++++++|.+     +|||+|++||+|||+ +||+||.
T Consensus        69 ~i~~~~-sG~~~D~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~-~gp~Ly~  146 (212)
T cd03751          69 HIGIAV-AGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDS-DGPQLYM  146 (212)
T ss_pred             cEEEEE-EEChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeC-CcCEEEE
Confidence            799999 999999999999999999999999999999999999999987653     579999999999997 4899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +||+|++.+++++|+|+|+++++++||++|+++||++||+++++++|..+.+.+...+.++||+++
T Consensus       147 ~D~~Gs~~~~~~~a~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         147 IEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             ECCCCCEEeeEEEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            999999999999999999999999999999999999999999999999999877667788999875

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

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=9.5e-33  Score=220.79  Aligned_cols=139  Identities=19%  Similarity=0.231  Sum_probs=130.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc--C---CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYN--N---KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~--~---r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+.+++|.++..|+++++++++++.+|+.+++++|.  .   .|||+|++||||+|+++||+||+
T Consensus        68 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~  146 (215)
T cd03754          68 EIGCVM-TGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYK  146 (215)
T ss_pred             CEEEEE-EechhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEE
Confidence            799999 99999999999999999999999999999999999999997543  2   47999999999999766999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCC--C--CHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEG--M--TKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~--~--s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +||+|++.+++++|+|+|+++++++||++|+++  |  |.+||++++++||..+.+||.. ++++||+||
T Consensus       147 ~Dp~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~-~~~~ei~~~  215 (215)
T cd03754         147 CDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFK-ATEIEVGVV  215 (215)
T ss_pred             EcCCccEEeEEEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCC-CCcEEEEEC
Confidence            999999999999999999999999999999985  7  9999999999999999999965 889999985

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.

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

Probab=100.00  E-value=7e-33  Score=212.00  Aligned_cols=165  Identities=52%  Similarity=0.919  Sum_probs=160.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+||. ||.+||.|.+.+.++..+..|..++|+++.+...|+.++++.|.||..+..++|+||||+..|.++|.|-..|
T Consensus        59 ~i~cCR-SGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v~~aA~l~r~~~Y~~re~L~AgliVAGwD~~~gGqVY~iplGG  137 (224)
T KOG0174|consen   59 NIYCCR-SGSAADTQAIADIVRYHLELYTIQENKPPLVHTAASLFREICYNYREMLSAGLIVAGWDEKEGGQVYSIPLGG  137 (224)
T ss_pred             cEEEec-CCchhhHHHHHHHHHHHHHHhhhhcCCCchHHHHHHHHHHHHHhCHHhhhcceEEeecccccCceEEEeecCc
Confidence            799999 9999999999999999999999999999999999999999999999999999999999998899999998899


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchhh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWH  161 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~~  161 (184)
                      ...+.++..-|+||.+++++++..|+++||+||+++++++++..+++||..||+.|.+.+|+++|+.+++++++++++|.
T Consensus       138 ~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~~~~  217 (224)
T KOG0174|consen  138 SLTRQPFAIGGSGSTFIYGFCDANWRPNMTLEECVRFVKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLGQFA  217 (224)
T ss_pred             eEeecceeeccCCceeeeeeehhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCcccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCh
Q 029964          162 EELEPQ  167 (184)
Q Consensus       162 ~~~~~~  167 (184)
                      .+.+|.
T Consensus       218 v~t~p~  223 (224)
T KOG0174|consen  218 VETPPP  223 (224)
T ss_pred             ccCCCC
Confidence            888775

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=3.9e-32  Score=210.83  Aligned_cols=140  Identities=34%  Similarity=0.461  Sum_probs=135.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC---CceeEEEEEEEEeCCCCcEEEEEC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK---NFLQTGMIVGGWDKYEGGKIYGVP   78 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r---~p~~vs~iiaG~D~~~gp~Ly~id   78 (184)
                      ||+|++ +|..+|++.+.++++.++..|+++++++++++.+++++++.+|.++   |||++++|+||+|++++|+||.+|
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~p~~~~~lv~G~d~~~~~~Ly~id  118 (182)
T cd01906          40 HIGCAF-AGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVD  118 (182)
T ss_pred             CEEEEE-eeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCccChheEEEEEEEeCCCCcEEEEEC
Confidence            799999 9999999999999999999999999999999999999999999875   899999999999985699999999


Q ss_pred             CCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           79 LGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        79 ~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      |+|++.+++++|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++.+++|++|
T Consensus       119 ~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         119 PSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             CCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHcccCCCCCCEEEEEC
Confidence            9999999999999999999999999999999999999999999999999999988999999875

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

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=3.8e-32  Score=216.57  Aligned_cols=139  Identities=22%  Similarity=0.294  Sum_probs=132.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      |++|++ ||+.+|++.+.+++|.+++.|+++++++++++.+|+.+++.+|.+     .|||+|++||||+|+. +|+||+
T Consensus        67 ~i~~~~-sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~-~~~ly~  144 (211)
T cd03756          67 HVGAAT-SGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDG-GPRLFE  144 (211)
T ss_pred             CEEEEE-ecCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCC-CCEEEE
Confidence            799999 999999999999999999999999999999999999999987654     3699999999999984 999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEe
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTIN  143 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iit  143 (184)
                      +||+|++.+++++++|+|+++++++||+.|+++|+++||++++++||..+.++|. ++.+++|++|+
T Consensus       145 vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~~~~~~-~~~~~~v~ii~  210 (211)
T cd03756         145 TDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAALEENE-TPENVEIAYVT  210 (211)
T ss_pred             ECCCCCeeeeEEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEe
Confidence            9999999999999999999999999999999999999999999999999988776 88999999997

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

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=2.7e-32  Score=217.06  Aligned_cols=139  Identities=21%  Similarity=0.306  Sum_probs=133.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+.++++.++..|++++|++++++.+|++++++++.+     +|||+|++||+|+|+++||+||.
T Consensus        66 ~i~~~~-sG~~~D~~~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~  144 (209)
T cd01911          66 HIGCAV-AGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQ  144 (209)
T ss_pred             CeEEEe-ccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEE
Confidence            799999 999999999999999999999999999999999999999988543     46999999999999877999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +||.|++.+++++++|+|+.+++++||+.|+++|+.+||++++++||..+..||. +++.++|+++
T Consensus       145 iD~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~-~~~~~~i~i~  209 (209)
T cd01911         145 TDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDK-KAKNIEIAVV  209 (209)
T ss_pred             ECCCCCeeeeeEEEeCCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHhccC-CCCcEEEEEC
Confidence            9999999999999999999999999999999999999999999999999999999 8999999875

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

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=6.8e-32  Score=215.42  Aligned_cols=138  Identities=22%  Similarity=0.298  Sum_probs=130.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC----------CCceeEEEEEEEEeCCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN----------KNFLQTGMIVGGWDKYEG   71 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~----------r~p~~vs~iiaG~D~~~g   71 (184)
                      ||+|++ ||+.+|++.+.+++|.+++.|++++|++++++.+++.+++++|.+          .|||+|++||||||+ +|
T Consensus        66 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~-~g  143 (213)
T cd03753          66 HIGCAM-SGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDE-NG  143 (213)
T ss_pred             CEEEEE-ecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcC-CC
Confidence            799999 999999999999999999999999999999999999999998753          379999999999997 48


Q ss_pred             cEEEEECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           72 GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        72 p~Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      |+||++||+|++.+++++|+|+++++++++|+++|+++|+++||++++++||+.+.+++ .++.++||++|
T Consensus       144 p~Ly~vd~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~-~~~~~~ei~~~  213 (213)
T cd03753         144 PQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEK-LNSTNVELATV  213 (213)
T ss_pred             CEEEEECCCCCeecccEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEC
Confidence            99999999999999999999999999999999999999999999999999999887765 66788999875

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=1.8e-31  Score=208.35  Aligned_cols=140  Identities=28%  Similarity=0.355  Sum_probs=130.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH----Hc-CCCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS----YN-NKNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~----~~-~r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+.++++.+++.|++.++.+++++.+++.+++.+    +. ++||+++++|+||+|++++|+||.
T Consensus        45 ~i~~~~-sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~  123 (190)
T PF00227_consen   45 NIIIGF-SGLTADFQYLIRRLREEAQEYRFSYGRPISPEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYS  123 (190)
T ss_dssp             TEEEEE-EESHHHHHHHHHHHHHHHHHHHHHHSSGTCHHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEE
T ss_pred             cceeec-cccccchHHHHhhhcccchhhhhccCccccchhhhhhhHHHHhhhcccccccCccccceeeeeccccccceee
Confidence            799999 999999999999999999999999999999997666666654    32 368999999999999876799999


Q ss_pred             ECCCCceeee-CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           77 VPLGGTIIEQ-PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        77 id~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +||+|++.++ ++.|+|+|+++++++|++.|+++||.+||++++++||+.+.++|..++++++|++|
T Consensus       124 vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  124 VDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLSLEEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             EETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSSHHHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             eccccccccccccccchhcchhhhHHHHhhccCCCCHHHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            9999999999 69999999999999999999999999999999999999999999999999999987

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 ....

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

Probab=99.97  E-value=2.5e-31  Score=205.83  Aligned_cols=164  Identities=18%  Similarity=0.247  Sum_probs=152.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ +|+++|+..|++.+|..+++|.+++|.++|++.|++.++++.|.|     .||||||++.+|||...|.+||+
T Consensus        71 ~iaC~v-aGlt~DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~  149 (249)
T KOG0178|consen   71 NIACAV-AGLTSDANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQ  149 (249)
T ss_pred             ceEEEE-ecccccHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEe
Confidence            899999 999999999999999999999999999999999999999998755     58999999999999988999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCC-CCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE--Eeec
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEG-MTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR--KFYP  153 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~-~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~--~~~~  153 (184)
                      .||||++..|++.++|.++..+++.|++.|+.+ ++++||+++|++.|...++.+..+...+|++.|++++.+.  ++++
T Consensus       150 SdPSGny~gWka~ciG~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k~v~~i~~  229 (249)
T KOG0178|consen  150 SDPSGNYGGWKATCIGANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNKTVLKILK  229 (249)
T ss_pred             cCCCCCccccceeeeccchHHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCceEEEecC
Confidence            999999999999999999999999999999986 4599999999999999999998899999999999987654  4578


Q ss_pred             CCCCchhhhhcCC
Q 029964          154 GDTLPLWHEELEP  166 (184)
Q Consensus       154 ~~~~~~~~~~~~~  166 (184)
                      .+|+.+.+++.+.
T Consensus       230 ~~ev~kll~k~~~  242 (249)
T KOG0178|consen  230 KDEVLKLLEKYHE  242 (249)
T ss_pred             HHHHHHHHHHhhh
Confidence            8888888877654

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

Probab=99.97  E-value=6.4e-32  Score=206.93  Aligned_cols=159  Identities=14%  Similarity=0.208  Sum_probs=148.3

Q ss_pred             CcEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEE
Q 029964            1 MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIY   75 (184)
Q Consensus         1 ~~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly   75 (184)
                      .||+|.. ||+.+|++.+++..|+.+++|...|++++|+.++.+.++..||+|     -||||++++|+|||+ ++|.||
T Consensus        70 ~~IG~vY-SGmgpD~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~-~~p~Ly  147 (233)
T KOG0181|consen   70 PHIGCVY-SGMGPDYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDE-GGPLLY  147 (233)
T ss_pred             CCcceEE-ecCCCceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCC-CceeEE
Confidence            3899999 999999999999999999999999999999999999999999987     389999999999998 599999


Q ss_pred             EECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCC
Q 029964           76 GVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGD  155 (184)
Q Consensus        76 ~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~  155 (184)
                      ++||||+++.|+++|.|.+...++.+||++|..++.+++++..++..|+...+.... .+++||+++...+.++  +++.
T Consensus       148 QvdPSGsyf~wkatA~Gkn~v~aktFlEkR~~edleldd~ihtailtlkE~fege~~-~~nieigv~~~~~F~~--lt~~  224 (233)
T KOG0181|consen  148 QVDPSGSYFAWKATAMGKNYVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEGEMT-AKNIEIGVCGENGFRR--LTPA  224 (233)
T ss_pred             EECCccceeehhhhhhccCcchHHHHHHHHhccccccchHHHHHHHHHHHHhccccc-cCceEEEEecCCceee--cCHH
Confidence            999999999999999999999999999999999999999999999999999887654 6789999999777655  8899


Q ss_pred             CCchhhhhc
Q 029964          156 TLPLWHEEL  164 (184)
Q Consensus       156 ~~~~~~~~~  164 (184)
                      ||..|++++
T Consensus       225 eI~d~l~~l  233 (233)
T KOG0181|consen  225 EIEDYLASL  233 (233)
T ss_pred             HHHHHHhcC
Confidence            999988764

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

Probab=99.97  E-value=7.8e-32  Score=209.08  Aligned_cols=161  Identities=17%  Similarity=0.245  Sum_probs=148.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||.+++ ||+.||++-+++++|-+|+.|++..+.+++++.++++|+.+-|.|     |||||+|.+|+|+|+++.|+||+
T Consensus        69 hV~maf-aGl~aDArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyq  147 (249)
T KOG0183|consen   69 HVVMAF-AGLTADARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQ  147 (249)
T ss_pred             eeeEEe-cCCCccceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEe
Confidence            899999 999999999999999999999999999999999999999987765     79999999999999988999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCC--CCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEG--MTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPG  154 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~--~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~  154 (184)
                      +||+|.|++|++.|+|-+++.++.+|||.|+++  .+..++++|+.++|..+...   .+.++|++++++++.. +.+..
T Consensus       148 tePsG~f~ewka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvqs---~~~nie~aVm~~~~~~-~~l~~  223 (249)
T KOG0183|consen  148 TEPSGIFSEWKANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQS---GGKNIEVAVMKRRKDL-KMLES  223 (249)
T ss_pred             eCCCcchhhhhccccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhhc---CCCeeEEEEEecCCce-eecCH
Confidence            999999999999999999999999999999876  78899999999999999874   4578999999998854 35899


Q ss_pred             CCCchhhhhcCCh
Q 029964          155 DTLPLWHEELEPQ  167 (184)
Q Consensus       155 ~~~~~~~~~~~~~  167 (184)
                      ++|+.+..+++..
T Consensus       224 ~~I~~~v~~ie~E  236 (249)
T KOG0183|consen  224 EEIDDIVKEIEQE  236 (249)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998877654

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

Probab=99.97  E-value=9.5e-31  Score=202.73  Aligned_cols=164  Identities=15%  Similarity=0.161  Sum_probs=152.5

Q ss_pred             CcEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEE
Q 029964            1 MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIY   75 (184)
Q Consensus         1 ~~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly   75 (184)
                      .+|||++ +|..+|++..++++|.++.+++++||+++|++.||++++++.|.|     .||+||.+++.|+|++.||.+|
T Consensus        74 k~ig~v~-tG~~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~vY  152 (246)
T KOG0182|consen   74 KKIGCVI-TGMIADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSVY  152 (246)
T ss_pred             ccceEEE-ecCCcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcceE
Confidence            3799999 999999999999999999999999999999999999999998754     5899999999999999899999


Q ss_pred             EECCCCceeeeCeEEEecChhhHHHHhhhhhcCC--CCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeec
Q 029964           76 GVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEG--MTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYP  153 (184)
Q Consensus        76 ~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~--~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~  153 (184)
                      ++||.|.++.+++++.|.....+.++|||+||++  .|.+|+++++..||..++..|..+ ..+||++++++.++++.|+
T Consensus       153 k~DpAGyy~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~-se~EVgvv~~~~p~f~~Ls  231 (246)
T KOG0182|consen  153 KTDPAGYYYGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFKS-SELEVGVVTVDNPEFRILS  231 (246)
T ss_pred             eecCccccccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccCC-cceEEEEEEcCCcceeecc
Confidence            9999999999999999999999999999999987  779999999999999999999875 4799999999999777899


Q ss_pred             CCCCchhhhhcCC
Q 029964          154 GDTLPLWHEELEP  166 (184)
Q Consensus       154 ~~~~~~~~~~~~~  166 (184)
                      .+||+.-+-.+-+
T Consensus       232 ~~eie~hL~~IAE  244 (246)
T KOG0182|consen  232 AEEIEEHLQAIAE  244 (246)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999887755543

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

Probab=99.97  E-value=1.8e-30  Score=206.15  Aligned_cols=163  Identities=28%  Similarity=0.396  Sum_probs=153.1

Q ss_pred             EccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCc-eeEEEEEEEEeCCCCcEEEEECCCCcee
Q 029964            6 LRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEGGKIYGVPLGGTII   84 (184)
Q Consensus         6 ~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p-~~vs~iiaG~D~~~gp~Ly~id~~G~~~   84 (184)
                      +.|+|-+||||++-+.+..+|+.|++++++.|+|..+++++|+++|+||.. +.++.+|+|||+. ||.||.+|..|+-.
T Consensus       114 GTmAGgAADCqfWer~L~kecRL~eLRnkeriSVsaASKllsN~~y~YkGmGLsmGtMi~G~Dk~-GP~lyYVDseG~Rl  192 (285)
T KOG0175|consen  114 GTMAGGAADCQFWERVLAKECRLHELRNKERISVSAASKLLSNMVYQYKGMGLSMGTMIAGWDKK-GPGLYYVDSEGTRL  192 (285)
T ss_pred             hcccCcchhhHHHHHHHHHHHHHHHHhcCcceehHHHHHHHHHHHhhccCcchhheeeEeeccCC-CCceEEEcCCCCEe
Confidence            446999999999999999999999999999999999999999999999986 9999999999995 99999999999999


Q ss_pred             eeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCch----h
Q 029964           85 EQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPL----W  160 (184)
Q Consensus        85 ~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~----~  160 (184)
                      +.+-.++|+||.+|+++|+..|+++|+.+||.+|+++++-.|..||..||+.+.+..|+.||+.+  +++.++..    |
T Consensus       193 ~G~~FSVGSGs~yAYGVLDsgYr~dls~eEA~~L~rrAI~hAThRDaySGG~vnlyHv~edGW~~--v~~~Dv~~L~~~~  270 (285)
T KOG0175|consen  193 SGDLFSVGSGSTYAYGVLDSGYRYDLSDEEAYDLARRAIYHATHRDAYSGGVVNLYHVKEDGWVK--VSNTDVSELHYHY  270 (285)
T ss_pred             cCceEeecCCCceeEEeeccCCCCCCCHHHHHHHHHHHHHHHHhcccccCceEEEEEECCcccee--cCCccHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999986  56666654    6


Q ss_pred             hhhcCChhhhh
Q 029964          161 HEELEPQNSLL  171 (184)
Q Consensus       161 ~~~~~~~~~~~  171 (184)
                      ++.++|.+++-
T Consensus       271 ~e~~~~~~~~~  281 (285)
T KOG0175|consen  271 YEVAPPEAEKD  281 (285)
T ss_pred             HHhcCccchhh
Confidence            78888888874

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

Probab=99.97  E-value=2.5e-29  Score=194.47  Aligned_cols=154  Identities=22%  Similarity=0.227  Sum_probs=145.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCC-ceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKN-FLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~-p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      |+.++. ||++||+..|.++++.+.+.|+..+++.+++..+|+++|.++|..|. |+.+..|++|+|++|++.+|..||.
T Consensus        69 ~~vl~~-sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~s~A~lls~~LY~kRFFPYYv~~ilaGiDeeGKG~VySyDPv  147 (235)
T KOG0179|consen   69 NIVLGS-SGFYADTLALVKVIKSRIKQYEHDHNKKMSIHSAAQLLSTILYSKRFFPYYVFNILAGIDEEGKGAVYSYDPV  147 (235)
T ss_pred             ceEEec-ccchhhHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHhhcccccceeeeeeecccccCceeEEeecCC
Confidence            688999 99999999999999999999999999999999999999999999874 9999999999999999999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhc-----------CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWK-----------EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~-----------~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      |++.+..+.|.|+++..++++|+....           +.+|+++|++|++.+|..|.+||..+|+.++|+|+++||+++
T Consensus       148 Gsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~gV~~  227 (235)
T KOG0179|consen  148 GSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLENAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKDGVEV  227 (235)
T ss_pred             cceeeeeeecCCcchhhhhhhhhhhccCcCcccccCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecCCEEE
Confidence            999999999999999999999998532           248999999999999999999999999999999999999998


Q ss_pred             EeecCCC
Q 029964          150 KFYPGDT  156 (184)
Q Consensus       150 ~~~~~~~  156 (184)
                      +++|..+
T Consensus       228 e~~~Lrk  234 (235)
T KOG0179|consen  228 ETLPLRK  234 (235)
T ss_pred             EeeeccC
Confidence            8887654

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

Probab=99.97  E-value=1.3e-29  Score=193.32  Aligned_cols=147  Identities=23%  Similarity=0.306  Sum_probs=141.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeCCCCcEEEEEC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDKYEGGKIYGVP   78 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~~~gp~Ly~id   78 (184)
                      |+.|+. +|..+|+-++.+++.+.++.|+.++|+++||+.+|+++++.+..+   |+|+.|++++||+|++.||.||++|
T Consensus        41 ~~lm~~-~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aahFtR~~La~~LRsr~~yqV~~LvaGYd~~~gp~L~~iD  119 (200)
T KOG0177|consen   41 HILMAT-VGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAHFTRRELAESLRSRTPYQVNILVAGYDPEEGPELYYID  119 (200)
T ss_pred             ceeeee-ecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHHHHHHHHHHHHhcCCCceEEEEEeccCCCCCCceeeeh
Confidence            678999 999999999999999999999999999999999999999998764   6799999999999998899999999


Q ss_pred             CCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           79 LGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        79 ~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      ..|+..+.+|.+.|.|+.++.++|++.|+|+||.+||+++..+|+..+.+|-.....++.|.+|+|||.+.
T Consensus       120 yla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lmkKCv~El~kRlvin~~~f~v~IVdkdGir~  190 (200)
T KOG0177|consen  120 YLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLMKKCVLELKKRLVINLPGFIVKIVDKDGIRK  190 (200)
T ss_pred             hhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHhcccCCCCcEEEEEcCCCcee
Confidence            99999999999999999999999999999999999999999999999999998888899999999999976

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

Probab=99.96  E-value=2.6e-28  Score=191.23  Aligned_cols=161  Identities=17%  Similarity=0.198  Sum_probs=147.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHc----C-CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYN----N-KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~----~-r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||++++ +|+++|++.+.+++|.+|..++..+++++|+..+...+.+-+|.    | ||||||+++++|+|+. ||+||+
T Consensus        69 h~g~si-AGLt~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~-G~hl~e  146 (264)
T KOG0863|consen   69 HIGISI-AGLTADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDES-GPHLYE  146 (264)
T ss_pred             ccceEE-eccCcchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCC-CceeEE
Confidence            899999 99999999999999999999999999999999999999988764    3 8999999999999995 999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhc--CCCCHHHHHHHHHHHHHHHHHhc-CCCCCeEEEEEEeCCCcEEEeec
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWK--EGMTKEEAEQLVVKAVSLAIARD-GASGGVVRTVTINSEGVSRKFYP  153 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~--~~~s~~eai~l~~~~l~~~~~rd-~~s~~~iev~iitkdg~~~~~~~  153 (184)
                      ++|+|++.+++..++|+.|+.++++||+...  ++++.+|.|..++.||+.++..| ..++.+++|+||.||-++. +++
T Consensus       147 ~~Psg~v~e~~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~-~~d  225 (264)
T KOG0863|consen  147 FCPSGNVFECKGMSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFT-ILD  225 (264)
T ss_pred             EcCCccEEEEeeeecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceE-eec
Confidence            9999999999999999999999999999875  48999999999999999999855 6778899999999998874 688


Q ss_pred             CCCCchhhhhcC
Q 029964          154 GDTLPLWHEELE  165 (184)
Q Consensus       154 ~~~~~~~~~~~~  165 (184)
                      .+++.+|.+..+
T Consensus       226 ~~~~~k~~~~~~  237 (264)
T KOG0863|consen  226 QKDVAKYVDLFK  237 (264)
T ss_pred             HHHHHHHHHHhh
Confidence            888888875443

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

Probab=99.95  E-value=3.2e-27  Score=187.18  Aligned_cols=146  Identities=29%  Similarity=0.445  Sum_probs=141.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+||. +|..+|...+.+-+.++...+++..++.++|-.+-+++.+.++.|+...++.+|++|+|.+ ||+||++.|.|
T Consensus        77 ~IyccG-AGtAADte~vt~m~ss~l~Lh~l~t~R~~rVv~A~~mlkQ~LFrYqG~IgA~LiiGGvD~T-GpHLy~i~phG  154 (271)
T KOG0173|consen   77 NIYCCG-AGTAADTEMVTRMISSNLELHRLNTGRKPRVVTALRMLKQHLFRYQGHIGAALILGGVDPT-GPHLYSIHPHG  154 (271)
T ss_pred             ceEEcc-CCchhhHHHHHHHHHHHHHHHHhccCCCCceeeHHHHHHHHHHHhcCcccceeEEccccCC-CCceEEEcCCC
Confidence            799999 9999999999999999999999999999999999999999999999999999999999997 99999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      +..+.+|.+.|||+..++++||.+|+++|++|||++|+.+|+...+..|..||+++++++|++.+...
T Consensus       155 Std~~Pf~alGSGslaAmsvlEsr~k~dlt~eea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~~~~  222 (271)
T KOG0173|consen  155 STDKLPFTALGSGSLAAMSVLESRWKPDLTKEEAIKLVCEAIAAGIFNDLGSGSNVDLCVITKKGVEY  222 (271)
T ss_pred             CcCccceeeeccchHHHHHHHHHhcCcccCHHHHHHHHHHHHHhhhccccCCCCceeEEEEeCCCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999877654

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

Probab=99.94  E-value=9.2e-27  Score=181.69  Aligned_cols=151  Identities=17%  Similarity=0.104  Sum_probs=136.8

Q ss_pred             CcEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEE
Q 029964            1 MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIY   75 (184)
Q Consensus         1 ~~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly   75 (184)
                      .||+|++ +|+.+|.+.+.+++|.++..|+.+|+.++|...+|.+++++.|-+     .|||||+.++++||. +||+||
T Consensus        72 r~iG~av-aGl~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~-~g~~Ly  149 (254)
T KOG0184|consen   72 RHIGMAV-AGLIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDD-EGPQLY  149 (254)
T ss_pred             ccccEEE-eccccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeC-CCceEE
Confidence            4899999 999999999999999999999999999999999999999987643     689999999999997 599999


Q ss_pred             EECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC--CcEEEeec
Q 029964           76 GVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE--GVSRKFYP  153 (184)
Q Consensus        76 ~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd--g~~~~~~~  153 (184)
                      .+||+|.++.++++|+|.|.+.+++.|||.--.+|+++|+++.+.+.|-.+.+......-.+|+.|+..+  |.. +..|
T Consensus       150 miepSG~~~~Y~~aaiGKgrq~aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eTnG~h-~~vp  228 (254)
T KOG0184|consen  150 MIEPSGSSYGYKGAAIGKGRQAAKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEETNGLH-EKVP  228 (254)
T ss_pred             EEcCCCCccceeeeeccchhHHHHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEeecCCcc-ccCc
Confidence            9999999999999999999999999999987789999999999999998888776666677999999975  444 3454


Q ss_pred             C
Q 029964          154 G  154 (184)
Q Consensus       154 ~  154 (184)
                      .
T Consensus       229 ~  229 (254)
T KOG0184|consen  229 S  229 (254)
T ss_pred             H
Confidence            4

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

Probab=99.94  E-value=1e-25  Score=169.82  Aligned_cols=153  Identities=22%  Similarity=0.265  Sum_probs=145.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCC-ceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKN-FLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~-p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      +++++. +|++.|+|.+.+++|..-+.|+++.++.+.|+.+++++|.++|++|. |+.+..++||+|++++|++...|..
T Consensus        48 r~y~GL-~glatDvqtl~~~~~fr~nLy~lre~R~i~P~~~s~mvS~~lYekRfgpYf~~PvVAGl~~~~kPfIc~mD~I  126 (204)
T KOG0180|consen   48 RLYLGL-TGLATDVQTLLERLRFRKNLYELREEREIKPETFSSMVSSLLYEKRFGPYFTEPVVAGLDDDNKPFICGMDLI  126 (204)
T ss_pred             eeEEec-cccchhHHHHHHHHHHHHhHHHhhhhcccCcHHHHHHHHHHHHHhhcCCcccceeEeccCCCCCeeEeecccc
Confidence            578899 99999999999999999999999999999999999999999999884 9999999999999999999999999


Q ss_pred             Ccee-eeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCC
Q 029964           81 GTII-EQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGD  155 (184)
Q Consensus        81 G~~~-~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~  155 (184)
                      |... ..+|++.|.++...++..|..|+|||..++..+.+.++|..+.+||+.||+...|.+|+||.+.++.++..
T Consensus       127 Gc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~LFetisQa~Lna~DRDalSGwGa~vyiI~kdkv~~r~lK~R  202 (204)
T KOG0180|consen  127 GCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDELFETISQALLNAVDRDALSGWGAVVYIITKDKVTKRTLKGR  202 (204)
T ss_pred             cCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhHhhhhhhccCCeEEEEEccchhhhhhhhhc
Confidence            9885 57999999999999999999999999999999999999999999999999999999999998887666554

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

Probab=99.93  E-value=7.1e-26  Score=177.92  Aligned_cols=165  Identities=21%  Similarity=0.246  Sum_probs=150.6

Q ss_pred             CcEEEEccCCchHHHHHHHHHHHHHHHHHH-HHhCCCCCHHHHHHHHHHHHHcCC---CceeEEEEEEEEeCCCCcEEEE
Q 029964            1 MNIDCLRLLFQAADSQTVSDYVRYFLHQHT-IQLGQPATVKVAANLVRLLSYNNK---NFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         1 ~~I~~~~~sG~~aD~~~l~~~lr~~~~~~~-~~~~~~i~~~~la~~is~~~~~~r---~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      .|+.+++ ||..||+|.+.+.+.....+.. +..|+.+.|+.+++++++.||.+|   .|++.++|+||+|.++.|.|-+
T Consensus        80 dntllG~-sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvlY~rRsKmnPlwntlvVgGv~~~g~~~lg~  158 (256)
T KOG0185|consen   80 DNTLLGA-SGDISDFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVLYARRSKMNPLWNTLVVGGVDNTGEPFLGY  158 (256)
T ss_pred             CceEEec-CccHHHHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHHHHhhhccCchhhheeEeeecCCCCeeEEE
Confidence            3789999 9999999999999988877644 455699999999999999999875   5999999999999988999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhc---CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeec
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWK---EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYP  153 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~---~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~  153 (184)
                      +|..|..++.+.+|+|.|.+.+.++|++.|.   ++++.+||.+++.+|++..+.||+.+.++++|++|+++|+..  -+
T Consensus       159 V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~eGv~i--~~  236 (256)
T KOG0185|consen  159 VDLLGVAYESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDEEGVTI--SK  236 (256)
T ss_pred             EeeccccccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEcccceEe--cC
Confidence            9999999999999999999999999999997   479999999999999999999999999999999999999975  67


Q ss_pred             CCCCchhhhhcCChh
Q 029964          154 GDTLPLWHEELEPQN  168 (184)
Q Consensus       154 ~~~~~~~~~~~~~~~  168 (184)
                      +..+...|+..+...
T Consensus       237 p~qv~~~W~fa~~~~  251 (256)
T KOG0185|consen  237 PYQVKTNWDFAETIK  251 (256)
T ss_pred             ceeeeecchhhhhcc
Confidence            888889998776543

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.89  E-value=2.2e-22  Score=155.60  Aligned_cols=126  Identities=18%  Similarity=0.123  Sum_probs=109.8

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH-HcCCCceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-YNNKNFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~-~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      |++||. ||..+|+|.+.+.++.+++.|+.  +.   ++.+|+.++.+. +.+++|+.+++|++  |   .|+||.+||.
T Consensus        42 ~i~~~~-aG~~aD~q~l~~~l~~~~~~y~~--~~---~~~~a~l~~~l~~~~~~~~l~~~~lv~--d---~~~ly~id~~  110 (172)
T PRK05456         42 KVLAGF-AGSTADAFTLFERFEAKLEEHQG--NL---LRAAVELAKDWRTDRYLRRLEAMLIVA--D---KEHSLIISGN  110 (172)
T ss_pred             CEEEEE-eccHHHHHHHHHHHHHHHHHccC--cc---HHHHHHHHHHHHhccCCCccEEEEEEE--c---CCcEEEECCC
Confidence            789999 99999999999999999999882  22   577777665553 34567888999984  3   3699999999


Q ss_pred             Cceeee--CeEEEecChhhHHHHhhhhhc-CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEE
Q 029964           81 GTIIEQ--PFAIGGSGSSYLYGFFDQAWK-EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVT  141 (184)
Q Consensus        81 G~~~~~--~~~a~G~gs~~a~~~Le~~~~-~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~i  141 (184)
                      |+..+.  ++.++|+|+.+++++||+.|+ ++|   ||++++++|++.+.+||..|+++++|-.
T Consensus       111 G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---eA~~la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        111 GDVIEPEDGIIAIGSGGNYALAAARALLENTDL---SAEEIAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             CcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---CHHHHHHHHHHHHHHhCeeCCCcEEEEE
Confidence            999766  899999999999999999999 999   9999999999999999999999988754

>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=99.89  E-value=4.4e-22  Score=149.68  Aligned_cols=121  Identities=29%  Similarity=0.336  Sum_probs=117.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC--CceeEEEEEEEEeCCCCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK--NFLQTGMIVGGWDKYEGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r--~p~~vs~iiaG~D~~~gp~Ly~id~   79 (184)
                      ++++++ +|..+|++.+.++++.+++.|++.++.++++..+++.+++.++.++  +|+++++|++|+|+ ++|+||.+||
T Consensus        40 ~~~~~~-sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~iiag~~~-~~~~l~~id~  117 (164)
T cd01901          40 GIAWGL-AGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDE-GGGNLYYIDP  117 (164)
T ss_pred             CeEEEE-ecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCcceEEEEEEEcC-CCCEEEEECC
Confidence            789999 9999999999999999999999999999999999999999998874  89999999999998 6999999999


Q ss_pred             CCceeee-CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHH
Q 029964           80 GGTIIEQ-PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVS  124 (184)
Q Consensus        80 ~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~  124 (184)
                      +|++.+. .++++|.++.++.++|++.|+++++.+|+++++.+||.
T Consensus       118 ~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~  163 (164)
T cd01901         118 SGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALK  163 (164)
T ss_pred             CcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            9999999 99999999999999999999999999999999999985

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

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

Probab=99.89  E-value=2.8e-22  Score=154.41  Aligned_cols=126  Identities=19%  Similarity=0.098  Sum_probs=107.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH-HcCCCceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-YNNKNFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~-~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+||+ ||..+|+|.+.++++.+++.|+.+.++     .+++.+.+++ |.+++.+.+.++++++     ++||.+||.
T Consensus        41 ~i~~~~-aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~aa~l~~~l~~~~~~~~l~a~~iv~~~-----~~ly~id~~  109 (171)
T cd01913          41 KVIAGF-AGSTADAFTLFERFEAKLEQYPGNLLR-----AAVELAKDWRTDRYLRRLEAMLIVADK-----EHTLLISGN  109 (171)
T ss_pred             CEEEEe-cccHHHHHHHHHHHHHHHHHhhchHHH-----HHHHHHHHHHhccCcCceEEEEEEeCC-----CcEEEECCC
Confidence            899999 999999999999999999999988773     5566655553 4444445576666543     389999999


Q ss_pred             CceeeeC--eEEEecChhhHHHHhhhhhcCC-CCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEE
Q 029964           81 GTIIEQP--FAIGGSGSSYLYGFFDQAWKEG-MTKEEAEQLVVKAVSLAIARDGASGGVVRTVT  141 (184)
Q Consensus        81 G~~~~~~--~~a~G~gs~~a~~~Le~~~~~~-~s~~eai~l~~~~l~~~~~rd~~s~~~iev~i  141 (184)
                      |+..+.+  +.++||||.+++++||..|+++ ||   +.+++.++++.|.+||..|+++|.|-.
T Consensus       110 G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms---~~~la~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         110 GDVIEPDDGIAAIGSGGNYALAAARALLDHTDLS---AEEIARKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             CCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC---HHHHHHHHHHHHHhhCcccCCCEEEEe
Confidence            9999984  9999999999999999999995 99   559999999999999999999988753

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

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.88  E-value=1.4e-21  Score=150.49  Aligned_cols=126  Identities=17%  Similarity=0.104  Sum_probs=107.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-HHcCCCceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLL-SYNNKNFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~-~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+||+ ||..+|+|.+.++++.+++.|+.+.     .+.+|+.++++ .|.+++.+.+.+|++|+     ++||.+||.
T Consensus        41 ~i~~~~-aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~a~l~~~~~~~~~~~~l~a~~iv~~~-----~~ly~i~~~  109 (171)
T TIGR03692        41 KVLAGF-AGSTADAFTLFERFEAKLEEYQGNL-----TRAAVELAKDWRTDRYLRRLEAMLIVADK-----ETSLLISGT  109 (171)
T ss_pred             CEEEEe-cchHHHHHHHHHHHHHHHHHccCch-----HHHHHHHHHHHhhcccccccEEEEEEEcC-----CCEEEEcCC
Confidence            799999 9999999999999999999988743     47778877774 24444446677777643     389999999


Q ss_pred             Cceeee--CeEEEecChhhHHHHhhhhhc-CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEE
Q 029964           81 GTIIEQ--PFAIGGSGSSYLYGFFDQAWK-EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVT  141 (184)
Q Consensus        81 G~~~~~--~~~a~G~gs~~a~~~Le~~~~-~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~i  141 (184)
                      |.+.+.  ++.++||||.+++++||..|+ ++|+   |++++.++++.|.+||..|+++|.|-.
T Consensus       110 G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s---a~~la~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       110 GDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS---AEEIAREALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             CcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC---HHHHHHHHHHHHHhhCccCCCCEEEEe
Confidence            999985  699999999999999999994 7777   999999999999999999999988753

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

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

Probab=98.90  E-value=4.3e-08  Score=76.58  Aligned_cols=160  Identities=14%  Similarity=0.101  Sum_probs=122.8

Q ss_pred             EEEEccCCchHHHHHHHHHHHHHHHHHHHHh-CCCCCHHHHHHHHHHHHHc---C-C------C-ceeEEEEEEEEeCCC
Q 029964            3 IDCLRLLFQAADSQTVSDYVRYFLHQHTIQL-GQPATVKVAANLVRLLSYN---N-K------N-FLQTGMIVGGWDKYE   70 (184)
Q Consensus         3 I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~-~~~i~~~~la~~is~~~~~---~-r------~-p~~vs~iiaG~D~~~   70 (184)
                      +.++. +|..|-.|.+++.+.+..+..+-.. -.-.+.-..+.++.....+   . +      . -|.||+|++|--..+
T Consensus        45 lvl~t-aGNLA~tQaV~~ll~e~~~~d~~~~L~n~~sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~  123 (255)
T COG3484          45 LVLCT-AGNLAITQAVLHLLDERIQRDDGDSLLNIPSMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGE  123 (255)
T ss_pred             EEEEe-cCccHHHHHHHHHHHHHhhccchhhhhcchhHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCC
Confidence            45678 9999999999999988886333221 2234666677777765432   2 1      1 399999999988755


Q ss_pred             CcEEEEECCCCceee----eCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCC
Q 029964           71 GGKIYGVPLGGTIIE----QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEG  146 (184)
Q Consensus        71 gp~Ly~id~~G~~~~----~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg  146 (184)
                      -|+||.|-|.|+|.+    .+|.-+|. +++-+++|++.+..++.++||.++++-++...+..+..-|-.+++.++.+|.
T Consensus       124 pp~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPildR~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds  202 (255)
T COG3484         124 PPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPILDRTITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADS  202 (255)
T ss_pred             CceeEEEccCCCeeecCCCCceeEccc-cccCchhhhhhhhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccc
Confidence            689999999999975    58888998 5678999999999999999999999999999999998888889999999986


Q ss_pred             cEE-EeecCCCCchhhhhc
Q 029964          147 VSR-KFYPGDTLPLWHEEL  164 (184)
Q Consensus       147 ~~~-~~~~~~~~~~~~~~~  164 (184)
                      ... +.+--.+.+.|...+
T Consensus       203 ~~v~~~~ri~edd~Y~a~i  221 (255)
T COG3484         203 FSVRHTLRIREDDPYFAKI  221 (255)
T ss_pred             eeeeeeeEeccCChHHHHH
Confidence            542 223334555554433

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

Probab=98.25  E-value=1.3e-05  Score=60.70  Aligned_cols=128  Identities=18%  Similarity=0.127  Sum_probs=88.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH-cCCCceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSY-NNKNFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~-~~r~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      .++.++ +|.++|+..|.+++..+++.|.-+.     .+.+..+..+.-- .+.|.+.+-++++  |+   -.+|-+...
T Consensus        45 kvlaGF-AGstADaftLfe~fe~kle~~~g~L-----~raavelaKdwr~Dk~lr~LEAmllVa--d~---~~il~isG~  113 (178)
T COG5405          45 KVLAGF-AGSTADAFTLFERFEAKLEQYQGDL-----FRAAVELAKDWRTDKYLRKLEAMLLVA--DK---THILIITGN  113 (178)
T ss_pred             cEEEEe-cccchhHHHHHHHHHHHHHHccCcH-----HHHHHHHHHhhhhhhHHHHHhhheeEe--CC---CcEEEEecC
Confidence            478899 9999999999999999999885221     1122222222110 0113344545544  43   356777777


Q ss_pred             Cceee--eCeEEEecChhhHHHHhhhhhcC-CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEe
Q 029964           81 GTIIE--QPFAIGGSGSSYLYGFFDQAWKE-GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTIN  143 (184)
Q Consensus        81 G~~~~--~~~~a~G~gs~~a~~~Le~~~~~-~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iit  143 (184)
                      |...+  .+..|+|||..++.+.-...++. ++   .|.+++.++|..+-+.+..+..++.|-.+.
T Consensus       114 gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~l---sA~eIa~~sl~iA~eiciyTN~ni~ve~l~  176 (178)
T COG5405         114 GDVIEPEDDIIAIGSGGNYALSAARALMENTEL---SAREIAEKSLKIAGDICIYTNHNIVVEELR  176 (178)
T ss_pred             cceecCCCCeEEEcCCchHHHHHHHHHHhccCC---CHHHHHHHHHhhhheEEEecCCcEEEEEee
Confidence            87653  46899999999999988887753 55   466779999999888888888888776554

>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=90.56  E-value=1.1  Score=35.28  Aligned_cols=133  Identities=14%  Similarity=0.141  Sum_probs=78.9

Q ss_pred             hHHHHHHHHH---HHHHHHHHHHHhCCCCCHHHHHHHHHHH---HH--cCCC-ceeEEEEEEE-------EeCCCCcEEE
Q 029964           12 AADSQTVSDY---VRYFLHQHTIQLGQPATVKVAANLVRLL---SY--NNKN-FLQTGMIVGG-------WDKYEGGKIY   75 (184)
Q Consensus        12 ~aD~~~l~~~---lr~~~~~~~~~~~~~i~~~~la~~is~~---~~--~~r~-p~~vs~iiaG-------~D~~~gp~Ly   75 (184)
                      ++|-+.+.-+   -+.+..+..+..|.--+=+.|.+....+   ++  ..|. -.-.+-++.|       .+.. .-++|
T Consensus        16 aGDkR~I~F~G~~~~re~LEeeLYsG~IktdeEL~kkA~Elgv~i~I~D~r~KV~~~~~vlvGEV~s~~g~~sk-RRRiY   94 (194)
T PF09894_consen   16 AGDKRNIAFRGDEEKREKLEEELYSGKIKTDEELLKKAEELGVKIKITDDREKVRKIGDVLVGEVTSISGKDSK-RRRIY   94 (194)
T ss_pred             eccceeeeecCCHHHHHHHHHHHhCCccCCHHHHHHHHHHcCCEEEEecCchheEEeCCEEEEEEEEEcCccce-eeEEE
Confidence            3455555322   2233344445567777888888887765   22  1232 1222223333       2321 23455


Q ss_pred             E-------ECCCCceeeeCe-------EEEecC--hhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEE
Q 029964           76 G-------VPLGGTIIEQPF-------AIGGSG--SSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRT  139 (184)
Q Consensus        76 ~-------id~~G~~~~~~~-------~a~G~g--s~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev  139 (184)
                      -       +|..|.-....-       +..|..  .+.+...|.+.|++.|+++++..+..++|..+...-+.-+..+++
T Consensus        95 ~t~g~~~Ivei~~~~i~~~~~g~~sgiIVfGNk~~K~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~  174 (194)
T PF09894_consen   95 ATKGKYAIVEIENDEITNKSRGEGSGIIVFGNKFTKEIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDI  174 (194)
T ss_pred             ecCCCEEEEEecCCeEEEEecCCceeEEEECCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEE
Confidence            3       344554433222       222222  357888899999999999999999999999998877766777888


Q ss_pred             EEEeCC
Q 029964          140 VTINSE  145 (184)
Q Consensus       140 ~iitkd  145 (184)
                      ...++.
T Consensus       175 ~~~~~~  180 (194)
T PF09894_consen  175 YITTKK  180 (194)
T ss_pred             EEeccc
Confidence            777653

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

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

Probab=89.62  E-value=0.64  Score=34.43  Aligned_cols=43  Identities=28%  Similarity=0.363  Sum_probs=39.7

Q ss_pred             EEECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHH
Q 029964           75 YGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQ  117 (184)
Q Consensus        75 y~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~  117 (184)
                      ..+|-+|.+...+|...|-||..+-+-+-..|-+++|++||.+
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~k  113 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALK  113 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHh
Confidence            4678899999999999999999999999999999999999874

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	184
1iru_H	205	Crystal Structure Of The Mammalian 20s Proteasome A		8e-35
3unb_N	205	Mouse Constitutive 20s Proteasome In Complex With P		1e-34
3unf_N	199	Mouse 20s Immunoproteasome In Complex With Pr-957 L		6e-30
1g65_N	196	Crystal Structure Of Epoxomicin:20s Proteasome Reve		5e-28
1vsy_H	196	Proteasome Activator Complex Length = 196		6e-28
3nzj_N	215	Crystal Structure Of Yeast 20s Proteasome In Comple		6e-28
1ryp_H	205	Crystal Structure Of The 20s Proteasome From Yeast		6e-28
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		2e-07
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		3e-07
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		2e-06
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		3e-06
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		3e-06
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		7e-06
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		9e-06
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		9e-06
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		1e-05
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		1e-05
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		2e-05
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		2e-05
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		3e-05

>pdb|1IRU|H Chain H, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 205

Iteration: 1
 Score =  142 bits (359), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 69/157 (43%), Positives = 96/157 (61%), Gaps = 1/157 (0%)
Query: 2   NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
            I C R    AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+
Sbjct: 40  RIFCCRS-GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGI 98
Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVK 121
           I+ GWD  EGG++Y VP+GG ++ Q FAI      Y+YG+ D  ++EGMTKEE  Q    
Sbjct: 99  IIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTAN 158
Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP 158
           A++LA+ RDG+SGGV+R   I   GV R+   GD +P
Sbjct: 159 ALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIP 195

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

Iteration: 1
 Score =  142 bits (357), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 68/157 (43%), Positives = 97/157 (61%), Gaps = 1/157 (0%)
Query: 2   NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
           +I C R    AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+
Sbjct: 40  HIFCCRS-GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGI 98
Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVK 121
           I+ GWD  EGG++Y VP+GG ++ Q FAI      Y+YG+ D  ++EGMTK+E  Q    
Sbjct: 99  IIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTAN 158
Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP 158
           A++LA+ RDG+SGGV+R   I   GV R+   GD +P
Sbjct: 159 ALALAMERDGSSGGVIRLAAIQESGVERQVLLGDQIP 195

>pdb|3UNF|N Chain N, Mouse 20s Immunoproteasome In Complex With Pr-957 Length = 199

Iteration: 1
 Score =  126 bits (317), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 66/153 (43%), Positives = 96/153 (62%), Gaps = 1/153 (0%)
Query: 11  QAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYE 70
            AAD+Q ++D   Y L  H ++L +P  V  AAN+V+ +SY  +  L   +IV GWD+ E
Sbjct: 48  SAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLIVAGWDQRE 107
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           GG++YG  +GG +I QPF I      Y+YG+ D A+K GMT EE  +    A++LA+ RD
Sbjct: 108 GGQVYGT-MGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRD 166
Query: 131 GASGGVVRTVTINSEGVSRKFYPGDTLPLWHEE 163
           G+SGGV+  VTI + GV  +   GD LP +++E
Sbjct: 167 GSSGGVIYLVTITAAGVDHRVILGDELPKFYDE 199

>pdb|1G65|N Chain N, Crystal Structure Of Epoxomicin:20s Proteasome Reveals A Molecular Basis For Selectivity Of Alpha,Beta-Epoxyketone Proteasome Inhibitors Length = 196

Iteration: 1
 Score =  120 bits (300), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 59/144 (40%), Positives = 93/144 (64%), Gaps = 2/144 (1%)
Query: 11  QAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYE 70
            AAD+Q ++D V+Y L  +T Q G P+T + AA++ + L Y NK+ L  G+IV G+D   
Sbjct: 48  SAADTQAIADIVQYHLELYTSQYGTPST-ETAASVFKELCYENKDNLTAGIIVAGYDDKN 106
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
            G++Y +PLGG++ + P+AI      ++YG+ D+ ++E M+KEE    +  ++S AI  D
Sbjct: 107 KGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWD 166
Query: 131 GASGGVVRTVTINSEGVSRK-FYP 153
           G+SGGV+R V + + GV R  FYP
Sbjct: 167 GSSGGVIRMVVLTAAGVERLIFYP 190

>pdb|1VSY|H Chain H, Proteasome Activator Complex Length = 196

Iteration: 1
 Score =  120 bits (300), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 59/144 (40%), Positives = 93/144 (64%), Gaps = 2/144 (1%)
Query: 11  QAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYE 70
            AAD+Q ++D V+Y L  +T Q G P+T + AA++ + L Y NK+ L  G+IV G+D   
Sbjct: 48  SAADTQAIADIVQYHLELYTSQYGTPST-ETAASVFKELCYENKDNLTAGIIVAGYDDKN 106
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
            G++Y +PLGG++ + P+AI      ++YG+ D+ ++E M+KEE    +  ++S AI  D
Sbjct: 107 KGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWD 166
Query: 131 GASGGVVRTVTINSEGVSRK-FYP 153
           G+SGGV+R V + + GV R  FYP
Sbjct: 167 GSSGGVIRMVVLTAAGVERLIFYP 190

>pdb|3NZJ|N Chain N, Crystal Structure Of Yeast 20s Proteasome In Complex With Ligand 2a Length = 215

Iteration: 1
 Score =  120 bits (300), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 59/144 (40%), Positives = 93/144 (64%), Gaps = 2/144 (1%)
Query: 11  QAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYE 70
            AAD+Q ++D V+Y L  +T Q G P+T + AA++ + L Y NK+ L  G+IV G+D   
Sbjct: 67  SAADTQAIADIVQYHLELYTSQYGTPST-ETAASVFKELCYENKDNLTAGIIVAGYDDKN 125
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
            G++Y +PLGG++ + P+AI      ++YG+ D+ ++E M+KEE    +  ++S AI  D
Sbjct: 126 KGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWD 185
Query: 131 GASGGVVRTVTINSEGVSRK-FYP 153
           G+SGGV+R V + + GV R  FYP
Sbjct: 186 GSSGGVIRMVVLTAAGVERLIFYP 209

>pdb|1RYP|H Chain H, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 205

Iteration: 1
 Score =  120 bits (300), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 59/144 (40%), Positives = 93/144 (64%), Gaps = 2/144 (1%)
Query: 11  QAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYE 70
            AAD+Q ++D V+Y L  +T Q G P+T + AA++ + L Y NK+ L  G+IV G+D   
Sbjct: 57  SAADTQAIADIVQYHLELYTSQYGTPST-ETAASVFKELCYENKDNLTAGIIVAGYDDKN 115
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
            G++Y +PLGG++ + P+AI      ++YG+ D+ ++E M+KEE    +  ++S AI  D
Sbjct: 116 KGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWD 175
Query: 131 GASGGVVRTVTINSEGVSRK-FYP 153
           G+SGGV+R V + + GV R  FYP
Sbjct: 176 GSSGGVIRMVVLTAAGVERLIFYP 199

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 63/137 (45%), Gaps = 4/137 (2%)
Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVR--LLSYNNKNFLQTGMIVGGWDKY 69
           AAD Q     +      + ++ G+  +V  A+ L+   +L Y     L  G ++ GWDK 
Sbjct: 49  AADCQYWERLLAKECRLYYLRNGERISVSAASKLLSNMMLQYRGMG-LSMGSMICGWDK- 106
Query: 70  EGGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIAR 129
           +G  +Y V   GT +            Y YG  D  +++ ++ EEA  L  +A++ A  R
Sbjct: 107 KGPGLYYVDDNGTRLSGQMFSTGSGNTYAYGVMDSGYRQDLSPEEAYDLGRRAIAYATHR 166
Query: 130 DGASGGVVRTVTINSEG 146
           D  SGGVV    +  +G
Sbjct: 167 DNYSGGVVNMYHMKEDG 183

>pdb|3H4P|AA Chain a, Proteasome 20s Core Particle From Methanocaldococcus Jannaschii Length = 219

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 32/108 (29%), Positives = 54/108 (50%), Gaps = 2/108 (1%)
Query: 42  AANLVRLLSYNNKNF-LQTGMIVGGWDKYEGGKIYGV-PLGGTIIEQPFAIXXXXXXYLY 99
            A L+  + ++++ F   T +I+GG+D  EG K++ + PLGG   E+ F          Y
Sbjct: 80  CATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAY 139
Query: 100 GFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGV 147
           G  +  +   M+ EE  +L + A+  A+ RD  SG  +    I  +GV
Sbjct: 140 GVLEAGYDRDMSVEEGIKLALNALKSAMERDTFSGNGISLAVITKDGV 187

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/134 (24%), Positives = 63/134 (47%), Gaps = 5/134 (3%)
Query: 14  DSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFL--QTGMIVGGWDKYEG 71
           D+Q +  Y++  L  + +Q      ++  A L+  +  N   ++     ++VGG D    
Sbjct: 51  DAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNM-LNQVKYMPYMVQLLVGGIDT--A 107
Query: 72  GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             ++ +   G  +E  +A       ++YG  +  + E MT +E   LV++A+S A  RD 
Sbjct: 108 PHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDS 167
Query: 132 ASGGVVRTVTINSE 145
           ASGG++    I  +
Sbjct: 168 ASGGMIDVAVITRK 181

>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 = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/134 (24%), Positives = 63/134 (47%), Gaps = 5/134 (3%)
Query: 14  DSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFL--QTGMIVGGWDKYEG 71
           D+Q +  Y++  L  + +Q      ++  A L+  +  N   ++     ++VGG D    
Sbjct: 59  DAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNM-LNQVKYMPYMVQLLVGGIDT--A 115
Query: 72  GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             ++ +   G  +E  +A       ++YG  +  + E MT +E   LV++A+S A  RD 
Sbjct: 116 PHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDS 175
Query: 132 ASGGVVRTVTINSE 145
           ASGG++    I  +
Sbjct: 176 ASGGMIDVAVITRK 189

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/134 (24%), Positives = 63/134 (47%), Gaps = 5/134 (3%)
Query: 14  DSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFL--QTGMIVGGWDKYEG 71
           D+Q +  Y++  L  + +Q      ++  A L+  +  N   ++     ++VGG D    
Sbjct: 59  DAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNM-LNQVKYMPYMVQLLVGGIDT--A 115
Query: 72  GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             ++ +   G  +E  +A       ++YG  +  + E MT +E   LV++A+S A  RD 
Sbjct: 116 PHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDS 175
Query: 132 ASGGVVRTVTINSE 145
           ASGG++    I  +
Sbjct: 176 ASGGMIDVAVITRK 189

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 38/135 (28%), Positives = 65/135 (48%), Gaps = 5/135 (3%)
Query: 14  DSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLL--SYNNKNFLQTGMIVGGWDKYEG 71
           D+Q ++  ++   + + I+  +  TV+  A L   L  SY    +L   +++GG D  EG
Sbjct: 51  DAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYL-VQLLIGGIDS-EG 108
Query: 72  GKIYGV-PLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
             IY + P+GG I E+            YG  +  +   +  +EA +L V+A+  A+ RD
Sbjct: 109 KSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRD 168
Query: 131 GASGGVVRTVTINSE 145
            ASG  +  V I  +
Sbjct: 169 SASGDGIDVVKITED 183

>pdb|4B4T|5 Chain 5, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 287

Iteration: 1
 Score = 46.2 bits (108), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 35/136 (25%), Positives = 60/136 (44%), Gaps = 1/136 (0%)
Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           AAD Q    ++      H ++  +  +V  A+ ++  L Y  K   L  G ++ G+ + E
Sbjct: 124 AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 183
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  IY V   GT ++           + YG  D  +K  ++ E+A  L  +++  A  RD
Sbjct: 184 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 243
Query: 131 GASGGVVRTVTINSEG 146
             SGG V    +  +G
Sbjct: 244 AYSGGSVNLYHVTEDG 259

>pdb|3NZJ|K Chain K, Crystal Structure Of Yeast 20s Proteasome In Complex With Ligand 2a Length = 287

Iteration: 1
 Score = 46.2 bits (108), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 35/136 (25%), Positives = 60/136 (44%), Gaps = 1/136 (0%)
Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           AAD Q    ++      H ++  +  +V  A+ ++  L Y  K   L  G ++ G+ + E
Sbjct: 124 AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 183
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  IY V   GT ++           + YG  D  +K  ++ E+A  L  +++  A  RD
Sbjct: 184 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 243
Query: 131 GASGGVVRTVTINSEG 146
             SGG V    +  +G
Sbjct: 244 AYSGGSVNLYHVTEDG 259

>pdb|1IRU|I Chain I, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 234

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/132 (21%), Positives = 60/132 (45%), Gaps = 1/132 (0%)
Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+   +  +   L  H++  G+   V  A  +++ + +  + ++   +++GG D   G
Sbjct: 49  AADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVD-VTG 107
Query: 72  GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             +Y +   G+  + P+             F+  ++  M +EEA+ LV +A++  I  D 
Sbjct: 108 PHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDL 167
Query: 132 ASGGVVRTVTIN 143
            SG  +    I+
Sbjct: 168 GSGSNIDLCVIS 179

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/110 (30%), Positives = 48/110 (43%), Gaps = 2/110 (1%)
Query: 38  TVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIXXXXXX 96
           +V  A+ L+  + Y  K   L  G ++ GWDK   G  Y    G  I    F++      
Sbjct: 75  SVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSV- 133
Query: 97  YLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEG 146
           Y YG  D+ +   +  EEA  L  +A+  A  RD  SGG V    +  +G
Sbjct: 134 YAYGVMDRGYSYDLKVEEAYDLARRAIYQATYRDAYSGGAVNLYHVREDG 183

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/132 (21%), Positives = 61/132 (46%), Gaps = 1/132 (0%)
Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+   +  +   L  H++  G+   V  A  +++ + +  + ++   +++GG D   G
Sbjct: 49  AADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQMLFRYQGYIGAALVLGGVD-VTG 107
Query: 72  GKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             +Y +   G+  + P+             F+  ++  M +EEA++LV +A++  I  D 
Sbjct: 108 PHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVSEAIAAGIFNDL 167
Query: 132 ASGGVVRTVTIN 143
            SG  +    I+
Sbjct: 168 GSGSNIDLCVIS 179

>pdb|1G0U|K Chain K, A Gated Channel Into The Proteasome Core Particle Length = 212

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/136 (25%), Positives = 60/136 (44%), Gaps = 1/136 (0%)
Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           AAD Q    ++      H ++  +  +V  A+ ++  L Y  K   L  G ++ G+ + E
Sbjct: 49  AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 108
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  IY V   GT ++           + YG  D  +K  ++ E+A  L  +++  A  RD
Sbjct: 109 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 168
Query: 131 GASGGVVRTVTINSEG 146
             SGG V    +  +G
Sbjct: 169 AYSGGSVNLYHVTEDG 184

>pdb|1RYP|L Chain L, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 212

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 35/136 (25%), Positives = 60/136 (44%), Gaps = 1/136 (0%)
Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           AAD Q    ++      H ++  +  +V  A+ ++  L Y  K   L  G ++ G+ + E
Sbjct: 49  AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 108
Query: 71  GGKIYGVPLGGTIIEQPFAIXXXXXXYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  IY V   GT ++           + YG  D  +K  ++ E+A  L  +++  A  RD
Sbjct: 109 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 168
Query: 131 GASGGVVRTVTINSEG 146
             SGG V    +  +G
Sbjct: 169 AYSGGSVNLYHVTEDG 184

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 36/127 (28%), Positives = 54/127 (42%), Gaps = 4/127 (3%)
Query: 38  TVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEGGKIYGVPLGGTIIEQPFAIXXXXXX 96
           +V  A+ L+  + Y  K   L  G ++ GWDK   G  Y    G  I    F++      
Sbjct: 75  SVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSV- 133
Query: 97  YLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT 156
           Y YG  D+ +   +  E+A  L  +A+  A  RD  SGG V    +  +G  R     D 
Sbjct: 134 YAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDGWIR--VSSDN 191
Query: 157 LPLWHEE 163
           +   HE+
Sbjct: 192 VADLHEK 198

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	184
1iru_H	205	20S proteasome; cell cycle, immune response, prote	1e-64
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	2e-61
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	3e-58
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	3e-57
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	3e-56
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	1e-55
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	1e-55
1iru_L	204	20S proteasome; cell cycle, immune response, prote	5e-55
1iru_I	234	20S proteasome; cell cycle, immune response, prote	7e-55
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	1e-54
1iru_J	205	20S proteasome; cell cycle, immune response, prote	6e-54
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	2e-53
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	2e-53
1iru_M	213	20S proteasome; cell cycle, immune response, prote	1e-52
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	2e-52
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	4e-52
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	1e-50
1iru_K	201	20S proteasome; cell cycle, immune response, prote	2e-50
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-47
1iru_N	219	20S proteasome; cell cycle, immune response, prote	2e-44
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	3e-44
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	1e-43
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	4e-43
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	3e-40
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	3e-39
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-19
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	1e-14
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	6e-09
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	8e-06
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	9e-06
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-05
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	2e-05
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	2e-05
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	3e-05
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	3e-05
1iru_B	233	20S proteasome; cell cycle, immune response, prote	4e-05
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	5e-05
1iru_C	261	20S proteasome; cell cycle, immune response, prote	7e-05
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	2e-04
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	3e-04
1iru_E	241	20S proteasome; cell cycle, immune response, prote	8e-04
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	8e-04

>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 =  196 bits (501), Expect = 1e-64
 Identities = 73/155 (47%), Positives = 101/155 (65%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+I+ GWD  EG
Sbjct: 49  AADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEG 108

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G++Y VP+GG ++ Q FAIGGSGSSY+YG+ D  ++EGMTKEE  Q    A++LA+ RDG
Sbjct: 109 GQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDG 168

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEP 166
           +SGGV+R   I   GV R+   GD +P +     P
Sbjct: 169 SSGGVIRLAAIAESGVERQVLLGDQIPKFAVATLP 203

>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 =  188 bits (479), Expect = 2e-61
 Identities = 68/152 (44%), Positives = 96/152 (63%), Gaps = 1/152 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+Q ++D   Y L  H ++L +P  V  AAN+V+ +SY  +  L   +IV GWD+   
Sbjct: 49  AADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLIVAGWDQ-RE 107

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G      +GG +I QPF IGGSGSSY+YG+ D A+K GMT EE  +    A++LA+ RDG
Sbjct: 108 GGQVYGTMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDG 167

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEE 163
           +SGGV+  VTI + GV  +   GD LP +++E
Sbjct: 168 SSGGVIYLVTITAAGVDHRVILGDELPKFYDE 199

>1ryp_H 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 3nzj_N* 3nzw_N* 3nzx_N* 1vsy_H 3l5q_B 1g65_N* 1fnt_H 1g0u_N* 1jd2_N* 1z7q_H 2f16_N* 2fak_N* 2fny_N* 2gpl_N* 2zcy_N* 3bdm_N* 3d29_N* 3dy3_N* 3dy4_N* 3e47_N* ... Length = 205

 Score =  180 bits (459), Expect = 3e-58
 Identities = 60/147 (40%), Positives = 96/147 (65%), Gaps = 1/147 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+Q ++D V+Y L  +T Q G P + + AA++ + L Y NK+ L  G+IV G+D    
Sbjct: 58  AADTQAIADIVQYHLELYTSQYGTP-STETAASVFKELCYENKDNLTAGIIVAGYDDKNK 116

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G++Y +PLGG++ + P+AI GSGS+++YG+ D+ ++E M+KEE    +  ++S AI  DG
Sbjct: 117 GEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDG 176

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLP 158
           +SGGV+R V + + GV R  +  D   
Sbjct: 177 SSGGVIRMVVLTAAGVERLIFYPDEYE 203

>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 =  178 bits (453), Expect = 3e-57
 Identities = 34/156 (21%), Positives = 63/156 (40%), Gaps = 2/156 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD++ V+  +   +  H++   +   V  A  +++   +  +  +   +IV G D   G
Sbjct: 49  AADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDP-TG 107

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             ++ +   G+     +   GSGS       +  WK+ +TKEEA +L   A+   I  D 
Sbjct: 108 SHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDL 167

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQ 167
            SG  V    +       ++      P   EE +  
Sbjct: 168 GSGSNVDVCVMEIGKD-AEYLRNYLTPNVREEKQKS 202

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

 Score =  175 bits (446), Expect = 3e-56
 Identities = 13/158 (8%), Positives = 28/158 (17%), Gaps = 4/158 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
              +       +    +   ++ Q      AA    +          +    +      E
Sbjct: 50  VVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGE 109

Query: 71  GGKIYGV-PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIAR 129
              I  +      I +     GG     +        K      E +         A A 
Sbjct: 110 EISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAI 169

Query: 130 DGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQ 167
                 V+  +                        +  
Sbjct: 170 GSGRPVVMELLEKEYRDD--ITLDEGLELAITALTKAN 205

>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 =  175 bits (447), Expect = 1e-55
 Identities = 35/156 (22%), Positives = 64/156 (41%), Gaps = 2/156 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD++ V+  +   +  H++   +   V  A  +++   +  +  +   +IV G D   G
Sbjct: 78  AADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDP-TG 136

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             ++ +   G+     +   GSGS       +  WK+ +TKEEA +L   A+   I  D 
Sbjct: 137 SHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDL 196

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQ 167
            SG  V    +   G   ++      P   EE +  
Sbjct: 197 GSGSNVDVCVM-EIGKDAEYLRNYLTPNVREEKQKS 231

>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 =  174 bits (444), Expect = 1e-55
 Identities = 43/190 (22%), Positives = 74/190 (38%), Gaps = 22/190 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD++  +      +  H +  G+   V     ++R   +  +  +   ++VGG D   G
Sbjct: 49  AADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASLVVGGVDL-NG 107

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
            ++Y V   G+    PF   GSG        +  ++  MT E A++L+V+A++  I  D 
Sbjct: 108 PQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDL 167

Query: 132 ASGGVVRTVTINSEGVSR-----------------KFYPGDTLPLWHEELEPQNSLLDMM 174
            SGG V    I + G                    +F PG T  L  E       L   +
Sbjct: 168 GSGGNVDACVITAGGAKLQRALSTPTEPVQRAGRYRFAPGTTPVLTREVRP----LTLEL 223

Query: 175 NVASPEPMNM 184
              + + M +
Sbjct: 224 LEETVQAMEV 233

>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 =  172 bits (438), Expect = 5e-55
 Identities = 43/157 (27%), Positives = 65/157 (41%), Gaps = 4/157 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           AAD       +      + ++  +  +V  A+ L+  + Y  K   L  G ++ GWDK  
Sbjct: 49  AADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK-R 107

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  +Y V   G  I       GSGS Y YG  D+ +   +  E+A  L  +A+  A  RD
Sbjct: 108 GPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRD 167

Query: 131 GASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQ 167
             SGG V    +  +G  R     D +   HE+    
Sbjct: 168 AYSGGAVNLYHVREDGWIR--VSSDNVADLHEKYSGS 202

>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 =  172 bits (439), Expect = 7e-55
 Identities = 35/147 (23%), Positives = 69/147 (46%), Gaps = 3/147 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+   +  +   L  H++  G+   V  A  +++ + +  + ++   +++GG D   G
Sbjct: 49  AADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDV-TG 107

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             +Y +   G+  + P+   GSGS      F+  ++  M +EEA+ LV +A++  I  D 
Sbjct: 108 PHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDL 167

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLP 158
            SG  +    I+   +   F    T+P
Sbjct: 168 GSGSNIDLCVISKNKL--DFLRPYTVP 192

>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 =  171 bits (436), Expect = 1e-54
 Identities = 38/139 (27%), Positives = 64/139 (46%), Gaps = 1/139 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           AAD Q    ++      H ++  +  +V  A+ ++  L Y  K   L  G ++ G+ + E
Sbjct: 49  AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 108

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  IY V   GT ++      GSG ++ YG  D  +K  ++ E+A  L  +++  A  RD
Sbjct: 109 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 168

Query: 131 GASGGVVRTVTINSEGVSR 149
             SGG V    +  +G   
Sbjct: 169 AYSGGSVNLYHVTEDGWIY 187

>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 =  169 bits (430), Expect = 6e-54
 Identities = 30/146 (20%), Positives = 64/146 (43%), Gaps = 3/146 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWD-KY 69
           A D QTV+  +++ L+ + ++ G+        ++V  L Y  +     T  ++ G D K 
Sbjct: 57  ATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKT 116

Query: 70  EGGKIYGV-PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
               I  +  +G  ++   F + G+ +  +YG  +  W+  M  +   + + +A+  A+ 
Sbjct: 117 FKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVD 176

Query: 129 RDGASGGVVRTVTINSEGVSRKFYPG 154
           RD  SG  V    I  + ++ +    
Sbjct: 177 RDAVSGMGVIVHIIEKDKITTRTLKA 202

>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 =  171 bits (434), Expect = 2e-53
 Identities = 38/139 (27%), Positives = 64/139 (46%), Gaps = 1/139 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           AAD Q    ++      H ++  +  +V  A+ ++  L Y  K   L  G ++ G+ + E
Sbjct: 124 AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 183

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  IY V   GT ++      GSG ++ YG  D  +K  ++ E+A  L  +++  A  RD
Sbjct: 184 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 243

Query: 131 GASGGVVRTVTINSEGVSR 149
             SGG V    +  +G   
Sbjct: 244 AYSGGSVNLYHVTEDGWIY 262

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

 Score =  167 bits (426), Expect = 2e-53
 Identities = 41/156 (26%), Positives = 75/156 (48%), Gaps = 4/156 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
             D+Q ++  ++   + + I+  +  TV+  A L   L  + + F     +++GG D  E
Sbjct: 49  VGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDS-E 107

Query: 71  GGKIYGV-PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIAR 129
           G  IY + P+GG I E+     GSGS   YG  +  +   +  +EA +L V+A+  A+ R
Sbjct: 108 GKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKR 167

Query: 130 DGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELE 165
           D ASG  +  V I  +    ++ P +   +  +  +
Sbjct: 168 DSASGDGIDVVKITEDEF-YQYSPEEVEQILAKFRK 202

>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 =  166 bits (423), Expect = 1e-52
 Identities = 31/153 (20%), Positives = 55/153 (35%), Gaps = 10/153 (6%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
             D  T++  +   L  +     +  T    A ++  + Y+ + F      I+GG D+  
Sbjct: 58  HGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEG 117

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFD---------QAWKEGMTKEEAEQLVVK 121
            G +Y     G+     F  GGS S+ L    D               ++ + A +LV  
Sbjct: 118 KGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKD 177

Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYPG 154
               A  RD  +G  +R   +  EG+  +    
Sbjct: 178 VFISAAERDVYTGDALRICIVTKEGIREETVSL 210

>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 =  165 bits (421), Expect = 2e-52
 Identities = 40/157 (25%), Positives = 71/157 (45%), Gaps = 4/157 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
             D+Q +  Y++  L  + +Q      ++  A L+  +    K       ++VGG D   
Sbjct: 57  VGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID--T 114

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
              ++ +   G  +E  +A  GSGS ++YG  +  + E MT +E   LV++A+S A  RD
Sbjct: 115 APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRD 174

Query: 131 GASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQ 167
            ASGG++    I  +    +  P D +     +L   
Sbjct: 175 SASGGMIDVAVITRKDGYVQ-LPTDQIESRIRKLGLI 210

>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 =  164 bits (418), Expect = 4e-52
 Identities = 32/146 (21%), Positives = 61/146 (41%), Gaps = 3/146 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYE 70
           A D  T+++  RY  + + ++  +    +    LV    Y  +      G +V G +   
Sbjct: 56  ATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKS 115

Query: 71  G-GKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
           G   I G  L G I E + F + G+ S  L+G  +  ++  +  E+  + + +A+  A  
Sbjct: 116 GKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAAD 175

Query: 129 RDGASGGVVRTVTINSEGVSRKFYPG 154
           RD  SG       I  + V +++   
Sbjct: 176 RDALSGWGAVVYIIKKDEVVKRYLKM 201

>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 =  160 bits (408), Expect = 1e-50
 Identities = 28/142 (19%), Positives = 62/142 (43%), Gaps = 4/142 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYN---NKNFLQTGMIVGGWDK 68
           A D+   ++Y++  +  ++I+     + +  ++ VR        ++   Q  +++GG+DK
Sbjct: 50  AGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDK 109

Query: 69  YEGG-KIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAI 127
            +   ++Y +   GT +E P+   G    Y +   D  ++  MT EE   L+   V    
Sbjct: 110 KKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELE 169

Query: 128 ARDGASGGVVRTVTINSEGVSR 149
            R       V    ++ +G+ +
Sbjct: 170 KRMPMDFKGVIVKIVDKDGIRQ 191

>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 =  160 bits (406), Expect = 2e-50
 Identities = 26/141 (18%), Positives = 60/141 (42%), Gaps = 3/141 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLL---SYNNKNFLQTGMIVGGWDK 68
           A D+   ++Y++  +  + ++ G   +   AAN  R        ++      +++ G+D+
Sbjct: 50  AGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDE 109

Query: 69  YEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
           +EG  +Y +     + + PFA  G G+       D+ +   +++E A +L+ K +     
Sbjct: 110 HEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQK 169

Query: 129 RDGASGGVVRTVTINSEGVSR 149
           R   +        I+  G+  
Sbjct: 170 RFILNLPTFSVRIIDKNGIHD 190

>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 =  153 bits (388), Expect = 2e-47
 Identities = 30/162 (18%), Positives = 60/162 (37%), Gaps = 19/162 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQL-GQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKY 69
           AAD   +    +  +  +      +  ++  AA  ++ L Y  + F      I+ G D+ 
Sbjct: 58  AADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDED 117

Query: 70  EGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWK-----------------EGMTK 112
             G +Y     G+   +    GG+ +S +  F D                     + ++ 
Sbjct: 118 GKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSV 177

Query: 113 EEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPG 154
           EE  +LV  + + A  R    G  +  + +  +GV ++FY  
Sbjct: 178 EEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKEFYEL 219

>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 =  145 bits (369), Expect = 2e-44
 Identities = 27/142 (19%), Positives = 54/142 (38%), Gaps = 7/142 (4%)

Query: 12  AADSQTVSDYVRYFLHQH-TIQLGQPATVKVAANLVRLLSYNNK---NFLQTGMIVGGWD 67
            AD Q +   +   +     +  G   + +   + +    Y+ +   N L   M++GG+ 
Sbjct: 57  YADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYA 116

Query: 68  KYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQA--WKEGMTKEEAEQLVVKAVSL 125
                 +  V + G   E P    G G+        +    +  +++ EA  LV + + +
Sbjct: 117 D-GESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRV 175

Query: 126 AIARDGASGGVVRTVTINSEGV 147
              RD  S    +T T+  +GV
Sbjct: 176 LYYRDARSYNRFQTATVTEKGV 197

>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 =  145 bits (368), Expect = 3e-44
 Identities = 23/149 (15%), Positives = 41/149 (27%), Gaps = 13/149 (8%)

Query: 12  AADSQTVSDYVR-----YFLHQHTIQLGQPATVKVAANLVRLLSYNNK---NFLQTGMIV 63
            +D Q +   ++                +          +  + Y  +   N L   +IV
Sbjct: 57  ISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIV 116

Query: 64  GGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE-----GMTKEEAEQL 118
            G        +  V L G     P    G G+        +           T + AE+ 
Sbjct: 117 AGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEA 176

Query: 119 VVKAVSLAIARDGASGGVVRTVTINSEGV 147
           +V A+ +   RD  S        I+    
Sbjct: 177 IVNAMRVLYYRDARSSRNFSLAIIDKNTG 205

>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 =  144 bits (366), Expect = 1e-43
 Identities = 23/149 (15%), Positives = 41/149 (27%), Gaps = 13/149 (8%)

Query: 12  AADSQTVSDYVR-----YFLHQHTIQLGQPATVKVAANLVRLLSYNNK---NFLQTGMIV 63
            +D Q +   ++                +          +  + Y  +   N L   +IV
Sbjct: 90  ISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIV 149

Query: 64  GGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWK-----EGMTKEEAEQL 118
            G        +  V L G     P    G G+        +           T + AE+ 
Sbjct: 150 AGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEA 209

Query: 119 VVKAVSLAIARDGASGGVVRTVTINSEGV 147
           +V A+ +   RD  S        I+    
Sbjct: 210 IVNAMRVLYYRDARSSRNFSLAIIDKNTG 238

>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 =  142 bits (360), Expect = 4e-43
 Identities = 31/174 (17%), Positives = 54/174 (31%), Gaps = 20/174 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQ---------TGMI 62
           A  +  +       L  +    G P T    AN +  +   N               G  
Sbjct: 49  AGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYD 108

Query: 63  VGGWDKYEGGKIYGVPLGGTIIE--QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVV 120
           +   D+   G+I    + G   E    +   GSGS +      + +     +E A +  +
Sbjct: 109 LDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAI 168

Query: 121 KAVSLAIARDGASGGVVRT-------VTINSEGVSRKFYPGDTLPLWHEELEPQ 167
           +++  A   D A+GG   T       VTI   G        +T       +  +
Sbjct: 169 ESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVH--VSEETTSELARRIVAE 220

>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 =  136 bits (345), Expect = 3e-40
 Identities = 30/156 (19%), Positives = 55/156 (35%), Gaps = 18/156 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF----LQTGMIVGGWD 67
           AA +   +      L  +    G P T     N + ++   N       L    ++ G+D
Sbjct: 106 AAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYD 165

Query: 68  K-----YEGGKIYGVPLGGT--IIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVV 120
                    G+I      G   I E+ +   GSGS +      + + +    +   ++ V
Sbjct: 166 IHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAV 225

Query: 121 KAVSLAIARDGASGGVVRT-------VTINSEGVSR 149
           +A+  A   D A+GG           V I+++G   
Sbjct: 226 EALYDAADDDSATGGPDLVRGIFPTAVIIDADGAVD 261

>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 =  134 bits (339), Expect = 3e-39
 Identities = 30/156 (19%), Positives = 50/156 (32%), Gaps = 18/156 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQ---------TGMI 62
           A  +  +       L  +    G P T    AN +  +   N               G  
Sbjct: 114 AGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYD 173

Query: 63  VGGWDKYEGGKIYGVPLGGTIIE--QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVV 120
           +   D+   G+I    + G   E    +   GSGS +      + +     +E A +  +
Sbjct: 174 LDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAI 233

Query: 121 KAVSLAIARDGASGGVVRT-------VTINSEGVSR 149
           +++  A   D A+GG   T       VTI   G   
Sbjct: 234 ESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVH 269

>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 = 81.6 bits (201), Expect = 2e-19
 Identities = 27/185 (14%), Positives = 61/185 (32%), Gaps = 19/185 (10%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQ-PATVKVAANLV-----RLLSYNNKNFLQTGMI--V 63
             + + +                +   T +  AN        + +   K +     +  V
Sbjct: 68  YNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEV 127

Query: 64  GGWDKYEGGKIYGVPLGGTIIEQP-FAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
           G     +  ++Y +   G+I+++  F + G  +  +     ++++  +  E A  + V A
Sbjct: 128 GRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNA 187

Query: 123 VSLAIARDGASGGV----VRTVTINSEGVSRKF--YPGDTLPLWHEELEPQNSLLDMMNV 176
           +    A +G    V    +    ++     R F    G  L    E+L P        + 
Sbjct: 188 LRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTAL----EQLVPAEPAAASESA 243

Query: 177 ASPEP 181
             P+P
Sbjct: 244 PEPKP 248

>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 = 68.8 bits (168), Expect = 1e-14
 Identities = 20/156 (12%), Positives = 48/156 (30%), Gaps = 17/156 (10%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLG-QPATVKVAANLV-----RLLSYNNKNFLQTGMIVGG 65
             +   +      F          +  T +  AN+       + +   K + +  + V  
Sbjct: 68  FNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPY-EVELCVAE 126

Query: 66  WDKY---EGGKIYGV-PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
              Y   +  ++Y +   G    E  F + G  +  +     +++ E  +  +A ++ V 
Sbjct: 127 VAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDALRIAVA 186

Query: 122 AVSLAIARDGASGGVVRTV------TINSEGVSRKF 151
           A+    A           V       +++    R F
Sbjct: 187 ALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAF 222

>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 Length = 174

 Score = 51.9 bits (124), Expect = 6e-09
 Identities = 21/120 (17%), Positives = 42/120 (35%), Gaps = 12/120 (10%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
            AD+ T+ +     L  H   L +      +A  +      ++   +   ++   D+   
Sbjct: 50  TADAFTLFELFERKLEMHQGHLLK------SAVELAKDWRTDRALRKLEAMLIVADE--- 100

Query: 72  GKIYGVPLGGTIIEQPF-AIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
            +   +   G +++     I   GS   Y           T+  A ++V K+  L IA D
Sbjct: 101 KESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAHEIVEKS--LRIAGD 158

>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 Length = 180

 Score = 43.4 bits (102), Expect = 8e-06
 Identities = 18/119 (15%), Positives = 38/119 (31%), Gaps = 9/119 (7%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
            AD+ T+ +     L ++         +K AA  +     ++K   +   ++   ++   
Sbjct: 56  VADAFTLFEKFEAKLEEY------NGNLKRAAVELAKEWRSDKVLRKLEAMLIVMNQDTL 109

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
             + G        +      GSG +Y         K       A ++   A  L  A +
Sbjct: 110 LLVSGT-GEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASEIARAA--LETAGE 165

>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 = 43.4 bits (103), Expect = 9e-06
 Identities = 29/160 (18%), Positives = 48/160 (30%), Gaps = 21/160 (13%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIVG 64
            D + + +  R            P  +         L    +               I G
Sbjct: 79  PDGRHLVNRGREEAASFKKLYKTPIPIPA---FADRLGQYVQAHTLYNSVRPFGVSTIFG 135

Query: 65  GWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGS----SYLYGFFDQAWKEGMTKEEAEQLV 119
           G DK  G  +Y +   G+    +  A G  G     + L    D    EG++  EA +  
Sbjct: 136 GVDK-NGAHLYMLEPSGSYWGYKGAATG-KGRQSAKAELEKLVDH-HPEGLSAREAVKQA 192

Query: 120 VKAVSLAIARDGASGGV--VRTVTINSEGVSRKFYPGDTL 157
            K + LA   +        +   +++      KF  GD L
Sbjct: 193 AKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLL 232

>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 = 43.1 bits (102), Expect = 1e-05
 Identities = 18/123 (14%), Positives = 41/123 (33%), Gaps = 13/123 (10%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIVG 64
           AD+++++D  R          G    +K    L   ++     +             ++G
Sbjct: 82  ADARSLADIAREEASNFRSNFGYNIPLKH---LADRVAMYVHAYTLYSAVRPFGCSFMLG 138

Query: 65  GWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAV 123
            +   +G ++Y +   G        AIG           ++   + MT  +  + V K +
Sbjct: 139 SYSVNDGAQLYMIDPSGVSYGYWGCAIG-KARQAAKTEIEKLQMKEMTCRDIVKEVAKII 197

Query: 124 SLA 126
            + 
Sbjct: 198 YIV 200

>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 = 42.7 bits (101), Expect = 2e-05
 Identities = 26/126 (20%), Positives = 48/126 (38%), Gaps = 19/126 (15%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG----------- 60
            AD++++ ++ R     H +   +   V+    L + +      F +             
Sbjct: 74  TADARSMIEHARTAAVTHNLYYDEDINVES---LTQSVCDLALRFGEGASGEERLMSRPF 130

Query: 61  ---MIVGGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAE 116
              +++ G D  +G +++     GT       AIG SGS          W   +T +EAE
Sbjct: 131 GVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIG-SGSEGAQAELLNEWHSSLTLKEAE 189

Query: 117 QLVVKA 122
            LV+K 
Sbjct: 190 LLVLKI 195

>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 = 42.7 bits (101), Expect = 2e-05
 Identities = 24/120 (20%), Positives = 48/120 (40%), Gaps = 13/120 (10%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
            AD++ + +  R     +     +   V++   LVR LS   + + Q G         I 
Sbjct: 80  TADAEILINTARIHAQNYLKTYNEDIPVEI---LVRRLSDIKQGYTQHGGLRPFGVSFIY 136

Query: 64  GGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
            G+D   G ++Y     G     +  ++G + +S         +K+ M  ++A +L +K 
Sbjct: 137 AGYDDRYGYQLYTSNPSGNYTGWKAISVG-ANTSAAQTLLQMDYKDDMKVDDAIELALKT 195

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

 Score = 41.9 bits (99), Expect = 3e-05
 Identities = 27/124 (21%), Positives = 57/124 (45%), Gaps = 15/124 (12%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
            AD++ + D  R     + +    P TVK    L + +    + + Q G        +++
Sbjct: 82  VADARVLIDRARIEAQINRLTYDIPITVKE---LAKKICDFKQQYTQYGGVRPFGVSLLI 138

Query: 64  GGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
            G +  E  K+Y     G ++E +  AIG  G   +  FF++ +++ ++ ++A  L + A
Sbjct: 139 AGVN--EVPKLYETDPSGALLEYKATAIG-MGRMAVTEFFEKEYRDDLSFDDAMVLGLVA 195

Query: 123 VSLA 126
           + L+
Sbjct: 196 MGLS 199

>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 = 41.8 bits (99), Expect = 4e-05
 Identities = 17/120 (14%), Positives = 43/120 (35%), Gaps = 14/120 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
             D + +    R    Q+ +   +P        LV+ ++   + + Q+G        +++
Sbjct: 79  GPDYRVLVHRARKLAQQYYLVYQEPIPTAQ---LVQRVASVMQEYTQSGGVRPFGVSLLI 135

Query: 64  GGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
            GW++     ++     G     +  A+G         F ++ + E +  E+A    +  
Sbjct: 136 CGWNE-GRPYLFQSDPSGAYFAWKATAMG-KNYVNGKTFLEKRYNEDLELEDAIHTAILT 193

>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 = 41.6 bits (98), Expect = 5e-05
 Identities = 29/168 (17%), Positives = 50/168 (29%), Gaps = 21/168 (12%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIVG 64
            D + + +  R            P  +         L    +               I G
Sbjct: 83  PDGRHLVNRGREEAASFKKLYKTPIPIPA---FADRLGQYVQAHTLYNSVRPFGVSTIFG 139

Query: 65  GWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGS----SYLYGFFDQAWKEGMTKEEAEQLV 119
           G DK  G  +Y +   G+    +  A G  G     + L    D    EG++  EA +  
Sbjct: 140 GVDK-NGAHLYMLEPSGSYWGYKGAATG-KGRQSAKAELEKLVDH-HPEGLSAREAVKQA 196

Query: 120 VKAVSLAIARDGASGG--VVRTVTINSEGVSRKFYPGDTLPLWHEELE 165
            K + LA   +        +   +++      KF  GD L    +  +
Sbjct: 197 AKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFAQ 244

>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 = 41.2 bits (97), Expect = 7e-05
 Identities = 32/168 (19%), Positives = 69/168 (41%), Gaps = 16/168 (9%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
            +D+  +++ +R    ++ +Q  +P   +    LV  L    + + Q G        ++ 
Sbjct: 80  TSDANVLTNELRLIAQRYLLQYQEPIPCEQ---LVTALCDIKQAYTQFGGKRPFGVSLLY 136

Query: 64  GGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEG-MTKEEAEQLVVK 121
            GWDK+ G ++Y     G     +   I G+ S+       Q +KEG MT + A  L +K
Sbjct: 137 IGWDKHYGFQLYQSDPSGNYGGWKATCI-GNNSAAAVSMLKQDYKEGEMTLKSALALAIK 195

Query: 122 A--VSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQ 167
               ++ +++  A    + T+T  +     +      +    ++ E +
Sbjct: 196 VLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHEEE 243

>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 = 39.9 bits (94), Expect = 2e-04
 Identities = 31/120 (25%), Positives = 57/120 (47%), Gaps = 14/120 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
            AD++ + D+ R    Q  +  G    ++    LV+ ++   + + Q G        +I 
Sbjct: 82  VADARVLVDFARISAQQEKVTYGSLVNIEN---LVKRVADQMQQYTQYGGVRPYGVSLIF 138

Query: 64  GGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKA 122
            G D+  G +++     GTI E +  AIG SG   +  F ++ +KE + ++EA  L +KA
Sbjct: 139 AGIDQ-IGPRLFDCDPAGTINEYKATAIG-SGKDAVVSFLEREYKENLPEKEAVTLGIKA 196

>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B 1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A* 2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A* 3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ... Length = 250

 Score = 39.1 bits (92), Expect = 3e-04
 Identities = 25/121 (20%), Positives = 49/121 (40%), Gaps = 14/121 (11%)

Query: 12  AADSQTVSDYVRYFLHQ-HTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MI 62
             D + + D  R   H  +    G+    K+   LV  ++   +   Q+G        ++
Sbjct: 79  GPDYRVLVDKSRKVAHTSYKRIYGEYPPTKL---LVSEVAKIMQEATQSGGVRPFGVSLL 135

Query: 63  VGGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
           + G D++ G  +Y V   G+    +  AIG  GS     F ++ W + +  E+A  + + 
Sbjct: 136 IAGHDEFNGFSLYQVDPSGSYFPWKATAIG-KGSVAAKTFLEKRWNDELELEDAIHIALL 194

Query: 122 A 122
            
Sbjct: 195 T 195

>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 = 37.9 bits (89), Expect = 8e-04
 Identities = 25/125 (20%), Positives = 50/125 (40%), Gaps = 19/125 (15%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG----------- 60
            AD++T+ D  R     H     +  TV+    + + +S     F +             
Sbjct: 82  IADAKTLIDKARVETQNHWFTYNETMTVES---VTQAVSNLALQFGEEDADPGAMSRPFG 138

Query: 61  --MIVGGWDKYEGGKIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQ 117
             ++ GG D+ +G +++ +   GT ++    AIG S S        + + + MT +EA +
Sbjct: 139 VALLFGGVDE-KGPQLFHMDPSGTFVQCDARAIG-SASEGAQSSLQELYHKSMTLKEAIK 196

Query: 118 LVVKA 122
             +  
Sbjct: 197 SSLII 201

>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 = 37.7 bits (88), Expect = 8e-04
 Identities = 27/126 (21%), Positives = 50/126 (39%), Gaps = 17/126 (13%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG--------MIV 63
            ADS+ + +  R     H + L  P TV+    L R ++   + + Q+G         ++
Sbjct: 77  NADSRILIEKARVEAQSHRLTLEDPVTVEY---LTRYVAGVQQRYTQSGGVRPFGVSTLI 133

Query: 64  GGWDKYEGG-KIYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKE---GMTKEEAEQL 118
            G+D  +   K+Y     G         I G  S  +  F ++ +       T EE  +L
Sbjct: 134 AGFDPRDDEPKLYQTEPSGIYSSWSAQTI-GRNSKTVREFLEKNYDRKEPPATVEECVKL 192

Query: 119 VVKAVS 124
            V+++ 
Sbjct: 193 TVRSLL 198

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	184
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.93
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.93
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.93

>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=1.2e-39  Score=257.12  Aligned_cols=162  Identities=46%  Similarity=0.826  Sum_probs=156.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.++.||++++|+||||+++||+||.+||+|
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~p~~~~~lvaG~D~~~gp~ly~~d~~G  118 (205)
T 1iru_H           40 RIFCCR-SGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGG  118 (205)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTS
T ss_pred             CEEEEc-CccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCcCccEEEEEEEEeCCCCCEEEEECCCC
Confidence            799999 9999999999999999999999999999999999999999999998899999999999986689999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchhh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWH  161 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~~  161 (184)
                      ++.++++.++|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|++++.++++|++.|+
T Consensus       119 ~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~  198 (205)
T 1iru_H          119 MMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFA  198 (205)
T ss_dssp             CCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCC
T ss_pred             cEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999977889999999999


Q ss_pred             hhc
Q 029964          162 EEL  164 (184)
Q Consensus       162 ~~~  164 (184)
                      ++.
T Consensus       199 ~~~  201 (205)
T 1iru_H          199 VAT  201 (205)
T ss_dssp             CCC
T ss_pred             hhc
Confidence            763

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

Probab=100.00  E-value=1.3e-39  Score=259.73  Aligned_cols=164  Identities=22%  Similarity=0.344  Sum_probs=154.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|+++++++++++.+|+++++++|.+| +||+|++||||||+.+||+||.+||+
T Consensus        41 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~P~~v~~lvaG~D~~~gp~Ly~idp~  119 (219)
T 3h4p_a           41 YIAMTI-AGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLDPL  119 (219)
T ss_dssp             TEEEEC-CSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHTTTTTCCCCCEEEEEETTTEEEEEEECSS
T ss_pred             CEEEEe-eEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999999874 69999999999998669999999999


Q ss_pred             CceeeeC-eEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCch
Q 029964           81 GTIIEQP-FAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPL  159 (184)
Q Consensus        81 G~~~~~~-~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~  159 (184)
                      |++.+++ +.|+|+|+++++++||+.|+++||++||++++++||..+.+||..++++++|++|+++|+++  ++++|++.
T Consensus       120 G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~g~~~--l~~~ei~~  197 (219)
T 3h4p_a          120 GGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFSGNGISLAVITKDGVKI--FEDEEIEK  197 (219)
T ss_dssp             CCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHTSCSSCCSCCCEEEEETTEEEE--CCHHHHHH
T ss_pred             CceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCeEE--cCHHHHHH
Confidence            9999999 99999999999999999999999999999999999999999999999999999999998654  99999999


Q ss_pred             hhhhcCChh
Q 029964          160 WHEELEPQN  168 (184)
Q Consensus       160 ~~~~~~~~~  168 (184)
                      ++++++...
T Consensus       198 ~l~~~~~~~  206 (219)
T 3h4p_a          198 ILDSMKAKP  206 (219)
T ss_dssp             HHHHCC---
T ss_pred             HHHHhhccc
Confidence            998877543

>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=9.1e-39  Score=250.94  Aligned_cols=159  Identities=45%  Similarity=0.782  Sum_probs=151.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+|+||+|++||||+|+++||+||.  |+|
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~~p~~v~~lvaG~D~~~~p~ly~--p~G  116 (199)
T 3unf_N           40 RIFCAL-SGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLIVAGWDQREGGQVYG--TMG  116 (199)
T ss_dssp             TEEEEE-CSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHTTTTCCCCEEEEEEETTTEEEEEE--CGG
T ss_pred             CEEEEe-cccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEE--ECC
Confidence            799999 99999999999999999999999999999999999999999999999999999999999867899999  999


Q ss_pred             ceeee-CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchh
Q 029964           82 TIIEQ-PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLW  160 (184)
Q Consensus        82 ~~~~~-~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~  160 (184)
                      ++..+ .+.++|+|+++++++||+.|+++||++||++++++||..+.+||..++++++|++|+++|+.++.++++|+++|
T Consensus       117 ~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~~~  196 (199)
T 3unf_N          117 GMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPKF  196 (199)
T ss_dssp             GCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSCCC
T ss_pred             CceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCccc
Confidence            97665 45567999999999999999999999999999999999999999999999999999999998888999999999


Q ss_pred             hhh
Q 029964          161 HEE  163 (184)
Q Consensus       161 ~~~  163 (184)
                      |++
T Consensus       197 ~~~  199 (199)
T 3unf_N          197 YDE  199 (199)
T ss_dssp             CCC
T ss_pred             ccC
Confidence            874

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

Probab=100.00  E-value=8.9e-39  Score=251.66  Aligned_cols=160  Identities=24%  Similarity=0.328  Sum_probs=152.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++++++++|++.+|+++++++|.+| |||+|++|+||||+ +||+||.+||+
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~r~rp~~~~~lvaG~D~-~gp~Ly~id~~  117 (202)
T 1j2q_H           40 RMAMTT-AGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDS-EGKSIYSIDPI  117 (202)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEET-TEEEEEEECTT
T ss_pred             CEEEEe-cccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEeC-CCCEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999999875 69999999999998 58999999999


Q ss_pred             CceeeeC-eEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCch
Q 029964           81 GTIIEQP-FAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPL  159 (184)
Q Consensus        81 G~~~~~~-~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~  159 (184)
                      |++.+++ +.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|.+  .+++++++.
T Consensus       118 G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~~s~~~i~v~vi~~~g~~--~l~~~ei~~  195 (202)
T 1j2q_H          118 GGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDEFY--QYSPEEVEQ  195 (202)
T ss_dssp             CCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEECSSCEE--ECHHHHHHH
T ss_pred             CCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCeE--EeCHHHHHH
Confidence            9999999 9999999999999999999999999999999999999999999989999999999999854  499999999


Q ss_pred             hhhhcC
Q 029964          160 WHEELE  165 (184)
Q Consensus       160 ~~~~~~  165 (184)
                      ++++++
T Consensus       196 ~~~~~~  201 (202)
T 1j2q_H          196 ILAKFR  201 (202)
T ss_dssp             HGGGTT
T ss_pred             HHHHhh
Confidence            998763

>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=1.8e-38  Score=255.73  Aligned_cols=165  Identities=23%  Similarity=0.348  Sum_probs=156.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+|+++++++|.+++||+|++||||+|++ ||+||.+||+|
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~p~~v~llvaG~D~~-gp~Ly~idp~G  117 (234)
T 3unf_H           40 KIYCCG-AGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASLVVGGVDLN-GPQLYEVHPHG  117 (234)
T ss_dssp             TEEEEE-EESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEETT-EEEEEEECTTS
T ss_pred             CEEEEe-cccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHhcCCCccEEEEEEEEeCC-CCEEEEECCCC
Confidence            799999 9999999999999999999999999999999999999999999999999999999999984 99999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchhh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWH  161 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~~  161 (184)
                      ++.++++.|+|+|+++++++||+.|+++||++||++++++||..+.++|..++++++|++|+++|++.  +++.+++..|
T Consensus       118 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~~~~~D~~sg~~iev~vi~~dg~~~--l~~~~i~~~~  195 (234)
T 3unf_H          118 SYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVITAGGAKL--QRALSTPTEP  195 (234)
T ss_dssp             CEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEESSCEEE--EEEEECCCCC
T ss_pred             CEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEECCCEEE--eCceeccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999764  8889999888


Q ss_pred             hhcCChhhh
Q 029964          162 EELEPQNSL  170 (184)
Q Consensus       162 ~~~~~~~~~  170 (184)
                      ...+..-.|
T Consensus       196 ~~~~~~~~~  204 (234)
T 3unf_H          196 VQRAGRYRF  204 (234)
T ss_dssp             CCCCCCCCC
T ss_pred             ccccccccC
Confidence            776654433

>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=1.1e-38  Score=253.02  Aligned_cols=169  Identities=24%  Similarity=0.301  Sum_probs=156.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.++ .||+|++|+||||+++||+||.+||+
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~p~~v~~lvaG~D~~~gp~Ly~idp~  118 (212)
T 1ryp_L           40 FLLGTM-AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSD  118 (212)
T ss_dssp             TEEEEC-CBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEETT
T ss_pred             cEEEEc-cccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEeCCCCCEEEEEcCC
Confidence            799999 9999999999999999999999999999999999999999999885 49999999999996569999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchh
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLW  160 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~  160 (184)
                      |++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|.+  .+++++++.+
T Consensus       119 G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~g~~--~~~~~ei~~~  196 (212)
T 1ryp_L          119 GTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWI--YHGNHDVGEL  196 (212)
T ss_dssp             CCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEE--EEEEEEHHHH
T ss_pred             ceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEEcCCceE--EECHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999855  3889999988


Q ss_pred             h-hhcCChhhhhhh
Q 029964          161 H-EELEPQNSLLDM  173 (184)
Q Consensus       161 ~-~~~~~~~~~~~~  173 (184)
                      + +-.+.++++-||
T Consensus       197 ~~~~~~~~~~~~~~  210 (212)
T 1ryp_L          197 FWKVKEEEGSFNNV  210 (212)
T ss_dssp             HHHHHHHHCCCTTS
T ss_pred             HHHHHHhhhhhccC
Confidence            4 555555555554

>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=1.1e-38  Score=263.81  Aligned_cols=170  Identities=24%  Similarity=0.289  Sum_probs=160.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||..||++.+.+++|.+++.|+++++++++++.+|+++++++|.+| .||++++||||||+.+||+||.+||+
T Consensus       115 ~i~~~~-aG~~AD~~~l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~~p~~v~~lvaG~D~~~gp~Ly~iDp~  193 (287)
T 3nzj_K          115 FLLGTM-AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSD  193 (287)
T ss_dssp             TEEEEC-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETTTEEEEEEEETT
T ss_pred             cEEEEe-cCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCCEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999999886 59999999999996679999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchh
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLW  160 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~  160 (184)
                      |++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|+++  +++++++.+
T Consensus       194 G~~~~~~~~AiGsgs~~a~~~Le~~y~~dms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkdg~~~--l~~~ev~~~  271 (287)
T 3nzj_K          194 GTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIY--HGNHDVGEL  271 (287)
T ss_dssp             CCEEECSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEE--EEEEEHHHH
T ss_pred             ceEEEcCeEEEecchHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCCCEEE--eCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999654  888888765


Q ss_pred             -hhhcCChhhhhhhc
Q 029964          161 -HEELEPQNSLLDMM  174 (184)
Q Consensus       161 -~~~~~~~~~~~~~~  174 (184)
                       |+-.+.++||-||+
T Consensus       272 l~~~~e~~~~~~~~~  286 (287)
T 3nzj_K          272 FWKVKEEEGSFNNVI  286 (287)
T ss_dssp             HHHHHHHHCCCTTSC
T ss_pred             HHHHHHhhccccccC
Confidence             67777789999874

>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=3.7e-38  Score=248.46  Aligned_cols=161  Identities=26%  Similarity=0.314  Sum_probs=153.8

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||..+|++.+.+++|.+++.|+++++++++++.+|+++++++|.+| +||+|++||||||+ +||+||.+||+
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r~~~~~v~~lvaG~D~-~gp~Ly~idp~  117 (204)
T 1iru_L           40 YLLGTM-AGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK-RGPGLYYVDSE  117 (204)
T ss_dssp             TEEEEC-CBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCBEEEEEEECS-SSEEEEEEESS
T ss_pred             CEEEEc-cCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhCCCCeeEEEEEEEEeC-CCCEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999999886 48999999999998 59999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchh
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLW  160 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~  160 (184)
                      |++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|++  .++++|++.+
T Consensus       118 G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~rd~~s~~~i~v~vi~~~g~~--~l~~~ei~~~  195 (204)
T 1iru_L          118 GNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDGWI--RVSSDNVADL  195 (204)
T ss_dssp             SCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEECSSCEE--EEEEEEHHHH
T ss_pred             CcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHhCccCCCceEEEEEeCCceE--EeCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999989999999999999965  4889999999


Q ss_pred             hhhcCC
Q 029964          161 HEELEP  166 (184)
Q Consensus       161 ~~~~~~  166 (184)
                      +++++.
T Consensus       196 ~~~~~~  201 (204)
T 1iru_L          196 HEKYSG  201 (204)
T ss_dssp             HHHHTC
T ss_pred             HHHhcc
Confidence            988754

>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=4.7e-38  Score=250.37  Aligned_cols=159  Identities=26%  Similarity=0.389  Sum_probs=151.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++++++++|++.+|+++++++|.+| |||+|++|+|||| + ||+||.+||+
T Consensus        48 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r~rp~~v~~lvaG~D-~-gp~Ly~idp~  124 (217)
T 1yar_H           48 YTGMTI-AGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-T-APHVFSIDAA  124 (217)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEES-S-SEEEEEECTT
T ss_pred             CEEEEe-CcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEC-C-CCEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999999875 6999999999999 4 8999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeC-CCcEEEeecCCCCch
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINS-EGVSRKFYPGDTLPL  159 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitk-dg~~~~~~~~~~~~~  159 (184)
                      |++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|++ +|.+  .+++++++.
T Consensus       125 G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~--~~~~~ei~~  202 (217)
T 1yar_H          125 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYV--QLPTDQIES  202 (217)
T ss_dssp             CCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEE--ECCHHHHHH
T ss_pred             CCeEecCEEEEcCCHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCEE--EcCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998999999999999 7754  489999999


Q ss_pred             hhhhcC
Q 029964          160 WHEELE  165 (184)
Q Consensus       160 ~~~~~~  165 (184)
                      +++++.
T Consensus       203 ~~~~~~  208 (217)
T 1yar_H          203 RIRKLG  208 (217)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            987654

>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=3.1e-38  Score=255.28  Aligned_cols=162  Identities=12%  Similarity=0.068  Sum_probs=152.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH--HcC---CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS--YNN---KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~--~~~---r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|++++++++|++.+|+++++++  |..   .|||+|++||||||+.+||+||+
T Consensus        69 ~i~~~~-aG~~aD~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~  147 (243)
T 1ryp_A           69 TIGMVV-NGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYK  147 (243)
T ss_dssp             SCEEEE-ESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEE
T ss_pred             CEEEEE-EecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEE
Confidence            799999 999999999999999999999999999999999999999999  433   47999999999999756999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcC-------CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE-------GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~-------~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      +||+|++.+++++|+|+|+++++++||+.|++       +||++||++++++||..+.+|| .++++++|++|+++|  .
T Consensus       148 ~dp~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd-~s~~~iev~vi~~~g--~  224 (243)
T 1ryp_A          148 TDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTE-FSKNDLEVGVATKDK--F  224 (243)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCC-CCTTSEEEEEEETTE--E
T ss_pred             EcCCCCEEEEEEEEECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCC--e
Confidence            99999999999999999999999999999999       9999999999999999999999 679999999999999  3


Q ss_pred             EeecCCCCchhhhhcCCh
Q 029964          150 KFYPGDTLPLWHEELEPQ  167 (184)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~  167 (184)
                      +.+++++++.+++++.++
T Consensus       225 ~~l~~~ei~~~~~~~~~~  242 (243)
T 1ryp_A          225 FTLSAENIEERLVAIAEQ  242 (243)
T ss_dssp             EECCHHHHHHHHHHHTTT
T ss_pred             EECCHHHHHHHHHHhhcc
Confidence            469999999999887553

>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=7.2e-38  Score=253.55  Aligned_cols=163  Identities=17%  Similarity=0.176  Sum_probs=153.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+|+++++++|.|     .|||+|++||||||+.+||+||.
T Consensus        75 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~  153 (246)
T 1iru_A           75 NIGCVM-TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYK  153 (246)
T ss_dssp             SCEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEE
T ss_pred             CEEEEE-eccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEE
Confidence            799999 999999999999999999999999999999999999999986432     47999999999999756999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcC--CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE--GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPG  154 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~--~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~  154 (184)
                      +||+|++.+++++|+|+|+++++++||+.|++  +||.+||++++++||..+.+|| .++++++|++|+++|+.++.+++
T Consensus       154 idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd-~sg~~i~v~vi~~~g~~~~~l~~  232 (246)
T 1iru_A          154 CDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSID-FKPSEIEVGVVTVENPKFRILTE  232 (246)
T ss_dssp             ECTTSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCC-CCTTSEEEEEEETTEEEEEECCH
T ss_pred             EcCCeeEEEeeEEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCCeEEECCH
Confidence            99999999999999999999999999999999  9999999999999999999999 78999999999999986677999


Q ss_pred             CCCchhhhhcCC
Q 029964          155 DTLPLWHEELEP  166 (184)
Q Consensus       155 ~~~~~~~~~~~~  166 (184)
                      ++++.+++++.+
T Consensus       233 ~ei~~~~~~~~~  244 (246)
T 1iru_A          233 AEIDAHLVALAE  244 (246)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhc
Confidence            999999988754

>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=4.4e-37  Score=242.56  Aligned_cols=156  Identities=40%  Similarity=0.730  Sum_probs=148.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++++++ ++++.+|+++++++|.+|..|++++|+||||+.+||+||.+||+|
T Consensus        49 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~-~~v~~la~~l~~~~~~~~~~~~~~~lvaG~D~~~gp~Ly~id~~G  126 (205)
T 1ryp_H           49 KIWCCR-SGSAADTQAIADIVQYHLELYTSQYGT-PSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGG  126 (205)
T ss_dssp             TEEEEE-EEBHHHHHHHHHHHHHHHHHHHHHHSS-CCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTS
T ss_pred             CEEEEc-cCCHHHHHHHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhhcCceEEEEEEEEecCCCcEEEEECCCc
Confidence            799999 999999999999999999999999999 999999999999999987669999999999986689999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchhh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWH  161 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~~  161 (184)
                      ++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|++++.+    ++.|+
T Consensus       127 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~~~~~~----~~~~~  202 (205)
T 1ryp_H          127 SVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIF----YPDEY  202 (205)
T ss_dssp             CCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEE----CHHHH
T ss_pred             cEEecCEEEEEecHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhCCccCCeEEEEEEcCCCEEEEEe----ccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999987666    78887


Q ss_pred             hh
Q 029964          162 EE  163 (184)
Q Consensus       162 ~~  163 (184)
                      ++
T Consensus       203 ~~  204 (205)
T 1ryp_H          203 EQ  204 (205)
T ss_dssp             TC
T ss_pred             cc
Confidence            65

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L

Probab=100.00  E-value=1.1e-36  Score=241.49  Aligned_cols=153  Identities=20%  Similarity=0.207  Sum_probs=145.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+|+++++++|..| +||+|++||||||++++|+||.+||+
T Consensus        49 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~g~p~Ly~id~~  127 (213)
T 1iru_M           49 KTVIGC-SGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPV  127 (213)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEECTTSCEEEEEECTT
T ss_pred             CEEEEc-cccHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEcCCCCEEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999998765 79999999999998767999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhh---------hcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEe
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQA---------WKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKF  151 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~---------~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~  151 (184)
                      |++.++++.|+|+|+++++++||+.         |+++||++||++++++||..+.++|..++++++|++|+++|++++.
T Consensus       128 G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~  207 (213)
T 1iru_M          128 GSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIREET  207 (213)
T ss_dssp             SCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEEEE
T ss_pred             CCEEECCEEEEeeCHHHHHHHHhhccccccccccCCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCCeEEEE
Confidence            9999999999999999999999999         8889999999999999999999999999999999999999998776


Q ss_pred             ecCC
Q 029964          152 YPGD  155 (184)
Q Consensus       152 ~~~~  155 (184)
                      ++..
T Consensus       208 ~~~r  211 (213)
T 1iru_M          208 VSLR  211 (213)
T ss_dssp             EECC
T ss_pred             eecC
Confidence            6544

>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=7.5e-37  Score=244.26  Aligned_cols=158  Identities=23%  Similarity=0.302  Sum_probs=147.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+++++++.+|.+++||++++||||+|+ +||+||.+||+|
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~~p~~v~~lvaG~D~-~gp~Ly~idp~G  117 (222)
T 1ryp_I           40 KIWCAG-AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDP-TGSHLFSIHAHG  117 (222)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEET-TEEEEEEECTTS
T ss_pred             CEEEEe-cccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhhcCCCCCeeEEEEEEeC-CCCEEEEECCCC
Confidence            799999 999999999999999999999999999999999999999999999999999999999998 589999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCC-cEEEeecCCCCchh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEG-VSRKFYPGDTLPLW  160 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg-~~~~~~~~~~~~~~  160 (184)
                      ++.++++.|+|+|+++++++||+.|+++||++||++++++||..+.+||..++++++|++|+++| ++.  +.+.+++.-
T Consensus       118 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~--~~~~~~~~~  195 (222)
T 1ryp_I          118 STDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEY--LRNYLTPNV  195 (222)
T ss_dssp             CEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEE--EEEEECCCC
T ss_pred             CEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHHHHHHHHHHHhccccCCCcEEEEEEECCCCEEE--EeceecCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999 653  334444444


Q ss_pred             hhh
Q 029964          161 HEE  163 (184)
Q Consensus       161 ~~~  163 (184)
                      |..
T Consensus       196 ~~~  198 (222)
T 1ryp_I          196 REE  198 (222)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            544

>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=8.8e-37  Score=239.46  Aligned_cols=147  Identities=19%  Similarity=0.285  Sum_probs=141.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeC-CCCcEEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDK-YEGGKIYGV   77 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~-~~gp~Ly~i   77 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++.+|.+   |+||+|++|+||||+ ++||+||.+
T Consensus        41 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~~r~p~~v~~lvaG~D~~~~~p~Ly~i  119 (198)
T 1ryp_K           41 HTLMSF-AGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQI  119 (198)
T ss_dssp             TEEEEE-EESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEE
T ss_pred             CEEEEe-ccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEeCCCCCcEEEEE
Confidence            799999 999999999999999999999999999999999999999999876   359999999999997 469999999


Q ss_pred             CCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           78 PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        78 d~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      ||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|+++
T Consensus       120 dp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  191 (198)
T 1ryp_K          120 DYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQ  191 (198)
T ss_dssp             CTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEEETTEEEE
T ss_pred             CCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhCccCCCceEEEEEcCCCEEE
Confidence            999999999999999999999999999999999999999999999999999999999999999999998764

>1ryp_C 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_B* 1g65_B 2f16_B* 2fak_B* 2fny_B* 2gpl_B* 3d29_B* 3dy3_B* 3dy4_B* 3e47_B* 3gpj_B* 3gpt_B* 3gpw_B* 3hye_B* 3mg0_B* 3mg4_B* 3okj_B* 3shj_B* 3tdd_B* 3nzj_B* ...

Probab=100.00  E-value=3.1e-37  Score=249.51  Aligned_cols=164  Identities=13%  Similarity=0.126  Sum_probs=153.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+     +|||+|++||||||+++||+||.
T Consensus        71 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~  149 (244)
T 1ryp_C           71 KIAVAV-AGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYT  149 (244)
T ss_dssp             SEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEE
T ss_pred             CEEEEE-EEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEE
Confidence            799999 999999999999999999999999999999999999999999653     47999999999999446999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEe--CCCcE--EEee
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTIN--SEGVS--RKFY  152 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iit--kdg~~--~~~~  152 (184)
                      +||+|++.++++.|+|+|+++++++||+.|+++||++||++++++||..+.+||..++++++|++|+  ++|..  ++.+
T Consensus       150 idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l  229 (244)
T 1ryp_C          150 SNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIF  229 (244)
T ss_dssp             ECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEEC
T ss_pred             ECCCccEEeeeEEEECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEEC
Confidence            9999999999999999999999999999999999999999999999999999966679999999999  99873  5679


Q ss_pred             cCCCCchhhhhcCC
Q 029964          153 PGDTLPLWHEELEP  166 (184)
Q Consensus       153 ~~~~~~~~~~~~~~  166 (184)
                      +++|++.++++++.
T Consensus       230 ~~~ei~~~~~~~~~  243 (244)
T 1ryp_C          230 KPQEIKDILVKTGI  243 (244)
T ss_dssp             CHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhc
Confidence            99999999987753

>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=2.1e-37  Score=250.25  Aligned_cols=163  Identities=19%  Similarity=0.228  Sum_probs=152.8

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----------CCceeEEEEEEEEeCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----------KNFLQTGMIVGGWDKYE   70 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----------r~p~~vs~iiaG~D~~~   70 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+           +|||+|++||||||+.+
T Consensus        65 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~  143 (242)
T 1ryp_E           65 HIGCAM-SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADD  143 (242)
T ss_dssp             TEEEEE-EESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTT
T ss_pred             CEEEEE-eecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCC
Confidence            799999 999999999999999999999999999999999999999998864           56999999999999556


Q ss_pred             CcEEEEECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEE
Q 029964           71 GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRK  150 (184)
Q Consensus        71 gp~Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~  150 (184)
                      ||+||.+||+|++.++++.|+|+|+++++++||+.|+++||++||++++++||..+.+| ..++++++|++|+++|. ++
T Consensus       144 gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~-~~  221 (242)
T 1ryp_E          144 GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEE-KLDENNAQLSCITKQDG-FK  221 (242)
T ss_dssp             EEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEEETTTE-EE
T ss_pred             CCEEEEECCCCCEeccCEEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEECCCC-eE
Confidence            99999999999999999999999999999999999999999999999999999999999 66789999999999998 45


Q ss_pred             eecCCCCchhhhhcCCh
Q 029964          151 FYPGDTLPLWHEELEPQ  167 (184)
Q Consensus       151 ~~~~~~~~~~~~~~~~~  167 (184)
                      .+++++++.+++++..+
T Consensus       222 ~~~~~ei~~~~~~~~~~  238 (242)
T 1ryp_E          222 IYDNEKTAELIKELKEK  238 (242)
T ss_dssp             ECCHHHHHHHHHHHHHH
T ss_pred             ECCHHHHHHHHHHHhhh
Confidence            69999999999877543

>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=3.3e-36  Score=240.47  Aligned_cols=153  Identities=20%  Similarity=0.255  Sum_probs=145.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLG-QPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~-~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~   79 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++ ++++++.+|+++++.+|.+| +||+|++||||||++++|+||.+||
T Consensus        49 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~P~~v~~ivaG~D~~g~p~Ly~~dp  127 (222)
T 1ryp_M           49 NIVMSA-NGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDP  127 (222)
T ss_dssp             TEEEEE-EESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECT
T ss_pred             CEEEEc-cccHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEcCCCCeEEEEECC
Confidence            799999 99999999999999999999999999 99999999999999999875 6999999999999876799999999


Q ss_pred             CCceeeeCeEEEecChhhHHHHhhhh-----------------hcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           80 GGTIIEQPFAIGGSGSSYLYGFFDQA-----------------WKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        80 ~G~~~~~~~~a~G~gs~~a~~~Le~~-----------------~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +|++.++++.|+|+|+++++++||+.                 |+++||.+||++++++||..+.+||..++++++|++|
T Consensus       128 ~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi  207 (222)
T 1ryp_M          128 VGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIV  207 (222)
T ss_dssp             TSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEE
T ss_pred             CcCEEecCEEEEcCcHHHHHHHHhcccccccccccccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEE
Confidence            99999999999999999999999998                 8899999999999999999999999999999999999


Q ss_pred             eCCCcEEEeecCC
Q 029964          143 NSEGVSRKFYPGD  155 (184)
Q Consensus       143 tkdg~~~~~~~~~  155 (184)
                      +++|++++.++..
T Consensus       208 ~~~g~~~~~~~~r  220 (222)
T 1ryp_M          208 TKDGVRKEFYELK  220 (222)
T ss_dssp             ETTEEEEEEEECC
T ss_pred             cCCCeEEEEeecc
Confidence            9999987766554

>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=2.7e-37  Score=248.34  Aligned_cols=163  Identities=16%  Similarity=0.147  Sum_probs=152.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHH-----HhCCCCCHHHHHHHHHHHHHcCC---CceeEEEEEEEEeCCCCcE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTI-----QLGQPATVKVAANLVRLLSYNNK---NFLQTGMIVGGWDKYEGGK   73 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~-----~~~~~i~~~~la~~is~~~~~~r---~p~~vs~iiaG~D~~~gp~   73 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++     +++++++++.+|+++++++|.+|   +||+|++||||||+++||+
T Consensus        48 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~  126 (233)
T 1ryp_N           48 NTVVGI-SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQF  126 (233)
T ss_dssp             TEEEEE-EEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEE
T ss_pred             CEEEEc-cccHHHHHHHHHHHHHHHHHHhhccchhhcCCCCCHHHHHHHHHHHHHHhcCCCCCceEEEEEEEEcCCCCEE
Confidence            799999 99999999999999999999999     99999999999999999998754   7999999999999866999


Q ss_pred             EEEECCCCceeeeCeEEEecChhhHHHHhhhhhcC-----CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC-Cc
Q 029964           74 IYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE-----GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE-GV  147 (184)
Q Consensus        74 Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~-----~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd-g~  147 (184)
                      ||.+||+|++.++++.|+|+|+++++++||+.|++     +||++||++++++||..+.+||..++++++|++|+++ |+
T Consensus       127 Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~  206 (233)
T 1ryp_N          127 LRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGL  206 (233)
T ss_dssp             EEEEETTCCEECCSEEECTHHHHHHHHHHTTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEE
T ss_pred             EEEECCCcCeEEcCEEEECcCHHHHHHHHHHhhccccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCe
Confidence            99999999999999999999999999999999999     9999999999999999999999999999999999999 76


Q ss_pred             EEEeecCCCCchh-hhhcCCh
Q 029964          148 SRKFYPGDTLPLW-HEELEPQ  167 (184)
Q Consensus       148 ~~~~~~~~~~~~~-~~~~~~~  167 (184)
                      +  .+++++++.+ |+..+..
T Consensus       207 ~--~~~~~~i~~~~w~~~~~~  225 (233)
T 1ryp_N          207 T--FKKNLQVENMKWDFAKDI  225 (233)
T ss_dssp             E--EEEEEECCSCCCGGGGGC
T ss_pred             E--EcChHhcccccchhhhhc
Confidence            5  4888899998 8665543

>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=3.1e-37  Score=251.97  Aligned_cols=164  Identities=17%  Similarity=0.203  Sum_probs=154.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++++++++|++.+|+++++++|.+     +|||+|++||||||+.+||+||.
T Consensus        71 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~  149 (261)
T 1iru_C           71 DMACSV-AGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQ  149 (261)
T ss_dssp             SEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEE
T ss_pred             CEEEEE-eEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEE
Confidence            799999 999999999999999999999999999999999999999999865     36999999999999756999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcC-CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcE--EEeec
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE-GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVS--RKFYP  153 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~-~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~--~~~~~  153 (184)
                      +||+|++.++++.|+|+|+++++++||+.|++ +||.+||++++++||..+.++|..++++++|++|+++|..  .+.++
T Consensus       150 idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~  229 (261)
T 1iru_C          150 SDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLK  229 (261)
T ss_dssp             EETTTEEEECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECC
T ss_pred             ECCCceEEeeeeEEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECC
Confidence            99999999999999999999999999999999 9999999999999999999999999999999999999863  45699


Q ss_pred             CCCCchhhhhcCC
Q 029964          154 GDTLPLWHEELEP  166 (184)
Q Consensus       154 ~~~~~~~~~~~~~  166 (184)
                      ++|++.+++++.+
T Consensus       230 ~~ei~~~l~~~~~  242 (261)
T 1iru_C          230 QKEVEQLIKKHEE  242 (261)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999987744

>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=6.1e-37  Score=244.03  Aligned_cols=161  Identities=17%  Similarity=0.141  Sum_probs=151.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHH-HhCCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeCCCCcEEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTI-QLGQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDKYEGGKIYGV   77 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~-~~~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~~~gp~Ly~i   77 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++ +++++++++.+|+++++++|.+   .|||+|++||||+|+. ||+||.+
T Consensus        48 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~-gp~Ly~i  125 (219)
T 1iru_N           48 STMLGA-SGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADG-ESFLGYV  125 (219)
T ss_dssp             TEEEEE-EEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETT-EEEEEEE
T ss_pred             CEEEEe-ccCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEECC-CCEEEEE
Confidence            799999 99999999999999999999998 9999999999999999999865   4799999999999984 9999999


Q ss_pred             CCCCceeeeCeEEEecChhhHHHHhhhhhcC--CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCC
Q 029964           78 PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE--GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGD  155 (184)
Q Consensus        78 d~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~--~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~  155 (184)
                      ||+|++.++++.|+|+|+++++++||+.|++  +||.+||++++++||..+.+||..++++++|++|+++|++  .++++
T Consensus       126 d~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g~~--~~~~~  203 (219)
T 1iru_N          126 DMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVE--IEGPL  203 (219)
T ss_dssp             CSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEE--EEEEE
T ss_pred             CCCCCeEECCeEEECccHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCEE--EcCCe
Confidence            9999999999999999999999999999999  9999999999999999999999999999999999999954  48889


Q ss_pred             CCchhhhhcCC
Q 029964          156 TLPLWHEELEP  166 (184)
Q Consensus       156 ~~~~~~~~~~~  166 (184)
                      +++..|+..+-
T Consensus       204 ~i~~~~~~~~~  214 (219)
T 1iru_N          204 STETNWDIAHM  214 (219)
T ss_dssp             CCCCCCGGGGC
T ss_pred             eccchhhHHHh
Confidence            99988865543

>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=5.9e-37  Score=246.28  Aligned_cols=158  Identities=10%  Similarity=0.134  Sum_probs=149.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.|     .|||+|++||||||+ +||+||.
T Consensus        70 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~-~gp~Ly~  147 (233)
T 1iru_B           70 HIGLVY-SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNE-GRPYLFQ  147 (233)
T ss_dssp             SEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECS-SSEEEEE
T ss_pred             CEEEEE-EEccHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeC-CCCeEEE
Confidence            799999 999999999999999999999999999999999999999999654     369999999999996 5899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+|| .++++++|++|+++|.  +.++++|
T Consensus       148 id~~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d-~sg~~i~v~vi~~~g~--~~l~~~e  224 (233)
T 1iru_B          148 SDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQ-MTEDNIEVGICNEAGF--RRLTPTE  224 (233)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSC-CCSSSEEEEEEETTEE--EECCHHH
T ss_pred             ECCCCCEEEeeEEEECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhcc-CCCCCEEEEEEECCCE--EECCHHH
Confidence            999999999999999999999999999999999999999999999999999999 6689999999999994  4589999


Q ss_pred             Cchhhhhc
Q 029964          157 LPLWHEEL  164 (184)
Q Consensus       157 ~~~~~~~~  164 (184)
                      ++.+++++
T Consensus       225 i~~~~~~~  232 (233)
T 1iru_B          225 VKDYLAAI  232 (233)
T ss_dssp             HHHHHTTC
T ss_pred             HHHHHHhc
Confidence            99998764

>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=9.3e-36  Score=234.71  Aligned_cols=154  Identities=20%  Similarity=0.236  Sum_probs=144.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeC-CCCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDK-YEGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~-~~gp~Ly~id~   79 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+| .||+|++||||||+ ++||+||.+||
T Consensus        47 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~~~~P~~v~~lvaG~D~~~~gp~Ly~idp  125 (204)
T 1ryp_J           47 HVFLGI-TGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDL  125 (204)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECT
T ss_pred             CEEEEe-eEcHHHHHHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCceEEEEECC
Confidence            799999 9999999999999999999999999999999999999999998765 49999999999996 46899999999


Q ss_pred             CCceeee-CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           80 GGTIIEQ-PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        80 ~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +|++.++ .+.|+|+|+++++++||+.|+++||++||++++++||..+.+||..++++++|++|+++|++++.++...
T Consensus       126 ~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~~~~r~  203 (204)
T 1ryp_J          126 IGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAVVYIIKKDEVVKRYLKMRQ  203 (204)
T ss_dssp             TCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEEEEECCCC
T ss_pred             CCCccccCceeEeccCHHHHHHHHhhhcCCCcCHHHHHHHHHHHHHHHHHhCcccCCcEEEEEEcCCCEEEEEeecCC
Confidence            9999665 6799999999999999999999999999999999999999999999999999999999999887776543

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

Probab=100.00  E-value=1.3e-36  Score=248.81  Aligned_cols=162  Identities=15%  Similarity=0.237  Sum_probs=152.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.||++.+++++|.+++.|+++++++++++.+|+++++++|.+     .|||+|++||||||+ +||+||.
T Consensus        77 ~i~~~~-aG~~aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~-~gp~Ly~  154 (264)
T 3h4p_A           77 HVAAAT-SGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDK-NEARLFE  154 (264)
T ss_dssp             TEEEEE-EECSHHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEET-TEEEEEE
T ss_pred             cEEEEe-ccchHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeC-CcCEEEE
Confidence            799999 999999999999999999999999999999999999999998765     369999999999997 5999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +||+|++.+++++|+|+|+++++++||+.|+++||++||++++++||..+.++  .++++++|++|++++..++.+++++
T Consensus       155 iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~--~sg~~iev~vi~~~~~~~~~l~~~e  232 (264)
T 3h4p_A          155 TDPSGALIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED--IKPENVDVCIITVKDAQFKKIPVEE  232 (264)
T ss_dssp             ECTTCCCEEESEEEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS--CCTTSEEEEEEETTTTEEEECCTTT
T ss_pred             ECCCceEEecCeEEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc--cCCCeEEEEEEEeCCCcEEECCHHH
Confidence            99999999999999999999999999999999999999999999999999987  6889999999999877677899999


Q ss_pred             CchhhhhcCCh
Q 029964          157 LPLWHEELEPQ  167 (184)
Q Consensus       157 ~~~~~~~~~~~  167 (184)
                      ++.+++++...
T Consensus       233 i~~~~~~~~~~  243 (264)
T 3h4p_A          233 IKKLIEKVKKK  243 (264)
T ss_dssp             TGGGTTTTTTS
T ss_pred             HHHHHHHHHHh
Confidence            99999887654

>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=7.9e-36  Score=235.28  Aligned_cols=154  Identities=19%  Similarity=0.256  Sum_probs=144.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeC-CCCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDK-YEGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~-~~gp~Ly~id~   79 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+|+++++++|.+| .||+|++|+||||+ ++||+||.+||
T Consensus        48 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~~~~p~Ly~idp  126 (205)
T 1iru_J           48 RLYIGL-AGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDL  126 (205)
T ss_dssp             TEEEEC-CSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEECT
T ss_pred             CEEEEc-cccHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCCeEEEEECC
Confidence            799999 9999999999999999999999999999999999999999998865 49999999999996 46999999999


Q ss_pred             CCceeee-CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           80 GGTIIEQ-PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        80 ~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +|++.++ .+.|+|+|+++++++||+.|+++||++||++++++||..+.+||..++++++|++|+++|++++.++...
T Consensus       127 ~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~~~~r~  204 (205)
T 1iru_J          127 IGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKITTRTLKARM  204 (205)
T ss_dssp             TCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEEEEEBCCCC
T ss_pred             CCCccccCCeeEeeeCHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHhCcccCCceEEEEEcCCCEEEEEeecCC
Confidence            9999665 6699999999999999999999999999999999999999999999999999999999999887776543

>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=4.4e-36  Score=245.20  Aligned_cols=145  Identities=23%  Similarity=0.315  Sum_probs=141.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+++++++.+|.+++||++++||||||++ ||+||.+||+|
T Consensus        69 ~i~~~~-aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~~~~gv~llvaG~D~~-Gp~Ly~iDp~G  146 (261)
T 3nzj_H           69 KIWCAG-AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPT-GSHLFSIHAHG  146 (261)
T ss_dssp             TEEEEE-EESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEETT-EEEEEEECTTS
T ss_pred             CEEEEe-ccCHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHHhcCcccEEEEEEEEeCC-CCEEEEECCCc
Confidence            799999 9999999999999999999999999999999999999999999999999999999999984 89999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcE
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVS  148 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~  148 (184)
                      ++.++++.|+|+|+++++++||+.|+++||++||++++++||..+.+||..++++++|++|+++|+.
T Consensus       147 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~  213 (261)
T 3nzj_H          147 STDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDA  213 (261)
T ss_dssp             CEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCE
T ss_pred             cEEecCeEEeccchHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcE
Confidence            9999999999999999999999999999999999999999999999999999999999999999954

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D

Probab=100.00  E-value=1.1e-36  Score=245.86  Aligned_cols=159  Identities=17%  Similarity=0.215  Sum_probs=149.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC----------CCceeEEEEEEEEeCCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN----------KNFLQTGMIVGGWDKYEG   71 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~----------r~p~~vs~iiaG~D~~~g   71 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+|+++++++|.+          +|||+|++||||||+ +|
T Consensus        73 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~-~g  150 (241)
T 1iru_E           73 HIGCAM-SGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDE-KG  150 (241)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEET-TE
T ss_pred             CEEEEE-eeChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeC-CC
Confidence            799999 999999999999999999999999999999999999999998654          469999999999995 69


Q ss_pred             cEEEEECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEe
Q 029964           72 GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKF  151 (184)
Q Consensus        72 p~Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~  151 (184)
                      |+||.+||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+| ..++++++|++|+++|+ ++.
T Consensus       151 p~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~-~~~  228 (241)
T 1iru_E          151 PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEE-KLNATNIELATVQPGQN-FHM  228 (241)
T ss_dssp             EEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEECSSSC-CEE
T ss_pred             CEEEEECCCCcEEecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCCEEEEEEECCCC-eEE
Confidence            9999999999999999999999999999999999999999999999999999999999 66799999999999998 456


Q ss_pred             ecCCCCchhhhhc
Q 029964          152 YPGDTLPLWHEEL  164 (184)
Q Consensus       152 ~~~~~~~~~~~~~  164 (184)
                      ++++|++.+++++
T Consensus       229 l~~~ei~~~~~~~  241 (241)
T 1iru_E          229 FTKEELEEVIKDI  241 (241)
T ss_dssp             CCHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHhC
Confidence            9999999988753

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A

Probab=100.00  E-value=1.6e-36  Score=243.74  Aligned_cols=155  Identities=18%  Similarity=0.258  Sum_probs=145.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+     +|||+|++||||||+ +||+||.
T Consensus        73 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~-~gp~Ly~  150 (233)
T 1yar_A           73 YVAAVT-SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQ-IGPRLFD  150 (233)
T ss_dssp             TEEEEE-EEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECS-SCEEEEE
T ss_pred             CEEEEE-eeCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeC-CCCEEEE
Confidence            799999 999999999999999999999999999999999999999999865     369999999999998 5999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.++|. ++++++|++|+++|.. +.++++|
T Consensus       151 id~~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~-s~~~i~v~vi~~~~~~-~~~~~~e  228 (233)
T 1yar_A          151 CDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKY-RIYDQEE  228 (233)
T ss_dssp             ECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCC-EECCHHH
T ss_pred             ECCCCCEEeeeEEEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEECCCCE-EECCHHH
Confidence            9999999999999999999999999999999999999999999999999999998 6899999999999953 4588887


Q ss_pred             Cchh
Q 029964          157 LPLW  160 (184)
Q Consensus       157 ~~~~  160 (184)
                      ++.+
T Consensus       229 i~~~  232 (233)
T 1yar_A          229 VKKF  232 (233)
T ss_dssp             HHTT
T ss_pred             HHhh
Confidence            7665

>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=3.7e-36  Score=242.07  Aligned_cols=158  Identities=23%  Similarity=0.387  Sum_probs=147.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+++++++.+|.+++||++++||||||+ +||+||.+||+|
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~~~~v~llvaG~D~-~gp~Ly~idp~G  117 (234)
T 1iru_I           40 NIYCCG-AGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDV-TGPHLYSIYPHG  117 (234)
T ss_dssp             TEEEEE-EESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEECS-SCEEEEEECTTS
T ss_pred             CEEEEe-cCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceeEEEEEEcC-CCCEEEEECCCC
Confidence            799999 999999999999999999999999999999999999999999999999999999999998 589999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchhh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWH  161 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~~  161 (184)
                      ++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|++.  +.+.+++.-|
T Consensus       118 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~a~~~d~~sg~~i~v~vi~k~g~~~--~~~~~~~~~~  195 (234)
T 1iru_I          118 STDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDF--LRPYTVPNKK  195 (234)
T ss_dssp             CEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEETTEEEC--CSEEECCCCC
T ss_pred             CEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCcEEE--EcceecCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999753  4444444445


Q ss_pred             hh
Q 029964          162 EE  163 (184)
Q Consensus       162 ~~  163 (184)
                      ..
T Consensus       196 ~~  197 (234)
T 1iru_I          196 GT  197 (234)
T ss_dssp             CC
T ss_pred             cc
Confidence            44

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E

Probab=100.00  E-value=3.2e-36  Score=246.34  Aligned_cols=161  Identities=14%  Similarity=0.175  Sum_probs=151.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+     +|||+|++||||||+ +||+||.
T Consensus        69 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~-~gp~Ly~  146 (263)
T 1iru_F           69 HIGISI-AGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDD-MGPHIFQ  146 (263)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEE
T ss_pred             CEEEEE-eCCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcC-CCCEEEE
Confidence            799999 999999999999999999999999999999999999999999743     579999999999998 5899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcC--CCCHHHHHHHHHHHHHHHHHhc-CCCCCeEEEEEEeCCCcEEEeec
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE--GMTKEEAEQLVVKAVSLAIARD-GASGGVVRTVTINSEGVSRKFYP  153 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~--~~s~~eai~l~~~~l~~~~~rd-~~s~~~iev~iitkdg~~~~~~~  153 (184)
                      +||+|++.+++++|+|+|+++++++||+.|++  +||++||++++++||..+.+|| ..++++++|++|++++.. +.++
T Consensus       147 idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~-~~l~  225 (263)
T 1iru_F          147 TCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEF-TIYD  225 (263)
T ss_dssp             ECSSSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEE-EEEC
T ss_pred             ECCCCCEEEeeEEEcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCe-EECC
Confidence            99999999999999999999999999999998  9999999999999999999999 478899999999999543 4699


Q ss_pred             CCCCchhhhhcC
Q 029964          154 GDTLPLWHEELE  165 (184)
Q Consensus       154 ~~~~~~~~~~~~  165 (184)
                      +++++.+++++.
T Consensus       226 ~~ei~~~~~~~~  237 (263)
T 1iru_F          226 DDDVSPFLEGLE  237 (263)
T ss_dssp             SGGGHHHHTTCC
T ss_pred             HHHHHHHHHHHh
Confidence            999999998885

>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=2e-36  Score=247.93  Aligned_cols=162  Identities=16%  Similarity=0.152  Sum_probs=152.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHH-----HhCCCCCHHHHHHHHHHHHHcCC---CceeEEEEEEEEeCCCCcE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTI-----QLGQPATVKVAANLVRLLSYNNK---NFLQTGMIVGGWDKYEGGK   73 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~-----~~~~~i~~~~la~~is~~~~~~r---~p~~vs~iiaG~D~~~gp~   73 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++     +++++++++.+|+++++++|.+|   +||+|++||||+|+++||+
T Consensus        81 ~i~~~~-aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~  159 (266)
T 1g0u_M           81 NTVVGI-SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQF  159 (266)
T ss_dssp             SEEEEE-EEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEE
T ss_pred             CEEEEe-ccCHHHHHHHHHHHHHHHHHhhhccchhhcCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCEE
Confidence            799999 99999999999999999999998     99999999999999999998764   7999999999999866999


Q ss_pred             EEEECCCCceeeeCeEEEecChhhHHHHhhhhhcC-----CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC-Cc
Q 029964           74 IYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE-----GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE-GV  147 (184)
Q Consensus        74 Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~-----~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd-g~  147 (184)
                      ||.+||+|++.++++.|+|+|+++++++||+.|++     +||++||++++++||..+.+||..++++++|++|+++ |+
T Consensus       160 Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~  239 (266)
T 1g0u_M          160 LRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGL  239 (266)
T ss_dssp             EEEEETTCCEECCSEEECTHHHHTHHHHHTTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEE
T ss_pred             EEEECCCCCEEeCCEEEEccCHHHHHHHHHHhhcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCe
Confidence            99999999999999999999999999999999999     9999999999999999999999999999999999999 76


Q ss_pred             EEEeecCCCCchh-hhhcCC
Q 029964          148 SRKFYPGDTLPLW-HEELEP  166 (184)
Q Consensus       148 ~~~~~~~~~~~~~-~~~~~~  166 (184)
                      +  .+++++++.+ |+..+-
T Consensus       240 ~--~~~~~ei~~~~w~~~~~  257 (266)
T 1g0u_M          240 T--FKKNLQVENMKWDFAKD  257 (266)
T ss_dssp             E--EEEEEECCCCCCGGGGG
T ss_pred             E--EcCHHHhhhhhhhHHhh
Confidence            5  4888899998 866554

>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4

Probab=100.00  E-value=5.5e-36  Score=241.15  Aligned_cols=162  Identities=19%  Similarity=0.162  Sum_probs=150.8

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC----CCceeEEEEEEEEeCCCC-----c
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN----KNFLQTGMIVGGWDKYEG-----G   72 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~----r~p~~vs~iiaG~D~~~g-----p   72 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+.+++++|.+    .|||+|++||||||+++|     |
T Consensus        40 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~rp~~v~~lvaG~D~~~g~~~~~p  118 (235)
T 1q5q_H           40 YSAAGI-AGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAG  118 (235)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCE
T ss_pred             cEEEEc-CCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHHHHHHHHHHHHHHhhhcccceEEEEEEEECCCCccCCCC
Confidence            799999 999999999999999999999999999999999999999999875    479999999999998657     9


Q ss_pred             EEEEECCCCceeee--CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCe--E-----EEEEEe
Q 029964           73 KIYGVPLGGTIIEQ--PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGV--V-----RTVTIN  143 (184)
Q Consensus        73 ~Ly~id~~G~~~~~--~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~--i-----ev~iit  143 (184)
                      +||.+||+|+++++  ++.|+|+|+++++++||+.|+++||++||++++++||..+.++|..+++.  +     +|++|+
T Consensus       119 ~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~  198 (235)
T 1q5q_H          119 RIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTIT  198 (235)
T ss_dssp             EEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEE
T ss_pred             EEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEe
Confidence            99999999999999  99999999999999999999999999999999999999999999987752  2     999999


Q ss_pred             CCCcEEEeecCCCCchhhhhcCC
Q 029964          144 SEGVSRKFYPGDTLPLWHEELEP  166 (184)
Q Consensus       144 kdg~~~~~~~~~~~~~~~~~~~~  166 (184)
                      ++|+++  +++++++.+++++..
T Consensus       199 ~~g~~~--l~~~ei~~~~~~~~~  219 (235)
T 1q5q_H          199 QAGAVH--VSEETTSELARRIVA  219 (235)
T ss_dssp             TTEEEE--CCHHHHHHHHHHHHH
T ss_pred             CCCeEE--eCHHHHHHHHHHHHH
Confidence            998654  899999999987744

>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=2e-36  Score=246.33  Aligned_cols=161  Identities=12%  Similarity=0.070  Sum_probs=150.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-----CceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-----NFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-----~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++++++++|++.+|+++++++|.++     |||+|++||||||+.+||+||.
T Consensus        72 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~  150 (254)
T 1iru_G           72 HVGMAV-AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYM  150 (254)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEE
T ss_pred             CEEEEE-ecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEE
Confidence            899999 9999999999999999999999999999999999999999998763     7999999999999556999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC--CcEEEeecC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE--GVSRKFYPG  154 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd--g~~~~~~~~  154 (184)
                      +||+|++.+++++|+|+|+++++++||+.|+++||++||++++++||..+.++|..++.+++|++|+++  |. ++.+++
T Consensus       151 idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~-~~~l~~  229 (254)
T 1iru_G          151 IDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGR-HEIVPK  229 (254)
T ss_dssp             ECTTCCEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTC-CEECCH
T ss_pred             EcCCCCEEeeeeEEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCC-eEECCH
Confidence            999999999999999999999999999999999999999999999999999888777889999999988  63 345899


Q ss_pred             CCCchhhhhc
Q 029964          155 DTLPLWHEEL  164 (184)
Q Consensus       155 ~~~~~~~~~~  164 (184)
                      ++++.+++.+
T Consensus       230 ~~i~~~~~~~  239 (254)
T 1iru_G          230 DIREEAEKYA  239 (254)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998765

>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C* 1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C* 3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C* 3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ...

Probab=100.00  E-value=7.6e-36  Score=241.00  Aligned_cols=161  Identities=15%  Similarity=0.199  Sum_probs=150.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCC-CCcEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKY-EGGKIY   75 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~-~gp~Ly   75 (184)
                      ||+|++ ||..||++.+++++|.+++.|+++++++++++.+|+++++++|.+     +|||+|++||||||+. +||+||
T Consensus        68 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly  146 (241)
T 1ryp_D           68 HVVLSF-SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLY  146 (241)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEE
T ss_pred             CEEEEE-eecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEE
Confidence            799999 999999999999999999999999999999999999999999865     3699999999999984 699999


Q ss_pred             EECCCCceeeeCeEEEecChhhHHHHhhhhh---cCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEee
Q 029964           76 GVPLGGTIIEQPFAIGGSGSSYLYGFFDQAW---KEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFY  152 (184)
Q Consensus        76 ~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~---~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~  152 (184)
                      .+||+|++.++++.|+|+|+++++++||+.|   +++||++||++++++||..+.+   .++++++|++|+++|.. +.+
T Consensus       147 ~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~---~sg~~i~v~vi~~~~~~-~~l  222 (241)
T 1ryp_D          147 QTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ---TGAKNIEITVVKPDSDI-VAL  222 (241)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC---SCSTTEEEEEEETTTEE-EEC
T ss_pred             EECCCCCEEEeeeEEECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc---CCCCcEEEEEEECCCcE-EEC
Confidence            9999999999999999999999999999999   9999999999999999999986   67889999999999853 569


Q ss_pred             cCCCCchhhhhcCCh
Q 029964          153 PGDTLPLWHEELEPQ  167 (184)
Q Consensus       153 ~~~~~~~~~~~~~~~  167 (184)
                      ++++++.+++++...
T Consensus       223 ~~~ei~~~~~~~~~~  237 (241)
T 1ryp_D          223 SSEEINQYVTQIEQE  237 (241)
T ss_dssp             CHHHHHHHHHHHTHH
T ss_pred             CHHHHHHHHHHHhhh
Confidence            999999999887543

>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=2.3e-35  Score=231.93  Aligned_cols=147  Identities=19%  Similarity=0.265  Sum_probs=139.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH-Hc-C-CCceeEEEEEEEEeCCCCcEEEEEC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-YN-N-KNFLQTGMIVGGWDKYEGGKIYGVP   78 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~-~~-~-r~p~~vs~iiaG~D~~~gp~Ly~id   78 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++.+ |. + ++||+|++|+||||+++||+||.+|
T Consensus        41 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~~~~~l~~~~~~~~p~~~~~lvaG~D~~~gp~Ly~id  119 (201)
T 1iru_K           41 KILLLC-VGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMD  119 (201)
T ss_dssp             SEEEEE-EESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEEC
T ss_pred             CEEEEe-CcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHhcCCCccEEEEEEEEeCCCCeEEEEEC
Confidence            799999 999999999999999999999999999999999999998765 43 2 4699999999999986699999999


Q ss_pred             CCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           79 LGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        79 ~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      |+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|+++
T Consensus       120 ~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~a~~rd~~sg~~i~v~vi~~~g~~~  190 (201)
T 1iru_K          120 YLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVRIIDKNGIHD  190 (201)
T ss_dssp             TTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEEETTEEEC
T ss_pred             CCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhhccccCCceEEEEEcCCCeEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999875

>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=7.1e-36  Score=240.08  Aligned_cols=156  Identities=17%  Similarity=0.240  Sum_probs=145.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..||++.+++++|.+++.|++++++++|++.+|+++++++|.+     +|||+|++||||||+ +||+||.
T Consensus        68 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~-~gp~Ly~  145 (233)
T 1ryp_F           68 HMGLSL-AGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDK-SGAHLLE  145 (233)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEE
T ss_pred             CEEEEE-EechHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeC-CcCEEEE
Confidence            899999 999999999999999999999999999999999999999999642     579999999999998 5899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcC--CC--CHHHHHHHHHHHHHHHHHhc-CCCCCeEEEEEEeCCCcEEEe
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE--GM--TKEEAEQLVVKAVSLAIARD-GASGGVVRTVTINSEGVSRKF  151 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~--~~--s~~eai~l~~~~l~~~~~rd-~~s~~~iev~iitkdg~~~~~  151 (184)
                      +||+|++.+++++|+|+|+++++++||+.|++  +|  |++||++++++||..+. +| ..++++++|++|++++.. +.
T Consensus       146 idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~~~~~-~~  223 (233)
T 1ryp_F          146 FQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPF-TI  223 (233)
T ss_dssp             ECTTSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEETTEEE-EE
T ss_pred             ECCCCCeeeeeEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEECCCCE-EE
Confidence            99999999999999999999999999999998  99  99999999999999999 78 568999999999999543 45


Q ss_pred             ecCCCCchhh
Q 029964          152 YPGDTLPLWH  161 (184)
Q Consensus       152 ~~~~~~~~~~  161 (184)
                      ++++|++.++
T Consensus       224 l~~~ei~~~l  233 (233)
T 1ryp_F          224 YDGEAVAKYI  233 (233)
T ss_dssp             EEGGGGGGGC
T ss_pred             CCHHHHHhhC
Confidence            8889988764

>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=4.6e-36  Score=243.34  Aligned_cols=162  Identities=17%  Similarity=0.238  Sum_probs=150.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+     +|||+|++||||||+++||+||.
T Consensus        68 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~  146 (248)
T 1iru_D           68 NVCMAF-AGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQ  146 (248)
T ss_dssp             SCEEEE-EECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEE
T ss_pred             CEEEEE-eecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEE
Confidence            799999 999999999999999999999999999999999999999999765     36999999999999556999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCC--CHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGM--TKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPG  154 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~--s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~  154 (184)
                      +||+|++.+++++|+|+|+++++++||+.|+++|  |++||++++++||..+.+   .++++++|++|+++|.. +.+++
T Consensus       147 idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~---~sg~~i~v~vi~~~g~~-~~l~~  222 (248)
T 1iru_D          147 TDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ---SGGKNIELAVMRRDQSL-KILNP  222 (248)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC---TTSTTCCEEEEESSSCE-ECCCH
T ss_pred             EcCCCcEEEeeEEEECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc---CCCCcEEEEEEECCCcE-EECCH
Confidence            9999999999999999999999999999999999  999999999999998886   46889999999999953 46999


Q ss_pred             CCCchhhhhcCChh
Q 029964          155 DTLPLWHEELEPQN  168 (184)
Q Consensus       155 ~~~~~~~~~~~~~~  168 (184)
                      ++++.+++++..+.
T Consensus       223 ~ei~~~~~~~~~~~  236 (248)
T 1iru_D          223 EEIEKYVAEIEKEK  236 (248)
T ss_dssp             HHHHHHTTTTTTTT
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999998876543

>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=1.9e-35  Score=239.81  Aligned_cols=162  Identities=10%  Similarity=0.113  Sum_probs=140.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHH-HHc---CCCceeEEEEEEEEeC---CCCcE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLG-QPATVKVAANLVRLL-SYN---NKNFLQTGMIVGGWDK---YEGGK   73 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~-~~i~~~~la~~is~~-~~~---~r~p~~vs~iiaG~D~---~~gp~   73 (184)
                      ||+|++ +|+.+|++.+.+.++.+++.|++.++ .+++++.+|+++++. .+.   .+|||+|++||||||+   .+||+
T Consensus        59 ~i~~~~-aG~~aD~~~l~~~~~~~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~gv~~liaG~D~~~~~~gp~  137 (248)
T 3mi0_A           59 RVGFAA-AGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRPE  137 (248)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCTTCCCCCE
T ss_pred             CEEEEE-ccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCCCCCE
Confidence            899999 99999999999999999999999999 899999999999954 332   3689999999999998   36999


Q ss_pred             EEEECCCCceee-eCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHH-------HhcCCCCCeEEEEEEeCC
Q 029964           74 IYGVPLGGTIIE-QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAI-------ARDGASGGVVRTVTINSE  145 (184)
Q Consensus        74 Ly~id~~G~~~~-~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~-------~rd~~s~~~iev~iitkd  145 (184)
                      ||++||+|++.+ ++++|+|+|+++++++||++|+++||++||++++++||..+.       +++ .++++++|++|+++
T Consensus       138 Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~~Le~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~-~~~~~iev~vv~~~  216 (248)
T 3mi0_A          138 LYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDALRIAVAALRAGSADTSGGDQPT-LGVASLEVAVLDAN  216 (248)
T ss_dssp             EEEECTTSCEEEESSEEEESSCHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC-------------CCTTEEEEEEETT
T ss_pred             EEEECCCeEEeecccEEEECccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcccCcccc-cCCCcEEEEEEECC
Confidence            999999999995 999999999999999999999999999999999999999999       565 45789999999999


Q ss_pred             Cc--EEEeecCCCCchhhhhcC
Q 029964          146 GV--SRKFYPGDTLPLWHEELE  165 (184)
Q Consensus       146 g~--~~~~~~~~~~~~~~~~~~  165 (184)
                      |+  .++.++++|++.++++++
T Consensus       217 g~~~~f~~l~~~ei~~~l~~~~  238 (248)
T 3mi0_A          217 RPRRAFRRITGSALQALLVDQE  238 (248)
T ss_dssp             SSSCCEEECCHHHHHHTC----
T ss_pred             CCcccEEECCHHHHHHHHHHcC
Confidence            74  345699999999988764

>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=3.6e-35  Score=237.75  Aligned_cols=159  Identities=18%  Similarity=0.208  Sum_probs=148.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.|     .|||+|++||||||  +||+||.
T Consensus        73 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D--~gp~Ly~  149 (246)
T 1j2p_A           73 HICAAT-SGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN--EVPKLYE  149 (246)
T ss_dssp             SEEEEE-EECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES--SSEEEEE
T ss_pred             CEEEEE-eEccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC--CCCEEEE
Confidence            799999 999999999999999999999999999999999999999999754     36999999999999  5999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEe-CCCcEEEeecCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTIN-SEGVSRKFYPGD  155 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iit-kdg~~~~~~~~~  155 (184)
                      +||+|++.++++.|+|+|+++++++||+.|+++||++||++++++||..+.++ ..++++++|++|+ +++.. +.++++
T Consensus       150 idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~-~~l~~~  227 (246)
T 1j2p_A          150 TDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIES-ELVPENIEVGYVKVDDRTF-KEVSPE  227 (246)
T ss_dssp             ECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTS-CCCGGGEEEEEEETTTCCC-EECCHH
T ss_pred             ECCCceEEeeeEEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEEcCCCce-EECCHH
Confidence            99999999999999999999999999999999999999999999999999998 7788999999999 65433 459999


Q ss_pred             CCchhhhhcC
Q 029964          156 TLPLWHEELE  165 (184)
Q Consensus       156 ~~~~~~~~~~  165 (184)
                      +++.+++++.
T Consensus       228 ei~~~~~~~~  237 (246)
T 1j2p_A          228 ELKPYVERAN  237 (246)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999997763

>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=1.4e-34  Score=234.07  Aligned_cols=152  Identities=17%  Similarity=0.183  Sum_probs=142.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+     +|||+|++||||||+ +||+||.
T Consensus        69 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~-~gp~Ly~  146 (244)
T 1ryp_G           69 HIGCVY-SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYM  146 (244)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEE
T ss_pred             CEEEEE-cccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeC-CcCEEEE
Confidence            899999 999999999999999999999999999999999999999999654     379999999999997 5999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhh---hcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeC---CCcEEE
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQA---WKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINS---EGVSRK  150 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~---~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitk---dg~~~~  150 (184)
                      +||+|++.++++.|+|+|+++++++||+.   |+++||++||++++++||..+.++|..++.+++|++|++   +|+++ 
T Consensus       147 idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~-  225 (244)
T 1ryp_G          147 LEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHK-  225 (244)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEE-
T ss_pred             ECCCCCEEEeeEEEECCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeee-
Confidence            99999999999999999999999999997   999999999999999999999999999999999999998   78764 


Q ss_pred             eecCCCC
Q 029964          151 FYPGDTL  157 (184)
Q Consensus       151 ~~~~~~~  157 (184)
                       +.++++
T Consensus       226 -~~~~~~  231 (244)
T 1ryp_G          226 -FVKGDL  231 (244)
T ss_dssp             -ECCTHH
T ss_pred             -eChHHH
Confidence             334443

>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=4.8e-35  Score=242.05  Aligned_cols=155  Identities=19%  Similarity=0.179  Sum_probs=144.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|+++++++++++.+|+++++++|.|     +|||+|++||||||+ +||+||+
T Consensus        73 ~i~~~~-aG~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~-~Gp~Ly~  150 (288)
T 3nzj_F           73 HIGCVY-SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYM  150 (288)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEE
T ss_pred             CEEEEe-cCcHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeC-CCCEEEE
Confidence            899999 999999999999999999999999999999999999999999765     369999999999999 4899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhh---hcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeC--CCcEEEe
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQA---WKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINS--EGVSRKF  151 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~---~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitk--dg~~~~~  151 (184)
                      +||+|++.+++++|+|+|+++++++||+.   |+++||++||++++++||..+.++|..++.+++|+||++  ++..++.
T Consensus       151 iDp~G~~~~~~~~aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~~~~~~~~~~  230 (288)
T 3nzj_F          151 LEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKF  230 (288)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEETTTSTTCCEE
T ss_pred             ECCCCCEEEcCEEEEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEecCCCceEEE
Confidence            99999999999999999999999999999   999999999999999999999999988888999999999  4545556


Q ss_pred             ecCCCCc
Q 029964          152 YPGDTLP  158 (184)
Q Consensus       152 ~~~~~~~  158 (184)
                      +|.+.++
T Consensus       231 vp~~~~~  237 (288)
T 3nzj_F          231 VKGDLLQ  237 (288)
T ss_dssp             CCHHHHH
T ss_pred             CCHHHHH
Confidence            7666544

>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=6.1e-35  Score=236.95  Aligned_cols=161  Identities=16%  Similarity=0.234  Sum_probs=146.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHH-HHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQ-HTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIY   75 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~-~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly   75 (184)
                      ||+|++ ||..+|++.+++++|.+++. |+..++.+++++.+++.++++++.+     .|||+|++||||||+.+||+||
T Consensus        70 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly  148 (250)
T 1ryp_B           70 DIGAVY-SGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLY  148 (250)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEE
T ss_pred             CEEEEe-eeCHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEE
Confidence            799999 99999999999999999999 9999999999999999999987643     2799999999999986689999


Q ss_pred             EECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCC---------
Q 029964           76 GVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEG---------  146 (184)
Q Consensus        76 ~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg---------  146 (184)
                      .+||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+++. ++++++|++|+++|         
T Consensus       149 ~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~-sg~~i~v~vi~~~~~~~~~~~~~  227 (250)
T 1ryp_B          149 QVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NGDTIELAIIGDENPDLLGYTGI  227 (250)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCC-STTTEEEEEECSCCGGGTSEESC
T ss_pred             EECCCCCEEeeceeEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhcccc-CCCCEEEEEEEcccccccccccc
Confidence            99999999999999999999999999999999999999999999999999999865 68899999999973         


Q ss_pred             -----cEEEeecCCCCchhhhhc
Q 029964          147 -----VSRKFYPGDTLPLWHEEL  164 (184)
Q Consensus       147 -----~~~~~~~~~~~~~~~~~~  164 (184)
                           ..++.++++|++.+++++
T Consensus       228 ~~~~~~~~~~l~~~ei~~~l~~~  250 (250)
T 1ryp_B          228 PTDKGPRFRKLTSQEINDRLEAL  250 (250)
T ss_dssp             SSCCCCSEEECCHHHHHHHHTTC
T ss_pred             ccCCCCCeEECCHHHHHHHHHhC
Confidence                 224568889998887653

>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=1.1e-34  Score=240.60  Aligned_cols=162  Identities=19%  Similarity=0.162  Sum_probs=151.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC----CCceeEEEEEEEEeCCCC-----c
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN----KNFLQTGMIVGGWDKYEG-----G   72 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~----r~p~~vs~iiaG~D~~~g-----p   72 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+++++++|.+    .+||+|++||||||++++     |
T Consensus       105 ~i~~~~-aG~~aD~~~l~~~~r~~~~~y~~~~g~~isv~~la~~la~~l~~~~~~~~rp~~v~lLvaG~D~~~g~~~~~p  183 (294)
T 1q5r_H          105 YSAAGI-AGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAG  183 (294)
T ss_dssp             TEEEEE-EEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHHTTTTCEEEEEEEECTTCSCTTSCE
T ss_pred             cEEEEE-eecHHHHHHHHHHHHHHHHHhhHhhCCCCCHHHHHHHHHHHHHHHHhhhcCCcceEEEEEEEeCCCCcCCCCC
Confidence            799999 999999999999999999999999999999999999999999865    479999999999998656     9


Q ss_pred             EEEEECCCCceeee--CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCe--E-----EEEEEe
Q 029964           73 KIYGVPLGGTIIEQ--PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGV--V-----RTVTIN  143 (184)
Q Consensus        73 ~Ly~id~~G~~~~~--~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~--i-----ev~iit  143 (184)
                      +||.+||+|+++++  ++.|+|+|+++++++||+.|+++||++||++++++||..+.++|..+++.  +     +|++|+
T Consensus       184 ~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~Le~~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~  263 (294)
T 1q5r_H          184 RIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTIT  263 (294)
T ss_dssp             EEEEECSSSCEEECCSSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEE
T ss_pred             EEEEECCCCeEEecCCCeEEEecCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEE
Confidence            99999999999999  99999999999999999999999999999999999999999999987653  5     999999


Q ss_pred             CCCcEEEeecCCCCchhhhhcCC
Q 029964          144 SEGVSRKFYPGDTLPLWHEELEP  166 (184)
Q Consensus       144 kdg~~~~~~~~~~~~~~~~~~~~  166 (184)
                      ++|+++  +++++++.+++++..
T Consensus       264 ~~g~~~--l~~~ei~~~l~~i~~  284 (294)
T 1q5r_H          264 QAGAVH--VSEETTSELARRIVA  284 (294)
T ss_dssp             TTEEEE--CCHHHHHHHHHHHCC
T ss_pred             CCCEEE--cCHHHHHHHHHHHHH
Confidence            999654  899999999987754

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A

Probab=100.00  E-value=8.8e-35  Score=237.30  Aligned_cols=166  Identities=11%  Similarity=0.120  Sum_probs=144.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHH---HHcC-CCceeEEEEEEEEe--C-CCCcE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLG-QPATVKVAANLVRLL---SYNN-KNFLQTGMIVGGWD--K-YEGGK   73 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~-~~i~~~~la~~is~~---~~~~-r~p~~vs~iiaG~D--~-~~gp~   73 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|++.++ ++++++.+|++++++   .|.+ .|||+|++||||||  + .+||+
T Consensus        59 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~~v~~lvaG~D~~~~~~gp~  137 (259)
T 1q5q_A           59 RLGFAA-VGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQ  137 (259)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCE
T ss_pred             CEEEEE-ccCHHHHHHHHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcccCCCCCCE
Confidence            899999 99999999999999999999999988 499999999999995   3444 47999999999999  3 46999


Q ss_pred             EEEECCCCcee-eeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHH-----HhcCCCCCeEEEEEEeCCCc
Q 029964           74 IYGVPLGGTII-EQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAI-----ARDGASGGVVRTVTINSEGV  147 (184)
Q Consensus        74 Ly~id~~G~~~-~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~-----~rd~~s~~~iev~iitkdg~  147 (184)
                      ||++||+|++. +++++|+|+|++.++++||+.|+++||++||++++++||..+.     +||. ++++++|++|+++|.
T Consensus       138 Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~-sg~~iev~vi~~~~~  216 (259)
T 1q5q_A          138 LYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNV-DVASLEVAVLDQSRP  216 (259)
T ss_dssp             EEEEETTSCEEEESSEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------C-CSSCSEEEEEETTSS
T ss_pred             EEEECCCCceeeCCCEEEECCChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccC-CCCcEEEEEEECCCC
Confidence            99999999999 8899999999999999999999999999999999999999998     8999 889999999999962


Q ss_pred             --EEEeecCCCCchhhhhcCChhh
Q 029964          148 --SRKFYPGDTLPLWHEELEPQNS  169 (184)
Q Consensus       148 --~~~~~~~~~~~~~~~~~~~~~~  169 (184)
                        ..+.+++++++.+++++....+
T Consensus       217 ~~~~~~l~~~ei~~~~~~~~~~~~  240 (259)
T 1q5q_A          217 RRAFRRIAGTALEQLVPAEPAAAS  240 (259)
T ss_dssp             SCCEEECCHHHHHTTSCCC-----
T ss_pred             cCCeEECCHHHHHHHHHHhhhccc
Confidence              1245899999999988766553

>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=2.9e-34  Score=237.67  Aligned_cols=164  Identities=19%  Similarity=0.189  Sum_probs=141.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC----CceeEEEEEEEEeCCCC-----c
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK----NFLQTGMIVGGWDKYEG-----G   72 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r----~p~~vs~iiaG~D~~~g-----p   72 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++.++.+++++.+|+++++++|.++    +||+|++||||||++++     |
T Consensus        97 ~i~~~~-aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~~~~rpf~v~~lvaG~D~~g~~~~~~p  175 (291)
T 2jay_A           97 YTATGI-AGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASDPQSAG  175 (291)
T ss_dssp             TEEEEE-ESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHHHHHHTCCCEEEEEEECTTCSCSTTCE
T ss_pred             cEEEEE-cccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhhhhccccceeEEEEEEeCCCCcCCCCC
Confidence            799999 9999999999999999999999999999999999999999999873    59999999999998656     9


Q ss_pred             EEEEECCCCcee--eeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCe--E-----EEEEEe
Q 029964           73 KIYGVPLGGTII--EQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGV--V-----RTVTIN  143 (184)
Q Consensus        73 ~Ly~id~~G~~~--~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~--i-----ev~iit  143 (184)
                      +||++||+|+++  ++++.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..+++.  +     +|++|+
T Consensus       176 ~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~v~vi~  255 (291)
T 2jay_A          176 RIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIID  255 (291)
T ss_dssp             EEEEECTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC----------------CCEEEEEE
T ss_pred             EEEEECCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCEEEEEE
Confidence            999999999999  8999999999999999999999999999999999999999999999987753  1     699999


Q ss_pred             CCCcEEEeecCCCCchhhhhcCChh
Q 029964          144 SEGVSRKFYPGDTLPLWHEELEPQN  168 (184)
Q Consensus       144 kdg~~~~~~~~~~~~~~~~~~~~~~  168 (184)
                      ++|+++  +++++++.+++++.++-
T Consensus       256 ~dg~~~--l~~~ei~~~~~~~~~~~  278 (291)
T 2jay_A          256 ADGAVD--VPESRIAELARAIIESR  278 (291)
T ss_dssp             TTEEEE--CCHHHHHHHHHHC----
T ss_pred             CCCeEE--cCHHHHHHHHHHHHHhh
Confidence            998654  89999999998886553

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

Probab=99.93  E-value=1.9e-25  Score=171.31  Aligned_cols=126  Identities=18%  Similarity=0.148  Sum_probs=111.6

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC--CceeEEEEEEEEeCCCCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK--NFLQTGMIVGGWDKYEGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r--~p~~vs~iiaG~D~~~gp~Ly~id~   79 (184)
                      ||+|++ ||..||++.+.+++|.+++.|+.+     .++.++++.+ .+++++  +||++++|++  |   ||+||.+||
T Consensus        41 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~~~l~~-~~~~~~~~~~~~~~~lv~--D---~p~Ly~~d~  108 (171)
T 1m4y_A           41 KVLAGF-AGSVADAMTLFDRFEAKLREWGGN-----LTKAAVELAK-DWRTDRVLRRLEALLLVA--D---KENIFIISG  108 (171)
T ss_dssp             TEEEEE-ESCHHHHHHHHHHHHHHHHHTTTC-----HHHHHHHHHH-HHHHCTTGGGCCCEEEEE--C---SSCEEEECT
T ss_pred             CEEEEe-CccHHHHHHHHHHHHHHHHHhccc-----HHHHHHHHHH-HHHHhCCCCceEEEEEEE--c---CCEEEEECC
Confidence            799999 999999999999999999998754     2677777644 555543  5799998888  4   899999999


Q ss_pred             CCceeeeC--eEEEecChhhHHHHhhhhhc-CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           80 GGTIIEQP--FAIGGSGSSYLYGFFDQAWK-EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        80 ~G~~~~~~--~~a~G~gs~~a~~~Le~~~~-~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +|++.+++  +.|+|+|+++++++||+.|+ ++||.   ++++++||..+.+||..++++++|.++
T Consensus       109 ~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---~~l~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          109 NGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             TSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             CCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---HHHHHHHHHHHHHhCcccCCeEEEEEC
Confidence            99999988  99999999999999999999 99996   678999999999999999999999764

>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=99.93  E-value=4.3e-25  Score=169.88  Aligned_cols=127  Identities=13%  Similarity=-0.001  Sum_probs=112.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC--CceeEEEEEEEEeCCCCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK--NFLQTGMIVGGWDKYEGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r--~p~~vs~iiaG~D~~~gp~Ly~id~   79 (184)
                      ||+|++ ||..+|++.+.+++|.+++.|+.      +....+..+++.++++|  ||+  +.+++|+|   +|+||.+||
T Consensus        41 ~i~~~~-aG~~aD~~~l~~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~r~~--~~~l~g~d---~p~Ly~~d~  108 (174)
T 1g3k_A           41 KVLAGF-AGGTADAFTLFELFERKLEMHQG------HLLKSAVELAKDWRTDRALRKL--EAMLIVAD---EKESLIITG  108 (174)
T ss_dssp             TEEEEE-ESCHHHHHHHHHHHHHHHHHTTT------CHHHHHHHHHHHHHHSTTGGGC--CCEEEEEC---SSCEEEEET
T ss_pred             CEEEEe-CccHHHHHHHHHHHHHHHHHhcC------cHHHHHHHHHHHHHhccCcCcc--eEEEEEEC---CCEEEEEcC
Confidence            799999 99999999999999999999875      45555666777776653  475  46778886   799999999


Q ss_pred             CCceeeeC---eEEEecChhhHHHHhhhhhc-CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEe
Q 029964           80 GGTIIEQP---FAIGGSGSSYLYGFFDQAWK-EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTIN  143 (184)
Q Consensus        80 ~G~~~~~~---~~a~G~gs~~a~~~Le~~~~-~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iit  143 (184)
                      +|++.+++   +.|+|+|+++++++||+.|+ ++||.+   +++++||..+.+||..++++++|.+|+
T Consensus       109 ~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~~---~l~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          109 IGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAH---EIVEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             TTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHH---HHHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             CCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHH---HHHHHHHHHHHHhccccCCceEEEEec
Confidence            99999988   99999999999999999999 999954   799999999999999999999999985

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=99.93  E-value=4.1e-25  Score=171.04  Aligned_cols=126  Identities=17%  Similarity=0.063  Sum_probs=110.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC--CCceeEEEEEEEEeCCCCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN--KNFLQTGMIVGGWDKYEGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~--r~p~~vs~iiaG~D~~~gp~Ly~id~   79 (184)
                      ||+|++ ||.++|++.+.+++|.+++.|+   |  ..++.++ .+++.++++  .|||++++|||  |   +|+||.+||
T Consensus        47 ~i~~~~-aG~~aD~~~l~~~~~~~~~~y~---g--~~~~~~~-~l~~~~~~~~~~rp~~~~~lva--d---~p~ly~~d~  114 (180)
T 2z3b_A           47 KVLAGF-AGSVADAFTLFEKFEAKLEEYN---G--NLKRAAV-ELAKEWRSDKVLRKLEAMLIVM--N---QDTLLLVSG  114 (180)
T ss_dssp             TEEEEE-CSCHHHHHHHHHHHHHHHHHTT---T--CHHHHHH-HHHHHHHHCTTGGGCCCCEEEE--C---SSCEEEECT
T ss_pred             CEEEEe-CchHHHHHHHHHHHHHHHHHhc---C--ChHHHHH-HHHHHHHhhhCcCcceEEEEEE--c---CCeEEEECC
Confidence            799999 9999999999999999999987   3  3344444 356666543  57999999999  3   799999999


Q ss_pred             CCceee--eCeEEEecChhhHHHHhhhhhcC---CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           80 GGTIIE--QPFAIGGSGSSYLYGFFDQAWKE---GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        80 ~G~~~~--~~~~a~G~gs~~a~~~Le~~~~~---~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +|++.+  +++.|+|+|+++++++||+.|++   +||.+|   ++++||..+.+||..++++++|.+|
T Consensus       115 ~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~mt~ee---l~~~al~~a~~rd~~sg~~i~v~~i  179 (180)
T 2z3b_A          115 TGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASE---IARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             TCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCCHHH---HHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             CCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCCCCHHH---HHHHHHHHHHHhcCccCCeEEEEEE
Confidence            999998  59999999999999999999998   999999   4789999999999999999999988

---

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	184
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-35
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-32
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	1e-25
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	1e-24
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	1e-24
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-24
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	1e-23
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	3e-23
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	4e-23
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	7e-22
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	1e-21
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	6e-21
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	7e-21
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	7e-21
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	3e-20
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	4e-20
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	5e-20
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	5e-20
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	8e-20
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	1e-19
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	6e-19
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	9e-19
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-18
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-17
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-17
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	8e-17
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	1e-16
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	2e-16
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	4e-15
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-14
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	3e-14
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	4e-13
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	1e-10
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	1e-09

>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 =  121 bits (305), Expect = 1e-35
 Identities = 72/147 (48%), Positives = 99/147 (67%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+Q V+D V Y L  H+I+L +P  V  AA+L + + Y  +  L  G+I+ GWD  EG
Sbjct: 49  AADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEG 108

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G++Y VP+GG ++ Q FAIGGSGSSY+YG+ D  ++EGMTKEE  Q    A++LA+ RDG
Sbjct: 109 GQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDG 168

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLP 158
           +SGGV+R   I   GV R+   GD +P
Sbjct: 169 SSGGVIRLAAIAESGVERQVLLGDQIP 195

>d1ryph_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 205

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  113 bits (284), Expect = 2e-32
 Identities = 60/147 (40%), Positives = 93/147 (63%), Gaps = 1/147 (0%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+Q ++D V+Y L  +T Q G P+T   A+    L  Y NK+ L  G+IV G+D    
Sbjct: 58  AADTQAIADIVQYHLELYTSQYGTPSTETAASVFKELC-YENKDNLTAGIIVAGYDDKNK 116

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G++Y +PLGG++ + P+AI GSGS+++YG+ D+ ++E M+KEE    +  ++S AI  DG
Sbjct: 117 GEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDG 176

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLP 158
           +SGGV+R V + + GV R  +  D   
Sbjct: 177 SSGGVIRMVVLTAAGVERLIFYPDEYE 203

>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 = 96.0 bits (238), Expect = 1e-25
 Identities = 42/159 (26%), Positives = 71/159 (44%), Gaps = 2/159 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYE 70
           AAD Q    ++      H ++  +  +V  A+ ++  L Y  K   L  G ++ G+ + E
Sbjct: 49  AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 108

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARD 130
           G  IY V   GT ++      GSG ++ YG  D  +K  ++ E+A  L  +++  A  RD
Sbjct: 109 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 168

Query: 131 GASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQNS 169
             SGG V    +  +G        D   L+ +  E + S
Sbjct: 169 AYSGGSVNLYHVTEDGW-IYHGNHDVGELFWKVKEEEGS 206

>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 = 92.9 bits (230), Expect = 1e-24
 Identities = 29/142 (20%), Positives = 62/142 (43%), Gaps = 4/142 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLL---SYNNKNFLQTGMIVGGWDK 68
           A D+   ++Y++  +  ++I+     + +  ++ VR     S  ++   Q  +++GG+DK
Sbjct: 50  AGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDK 109

Query: 69  YEGGK-IYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAI 127
            +    +Y +   GT +E P+   G    Y +   D  ++  MT EE   L+   V    
Sbjct: 110 KKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELE 169

Query: 128 ARDGASGGVVRTVTINSEGVSR 149
            R       V    ++ +G+ +
Sbjct: 170 KRMPMDFKGVIVKIVDKDGIRQ 191

>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 = 93.7 bits (232), Expect = 1e-24
 Identities = 29/161 (18%), Positives = 57/161 (35%), Gaps = 19/161 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLG-QPATVKVAANLVR-LLSYNNKNFLQTGMIVGGWDKY 69
           AAD   +    +  +  +      +  ++  AA  ++ LL            I+ G D+ 
Sbjct: 58  AADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDED 117

Query: 70  EGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEG-----------------MTK 112
             G +Y     G+   +    GG+ +S +  F D                       ++ 
Sbjct: 118 GKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSV 177

Query: 113 EEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYP 153
           EE  +LV  + + A  R    G  +  + +  +GV ++FY 
Sbjct: 178 EEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKEFYE 218

>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 = 92.2 bits (228), Expect = 2e-24
 Identities = 37/154 (24%), Positives = 67/154 (43%), Gaps = 3/154 (1%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEG 71
            D+Q ++  ++   + + I+  +  TV+  A L   L  + + F     +++GG D    
Sbjct: 50  GDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGK 109

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
                 P+GG I E+     GSGS   YG  +  +   +  +EA +L V+A+  A+ RD 
Sbjct: 110 SIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDS 169

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELE 165
           ASG  +  V I  +      Y  + +     +  
Sbjct: 170 ASGDGIDVVKITEDEF--YQYSPEEVEQILAKFR 201

>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 = 91.0 bits (225), Expect = 1e-23
 Identities = 35/155 (22%), Positives = 64/155 (41%), Gaps = 2/155 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD++ V+  +   +  H++   +   V  A  +++   +  +  +   +IV G D   G
Sbjct: 49  AADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDP-TG 107

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             ++ +   G+     +   GSGS       +  WK+ +TKEEA +L   A+   I  D 
Sbjct: 108 SHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDL 167

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEP 166
            SG  V    +   G   ++      P   EE + 
Sbjct: 168 GSGSNVDVCVM-EIGKDAEYLRNYLTPNVREEKQK 201

>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 = 89.4 bits (221), Expect = 3e-23
 Identities = 42/154 (27%), Positives = 65/154 (42%), Gaps = 4/154 (2%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-LQTGMIVGGWDKYEG 71
           AD       +      + ++  +  +V  A+ L+  + Y  K   L  G ++ GWDK   
Sbjct: 50  ADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGP 109

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
           G  Y    G  I    F++G SGS Y YG  D+ +   +  E+A  L  +A+  A  RD 
Sbjct: 110 GLYYVDSEGNRISGATFSVG-SGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDA 168

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELE 165
            SGG V    +  +G  R     D +   HE+  
Sbjct: 169 YSGGAVNLYHVREDGWIR--VSSDNVADLHEKYS 200

>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 = 89.5 bits (221), Expect = 4e-23
 Identities = 34/154 (22%), Positives = 67/154 (43%), Gaps = 2/154 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           AAD+   +  +   L  H++  G+   V  A  +++ + +  + ++   +++GG D   G
Sbjct: 49  AADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDV-TG 107

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             +Y +   G+  + P+   GSGS      F+  ++  M +EEA+ LV +A++  I  D 
Sbjct: 108 PHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDL 167

Query: 132 ASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELE 165
            SG  +    I+   +     P          L 
Sbjct: 168 GSGSNIDLCVISKNKL-DFLRPYTVPNKKGTRLG 200

>d1iruj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 204

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 86.0 bits (212), Expect = 7e-22
 Identities = 28/146 (19%), Positives = 61/146 (41%), Gaps = 3/146 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYE 70
           A D QTV+  +++ L+ + ++ G+        ++V  L Y  +     T  ++ G D   
Sbjct: 56  ATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKT 115

Query: 71  GGK--IYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
                     +G  ++   F + G+ +  +YG  +  W+  M  +   + + +A+  A+ 
Sbjct: 116 FKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVD 175

Query: 129 RDGASGGVVRTVTINSEGVSRKFYPG 154
           RD  SG  V    I  + ++ +    
Sbjct: 176 RDAVSGMGVIVHIIEKDKITTRTLKA 201

>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 = 85.3 bits (210), Expect = 1e-21
 Identities = 26/141 (18%), Positives = 59/141 (41%), Gaps = 3/141 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFL---QTGMIVGGWDK 68
           A D+   ++Y++  +  + ++ G   +   AAN  R    +           +++ G+D+
Sbjct: 50  AGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDE 109

Query: 69  YEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
           +EG  +Y +     + + PFA  G G+       D+ +   +++E A +L+ K +     
Sbjct: 110 HEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQK 169

Query: 129 RDGASGGVVRTVTINSEGVSR 149
           R   +        I+  G+  
Sbjct: 170 RFILNLPTFSVRIIDKNGIHD 190

>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 = 84.3 bits (208), Expect = 6e-21
 Identities = 27/146 (18%), Positives = 55/146 (37%), Gaps = 6/146 (4%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-----YNNKNFLQTGMIVGGW 66
            +D+  +++ +R    ++ +Q  +P   +     +  +      +  K      ++  GW
Sbjct: 79  TSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGW 138

Query: 67  DKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEG-MTKEEAEQLVVKAVSL 125
           DK+ G ++Y     G          G+ S+       Q +KEG MT + A  L +K ++ 
Sbjct: 139 DKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNK 198

Query: 126 AIARDGASGGVVRTVTINSEGVSRKF 151
            +     S   V   T+  E      
Sbjct: 199 TMDVSKLSAEKVEIATLTRENGKTVI 224

>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 = 83.3 bits (205), Expect = 7e-21
 Identities = 27/146 (18%), Positives = 56/146 (38%), Gaps = 3/146 (2%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVR-LLSYNNKNFLQTGMIVGGWDKYE 70
           A D  T+++  RY  + + ++  +    +    LV   L          G +V G +   
Sbjct: 56  ATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKS 115

Query: 71  GG--KIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIA 128
           G         +G     + F + G+ S  L+G  +  ++  +  E+  + + +A+  A  
Sbjct: 116 GKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAAD 175

Query: 129 RDGASGGVVRTVTINSEGVSRKFYPG 154
           RD  SG       I  + V +++   
Sbjct: 176 RDALSGWGAVVYIIKKDEVVKRYLKM 201

>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 = 83.8 bits (206), Expect = 7e-21
 Identities = 32/176 (18%), Positives = 56/176 (31%), Gaps = 20/176 (11%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK---------NFLQTGMI 62
           A  +  +       L  +    G P T    AN +  +   N            L  G  
Sbjct: 49  AGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYD 108

Query: 63  VGGWDKYEGGKIYGVPLGGTIIE--QPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVV 120
           +   D+   G+I    + G   E    +   GSGS +      + +     +E A +  +
Sbjct: 109 LDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAI 168

Query: 121 KAVSLAIARDGASGGVVRT-------VTINSEGVSRKFYPGDTLPLWHEELEPQNS 169
           +++  A   D A+GG   T       VTI   G        +T       +  + +
Sbjct: 169 ESLYDAADDDSATGGPDLTRGIYPTAVTITQAGA--VHVSEETTSELARRIVAERT 222

>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 = 82.4 bits (203), Expect = 3e-20
 Identities = 21/145 (14%), Positives = 47/145 (32%), Gaps = 5/145 (3%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-----YNNKNFLQTGMIVGGWD 67
           AD++ + +  R     +     +   V++    +  +      +          I  G+D
Sbjct: 81  ADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYD 140

Query: 68  KYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAI 127
              G ++Y     G          G+ +S         +K+ M  ++A +L +K +S   
Sbjct: 141 DRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTT 200

Query: 128 ARDGASGGVVRTVTINSEGVSRKFY 152
                +   +   TI       + Y
Sbjct: 201 DSSALTYDRLEFATIRKGANDGEVY 225

>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 = 82.0 bits (202), Expect = 4e-20
 Identities = 26/154 (16%), Positives = 48/154 (31%), Gaps = 11/154 (7%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-----LQTGMIVGGW 66
             D + + +  R            P  +   A+ +      +  +          I GG 
Sbjct: 78  IPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGV 137

Query: 67  DKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQA---WKEGMTKEEAEQLVVKAV 123
           DK  G  +Y +   G+      A  G G        ++      EG++  EA +   K +
Sbjct: 138 DK-NGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 196

Query: 124 SLAIARDGASGGV--VRTVTINSEGVSRKFYPGD 155
            LA   +        +   +++      KF  GD
Sbjct: 197 YLAHEDNKEKDFELEISWCSLSETNGLHKFVKGD 230

>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 = 81.5 bits (200), Expect = 5e-20
 Identities = 30/152 (19%), Positives = 53/152 (34%), Gaps = 10/152 (6%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-KNFLQTGMIVGGWDKYE 70
             D  T++  +   L  +     +  T    A ++  + Y+          I+GG D+  
Sbjct: 58  HGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEG 117

Query: 71  GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQ---------AWKEGMTKEEAEQLVVK 121
            G +Y     G+     F  GGS S+ L    D               ++ + A +LV  
Sbjct: 118 KGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKD 177

Query: 122 AVSLAIARDGASGGVVRTVTINSEGVSRKFYP 153
               A  RD  +G  +R   +  EG+  +   
Sbjct: 178 VFISAAERDVYTGDALRICIVTKEGIREETVS 209

>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 = 82.0 bits (202), Expect = 5e-20
 Identities = 27/161 (16%), Positives = 54/161 (33%), Gaps = 12/161 (7%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-----YNNKNFLQTGMIVGGW 66
            AD+++++D  R          G    +K  A+ V +       Y+         ++G +
Sbjct: 81  LADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSY 140

Query: 67  DKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLA 126
              +G ++Y +   G          G          ++   + MT  +  + V K + + 
Sbjct: 141 SVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIV 200

Query: 127 I--ARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELE 165
               +D A    +  V   + G   +  P D      EE E
Sbjct: 201 HDEVKDKAFELELSWVGELTNGR-HEIVPKDIR----EEAE 236

>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 = 80.6 bits (198), Expect = 8e-20
 Identities = 37/134 (27%), Positives = 66/134 (49%), Gaps = 3/134 (2%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLV-RLLSYNNKNFLQTGMIVGGWDKYEG 71
            D+Q +  Y++  L  + +Q      ++  A L+  +L+          ++VGG D    
Sbjct: 50  GDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGIDT--A 107

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             ++ +   G  +E  +A  GSGS ++YG  +  + E MT +E   LV++A+S A  RD 
Sbjct: 108 PHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDS 167

Query: 132 ASGGVVRTVTINSE 145
           ASGG++    I  +
Sbjct: 168 ASGGMIDVAVITRK 181

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 233

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 80.6 bits (198), Expect = 1e-19
 Identities = 21/147 (14%), Positives = 44/147 (29%), Gaps = 13/147 (8%)

Query: 13  ADSQTVSDYVRYFLHQHTIQ-----LGQPATVKVAANLVRLLSYNNKNFLQ---TGMIVG 64
           +D Q +   ++  + ++          +          +  + Y  ++ +      +IV 
Sbjct: 58  SDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVA 117

Query: 65  GWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE-----GMTKEEAEQLV 119
           G        +  V L G     P    G G+        +           T + AE+ +
Sbjct: 118 GVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAI 177

Query: 120 VKAVSLAIARDGASGGVVRTVTINSEG 146
           V A+ +   RD  S        I+   
Sbjct: 178 VNAMRVLYYRDARSSRNFSLAIIDKNT 204

>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 = 78.9 bits (194), Expect = 6e-19
 Identities = 30/160 (18%), Positives = 61/160 (38%), Gaps = 10/160 (6%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-----YNNKNFLQTGMIVGGW 66
            AD++ + D  R     + +    P TVK  A  +         Y         +++ G 
Sbjct: 79  VADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGV 138

Query: 67  DKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLA 126
              E  K+Y     G ++E      G G   +  FF++ +++ ++ ++A  L + A+ L+
Sbjct: 139 --NEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLS 196

Query: 127 IARDGASGGV-VRTVTINSEGVSRKFYPGDTLPLWHEELE 165
           I  +     + V  V ++      K    + L  + E   
Sbjct: 197 IESELVPENIEVGYVKVDDRTF--KEVSPEELKPYVERAN 234

>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 = 78.6 bits (193), Expect = 9e-19
 Identities = 29/165 (17%), Positives = 56/165 (33%), Gaps = 13/165 (7%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQ-----------TG 60
            AD++++ ++ R     H +   +   V+     V  L+                     
Sbjct: 74  TADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVA 133

Query: 61  MIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVV 120
           +++ G D  +G +++     GT         GSGS          W   +T +EAE LV+
Sbjct: 134 LLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVL 193

Query: 121 KAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELE 165
           K +   +           +     +G   K Y  +      +EL+
Sbjct: 194 KILKQVMEEKLDENNAQLSCITKQDGF--KIYDNEKTAELIKELK 236

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]} Length = 227

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

 Score = 77.4 bits (190), Expect = 2e-18
 Identities = 20/155 (12%), Positives = 47/155 (30%), Gaps = 17/155 (10%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLG-QPATVKVAANLVRLLSYNNKNF------LQTGMIVG 64
             + + +                 +  T +  AN           F       +  + V 
Sbjct: 60  YNEFENLRRAGIVHADMRGYSYDRRDVTGRSLAN--AYAQTLGTIFTEQPKPYEVEICVA 117

Query: 65  GWDKY---EGGKIYGV-PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVV 120
              +    +  ++Y +   G  + EQ F + G  +  +     ++++  +  E A  + V
Sbjct: 118 EVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAV 177

Query: 121 KAVSLAIARDGASGGV----VRTVTINSEGVSRKF 151
            A+    A +G    V    +    ++     R F
Sbjct: 178 NALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAF 212

>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 = 74.4 bits (182), Expect = 2e-17
 Identities = 26/142 (18%), Positives = 55/142 (38%), Gaps = 7/142 (4%)

Query: 12  AADSQTVSDYVRYFLHQHTIQ-LGQPATVKVAANLVRLLSYNNKNFL---QTGMIVGGWD 67
            AD Q +   +   +    +   G   + +   + +    Y+ ++ +      M++GG+ 
Sbjct: 57  YADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYA 116

Query: 68  KYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQ--AWKEGMTKEEAEQLVVKAVSL 125
             E   +  V + G   E P    G G+        +    +  +++ EA  LV + + +
Sbjct: 117 DGESF-LGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRV 175

Query: 126 AIARDGASGGVVRTVTINSEGV 147
              RD  S    +T T+  +GV
Sbjct: 176 LYYRDARSYNRFQTATVTEKGV 197

>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 = 74.7 bits (183), Expect = 2e-17
 Identities = 23/163 (14%), Positives = 57/163 (34%), Gaps = 8/163 (4%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-----YNNKNFLQTGMIVGGW 66
            AD++ + +++R           +P  V    +L+   +        +     G+++ G+
Sbjct: 75  TADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGY 134

Query: 67  DKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGM--TKEEAEQLVVKAVS 124
           D   G  I+         +      G+ S     + ++   E M     E  +  ++A+ 
Sbjct: 135 DD-MGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALR 193

Query: 125 LAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWHEELEPQ 167
             +  +        ++ I  + +    Y  D +  + E LE +
Sbjct: 194 ETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEER 236

>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 = 73.2 bits (179), Expect = 8e-17
 Identities = 20/147 (13%), Positives = 37/147 (25%), Gaps = 11/147 (7%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSY-----NNKNFLQTGMIVGGW 66
             D++  +   +    +   + G      V A  +  LS           L   +     
Sbjct: 78  IPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSV 137

Query: 67  DKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLA 126
           D+  G  IY     G  +       G     +    +  +K+       E+   K V  A
Sbjct: 138 DEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFA 197

Query: 127 I------ARDGASGGVVRTVTINSEGV 147
           I           S   +       +  
Sbjct: 198 ITHMIDALGTEFSKNDLEVGVATKDKF 224

>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 = 72.8 bits (178), Expect = 1e-16
 Identities = 23/135 (17%), Positives = 49/135 (36%), Gaps = 11/135 (8%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSY----------NNKNFLQTGM 61
            AD++T+ D  R     H     +  TV+     V  L+                    +
Sbjct: 75  IADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVAL 134

Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
           + GG D+ +G +++ +   GT ++      GS S        + + + MT +EA +  + 
Sbjct: 135 LFGGVDE-KGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLI 193

Query: 122 AVSLAIARDGASGGV 136
            +   +     +  +
Sbjct: 194 ILKQVMEEKLNATNI 208

>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-16
 Identities = 29/151 (19%), Positives = 56/151 (37%), Gaps = 8/151 (5%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQP-----ATVKVAANLVRLLSYNNKNFLQTGMIVGGW 66
            AD++ + D+ R    Q  +  G          +VA  + +   Y         +I  G 
Sbjct: 70  VADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGI 129

Query: 67  DKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLA 126
           D+  G +++     GTI E      GSG   +  F ++ +KE + ++EA  L +KA+  +
Sbjct: 130 DQ-IGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSS 188

Query: 127 IARDGASGGVVRTVTINSEGVSRKFYPGDTL 157
           +                      + Y  + +
Sbjct: 189 LEEGEELKAPEIASITVGNKY--RIYDQEEV 217

>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 = 68.6 bits (167), Expect = 4e-15
 Identities = 25/148 (16%), Positives = 57/148 (38%), Gaps = 10/148 (6%)

Query: 13  ADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-----LQTGMIVGGWD 67
            D++ +S+Y+R   +  ++   +   V+ A +L+   +  N           G+++ G+D
Sbjct: 78  PDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYD 137

Query: 68  KYEGGKIYGVPLGGTIIEQPFAIGGSGSS----YLYGFFDQAWKEGMTKEEAEQLVVKAV 123
           K  G  +      G + E      G+ S     YL    D   K     +E  +  V+A+
Sbjct: 138 KS-GAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAI 196

Query: 124 SLAIARDGASGGVVRTVTINSEGVSRKF 151
           S ++  +  +   +    +  +     +
Sbjct: 197 SQSLRDESLTVDNLSIAIVGKDTPFTIY 224

>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 = 67.0 bits (163), Expect = 1e-14
 Identities = 24/127 (18%), Positives = 48/127 (37%), Gaps = 7/127 (5%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLS-----YNNKNFLQTGMIVGGW 66
            AD++ V +  R     H + +  P TV+     +  L       N +       ++ G+
Sbjct: 76  TADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGF 135

Query: 67  DKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGM--TKEEAEQLVVKAVS 124
           D     ++Y     GT         G G+  +  F ++ + +    T +   +LV+KA+ 
Sbjct: 136 DFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALL 195

Query: 125 LAIARDG 131
             +   G
Sbjct: 196 EVVQSGG 202

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]} Length = 180

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

 Score = 65.6 bits (159), Expect = 3e-14
 Identities = 15/142 (10%), Positives = 31/142 (21%), Gaps = 7/142 (4%)

Query: 1   MNIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTG 60
                       AD+ T+ +     L ++   L + A           +    +  L   
Sbjct: 45  NGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVM 104

Query: 61  MIVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVV 120
                                   +      GSG +Y         K       A ++  
Sbjct: 105 NQDTLLL-------VSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASEIAR 157

Query: 121 KAVSLAIARDGASGGVVRTVTI 142
            A+  A      +   +    +
Sbjct: 158 AALETAGEICVYTNDQIILEEL 179

>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 = 63.1 bits (153), Expect = 4e-13
 Identities = 23/129 (17%), Positives = 44/129 (34%), Gaps = 9/129 (6%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNF-----LQTGMIVGGW 66
            ADS+ + +  R     H + L  P TV+     V  +                 ++ G+
Sbjct: 77  NADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGF 136

Query: 67  D-KYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE---GMTKEEAEQLVVKA 122
           D + +  K+Y     G          G  S  +  F ++ +       T EE  +L V++
Sbjct: 137 DPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRS 196

Query: 123 VSLAIARDG 131
           +   +    
Sbjct: 197 LLEVVQTGA 205

>d1g3ka_ d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus influenzae [TaxId: 727]} Length = 173

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]

 Score = 55.2 bits (132), Expect = 1e-10
 Identities = 18/131 (13%), Positives = 39/131 (29%), Gaps = 2/131 (1%)

Query: 12  AADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEG 71
           A  +   +D    F             +  +A  +      ++   +   ++   D+ E 
Sbjct: 44  AGFAGGTADAFTLFELFERKLEMHQGHLLKSAVELAKDWRTDRALRKLEAMLIVADEKES 103

Query: 72  GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDG 131
             I G+       E      GSG +Y             T+  A ++V K++ +A     
Sbjct: 104 LIITGIGDVVQPEEDQILAIGSGGNYALSAAR--ALVENTELSAHEIVEKSLRIAGDICV 161

Query: 132 ASGGVVRTVTI 142
            +        +
Sbjct: 162 FTNTNFTIEEL 172

>d1m4ya_ d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga maritima [TaxId: 2336]} Length = 171

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Thermotoga maritima [TaxId: 2336]

 Score = 52.4 bits (125), Expect = 1e-09
 Identities = 22/141 (15%), Positives = 41/141 (29%), Gaps = 9/141 (6%)

Query: 2   NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGM 61
                      AD+ T+ D     L +    L + A               ++   +   
Sbjct: 40  GKVLAGFAGSVADAMTLFDRFEAKLREWGGNLTKAAVELAKDW------RTDRVLRRLEA 93

Query: 62  IVGGWDKYEGGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVK 121
           ++   DK E   I          +   A  GSG  Y         +   T   A ++V K
Sbjct: 94  LLLVADK-ENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLR--NTDLSAREIVEK 150

Query: 122 AVSLAIARDGASGGVVRTVTI 142
           A+++A      +   +    +
Sbjct: 151 AMTIAGEICIYTNQNIVIEEV 171

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	184
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	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
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.98
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.97
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.69
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.53
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.48

>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=2.3e-39  Score=253.13  Aligned_cols=161  Identities=47%  Similarity=0.833  Sum_probs=157.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+||+ +|..+|++.+.+.+|.+++.|+++++.+++++.+++++++++|.+|+|+++++|++|+|+.++|+||.+||.|
T Consensus        40 ~i~~~~-sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~p~~~~~lvaG~d~~~~~~l~~~d~~g  118 (202)
T d1iruh_          40 RIFCCR-SGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGG  118 (202)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTS
T ss_pred             cEEEEe-ccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhccceeEEEEEEEeecCCCcEEEEECCCC
Confidence            799999 9999999999999999999999999999999999999999999999999999999999997899999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchhh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWH  161 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~~  161 (184)
                      ++.+.+++|+|+|+.+++++|++.|+++|+.+||++++++||..+.+||+.++++++|++|+++|.++++++++|+++|+
T Consensus       119 ~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l~~~al~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~~  198 (202)
T d1iruh_         119 MMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFA  198 (202)
T ss_dssp             CCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCC
T ss_pred             ceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hh
Q 029964          162 EE  163 (184)
Q Consensus       162 ~~  163 (184)
                      ..
T Consensus       199 ~~  200 (202)
T d1iruh_         199 VA  200 (202)
T ss_dssp             CC
T ss_pred             hh
Confidence            54

>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=1e-38  Score=250.29  Aligned_cols=156  Identities=40%  Similarity=0.736  Sum_probs=148.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ +|..+|++.+.+++|.+++.|+++++++ ++..+++.+++++|.+|+||++++|+||+|+.++|+||.+||.|
T Consensus        49 ~i~~~~-sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~p~~~~~lvaG~d~~~~p~Ly~~d~~G  126 (205)
T d1ryph_          49 KIWCCR-SGSAADTQAIADIVQYHLELYTSQYGTP-STETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGG  126 (205)
T ss_dssp             TEEEEE-EEBHHHHHHHHHHHHHHHHHHHHHHSSC-CHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTS
T ss_pred             ceEEee-ccchhHHHHHHHHHHHHHHHHHHHcCCc-cHHHHHHHHHHHHHhCccCceEEEEEEeecCCCCcEEEEECCCC
Confidence            899999 9999999999999999999999999965 58889999999999999999999999999987799999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCch
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPL  159 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~  159 (184)
                      ++.+++++|+|+|+.+++++||+.|+++||.+||++++++||+.+.+||+.++++++|++||+||++++.+.++|+++
T Consensus       127 ~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~~~~~e~~~  204 (205)
T d1ryph_         127 SVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQ  204 (205)
T ss_dssp             CCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECHHHHTC
T ss_pred             cEEecCeEEeecCcHHHHHHHHhhhhcccCHHHHHHHHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEEecCcccccc
Confidence            999999999999999999999999999999999999999999999999999999999999999999987777777653

>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=1.2e-38  Score=250.91  Aligned_cols=169  Identities=24%  Similarity=0.294  Sum_probs=160.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+|++ +|..+|++.+++++|.+++.|+++++++++++.+++++++++|.++ .|++++.+++|+|+.+||+||.+||+
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~p~~~~~~l~G~~~~~g~~Ly~id~~  118 (212)
T d1rypl_          40 FLLGTM-AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSD  118 (212)
T ss_dssp             TEEEEC-CBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEETT
T ss_pred             cEEEEe-ccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHhccCCcceEeeeeEeecCCCCEEEEECCC
Confidence            799999 9999999999999999999999999999999999999999999874 58999999999998789999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCch-
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPL-  159 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~-  159 (184)
                      |++++++++|+|+|+++++++||+.|+++||.+||++++++||+.+.+||+.++++++|++|+++|+++  ++++++.. 
T Consensus       119 G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l~~~al~~~~~rd~~sg~~v~v~vi~~~g~~~--~~~~ev~~~  196 (212)
T d1rypl_         119 GTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIY--HGNHDVGEL  196 (212)
T ss_dssp             CCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEE--EEEEEHHHH
T ss_pred             ceEEecceEEEccCcccchhHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEcCCceEE--eCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999765  77888865 


Q ss_pred             hhhhcCChhhhhhh
Q 029964          160 WHEELEPQNSLLDM  173 (184)
Q Consensus       160 ~~~~~~~~~~~~~~  173 (184)
                      +|+-.++++++.|+
T Consensus       197 ~~~~~~~~~~~~~~  210 (212)
T d1rypl_         197 FWKVKEEEGSFNNV  210 (212)
T ss_dssp             HHHHHHHHCCCTTS
T ss_pred             HHHHHHhhccccCC
Confidence            78888999998886

>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=3.3e-37  Score=240.67  Aligned_cols=159  Identities=27%  Similarity=0.333  Sum_probs=151.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+||+ ||..+|++.+.++++.+++.|++.++.+++++.+|+++++++|.+| +||+++++++|+|++ ||+||.+||+
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~d~~-~~~l~~~d~~  117 (201)
T d1irul_          40 YLLGTM-AGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKR-GPGLYYVDSE  117 (201)
T ss_dssp             TEEEEC-CBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCBEEEEEEECSS-SEEEEEEESS
T ss_pred             cEEEEE-cCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhhhccCCCceEEEEEEEEecC-CceEEEEccC
Confidence            799999 9999999999999999999999999999999999999999999884 699999999999995 9999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchh
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLW  160 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~  160 (184)
                      |++.+++++|+|+|+++++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|.++  ++++|+..+
T Consensus       118 G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~~~~l~~~~~~d~~sg~~~~v~~i~~~G~~~--i~~~ev~~~  195 (201)
T d1irul_         118 GNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDGWIR--VSSDNVADL  195 (201)
T ss_dssp             SCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEECSSCEEE--EEEEEHHHH
T ss_pred             ceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHhCCCCCCceEEEEEeCCceEE--ECHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999875  788888777


Q ss_pred             hhhc
Q 029964          161 HEEL  164 (184)
Q Consensus       161 ~~~~  164 (184)
                      +++.
T Consensus       196 ~~~~  199 (201)
T d1irul_         196 HEKY  199 (201)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            6553

>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=3.1e-37  Score=240.25  Aligned_cols=153  Identities=18%  Similarity=0.258  Sum_probs=145.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeC-CCCcEEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDK-YEGGKIYGV   77 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~-~~gp~Ly~i   77 (184)
                      ||+|++ ||..||++.+.+.+|.+++.|+++++++++++.+++++++.+|.+   ++||++++||||||+ ++||+||.+
T Consensus        41 ~i~~~~-sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~P~~~~~liaG~D~~~~~p~L~~i  119 (198)
T d1rypk_          41 HTLMSF-AGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQI  119 (198)
T ss_dssp             TEEEEE-EESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEE
T ss_pred             CEEEEe-cCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHhcccccceEEEEEEEecCCCceEEEEe
Confidence            899999 999999999999999999999999999999999999999998863   579999999999997 368999999


Q ss_pred             CCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCC
Q 029964           78 PLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTL  157 (184)
Q Consensus        78 d~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~  157 (184)
                      ||+|++.+++++++|+|+.+++++||++|+++||.+||++++++||+.+.+||+.++++++|++|++||+++  ++++++
T Consensus       120 d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~l~~~~l~~~~~~d~~s~~~~~v~vi~~dG~~~--~~~~~~  197 (198)
T d1rypk_         120 DYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQ--VDDFQA  197 (198)
T ss_dssp             CTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEEETTEEEE--ECCCSC
T ss_pred             cccccEEecceEEEeccchhhHHHHHhcccccCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCeEE--cchhcc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999875  777765

>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=7.4e-38  Score=252.17  Aligned_cols=166  Identities=17%  Similarity=0.206  Sum_probs=155.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.++..|++++|.+++++.+|+.+++++|.+     +|||+|++||+|+|+++||+||.
T Consensus        70 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~  148 (250)
T d1iruc_          70 DMACSV-AGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQ  148 (250)
T ss_dssp             SEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEE
T ss_pred             cEEEEe-ecccchHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEE
Confidence            899999 999999999999999999999999999999999999999998865     47999999999999877999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcC-CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcE--EEeec
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE-GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVS--RKFYP  153 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~-~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~--~~~~~  153 (184)
                      +||+|++.+++++|+|+|+++++++||++|++ +||++||++++++||+.++++|..++++++|++|+++|..  .+.++
T Consensus       149 ~Dp~G~~~~~~~~a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~  228 (250)
T d1iruc_         149 SDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLK  228 (250)
T ss_dssp             EETTTEEEECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECC
T ss_pred             EcccccEeeeeEEEeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECC
Confidence            99999999999999999999999999999985 8999999999999999999999999999999999999863  45689


Q ss_pred             CCCCchhhhhcCChh
Q 029964          154 GDTLPLWHEELEPQN  168 (184)
Q Consensus       154 ~~~~~~~~~~~~~~~  168 (184)
                      ++|+..++++++++.
T Consensus       229 ~~Ei~~~l~~~~e~~  243 (250)
T d1iruc_         229 QKEVEQLIKKHEEEE  243 (250)
T ss_dssp             HHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999998877653

>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=3.7e-37  Score=240.59  Aligned_cols=160  Identities=25%  Similarity=0.364  Sum_probs=151.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+||+ ||..+|++.+++++|.+++.|++.++++++++.+|+++++++|.+| +||++++|+||+|.  +|+||.+||+
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~d~--~p~l~~~d~~  116 (203)
T d1yarh1          40 YTGMTI-AGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGIDT--APHVFSIDAA  116 (203)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEESS--SEEEEEECTT
T ss_pred             Ceeeec-CCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHhhccCCccceeEEEEEcC--CCeeEecCCc
Confidence            799999 9999999999999999999999999999999999999999998874 79999999999986  6999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchh
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLW  160 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~  160 (184)
                      |++++++++|+|+|+++++++|+++|+++||.+||++++++||+.+.+||..++++++|++|++++.. +.++++|++++
T Consensus       117 G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~~v~v~ii~~~~g~-~~l~~~ei~~~  195 (203)
T d1yarh1         117 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGY-VQLPTDQIESR  195 (203)
T ss_dssp             CCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEE-EECCHHHHHHH
T ss_pred             cceecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCE-EECCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999976443 45999999999


Q ss_pred             hhhcC
Q 029964          161 HEELE  165 (184)
Q Consensus       161 ~~~~~  165 (184)
                      +++++
T Consensus       196 ~~~~~  200 (203)
T d1yarh1         196 IRKLG  200 (203)
T ss_dssp             HHHHT
T ss_pred             HHHhC
Confidence            98764

>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=4.5e-37  Score=243.03  Aligned_cols=156  Identities=24%  Similarity=0.390  Sum_probs=146.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+|++ +|..+|++.+.++++.+++.|++++|++++++.+++++++++|++|+|+++++|+||+|++ ||+||.+||+|
T Consensus        40 ~i~~~~-aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~y~~~~p~~~~~ivaG~D~~-g~~L~~id~~G  117 (220)
T d1irui_          40 NIYCCG-AGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDVT-GPHLYSIYPHG  117 (220)
T ss_dssp             TEEEEE-EESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEECSS-CEEEEEECTTS
T ss_pred             cEEEEE-ccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhhhhhcccccceeEEEEEEeCC-CcEEEEEeCCC
Confidence            799999 9999999999999999999999999999999999999999999999999999999999985 89999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchhh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWH  161 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~~  161 (184)
                      ++.+++++|+|+|+++++++|++.|+++||.+||++++++||+.+.+||+.++++++|++|++||+++  +.+.+++..|
T Consensus       118 ~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~~~al~~~~~~D~~sg~~i~i~vitkdg~~~--~~~~~~~~~~  195 (220)
T d1irui_         118 STDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDF--LRPYTVPNKK  195 (220)
T ss_dssp             CEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEETTEEEC--CSEEECCCCC
T ss_pred             cEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHHHHHHHHhhccCCCCCCcEEEEEEECCCeEE--eCcccccchh
Confidence            99999999999999999999999999999999999999999999999999999999999999999865  4444444443

>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=3.3e-37  Score=247.62  Aligned_cols=164  Identities=17%  Similarity=0.160  Sum_probs=152.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++.+|.+++.|+++++++++++.+|+.+++++|.+     +|||+|++||||||+++||+||.
T Consensus        74 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~  152 (244)
T d1irua_          74 NIGCVM-TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYK  152 (244)
T ss_dssp             SCEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEE
T ss_pred             CcEEEE-ecchHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEE
Confidence            899999 999999999999999999999999999999999999999988653     58999999999999877899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhc--CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWK--EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPG  154 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~--~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~  154 (184)
                      +||+|++.+++++|+|+|+..++++||++|+  ++|+.+||++++++||..+..+|.. +++++|+||++++..++.+++
T Consensus       153 ~Dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~-~~~iev~ii~~~~~~~~~l~~  231 (244)
T d1irua_         153 CDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFK-PSEIEVGVVTVENPKFRILTE  231 (244)
T ss_dssp             ECTTSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCC-TTSEEEEEEETTEEEEEECCH
T ss_pred             EcCCccEEecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEEeCCCcEEECCH
Confidence            9999999999999999999999999999995  5899999999999999999999975 467999999999987778999


Q ss_pred             CCCchhhhhcCCh
Q 029964          155 DTLPLWHEELEPQ  167 (184)
Q Consensus       155 ~~~~~~~~~~~~~  167 (184)
                      +||++++..+..|
T Consensus       232 ~ei~~~l~~~~~r  244 (244)
T d1irua_         232 AEIDAHLVALAER  244 (244)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhcC
Confidence            9999998776543

>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=4.4e-36  Score=237.87  Aligned_cols=166  Identities=22%  Similarity=0.298  Sum_probs=152.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ||+||+ +|..+|++.+.++++.+++.|++.++.++++..+++++++.+|.+++|+++++|+||+|+ +||+||.+||+|
T Consensus        40 ~i~~~~-sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~p~~~~~l~aG~d~-~g~~Ly~id~~G  117 (222)
T d1rypi_          40 KIWCAG-AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDP-TGSHLFSIHAHG  117 (222)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEET-TEEEEEEECTTS
T ss_pred             CEEEEe-cccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHHHHHHHHHHhhhhccceeEEEEEEcC-CCcEEEEEecCc
Confidence            799999 999999999999999999999999999999999999999999998899999999999998 499999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCchhh
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPLWH  161 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~~~  161 (184)
                      ++.+++++|+|+|+++++++||+.|+++||++||++++++||+.+.+||..++++++|++|++++..+ ++.+...+.++
T Consensus       118 ~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l~~~al~~a~~~D~~sg~~i~i~vi~~~~~~~-~~~~~~~~~~~  196 (222)
T d1rypi_         118 STDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAE-YLRNYLTPNVR  196 (222)
T ss_dssp             CEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEE-EEEEEECCCCC
T ss_pred             ceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCCcEEEEEEEcCCCeE-EecCcCCchhh
Confidence            99999999999999999999999999999999999999999999999999999999999999876553 35555566666


Q ss_pred             hhcCChhhh
Q 029964          162 EELEPQNSL  170 (184)
Q Consensus       162 ~~~~~~~~~  170 (184)
                      ++.++...|
T Consensus       197 ~~~~~~~kf  205 (222)
T d1rypi_         197 EEKQKSYKF  205 (222)
T ss_dssp             CCCSSCCCC
T ss_pred             hhhhhccCC
Confidence            666655544

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.2e-36  Score=244.01  Aligned_cols=162  Identities=12%  Similarity=0.044  Sum_probs=150.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|+++++.+++++.+|+.+++++|.+     +|||+|++|+||||+++||+||.
T Consensus        69 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~  147 (243)
T d1rypa_          69 TIGMVV-NGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYK  147 (243)
T ss_dssp             SCEEEE-ESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEE
T ss_pred             CEEEEE-ecCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEE
Confidence            799999 999999999999999999999999999999999999999987643     68999999999999877999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcC-------CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEE
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE-------GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSR  149 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~-------~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~  149 (184)
                      +||+|++.+++++|+|+|+..++++||++|++       ++|.+||++++++||+.+.++|. ++++++|++|+++|+++
T Consensus       148 ~Dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~-~~~~iei~iitk~g~~~  226 (243)
T d1rypa_         148 TDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEF-SKNDLEVGVATKDKFFT  226 (243)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCC-CTTSEEEEEEETTEEEE
T ss_pred             EcCCEEEEecceEEeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCCceEE
Confidence            99999999999999999999999999999985       46999999999999999999997 57789999999999754


Q ss_pred             EeecCCCCchhhhhcCCh
Q 029964          150 KFYPGDTLPLWHEELEPQ  167 (184)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~  167 (184)
                        ++++||++++.++-+|
T Consensus       227 --l~~eeI~~~l~~i~e~  242 (243)
T d1rypa_         227 --LSAENIEERLVAIAEQ  242 (243)
T ss_dssp             --CCHHHHHHHHHHHTTT
T ss_pred             --eCHHHHHHHHHHHhcc
Confidence              8999999998776654

>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=2.3e-36  Score=241.13  Aligned_cols=157  Identities=16%  Similarity=0.207  Sum_probs=147.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++.++++++++.+|+.+++++|.+     +|||+|++|+||+|++ ||+||.
T Consensus        68 ~i~~~~-sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~-g~~Ly~  145 (233)
T d1rypf_          68 HMGLSL-AGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKS-GAHLLE  145 (233)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETT-EEEEEE
T ss_pred             CEEEEE-eeccccHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCC-CCEEEE
Confidence            899999 999999999999999999999999999999999999999998643     6899999999999985 899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhh----cCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEee
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAW----KEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFY  152 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~----~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~  152 (184)
                      +||+|++.+++++|+|+|++.++++||+.|    +++|+.+||++++++||..+.++|..++.++||++|+++++.+ .+
T Consensus       146 idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~-~l  224 (233)
T d1rypf_         146 FQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFT-IY  224 (233)
T ss_dssp             ECTTSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEE-EE
T ss_pred             EccccceecccEEEecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeE-EC
Confidence            999999999999999999999999999865    5799999999999999999999999999999999999998764 58


Q ss_pred             cCCCCchhh
Q 029964          153 PGDTLPLWH  161 (184)
Q Consensus       153 ~~~~~~~~~  161 (184)
                      +++|+++|+
T Consensus       225 ~~~ei~~~i  233 (233)
T d1rypf_         225 DGEAVAKYI  233 (233)
T ss_dssp             EGGGGGGGC
T ss_pred             CHHHHHhhC
Confidence            889998874

>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=5.4e-36  Score=233.21  Aligned_cols=160  Identities=23%  Similarity=0.323  Sum_probs=151.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      ||+||+ ||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+| +||++++|+||+|+. +|+||.+||+
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~lvaG~d~~-~~~l~~~d~~  117 (202)
T d1j2qh_          40 RMAMTT-AGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSE-GKSIYSIDPI  117 (202)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETT-EEEEEEECTT
T ss_pred             cEEEEe-cCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHHHHHHHHHhhhcccceeeEEEEEEEcCC-CceEEEEeCC
Confidence            799999 9999999999999999999999999999999999999999999875 699999999999985 8999999999


Q ss_pred             Cceeee-CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCch
Q 029964           81 GTIIEQ-PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLPL  159 (184)
Q Consensus        81 G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~~  159 (184)
                      |++..+ .++|+|+|+++++++|+++|+++||.+||++++++||+.+.++|..++++++|++|+++|+++  ++++|++.
T Consensus       118 G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~al~~~~~~d~~~g~~v~v~~i~~~g~~~--~~~~ei~~  195 (202)
T d1j2qh_         118 GGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDEFYQ--YSPEEVEQ  195 (202)
T ss_dssp             CCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEECSSCEEE--CHHHHHHH
T ss_pred             CCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCEEE--eCHHHHHH
Confidence            998765 589999999999999999999999999999999999999999999999999999999999754  88999999


Q ss_pred             hhhhcC
Q 029964          160 WHEELE  165 (184)
Q Consensus       160 ~~~~~~  165 (184)
                      ++++++
T Consensus       196 ~l~~~~  201 (202)
T d1j2qh_         196 ILAKFR  201 (202)
T ss_dssp             HGGGTT
T ss_pred             HHHHhh
Confidence            988765

>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=3.3e-36  Score=241.61  Aligned_cols=161  Identities=14%  Similarity=0.136  Sum_probs=150.8

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|+++++.+++++.+++.++++++.+     +|||+|++||||+|+.+||+||.
T Consensus        71 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~  149 (244)
T d1rypc_          71 KIAVAV-AGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYT  149 (244)
T ss_dssp             SEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEE
T ss_pred             CeEEEE-ecccCcHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEE
Confidence            799999 999999999999999999999999999999999999999998653     57999999999999877899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcE----EEee
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVS----RKFY  152 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~----~~~~  152 (184)
                      +||+|++.+++++|+|+|+++++++||+.|+++||++||++++++||..+.+||..+++++||++|+++|..    .+.+
T Consensus       150 id~~Gs~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~~~~~~~~~~  229 (244)
T d1rypc_         150 SNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIF  229 (244)
T ss_dssp             ECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEEC
T ss_pred             ecCCCcEeeeeeeeccchhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCcccceeEEEC
Confidence            999999999999999999999999999999999999999999999999999999999999999999998752    4568


Q ss_pred             cCCCCchhhhh
Q 029964          153 PGDTLPLWHEE  163 (184)
Q Consensus       153 ~~~~~~~~~~~  163 (184)
                      +++|+..++.+
T Consensus       230 ~~~Ei~~~l~k  240 (244)
T d1rypc_         230 KPQEIKDILVK  240 (244)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            88888888754

>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=3.6e-36  Score=240.70  Aligned_cols=164  Identities=15%  Similarity=0.175  Sum_probs=150.5

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+||+ ||+.+|++.+++++|.++..|++++|++++++.+++.+++..|.+     +|||+|++||||||++ ||+||+
T Consensus        66 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~-gp~Ly~  143 (238)
T d1iruf_          66 HIGISI-AGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDM-GPHIFQ  143 (238)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETT-EEEEEE
T ss_pred             ceEEEE-eccchHHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCC-CceEEE
Confidence            799999 999999999999999999999999999999999999999986543     5899999999999984 899999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCC--CHHHHHHHHHHHHHHHHHhcC-CCCCeEEEEEEeCCCcEEEeec
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGM--TKEEAEQLVVKAVSLAIARDG-ASGGVVRTVTINSEGVSRKFYP  153 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~--s~~eai~l~~~~l~~~~~rd~-~s~~~iev~iitkdg~~~~~~~  153 (184)
                      +||+|++.+++++|+|+|++.++++||++|+++|  +.+||++++++||+.++.+|. .++.+|||++|++++.. +.++
T Consensus       144 ~D~~G~~~~~~~~a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~-~~l~  222 (238)
T d1iruf_         144 TCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEF-TIYD  222 (238)
T ss_dssp             ECSSSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEE-EEEC
T ss_pred             EcCCCCEEeeeeEEECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCE-EECC
Confidence            9999999999999999999999999999999854  899999999999998887654 47788999999999764 4689


Q ss_pred             CCCCchhhhhcCChh
Q 029964          154 GDTLPLWHEELEPQN  168 (184)
Q Consensus       154 ~~~~~~~~~~~~~~~  168 (184)
                      ++|++++++.++++.
T Consensus       223 ~~ei~~~l~~i~ek~  237 (238)
T d1iruf_         223 DDDVSPFLEGLEERP  237 (238)
T ss_dssp             SGGGHHHHTTCCCCC
T ss_pred             HHHHHHHHHHHHhCc
Confidence            999999998887763

>d1irue_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.4e-36  Score=240.16  Aligned_cols=159  Identities=17%  Similarity=0.206  Sum_probs=147.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC----------CCceeEEEEEEEEeCCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN----------KNFLQTGMIVGGWDKYEG   71 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~----------r~p~~vs~iiaG~D~~~g   71 (184)
                      ||+|++ ||..+|++.+++.+|.++..|++++|++++++.+++++++++|.+          +|||+|++|+||+|++ |
T Consensus        66 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~-g  143 (234)
T d1irue_          66 HIGCAM-SGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK-G  143 (234)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETT-E
T ss_pred             cEEEEE-eeccchHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCC-C
Confidence            799999 999999999999999999999999999999999999999998753          4799999999999985 8


Q ss_pred             cEEEEECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEe
Q 029964           72 GKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKF  151 (184)
Q Consensus        72 p~Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~  151 (184)
                      |+||.+||+|++.+++++|+|+|+++++++||+.|+++|+++||++++++||+.+.++|. +++++||++|++++.. +.
T Consensus       144 p~Ly~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~~-~~~~iei~ii~~~~~~-k~  221 (234)
T d1irue_         144 PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKL-NATNIELATVQPGQNF-HM  221 (234)
T ss_dssp             EEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCC-CTTSEEEEEECSSSCC-EE
T ss_pred             CEEEEEecCcccceeeeEEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhccC-CCCCEEEEEEECCCCE-EE
Confidence            999999999999999999999999999999999999999999999999999999888775 5678999999987544 45


Q ss_pred             ecCCCCchhhhhc
Q 029964          152 YPGDTLPLWHEEL  164 (184)
Q Consensus       152 ~~~~~~~~~~~~~  164 (184)
                      ++++|++++++++
T Consensus       222 l~~~ei~~~l~~i  234 (234)
T d1irue_         222 FTKEELEEVIKDI  234 (234)
T ss_dssp             CCHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHhC
Confidence            8899999988764

>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=7e-36  Score=240.46  Aligned_cols=161  Identities=16%  Similarity=0.236  Sum_probs=146.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHH-HHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLH-QHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIY   75 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~-~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly   75 (184)
                      ||+|++ ||..+|++.++++++.+++ .|+..++.+++++.+|+.++++++.+     .|||+|++||||+|+++||+||
T Consensus        70 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly  148 (250)
T d1rypb_          70 DIGAVY-SGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLY  148 (250)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEE
T ss_pred             CEEEEe-eecccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEE
Confidence            799999 9999999999999999987 48999999999999999999998654     3799999999999987789999


Q ss_pred             EECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcE-------
Q 029964           76 GVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVS-------  148 (184)
Q Consensus        76 ~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~-------  148 (184)
                      .+||+|++.+++++|+|+|+++++++||++|+++||++||++++++||+.+.++|. ++.+++|++|+++++.       
T Consensus       149 ~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~vi~~~~~~~~~~~~v  227 (250)
T d1rypb_         149 QVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NGDTIELAIIGDENPDLLGYTGI  227 (250)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCC-STTTEEEEEECSCCGGGTSEESC
T ss_pred             EEcCcEEEEEeeEEecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhhccC-CCCCEEEEEEeCCCccccccccc
Confidence            99999999999999999999999999999999999999999999999999999996 5788999999998752       


Q ss_pred             -------EEeecCCCCchhhhhc
Q 029964          149 -------RKFYPGDTLPLWHEEL  164 (184)
Q Consensus       149 -------~~~~~~~~~~~~~~~~  164 (184)
                             ++.++++||+++++.+
T Consensus       228 ~~~~~~~fr~ls~eei~~~l~~l  250 (250)
T d1rypb_         228 PTDKGPRFRKLTSQEINDRLEAL  250 (250)
T ss_dssp             SSCCCCSEEECCHHHHHHHHTTC
T ss_pred             ccccCCceEECCHHHHHHHHHhC
Confidence                   3447777777777653

>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=9.6e-36  Score=238.87  Aligned_cols=163  Identities=17%  Similarity=0.199  Sum_probs=150.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.++++++.++..|+++++.+++++.+++.+++.+|.+     +|||+|++|+||+|+  +|+||.
T Consensus        70 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~--~p~Ly~  146 (243)
T d1j2pa_          70 HICAAT-SGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE--VPKLYE  146 (243)
T ss_dssp             SEEEEE-EECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS--SEEEEE
T ss_pred             cEEEEe-eecccHHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC--CceEEE
Confidence            799999 999999999999999999999999999999999999999999754     479999999999985  699999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +||+|++.+++++|+|+|++.++++||+.|+++||++||++++++||+.+.++|..+ +++||++|++++...+.++++|
T Consensus       147 ~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~~~-~~iei~iv~~~~~~~~~l~~~e  225 (243)
T d1j2pa_         147 TDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVP-ENIEVGYVKVDDRTFKEVSPEE  225 (243)
T ss_dssp             ECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCCG-GGEEEEEEETTTCCCEECCHHH
T ss_pred             EeccCceeeeeEEEeCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhcccCC-CceEEEEEEeCCCcEEECCHHH
Confidence            999999999999999999999999999999999999999999999999999999764 6899999998754455699999


Q ss_pred             CchhhhhcCChh
Q 029964          157 LPLWHEELEPQN  168 (184)
Q Consensus       157 ~~~~~~~~~~~~  168 (184)
                      ++++++.+.++.
T Consensus       226 i~~~~~~~~e~~  237 (243)
T d1j2pa_         226 LKPYVERANERI  237 (243)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999987765543

>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=1.3e-35  Score=238.57  Aligned_cols=143  Identities=12%  Similarity=0.062  Sum_probs=136.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.+++++|.+++.|++++|++++++.+|+.+++++|.+     .|||+|++||||+|+++||+||.
T Consensus        72 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~  150 (245)
T d1irug_          72 HVGMAV-AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYM  150 (245)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEE
T ss_pred             CEEEEe-ccCchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEE
Confidence            899999 999999999999999999999999999999999999999998765     37999999999999877999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE  145 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd  145 (184)
                      +||+|++.+++++|+|+|++.++++||+.|+++||.+||++++++||..+.+++..++.++||++|+++
T Consensus       151 iDp~G~~~~~~~~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~  219 (245)
T d1irug_         151 IDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGEL  219 (245)
T ss_dssp             ECTTCCEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTT
T ss_pred             EcCCceEEeeeEEEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEec
Confidence            999999999999999999999999999999999999999999999999999888887888999999986

>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=1.2e-35  Score=237.98  Aligned_cols=164  Identities=19%  Similarity=0.227  Sum_probs=149.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----------CCceeEEEEEEEEeCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----------KNFLQTGMIVGGWDKYE   70 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----------r~p~~vs~iiaG~D~~~   70 (184)
                      ||+|++ ||..+|++.++++++.+++.|+++++++++++.+++.+++++|.+           +|||+|++||+|+|+++
T Consensus        65 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~  143 (242)
T d1rype_          65 HIGCAM-SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADD  143 (242)
T ss_dssp             TEEEEE-EESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTT
T ss_pred             CEEEEE-eecchhHHHHHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEecccc
Confidence            799999 999999999999999999999999999999999999999988643           37999999999999877


Q ss_pred             CcEEEEECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEE
Q 029964           71 GGKIYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRK  150 (184)
Q Consensus        71 gp~Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~  150 (184)
                      +|+||++||+|++++++++|+|+|+++++++||++|+++||++||++++++||+.+.++|..+ ++++|++|+++... +
T Consensus       144 ~p~L~~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~~-~~~~v~~i~~~~g~-~  221 (242)
T d1rype_         144 GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDE-NNAQLSCITKQDGF-K  221 (242)
T ss_dssp             EEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCT-TSEEEEEEETTTEE-E
T ss_pred             ceEEEEEcCCCceeccceeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCC-CceEEEEEECCCCe-E
Confidence            899999999999999999999999999999999999999999999999999999999988754 57999999875433 3


Q ss_pred             eecCCCCchhhhhcCChh
Q 029964          151 FYPGDTLPLWHEELEPQN  168 (184)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~  168 (184)
                      .+++++++.++.++..+.
T Consensus       222 ~l~~~~i~~~~~~i~e~~  239 (242)
T d1rype_         222 IYDNEKTAELIKELKEKE  239 (242)
T ss_dssp             ECCHHHHHHHHHHHHHHH
T ss_pred             ECCHHHHHHHHHHHHHhh
Confidence            588999999887776553

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.3e-34  Score=224.42  Aligned_cols=153  Identities=20%  Similarity=0.224  Sum_probs=143.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-CCceeEEEEEEEEeCC-CCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-KNFLQTGMIVGGWDKY-EGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-r~p~~vs~iiaG~D~~-~gp~Ly~id~   79 (184)
                      ||+|++ +|..+|++.+.+++|.+++.|+++++.+++++.+|+++++.+|.+ ++|++|++|++|+|+. +.|+||++||
T Consensus        47 ~i~~~~-~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~~~~p~~v~~li~G~d~~~g~~~L~~~D~  125 (204)
T d1rypj_          47 HVFLGI-TGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDL  125 (204)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECT
T ss_pred             CEEEEe-cCcchHHHHHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhcccceeeeEEEEEEecCCCcceEEEeCC
Confidence            789999 999999999999999999999999999999999999999999987 5699999999999964 4589999999


Q ss_pred             CCceeee-CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCC
Q 029964           80 GGTIIEQ-PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGD  155 (184)
Q Consensus        80 ~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~  155 (184)
                      +|++.++ .++++|+|+++++++|++.|+++||.+||++++++||..+.+||..++++++|++|++||+.++.++..
T Consensus       126 ~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~ea~~l~~~al~~a~~~d~~sg~~~~v~ii~kdg~~~~~~~l~  202 (204)
T d1rypj_         126 IGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAVVYIIKKDEVVKRYLKMR  202 (204)
T ss_dssp             TCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEEEEECCC
T ss_pred             CCccccccCcEEeecchHHHHHHHHhccccCCCHHHHHHHHHHHHHHHHHhcCccCCeEEEEEEECCceEEEEeccC
Confidence            9999876 478889999999999999999999999999999999999999999999999999999999988777654

>d1yara1 d.153.1.4 (A:13-233) Proteasome alpha subunit (non-catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=2.5e-35  Score=233.16  Aligned_cols=156  Identities=18%  Similarity=0.256  Sum_probs=144.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      |++|++ +|..+|++.+.+++|.+++.|++.++++++++.+++.++++++.+     .|||++++|+||+|++ ||+||+
T Consensus        61 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~-gp~Ly~  138 (221)
T d1yara1          61 YVAAVT-SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFD  138 (221)
T ss_dssp             TEEEEE-EEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSS-CEEEEE
T ss_pred             CceEEe-eeccchHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecC-CCeEEE
Confidence            799999 999999999999999999999999999999999999999998764     4799999999999985 999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +||+|++.+++++|+|+|++.++++||++|+++||.+||++++++||+.+.++|. ++++++|++|++++.. +.++++|
T Consensus       139 id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~-~~~~~ei~~i~~~~~~-r~l~~~e  216 (221)
T d1yara1         139 CDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKY-RIYDQEE  216 (221)
T ss_dssp             ECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCC-EECCHHH
T ss_pred             EcCCccEEEeeEEEECCchHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEcCCCE-EECCHHH
Confidence            9999999999999999999999999999999999999999999999999998875 5668999999987765 3588888


Q ss_pred             Cchhh
Q 029964          157 LPLWH  161 (184)
Q Consensus       157 ~~~~~  161 (184)
                      +++++
T Consensus       217 i~~~l  221 (221)
T d1yara1         217 VKKFL  221 (221)
T ss_dssp             HHTTC
T ss_pred             HHHhC
Confidence            87664

>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=5.5e-34  Score=222.70  Aligned_cols=154  Identities=19%  Similarity=0.242  Sum_probs=143.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-CCceeEEEEEEEEeCC-CCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-KNFLQTGMIVGGWDKY-EGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-r~p~~vs~iiaG~D~~-~gp~Ly~id~   79 (184)
                      ||+|++ +|..+|++.+.+++|.+++.|+++++.+++++.+|+++++++|.+ ++||+|++||||+|++ .+|.+|.+|+
T Consensus        47 ~i~~~~-sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~D~~~~~~~~~~~d~  125 (204)
T d1iruj_          47 RLYIGL-AGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDL  125 (204)
T ss_dssp             TEEEEC-CSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEECT
T ss_pred             CeEEEe-ccCchHHHHHHHHHHHhhhhhhhhcccccchHHHHHHHHHHHHHhhhccceeEEEEEEEcCCCCceEEEEecC
Confidence            799999 999999999999999999999999999999999999999999987 4699999999999975 3678999999


Q ss_pred             CCceeee-CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           80 GGTIIEQ-PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        80 ~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      .|....+ .++++|+|+++++++|++.|+++||.+||++++++||+.+.+||..++++++|++|++||++++.++..+
T Consensus       126 ~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~ea~~l~~~al~~a~~rd~~sg~~~~v~ii~k~gi~~~~~~~r~  203 (204)
T d1iruj_         126 IGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKITTRTLKARM  203 (204)
T ss_dssp             TCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEEEEEBCCCC
T ss_pred             CCceeeecceEEechhHHHHHHHHHhccccCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEeCCCEEEEEEecCC
Confidence            9987654 6799999999999999999999999999999999999999999999999999999999999987776543

>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=1.1e-34  Score=232.61  Aligned_cols=161  Identities=17%  Similarity=0.219  Sum_probs=144.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||..+|++.+++++|.+++.|++++|.+++++.+|+++++++|.+     +|||+|++||+|+|+++||+||.
T Consensus        67 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~  145 (243)
T d1irud_          67 NVCMAF-AGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQ  145 (243)
T ss_dssp             SCEEEE-EECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEE
T ss_pred             CEEEEE-EEchhhHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEE
Confidence            799999 999999999999999999999999999999999999999998753     58999999999999877999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCC--CHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGM--TKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPG  154 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~--s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~  154 (184)
                      +||+|++.+++++|+|+|++.++++||+.|+++|  +.++++++++++|..   ++..++.+++|++|++++.. +.+++
T Consensus       146 idp~G~~~~~~~~a~G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~---~~~~~~~~vei~ii~k~~~~-~~l~~  221 (243)
T d1irud_         146 TDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLE---VVQSGGKNIELAVMRRDQSL-KILNP  221 (243)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHT---TSCTTSTTCCEEEEESSSCE-ECCCH
T ss_pred             ecCcEEEEeccEEEECCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHH---HhcCCCCcEEEEEEECCCCE-EECCH
Confidence            9999999999999999999999999999999988  667788887777764   44456778999999998554 45889


Q ss_pred             CCCchhhhhcCCh
Q 029964          155 DTLPLWHEELEPQ  167 (184)
Q Consensus       155 ~~~~~~~~~~~~~  167 (184)
                      +||++|+++++..
T Consensus       222 ~eI~~~l~~i~~~  234 (243)
T d1irud_         222 EEIEKYVAEIEKE  234 (243)
T ss_dssp             HHHHHHTTTTTTT
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999777654

>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=2.4e-34  Score=230.32  Aligned_cols=161  Identities=15%  Similarity=0.197  Sum_probs=148.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCC-CCcEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKY-EGGKIY   75 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~-~gp~Ly   75 (184)
                      ||+|++ ||..+|++.+++++|.+++.|+++++++++++.+|+.+++++|.+     +|||+|++|+||+|+. +||+||
T Consensus        68 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly  146 (241)
T d1rypd_          68 HVVLSF-SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLY  146 (241)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEE
T ss_pred             CEEEEe-eeccchHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEE
Confidence            799999 999999999999999999999999999999999999999998764     4799999999999964 689999


Q ss_pred             EECCCCceeeeCeEEEecChhhHHHHhhhhhcC---CCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEee
Q 029964           76 GVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKE---GMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFY  152 (184)
Q Consensus        76 ~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~---~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~  152 (184)
                      .+||+|++.+++++|+|+|++.++++||+.|++   +||.+||++++++||+.+.+++   +.+++|++|++|+.. +.+
T Consensus       147 ~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~~---~~~iei~ii~~d~~~-~~l  222 (241)
T d1rypd_         147 QTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTG---AKNIEITVVKPDSDI-VAL  222 (241)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCSC---STTEEEEEEETTTEE-EEC
T ss_pred             EecCCEEEEeeCeEEECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcCC---CCcEEEEEEECCCCE-EEC
Confidence            999999999999999999999999999999965   6999999999999999887654   568999999999765 458


Q ss_pred             cCCCCchhhhhcCCh
Q 029964          153 PGDTLPLWHEELEPQ  167 (184)
Q Consensus       153 ~~~~~~~~~~~~~~~  167 (184)
                      +.+|+++++.+++++
T Consensus       223 ~~~ei~~~l~~i~~~  237 (241)
T d1rypd_         223 SSEEINQYVTQIEQE  237 (241)
T ss_dssp             CHHHHHHHHHHHTHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            899999999888765

>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=3e-34  Score=230.27  Aligned_cols=162  Identities=18%  Similarity=0.149  Sum_probs=147.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ ||+.+|++.++++++.+++.|++.++++++++.+++.+++++|.+     +|||+|++|+||||++ ||+||.
T Consensus        69 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~-gp~Ly~  146 (244)
T d1rypg_          69 HIGCVY-SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKN-GAHLYM  146 (244)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETT-EEEEEE
T ss_pred             ceEEEE-ccchhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCC-CCEEEE
Confidence            799999 999999999999999999999999999999999999999999764     4799999999999985 999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhh---hhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCC--CcEEEe
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQ---AWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSE--GVSRKF  151 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~---~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkd--g~~~~~  151 (184)
                      +||+|++.+++++|+|+|+..++++||+   .|+++||++||++++++||..+.+++..++.+++|++|+.+  +..++.
T Consensus       147 idp~Gs~~~~~~~a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~~~~~~~~~  226 (244)
T d1rypg_         147 LEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKF  226 (244)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEE
T ss_pred             EcCCccEEecCeEecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEEcCCCeEEE
Confidence            9999999999999999999999999996   69999999999999999999999988888889999999853  223456


Q ss_pred             ecCCCCchhhhhcC
Q 029964          152 YPGDTLPLWHEELE  165 (184)
Q Consensus       152 ~~~~~~~~~~~~~~  165 (184)
                      ++.++++..++.++
T Consensus       227 ~~~e~~~~~~~~~~  240 (244)
T d1rypg_         227 VKGDLLQEAIDFAQ  240 (244)
T ss_dssp             CCTHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            77777777766554

>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=2.3e-33  Score=221.43  Aligned_cols=153  Identities=20%  Similarity=0.267  Sum_probs=143.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHHHHcCC-CceeEEEEEEEEeCCCCcEEEEECC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLG-QPATVKVAANLVRLLSYNNK-NFLQTGMIVGGWDKYEGGKIYGVPL   79 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~-~~i~~~~la~~is~~~~~~r-~p~~vs~iiaG~D~~~gp~Ly~id~   79 (184)
                      ||+|++ ||..+|++.+.+++|.+++.|+++++ ..+++..++++++..+|..+ +||+|+++|+|+|++++|+||.+||
T Consensus        49 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~Ly~~D~  127 (222)
T d1ryp1_          49 NIVMSA-NGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDP  127 (222)
T ss_dssp             TCEEEE-EESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECT
T ss_pred             CEEEEe-ccChHHHHHHHHHHHHHhhhhhhhcCCCCCcHHHHHHHHHHHHHhhhhhhheeeeeEEEEeCCCCeEEEEECC
Confidence            799999 99999999999999999999998876 57899999999999988764 7999999999999987899999999


Q ss_pred             CCceeeeCeEEEecChhhHHHHhhhhhc-----------------CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           80 GGTIIEQPFAIGGSGSSYLYGFFDQAWK-----------------EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        80 ~G~~~~~~~~a~G~gs~~a~~~Le~~~~-----------------~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      +|++.+++++|+|+|+++++++||+.|+                 ++||.+||++++++||+.+.+||+.++++++|++|
T Consensus       128 ~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~ii  207 (222)
T d1ryp1_         128 VGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIV  207 (222)
T ss_dssp             TSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEE
T ss_pred             CcEEEEeceEEEcccHHHHHHHHHHhhccccccCcccchhhhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEEEE
Confidence            9999999999999999999999999987                 67999999999999999999999999999999999


Q ss_pred             eCCCcEEEeecCC
Q 029964          143 NSEGVSRKFYPGD  155 (184)
Q Consensus       143 tkdg~~~~~~~~~  155 (184)
                      |+||++++.++..
T Consensus       208 tkdGv~~~~~~l~  220 (222)
T d1ryp1_         208 TKDGVRKEFYELK  220 (222)
T ss_dssp             ETTEEEEEEEECC
T ss_pred             eCCCEEEEEEecC
Confidence            9999988766543

>d1irub_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.3e-34  Score=228.87  Aligned_cols=158  Identities=11%  Similarity=0.137  Sum_probs=148.0

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-----CCceeEEEEEEEEeCCCCcEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-----KNFLQTGMIVGGWDKYEGGKIYG   76 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-----r~p~~vs~iiaG~D~~~gp~Ly~   76 (184)
                      ||+|++ +|..+|++.++++++.+++.|+++++++++++.+++.+++++|.+     ++|++++++++|+|+ +||+||.
T Consensus        70 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~-~~~~ly~  147 (233)
T d1irub_          70 HIGLVY-SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNE-GRPYLFQ  147 (233)
T ss_dssp             SEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECS-SSEEEEE
T ss_pred             ceEEEE-eccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeeccc-CCceEEE
Confidence            799999 999999999999999999999999999999999999999998653     479999999999998 5999999


Q ss_pred             ECCCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCC
Q 029964           77 VPLGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDT  156 (184)
Q Consensus        77 id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~  156 (184)
                      +||+|++.+++++|+|+|+++++++||+.|+++||++||++++++||+.+.++|.. +++++|++|+++|+++  ++++|
T Consensus       148 id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~~-~~~vev~ii~~~g~~~--l~~~e  224 (233)
T d1irub_         148 SDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMT-EDNIEVGICNEAGFRR--LTPTE  224 (233)
T ss_dssp             ECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCC-SSSEEEEEEETTEEEE--CCHHH
T ss_pred             EcCCcceEeccceecCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccCC-CCcEEEEEEeCCCeEE--CCHHH
Confidence            99999999999999999999999999999999999999999999999999999985 5679999999999754  88999


Q ss_pred             Cchhhhhc
Q 029964          157 LPLWHEEL  164 (184)
Q Consensus       157 ~~~~~~~~  164 (184)
                      |++++..+
T Consensus       225 I~~~l~~i  232 (233)
T d1irub_         225 VKDYLAAI  232 (233)
T ss_dssp             HHHHHTTC
T ss_pred             HHHHHHHh
Confidence            99988654

>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=2e-33  Score=223.57  Aligned_cols=162  Identities=15%  Similarity=0.100  Sum_probs=145.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHh-----CCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeCCCCcE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQL-----GQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDKYEGGK   73 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~-----~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~~~gp~   73 (184)
                      ||+|++ +|..+|++.+.++++.++..|++++     +..++++.+++++++++|..   .+||+|+++|+|+|++++|.
T Consensus        48 ~i~~~~-sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~y~~~~~~~P~~~~~liaG~d~~g~~~  126 (233)
T d1ryp2_          48 NTVVGI-SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQF  126 (233)
T ss_dssp             TEEEEE-EEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEE
T ss_pred             CEEEEe-ccCchHHHHHHHHHHHHHHHHHHhhCCCCCCcccCHHHHHHHHHHHHHhhccccCCceeEEEEEEEcCCCCeE
Confidence            799999 9999999999999999999999877     56789999999999998864   47999999999999988899


Q ss_pred             EEEECCCCceeeeCeEEEecChhhHHHHhhhhhc-----CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcE
Q 029964           74 IYGVPLGGTIIEQPFAIGGSGSSYLYGFFDQAWK-----EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVS  148 (184)
Q Consensus        74 Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~-----~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~  148 (184)
                      ||.+||+|++.+++++|+|+|+++++++||+.|+     ++|+.+||++++++||+.+.+||+.++++++|++|++|+..
T Consensus       127 ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~g~  206 (233)
T d1ryp2_         127 LRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGL  206 (233)
T ss_dssp             EEEEETTCCEECCSEEECTHHHHHHHHHHTTTCCSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEE
T ss_pred             EEEEcCCCcEEeeeeEEecCccHHHHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCCCE
Confidence            9999999999999999999999999999999998     68999999999999999999999999999999999998544


Q ss_pred             EEeecCCCCch-hhhhcC
Q 029964          149 RKFYPGDTLPL-WHEELE  165 (184)
Q Consensus       149 ~~~~~~~~~~~-~~~~~~  165 (184)
                      + ++.+++++. -|+.++
T Consensus       207 ~-~~~~~~ie~~~~~~a~  223 (233)
T d1ryp2_         207 T-FKKNLQVENMKWDFAK  223 (233)
T ss_dssp             E-EEEEEECCSCCCGGGG
T ss_pred             E-ECChhcchhhhhhHhh
Confidence            3 466677754 344443

>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=6e-33  Score=218.63  Aligned_cols=160  Identities=17%  Similarity=0.143  Sum_probs=146.2

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHH-HhCCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeCCCCcEEEEE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTI-QLGQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDKYEGGKIYGV   77 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~-~~~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~~~gp~Ly~i   77 (184)
                      |++||+ +|..+|++.+.+.++.++..|+. .++.+++++.+++++++.+|.+   .+|+++++|++|+|. ++|+||.+
T Consensus        48 ~i~~~~-sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~y~~~~~~~p~~~~~li~G~d~-~~~~l~~~  125 (217)
T d1iru2_          48 STMLGA-SGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYAD-GESFLGYV  125 (217)
T ss_dssp             TEEEEE-EEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEET-TEEEEEEE
T ss_pred             CeEEEe-ccccHHHHHHHHHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHHHHhccccCcccceEEEEEEcC-CCcEEEEE
Confidence            789999 99999999999999999988875 5678999999999999998864   479999999999997 59999999


Q ss_pred             CCCCceeeeCeEEEecChhhHHHHhhhhhc--CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCC
Q 029964           78 PLGGTIIEQPFAIGGSGSSYLYGFFDQAWK--EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGD  155 (184)
Q Consensus        78 d~~G~~~~~~~~a~G~gs~~a~~~Le~~~~--~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~  155 (184)
                      ||+|++.++++.|+|+|+.+++++||+.|+  ++||.+||++++++||+.+.+||..++++++|++|+++|+++  .++.
T Consensus       126 D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G~~~--~~~~  203 (217)
T d1iru2_         126 DMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEI--EGPL  203 (217)
T ss_dssp             CSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEE--EEEE
T ss_pred             ecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCCCEEE--cCCe
Confidence            999999999999999999999999999765  799999999999999999999999999999999999999975  5667


Q ss_pred             CCchhhhhcC
Q 029964          156 TLPLWHEELE  165 (184)
Q Consensus       156 ~~~~~~~~~~  165 (184)
                      +++.-|+..+
T Consensus       204 ~~~~~~~~a~  213 (217)
T d1iru2_         204 STETNWDIAH  213 (217)
T ss_dssp             CCCCCCGGGG
T ss_pred             eccccHHHHh
Confidence            7777776543

>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=2.3e-33  Score=222.98  Aligned_cols=160  Identities=10%  Similarity=0.116  Sum_probs=136.4

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH----cCCCceeEEEEEEEEeCC---CCcE
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQ-PATVKVAANLVRLLSY----NNKNFLQTGMIVGGWDKY---EGGK   73 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~-~i~~~~la~~is~~~~----~~r~p~~vs~iiaG~D~~---~gp~   73 (184)
                      ||+||+ ||+.+|++.+++++|.+++.|+++++. +++++.+++.++++++    ...|||+|++|+||||..   +||+
T Consensus        51 ~i~~~~-sG~~aD~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~~~~~rP~gvs~lvaG~D~~g~~~~p~  129 (227)
T d1q5qa_          51 RLGFAA-VGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQ  129 (227)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCE
T ss_pred             ceEEEe-cCchHHHHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEecCCCCCCCE
Confidence            899999 999999999999999999999999985 6899999999998753    235799999999999963   4799


Q ss_pred             EEEECCCCceeeeCe-EEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCC----CCCeEEEEEEeCCCcE
Q 029964           74 IYGVPLGGTIIEQPF-AIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGA----SGGVVRTVTINSEGVS  148 (184)
Q Consensus        74 Ly~id~~G~~~~~~~-~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~----s~~~iev~iitkdg~~  148 (184)
                      ||.+||+|++.++++ ++.|+++..++++|+++|+++||++||++++++||+.+.++|..    ++.++||++++++|+.
T Consensus       130 Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~Le~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~  209 (227)
T d1q5qa_         130 LYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPR  209 (227)
T ss_dssp             EEEEETTSCEEEESSEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSS
T ss_pred             EEEEccccceeeecccccCCCchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCc
Confidence            999999999988775 55666788999999999999999999999999999999998853    4568999999999863


Q ss_pred             --EEeecCCCCchhhh
Q 029964          149 --RKFYPGDTLPLWHE  162 (184)
Q Consensus       149 --~~~~~~~~~~~~~~  162 (184)
                        ++.++++||+.+++
T Consensus       210 ~~fr~l~~~ei~~~l~  225 (227)
T d1q5qa_         210 RAFRRIAGTALEQLVP  225 (227)
T ss_dssp             CCEEECCHHHHHTTSC
T ss_pred             cceEEcCHHHHHHHhc
Confidence              34588999888775

>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=5.1e-32  Score=208.27  Aligned_cols=154  Identities=19%  Similarity=0.274  Sum_probs=144.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC---CCceeEEEEEEEEeCCCCcEEEEEC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN---KNFLQTGMIVGGWDKYEGGKIYGVP   78 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~---r~p~~vs~iiaG~D~~~gp~Ly~id   78 (184)
                      ||+|++ +|..+|++.+.+++|.+++.|+.+++.+++++.+++.+++.+|.+   ++|++++++++|+|+.++|+||.+|
T Consensus        41 ~i~~~~-~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~aG~d~~~~~~l~~~~  119 (199)
T d1iruk_          41 KILLLC-VGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMD  119 (199)
T ss_dssp             SEEEEE-EESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEEC
T ss_pred             cEEEEe-cccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHHHHHHHHHHHHhhccCCcceeeeecceeccCCceEEeec
Confidence            789999 999999999999999999999999999999999999999988753   4699999999999998789999999


Q ss_pred             CCCceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEeecCCCCc
Q 029964           79 LGGTIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKFYPGDTLP  158 (184)
Q Consensus        79 ~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~~~~~~~~  158 (184)
                      |.|.+.+.++.++|+|+++++++|++.|+++|+++||++++++||+.+.++|+.++++++|++|+++|+++  +++..++
T Consensus       120 ~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l~~~al~~~~~~d~~sg~~~~v~vv~~~g~~~--~~~~~~~  197 (199)
T d1iruk_         120 YLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVRIIDKNGIHD--LDNISFP  197 (199)
T ss_dssp             TTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEEETTEEEC--CCCBCCC
T ss_pred             ccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCcCCceEEEEEcCCCeEE--cCCccCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999875  5555544

>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=99.98  E-value=4.2e-31  Score=206.08  Aligned_cols=154  Identities=19%  Similarity=0.193  Sum_probs=145.3

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC-CCceeEEEEEEEEeCCCCcEEEEECCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN-KNFLQTGMIVGGWDKYEGGKIYGVPLG   80 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~-r~p~~vs~iiaG~D~~~gp~Ly~id~~   80 (184)
                      |++|++ +|..+|++.+.+++|.+++.|+.+++.++++..+++++++.+|.+ ++|++++.+++|+|..++|.+|.+||.
T Consensus        49 ~i~~~~-aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~d~~~~~~l~~~d~~  127 (213)
T d1iru1_          49 KTVIGC-SGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPV  127 (213)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTT
T ss_pred             CEEEEe-cCccchHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHhhhcccccceEEEecCCCcEEEecCCc
Confidence            799999 999999999999999999999999999999999999999999987 469999999999999889999999999


Q ss_pred             CceeeeCeEEEecChhhHHHHhhhhhc---------CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEeCCCcEEEe
Q 029964           81 GTIIEQPFAIGGSGSSYLYGFFDQAWK---------EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTINSEGVSRKF  151 (184)
Q Consensus        81 G~~~~~~~~a~G~gs~~a~~~Le~~~~---------~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~iitkdg~~~~~  151 (184)
                      |++.++++.++|+|+.++++.||+.|+         ++||++||++++++||..+.++|+.++++++|++|++||++++.
T Consensus       128 g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G~~~~~  207 (213)
T d1iru1_         128 GSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIREET  207 (213)
T ss_dssp             SCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEEEE
T ss_pred             ceeeecCeeeecCccHHHHHHHHHhhcccchhcccccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCCEEEEE
Confidence            999999999999999999999998764         68999999999999999999999999999999999999998776


Q ss_pred             ecCCC
Q 029964          152 YPGDT  156 (184)
Q Consensus       152 ~~~~~  156 (184)
                      ++..+
T Consensus       208 ~~~r~  212 (213)
T d1iru1_         208 VSLRK  212 (213)
T ss_dssp             EECCC
T ss_pred             EeccC
Confidence            65443

>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=99.97  E-value=1.8e-31  Score=210.52  Aligned_cols=161  Identities=19%  Similarity=0.169  Sum_probs=146.9

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcC----CCceeEEEEEEEEe-----CCCCc
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNN----KNFLQTGMIVGGWD-----KYEGG   72 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~----r~p~~vs~iiaG~D-----~~~gp   72 (184)
                      |++|++ +|..+|++.+.+.++.+++.|++.++.++++..+++++++.+|.+    .+|+++.++++|++     ..++|
T Consensus        40 ~i~~~~-sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~g~d~~~~~  118 (224)
T d1q5qh_          40 YSAAGI-AGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAG  118 (224)
T ss_dssp             TEEEEE-EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCE
T ss_pred             cEEEEe-cccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHHHHHHHHHHHhhcccccCccceeeEEEeecccccccCCc
Confidence            799999 999999999999999999999999999999999999999999876    36888888888876     44689


Q ss_pred             EEEEECCCCceeee--CeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCe-------EEEEEEe
Q 029964           73 KIYGVPLGGTIIEQ--PFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGV-------VRTVTIN  143 (184)
Q Consensus        73 ~Ly~id~~G~~~~~--~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~-------iev~iit  143 (184)
                      +||.+||+|+...+  ++.|+|+|+.+++++||++|+++||.+||++++++||+.+.+||..||+.       +++++++
T Consensus       119 ~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt~~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~  198 (224)
T d1q5qh_         119 RIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTIT  198 (224)
T ss_dssp             EEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEE
T ss_pred             eEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEe
Confidence            99999999998765  77999999999999999999999999999999999999999999998864       7899999


Q ss_pred             CCCcEEEeecCCCCchhhhhcC
Q 029964          144 SEGVSRKFYPGDTLPLWHEELE  165 (184)
Q Consensus       144 kdg~~~~~~~~~~~~~~~~~~~  165 (184)
                      ++|+++  ++++++..+++++.
T Consensus       199 ~~g~~~--l~~~ei~~~~~~~~  218 (224)
T d1q5qh_         199 QAGAVH--VSEETTSELARRIV  218 (224)
T ss_dssp             TTEEEE--CCHHHHHHHHHHHH
T ss_pred             CCcEEE--cCHHHHHHHHHHHH
Confidence            999875  88889988877654

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

Probab=99.69  E-value=5.9e-18  Score=128.14  Aligned_cols=133  Identities=14%  Similarity=-0.088  Sum_probs=96.1

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      .++++. +|..+|.+.+.+.++.+...+.............+.......|.++.++.+....+|++.. ++.++..++.|
T Consensus        47 ~~~~~~-~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  124 (180)
T d2z3ba1          47 KVLAGF-AGSVADAFTLFEKFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVS-GTGEVIEPDDG  124 (180)
T ss_dssp             TEEEEE-CSCHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTGGGCCCCEEEECSSCEEEEC-TTCCEECCSSS
T ss_pred             ceeccc-chHHHHHHHHHHHHHHHHHhhccccchhHHHHHHHHhHHHHHHHhhcceeeeecccccccc-CCceeeccccc
Confidence            478888 9999999999999887776554322222222222222111222333455555555555553 55555555544


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                            +.|+|+|+.+|++.|++.|+++||.+||++|+++||+.|.++|..++++++|..|
T Consensus       125 ------~~a~GSGs~~A~g~l~~~~~~~~s~~eA~~l~~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         125 ------ILAIGSGGNYALAAGRALKKHAGESMSASEIARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             ------EEEESTTHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             ------EEEEcCchHHHHHHHHHHhhcCCCccCHHHHHHHHHHHHHhhcEEcCCcEEEEEe
Confidence                  7899999999999999999999999999999999999999999999999998776

>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=99.53  E-value=5.7e-14  Score=104.69  Aligned_cols=131  Identities=13%  Similarity=-0.070  Sum_probs=94.7

Q ss_pred             cEEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCCceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            2 NIDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKNFLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         2 ~I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      |++++. +|..+|.+.+.+.+..+...+..  +   .........+..+..++.++....++.+.+. ++|.++..|+.|
T Consensus        40 ~~~~~~-~g~~ad~~~~~~~~~~~~~~~~~--~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~d~~g  112 (171)
T d1m4ya_          40 GKVLAG-FAGSVADAMTLFDRFEAKLREWG--G---NLTKAAVELAKDWRTDRVLRRLEALLLVADK-ENIFIISGNGEV  112 (171)
T ss_dssp             TTEEEE-EESCHHHHHHHHHHHHHHHHHTT--T---CHHHHHHHHHHHHHHCTTGGGCCCEEEEECS-SCEEEECTTSCE
T ss_pred             CcEEEE-EeechhhHHHHHHHHHHHHHHhh--c---cchhhHHHHHHHHHHhhhhcccccccceecC-CcceEEecCCce
Confidence            578889 99999999988877666554332  1   1222222222222222222222233344555 599999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhc-CCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWK-EGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~-~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      .....++.|+|+|+.+|++.|+..|+ ++++   |.+++++||+.|.++|..++++++|..|
T Consensus       113 ~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~---a~el~~~Ai~~A~e~dvyTg~~~~i~~~  171 (171)
T d1m4ya_         113 IQPDDDAAAIGSGGPYALAAAKALLRNTDLS---AREIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             ECCSSSEEEESTTHHHHHHHHHHHHHHCCCC---HHHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             eeecCCEEEEcchHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhhceEcCCcEEEEEC
Confidence            99999999999999999999999765 5774   7778999999999999999999988643

>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=99.48  E-value=6.5e-14  Score=104.64  Aligned_cols=130  Identities=15%  Similarity=-0.036  Sum_probs=91.6

Q ss_pred             EEEEccCCchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHcCCC-ceeEEEEEEEEeCCCCcEEEEECCCC
Q 029964            3 IDCLRLLFQAADSQTVSDYVRYFLHQHTIQLGQPATVKVAANLVRLLSYNNKN-FLQTGMIVGGWDKYEGGKIYGVPLGG   81 (184)
Q Consensus         3 I~~~~~sG~~aD~~~l~~~lr~~~~~~~~~~~~~i~~~~la~~is~~~~~~r~-p~~vs~iiaG~D~~~gp~Ly~id~~G   81 (184)
                      ++|+. +|...+.+.+.+..+.+..     .. ..+....+..++..++..+. +... ..+.|.+..+++.++..|+.|
T Consensus        42 ~~~~~-~~~~~~~~~~~~~~~~~~~-----~~-~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  113 (173)
T d1g3ka_          42 VLAGF-AGGTADAFTLFELFERKLE-----MH-QGHLLKSAVELAKDWRTDRALRKLE-AMLIVADEKESLIITGIGDVV  113 (173)
T ss_dssp             EEEEE-ESCHHHHHHHHHHHHHHHH-----HT-TTCHHHHHHHHHHHHHHSTTGGGCC-CEEEEECSSCEEEEETTTEEE
T ss_pred             EEEEe-eehhHhHHHHHHHHHHHHH-----hh-cCcchhHHHHHHHHHHHhhhhcccc-cccccccCCCcceecccCceE
Confidence            55666 7777776666554433322     22 22333334444444443332 3333 334455665789999999999


Q ss_pred             ceeeeCeEEEecChhhHHHHhhhhhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Q 029964           82 TIIEQPFAIGGSGSSYLYGFFDQAWKEGMTKEEAEQLVVKAVSLAIARDGASGGVVRTVTI  142 (184)
Q Consensus        82 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~~s~~eai~l~~~~l~~~~~rd~~s~~~iev~ii  142 (184)
                      ...+.++.|+|+|+.+|++.|+.+|+  ++.+||.+++++||+.|.++|..++++++|-.|
T Consensus       114 ~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~ela~~Ai~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_         114 QPEEDQILAIGSGGNYALSAARALVE--NTELSAHEIVEKSLRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             CCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             EecCCCEEEecchHHHHHHHHHHhhh--cCCCCHHHHHHHHHHHHHhhcEEcCCcEEEEEC
Confidence            99999999999999999999998885  344578899999999999999999999988765