Citrus Sinensis ID: 028367

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210
Protein Sequence
MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILHWIQVFLVSQSLLFA
Secondary Structure (PSIPRED)
ccccccccccccccEEccccccHHHHHHHHHHHcccccEEEEEcccEEEEEEEccccccccccccccEEEEEcccEEEEEEccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHcccccHHHHEEEEEEEEcccccEEEEEcccccccccEEEEEccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccHHHHHHHHHcccccccEEEEEccccEEEEEEcccccccEcHHHcccEEEcccccEEEEEccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHEccccccccEEEEEEEEcccEEEEEEEcccccEEEEcEHHccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccccc
Coil and Loop (DISEMBL)
msrgsgggydrhitifspegrlfQVEYAFKAVKAAGvtsigvrgkdsVCVVtqkkvpdklldhtsvthlfPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDeecgprlfkcdpaghffghkvggffnknsiydtfCFLSAIWIYNAIIVYILHWIQVFLVSQSLLFA
Flexible Loop (DISEMBL)
msrgsgggydrhitifspegRLFQVEYAFKAVKAAGvtsigvrgkdsvCVVTQKkvpdklldhtsvthLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILHWIQVFLVSQSLLFA
Low Complexity Region (SEG)
MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAghffghkvggffnknSIYDTFCFLSAIWIYNAIIVYILHWIQVFLVSQSLLFA
Disordered region (IsUnstruct)
********YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILHWIQVFLVSQSLL**
Disordered Region (DISOPRED)
******G****HITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILHWIQVFLVSQSLL**
Disordered Region (DISEMBL)
********YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILHWIQVFLVSQSLLFA
Disordered Region (DISPRO)
**********RHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILHWIQVFLVS****F*
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILHWIQVFLVSQSLLFA
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	210	2.2.26 [Sep-21-2011]
Q9XG77	246	Proteasome subunit alpha	N/A	no	0.780	0.666	0.945	1e-90
O48551	246	Proteasome subunit alpha	no	no	0.780	0.666	0.920	5e-88
O81147	246	Proteasome subunit alpha	yes	no	0.780	0.666	0.896	8e-87
O81146	246	Proteasome subunit alpha	no	no	0.780	0.666	0.878	9e-86
Q9LSU3	246	Proteasome subunit alpha	yes	no	0.780	0.666	0.896	6e-85
Q9QUM9	246	Proteasome subunit alpha	yes	no	0.780	0.666	0.664	4e-63
P60901	246	Proteasome subunit alpha	yes	no	0.780	0.666	0.664	4e-63
P60900	246	Proteasome subunit alpha	yes	no	0.780	0.666	0.664	4e-63
Q2YDE4	246	Proteasome subunit alpha	yes	no	0.780	0.666	0.664	4e-63
O94517	244	Probable proteasome subun	yes	no	0.747	0.643	0.611	9e-54

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

 Score =  332 bits (851), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 155/164 (94%), Positives = 160/164 (97%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD TSV+HLFPITKYLGLLATGMTADARTLVQQAR EAAEFRFKYGYEMPVDVL+KWIAD
Sbjct: 61  LDQTSVSHLFPITKYLGLLATGMTADARTLVQQARNEAAEFRFKYGYEMPVDVLSKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAM+L IDEE GP+LFKCDPAGHFFGHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMILGIDEEKGPQLFKCDPAGHFFGHK 164

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

>sp|O48551|PSA6_SOYBN Proteasome subunit alpha type-6 OS=Glycine max GN=PAA1 PE=2 SV=2

 Score =  323 bits (828), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 151/164 (92%), Positives = 159/164 (96%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGY+RHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRGKDS+CVVT KKVPDKL
Sbjct: 1   MSRGSGGGYNRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSICVVTHKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD+TSVTHLFPITKYLGLLATGMTADARTLVQQAR EAAEFRF YGYEMPVDVLAKWIAD
Sbjct: 61  LDNTSVTHLFPITKYLGLLATGMTADARTLVQQARNEAAEFRFTYGYEMPVDVLAKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAMVL ID+E GP+L+KCDPAGH+FGHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMVLGIDDEYGPQLYKCDPAGHYFGHK 164

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.

Glycine max (taxid: 3847)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  319 bits (818), Expect = 8e-87,   Method: Compositional matrix adjust.
 Identities = 147/164 (89%), Positives = 157/164 (95%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSG GYDRHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGAGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD +SV+HLFP+TKYLGLLATGMTAD+R+LVQQAR EAAEFRF+YGYEMP D+LAKWIAD
Sbjct: 61  LDQSSVSHLFPVTKYLGLLATGMTADSRSLVQQARNEAAEFRFQYGYEMPADILAKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAMVL IDEE GP L+KCDPAGHF+GHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMVLGIDEERGPLLYKCDPAGHFYGHK 164

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  316 bits (809), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 144/164 (87%), Positives = 156/164 (95%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSG GYDRHITIFSPEGRLFQVEYAFKAVK AG+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGAGYDRHITIFSPEGRLFQVEYAFKAVKTAGITSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD +SVTHLFPITKY+GL+ATG+TADAR+LVQQAR +AAEFRF YGYEMPVD+LAKWIAD
Sbjct: 61  LDQSSVTHLFPITKYIGLVATGITADARSLVQQARNQAAEFRFTYGYEMPVDILAKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAMV+ +DEE GP L+KCDPAGHF+GHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMVMGVDEENGPLLYKCDPAGHFYGHK 164

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  313 bits (802), Expect = 6e-85,   Method: Compositional matrix adjust.
 Identities = 147/164 (89%), Positives = 156/164 (95%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRG+G GYDRHITIFSPEGRL+QVEYAFKAVK+AGVTSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGTGAGYDRHITIFSPEGRLYQVEYAFKAVKSAGVTSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LDHTSVTHLFPITKY+GLLATG+TADAR+LV QAR EAAEFRFK+GYEMPVDVLAKWIAD
Sbjct: 61  LDHTSVTHLFPITKYIGLLATGLTADARSLVYQARNEAAEFRFKWGYEMPVDVLAKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           K+QVYTQHAYMRPLGVVAMVL  DEE   +LFKCDPAGHFFGHK
Sbjct: 121 KAQVYTQHAYMRPLGVVAMVLGYDEEKNAQLFKCDPAGHFFGHK 164

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

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  241 bits (614), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 109/164 (66%), Positives = 137/164 (83%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct: 61  LDSSTVTHLFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
            SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPAG++ G K
Sbjct: 121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFK 164

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

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  241 bits (614), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 109/164 (66%), Positives = 137/164 (83%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct: 61  LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
            SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPAG++ G K
Sbjct: 121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFK 164

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

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  241 bits (614), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 109/164 (66%), Positives = 137/164 (83%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct: 61  LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
            SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPAG++ G K
Sbjct: 121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFK 164

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

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  241 bits (614), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 109/164 (66%), Positives = 137/164 (83%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct: 61  LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
            SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPAG++ G K
Sbjct: 121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFK 164

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

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O94517|PSA1_SCHPO Probable proteasome subunit alpha type-1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC646.16 PE=3 SV=1

 Score =  209 bits (533), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 96/157 (61%), Positives = 122/157 (77%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           G+DR IT+FSPEGRL+QVEYAFKA   AG+TS+GV GK+  CV++QKKVPDKL+D ++V 
Sbjct: 6   GFDRTITVFSPEGRLYQVEYAFKAFNNAGITSVGVTGKNCACVISQKKVPDKLIDASTVK 65

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
           H+FPITK +G + TG  ADAR  V +AR EAAEF +K GY MP DVLAK +A+ +QV TQ
Sbjct: 66  HVFPITKGIGCVMTGSIADARAQVSRARSEAAEFEYKNGYPMPCDVLAKRMANIAQVSTQ 125

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
            A MRPLGV   ++++D+E GP LFK DPAG + G+K
Sbjct: 126 RAAMRPLGVAMTLVAVDDEIGPSLFKLDPAGFYIGYK 162

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

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	210
12229948	246	RecName: Full=Proteasome subunit alpha t	0.780	0.666	0.945	6e-89
255583952	246	proteasome subunit alpha type, putative	0.780	0.666	0.951	3e-88
225442079	246	PREDICTED: proteasome subunit alpha type	0.780	0.666	0.932	3e-88
356545355	368	PREDICTED: proteasome subunit alpha type	0.780	0.445	0.932	9e-88
217075112	246	unknown [Medicago truncatula] gi|3885172	0.828	0.707	0.863	3e-87
211906468	246	20S proteasome subunit alpha-1 [Gossypiu	0.780	0.666	0.926	4e-87
359482460	265	PREDICTED: proteasome subunit alpha type	0.780	0.618	0.932	5e-87
357451023	246	Proteasome subunit alpha type [Medicago	0.819	0.699	0.889	8e-87
388517479	246	unknown [Medicago truncatula]	0.819	0.699	0.889	1e-86
118489185	246	unknown [Populus trichocarpa x Populus d	0.780	0.666	0.920	2e-86

>gi|12229948|sp|Q9XG77.1|PSA6_TOBAC RecName: Full=Proteasome subunit alpha type-6; AltName: Full=20S proteasome alpha subunit A; AltName: Full=20S proteasome subunit alpha-1 gi|4539545|emb|CAB39975.1| PRCI [Nicotiana tabacum]

 Score =  332 bits (851), Expect = 6e-89,   Method: Compositional matrix adjust.
 Identities = 155/164 (94%), Positives = 160/164 (97%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD TSV+HLFPITKYLGLLATGMTADARTLVQQAR EAAEFRFKYGYEMPVDVL+KWIAD
Sbjct: 61  LDQTSVSHLFPITKYLGLLATGMTADARTLVQQARNEAAEFRFKYGYEMPVDVLSKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAM+L IDEE GP+LFKCDPAGHFFGHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMILGIDEEKGPQLFKCDPAGHFFGHK 164

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255583952|ref|XP_002532723.1| proteasome subunit alpha type, putative [Ricinus communis] gi|223527531|gb|EEF29654.1| proteasome subunit alpha type, putative [Ricinus communis]

 Score =  330 bits (845), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 156/164 (95%), Positives = 160/164 (97%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKA+GVTSIGV GKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKASGVTSIGVCGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LDHTSVTHLFPITKYLGLLATGMTADARTLVQQAR EAAEFRFKYGYEMPVDVLAKWIAD
Sbjct: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARNEAAEFRFKYGYEMPVDVLAKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQ+YTQHAYMRPLGVVAMVL ID+E GPRL+KCDPAGHFFGHK
Sbjct: 121 KSQIYTQHAYMRPLGVVAMVLGIDDEYGPRLYKCDPAGHFFGHK 164

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442079|ref|XP_002271929.1| PREDICTED: proteasome subunit alpha type-6 isoform 1 [Vitis vinifera] gi|147797489|emb|CAN73517.1| hypothetical protein VITISV_005460 [Vitis vinifera] gi|297742984|emb|CBI35851.3| unnamed protein product [Vitis vinifera]

 Score =  330 bits (845), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 153/164 (93%), Positives = 160/164 (97%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKA+G+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKASGITSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD TSVTHLFPITK+LGLLATGMTADARTLVQQAR EAAEFRF+YGYEMPVDVLA+WIAD
Sbjct: 61  LDQTSVTHLFPITKFLGLLATGMTADARTLVQQARNEAAEFRFRYGYEMPVDVLARWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAM+L ID+E GPRLFKCDPAGHFFGHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMILGIDDENGPRLFKCDPAGHFFGHK 164

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356545355|ref|XP_003541109.1| PREDICTED: proteasome subunit alpha type-6-like [Glycine max]

 Score =  328 bits (841), Expect = 9e-88,   Method: Compositional matrix adjust.
 Identities = 153/164 (93%), Positives = 160/164 (97%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRGKDS+CVVTQKKVPDKL
Sbjct: 123 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSICVVTQKKVPDKL 182

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD+TSVTHLFPITKYLGLLATGMTADARTLVQQAR EAAEFRF YGYEMPVDVLAKWIAD
Sbjct: 183 LDNTSVTHLFPITKYLGLLATGMTADARTLVQQARNEAAEFRFTYGYEMPVDVLAKWIAD 242

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAMVL ID+E GP+L+KCDPAGH+FGHK
Sbjct: 243 KSQVYTQHAYMRPLGVVAMVLGIDDEYGPQLYKCDPAGHYFGHK 286

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217075112|gb|ACJ85916.1| unknown [Medicago truncatula] gi|388517215|gb|AFK46669.1| unknown [Medicago truncatula]

 Score =  327 bits (837), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 152/176 (86%), Positives = 166/176 (94%), Gaps = 2/176 (1%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVK+AG+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKSAGITSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LDHTSVTHLFPITKYLGLLATG+TADARTLVQQAR EAAE+RF+YGYEMPVDVL+KW+AD
Sbjct: 61  LDHTSVTHLFPITKYLGLLATGITADARTLVQQARNEAAEYRFRYGYEMPVDVLSKWVAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKV--GGFFNKNSI 174
           KSQVYTQHAYMRPLGVVAMVL ID+E GP+L+KCDPAGH+FGHK    G  ++ +I
Sbjct: 121 KSQVYTQHAYMRPLGVVAMVLGIDDELGPQLYKCDPAGHYFGHKATSAGLKDQEAI 176

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|211906468|gb|ACJ11727.1| 20S proteasome subunit alpha-1 [Gossypium hirsutum]

 Score =  326 bits (835), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 152/164 (92%), Positives = 159/164 (96%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRGKDSVC VTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSVCFVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD TSVTHLFPITK+LGLLATGMTADARTLVQQAR EAAEFRF+YGYEMPVDVL+KWIAD
Sbjct: 61  LDQTSVTHLFPITKFLGLLATGMTADARTLVQQARNEAAEFRFRYGYEMPVDVLSKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAMVL IDEE GP+L+KCDPAGHF+GHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMVLGIDEEKGPQLYKCDPAGHFYGHK 164

Source: Gossypium hirsutum

Species: Gossypium hirsutum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482460|ref|XP_003632777.1| PREDICTED: proteasome subunit alpha type-6 isoform 2 [Vitis vinifera]

 Score =  325 bits (834), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 153/164 (93%), Positives = 160/164 (97%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKA+G+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKASGITSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD TSVTHLFPITK+LGLLATGMTADARTLVQQAR EAAEFRF+YGYEMPVDVLA+WIAD
Sbjct: 61  LDQTSVTHLFPITKFLGLLATGMTADARTLVQQARNEAAEFRFRYGYEMPVDVLARWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAM+L ID+E GPRLFKCDPAGHFFGHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMILGIDDENGPRLFKCDPAGHFFGHK 164

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357451023|ref|XP_003595788.1| Proteasome subunit alpha type [Medicago truncatula] gi|355484836|gb|AES66039.1| Proteasome subunit alpha type [Medicago truncatula] gi|388521863|gb|AFK48993.1| unknown [Medicago truncatula]

 Score =  325 bits (833), Expect = 8e-87,   Method: Compositional matrix adjust.
 Identities = 153/172 (88%), Positives = 161/172 (93%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRG DSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGNDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD TSVTHLFPITKYLGLLATGMTADARTLVQQAR EAAEFR K+GYEMPVDVLAKWIAD
Sbjct: 61  LDQTSVTHLFPITKYLGLLATGMTADARTLVQQARNEAAEFRHKFGYEMPVDVLAKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKN 172
           KSQVYTQHAYMRPLGVVAMVL ID+E GP+L+KCDPAGH+FGHK     +K+
Sbjct: 121 KSQVYTQHAYMRPLGVVAMVLGIDDENGPQLYKCDPAGHYFGHKATSAGSKD 172

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388517479|gb|AFK46801.1| unknown [Medicago truncatula]

 Score =  325 bits (832), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 153/172 (88%), Positives = 161/172 (93%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRG DSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGNDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD TSVTHLFPITKYLGLLATGMTADARTLVQQAR EAAEFR K+GYEMPVDVLAKWIAD
Sbjct: 61  LDQTSVTHLFPITKYLGLLATGMTADARTLVQQARNEAAEFRHKFGYEMPVDVLAKWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKN 172
           KSQVYTQHAYMRPLGVVAMVL ID+E GP+L+KCDPAGH+FGHK     +K+
Sbjct: 121 KSQVYTQHAYMRPLGVVAMVLGIDDENGPQLYKCDPAGHYFGHKATSAGSKD 172

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489185|gb|ABK96399.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  323 bits (829), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 151/164 (92%), Positives = 155/164 (94%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAA  TSIGVRGKDSVCVVTQKKVPDKL
Sbjct: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAATTSIGVRGKDSVCVVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD TSVTHLFPITKYLGLLATGMTADAR LVQQAR EAAEFRF+YGYEMPVD LA+WIAD
Sbjct: 61  LDQTSVTHLFPITKYLGLLATGMTADARNLVQQARNEAAEFRFRYGYEMPVDALARWIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           KSQVYTQHAYMRPLGVVAMVL IDEE GP+L+K DPAGHFFGHK
Sbjct: 121 KSQVYTQHAYMRPLGVVAMVLGIDEENGPQLYKSDPAGHFFGHK 164

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

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	210
TAIR|locus:2064727	246	PAA2 "20S proteasome subunit P	0.747	0.638	0.898	1.7e-73
TAIR|locus:2157106	246	PAA1 "proteasome alpha subunit	0.747	0.638	0.878	1.6e-72
UNIPROTKB|F1NEQ6	249	PSMA6 "Proteasome subunit alph	0.747	0.630	0.675	2.9e-55
UNIPROTKB|G5E5C3	245	PSMA6 "Proteasome subunit alph	0.747	0.640	0.675	3.7e-55
UNIPROTKB|Q2YDE4	246	PSMA6 "Proteasome subunit alph	0.747	0.638	0.675	3.7e-55
UNIPROTKB|E2RMN2	246	PSMA6 "Proteasome subunit alph	0.747	0.638	0.675	3.7e-55
UNIPROTKB|G3V295	203	PSMA6 "Proteasome subunit alph	0.747	0.773	0.675	3.7e-55
UNIPROTKB|P60900	246	PSMA6 "Proteasome subunit alph	0.747	0.638	0.675	3.7e-55
UNIPROTKB|F2Z5N0	246	PSMA6 "Proteasome subunit alph	0.747	0.638	0.675	3.7e-55
MGI|MGI:1347006	246	Psma6 "proteasome (prosome, ma	0.747	0.638	0.675	3.7e-55

TAIR|locus:2064727 PAA2 "20S proteasome subunit PAA2" [Arabidopsis thaliana (taxid:3702)]

 Score = 742 (266.3 bits), Expect = 1.7e-73, P = 1.7e-73
 Identities = 141/157 (89%), Positives = 150/157 (95%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGSG GYDRHITIFSPEGRLFQVEYAFKAVKAAG+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct:     1 MSRGSGAGYDRHITIFSPEGRLFQVEYAFKAVKAAGITSIGVRGKDSVCVVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD +SV+HLFP+TKYLGLLATGMTAD+R+LVQQAR EAAEFRF+YGYEMP D+LAKWIAD
Sbjct:    61 LDQSSVSHLFPVTKYLGLLATGMTADSRSLVQQARNEAAEFRFQYGYEMPADILAKWIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
             KSQVYTQHAYMRPLGVVAMVL IDEE GP L+KCDPA
Sbjct:   121 KSQVYTQHAYMRPLGVVAMVLGIDEERGPLLYKCDPA 157

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0000502 "proteasome complex" evidence=IDA

TAIR|locus:2157106 PAA1 "proteasome alpha subunit A1" [Arabidopsis thaliana (taxid:3702)]

 Score = 733 (263.1 bits), Expect = 1.6e-72, P = 1.6e-72
 Identities = 138/157 (87%), Positives = 149/157 (94%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGSG GYDRHITIFSPEGRLFQVEYAFKAVK AG+TSIGVRGKDSVCVVTQKKVPDKL
Sbjct:     1 MSRGSGAGYDRHITIFSPEGRLFQVEYAFKAVKTAGITSIGVRGKDSVCVVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD +SVTHLFPITKY+GL+ATG+TADAR+LVQQAR +AAEFRF YGYEMPVD+LAKWIAD
Sbjct:    61 LDQSSVTHLFPITKYIGLVATGITADARSLVQQARNQAAEFRFTYGYEMPVDILAKWIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
             KSQVYTQHAYMRPLGVVAMV+ +DEE GP L+KCDPA
Sbjct:   121 KSQVYTQHAYMRPLGVVAMVMGVDEENGPLLYKCDPA 157

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0005774 "vacuolar membrane" evidence=IDA

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

GO:0000502 "proteasome complex" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

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

 Score = 570 (205.7 bits), Expect = 2.9e-55, P = 2.9e-55
 Identities = 106/157 (67%), Positives = 132/157 (84%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKDS  +VTQKKVPDKL
Sbjct:     4 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDSAVIVTQKKVPDKL 63

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD  +VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGY++PVD+L K IAD
Sbjct:    64 LDSNTVTHLFSITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYDIPVDMLCKRIAD 123

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct:   124 ISQVYTQNAEMRPLGCCMILIGIDEEHGPQVYKCDPA 160

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

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

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

GO:0003723 "RNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IEA

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

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

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

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 106/157 (67%), Positives = 132/157 (84%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct:     1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct:    61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct:   121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

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

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

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

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

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

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

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

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 106/157 (67%), Positives = 132/157 (84%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct:     1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct:    61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct:   121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

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

GO:0005839 "proteasome core complex" evidence=ISS

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

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

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

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

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

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

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

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 106/157 (67%), Positives = 132/157 (84%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct:     1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct:    61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct:   121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

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

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

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

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

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

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

UNIPROTKB|G3V295 PSMA6 "Proteasome subunit alpha type" [Homo sapiens (taxid:9606)]

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 106/157 (67%), Positives = 132/157 (84%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct:     1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct:    61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct:   121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 106/157 (67%), Positives = 132/157 (84%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct:     1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct:    61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct:   121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

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

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

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

GO:0004175 "endopeptidase activity" evidence=NAS

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

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

GO:0000075 "cell cycle checkpoint" evidence=TAS

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

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

GO:0000209 "protein polyubiquitination" evidence=TAS

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

GO:0000278 "mitotic cell cycle" evidence=TAS

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

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

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

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

GO:0006915 "apoptotic process" evidence=TAS

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

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

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

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

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

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

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

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

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

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0030017 "sarcomere" evidence=ISS

GO:0030016 "myofibril" evidence=ISS

GO:0016363 "nuclear matrix" evidence=ISS

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

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

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

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

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

GO:0005844 "polysome" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

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

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 106/157 (67%), Positives = 132/157 (84%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct:     1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct:    61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct:   121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

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

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

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

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

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

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

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

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 106/157 (67%), Positives = 132/157 (84%)

Query:     1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
             MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct:     1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query:    61 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
             LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct:    61 LDSSTVTHLFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query:   121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct:   121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

GO:0000502 "proteasome complex" evidence=IEA

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

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IDA

GO:0005839 "proteasome core complex" evidence=IDA

GO:0005844 "polysome" evidence=ISO

GO:0006508 "proteolysis" evidence=IEA

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

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IDA

GO:0016787 "hydrolase activity" evidence=IEA

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

GO:0030016 "myofibril" evidence=ISO

GO:0030017 "sarcomere" evidence=ISO

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

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

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

---

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)
Q9QUM9	PSA6_MOUSE	3, ., 4, ., 2, 5, ., 1	0.6646	0.7809	0.6666	yes	no
O48551	PSA6_SOYBN	3, ., 4, ., 2, 5, ., 1	0.9207	0.7809	0.6666	no	no
Q9XZJ4	PSA6_DROME	3, ., 4, ., 2, 5, ., 1	0.5914	0.7809	0.6721	yes	no
O94517	PSA1_SCHPO	3, ., 4, ., 2, 5, ., 1	0.6114	0.7476	0.6434	yes	no
Q9LSU3	PSA6_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.8963	0.7809	0.6666	yes	no
O81147	PSA6B_ARATH	3, ., 4, ., 2, 5, ., 1	0.8963	0.7809	0.6666	yes	no
Q2YDE4	PSA6_BOVIN	3, ., 4, ., 2, 5, ., 1	0.6646	0.7809	0.6666	yes	no
P21243	PSA1_YEAST	3, ., 4, ., 2, 5, ., 1	0.5961	0.7428	0.6190	yes	no
Q54XM7	PSA6_DICDI	3, ., 4, ., 2, 5, ., 1	0.5426	0.7761	0.652	yes	no
Q9XG77	PSA6_TOBAC	3, ., 4, ., 2, 5, ., 1	0.9451	0.7809	0.6666	N/A	no
P60901	PSA6_RAT	3, ., 4, ., 2, 5, ., 1	0.6646	0.7809	0.6666	yes	no
P60900	PSA6_HUMAN	3, ., 4, ., 2, 5, ., 1	0.6646	0.7809	0.6666	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:
	GSVIVG00034058001	RecName- Full=Proteasome subunit alpha type; EC=3.4.25.1;; 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 (By similarity) (246 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00015420001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (191 aa)			•	•	•	•	•		0.945
	GSVIVG00024499001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (245 aa)			•	•	•	•	•		0.945
	GSVIVG00014791001	SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_1, whole genome shotg [...] (309 aa)				•	•	•	•		0.932
	GSVIVG00023752001	SubName- Full=Putative uncharacterized protein (Chromosome chr7 scaffold_31, whole genome shotg [...] (205 aa)			•	•	•	•	•		0.926
	GSVIVG00010470001	SubName- Full=Chromosome chr17 scaffold_263, whole genome shotgun sequence; (386 aa)				•	•	•			0.911
	GSVIVG00026350001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (223 aa)			•	•	•	•	•		0.901
	GSVIVG00030725001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (250 aa)			•	•	•	•	•		0.899
	GSVIVG00035048001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (272 aa)				•	•	•	•		0.879
	GSVIVG00036762001	SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (440 aa)				•	•	•	•		0.845
	GSVIVG00006696001	SubName- Full=Chromosome chr2 scaffold_176, whole genome shotgun sequence; (267 aa)				•	•	•	•		0.798

---

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	210
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	1e-111
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-91
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	3e-54
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	2e-53
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	5e-53
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	6e-52
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	6e-44
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	6e-43
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	2e-41
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	3e-41
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	3e-41
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	1e-40
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	2e-40
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	1e-39
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	3e-33
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	7e-27
pfam10584	23	pfam10584, Proteasome_A_N, Proteasome subunit A N-	5e-12
smart00948	23	smart00948, Proteasome_A_N, Proteasome subunit A N	3e-11
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	9e-10
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	3e-09
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	4e-09
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	0.002

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score =  316 bits (811), Expect = e-111
 Identities = 115/157 (73%), Positives = 137/157 (87%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           G+DRHITIFSPEGRL+QVEYAFKAVK AG+TS+ VRGKD   VVTQKKVPDKL+D ++VT
Sbjct: 1   GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVT 60

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
           HLF IT  +G + TGM AD+R+ VQ+ARYEAAEF++KYGYEMPVDVLAK IAD +QVYTQ
Sbjct: 61  HLFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQ 120

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           HAYMRPLGV  +++ IDEE GP+L+KCDPAG+F G+K
Sbjct: 121 HAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYK 157

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

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

 Score =  267 bits (684), Expect = 1e-91
 Identities = 83/156 (53%), Positives = 111/156 (71%), Gaps = 1/156 (0%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT FSPEGRLFQVEYA +AVK    T++G++GKD V +  +KKV  KLLD +SV  
Sbjct: 1   YDRSITTFSPEGRLFQVEYALEAVKNGS-TAVGIKGKDGVVLAVEKKVTSKLLDPSSVEK 59

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +F I  ++G    G+TADAR LV +AR EA  +R+ YG  +PV+VL K IAD +QVYTQ+
Sbjct: 60  IFKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQY 119

Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
             +RP GV  ++   DEE GP+L++ DP+G +FG+K
Sbjct: 120 GGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYK 155

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

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

 Score =  172 bits (439), Expect = 3e-54
 Identities = 71/157 (45%), Positives = 102/157 (64%), Gaps = 2/157 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GYDR ITIFSP+GRL+QVEYA +AVK  G T++GV+ KD V +   K++   L++ +S+ 
Sbjct: 9   GYDRAITIFSPDGRLYQVEYAREAVKR-GTTAVGVKTKDGVVLAVDKRITSPLIEPSSIE 67

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            +F I  ++G  + G+ ADAR L+ +AR EA   R  YG  + V+ L K I D  Q YTQ
Sbjct: 68  KIFKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQ 127

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           H  +RP GV  ++  +D+  GPRLF+ DP+G +  +K
Sbjct: 128 HGGVRPFGVALLIAGVDDG-GPRLFETDPSGAYLEYK 163

Length = 241

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score =  169 bits (431), Expect = 2e-53
 Identities = 69/157 (43%), Positives = 103/157 (65%), Gaps = 2/157 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GYDR IT+FSP+GRL+QVEYA +AVK  G T++G++ K+ V +   K++  KL++  S+ 
Sbjct: 1   GYDRAITVFSPDGRLYQVEYAREAVKR-GTTALGIKCKEGVVLAVDKRITSKLVEPESIE 59

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            ++ I  ++G   +G+ ADAR L+ +AR EA   R  YG  + V+VL K I D  Q YTQ
Sbjct: 60  KIYKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQ 119

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           H  +RP GV  ++  +D+  GPRLF+ DP+G +  +K
Sbjct: 120 HGGVRPFGVALLIAGVDDG-GPRLFETDPSGAYNEYK 155

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

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

 Score =  169 bits (430), Expect = 5e-53
 Identities = 71/157 (45%), Positives = 103/157 (65%), Gaps = 2/157 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GYDR IT+FSP+GRL+QVEYA +AVK  G T++G++ KD V +   K++  KL++ +S+ 
Sbjct: 2   GYDRAITVFSPDGRLYQVEYAREAVKR-GTTAVGIKTKDGVVLAVDKRITSKLVEPSSIE 60

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            +F I  ++G   +G+ ADAR L+ +AR EA   R  YG  + V+ LAK I D  Q YTQ
Sbjct: 61  KIFKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQ 120

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           H  +RP GV  ++  +D+  GPRLF+ DP+G    +K
Sbjct: 121 HGGVRPFGVALLIAGVDDG-GPRLFETDPSGALLEYK 156

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

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

 Score =  167 bits (424), Expect = 6e-52
 Identities = 72/158 (45%), Positives = 102/158 (64%), Gaps = 4/158 (2%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSV 66
           GYDR ITIFSPEGRLFQVEYA +AVK  G T++G++GKD V +   K+    LL   ++V
Sbjct: 2   GYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNV 61

Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
             +F I  ++G+   G+ ADA+ LV+ AR EA  +R +YG  + V+ LAK +++  Q YT
Sbjct: 62  EKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYT 121

Query: 127 QHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           Q    RP GV  +V  +D+  GPRL+  DP+G +  +K
Sbjct: 122 Q--SGRPYGVSLLVAGVDDG-GPRLYSTDPSGSYNEYK 156

Length = 236

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score =  145 bits (368), Expect = 6e-44
 Identities = 62/161 (38%), Positives = 95/161 (59%), Gaps = 7/161 (4%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR +  FSPEGRLFQVEYA +A+K  G T+IG++ K+ V +  +K++   L++ +SV  
Sbjct: 1   YDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEK 59

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY--- 125
           +  I  ++G   +G+ ADARTL+  AR EA   RF Y   M V+ + + ++D +  +   
Sbjct: 60  IMEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEG 119

Query: 126 --TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
              + A  RP GV  ++  +DE  GP+LF  DP+G F    
Sbjct: 120 DDGKKAMSRPFGVALLIAGVDEN-GPQLFHTDPSGTFTRCD 159

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|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score =  143 bits (362), Expect = 6e-43
 Identities = 64/159 (40%), Positives = 97/159 (61%), Gaps = 2/159 (1%)

Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   + FSP+GR+FQVEYA KAV+ +G T+IG+R KD V +  +K V  KL +  S
Sbjct: 1   GTGYDLSASTFSPDGRVFQVEYANKAVENSG-TAIGIRCKDGVVLAVEKLVTSKLYEPGS 59

Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              +F + +++G+   G+ AD R LV +AR EA  +R  YG  +PV VLA  +A     Y
Sbjct: 60  NKRIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAY 119

Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           T ++ +RP G   ++   D + GP+L+  +P+G  +G+ 
Sbjct: 120 TLYSSVRPFGCSVLLGGYDSD-GPQLYMIEPSGVSYGYF 157

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|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score =  139 bits (351), Expect = 2e-41
 Identities = 67/174 (38%), Positives = 98/174 (56%), Gaps = 11/174 (6%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT+FSP+G LFQVEYA +AV+  G T++GVRGKD V +  +KK   KL D  +V  
Sbjct: 1   YDRAITVFSPDGHLFQVEYAQEAVRK-GTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRK 59

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  +  ++ L   G+TADAR L+ +AR E    R      + V+ + ++IA   Q YTQ 
Sbjct: 60  ICMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQS 119

Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK----------VGGFFNKN 172
             +RP G+  +++  D +  PRL++ DP+G +   K          V  F  KN
Sbjct: 120 GGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKN 173

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  138 bits (349), Expect = 3e-41
 Identities = 52/129 (40%), Positives = 80/129 (62%), Gaps = 3/129 (2%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLLDH-TSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T +G++GKD V +   K+V   LL   ++V  +F I  ++G    G+ ADA+TLV++ R 
Sbjct: 2   TIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRK 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           EA  +R +YG  +PV+ LAK +A+    YTQ   +RPLGV  +V  +DEE GP+L+  DP
Sbjct: 62  EAQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDP 119

Query: 157 AGHFFGHKV 165
           +G +  +K 
Sbjct: 120 SGSYIEYKA 128

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

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  138 bits (351), Expect = 3e-41
 Identities = 63/157 (40%), Positives = 95/157 (60%), Gaps = 2/157 (1%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           Y   +T FSP G+L Q+EYA  AV ++G  S+G++  + V + T+KKVP  L+D +SV  
Sbjct: 1   YSFSLTTFSPSGKLVQIEYALAAV-SSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHK 59

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  IT ++G++ +GM  D R LV++AR  A ++   YG  +PV  L + IA   Q YTQ 
Sbjct: 60  VEQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQS 119

Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKV 165
             +RP GV  ++   DE  GP L++ DP+G +F  K 
Sbjct: 120 GGVRPFGVSLLIAGWDEG-GPYLYQVDPSGSYFTWKA 155

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

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  137 bits (347), Expect = 1e-40
 Identities = 60/157 (38%), Positives = 91/157 (57%), Gaps = 2/157 (1%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDH-TSVT 67
           YD   TIFSPEGRL+QVEYA +A+  AG   +G+  KD + +  +KKV  KLLD   S  
Sbjct: 3   YDSRTTIFSPEGRLYQVEYAMEAISHAGTC-LGILAKDGIVLAAEKKVTSKLLDQSFSSE 61

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            ++ I  ++     G+T+DA  L+  AR  A  + + Y   +PV+ L + + D  Q YTQ
Sbjct: 62  KIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQ 121

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           +  +RP GV  +    D+  G +L++ DP+G++ G K
Sbjct: 122 YGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWK 158

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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score =  136 bits (344), Expect = 2e-40
 Identities = 58/153 (37%), Positives = 89/153 (58%), Gaps = 4/153 (2%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD  +T +SP+GRLFQVEYA +AVK  G  ++G++ K    +V  K+   +L  +     
Sbjct: 1   YDTDVTTWSPQGRLFQVEYAMEAVKQ-GSATVGLKSKTHAVLVALKRATSELSSYQK--K 57

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +F +  ++G+   G+TADAR L +  R E   +RF Y   +PV  L   +A+K+Q+ TQ 
Sbjct: 58  IFKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQR 117

Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFF 161
              RP GV  ++   DE  GP LF+  P+G++F
Sbjct: 118 YGRRPYGVGLLIAGYDES-GPHLFQTCPSGNYF 149

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

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

 Score =  133 bits (338), Expect = 1e-39
 Identities = 54/131 (41%), Positives = 78/131 (59%), Gaps = 3/131 (2%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVP--DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQ 93
           G T +G++GKD V +   K+     KLL   +V  +F I  ++G+   G+ ADA+TLV  
Sbjct: 4   GTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLVDY 63

Query: 94  ARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFK 153
           AR EA  +R +YG  + V+ LAK IADK Q YTQ++  RP GV  ++   DE+ GP L+ 
Sbjct: 64  ARAEAQLYRLRYGRPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHLYS 122

Query: 154 CDPAGHFFGHK 164
            DP+G    +K
Sbjct: 123 IDPSGSVIEYK 133

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|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional

 Score =  119 bits (300), Expect = 3e-33
 Identities = 64/165 (38%), Positives = 89/165 (53%), Gaps = 6/165 (3%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSR     YD   T FSPEGRL+QVEYA +A+  A +T +G+  K+ V +   K +  KL
Sbjct: 1   MSRR----YDSRTTTFSPEGRLYQVEYALEAINNASLT-VGILCKEGVILGADKPISSKL 55

Query: 61  LDH-TSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIA 119
           LD       ++ I  ++     G+TADA  L+ Q R  A  +R+ YG   PV+ L   I 
Sbjct: 56  LDPGKINEKIYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQIC 115

Query: 120 DKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           D  Q YTQ   +RP GV  +    DE  G +L+  DP+G++ G K
Sbjct: 116 DLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWK 160

Length = 253

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

 Score =  100 bits (250), Expect = 7e-27
 Identities = 42/139 (30%), Positives = 64/139 (46%), Gaps = 5/139 (3%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLLDH-TSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           TS+ ++GK  V +   K++   L    + V  +      +     G+ ADA+TLV++ R 
Sbjct: 2   TSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLRE 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
               +R +YG  + V  LAK +A   QVYTQ    RP GV  +V  +DE  G  L+  DP
Sbjct: 62  ALQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDEG-GGNLYYIDP 117

Query: 157 AGHFFGHKVGGFFNKNSIY 175
           +G    +         S  
Sbjct: 118 SGPVIENPGAVATGSRSQR 136

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

 Score = 57.8 bits (141), Expect = 5e-12
 Identities = 18/23 (78%), Positives = 20/23 (86%)

Query: 9  YDRHITIFSPEGRLFQVEYAFKA 31
          YDR +T FSP+GRLFQVEYA KA
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMKA 23

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

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

 Score = 55.6 bits (135), Expect = 3e-11
 Identities = 17/23 (73%), Positives = 20/23 (86%)

Query: 9  YDRHITIFSPEGRLFQVEYAFKA 31
          YDR +T FSP+GRLFQVEYA +A
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMEA 23

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

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

 Score = 55.3 bits (134), Expect = 9e-10
 Identities = 36/124 (29%), Positives = 60/124 (48%), Gaps = 6/124 (4%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G T++G++ KD V +   K+      +   +   +F I  Y+ +   G   DA++LV+  
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKC 154
           + EA  +  + G  M V  LA  +   S +   + +  P  V  +V  +DEE GP L+  
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLL---SNILNSNRFF-PFIVQLLVGGVDEE-GPHLYSL 115

Query: 155 DPAG 158
           DPAG
Sbjct: 116 DPAG 119

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|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit

 Score = 54.2 bits (131), Expect = 3e-09
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 6/122 (4%)

Query: 38  TSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T++G+  KD V +   K+      +   +V  +F I   + +   G   DA++LV+  + 
Sbjct: 2   TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKA 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           EA  +  + G  M +  LA  +   S +     Y  P  V  ++  +DEE GP L+  DP
Sbjct: 62  EARLYELRRGRPMSIKALATLL---SNILNSSKYF-PYIVQLLIGGVDEE-GPHLYSLDP 116

Query: 157 AG 158
            G
Sbjct: 117 LG 118

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|238893 cd01912, proteasome_beta, proteasome beta subunit

 Score = 53.6 bits (130), Expect = 4e-09
 Identities = 29/125 (23%), Positives = 51/125 (40%), Gaps = 5/125 (4%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH-LFPITKYLGLLATGMTADARTLVQQARY 96
           T +G++GKD V +    +     L  +     +F I+  + L   G  AD + L +  + 
Sbjct: 2   TIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKR 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
               +  + G E+ V   A  +   S +   +    P  V  +V  +D+  GP L+  DP
Sbjct: 62  NLRLYELRNGRELSVKAAANLL---SNILYSYRGF-PYYVSLIVGGVDKGGGPFLYYVDP 117

Query: 157 AGHFF 161
            G   
Sbjct: 118 LGSLI 122

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

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

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 28/138 (20%), Positives = 56/138 (40%), Gaps = 13/138 (9%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDKLLDHTS-VTHLFPITKYLGLLATGMTADARTLVQQA 94
           G T + + G D   +    ++ +     +     +F +T    L ++G  AD   L ++ 
Sbjct: 8   GGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL 67

Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMR---PLGVVAMVLSIDEECGPRL 151
           +     +++ +  EM  + +A       Q+ +   Y R   P  V  ++  IDEE    +
Sbjct: 68  KARIKMYKYSHNKEMSTEAIA-------QLLSTILYSRRFFPYYVFNILAGIDEEGKGVV 120

Query: 152 FKCDPAGHF--FGHKVGG 167
           +  DP G +    +  GG
Sbjct: 121 YSYDPVGSYERETYSAGG 138

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	210
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	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
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0178	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0181	233	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	99.95
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	99.95
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	99.95
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	99.95
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.94
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	99.94
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	99.94
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.93
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.92
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	99.92
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.92
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	99.44
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.0
COG3484	255	Predicted proteasome-type protease [Posttranslatio	97.77

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=4.4e-52  Score=345.17  Aligned_cols=186  Identities=35%  Similarity=0.549  Sum_probs=176.3

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      .+||+++|+||||||++|+|||+||+++|+ |+|||+++||||||+|++.+++++..++.+||++|++++++++||+.+|
T Consensus         2 ~~yd~~~t~fsp~Grl~Qveya~~a~~~G~-tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (212)
T cd03751           2 TGYDLSASTFSPDGRVFQVEYANKAVENSG-TAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLAD   80 (212)
T ss_pred             CCccCCCceECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEEccccccccCcchhcceeEecCcEEEEEEEChHh
Confidence            589999999999999999999999999998 9999999999999999999888887778999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.+++|.+++.|++++|++++++.+++++++.+|.|+++.+.|||+|++||+|||++ ||+||++||+|++.+++++
T Consensus        81 ~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~-gp~Ly~~D~~Gs~~~~~~~  159 (212)
T cd03751          81 GRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSD-GPQLYMIEPSGVSYGYFGC  159 (212)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCC-cCEEEEECCCCCEEeeEEE
Confidence            999999999999999999999999999999999999999999999999999999999976 8999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      |+|+|+.+|+++  ++-.|..+..+..|+.
T Consensus       160 a~G~g~~~a~~~--Lek~~~~dms~eeai~  187 (212)
T cd03751         160 AIGKGKQAAKTE--LEKLKFSELTCREAVK  187 (212)
T ss_pred             EECCCCHHHHHH--HHHhccCCCCHHHHHH
Confidence            999999999998  5667777777776654

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

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=100.00  E-value=2.1e-51  Score=339.68  Aligned_cols=184  Identities=34%  Similarity=0.555  Sum_probs=171.8

Q ss_pred             CCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADAR   88 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (210)
                      ||+++|+||||||++|+|||++|+++|+ |+|||+++||||||+|++..++++.+++.+||++|+++++|++||+.+|++
T Consensus         1 ~d~~~~~fsp~Gr~~Qveya~~av~~G~-t~Igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (207)
T cd03755           1 YDRAITVFSPDGHLFQVEYAQEAVRKGT-TAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADAR   79 (207)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecCCCCcccCCCccCcEEEECCCEEEEEecchhhHH
Confidence            8999999999999999999999999998 999999999999999999888888878899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEE
Q 028367           89 TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGF  168 (210)
Q Consensus        89 ~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~  168 (210)
                      .+.+++|.+++.|++++|++|+++.++++++.++|+|+++++.|||+++++|+|||++++|+||.+||+|++.+++++|+
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~a~  159 (207)
T cd03755          80 VLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAI  159 (207)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCcCEEcceEEEE
Confidence            99999999999999999999999999999999999999999999999999999999766899999999999999999999


Q ss_pred             ccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          169 FNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       169 G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      |+|++++++++  +..|..+.....++
T Consensus       160 G~gs~~~~~~L--e~~~~~~ms~eeai  184 (207)
T cd03755         160 GRNSKTVREFL--EKNYKEEMTRDDTI  184 (207)
T ss_pred             CCCCHHHHHHH--HhhccCCCCHHHHH
Confidence            99999999994  55555544444443

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=3.1e-51  Score=340.75  Aligned_cols=179  Identities=66%  Similarity=1.008  Sum_probs=169.3

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA   87 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~   87 (210)
                      +||+++|+||||||++|+|||+||++++|+|+|||+++||||||+|+|.+++++.+++.+||++|+++++|++||+.+|+
T Consensus         1 ~yd~~~~~fsp~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~~Ki~~I~~~i~~~~sG~~~D~   80 (215)
T cd03754           1 GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIGCVMTGMIADS   80 (215)
T ss_pred             CCCCCCeeECCCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCcccCceEEEcCCEEEEEEechhhH
Confidence            59999999999999999999999998755599999999999999999999888776788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEE
Q 028367           88 RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGG  167 (210)
Q Consensus        88 ~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a  167 (210)
                      +.+.+++|.+++.|+++++++|+++.+++++++++|.|+++.+.|||++++||+|||+++||+||++||+|++.+++++|
T Consensus        81 ~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~~~~a  160 (215)
T cd03754          81 RSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATA  160 (215)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCccEEeEEEEE
Confidence            99999999999999999999999999999999999999999999999999999999976699999999999999999999


Q ss_pred             EccCCchhhhhhHHHHHHHHH
Q 028367          168 FFNKNSIYDTFCFLSAIWIYN  188 (210)
Q Consensus       168 ~G~gs~~a~~~~~~~~~~~~~  188 (210)
                      +|+|+++++++  ++..|..+
T Consensus       161 ~G~gs~~~~~~--Le~~~~~~  179 (215)
T cd03754         161 AGVKEQEATNF--LEKKLKKK  179 (215)
T ss_pred             ECCCcHHHHHH--HHHHhccc
Confidence            99999999998  56667664

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

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=3.6e-51  Score=342.77  Aligned_cols=184  Identities=36%  Similarity=0.591  Sum_probs=173.2

Q ss_pred             CCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADAR   88 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (210)
                      ||+++|+||||||++|||||.||+++|+ |+|||+++||||||+|++.+++++.+++.+||++|+++++|++||+.+|++
T Consensus         1 yd~~~t~fsp~Grl~QveyA~~av~~G~-t~igik~~dgVvlaad~~~~~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (227)
T cd03750           1 YSFSLTTFSPSGKLVQIEYALAAVSSGA-PSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGMVYSGMGPDFR   79 (227)
T ss_pred             CCCCCceECCCCeEhHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeecCCccccCCCCcceEEEEcCCEEEEEeEcHHhHH
Confidence            8999999999999999999999999998 999999999999999999998888888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEE
Q 028367           89 TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGF  168 (210)
Q Consensus        89 ~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~  168 (210)
                      .+.+.+|.+++.|++++|++++++.+++++++++|+|+++++.|||++++||+|||++ ||+||++||+|++.+++++|+
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~-g~~Ly~~d~~G~~~~~~~~a~  158 (227)
T cd03750          80 VLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEG-GPYLYQVDPSGSYFTWKATAI  158 (227)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCC-CCEEEEECCCCCEEeeeEEEE
Confidence            9999999999999999999999999999999999999999999999999999999976 899999999999999999999


Q ss_pred             ccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          169 FNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       169 G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      |+|+++++++  ++..|..+..+..++.
T Consensus       159 G~g~~~~~~~--Le~~~~~~ms~eeai~  184 (227)
T cd03750         159 GKNYSNAKTF--LEKRYNEDLELEDAIH  184 (227)
T ss_pred             CCCCHHHHHH--HHhhccCCCCHHHHHH
Confidence            9999999998  4566665555555444

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=4.9e-51  Score=338.87  Aligned_cols=186  Identities=34%  Similarity=0.562  Sum_probs=172.5

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEEEecChHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +||+++|+||||||++|+|||.||+++|+ |+|||+++||||||+|++.+.+++. +++.+||++|+++++|++||+.+|
T Consensus         2 ~yd~~~~~fsp~Grl~Qveya~~a~~~G~-t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (213)
T cd03752           2 RYDSRTTIFSPEGRLYQVEYAMEAISHAG-TCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSD   80 (213)
T ss_pred             CcCCCCceECCCCEEhHHHhHHHHHhcCC-CEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHh
Confidence            79999999999999999999999999998 9999999999999999999976666 458999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.+++|.+++.|++++|++|+++.+++.++.++|.||++.+.|||+|++||+|||++.||+||.+||+|++.+++++
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d~~G~~~~~~~~  160 (213)
T cd03752          81 ANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKAT  160 (213)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEECCCCCeeeeeEE
Confidence            99999999999999999999999999999999999999999999999999999999997668999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      |+|++++.+++++  +..|..+..+..++.
T Consensus       161 a~G~gs~~~~~~L--e~~y~~~ms~eea~~  188 (213)
T cd03752         161 AIGNNNQAAQSLL--KQDYKDDMTLEEALA  188 (213)
T ss_pred             EECCCcHHHHHHH--HHhccCCCCHHHHHH
Confidence            9999999999984  556665555544443

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1.8e-50  Score=341.28  Aligned_cols=190  Identities=38%  Similarity=0.629  Sum_probs=176.6

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLA   80 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~   80 (210)
                      || |++++||+++|+||||||++|+|||.|++++|+ |+|||+++||||||+|++.+++++..++.+||++|++++++++
T Consensus         3 ~~-~~~~~y~~~~~~fsp~Gr~~Q~eya~~av~~G~-t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~   80 (241)
T PRK03996          3 MQ-PQQMGYDRAITIFSPDGRLYQVEYAREAVKRGT-TAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAAS   80 (241)
T ss_pred             CC-ccccccCCCCceECCCCeEhHHHHHHHHHHhCC-CEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEE
Confidence            66 599999999999999999999999999999998 9999999999999999999988888888999999999999999


Q ss_pred             ecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCce
Q 028367           81 TGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHF  160 (210)
Q Consensus        81 sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~  160 (210)
                      ||+.+|++.+.+++|.+++.|++++|++++++.++++++..+|.|+++.+.|||++++||+|||++ ||+||.+||+|++
T Consensus        81 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~-gp~Ly~id~~G~~  159 (241)
T PRK03996         81 AGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDG-GPRLFETDPSGAY  159 (241)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCC-cCEEEEECCCCCe
Confidence            999999999999999999999999999999999999999999999999999999999999999986 8999999999999


Q ss_pred             eeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          161 FGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       161 ~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      .+++++|+|.|++.++++.  +..|..+..+..++
T Consensus       160 ~~~~~~a~G~g~~~~~~~L--e~~~~~~~s~eeai  192 (241)
T PRK03996        160 LEYKATAIGAGRDTVMEFL--EKNYKEDLSLEEAI  192 (241)
T ss_pred             ecceEEEECCCcHHHHHHH--HHhcccCCCHHHHH
Confidence            9999999999999999984  44554444444433

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=2.1e-50  Score=343.14  Aligned_cols=188  Identities=35%  Similarity=0.558  Sum_probs=173.7

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLL   79 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~   79 (210)
                      |++    +||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|++.+.+++. .++.+||++|+++++++
T Consensus         1 ~~~----~yd~~~~~fsp~Grl~QvEYA~~av~~g~-t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~   75 (253)
T PTZ00246          1 MSR----RYDSRTTTFSPEGRLYQVEYALEAINNAS-LTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCA   75 (253)
T ss_pred             CCC----ccCCCCceECCCCEEhHHHHHHHHHHhCC-CEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEE
Confidence            777    89999999999999999999999999998 9999999999999999999966665 44689999999999999


Q ss_pred             EecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCc
Q 028367           80 ATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGH  159 (210)
Q Consensus        80 ~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs  159 (210)
                      ++|+.+|++.+.+.+|.+++.|++.++++++++.+++.++..+|.|+|+.+.|||+|++||+|||++.||+||.+||+|+
T Consensus        76 ~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs  155 (253)
T PTZ00246         76 VAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGN  155 (253)
T ss_pred             EEEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999755899999999999


Q ss_pred             eeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          160 FFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       160 ~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +.+++++|+|+|++++++++  +..|..+..+..++
T Consensus       156 ~~~~~~~a~G~gs~~~~~~L--e~~~~~~ms~eeai  189 (253)
T PTZ00246        156 YSGWKATAIGQNNQTAQSIL--KQEWKEDLTLEQGL  189 (253)
T ss_pred             EecceEEEECCCcHHHHHHH--HHhccCCCCHHHHH
Confidence            99999999999999999994  55666554444443

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=7.1e-50  Score=331.37  Aligned_cols=184  Identities=38%  Similarity=0.647  Sum_probs=171.7

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA   87 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~   87 (210)
                      +||.++|+||||||++|+|||.|++++|+ |+|||+++||||||+|++.+++++.+++.+||++|+++++|++||+.+|+
T Consensus         1 ~y~~~~~~fsp~G~l~Q~eya~~av~~G~-t~igik~~dgvvla~d~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   79 (211)
T cd03756           1 GYDRAITVFSPDGRLYQVEYAREAVKRGT-TALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGAATSGLVADA   79 (211)
T ss_pred             CCCCCCceECCCCeEhHHHHHHHHHHcCC-CEEEEEECCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEecCHHHH
Confidence            59999999999999999999999999998 99999999999999999999888878899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEE
Q 028367           88 RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGG  167 (210)
Q Consensus        88 ~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a  167 (210)
                      +.+.+.+|.+++.|+++++++++++.++++++..+|.|+++++.|||++++||+|||++ +|+||.+||+|++.+++++|
T Consensus        80 ~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~-~~~ly~vd~~G~~~~~~~~a  158 (211)
T cd03756          80 RVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDG-GPRLFETDPSGAYNEYKATA  158 (211)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCC-CCEEEEECCCCCeeeeEEEE
Confidence            99999999999999999999999999999999999999999999999999999999986 89999999999999999999


Q ss_pred             EccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          168 FFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       168 ~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +|+|++.+++++  +..|..+..+..++
T Consensus       159 ~G~g~~~~~~~L--e~~~~~~m~~~ea~  184 (211)
T cd03756         159 IGSGRQAVTEFL--EKEYKEDMSLEEAI  184 (211)
T ss_pred             ECCCCHHHHHHH--HhhccCCCCHHHHH
Confidence            999999999995  44555444444433

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=7.5e-50  Score=331.47  Aligned_cols=181  Identities=33%  Similarity=0.579  Sum_probs=167.8

Q ss_pred             CCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADAR   88 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (210)
                      ||+++|+||||||++|+|||++++++|+ |+|||+++||||||+|+|.+.++.  ++.+||++|+++++|++||+.+|++
T Consensus         1 yd~~~t~fsp~Grl~Qveya~~av~~G~-t~IgIk~~dgVvlaad~r~~~~l~--~~~~KI~~I~~~i~~~~sG~~~D~~   77 (211)
T cd03749           1 YDTDVTTWSPQGRLFQVEYAMEAVKQGS-ATVGLKSKTHAVLVALKRATSELS--SYQKKIFKVDDHIGIAIAGLTADAR   77 (211)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHhcCC-CEEEEEeCCEEEEEEeccCccccC--CccccEEEeCCCEEEEEEeChHhHH
Confidence            8999999999999999999999999998 999999999999999999877654  4569999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEE
Q 028367           89 TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGF  168 (210)
Q Consensus        89 ~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~  168 (210)
                      .+.+++|.+++.|+++++++|+++.++++++.++|+||++.+.|||+|++||+|||++ ||+||++||+|++.+++++|+
T Consensus        78 ~l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~-gp~Ly~~Dp~G~~~~~~~~a~  156 (211)
T cd03749          78 VLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDES-GPHLFQTCPSGNYFEYKATSI  156 (211)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCC-CCeEEEECCCcCEeeeeEEEE
Confidence            9999999999999999999999999999999999999999999999999999999976 899999999999999999999


Q ss_pred             ccCCchhhhhhHHHHHHHH--HHHHHHHH
Q 028367          169 FNKNSIYDTFCFLSAIWIY--NAIIVYIL  195 (210)
Q Consensus       169 G~gs~~a~~~~~~~~~~~~--~~~~~~~~  195 (210)
                      |+|++.|+++  ++..|..  +.....++
T Consensus       157 G~g~~~a~~~--Le~~~~~~~~ms~ee~i  183 (211)
T cd03749         157 GARSQSARTY--LERHFEEFEDCSLEELI  183 (211)
T ss_pred             CCCcHHHHHH--HHHhhccccCCCHHHHH
Confidence            9999999998  6777663  44444443

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

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=1.6e-49  Score=331.93  Aligned_cols=185  Identities=38%  Similarity=0.643  Sum_probs=172.4

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      ++||.++|+|||||||+|+|||+|++++|+ |+|||+++||||||+|+|.+++++..++.+||++|+++++|++||+.+|
T Consensus         1 ~~~~~~~~~f~p~Grl~Qieya~~av~~G~-tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   79 (224)
T TIGR03633         1 MGYDRAITVFSPDGRLYQVEYAREAVKRGT-TAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVAD   79 (224)
T ss_pred             CCCCCCCceECCCCeEeHHHHHHHHHHcCC-CEEEEEECCEEEEEEeccCCccccCCCccceEEEECCCEEEEEeecHHh
Confidence            479999999999999999999999999998 9999999999999999999988887889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.+.+|.++..|++++|++++++.++++++.++|.|+++.+.|||+|++||+|+|++ +|+||.+||.|++.+++++
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~~-~~~Ly~~D~~G~~~~~~~~  158 (224)
T TIGR03633        80 ARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDG-GPRLFETDPSGALLEYKAT  158 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeCC-cCEEEEECCCCCeecceEE
Confidence            999999999999999999999999999999999999999999999999999999999975 8999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      |+|+|+.++++++  +..|..+..+..++
T Consensus       159 a~G~g~~~~~~~L--~~~~~~~~~~eeai  185 (224)
T TIGR03633       159 AIGAGRQAVTEFL--EKEYREDLSLDEAI  185 (224)
T ss_pred             EECCCCHHHHHHH--HHhccCCCCHHHHH
Confidence            9999999999984  44555554444443

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.

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

Probab=100.00  E-value=6.4e-50  Score=324.21  Aligned_cols=175  Identities=38%  Similarity=0.623  Sum_probs=172.1

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLA   80 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~   80 (210)
                      ||| |+.+||++-++||||||+||+|||+|||++++ |+||||+|||||+++||..+++|..++..+||+.|++||+|++
T Consensus         1 MSs-IGtGyDls~s~fSpdGrvfQveYA~KAven~~-T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~r~iG~av   78 (254)
T KOG0184|consen    1 MSS-IGTGYDLSASTFSPDGRVFQVEYAQKAVENSG-TCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVDRHIGMAV   78 (254)
T ss_pred             CCc-ccccccccceeeCCCCceehHHHHHHHHhcCC-cEEEEecCCeEEEEEeeeecccccccCCCCceEeecccccEEE
Confidence            896 99999999999999999999999999999999 9999999999999999999999999999999999999999999


Q ss_pred             ecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCce
Q 028367           81 TGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHF  160 (210)
Q Consensus        81 sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~  160 (210)
                      +|+.+|.+.+.+++|.|+.+|+.+|+.++|.+.++..++++.|.||.++..||||++.++++||++ ||+||++||+|..
T Consensus        79 aGl~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~~-g~~LymiepSG~~  157 (254)
T KOG0184|consen   79 AGLIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDDE-GPQLYMIEPSGSS  157 (254)
T ss_pred             eccccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeCC-CceEEEEcCCCCc
Confidence            999999999999999999999999999999999999999999999999999999999999999976 9999999999999


Q ss_pred             eeeceEEEccCCchhhhh
Q 028367          161 FGHKVGGFFNKNSIYDTF  178 (210)
Q Consensus       161 ~~~~~~a~G~gs~~a~~~  178 (210)
                      +.++++|+|.|.+.|++.
T Consensus       158 ~~Y~~aaiGKgrq~aKtE  175 (254)
T KOG0184|consen  158 YGYKGAAIGKGRQAAKTE  175 (254)
T ss_pred             cceeeeeccchhHHHHHH
Confidence            999999999999999998

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=3.2e-49  Score=326.92  Aligned_cols=185  Identities=46%  Similarity=0.759  Sum_probs=173.3

Q ss_pred             CCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADAR   88 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (210)
                      ||.++|+||||||++|+|||+|++++|+ |+||++++||||||+|++.+++++..++.+||++|++++++++||+.+|++
T Consensus         1 ~~~~~~~f~~~G~~~q~eya~~~~~~G~-tvigi~~~dgVvlaaD~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   79 (209)
T cd01911           1 YDRSITTFSPEGRLFQVEYALEAVKNGS-TAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADAR   79 (209)
T ss_pred             CCCCCccCCCCCEEeHHHHHHHHHHcCC-CEEEEEECCEEEEEEEecCCccccCCcccceEEEecCCeEEEeccCcHhHH
Confidence            8999999999999999999999999998 999999999999999999997777778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEE
Q 028367           89 TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGF  168 (210)
Q Consensus        89 ~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~  168 (210)
                      .+.+.++.++..|++++|++++++.++++++.++|+|+++.+.|||+|+++|+|||+++||+||.+||.|++.+++++|+
T Consensus        80 ~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~a~  159 (209)
T cd01911          80 VLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAI  159 (209)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCCCeeeeeEEEe
Confidence            99999999999999999999999999999999999999999999999999999999877899999999999999999999


Q ss_pred             ccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          169 FNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       169 G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      |+|++++.++  ++..|.++.....++.
T Consensus       160 G~g~~~~~~~--L~~~~~~~ms~~ea~~  185 (209)
T cd01911         160 GKGSQEAKTF--LEKRYKKDLTLEEAIK  185 (209)
T ss_pred             CCCcHHHHHH--HHHhcccCCCHHHHHH
Confidence            9999999998  4666766655554443

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=1.5e-48  Score=323.86  Aligned_cols=185  Identities=34%  Similarity=0.592  Sum_probs=169.0

Q ss_pred             CCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADAR   88 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (210)
                      ||+++|+||||||++|+|||++++++|+ |+||++++||||||+|++.+++++..++.+||++|+++++|++||+.+|++
T Consensus         1 ~~~~~~~f~p~G~~~Q~eya~~a~~~G~-t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (213)
T cd03753           1 YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGCAMSGLIADAR   79 (213)
T ss_pred             CCCCCccCCCCCeEhHHHHHHHHHhcCC-CEEEEEeCCEEEEEEecccCCcCcCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            8999999999999999999999999998 999999999999999999987777778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhh-----cCcccceEEEEEEEEeCCCCcEEEEECCCCceeee
Q 028367           89 TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH-----AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH  163 (210)
Q Consensus        89 ~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~-----~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~  163 (210)
                      .+.+.+|.+++.|++++|++|+++.++++++..+|+|++.     .+.|||+|++||+|||++ ||+||.+||+|++.++
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~-gp~Ly~vd~~G~~~~~  158 (213)
T cd03753          80 TLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDEN-GPQLFHTDPSGTFTRC  158 (213)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCC-CCEEEEECCCCCeecc
Confidence            9999999999999999999999999999999999999864     357999999999999976 8999999999999999


Q ss_pred             ceEEEccCCchhhhhh---------HHHHHHHHHHHHHHHH
Q 028367          164 KVGGFFNKNSIYDTFC---------FLSAIWIYNAIIVYIL  195 (210)
Q Consensus       164 ~~~a~G~gs~~a~~~~---------~~~~~~~~~~~~~~~~  195 (210)
                      +++|+|++++.+++++         +++|+.+..+++..+.
T Consensus       159 ~~~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~  199 (213)
T cd03753         159 DAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVM  199 (213)
T ss_pred             cEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999995         3444444444444443

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

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

Probab=100.00  E-value=3.7e-49  Score=315.03  Aligned_cols=187  Identities=33%  Similarity=0.560  Sum_probs=175.1

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +.||+.+++||||||+||||||++|++.|+ |.|||+.++|||||++||.+++|+.++..+||++|++||+|++||+.+|
T Consensus         6 seydrgVNTfSpEGRlfQVEYaieAikLGs-TaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgca~SGl~aD   84 (241)
T KOG0176|consen    6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGCAMSGLIAD   84 (241)
T ss_pred             HHhcccccccCCCceeeehhhHHHHHhcCC-ceeeeeccceEEEEEeccccCcccCchhhhhheehhhceeeeccccccc
Confidence            479999999999999999999999999998 9999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhh-----cCcccceEEEEEEEEeCCCCcEEEEECCCCcee
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH-----AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFF  161 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~-----~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~  161 (210)
                      +++++++.|.++++|++.||++|+++.+.+.++++.-+|...     .-.|||||++++||+|++ ||+||+.||+|++.
T Consensus        85 arTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~-gpqL~h~dPSGtf~  163 (241)
T KOG0176|consen   85 ARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDET-GPQLYHLDPSGTFI  163 (241)
T ss_pred             hHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCC-CceEEEeCCCCceE
Confidence            999999999999999999999999999999999999888533     124999999999999977 99999999999999


Q ss_pred             eeceEEEccCCchhhhhhHHHHHHHHHHHHHHHHHh
Q 028367          162 GHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       162 ~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~~  197 (210)
                      +|++-|+|+|++-|++.  +.-.|...+.+..++..
T Consensus       164 ~~~AKAIGSgsEga~~~--L~~e~~~~ltL~ea~~~  197 (241)
T KOG0176|consen  164 RYKAKAIGSGSEGAESS--LQEEYHKDLTLKEAEKI  197 (241)
T ss_pred             EecceeccccchHHHHH--HHHHHhhcccHHHHHHH
Confidence            99999999999999998  67778777777777654

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

Probab=100.00  E-value=6.2e-47  Score=318.97  Aligned_cols=188  Identities=39%  Similarity=0.643  Sum_probs=173.3

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcc-eeecCCcceeeeEcCcEEEEEecChHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDK-LLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~-li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +||+.+++||||||++|+|||.+++++||||+|||+++||||||+|||.+.+ ++.+++.+||++|+|||+|++||+.+|
T Consensus         2 ~~~~~~~~fsp~g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~aD   81 (236)
T COG0638           2 GYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAAD   81 (236)
T ss_pred             CCcCcceeECCCCchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcHh
Confidence            6999999999999999999999999998779999999999999999999955 555677999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+++++|.+++.|++.+|++|+++.+++++++++|.|+++  .|||+|+++|+|+|+ ++|+||++||+|++.++++.
T Consensus        82 a~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~rP~gv~~iiaG~d~-~~p~Ly~~Dp~G~~~~~~~~  158 (236)
T COG0638          82 AQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDD-GGPRLYSTDPSGSYNEYKAT  158 (236)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--cccceEEEEEEEEcC-CCCeEEEECCCCceeecCEE
Confidence            999999999999999999999999999999999999999876  899999999999998 59999999999999999999


Q ss_pred             EEccCCchhhhhh---------HHHHHHHHHHHHHHHHHhh
Q 028367          167 GFFNKNSIYDTFC---------FLSAIWIYNAIIVYILHWI  198 (210)
Q Consensus       167 a~G~gs~~a~~~~---------~~~~~~~~~~~~~~~~~~~  198 (210)
                      |+|+|++.|++++         +++|+.+.-..+..++.|-
T Consensus       159 a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd  199 (236)
T COG0638         159 AIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERD  199 (236)
T ss_pred             EEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhcc
Confidence            9999999999996         5566666666666666543

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

Probab=100.00  E-value=2.1e-48  Score=313.99  Aligned_cols=173  Identities=35%  Similarity=0.565  Sum_probs=167.1

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA   87 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~   87 (210)
                      +||+.+|+|||||||||||||++|+.+|+ |+||++++|+|||+.+++...+|.+.+...||..+++|++|+++|+.+|+
T Consensus         3 rydraltvFSPDGhL~QVEYAqEAvrkGs-taVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld~hV~mafaGl~aDA   81 (249)
T KOG0183|consen    3 RYDRALTVFSPDGHLFQVEYAQEAVRKGS-TAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLDDHVVMAFAGLTADA   81 (249)
T ss_pred             ccccceEEECCCCCEEeeHhHHHHHhcCc-eEEEeccCceEEEEEeecchhhhhhhhhhhhheeecceeeEEecCCCccc
Confidence            49999999999999999999999999998 99999999999999999999999998899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEE
Q 028367           88 RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGG  167 (210)
Q Consensus        88 ~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a  167 (210)
                      +.+++++|.+|++|+++.+.+++++.++++|+.+.|+|||+.+.||||++.+|+|+|+++.|.||++||+|.+.+|++.|
T Consensus        82 rilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePsG~f~ewka~a  161 (249)
T KOG0183|consen   82 RILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPSGIFSEWKANA  161 (249)
T ss_pred             eeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCCcchhhhhccc
Confidence            99999999999999999999999999999999999999999999999999999999999889999999999999999999


Q ss_pred             EccCCchhhhhhHHH
Q 028367          168 FFNKNSIYDTFCFLS  182 (210)
Q Consensus       168 ~G~gs~~a~~~~~~~  182 (210)
                      +|.++.-+.-| +++
T Consensus       162 iGr~sk~VrEf-lEK  175 (249)
T KOG0183|consen  162 IGRSSKTVREF-LEK  175 (249)
T ss_pred             cccccHHHHHH-HHH
Confidence            99999877766 444

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

Probab=100.00  E-value=3.8e-47  Score=306.05  Aligned_cols=174  Identities=37%  Similarity=0.624  Sum_probs=170.0

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLL   79 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~   79 (210)
                      |||    +||...|+||||||++|||||++++.+.| |+|||..+||||||++++.+++|++ +...+||++++|+|+|+
T Consensus         1 msr----~ydsrttiFspEGRLyQVEyAmeais~aG-t~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~   75 (249)
T KOG0178|consen    1 MSR----RYDSRTTIFSPEGRLYQVEYAMEAISHAG-TCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACA   75 (249)
T ss_pred             CCc----CcCCcccccCCCcchHHHHHHHHHHhhhc-ceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEE
Confidence            899    99999999999999999999999999999 9999999999999999999999987 67899999999999999


Q ss_pred             EecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCc
Q 028367           80 ATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGH  159 (210)
Q Consensus        80 ~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs  159 (210)
                      ++|+.+|+..|++++|..++.|..+||++||.+.|++.+++..|.|||+.+.|||||+++.+|||+..|.+||+.||+|+
T Consensus        76 vaGlt~DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGn  155 (249)
T KOG0178|consen   76 VAGLTSDANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGN  155 (249)
T ss_pred             EecccccHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999998999999999999


Q ss_pred             eeeeceEEEccCCchhhhhh
Q 028367          160 FFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       160 ~~~~~~~a~G~gs~~a~~~~  179 (210)
                      +-.|++.|+|.+++.|+.+-
T Consensus       156 y~gWka~ciG~N~~Aa~s~L  175 (249)
T KOG0178|consen  156 YGGWKATCIGANSGAAQSML  175 (249)
T ss_pred             ccccceeeeccchHHHHHHH
Confidence            99999999999999999884

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

Probab=100.00  E-value=1.7e-46  Score=299.11  Aligned_cols=186  Identities=34%  Similarity=0.516  Sum_probs=178.2

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      .+|.+++|+|||+|||.|+|||+.|+.+|. +.|||+..||||||++|+..+.|.+.+..+|+++|.++|+|.+||+.+|
T Consensus         4 ~~y~fslTtFSpsGKL~QieyAL~Av~~G~-~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~~~IG~vYSGmgpD   82 (233)
T KOG0181|consen    4 FGYSFSLTTFSPSGKLVQIEYALTAVVNGQ-TSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKITPHIGCVYSGMGPD   82 (233)
T ss_pred             cccceeeEEEcCCCceehHHHHHHHHhCCC-CceeeeecCceEEEeccCCCCccchhhhhhhHhhccCCcceEEecCCCc
Confidence            389999999999999999999999999998 9999999999999999999999999899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.++++.|..++.|...|+++||+..|...++..||+|||+.+.||||++++++|||+. +|.||++||+|++..|+++
T Consensus        83 ~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~-~p~LyQvdPSGsyf~wkat  161 (233)
T KOG0181|consen   83 YRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEG-GPLLYQVDPSGSYFAWKAT  161 (233)
T ss_pred             eeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCC-ceeEEEECCccceeehhhh
Confidence            999999999999999999999999999999999999999999999999999999999987 9999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      |+|.+...+++|  .+.+|-..+.++-++|
T Consensus       162 A~Gkn~v~aktF--lEkR~~edleldd~ih  189 (233)
T KOG0181|consen  162 AMGKNYVNAKTF--LEKRYNEDLELDDAIH  189 (233)
T ss_pred             hhccCcchHHHH--HHHHhccccccchHHH
Confidence            999999999999  6777777777776665

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

Probab=100.00  E-value=1.2e-44  Score=291.76  Aligned_cols=178  Identities=66%  Similarity=1.028  Sum_probs=174.8

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLA   80 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~   80 (210)
                      |||++..+||+++|+|||||||+|||||.||++++|.|+||++++|++|+++.|+.+.+|++++....+|+|..+|+|++
T Consensus         1 ~s~gs~agfDrhitIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~itk~ig~v~   80 (246)
T KOG0182|consen    1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRITKKIGCVI   80 (246)
T ss_pred             CCCCCcCCccceEEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEeeccceEEE
Confidence            89988999999999999999999999999999997779999999999999999999999999999999999999999999


Q ss_pred             ecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCce
Q 028367           81 TGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHF  160 (210)
Q Consensus        81 sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~  160 (210)
                      +|+.+|.+..++++|.++.+++++||.+||++.|++++++..|.|||+.-+||+||.+++.|+|++.||.+|.+||.|-+
T Consensus        81 tG~~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~vYk~DpAGyy  160 (246)
T KOG0182|consen   81 TGMIADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSVYKTDPAGYY  160 (246)
T ss_pred             ecCCcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcceEeecCcccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeceEEEccCCchhhhh
Q 028367          161 FGHKVGGFFNKNSIYDTF  178 (210)
Q Consensus       161 ~~~~~~a~G~gs~~a~~~  178 (210)
                      ..+++.|.|-...-+..+
T Consensus       161 ~g~kAtaaG~Kq~e~tsf  178 (246)
T KOG0182|consen  161 YGFKATAAGVKQQEATSF  178 (246)
T ss_pred             ccceeeecccchhhHHHH
Confidence            999999999999999988

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

Probab=100.00  E-value=2.5e-41  Score=275.48  Aligned_cols=169  Identities=35%  Similarity=0.548  Sum_probs=163.5

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +.||++.|+|||+||++|||||.+|+++|+ ++||+|.++..||++-+|..+.|..  ...||++||+|++++++|+++|
T Consensus         4 nqyd~d~t~wsPqGrl~QvEya~EavkqGs-atVGLks~thaVLvAl~r~~seLss--~QkKi~~iD~h~g~siAGLt~D   80 (264)
T KOG0863|consen    4 NQYDNDVTTWSPQGRLHQVEYAMEAVKQGS-ATVGLKSRTHAVLVALKRAQSELSS--HQKKIFKIDDHIGISIAGLTAD   80 (264)
T ss_pred             ccccCceeEECCcceehHHHHHHHHHhccc-ceEeecccceEEEeeeccchhHHHH--hhheeEecccccceEEeccCcc
Confidence            579999999999999999999999999999 9999999999999999998877765  5689999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.|.+++|.+|..++..+++++++..|...+.+.+|..||+.+.|||||.++++|+|+. ||+||+++|+|++.++++.
T Consensus        81 arvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~-G~hl~e~~Psg~v~e~~g~  159 (264)
T KOG0863|consen   81 ARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDES-GPHLYEFCPSGNVFECKGM  159 (264)
T ss_pred             hHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCC-CceeEEEcCCccEEEEeee
Confidence            999999999999999999999999999999999999999999999999999999999987 9999999999999999999


Q ss_pred             EEccCCchhhhhh
Q 028367          167 GFFNKNSIYDTFC  179 (210)
Q Consensus       167 a~G~gs~~a~~~~  179 (210)
                      ++|+.++.|+++-
T Consensus       160 sIGsRSQsARTyL  172 (264)
T KOG0863|consen  160 SIGSRSQSARTYL  172 (264)
T ss_pred             ecccchhhHHHHH
Confidence            9999999999984

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=5.9e-37  Score=250.93  Aligned_cols=156  Identities=15%  Similarity=0.210  Sum_probs=141.0

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      +|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||+.+|++.+++.+|.+++.|+++++++++++.++
T Consensus         2 ~t~igi~~~dgVvlaad~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la   81 (193)
T cd03758           2 ETLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAA   81 (193)
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEecCcccEEEeCCCeEEEEccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            599999999999999999998 7778889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +++++++|.|+++ + |||++++||+|||++.||+||++||+|++.+++++|+|+|++++++++  +..|..+.....++
T Consensus        82 ~~l~~~~~~~~~~-~-rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~L--e~~~~~~ms~eeai  157 (193)
T cd03758          82 NFTRRELAESLRS-R-TPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSIL--DRYYKPDMTVEEAL  157 (193)
T ss_pred             HHHHHHHHHHhhc-C-CCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHH--HhccCCCCCHHHHH
Confidence            9999999988654 3 899999999999975589999999999999999999999999999995  44455454444444


Q ss_pred             H
Q 028367          196 H  196 (210)
Q Consensus       196 ~  196 (210)
                      .
T Consensus       158 ~  158 (193)
T cd03758         158 E  158 (193)
T ss_pred             H
Confidence            3

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

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=1.3e-36  Score=249.50  Aligned_cols=157  Identities=17%  Similarity=0.132  Sum_probs=142.9

Q ss_pred             cCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHH-HHHHHhCCCCCHH
Q 028367           35 AGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAA-EFRFKYGYEMPVD  112 (210)
Q Consensus        35 gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~-~~~~~~g~~i~~~  112 (210)
                      |+ |+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|+.+|++.+++++|.+++ .+++.++++|+++
T Consensus         2 G~-T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   80 (197)
T cd03760           2 GT-SVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPK   80 (197)
T ss_pred             Cc-eEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            55 99999999999999999999 899988899999999999999999999999999999999987 5678899999999


Q ss_pred             HHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHH--HHH
Q 028367          113 VLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIY--NAI  190 (210)
Q Consensus       113 ~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~--~~~  190 (210)
                      .+++++++++  |++++++|||+|++||+|||+++||+||.+||+|++.+++++|+|+|+++++++  ++..|..  +..
T Consensus        81 ~la~~i~~~~--y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~--Le~~~~~~~~ms  156 (197)
T cd03760          81 EIHSYLTRVL--YNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPL--LREAWEKKPDLT  156 (197)
T ss_pred             HHHHHHHHHH--HHHhhcCCCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHH--HHhhcCCCCCCC
Confidence            9999999986  778888999999999999997558999999999999999999999999999998  4666766  555


Q ss_pred             HHHHHH
Q 028367          191 IVYILH  196 (210)
Q Consensus       191 ~~~~~~  196 (210)
                      ...++.
T Consensus       157 ~eea~~  162 (197)
T cd03760         157 EEEARA  162 (197)
T ss_pred             HHHHHH
Confidence            555543

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=1.8e-35  Score=241.17  Aligned_cols=151  Identities=15%  Similarity=0.173  Sum_probs=136.9

Q ss_pred             ceEEEEEcCCEEEEEEecCCCc-ceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVPD-KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~~-~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|++.+. .++.+++.+||++|++|++++++|+.+|++.+.+.+|.+++.|++++|++|+++.++
T Consensus         1 tT~igi~~kdgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la   80 (188)
T cd03761           1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAAS   80 (188)
T ss_pred             CcEEEEEECCEEEEEEcCCccCCcEEEcCCcceEEEccCcEEEEeCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            5899999999999999999994 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYI  194 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~  194 (210)
                      +++++++|.++    .+||++++||+|||++ ||+||.+||+|++.+++++|+|+|++++++++  +..|..+.....+
T Consensus        81 ~~ls~~l~~~~----~~~~~v~~li~G~D~~-g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~L--e~~~~~~~s~eea  152 (188)
T cd03761          81 KLLSNMLYQYK----GMGLSMGTMICGWDKT-GPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVL--DSGYRYDLSVEEA  152 (188)
T ss_pred             HHHHHHHHhcC----CCCeEEEEEEEEEeCC-CCEEEEEcCCceEEEcCeEEEcccHHHHHHHH--HhcCCCCCCHHHH
Confidence            99999999874    4699999999999975 89999999999999999999999999999996  3344444444333

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

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=5.6e-36  Score=245.42  Aligned_cols=155  Identities=18%  Similarity=0.257  Sum_probs=137.4

Q ss_pred             ccCceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 028367           34 AAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVD  112 (210)
Q Consensus        34 ~gg~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~  112 (210)
                      +|+ |+|||+++||||||+|++.+.+++. +++.+||++|+++++|++||+.+|++.+.+.+|.+++.|++++|++|+++
T Consensus         2 ~G~-t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~   80 (195)
T cd03759           2 NGG-AVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPK   80 (195)
T ss_pred             CCc-eEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            576 9999999999999999999877665 56789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeec-eEEEccCCchhhhhhHHHHHHHHHHHH
Q 028367          113 VLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK-VGGFFNKNSIYDTFCFLSAIWIYNAII  191 (210)
Q Consensus       113 ~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~-~~a~G~gs~~a~~~~~~~~~~~~~~~~  191 (210)
                      .+++++++++  |++  +.|||+|++||+|||++++|+||.+||+|++..++ ++|+|+|++.++++.  +..|..+...
T Consensus        81 ~la~~l~~~l--y~~--r~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~L--e~~~~~~~s~  154 (195)
T cd03759          81 TFSSLISSLL--YEK--RFGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMC--ESLWRPDMEP  154 (195)
T ss_pred             HHHHHHHHHH--HHh--cCCCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHH--HhccCCCCCH
Confidence            9999999998  443  46899999999999977689999999999998887 999999999999984  4445555444


Q ss_pred             HHHH
Q 028367          192 VYIL  195 (210)
Q Consensus       192 ~~~~  195 (210)
                      ..++
T Consensus       155 ~ea~  158 (195)
T cd03759         155 DELF  158 (195)
T ss_pred             HHHH
Confidence            4443

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=9.7e-35  Score=235.77  Aligned_cols=152  Identities=22%  Similarity=0.369  Sum_probs=138.9

Q ss_pred             cCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 028367           35 AGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDV  113 (210)
Q Consensus        35 gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~  113 (210)
                      |+ |+|||+++||||||+|++.+ ++++.+++.+||++|++++++++||..+|++.+.+++|.+++.|+..++++++++.
T Consensus         1 G~-t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~   79 (185)
T TIGR03634         1 GT-TTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKA   79 (185)
T ss_pred             CC-cEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            44 99999999999999999998 88888889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHH
Q 028367          114 LAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVY  193 (210)
Q Consensus       114 la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~  193 (210)
                      ++++++.++|.+    ++|||++++||+|||++ ||+||.+||+|++.+++++|+|+|++++++++  +..|..+..+..
T Consensus        80 ~a~~l~~~~~~~----~~rP~~v~~ivaG~d~~-g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~L--e~~~~~~~s~~e  152 (185)
T TIGR03634        80 LATLLSNILNSN----RFFPFIVQLLVGGVDEE-GPHLYSLDPAGGIIEDDYTATGSGSPVAYGVL--EDEYREDMSVEE  152 (185)
T ss_pred             HHHHHHHHHHhc----CCCCeEEEEEEEEEeCC-CCEEEEECCCCCeEECCEEEEcCcHHHHHHHH--HhcCCCCCCHHH
Confidence            999999999865    78999999999999976 89999999999999999999999999999984  445544444333


Q ss_pred             H
Q 028367          194 I  194 (210)
Q Consensus       194 ~  194 (210)
                      +
T Consensus       153 a  153 (185)
T TIGR03634       153 A  153 (185)
T ss_pred             H
Confidence            3

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

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=3.9e-35  Score=243.49  Aligned_cols=143  Identities=17%  Similarity=0.287  Sum_probs=132.6

Q ss_pred             HhccCceEEEEEcCCEEEEEEecCCCcce-eecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 028367           32 VKAAGVTSIGVRGKDSVCVVTQKKVPDKL-LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMP  110 (210)
Q Consensus        32 v~~gg~tvIgik~~dgVVlaad~~~~~~l-i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~  110 (210)
                      +++|+ |+|||+++||||||+|++.+.++ +..++.+||++|++++++++||+.+|++.+.+.+|.+++.|++++|++|+
T Consensus         5 ~~~G~-Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~   83 (212)
T cd03757           5 TDNGG-TVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMS   83 (212)
T ss_pred             cCCCc-cEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCC
Confidence            45777 99999999999999999999555 55788999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh
Q 028367          111 VDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       111 ~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~  179 (210)
                      ++.++++++.+++.  +  +.|||++++||||||++++|+||.+||+|++.+++++|+|+|+++|++++
T Consensus        84 ~~~la~~ls~~ly~--~--R~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~L  148 (212)
T cd03757          84 TEAIAQLLSTILYS--R--RFFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLL  148 (212)
T ss_pred             HHHHHHHHHHHHHh--h--cCCCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHH
Confidence            99999999999953  2  46899999999999977679999999999999999999999999999984

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=5.7e-35  Score=236.95  Aligned_cols=162  Identities=28%  Similarity=0.481  Sum_probs=146.8

Q ss_pred             HhccCceEEEEEcCCEEEEEEecCCC-ccee-ecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCC
Q 028367           32 VKAAGVTSIGVRGKDSVCVVTQKKVP-DKLL-DHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEM  109 (210)
Q Consensus        32 v~~gg~tvIgik~~dgVVlaad~~~~-~~li-~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i  109 (210)
                      |++|+ |+|||+++||||||+|++.+ +..+ .++..+||++|++++++++||+.+|++.+.+.++.+++.|++.++.++
T Consensus         1 v~~G~-t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~   79 (190)
T PF00227_consen    1 VNNGT-TVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPI   79 (190)
T ss_dssp             HHTSB-EEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGT
T ss_pred             CCCCe-EEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCccc
Confidence            56887 99999999999999999998 5555 444479999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeee-ceEEEccCCchhhhhhHHHHHHHHH
Q 028367          110 PVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH-KVGGFFNKNSIYDTFCFLSAIWIYN  188 (210)
Q Consensus       110 ~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~-~~~a~G~gs~~a~~~~~~~~~~~~~  188 (210)
                      +++.+++.++.+++.++++.++||++++++++|||++++|+||.+||+|++.++ .++|+|+|++++++++  +..|..+
T Consensus        80 ~~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l--~~~~~~~  157 (190)
T PF00227_consen   80 SPEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPIL--EKLYKPD  157 (190)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHH--HHHHTTT
T ss_pred             cchhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHH--HhhccCC
Confidence            999999999999999999999999999999999998866999999999999999 6999999999999984  6666666


Q ss_pred             HHHHHHHH
Q 028367          189 AIIVYILH  196 (210)
Q Consensus       189 ~~~~~~~~  196 (210)
                      ..+..++.
T Consensus       158 ~~~~ea~~  165 (190)
T PF00227_consen  158 LSLEEAIE  165 (190)
T ss_dssp             SSHHHHHH
T ss_pred             CCHHHHHH
Confidence            65555544

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 ....

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=3.3e-35  Score=245.04  Aligned_cols=158  Identities=16%  Similarity=0.167  Sum_probs=141.5

Q ss_pred             ccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 028367           34 AAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVD  112 (210)
Q Consensus        34 ~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~  112 (210)
                      +|+ |+|||+++||||||+|++.+ ++++.+++.+||++|+++++|+++|+.+|++.+.+++|.+++.|+++++++|+++
T Consensus         1 ~G~-T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~   79 (219)
T TIGR03690         1 HGT-TIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLD   79 (219)
T ss_pred             CCc-EEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            366 99999999999999999999 6888888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCC-CCcEEEEECCCCc-eeeeceEEEccCCchhhhhhHHHHHHHHHHH
Q 028367          113 VLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEE-CGPRLFKCDPAGH-FFGHKVGGFFNKNSIYDTFCFLSAIWIYNAI  190 (210)
Q Consensus       113 ~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~-~gp~Ly~vD~~Gs-~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~  190 (210)
                      .+++++++++|.++ ...+|||++++||+|||++ ++|+||.+||+|+ +..++++|+|+|+++|++++  +..|..+..
T Consensus        80 ~la~~ls~~~~~~~-~~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~L--e~~~~~~ms  156 (219)
T TIGR03690        80 GKANRLAAMVRGNL-PAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGAL--KKLYSPDLD  156 (219)
T ss_pred             HHHHHHHHHHHhhh-hhccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHH--HhcCCCCcC
Confidence            99999999999876 4458999999999999964 5899999999995 66779999999999999994  456655554


Q ss_pred             HHHHH
Q 028367          191 IVYIL  195 (210)
Q Consensus       191 ~~~~~  195 (210)
                      ...++
T Consensus       157 ~eeai  161 (219)
T TIGR03690       157 EDDAL  161 (219)
T ss_pred             HHHHH
Confidence            44444

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

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=3.4e-35  Score=246.39  Aligned_cols=160  Identities=15%  Similarity=0.123  Sum_probs=141.6

Q ss_pred             hhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHH
Q 028367           25 VEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFK  104 (210)
Q Consensus        25 veya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~  104 (210)
                      -|||.||+++|+ |+|||+++||||||+|++.       ++.+||++|+|+++|+++|+.+|++.++++++.+++.|+++
T Consensus        17 ~EYA~kav~~g~-T~VGIk~kdgVVLaaek~~-------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~~   88 (228)
T TIGR03691        17 AELARKGIARGR-SVVVLTYADGILFVAENPS-------RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMRGYS   88 (228)
T ss_pred             HHHHHHHHHcCC-cEEEEEeCCeEEEEEecCC-------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhhh
Confidence            599999999987 9999999999999999973       46789999999999999999999999999999999999999


Q ss_pred             hC-CCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeC-CCCcEEEEECCCCceeeec-eEEEccCCchhhhhhHH
Q 028367          105 YG-YEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDE-ECGPRLFKCDPAGHFFGHK-VGGFFNKNSIYDTFCFL  181 (210)
Q Consensus       105 ~g-~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~-~~gp~Ly~vD~~Gs~~~~~-~~a~G~gs~~a~~~~~~  181 (210)
                      ++ .+++++.+++++++.++.++ +.+.|||+|++||+|||+ +.||+||.+||+|++.+++ ++|+|+|++.++++  +
T Consensus        89 ~~~~~~~v~~la~~~tq~~~~~~-~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~--L  165 (228)
T TIGR03691        89 YDRRDVTGRGLANAYAQTLGTIF-TEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATA--L  165 (228)
T ss_pred             cCCCCccHHHHHHHHHhhccccc-ccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChHHHHHH--H
Confidence            98 78999999988888777665 567899999999999985 4589999999999999976 79999999999998  4


Q ss_pred             HHHHHHHHHHHHHH
Q 028367          182 SAIWIYNAIIVYIL  195 (210)
Q Consensus       182 ~~~~~~~~~~~~~~  195 (210)
                      +..|..+..+..++
T Consensus       166 ek~y~~~ms~eeai  179 (228)
T TIGR03691       166 KESYRDGLSLADAL  179 (228)
T ss_pred             HHhcCCCCCHHHHH
Confidence            55666555544444

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.

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=7.9e-35  Score=237.00  Aligned_cols=153  Identities=21%  Similarity=0.328  Sum_probs=140.0

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|+.+|++.+.+.+|.+++.|++.++++++++.++
T Consensus         1 tt~iai~~~dgvvia~d~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (188)
T cd03764           1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALA   80 (188)
T ss_pred             CcEEEEEeCCEEEEEEccccccCCEEecCCcccEEEccCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            589999999999999999999 6888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +++++++|.+    ++|||+|++||+|||++ +|+||.+||+|++.+++++|+|+|++++++++  +..|..+..+..++
T Consensus        81 ~~i~~~~~~~----~~~P~~~~~lvaG~d~~-~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L--~~~~~~~~~~~ea~  153 (188)
T cd03764          81 TLLSNILNSS----KYFPYIVQLLIGGVDEE-GPHLYSLDPLGSIIEDKYTATGSGSPYAYGVL--EDEYKEDMTVEEAK  153 (188)
T ss_pred             HHHHHHHHhc----CCCCcEEEEEEEEEeCC-CCEEEEECCCCCEEEcCEEEEcCcHHHHHHHH--HhcCCCCCCHHHHH
Confidence            9999999875    68999999999999984 89999999999999999999999999999984  55566655555444


Q ss_pred             H
Q 028367          196 H  196 (210)
Q Consensus       196 ~  196 (210)
                      .
T Consensus       154 ~  154 (188)
T cd03764         154 K  154 (188)
T ss_pred             H
Confidence            3

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.

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=7.5e-34  Score=228.92  Aligned_cols=155  Identities=34%  Similarity=0.579  Sum_probs=140.7

Q ss_pred             ceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+||++++||||||+|++.+..+.. +++.+|||+|+++++++++|+.+|++.+.+.++.++..|++.+|++++++.++
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALA   80 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCcceEEEECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            48999999999999999999855544 78899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +++++++|+++++  .|||+++++|+|+|++.+|+||.+||+|++.+++++|+|+|+++++++  ++..|..+..+..++
T Consensus        81 ~~l~~~~~~~~~~--~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~--L~~~~~~~~s~~ea~  156 (182)
T cd01906          81 KLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGI--LEKLYKPDMTLEEAI  156 (182)
T ss_pred             HHHHHHHHHhCCC--ccChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHH--HHHHccCCCCHHHHH
Confidence            9999999998765  899999999999998559999999999999999999999999999998  466666655444443

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=1.3e-33  Score=229.89  Aligned_cols=148  Identities=14%  Similarity=0.144  Sum_probs=134.7

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|++.+ +.++.+++.+||++|+++++++++|+.+|++.+.+.+|.+++.|+++++++++++.++
T Consensus         1 ~t~igi~~~dgVvla~D~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a   80 (188)
T cd03762           1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAA   80 (188)
T ss_pred             CeEEEEEECCeEEEEEcccccCCceEEcCCcccEEEccCCEEEEecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHH
Confidence            589999999999999999998 5788888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAII  191 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~  191 (210)
                      ++++.++|++     .|||++++||+|+|++.||+||.+||.|++.+++++++|+|+++++++.  +..|..+...
T Consensus        81 ~~l~~~~~~~-----~~~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~L--e~~~~~~~s~  149 (188)
T cd03762          81 SLFKNLCYNY-----KEMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYV--DANYKPGMTL  149 (188)
T ss_pred             HHHHHHHHhc-----cccceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHH--HhcCCCCCCH
Confidence            9999999766     3799999999999975589999999999999999999999999999985  3344443333

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=6e-34  Score=232.18  Aligned_cols=152  Identities=14%  Similarity=0.119  Sum_probs=137.6

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++..++.+||++|+++++++++|+.+|++.+.+.+|.+++.|+++++++++++.++
T Consensus         1 tt~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (189)
T cd03763           1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTAL   80 (189)
T ss_pred             CeEEEEEECCeEEEEEcCCcccCceEEcCCccceEEecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            599999999999999999999 5677788899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +++++.+|.|.     .||+|++||||||++ ||+||.+||.|++.+++++|+|+++++++++.  +..|..+.....++
T Consensus        81 ~~l~~~l~~~~-----~p~~v~~ivaG~d~~-g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L--~~~~~~~ls~~ea~  152 (189)
T cd03763          81 TMLKQHLFRYQ-----GHIGAALVLGGVDYT-GPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVL--EDRYKPDMTEEEAK  152 (189)
T ss_pred             HHHHHHHHHcC-----CccceeEEEEeEcCC-CCEEEEECCCCCEEecCEEEEcCCHHHHHHHH--HhhcCCCCCHHHHH
Confidence            99999998762     399999999999976 89999999999999999999999999999984  55566555555544


Q ss_pred             H
Q 028367          196 H  196 (210)
Q Consensus       196 ~  196 (210)
                      .
T Consensus       153 ~  153 (189)
T cd03763         153 K  153 (189)
T ss_pred             H
Confidence            3

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=7.4e-34  Score=230.90  Aligned_cols=153  Identities=19%  Similarity=0.271  Sum_probs=137.6

Q ss_pred             ceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+||++++||||||+|++.+.++.. +++.+|||+|++++++++||+.+|++.+.++++.+++.|+..++++++++.++
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAA   80 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCcCcEEEccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            48999999999999999999955544 88999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      ++++++++++++    |||++++||+|+|++++|+||.+||+|++.+++++|+|.+++++++++  +..|..+..+..++
T Consensus        81 ~~l~~~~~~~~~----~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~L--e~~~~~~~s~~ea~  154 (189)
T cd01912          81 NLLSNILYSYRG----FPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGIL--DRGYKPDMTLEEAV  154 (189)
T ss_pred             HHHHHHHHhcCC----CCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHH--HhccCCCCCHHHHH
Confidence            999999987743    899999999999985589999999999999999999999999999984  55555554444443

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=2e-33  Score=238.21  Aligned_cols=160  Identities=16%  Similarity=0.115  Sum_probs=139.6

Q ss_pred             HHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCC
Q 028367           31 AVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEM  109 (210)
Q Consensus        31 av~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i  109 (210)
                      .+.+|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||+.+|++.+.+++|.+++.|++++|++|
T Consensus        35 ~~~~G~-T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~i  113 (247)
T PTZ00488         35 EFAHGT-TTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELI  113 (247)
T ss_pred             ccCCCc-eEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            456777 99999999999999999998 7888889999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------H
Q 028367          110 PVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------F  180 (210)
Q Consensus       110 ~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~  180 (210)
                      +++.+++++++++|.+    |..|+.+++||+|||++ ||+||.+||+|++.+++++|+|+|+.++++++         .
T Consensus       114 sv~~la~~ls~~l~~~----R~~~~~v~~iiaG~D~~-gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~  188 (247)
T PTZ00488        114 SVAAASKILANIVWNY----KGMGLSMGTMICGWDKK-GPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLND  188 (247)
T ss_pred             CHHHHHHHHHHHHHhc----CCCCeeEEEEEEEEeCC-CCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCCCH
Confidence            9999999999999765    22344555899999976 89999999999999999999999999999996         3


Q ss_pred             HHHHHHHHHHHHHHHH
Q 028367          181 LSAIWIYNAIIVYILH  196 (210)
Q Consensus       181 ~~~~~~~~~~~~~~~~  196 (210)
                      ++|+...-+++..++.
T Consensus       189 eEai~l~~kal~~~~~  204 (247)
T PTZ00488        189 EEAQDLGRRAIYHATF  204 (247)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4444444444444444

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=9.8e-33  Score=232.29  Aligned_cols=160  Identities=10%  Similarity=0.077  Sum_probs=137.9

Q ss_pred             ceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEc----CcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCC-CCCH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPIT----KYLGLLATGMTADARTLVQQARYEAAEFRFKYGY-EMPV  111 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~----~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~-~i~~  111 (210)
                      |=+|||+++||||||+|+|.+++++..++.+||++|+    +|++|+.||+.+|++.+++++|.+++.|++++|+ ++++
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~l~~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v   80 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAGVDNISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPTM   80 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCCCccccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCH
Confidence            3589999999999999999988877766889999998    8999999999999999999999999999999999 8999


Q ss_pred             HHHHHHHHHHHHH-hhhhcC-----cccceEEEEEEEEeCCCCcEEEEECCCCceeeec----eEEEccCCchhhhhh--
Q 028367          112 DVLAKWIADKSQV-YTQHAY-----MRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK----VGGFFNKNSIYDTFC--  179 (210)
Q Consensus       112 ~~la~~ls~~~~~-~t~~~~-----~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~----~~a~G~gs~~a~~~~--  179 (210)
                      +.+++++++++++ ++|..+     .|||+|++||+|||++.||+||++||+|++.+++    ++|+|. +.+++++.  
T Consensus        81 ~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek  159 (236)
T cd03765          81 FDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDR  159 (236)
T ss_pred             HHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHH
Confidence            9999999998654 445443     5899999999999966689999999999999984    589996 68999885  


Q ss_pred             -------HHHHHHHHHHHHHHHHHh
Q 028367          180 -------FLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       180 -------~~~~~~~~~~~~~~~~~~  197 (210)
                             +++|..+.-+++..++.+
T Consensus       160 ~yk~~ms~eeai~la~~al~~a~~r  184 (236)
T cd03765         160 VITPDTSLEDAAKCALVSMDSTMRS  184 (236)
T ss_pred             hcCCCCCHHHHHHHHHHHHHHHHHh
Confidence                   455555555555555543

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

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

Probab=99.95  E-value=6.8e-28  Score=194.43  Aligned_cols=152  Identities=18%  Similarity=0.254  Sum_probs=139.4

Q ss_pred             HHhccCceEEEEEcCCEEEEEEecCCCc-ceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCC
Q 028367           31 AVKAAGVTSIGVRGKDSVCVVTQKKVPD-KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEM  109 (210)
Q Consensus        31 av~~gg~tvIgik~~dgVVlaad~~~~~-~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i  109 (210)
                      ...+|| |+|||++.|+.|+|+|+|.++ .-|.+++.+|||+++|++.++.||+.+|+..|...++.+.+.|+..++..|
T Consensus        25 Y~~NGG-T~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~m  103 (235)
T KOG0179|consen   25 YEDNGG-TTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKM  103 (235)
T ss_pred             cccCCc-eEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccc
Confidence            467899 999999999999999999984 446689999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHH
Q 028367          110 PVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYN  188 (210)
Q Consensus       110 ~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~  188 (210)
                      +++..|++|+..++    ..|+.||++..+|+|+|++++|.+|+.||.|++.+..+.|-|+++.+++|+ |+.-+-+.|
T Consensus       104 s~~s~A~lls~~LY----~kRFFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~Pf-LDnQi~~kn  177 (235)
T KOG0179|consen  104 SIHSAAQLLSTILY----SKRFFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPF-LDNQIGHKN  177 (235)
T ss_pred             cHHHHHHHHHHHHh----hcccccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchhhhhhh-hhhhccCcC
Confidence            99999999999995    458999999999999999988999999999999999999999999999999 444443333

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

Probab=99.95  E-value=2.4e-27  Score=189.37  Aligned_cols=161  Identities=15%  Similarity=0.184  Sum_probs=148.8

Q ss_pred             HhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 028367           32 VKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMP  110 (210)
Q Consensus        32 v~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~  110 (210)
                      +..|+ |++|++++|||||++|.|.+ +.++.++..+|+.+|+|+|+||-||..+|.|.+++.++..+..|..+++.+++
T Consensus        16 vstGT-TImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~   94 (224)
T KOG0174|consen   16 VSTGT-TIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPL   94 (224)
T ss_pred             cccCc-eEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCch
Confidence            45665 99999999999999999999 88899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HH
Q 028367          111 VDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FL  181 (210)
Q Consensus       111 ~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~  181 (210)
                      +...|+.++++.++|.     .-+-..+||||||+..|.++|.+-.-|+..+.+++.-|+||.++++||         ++
T Consensus        95 v~~aA~l~r~~~Y~~r-----e~L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~E  169 (224)
T KOG0174|consen   95 VHTAASLFREICYNYR-----EMLSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTLE  169 (224)
T ss_pred             HHHHHHHHHHHHHhCH-----HhhhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCCCHH
Confidence            9999999999998762     237899999999998899999997777777778888899999999999         99


Q ss_pred             HHHHHHHHHHHHHHHhh
Q 028367          182 SAIWIYNAIIVYILHWI  198 (210)
Q Consensus       182 ~~~~~~~~~~~~~~~~~  198 (210)
                      +|..+.-+.+.+|+.|-
T Consensus       170 E~~~fvk~Av~lAi~rD  186 (224)
T KOG0174|consen  170 ECVRFVKNAVSLAIERD  186 (224)
T ss_pred             HHHHHHHHHHHHHHhcc
Confidence            99999999999999984

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

Probab=99.95  E-value=1.3e-27  Score=187.73  Aligned_cols=155  Identities=16%  Similarity=0.225  Sum_probs=143.8

Q ss_pred             ccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 028367           34 AAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVD  112 (210)
Q Consensus        34 ~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~  112 (210)
                      +|| ++||++++++|.||+|.|.. ...-.+++.+|||+++|++++|.+|+..|+|++.++++...+.|+++.+++|.|+
T Consensus         7 nGg-~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~   85 (204)
T KOG0180|consen    7 NGG-SVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPE   85 (204)
T ss_pred             cCc-eEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcH
Confidence            789 99999999999999999998 4444578999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceee-eceEEEccCCchhhhhhHHHHHHHHHHHH
Q 028367          113 VLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFG-HKVGGFFNKNSIYDTFCFLSAIWIYNAII  191 (210)
Q Consensus       113 ~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~-~~~~a~G~gs~~a~~~~~~~~~~~~~~~~  191 (210)
                      ++++++|..+++.    |+-||.+..+|||+|+++.|++..+|..|.... .++++.|.+++...++|  +++|-+|...
T Consensus        86 ~~s~mvS~~lYek----RfgpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmC--E~ly~pnmep  159 (204)
T KOG0180|consen   86 TFSSMVSSLLYEK----RFGPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMC--EALYEPNMEP  159 (204)
T ss_pred             HHHHHHHHHHHHh----hcCCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHH--HHhcCCCCCH
Confidence            9999999999754    788999999999999998999999999999985 69999999999999999  8888888877


Q ss_pred             HHHH
Q 028367          192 VYIL  195 (210)
Q Consensus       192 ~~~~  195 (210)
                      +...
T Consensus       160 d~LF  163 (204)
T KOG0180|consen  160 DELF  163 (204)
T ss_pred             HHHH
Confidence            6654

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

Probab=99.95  E-value=7e-27  Score=185.93  Aligned_cols=160  Identities=14%  Similarity=0.205  Sum_probs=142.7

Q ss_pred             eEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Q 028367           38 TSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAK  116 (210)
Q Consensus        38 tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~  116 (210)
                      +++||++.|+|++|+|+... +-++.+++.+|++++++++.|+++|..+|+..+.++++++++.|+.++|.+++|+.+++
T Consensus         3 ~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aah   82 (200)
T KOG0177|consen    3 TLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAH   82 (200)
T ss_pred             eEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHH
Confidence            78999999999999999987 55556889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HHHHHHHH
Q 028367          117 WIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FLSAIWIY  187 (210)
Q Consensus       117 ~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~~~~~~~  187 (210)
                      ++...++++.+  ..+||.|+++|||+|++.||.||++|..|+..+.++++.|.++-+..++=         .++|..+.
T Consensus        83 FtR~~La~~LR--sr~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lm  160 (200)
T KOG0177|consen   83 FTRRELAESLR--SRTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLM  160 (200)
T ss_pred             HHHHHHHHHHh--cCCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHH
Confidence            99999998853  47899999999999999899999999999999999999999998877763         45566666


Q ss_pred             HHHHHHHHHhhh
Q 028367          188 NAIIVYILHWIQ  199 (210)
Q Consensus       188 ~~~~~~~~~~~~  199 (210)
                      ++|+.++-.|.+
T Consensus       161 kKCv~El~kRlv  172 (200)
T KOG0177|consen  161 KKCVLELKKRLV  172 (200)
T ss_pred             HHHHHHHHHhcc
Confidence            667666655543

>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=99.94  E-value=1.4e-25  Score=174.86  Aligned_cols=145  Identities=29%  Similarity=0.406  Sum_probs=134.2

Q ss_pred             ceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      +|+||++++||||+|+|++.+..+.. ..+..||++++++++++++|..+|++.+.+.++.+++.|++.++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            48999999999999999999855544 67899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeee-ceEEEccCCchhhhhhHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH-KVGGFFNKNSIYDTFCFLSAIWIY  187 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~-~~~a~G~gs~~a~~~~~~~~~~~~  187 (210)
                      +.+++.++.+++   .||++++++|+|+|+ ++|+||.+||.|++.++ .++++|+++..+.++  .+..|..
T Consensus        81 ~~~~~~~~~~~~---~~p~~~~~iiag~~~-~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~--l~~~~~~  147 (164)
T cd01901          81 KELAKLLQVYTQ---GRPFGVNLIVAGVDE-GGGNLYYIDPSGPVIENPGAVATGSRSQRAKSL--LEKLYKP  147 (164)
T ss_pred             HHHHHHHHHhcC---CCCcceEEEEEEEcC-CCCEEEEECCCcCEeecCcEEEECCCCHHHHHH--HHHHhcC
Confidence            999999998865   899999999999998 48999999999999999 999999999999998  4555544

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

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

Probab=99.94  E-value=2.4e-26  Score=190.34  Aligned_cols=139  Identities=17%  Similarity=0.210  Sum_probs=132.0

Q ss_pred             ccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 028367           34 AAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVD  112 (210)
Q Consensus        34 ~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~  112 (210)
                      +|+ |++|++++.|||+|+|.|.+ +++|.++..+||.+||++++-+.+|-.+|++.+-+.+..+|++|++++++.|++.
T Consensus        70 hGT-TTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVs  148 (285)
T KOG0175|consen   70 HGT-TTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVS  148 (285)
T ss_pred             CCc-eEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehH
Confidence            675 99999999999999999999 8999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhh
Q 028367          113 VLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTF  178 (210)
Q Consensus       113 ~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~  178 (210)
                      ..++.+++++++|.   ++ -+-+..+|+|||++ ||.||.||..|+-.+.+.+++|+|+.+|++.
T Consensus       149 aASKllsN~~y~Yk---Gm-GLsmGtMi~G~Dk~-GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGV  209 (285)
T KOG0175|consen  149 AASKLLSNMVYQYK---GM-GLSMGTMIAGWDKK-GPGLYYVDSEGTRLSGDLFSVGSGSTYAYGV  209 (285)
T ss_pred             HHHHHHHHHHhhcc---Cc-chhheeeEeeccCC-CCceEEEcCCCCEecCceEeecCCCceeEEe
Confidence            99999999998772   32 47789999999988 9999999999999999999999999999997

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

Probab=99.94  E-value=1.4e-26  Score=189.68  Aligned_cols=164  Identities=16%  Similarity=0.180  Sum_probs=144.7

Q ss_pred             cceeCCCCccc------hhhhHHHHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChH
Q 028367           13 ITIFSPEGRLF------QVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTA   85 (210)
Q Consensus        13 ~t~Fsp~Grl~------Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~   85 (210)
                      .++|.|.|...      .++..+.+.-.|+ +|||+|++||||||||+..+ +++...++.+||++|+||+.+|+||..+
T Consensus        13 ~~~f~~~~~~m~~a~~~~~qrt~~p~vTGT-SVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdis   91 (256)
T KOG0185|consen   13 PGTFYPSGSLMENAGDYPIQRTLNPIVTGT-SVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDIS   91 (256)
T ss_pred             CCcCcCccchhhhccCCCcccccCceeccc-eEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHH
Confidence            56677775543      2222334445565 99999999999999999999 9999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH-HHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeec
Q 028367           86 DARTLVQQARYEAAEFR-FKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK  164 (210)
Q Consensus        86 D~~~l~~~~r~~~~~~~-~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~  164 (210)
                      |+|.+.+.+.....+.. +-.|..+.|+.++++|...|  |.+++++.|++.+++|+|+|+++.|+|-.+|..|..++.+
T Consensus        92 D~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvl--Y~rRsKmnPlwntlvVgGv~~~g~~~lg~V~~~G~~Y~~~  169 (256)
T KOG0185|consen   92 DFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVL--YARRSKMNPLWNTLVVGGVDNTGEPFLGYVDLLGVAYESP  169 (256)
T ss_pred             HHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHH--HHhhhccCchhhheeEeeecCCCCeeEEEEeeccccccCc
Confidence            99999999998888753 55669999999999999999  5568999999999999999998789999999999999999


Q ss_pred             eEEEccCCchhhhhh
Q 028367          165 VGGFFNKNSIYDTFC  179 (210)
Q Consensus       165 ~~a~G~gs~~a~~~~  179 (210)
                      ..|+|.|+.+|.|+-
T Consensus       170 ~vATGfg~hLa~P~l  184 (256)
T KOG0185|consen  170 VVATGFGAHLALPLL  184 (256)
T ss_pred             hhhhhhHHHhhhHHH
Confidence            999999999999994

>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=99.93  E-value=6.4e-25  Score=176.09  Aligned_cols=135  Identities=12%  Similarity=0.020  Sum_probs=113.0

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcC-cEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITK-YLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVL  114 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~-~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~l  114 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|++ +++|+++|..+|++.|.++++.+++.|+.+.++     .+
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~a   75 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HH
Confidence            599999999999999999998 88888999999999999 999999999999999999999999999988774     34


Q ss_pred             HHHHHHHHHHhhhhcCcccce-EEEEEEEEeCCCCcEEEEECCCCceeeec--eEEEccCCchhhhhhHHHHHHHHH
Q 028367          115 AKWIADKSQVYTQHAYMRPLG-VVAMVLSIDEECGPRLFKCDPAGHFFGHK--VGGFFNKNSIYDTFCFLSAIWIYN  188 (210)
Q Consensus       115 a~~ls~~~~~~t~~~~~rP~g-v~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~--~~a~G~gs~~a~~~~~~~~~~~~~  188 (210)
                      ++.+..++ .|    +.+|+. +.++++++     ++||.+||.|++.+.+  +.++|+|+++|+++|  ++.|..+
T Consensus        76 a~l~~~l~-~~----~~~~~l~a~~iv~~~-----~~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~l--d~~yk~~  140 (171)
T cd01913          76 VELAKDWR-TD----RYLRRLEAMLIVADK-----EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAA--RALLDHT  140 (171)
T ss_pred             HHHHHHHH-hc----cCcCceEEEEEEeCC-----CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHH--HHhhccC
Confidence            44433332 12    456766 55555433     4899999999999984  999999999999995  6666663

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

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.92  E-value=4.3e-24  Score=171.96  Aligned_cols=147  Identities=16%  Similarity=0.087  Sum_probs=118.4

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeE-cCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPI-TKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVL  114 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~l  114 (210)
                      ||++|++++||||||+|+|.+ +.++.+++.+||++| +++++|++||..+|+|.|.+.++.+++.|+.  +.   ++..
T Consensus         2 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~--~~---~~~~   76 (172)
T PRK05456          2 TTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQG--NL---LRAA   76 (172)
T ss_pred             cEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccC--cc---HHHH
Confidence            599999999999999999999 888889999999999 9999999999999999999999999999882  22   4666


Q ss_pred             HHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeee--ceEEEccCCchhhhhh---HH----HHHH
Q 028367          115 AKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH--KVGGFFNKNSIYDTFC---FL----SAIW  185 (210)
Q Consensus       115 a~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~--~~~a~G~gs~~a~~~~---~~----~~~~  185 (210)
                      ++.+..+.. +   .-.+|+.+++|++  |   .|+||.+|+.|+..+.  ++.|+|+|+.+|++++   ..    +|..
T Consensus        77 a~l~~~l~~-~---~~~~~l~~~~lv~--d---~~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~meA~~  147 (172)
T PRK05456         77 VELAKDWRT-D---RYLRRLEAMLIVA--D---KEHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDLSAEE  147 (172)
T ss_pred             HHHHHHHHh-c---cCCCccEEEEEEE--c---CCcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCCCHHH
Confidence            654433321 1   1236888999994  3   3699999999999766  7999999999999995   11    3455


Q ss_pred             HHHHHHHHHHHh
Q 028367          186 IYNAIIVYILHW  197 (210)
Q Consensus       186 ~~~~~~~~~~~~  197 (210)
                      +.-+++..|..|
T Consensus       148 la~kai~~A~~R  159 (172)
T PRK05456        148 IAEKALKIAADI  159 (172)
T ss_pred             HHHHHHHHHHHh
Confidence            555566666554

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

Probab=99.92  E-value=5.6e-25  Score=181.80  Aligned_cols=155  Identities=15%  Similarity=0.201  Sum_probs=143.9

Q ss_pred             ccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 028367           34 AAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVD  112 (210)
Q Consensus        34 ~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~  112 (210)
                      ++|||++|+.++||||+++|+|.+ ++.+..++.+||+.|.++|+||.+|-.+|...+.+-+-.+.++|+++.++++++-
T Consensus        35 kTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R~~rVv  114 (271)
T KOG0173|consen   35 KTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGRKPRVV  114 (271)
T ss_pred             ccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCCCCcee
Confidence            345699999999999999999999 7777789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHH
Q 028367          113 VLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIV  192 (210)
Q Consensus       113 ~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~  192 (210)
                      ...+++.+.+.+|.     --.++.+||+|+|.+ ||+||.+-|.|+.....+.+.|+|+..|.+.  ++.+|.+++...
T Consensus       115 ~A~~mlkQ~LFrYq-----G~IgA~LiiGGvD~T-GpHLy~i~phGStd~~Pf~alGSGslaAmsv--lEsr~k~dlt~e  186 (271)
T KOG0173|consen  115 TALRMLKQHLFRYQ-----GHIGAALILGGVDPT-GPHLYSIHPHGSTDKLPFTALGSGSLAAMSV--LESRWKPDLTKE  186 (271)
T ss_pred             eHHHHHHHHHHHhc-----CcccceeEEccccCC-CCceEEEcCCCCcCccceeeeccchHHHHHH--HHHhcCcccCHH
Confidence            99999999998772     247899999999998 9999999999999999999999999999987  899999988887


Q ss_pred             HHHH
Q 028367          193 YILH  196 (210)
Q Consensus       193 ~~~~  196 (210)
                      .|+.
T Consensus       187 ea~~  190 (271)
T KOG0173|consen  187 EAIK  190 (271)
T ss_pred             HHHH
Confidence            7764

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.92  E-value=4.3e-24  Score=171.30  Aligned_cols=132  Identities=13%  Similarity=0.065  Sum_probs=109.1

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeE-cCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPI-TKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVL  114 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~l  114 (210)
                      ||+||++++||||||+|+|.+ +.++.+++.+||++| +++++|+++|..+|++.|.+.++.+++.|+.+.     .+.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~   75 (171)
T TIGR03692         1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEYQGNL-----TRAA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHHHHHHHHccCch-----HHHH
Confidence            599999999999999999998 888889999999999 599999999999999999999999999988743     3555


Q ss_pred             HHHHHHHHHHhhhhcCcccce-EEEEEEEEeCCCCcEEEEECCCCceeee--ceEEEccCCchhhhhhHHHHHH
Q 028367          115 AKWIADKSQVYTQHAYMRPLG-VVAMVLSIDEECGPRLFKCDPAGHFFGH--KVGGFFNKNSIYDTFCFLSAIW  185 (210)
Q Consensus       115 a~~ls~~~~~~t~~~~~rP~g-v~~ivaG~D~~~gp~Ly~vD~~Gs~~~~--~~~a~G~gs~~a~~~~~~~~~~  185 (210)
                      ++.++++ +    ..+.+|+- +.++++++     ++||.+|+.|++.++  ++.++|+|+.+|.+++  ++.|
T Consensus        76 a~l~~~~-~----~~~~~~~l~a~~iv~~~-----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~l--d~~y  137 (171)
T TIGR03692        76 VELAKDW-R----TDRYLRRLEAMLIVADK-----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAA--RALL  137 (171)
T ss_pred             HHHHHHH-h----hcccccccEEEEEEEcC-----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHH--HHhh
Confidence            6655542 1    12344443 66666533     489999999999996  6999999999999995  5555

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

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

Probab=99.44  E-value=3.5e-14  Score=76.23  Aligned_cols=23  Identities=83%  Similarity=1.328  Sum_probs=22.2

Q ss_pred             CCcccceeCCCCccchhhhHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKA   31 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~ka   31 (210)
                      ||+++|+|||||||+|||||.||
T Consensus         1 YD~~~t~FSp~Grl~QVEYA~~A   23 (23)
T PF10584_consen    1 YDRSITTFSPDGRLFQVEYAMKA   23 (23)
T ss_dssp             TSSSTTSBBTTSSBHHHHHHHHH
T ss_pred             CCCCceeECCCCeEEeeEeeecC
Confidence            89999999999999999999986

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

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

Probab=99.00  E-value=3.9e-09  Score=82.93  Aligned_cols=144  Identities=16%  Similarity=0.141  Sum_probs=104.9

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcC-cEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITK-YLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVL  114 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~-~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~l  114 (210)
                      ||+++++-++-|+||.|-+.+ ++.+-..+..|+.+|.. ++..+++|-++|+..|.+.+..+++.|.-.         |
T Consensus         5 TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g~---------L   75 (178)
T COG5405           5 TTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQGD---------L   75 (178)
T ss_pred             EEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccCc---------H
Confidence            599999999999999999999 88777778888877776 899999999999999999999999887522         2


Q ss_pred             HHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeee--ceEEEccCCchhhhhh-------HHHHHH
Q 028367          115 AKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH--KVGGFFNKNSIYDTFC-------FLSAIW  185 (210)
Q Consensus       115 a~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~--~~~a~G~gs~~a~~~~-------~~~~~~  185 (210)
                      .+..-++.+.+......|-+..-++|+  |++   .++-+...|-+.+.  +..|+|+|..+|..-.       -++|+.
T Consensus        76 ~raavelaKdwr~Dk~lr~LEAmllVa--d~~---~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~lsA~e  150 (178)
T COG5405          76 FRAAVELAKDWRTDKYLRKLEAMLLVA--DKT---HILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELSARE  150 (178)
T ss_pred             HHHHHHHHHhhhhhhHHHHHhhheeEe--CCC---cEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCCHHH
Confidence            222222222221122345566777776  444   57888888988853  5899999999998875       234455


Q ss_pred             HHHHHHHHH
Q 028367          186 IYNAIIVYI  194 (210)
Q Consensus       186 ~~~~~~~~~  194 (210)
                      +.++.+..+
T Consensus       151 Ia~~sl~iA  159 (178)
T COG5405         151 IAEKSLKIA  159 (178)
T ss_pred             HHHHHHhhh
Confidence            555544443

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

Probab=97.77  E-value=0.00042  Score=56.83  Aligned_cols=140  Identities=9%  Similarity=0.011  Sum_probs=94.3

Q ss_pred             ceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEc---C-cEEEEEecChHHHHHHHHHHHHHHHH--HHHHhCCCCC
Q 028367           37 VTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPIT---K-YLGLLATGMTADARTLVQQARYEAAE--FRFKYGYEMP  110 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~---~-~i~~~~sG~~~D~~~l~~~~r~~~~~--~~~~~g~~i~  110 (210)
                      |=|||++...|.|+++|.|.+...---....|.|...   + -+.++.+|..+-.|.+.+.+....+.  +.... .-++
T Consensus         2 TYCv~l~l~~GlVf~sDsRTNAGvD~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~-n~~s   80 (255)
T COG3484           2 TYCVGLILDFGLVFGSDSRTNAGVDYISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLL-NIPS   80 (255)
T ss_pred             ceEEEEEeccceEEecccccccCchHHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhh-cchh
Confidence            4689999999999999999873321112345555443   2 36778899999999999998877752  11111 2345


Q ss_pred             HHHHHHHHHHHHHHhhhhc------CcccceEEEEEEEEeCCCCcEEEEECCCCceeee----ceEEEccCCchhhhh
Q 028367          111 VDVLAKWIADKSQVYTQHA------YMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH----KVGGFFNKNSIYDTF  178 (210)
Q Consensus       111 ~~~la~~ls~~~~~~t~~~------~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~----~~~a~G~gs~~a~~~  178 (210)
                      +-..+..+.+..++-..+.      ..--|.|+++++|.=.+..|.||.+-|.|++.+-    .+.-+|.. .+-+|+
T Consensus        81 m~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGEt-KYGKPi  157 (255)
T COG3484          81 MYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGET-KYGKPI  157 (255)
T ss_pred             HHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEcccc-ccCchh
Confidence            5666666666665442111      1134789999999876656899999999999853    56667753 344555

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	210
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		4e-62
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		4e-62
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		3e-50
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		2e-49
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		1e-31
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		7e-31
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		7e-31
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		8e-31
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		5e-30
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		2e-29
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		2e-29
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		3e-29
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		2e-27
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		1e-26
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		1e-26
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		2e-26
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		2e-26
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		3e-26
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		3e-26
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		3e-26
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		3e-26
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		5e-25
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		5e-25
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		2e-24
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		2e-23
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		2e-23
1vsy_C	232	Proteasome Activator Complex Length = 232		4e-23
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		1e-22
1vsy_E	250	Proteasome Activator Complex Length = 250		5e-22
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		5e-22
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		5e-22
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		5e-22
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		5e-22
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		6e-22
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		6e-22
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		3e-21
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		2e-20
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		2e-20
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		2e-20
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		2e-20
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		2e-20
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		3e-20
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		5e-20
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		1e-18
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		1e-18
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		2e-17
1vsy_D	227	Proteasome Activator Complex Length = 227		2e-15
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		8e-15
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		9e-15
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		6e-14
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		6e-14
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		6e-14
1vsy_B	231	Proteasome Activator Complex Length = 231		4e-13
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		6e-09
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		6e-09
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		3e-08

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

Iteration: 1
 Score =  234 bits (596), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 106/157 (67%), Positives = 132/157 (84%)
Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60
Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct: 61  LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120
Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
            SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct: 121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

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

Iteration: 1
 Score =  234 bits (596), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 106/157 (67%), Positives = 132/157 (84%)
Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60
Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct: 61  LDSSTVTHLFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120
Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
            SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPA
Sbjct: 121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPA 157

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

Iteration: 1
 Score =  194 bits (493), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 91/151 (60%), Positives = 117/151 (77%)
Query: 7   GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSV 66
            GYDRHITIFSPEGRL+QVEYAFKA     + S+ VRGKD   V++QKKVPDKLLD T+V
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60
Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
           +++F I++ +G++  G   DAR    +A+ EAAEFR+KYGY+MP DVLAK +A+ SQ+YT
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120
Query: 127 QHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           Q AYMRPLGV+   +S+DEE GP ++K DPA
Sbjct: 121 QRAYMRPLGVILTFVSVDEELGPSIYKTDPA 151

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

Iteration: 1
 Score =  191 bits (486), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 90/149 (60%), Positives = 116/149 (77%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDRHITIFSPEGRL+QVEYAFKA     + S+ VRGKD   V++QKKVPDKLLD T+V++
Sbjct: 12  YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 71
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +F I++ +G++  G   DAR    +A+ EAAEFR+KYGY+MP DVLAK +A+ SQ+YTQ 
Sbjct: 72  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQR 131
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           AYMRPLGV+   +S+DEE GP ++K DPA
Sbjct: 132 AYMRPLGVILTFVSVDEELGPSIYKTDPA 160

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

Iteration: 1
 Score =  132 bits (333), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 66/150 (44%), Positives = 96/150 (64%), Gaps = 2/150 (1%)
Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
            YDR IT+FSPEGRL+QVEYA +AV+  G T+IG+  KD V +   +++  KL+   S+ 
Sbjct: 11  AYDRAITVFSPEGRLYQVEYAREAVRR-GTTAIGIACKDGVVLAVDRRITSKLVKIRSIE 69
Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            +F I  ++    +G+ ADAR L+ +AR EA  +R  YG E+ +++LAK I D  Q YTQ
Sbjct: 70  KIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQ 129
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           H  +RP GV  ++  ID+    RLF+ DP+
Sbjct: 130 HGGVRPFGVSLLIAGIDKNEA-RLFETDPS 158

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

Iteration: 1
 Score =  130 bits (326), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 66/149 (44%), Positives = 97/149 (65%), Gaps = 2/149 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT+FSP+GRLFQVEYA +AVK  G T++G++  + V +++ KKV  +L++  S+  
Sbjct: 12  YDRAITVFSPDGRLFQVEYAREAVKK-GSTALGMKFANGVLLISDKKVRSRLIEQNSIEK 70
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I  Y+  + +G+ ADAR LV  AR  A + +  YG  + ++ L K +AD+ Q YTQ+
Sbjct: 71  IQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQY 130
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
             +RP GV  +   ID + GPRLF CDPA
Sbjct: 131 GGVRPYGVSLIFAGID-QIGPRLFDCDPA 158

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

Iteration: 1
 Score =  130 bits (326), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 66/149 (44%), Positives = 97/149 (65%), Gaps = 2/149 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT+FSP+GRLFQVEYA +AVK  G T++G++  + V +++ KKV  +L++  S+  
Sbjct: 8   YDRAITVFSPDGRLFQVEYAREAVKK-GSTALGMKFANGVLLISDKKVRSRLIEQNSIEK 66
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I  Y+  + +G+ ADAR LV  AR  A + +  YG  + ++ L K +AD+ Q YTQ+
Sbjct: 67  IQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQY 126
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
             +RP GV  +   ID + GPRLF CDPA
Sbjct: 127 GGVRPYGVSLIFAGID-QIGPRLFDCDPA 154

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

Iteration: 1
 Score =  129 bits (325), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 66/149 (44%), Positives = 97/149 (65%), Gaps = 2/149 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT+FSP+GRLFQVEYA +AVK  G T++G++  + V +++ KKV  +L++  S+  
Sbjct: 2   YDRAITVFSPDGRLFQVEYAREAVKK-GSTALGMKFANGVLLISDKKVRSRLIEQNSIEK 60
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I  Y+  + +G+ ADAR LV  AR  A + +  YG  + ++ L K +AD+ Q YTQ+
Sbjct: 61  IQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQY 120
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
             +RP GV  +   ID + GPRLF CDPA
Sbjct: 121 GGVRPYGVSLIFAGID-QIGPRLFDCDPA 148

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

Iteration: 1
 Score =  127 bits (319), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 65/149 (43%), Positives = 96/149 (64%), Gaps = 2/149 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           Y R IT+FSP+GRLFQVEYA +AVK  G T++G++  + V +++ KKV  +L++  S+  
Sbjct: 8   YSRAITVFSPDGRLFQVEYAREAVKK-GSTALGMKFANGVLLISDKKVRSRLIEQNSIEK 66
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I  Y+  + +G+ ADAR LV  AR  A + +  YG  + ++ L K +AD+ Q YTQ+
Sbjct: 67  IQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQY 126
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
             +RP GV  +   ID + GPRLF CDPA
Sbjct: 127 GGVRPYGVSLIFAGID-QIGPRLFDCDPA 154

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

Iteration: 1
 Score =  125 bits (314), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 67/157 (42%), Positives = 99/157 (63%), Gaps = 3/157 (1%)
Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M +G   G  R IT+FSP+GRLFQVEYA +AVK  G T++G++  + V +++ KKV  +L
Sbjct: 1   MQQGQMAG-GRAITVFSPDGRLFQVEYAREAVKK-GSTALGMKFANGVLLISDKKVRSRL 58
Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           ++  S+  +  I  Y+  + +G+ ADAR LV  AR  A + +  YG  + ++ L K +AD
Sbjct: 59  IEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVAD 118
Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           + Q YTQ+  +RP GV  +   ID + GPRLF CDPA
Sbjct: 119 QMQQYTQYGGVRPYGVSLIFAGID-QIGPRLFDCDPA 154

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

Iteration: 1
 Score =  125 bits (313), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 67/157 (42%), Positives = 99/157 (63%), Gaps = 3/157 (1%)
Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M +G   G  R IT+FSP+GRLFQVEYA +AVK  G T++G++  + V +++ KKV  +L
Sbjct: 5   MQQGQMAG-GRAITVFSPDGRLFQVEYAREAVKK-GSTALGMKFANGVLLISDKKVRSRL 62
Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           ++  S+  +  I  Y+  + +G+ ADAR LV  AR  A + +  YG  + ++ L K +AD
Sbjct: 63  IEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVAD 122
Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           + Q YTQ+  +RP GV  +   ID + GPRLF CDPA
Sbjct: 123 QMQQYTQYGGVRPYGVSLIFAGID-QIGPRLFDCDPA 158

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

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 64/150 (42%), Positives = 97/150 (64%), Gaps = 3/150 (2%)
Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GYDR IT+FSP+GRLFQVEYA +AVK  G T+IG++ K+ V ++  K+V  KLL+  ++ 
Sbjct: 7   GYDRAITVFSPDGRLFQVEYAREAVKR-GATAIGIKCKEGVILIADKRVGSKLLEKDTIE 65
Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            ++ I +++    +G+ ADAR L+ +AR EA   R  Y   + V  LAK I D  Q YTQ
Sbjct: 66  KIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQ 125
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           +  +RP GV  ++  ++E   P+L++ DP+
Sbjct: 126 YGGVRPFGVSLLIAGVNE--VPKLYETDPS 153

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

Iteration: 1
 Score =  118 bits (296), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 62/147 (42%), Positives = 94/147 (63%), Gaps = 3/147 (2%)
Query: 11  RHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLF 70
           R IT+FSP+GRLFQVEYA +AVK  G T+IG++ K+ V ++  K+V  KLL+  ++  ++
Sbjct: 1   RAITVFSPDGRLFQVEYAREAVKR-GATAIGIKCKEGVILIADKRVGSKLLEADTIEKIY 59
Query: 71  PITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAY 130
            I +++    +G+ ADAR L+ +AR EA   R  Y   + V  LAK I D  Q YTQ+  
Sbjct: 60  KIDEHICAATSGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQYTQYGG 119
Query: 131 MRPLGVVAMVLSIDEECGPRLFKCDPA 157
           +RP GV  ++  +DE   P+L++ DP+
Sbjct: 120 VRPFGVSLLIAGVDE--VPKLYETDPS 144

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

Iteration: 1
 Score =  115 bits (289), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 62/152 (40%), Positives = 90/152 (59%), Gaps = 1/152 (0%)
Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   + FSP+GR+FQVEYA KAV+ +  T+IG+R KD V    +K V  KL +  S
Sbjct: 5   GTGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGS 63
Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              LF + +++G+   G+ ADAR+L   AR EA+ FR  +GY +P+  LA  +A     Y
Sbjct: 64  NKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAY 123
Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           T ++ +RP G   M+ S     G +L+  DP+
Sbjct: 124 TLYSAVRPFGCSFMLGSYSANDGAQLYMIDPS 155

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

Iteration: 1
 Score =  115 bits (289), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 61/149 (40%), Positives = 90/149 (60%), Gaps = 1/149 (0%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT+FSP+G LFQVEYA +AVK  G T++GVRGKD V +  +KK   KL D  +V  
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKK-GSTAVGVRGKDIVVLGVEKKSVAKLQDERTVRK 61
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  +   + +   G+TADAR ++ +AR E    R      + V+ + ++IA   Q YTQ 
Sbjct: 62  ICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS 121
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              RP G+ A+++  D +  PRL++ DP+
Sbjct: 122 NGRRPFGISALIVGFDFDGTPRLYQTDPS 150

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

Iteration: 1
 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 60/149 (40%), Positives = 90/149 (60%), Gaps = 1/149 (0%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT+FSP+G LFQVEYA +AVK  G T++GVRG+D V +  +KK   KL D  +V  
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKK-GSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRK 61
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  +   + +   G+TADAR ++ +AR E    R      + V+ + ++IA   Q YTQ 
Sbjct: 62  ICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS 121
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              RP G+ A+++  D +  PRL++ DP+
Sbjct: 122 NGRRPFGISALIVGFDFDGTPRLYQTDPS 150

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

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 62/152 (40%), Positives = 90/152 (59%), Gaps = 1/152 (0%)
Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   + FSP+GR+FQVEYA KAV+ +  T+IG+R KD V    +K V  KL +  S
Sbjct: 4   GTGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGS 62
Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              LF + +++G+   G+ ADAR+L   AR EA+ FR  +GY +P+  LA  +A     Y
Sbjct: 63  NKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAY 122
Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           T ++ +RP G   M+ S     G +L+  DP+
Sbjct: 123 TLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPS 154

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

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 56/150 (37%), Positives = 88/150 (58%), Gaps = 2/150 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDH-TSVT 67
           YD   TIFSPEGRL+QVEYA +++  AG T+IG+   D + +  ++KV   LL+  TS  
Sbjct: 6   YDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTE 64
Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            L+ +   + +   G+TADA  L+  AR  A  +   Y  ++PV++L + ++D  Q YTQ
Sbjct: 65  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 124
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           H  +RP GV  +    D+  G +L+  +P+
Sbjct: 125 HGGLRPFGVSFIYAGYDDRYGYQLYTSNPS 154

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

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 61/149 (40%), Positives = 89/149 (59%), Gaps = 1/149 (0%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT+FSP+G LFQVEYA +AVK  G T++GVRGKD V +   KK   KL D  +V  
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKK-GSTAVGVRGKDIVVLGVAKKSVAKLQDERTVRK 61
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  +   + +   G+TADAR ++ +AR E    R      + V+ + ++IA   Q YTQ 
Sbjct: 62  ICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS 121
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              RP G+ A+++  D +  PRL++ DP+
Sbjct: 122 NGRRPFGISALIVGFDFDGTPRLYQTDPS 150

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

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 56/150 (37%), Positives = 88/150 (58%), Gaps = 2/150 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDH-TSVT 67
           YD   TIFSPEGRL+QVEYA +++  AG T+IG+   D + +  ++KV   LL+  TS  
Sbjct: 5   YDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTE 63
Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            L+ +   + +   G+TADA  L+  AR  A  +   Y  ++PV++L + ++D  Q YTQ
Sbjct: 64  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 123
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           H  +RP GV  +    D+  G +L+  +P+
Sbjct: 124 HGGLRPFGVSFIYAGYDDRYGYQLYTSNPS 153

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

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 56/150 (37%), Positives = 88/150 (58%), Gaps = 2/150 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDH-TSVT 67
           YD   TIFSPEGRL+QVEYA +++  AG T+IG+   D + +  ++KV   LL+  TS  
Sbjct: 6   YDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTE 64
Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            L+ +   + +   G+TADA  L+  AR  A  +   Y  ++PV++L + ++D  Q YTQ
Sbjct: 65  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 124
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           H  +RP GV  +    D+  G +L+  +P+
Sbjct: 125 HGGLRPFGVSFIYAGYDDRYGYQLYTSNPS 154

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

Iteration: 1
 Score =  110 bits (276), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 55/154 (35%), Positives = 92/154 (59%), Gaps = 7/154 (4%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR +  FSPEGRLFQVEYA +A+K  G T+IG++  + VC+  +K++   L++ +S+  
Sbjct: 8   YDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEK 66
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I  ++G   +G+ ADA+TL+ +AR E     F Y   M V+ + + +++ +  + + 
Sbjct: 67  IVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEE 126
Query: 129 -----AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
                A  RP GV  +   +DE+ GP+LF  DP+
Sbjct: 127 DADPGAMSRPFGVALLFGGVDEK-GPQLFHMDPS 159

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

Iteration: 1
 Score =  110 bits (275), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 54/145 (37%), Positives = 86/145 (59%), Gaps = 2/145 (1%)
Query: 14  TIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDH-TSVTHLFPI 72
           TIFSPEGRL+QVEYA +++  AG T+IG+   D + +  ++KV   LL+  TS   L+ +
Sbjct: 1   TIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKL 59
Query: 73  TKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMR 132
              + +   G+TADA  L+  AR  A  +   Y  ++PV++L + ++D  Q YTQH  +R
Sbjct: 60  NDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLR 119
Query: 133 PLGVVAMVLSIDEECGPRLFKCDPA 157
           P GV  +    D+  G +L+  +P+
Sbjct: 120 PFGVSFIYAGYDDRYGYQLYTSNPS 144

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

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 54/154 (35%), Positives = 91/154 (59%), Gaps = 7/154 (4%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR +  FSPEGRLFQVEY  +A+K  G T+IG++  + VC+  +K++   L++ +S+  
Sbjct: 8   YDRGVNTFSPEGRLFQVEYDIEAIKL-GSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEK 66
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I  ++G   +G+ ADA+TL+ +AR E     F Y   M V+ + + +++ +  + + 
Sbjct: 67  IVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEE 126
Query: 129 -----AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
                A  RP GV  +   +DE+ GP+LF  DP+
Sbjct: 127 DADPGAMSRPFGVALLFGGVDEK-GPQLFHMDPS 159

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

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 85/150 (56%), Gaps = 2/150 (1%)
Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GY   +T FSP G+L Q+EYA  AV A G  S+G++  + V + T+KK    L D  SV 
Sbjct: 5   GYSFSLTTFSPSGKLVQIEYALAAV-AGGAPSVGIKAANGVVLATEKKQKSILYDERSVH 63
Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            + PITK++GL+ +GM  D R LV +AR  A ++   Y   +P   L + +A   Q YTQ
Sbjct: 64  KVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQ 123
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              +RP GV  ++   + E  P LF+ DP+
Sbjct: 124 SGGVRPFGVSLLICGWN-EGRPYLFQSDPS 152

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

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 85/150 (56%), Gaps = 2/150 (1%)
Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GY   +T FSP G+L Q+EYA  AV A G  S+G++  + V + T+KK    L D  SV 
Sbjct: 4   GYSFSLTTFSPSGKLVQIEYALAAV-AGGAPSVGIKAANGVVLATEKKQKSILYDERSVH 62
Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            + PITK++GL+ +GM  D R LV +AR  A ++   Y   +P   L + +A   Q YTQ
Sbjct: 63  KVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQ 122
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              +RP GV  ++   + E  P LF+ DP+
Sbjct: 123 SGGVRPFGVSLLICGWN-EGRPYLFQSDPS 151

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

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 51/142 (35%), Positives = 83/142 (58%), Gaps = 2/142 (1%)
Query: 17  SPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDH-TSVTHLFPITKY 75
           SPEGRL+QVEYA +++  AG T+IG+   D + +  ++KV   LL+  TS   L+ +   
Sbjct: 1   SPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDK 59
Query: 76  LGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLG 135
           + +   G+TADA  L+  AR  A  +   Y  ++PV++L + ++D  Q YTQH  +RP G
Sbjct: 60  IAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFG 119
Query: 136 VVAMVLSIDEECGPRLFKCDPA 157
           V  +    D+  G +L+  +P+
Sbjct: 120 VSFIYAGYDDRYGYQLYTSNPS 141

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

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 52/149 (34%), Positives = 87/149 (58%), Gaps = 4/149 (2%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR ++ FSPEGRLFQVEY+ +A+K  G T+IG+  K+ V +  +K+    LL+  S+  
Sbjct: 8   YDRGVSTFSPEGRLFQVEYSLEAIKL-GSTAIGIATKEGVVLGVEKRATSPLLESDSIEK 66
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I +++G   +G+TADAR++++ AR  A      Y  ++ V+ L + + D   +    
Sbjct: 67  IVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCD---LAAAA 123
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           A  RP GV  ++   D + G +LF  +P+
Sbjct: 124 AMSRPFGVALLIAGHDADDGYQLFHAEPS 152

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

Iteration: 1
 Score =  100 bits (250), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 52/155 (33%), Positives = 89/155 (57%), Gaps = 7/155 (4%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR ++ FSPEGRLFQVEY+ +A+K  G T+IG+  K+ V +  +K+    LL+  S+  
Sbjct: 8   YDRGVSTFSPEGRLFQVEYSLEAIKL-GSTAIGIATKEGVVLGVEKRATSPLLESDSIEK 66
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I +++G   +G+TADAR++++ AR  A      Y  ++ V+ L + + D +  + + 
Sbjct: 67  IVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEG 126
Query: 129 A------YMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           A        RP GV  ++   D + G +LF  +P+
Sbjct: 127 ASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPS 161

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

Iteration: 1
 Score =  100 bits (250), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 92/152 (60%), Gaps = 3/152 (1%)
Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSV 66
           GYDR ++IFSP+G +FQVEYA +AVK  G  ++GV+GK+ V +  +++   KL D   + 
Sbjct: 3   GYDRALSIFSPDGHIFQVEYALEAVKR-GTCAVGVKGKNCVVLGCERRSTLKLQDTRITP 61
Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
           + +  I  ++ L  +G+ AD+R L+++AR EA   R      + V+ L +++A   Q YT
Sbjct: 62  SKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT 121
Query: 127 QHAYMRPLGVVAMVLSID-EECGPRLFKCDPA 157
           Q   +RP GV  ++   D  +  P+L++ +P+
Sbjct: 122 QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPS 153

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

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 52/155 (33%), Positives = 89/155 (57%), Gaps = 7/155 (4%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR ++ FSPEGRLFQVEY+ +A+K  G T+IG+  K+ V +  +K+    LL+  S+  
Sbjct: 10  YDRGVSTFSPEGRLFQVEYSLEAIKL-GSTAIGIATKEGVVLGVEKRATSPLLESDSIEK 68
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I +++G   +G+TADAR++++ AR  A      Y  ++ V+ L + + D +  + + 
Sbjct: 69  IVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEG 128
Query: 129 A------YMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           A        RP GV  ++   D + G +LF  +P+
Sbjct: 129 ASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPS 163

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

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 52/155 (33%), Positives = 89/155 (57%), Gaps = 7/155 (4%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR ++ FSPEGRLFQVEY+ +A+K  G T+IG+  K+ V +  +K+    LL+  S+  
Sbjct: 9   YDRGVSTFSPEGRLFQVEYSLEAIKL-GSTAIGIATKEGVVLGVEKRATSPLLESDSIEK 67
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I +++G   +G+TADAR++++ AR  A      Y  ++ V+ L + + D +  + + 
Sbjct: 68  IVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEG 127
Query: 129 A------YMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           A        RP GV  ++   D + G +LF  +P+
Sbjct: 128 ASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPS 162

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

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 52/155 (33%), Positives = 89/155 (57%), Gaps = 7/155 (4%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR ++ FSPEGRLFQVEY+ +A+K  G T+IG+  K+ V +  +K+    LL+  S+  
Sbjct: 8   YDRGVSTFSPEGRLFQVEYSLEAIKL-GSTAIGIATKEGVVLGVEKRATSPLLESDSIEK 66
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I +++G   +G+TADAR++++ AR  A      Y  ++ V+ L + + D +  + + 
Sbjct: 67  IVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEG 126
Query: 129 A------YMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           A        RP GV  ++   D + G +LF  +P+
Sbjct: 127 ASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPS 161

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

Iteration: 1
 Score =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 92/152 (60%), Gaps = 3/152 (1%)
Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSV 66
           GYDR ++IFSP+G +FQVEYA +AVK  G  ++GV+GK+ V +  +++   KL D   + 
Sbjct: 3   GYDRALSIFSPDGHIFQVEYALEAVKR-GTCAVGVKGKNCVVLGCERRSTLKLQDTRITP 61
Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
           + +  I  ++ L  +G+ AD+R L+++AR EA   R      + V+ L +++A   Q YT
Sbjct: 62  SKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT 121
Query: 127 QHAYMRPLGVVAMVLSID-EECGPRLFKCDPA 157
           Q   +RP GV  ++   D  +  P+L++ +P+
Sbjct: 122 QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPS 153

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

Iteration: 1
 Score =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 92/152 (60%), Gaps = 3/152 (1%)
Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSV 66
           GYDR ++IFSP+G +FQVEYA +AVK  G  ++GV+GK+ V +  +++   KL D   + 
Sbjct: 1   GYDRALSIFSPDGHIFQVEYALEAVKR-GTCAVGVKGKNCVVLGCERRSTLKLQDTRITP 59
Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
           + +  I  ++ L  +G+ AD+R L+++AR EA   R      + V+ L +++A   Q YT
Sbjct: 60  SKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT 119
Query: 127 QHAYMRPLGVVAMVLSID-EECGPRLFKCDPA 157
           Q   +RP GV  ++   D  +  P+L++ +P+
Sbjct: 120 QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPS 151

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

Iteration: 1
 Score = 98.2 bits (243), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 51/154 (33%), Positives = 88/154 (57%), Gaps = 7/154 (4%)
Query: 10  DRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHL 69
           DR ++ FSPEGRLFQVEY+ +A+K  G T+IG+  K+ V +  +K+    LL+  S+  +
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKL-GSTAIGIATKEGVVLGVEKRATSPLLESDSIEKI 59
Query: 70  FPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHA 129
             I +++G   +G+TADAR++++ AR  A      Y  ++ V+ L + + D +  + + A
Sbjct: 60  VEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGA 119
Query: 130 ------YMRPLGVVAMVLSIDEECGPRLFKCDPA 157
                   RP GV  ++   D + G +LF  +P+
Sbjct: 120 SGEERLMSRPFGVALLIAGHDADDGYQLFHAEPS 153

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

Iteration: 1
 Score = 95.5 bits (236), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 83/152 (54%), Gaps = 2/152 (1%)
Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   ++FSP+GR FQVEYA KAV+  G TSIG++  D V    +K +  KLL    
Sbjct: 5   GTGYDLSNSVFSPDGRNFQVEYAVKAVEN-GTTSIGIKCNDGVVFAVEKLITSKLLVPQK 63
Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              +  + +++G + +G+  D R LV + R EAA F+  Y   +P+   A  +    Q +
Sbjct: 64  NVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAH 123
Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           T +  +RP GV  +   +D+  G  L+  +P+
Sbjct: 124 TLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPS 154

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

Iteration: 1
 Score = 95.5 bits (236), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 2/150 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD   TIFSPEGRL+QVEYA +A+  AG T +G+   D V +  +++   KLLD    + 
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFFSE 63
Query: 69  -LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            ++ + + +     G+T+DA  L  + R  A  +  +Y   +P + L   + D  Q YTQ
Sbjct: 64  KIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQ 123
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
               RP GV  + +  D+  G +L++ DP+
Sbjct: 124 FGGKRPFGVSLLYIGWDKHYGFQLYQSDPS 153

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

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 2/150 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD   TIFSPEGRL+QVEYA +A+  AG T +G+   D V +  +++   KLLD    + 
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFFSE 63
Query: 69  -LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            ++ + + +     G+T+DA  L  + R  A  +  +Y   +P + L   + D  Q YTQ
Sbjct: 64  KIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQ 123
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
               RP GV  + +  D+  G +L++ DP+
Sbjct: 124 FGGKRPFGVSLLYIGWDKHYGFQLYQSDPS 153

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

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 83/152 (54%), Gaps = 2/152 (1%)
Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   ++FSP+GR FQVEYA KAV+  G TSIG++  D V    +K +  KLL    
Sbjct: 1   GTGYDLSNSVFSPDGRNFQVEYAVKAVEN-GTTSIGIKCNDGVVFAVEKLITSKLLVPQK 59
Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              +  + +++G + +G+  D R LV + R EAA F+  Y   +P+   A  +    Q +
Sbjct: 60  NVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAH 119
Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           T +  +RP GV  +   +D+  G  L+  +P+
Sbjct: 120 TLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPS 150

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

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 83/152 (54%), Gaps = 2/152 (1%)
Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   ++FSP+GR FQVEYA KAV+  G TSIG++  D V    +K +  KLL    
Sbjct: 5   GTGYDLSNSVFSPDGRNFQVEYAVKAVEN-GTTSIGIKCNDGVVFAVEKLITSKLLVPQK 63
Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              +  + +++G + +G+  D R LV + R EAA F+  Y   +P+   A  +    Q +
Sbjct: 64  NVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAH 123
Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           T +  +RP GV  +   +D+  G  L+  +P+
Sbjct: 124 TLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPS 154

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

Iteration: 1
 Score = 95.1 bits (235), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 83/152 (54%), Gaps = 2/152 (1%)
Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   ++FSP+GR FQVEYA KAV+  G TSIG++  D V    +K +  KLL    
Sbjct: 4   GTGYDLSNSVFSPDGRNFQVEYAVKAVEN-GTTSIGIKCNDGVVFAVEKLITSKLLVPQK 62
Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              +  + +++G + +G+  D R LV + R EAA F+  Y   +P+   A  +    Q +
Sbjct: 63  NVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAH 122
Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           T +  +RP GV  +   +D+  G  L+  +P+
Sbjct: 123 TLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPS 153

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

Iteration: 1
 Score = 94.0 bits (232), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 2/150 (1%)
Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GYD   ++FSP+GR FQVEYA KAV+  G TSIG++  D V    +K +  KLL      
Sbjct: 1   GYDLSNSVFSPDGRNFQVEYAVKAVEN-GTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 59
Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            +  + +++G + +G+  D R LV + R EAA F+  Y   +P+   A  +    Q +T 
Sbjct: 60  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 119
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           +  +RP GV  +   +D+  G  L+  +P+
Sbjct: 120 YNSVRPFGVSTIFGGVDKN-GAHLYMLEPS 148

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

Iteration: 1
 Score = 89.7 bits (221), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/149 (33%), Positives = 81/149 (54%), Gaps = 4/149 (2%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD  +T++SP+GR+ Q+EYA +AVK  G  ++G++ K    +V  K+   +L  H     
Sbjct: 6   YDNDVTVWSPQGRIHQIEYAMEAVKQ-GSATVGLKSKTHAVLVALKRAQSELAAHQK--K 62
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  +  ++G+   G+TADAR L    R E  + RF +   +PV  L   I  K+Q+ TQ 
Sbjct: 63  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQR 122
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              RP GV  ++   D + GP +F+  P+
Sbjct: 123 YGRRPYGVGLLIAGYD-DMGPHIFQTCPS 150

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

Iteration: 1
 Score = 89.7 bits (221), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/149 (33%), Positives = 81/149 (54%), Gaps = 4/149 (2%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD  +T++SP+GR+ Q+EYA +AVK  G  ++G++ K    +V  K+   +L  H     
Sbjct: 6   YDNDVTVWSPQGRIHQIEYAMEAVKQ-GSATVGLKSKTHAVLVALKRAQSELAAHQK--K 62
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  +  ++G+   G+TADAR L    R E  + RF +   +PV  L   I  K+Q+ TQ 
Sbjct: 63  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQR 122
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              RP GV  ++   D + GP +F+  P+
Sbjct: 123 YGRRPYGVGLLIAGYD-DMGPHIFQTCPS 150

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

Iteration: 1
 Score = 85.1 bits (209), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 2/150 (1%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           Y   +T FSP G+L Q++YA  AVK  GVTS+G++  + V + T+KK    L    +++ 
Sbjct: 5   YSFSLTTFSPSGKLGQIDYALTAVKQ-GVTSLGIKATNGVVIATEKKSSSPLAMSETLSK 63
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEA-AEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
           +  +T  +G + +GM  D R LV ++R  A   ++  YG   P  +L   +A   Q  TQ
Sbjct: 64  VSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQ 123
Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              +RP GV  ++   DE  G  L++ DP+
Sbjct: 124 SGGVRPFGVSLLIAGHDEFNGFSLYQVDPS 153

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 45/138 (32%), Positives = 80/138 (57%), Gaps = 3/138 (2%)
Query: 22  LFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLA 80
           +FQVEYA +AVK  G  ++GV+GK+ V +  +++   KL D   + + +  I  ++ L  
Sbjct: 1   IFQVEYALEAVKR-GTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSF 59
Query: 81  TGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMV 140
           +G+ AD+R L+++AR EA   R      + V+ L +++A   Q YTQ   +RP GV  ++
Sbjct: 60  SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI 119
Query: 141 LSID-EECGPRLFKCDPA 157
              D  +  P+L++ +P+
Sbjct: 120 AGFDPRDDEPKLYQTEPS 137

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

Iteration: 1
 Score = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 73/149 (48%), Gaps = 4/149 (2%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD     FSP GRLFQVEYA +A+K   VT +G+R      +V  K+  D+L  +     
Sbjct: 6   YDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQK--K 62
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +    +++GL   G+  DAR L    R +       +  ++ V+     + DK+Q  TQ 
Sbjct: 63  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 122
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           A  RP GV  +++  D + G  L +  P+
Sbjct: 123 AGGRPYGVGLLIIGYD-KSGAHLLEFQPS 150

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

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 73/149 (48%), Gaps = 4/149 (2%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD     FSP GRLFQVEYA +A+K   VT +G+R      +V  K+  D+L  +     
Sbjct: 5   YDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQK--K 61
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +    +++GL   G+  DAR L    R +       +  ++ V+     + DK+Q  TQ 
Sbjct: 62  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 121
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
           A  RP GV  +++  D + G  L +  P+
Sbjct: 122 AGGRPYGVGLLIIGYD-KSGAHLLEFQPS 149

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

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 72/149 (48%), Gaps = 4/149 (2%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD     FSP GRLFQVEYA +A+K   VT +G+R      +V  K+  D+L  +     
Sbjct: 6   YDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQK--K 62
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +    +++GL   G+  DAR L    R +       +  ++ V+     + DK+Q  TQ 
Sbjct: 63  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 122
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              RP GV  +++  D + G  L +  P+
Sbjct: 123 YGGRPYGVGLLIIGYD-KSGAHLLEFQPS 150

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

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 72/149 (48%), Gaps = 4/149 (2%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD     FSP GRLFQVEYA +A+K   VT +G+R      +V  K+  D+L  +     
Sbjct: 5   YDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQK--K 61
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +    +++GL   G+  DAR L    R +       +  ++ V+     + DK+Q  TQ 
Sbjct: 62  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 121
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              RP GV  +++  D + G  L +  P+
Sbjct: 122 YGGRPYGVGLLIIGYD-KSGAHLLEFQPS 149

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

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 72/149 (48%), Gaps = 4/149 (2%)
Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD     FSP GRLFQVEYA +A+K   VT +G+R      +V  K+  D+L  +     
Sbjct: 7   YDGDTVTFSPTGRLFQVEYALEAIKQGSVT-VGLRSNTHAVLVALKRNADELSSYQK--K 63
Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +    +++GL   G+  DAR L    R +       +  ++ V+     + DK+Q  TQ 
Sbjct: 64  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 123
Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPA 157
              RP GV  +++  D + G  L +  P+
Sbjct: 124 YGGRPYGVGLLIIGYD-KSGAHLLEFQPS 151

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

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 44/135 (32%), Positives = 72/135 (53%), Gaps = 2/135 (1%)
Query: 24  QVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGM 83
           Q++YA  AVK  GVTS+G++  + V + T+KK    L    +++ +  +T  +G + +GM
Sbjct: 1   QIDYALTAVKQ-GVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGM 59
Query: 84  TADARTLVQQARYEA-AEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLS 142
             D R LV ++R  A   ++  YG   P  +L   +A   Q  TQ   +RP GV  ++  
Sbjct: 60  GPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAG 119
Query: 143 IDEECGPRLFKCDPA 157
            DE  G  L++ DP+
Sbjct: 120 HDEFNGFSLYQVDPS 134

>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 = 57.4 bits (137), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 62/123 (50%), Gaps = 7/123 (5%)
Query: 36  GVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G T++G+  KD+V + T+++V  +  + H +   LF I  Y G+   G+  DA+ LV+  
Sbjct: 8   GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYM 67
Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKC 154
           + E   +R +    MP++ +A  +   S +  Q  YM P  V  +V  ID    P +F  
Sbjct: 68  KAELELYRLQRRVNMPIEAVATLL---SNMLNQVKYM-PYMVQLLVGGID--TAPHVFSI 121
Query: 155 DPA 157
           D A
Sbjct: 122 DAA 124

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 62/123 (50%), Gaps = 7/123 (5%)
Query: 36  GVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G T++G+  KD+V + T+++V  +  + H +   LF I  Y G+   G+  DA+ LV+  
Sbjct: 8   GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYM 67
Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKC 154
           + E   +R +    MP++ +A  +   S +  Q  YM P  V  +V  ID    P +F  
Sbjct: 68  KAELELYRLQRRVNMPIEAVATLL---SNMLNQVKYM-PYMVQLLVGGID--TAPHVFSI 121
Query: 155 DPA 157
           D A
Sbjct: 122 DAA 124

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 38  TSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T++G+  KD+V + T+++V  +  + H +   LF I  Y G+   G+  DA+ LV+  + 
Sbjct: 2   TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61
Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           E   +R +    MP++ +A  +   S +  Q  YM P  V  +V  ID    P +F  D 
Sbjct: 62  ELELYRLQRRVNMPIEAVATLL---SNMLNQVKYM-PYMVQLLVGGID--TAPHVFSIDA 115
Query: 157 A 157
           A
Sbjct: 116 A 116

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	210
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-96
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	2e-93
1iru_D	248	20S proteasome; cell cycle, immune response, prote	3e-90
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	7e-90
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-88
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	1e-88
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	6e-88
1iru_F	263	20S proteasome; cell cycle, immune response, prote	2e-85
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	5e-85
1iru_E	241	20S proteasome; cell cycle, immune response, prote	6e-85
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-83
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	2e-83
1iru_C	261	20S proteasome; cell cycle, immune response, prote	3e-82
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	6e-82
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	9e-82
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	3e-80
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	5e-80
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	9e-80
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-25
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	1e-23
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	9e-17
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	2e-16
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	1e-14
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	1e-14
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	1e-13
1iru_I	234	20S proteasome; cell cycle, immune response, prote	2e-13
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	5e-13
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	1e-12
1iru_K	201	20S proteasome; cell cycle, immune response, prote	1e-11
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	1e-11
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	2e-11
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	1e-10
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	3e-10
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	3e-10
1iru_H	205	20S proteasome; cell cycle, immune response, prote	8e-10
1iru_L	204	20S proteasome; cell cycle, immune response, prote	1e-09
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-09
1iru_M	213	20S proteasome; cell cycle, immune response, prote	2e-09
1iru_J	205	20S proteasome; cell cycle, immune response, prote	8e-09
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	1e-08
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	5e-08
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	6e-08
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	6e-08
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	7e-06
1iru_N	219	20S proteasome; cell cycle, immune response, prote	9e-06

>1iru_A 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_G* 3une_G 3unf_G* 3unh_G Length = 246

 Score =  280 bits (719), Expect = 1e-96
 Identities = 109/164 (66%), Positives = 137/164 (83%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKL
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           LD ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD
Sbjct: 61  LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
            SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPAG++ G K
Sbjct: 121 ISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFK 164

>1ryp_A 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_G* 1g65_G 1vsy_A 2f16_G* 2fak_G* 2fny_G* 2gpl_G* 3d29_G* 3dy3_G* 3dy4_G* 3e47_G* 3gpj_G* 3gpt_G* 3gpw_G* 3hye_G* 3l5q_A 3mg0_G* 3mg4_G* 3oeu_G* 3oev_G* ... Length = 243

 Score =  272 bits (697), Expect = 2e-93
 Identities = 94/158 (59%), Positives = 123/158 (77%)

Query: 7   GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSV 66
            GYDRHITIFSPEGRL+QVEYAFKA     + S+ VRGKD   V++QKKVPDKLLD T+V
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
           +++F I++ +G++  G   DAR    +A+ EAAEFR+KYGY+MP DVLAK +A+ SQ+YT
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120

Query: 127 QHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           Q AYMRPLGV+   +S+DEE GP ++K DPAG++ G+K
Sbjct: 121 QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYK 158

>1iru_D 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unf_C* 3une_C* 3unh_C 3unb_C* Length = 248

 Score =  264 bits (676), Expect = 3e-90
 Identities = 61/157 (38%), Positives = 92/157 (58%), Gaps = 1/157 (0%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
            YDR IT+FSP+G LFQVEYA +AVK    T++GVRG+D V +  +KK   KL D  +V 
Sbjct: 2   SYDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVR 60

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            +  +   + +   G+TADAR ++ +AR E    R      + V+ + ++IA   Q YTQ
Sbjct: 61  KICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQ 120

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
               RP G+ A+++  D +  PRL++ DP+G +   K
Sbjct: 121 SNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWK 157

>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 =  264 bits (677), Expect = 7e-90
 Identities = 56/164 (34%), Positives = 90/164 (54%), Gaps = 3/164 (1%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M+   G GYD   ++FSP+GR FQVEYA KAV+    TSIG++  D V    +K +  KL
Sbjct: 1   MT-SIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKL 58

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           L       +  + +++G + +G+  D R LV + R EAA F+  Y   +P+   A  +  
Sbjct: 59  LVPQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQ 118

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
             Q +T +  +RP GV  +   +D+  G  L+  +P+G ++G+K
Sbjct: 119 YVQAHTLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYK 161

>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 =  259 bits (664), Expect = 1e-88
 Identities = 60/160 (37%), Positives = 88/160 (55%), Gaps = 2/160 (1%)

Query: 5   SGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHT 64
           +  GY   +T FSP G+L Q+EYA  AV      S+G++  + V + T+KK    L D  
Sbjct: 1   AERGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDER 59

Query: 65  SVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQV 124
           SV  + PITK++GL+ +GM  D R LV +AR  A ++   Y   +P   L + +A   Q 
Sbjct: 60  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 119

Query: 125 YTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           YTQ   +RP GV  ++   +E   P LF+ DP+G +F  K
Sbjct: 120 YTQSGGVRPFGVSLLICGWNEG-RPYLFQSDPSGAYFAWK 158

>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 =  259 bits (665), Expect = 1e-88
 Identities = 53/165 (32%), Positives = 85/165 (51%), Gaps = 6/165 (3%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M+      Y   +T FSP G+L Q++YA  AVK    TS+G++  + V + T+KK    L
Sbjct: 1   MTDR----YSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPL 55

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEA-AEFRFKYGYEMPVDVLAKWIA 119
               +++ +  +T  +G + +GM  D R LV ++R  A   ++  YG   P  +L   +A
Sbjct: 56  AMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVA 115

Query: 120 DKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
              Q  TQ   +RP GV  ++   DE  G  L++ DP+G +F  K
Sbjct: 116 KIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWK 160

>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 =  257 bits (660), Expect = 6e-88
 Identities = 55/159 (34%), Positives = 88/159 (55%), Gaps = 2/159 (1%)

Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   ++FSP+GR FQVEYA KAV+    TSIG++  D V    +K +  KLL    
Sbjct: 1   GTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQK 59

Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              +  + +++G + +G+  D R LV + R EAA F+  Y   +P+   A  +    Q +
Sbjct: 60  NVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAH 119

Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           T +  +RP GV  +   +D+  G  L+  +P+G ++G+K
Sbjct: 120 TLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYK 157

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E Length = 263

 Score =  252 bits (646), Expect = 2e-85
 Identities = 51/164 (31%), Positives = 85/164 (51%), Gaps = 7/164 (4%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M R     YD  +T++SP+GR+ Q+EYA +AVK     ++G++ K    +V  K+   +L
Sbjct: 1   MFRN---QYDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSEL 56

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
                   +  +  ++G+   G+TADAR L    R E  + RF +   +PV  L   I  
Sbjct: 57  AA--HQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGS 114

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           K+Q+ TQ    RP GV  ++   D+  GP +F+  P+ ++F  +
Sbjct: 115 KTQIPTQRYGRRPYGVGLLIAGYDDM-GPHIFQTCPSANYFDCR 157

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

 Score =  251 bits (643), Expect = 5e-85
 Identities = 68/164 (41%), Positives = 99/164 (60%), Gaps = 2/164 (1%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M       YDR IT+FSPEGRL+QVEYA +AV+    T+IG+  KD V +   +++  KL
Sbjct: 4   MQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGT-TAIGIACKDGVVLAVDRRITSKL 62

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           +   S+  +F I  ++    +G+ ADAR L+ +AR EA  +R  YG E+ +++LAK I D
Sbjct: 63  VKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICD 122

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
             Q YTQH  +RP GV  ++  ID+    RLF+ DP+G    +K
Sbjct: 123 IKQAYTQHGGVRPFGVSLLIAGIDKN-EARLFETDPSGALIEYK 165

>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 =  250 bits (641), Expect = 6e-85
 Identities = 55/165 (33%), Positives = 93/165 (56%), Gaps = 7/165 (4%)

Query: 5   SGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHT 64
           +   YDR +  FSPEGRLFQVEY  +A+K    T+IG++  + VC+  +K++   L++ +
Sbjct: 4   TRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPS 62

Query: 65  SVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQV 124
           S+  +  I  ++G   +G+ ADA+TL+ +AR E     F Y   M V+ + + +++ +  
Sbjct: 63  SIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQ 122

Query: 125 YTQH-----AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           + +      A  RP GV  +   +DE+ GP+LF  DP+G F    
Sbjct: 123 FGEEDADPGAMSRPFGVALLFGGVDEK-GPQLFHMDPSGTFVQCD 166

>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 =  248 bits (634), Expect = 1e-83
 Identities = 64/161 (39%), Positives = 94/161 (58%), Gaps = 1/161 (0%)

Query: 4   GSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDH 63
             G GYD   + FSP+GR+FQVEYA KAV+ +  T+IG+R KD V    +K V  KL + 
Sbjct: 2   SIGTGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEE 60

Query: 64  TSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQ 123
            S   LF + +++G+   G+ ADAR+L   AR EA+ FR  +GY +P+  LA  +A    
Sbjct: 61  GSNKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVH 120

Query: 124 VYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
            YT ++ +RP G   M+ S     G +L+  DP+G  +G+ 
Sbjct: 121 AYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYW 161

>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 =  246 bits (630), Expect = 2e-83
 Identities = 68/164 (41%), Positives = 101/164 (61%), Gaps = 3/164 (1%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M +G    Y R IT+FSP+GRLFQVEYA +AVK    T++G++  + V +++ KKV  +L
Sbjct: 1   MQQGQMA-YSRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRL 58

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           ++  S+  +  I  Y+  + +G+ ADAR LV  AR  A + +  YG  + ++ L K +AD
Sbjct: 59  IEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVAD 118

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           + Q YTQ+  +RP GV  +   ID+  GPRLF CDPAG    +K
Sbjct: 119 QMQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYK 161

>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 =  244 bits (625), Expect = 3e-82
 Identities = 57/165 (34%), Positives = 89/165 (53%), Gaps = 6/165 (3%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           MSR     YD   TIFSPEGRL+QVEYA +A+  AG T +G+   D V +  +++   KL
Sbjct: 1   MSRR----YDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKL 55

Query: 61  LDHTSVTH-LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIA 119
           LD    +  ++ + + +     G+T+DA  L  + R  A  +  +Y   +P + L   + 
Sbjct: 56  LDEVFFSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALC 115

Query: 120 DKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           D  Q YTQ    RP GV  + +  D+  G +L++ DP+G++ G K
Sbjct: 116 DIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWK 160

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

 Score =  242 bits (621), Expect = 6e-82
 Identities = 66/164 (40%), Positives = 100/164 (60%), Gaps = 4/164 (2%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M      GYDR IT+FSP+GRLFQVEYA +AVK    T+IG++ K+ V ++  K+V  KL
Sbjct: 1   MHL-PQMGYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKL 58

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIAD 120
           L+  ++  ++ I +++    +G+ ADAR L+ +AR EA   R  Y   + V  LAK I D
Sbjct: 59  LEKDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICD 118

Query: 121 KSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
             Q YTQ+  +RP GV  ++  ++E   P+L++ DP+G    +K
Sbjct: 119 FKQQYTQYGGVRPFGVSLLIAGVNE--VPKLYETDPSGALLEYK 160

>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 =  242 bits (620), Expect = 9e-82
 Identities = 54/159 (33%), Positives = 93/159 (58%), Gaps = 3/159 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDH-TSV 66
           GYDR ++IFSP+G +FQVEYA +AVK     ++GV+GK+ V +  +++   KL D   + 
Sbjct: 1   GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITP 59

Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
           + +  I  ++ L  +G+ AD+R L+++AR EA   R      + V+ L +++A   Q YT
Sbjct: 60  SKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT 119

Query: 127 QHAYMRPLGVVAMVLSID-EECGPRLFKCDPAGHFFGHK 164
           Q   +RP GV  ++   D  +  P+L++ +P+G +    
Sbjct: 120 QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWS 158

>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E* 1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E* 3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E* 3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ... Length = 233

 Score =  238 bits (609), Expect = 3e-80
 Identities = 45/157 (28%), Positives = 72/157 (45%), Gaps = 4/157 (2%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
            YD     FSP GRLFQVEYA +A+K     ++G+R      +V  K+  D+L       
Sbjct: 4   NYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELSS--YQK 60

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            +    +++GL   G+  DAR L    R +       +  ++ V+     + DK+Q  TQ
Sbjct: 61  KIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQ 120

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
               RP GV  +++  D+  G  L +  P+G+     
Sbjct: 121 SYGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNVTELY 156

>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 =  237 bits (608), Expect = 5e-80
 Identities = 59/158 (37%), Positives = 93/158 (58%), Gaps = 2/158 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSV 66
            YD   TIFSPEGRL+QVEYA +++  AG T+IG+   D + +  ++KV   LL+  TS 
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTST 62

Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
             L+ +   + +   G+TADA  L+  AR  A  +   Y  ++PV++L + ++D  Q YT
Sbjct: 63  EKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT 122

Query: 127 QHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           QH  +RP GV  +    D+  G +L+  +P+G++ G K
Sbjct: 123 QHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWK 160

>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 =  237 bits (606), Expect = 9e-80
 Identities = 52/161 (32%), Positives = 91/161 (56%), Gaps = 7/161 (4%)

Query: 10  DRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHL 69
           DR ++ FSPEGRLFQVEY+ +A+K    T+IG+  K+ V +  +K+    LL+  S+  +
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKI 59

Query: 70  FPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHA 129
             I +++G   +G+TADAR++++ AR  A      Y  ++ V+ L + + D +  + + A
Sbjct: 60  VEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGA 119

Query: 130 ------YMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
                   RP GV  ++   D + G +LF  +P+G F+ + 
Sbjct: 120 SGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYN 160

>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 = 98.5 bits (245), Expect = 2e-25
 Identities = 29/154 (18%), Positives = 53/154 (34%), Gaps = 16/154 (10%)

Query: 17  SPEGRLFQ-VEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKY 75
           S E  +    E A K +   G + + +  +D V  V +          T++  +  +   
Sbjct: 8   SAEQIMRDRSELARKGIAR-GRSVVVLTFRDGVLFVAENPS-------TALHKVSELYDR 59

Query: 76  LGLLATGMTADARTLVQQARYEAAEFRFKYGYE-MPVDVLAKWIADK-SQVYTQHAYMRP 133
           LG  A G   +   L +     A    + Y    +    LA   A     ++T+    +P
Sbjct: 60  LGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQ--PKP 117

Query: 134 LGV---VAMVLSIDEECGPRLFKCDPAGHFFGHK 164
             V   VA V  +     P+L++    G     +
Sbjct: 118 YEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQ 151

>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 = 93.5 bits (232), Expect = 1e-23
 Identities = 28/151 (18%), Positives = 49/151 (32%), Gaps = 16/151 (10%)

Query: 17  SPEGRLFQ-VEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKY 75
           SPE  + +  E A K +     + + +     V  V +           S+  +  +   
Sbjct: 8   SPEQAMRERSELARKGIAR-AKSVVALAYAGGVLFVAENP-------SRSLQKISELYDR 59

Query: 76  LGLLATGMTADARTLVQQARYEAAEFRFKYGYE-MPVDVLAKWIAD-KSQVYTQHAYMRP 133
           +G  A G   +   L +     A    + Y    +    LA   A     ++T+    +P
Sbjct: 60  VGFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTE--QAKP 117

Query: 134 LGV---VAMVLSIDEECGPRLFKCDPAGHFF 161
             V   VA V    E   P L++    G   
Sbjct: 118 YEVELCVAEVAHYGETKRPELYRITYDGSIA 148

>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 = 75.5 bits (186), Expect = 9e-17
 Identities = 22/144 (15%), Positives = 42/144 (29%), Gaps = 7/144 (4%)

Query: 16  FSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKV-PDKLLDHTSVTHLFPITK 74
           +     L +  +      + G T +GV+  + V +    +     ++   +   L  I+ 
Sbjct: 9   YQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISP 68

Query: 75  YLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPL 134
            +     G  AD   + Q               E  V    + +           Y   +
Sbjct: 69  KIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQ-----HLFKYQGHI 123

Query: 135 GVVAMVLSIDEECGPRLFKCDPAG 158
           G   +V  +D   G  LF     G
Sbjct: 124 GAYLIVAGVDPT-GSHLFSIHAHG 146

>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 = 73.8 bits (182), Expect = 2e-16
 Identities = 23/122 (18%), Positives = 43/122 (35%), Gaps = 7/122 (5%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLL-DHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T  G+  +D V +    +  +  +    S   +  I   +     G+ AD     + A  
Sbjct: 2   TIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAAS 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           +        G E  V  + + +      Y  H     +G   +V  +D   GP+L++  P
Sbjct: 62  KMELHALSTGREPRVATVTRILRQTLFRYQGH-----VGASLVVGGVDLN-GPQLYEVHP 115

Query: 157 AG 158
            G
Sbjct: 116 HG 117

>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 = 69.2 bits (170), Expect = 1e-14
 Identities = 20/122 (16%), Positives = 36/122 (29%), Gaps = 7/122 (5%)

Query: 38  TSIGVRGKDSVCVVTQKKV-PDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T +GV+  + V +    +     ++   +   L  I+  +     G  AD   + Q    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
                      E  V    + +           Y   +G   +V  +D   G  LF    
Sbjct: 62  NIELHSLYTSREPRVVSALQMLKQ-----HLFKYQGHIGAYLIVAGVDPT-GSHLFSIHA 115

Query: 157 AG 158
            G
Sbjct: 116 HG 117

>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 = 70.0 bits (171), Expect = 1e-14
 Identities = 30/167 (17%), Positives = 53/167 (31%), Gaps = 8/167 (4%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSV 66
             +  I   S   R      +       G T + +  K  V +   ++     L+    V
Sbjct: 38  LPENRIGHRSHSTRGGDGMESGDLAPH-GTTIVALTYKGGVLLAGDRRATQGNLIASRDV 96

Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
             ++   +Y      G    A  LV+    E   +    G  +  D  A  +A   +   
Sbjct: 97  EAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGN- 155

Query: 127 QHAYMRPLGVVAMVLSID-----EECGPRLFKCDPAGHFFGHKVGGF 168
             A M+ L VV +++  D     E    R+   D  G  +  + G  
Sbjct: 156 LGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYH 202

>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 = 66.5 bits (163), Expect = 1e-13
 Identities = 34/130 (26%), Positives = 63/130 (48%), Gaps = 8/130 (6%)

Query: 30  KAVKAAGVTSIGVRGKDSVCVVTQKKV-PDKLLDHTSVTHLFPITKYLGLLATGMTADAR 88
           + ++  G T++G+  KD+V + T+++V  +  + H +   LF I  Y G+   G+  DA+
Sbjct: 3   QTLET-GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQ 61

Query: 89  TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECG 148
            LV+  + E   +R +    MP++ +A  +++            P  V  +V  ID    
Sbjct: 62  VLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVK----YMPYMVQLLVGGIDT--A 115

Query: 149 PRLFKCDPAG 158
           P +F  D AG
Sbjct: 116 PHVFSIDAAG 125

>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 = 65.8 bits (161), Expect = 2e-13
 Identities = 20/122 (16%), Positives = 36/122 (29%), Gaps = 7/122 (5%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH-LFPITKYLGLLATGMTADARTLVQQARY 96
           T  GV  KD + +    +  + ++        +  I+  +     G  AD     Q    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
                    G    V    + +           Y   +G   ++  +D   GP L+   P
Sbjct: 62  NLELHSLSTGRLPRVVTANRMLKQ-----MLFRYRGYIGAALVLGGVDVT-GPHLYSIYP 115

Query: 157 AG 158
            G
Sbjct: 116 HG 117

>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 = 65.2 bits (159), Expect = 5e-13
 Identities = 20/154 (12%), Positives = 47/154 (30%), Gaps = 9/154 (5%)

Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKV-PDKLLDHT 64
                + +   + + R    +         G T++  R +  + V    +      +   
Sbjct: 49  IASPQQFLRAHTDDSRNPDCKIKIAH----GTTTLAFRFQGGIIVAVDSRATAGNWVASQ 104

Query: 65  SVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQV 124
           +V  +  I  +L     G  AD +        +      +    + V   +K +++    
Sbjct: 105 TVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQ 164

Query: 125 YTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAG 158
           Y        L +  M+     + GP ++  D  G
Sbjct: 165 YKGA----GLSMGTMICGYTRKEGPTIYYVDSDG 194

>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 = 63.3 bits (154), Expect = 1e-12
 Identities = 26/135 (19%), Positives = 47/135 (34%), Gaps = 7/135 (5%)

Query: 38  TSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T + +  K  V +   ++     L+    V  ++   +Y      G    A  LV+    
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSID-----EECGPRL 151
           E   +    G  +  D  A  +A   +     A M+ L VV +++  D     E    R+
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGN-LGAAMQGLAVVPLLVGYDLDADDESRAGRI 120

Query: 152 FKCDPAGHFFGHKVG 166
              D  G  +  + G
Sbjct: 121 VSYDVVGGRYEERAG 135

>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 = 60.3 bits (147), Expect = 1e-11
 Identities = 27/131 (20%), Positives = 46/131 (35%), Gaps = 21/131 (16%)

Query: 38  TSIGVRGKDSVCV----------VTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA 87
             IG++G D V V          V  K   DK+         F +++ + LL  G   D 
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKM---------FKMSEKILLLCVGEAGDT 53

Query: 88  RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEEC 147
               +  +     ++ + GYE+     A +   +  +        P  V  ++   DE  
Sbjct: 54  VQFAEYIQKNVQLYKMRNGYELSPTAAANFT--RRNLADCLRSRTPYHVNLLLAGYDEHE 111

Query: 148 GPRLFKCDPAG 158
           GP L+  D   
Sbjct: 112 GPALYYMDYLA 122

>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 = 61.1 bits (148), Expect = 1e-11
 Identities = 20/137 (14%), Positives = 42/137 (30%), Gaps = 7/137 (5%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G T + ++    V +   ++     ++    V  ++    Y      G  A A    +  
Sbjct: 57  GTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLY 116

Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEEC-----GP 149
             E   +    G  +        +A   +     A M+ L  + ++   D          
Sbjct: 117 AVELEHYEKLEGVPLTFAGKINRLAIMVRGNL-AAAMQGLLALPLLAGYDIHASDPQSAG 175

Query: 150 RLFKCDPAGHFFGHKVG 166
           R+   D AG +   + G
Sbjct: 176 RIVSFDAAGGWNIEEEG 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 = 59.9 bits (146), Expect = 2e-11
 Identities = 18/122 (14%), Positives = 40/122 (32%), Gaps = 5/122 (4%)

Query: 38  TSIGVRGKDSVCVVTQKKV-PDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T++  R +  + V    +      +   +V  +  I  +L     G  AD +        
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           +      +    + V   +K +++    Y        L +  M+     + GP ++  D 
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQYKGA----GLSMGTMICGYTRKEGPTIYYVDS 117

Query: 157 AG 158
            G
Sbjct: 118 DG 119

>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 = 57.6 bits (140), Expect = 1e-10
 Identities = 20/132 (15%), Positives = 46/132 (34%), Gaps = 22/132 (16%)

Query: 38  TSIGVRGKDSVCV----------VTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA 87
             +G+R +DSV +             K   DK            ++ +  +   G   D 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKT---------RQLSPHTLMSFAGEAGDT 53

Query: 88  RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEEC 147
               +  +     +  +  YE+    ++ ++  + ++       RP  V  ++   D++ 
Sbjct: 54  VQFAEYIQANIQLYSIREDYELSPQAVSSFV--RQELAKSIRSRRPYQVNVLIGGYDKKK 111

Query: 148 -GPRLFKCDPAG 158
             P L++ D  G
Sbjct: 112 NKPELYQIDYLG 123

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

 Score = 56.4 bits (137), Expect = 3e-10
 Identities = 26/129 (20%), Positives = 48/129 (37%), Gaps = 20/129 (15%)

Query: 38  TSIGVRGKDSVCVV--------TQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADART 89
           T++G+  KD   VV            +  K     +   ++ I   + +   G   DA+ 
Sbjct: 2   TTVGLVCKD--GVVMATEKRATMGNFIASK-----AAKKIYQIADRMAMTTAGSVGDAQF 54

Query: 90  LVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGP 149
           L +  + EA  +  +   +  V  +A   ++    Y       P  V  ++  ID E G 
Sbjct: 55  LARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYF----PYLVQLLIGGIDSE-GK 109

Query: 150 RLFKCDPAG 158
            ++  DP G
Sbjct: 110 SIYSIDPIG 118

>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 = 55.3 bits (134), Expect = 8e-10
 Identities = 14/90 (15%), Positives = 28/90 (31%), Gaps = 5/90 (5%)

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           L PI   +    +G  AD + +     Y+      +      V   A    +       +
Sbjct: 34  LTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKE-----MCY 88

Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPAG 158
            Y   L    ++   D + G +++     G
Sbjct: 89  RYREDLMAGIIIAGWDPQEGGQVYSVPMGG 118

>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 = 54.5 bits (132), Expect = 1e-09
 Identities = 23/126 (18%), Positives = 42/126 (33%), Gaps = 14/126 (11%)

Query: 38  TSIGVRGKDSVCV-----VTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQ 92
           T++  + +  V V      T        +   +V  +  I  YL     G  AD     +
Sbjct: 2   TTLAFKFRHGVIVAADSRATA----GAYIASQTVKKVIEINPYLLGTMAGGAADCSFWER 57

Query: 93  QARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLF 152
               +   +  +    + V   +K +A+    Y        L +  M+   D+  GP L+
Sbjct: 58  LLARQCRIYELRNKERISVAAASKLLANMVYQYKGM----GLSMGTMICGWDKR-GPGLY 112

Query: 153 KCDPAG 158
             D  G
Sbjct: 113 YVDSEG 118

>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 = 54.7 bits (132), Expect = 2e-09
 Identities = 23/134 (17%), Positives = 47/134 (35%), Gaps = 24/134 (17%)

Query: 36  GVTSIGVRGKDSVCV----------VTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTA 85
           G T +G+ G+D   +              +   K+         F     + + A G  A
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKV---------FDCGDNIVMSANGFAA 59

Query: 86  DARTLVQQARYEAAEFRFKY-GYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSID 144
           D   LV++ +     + F +   ++ ++  A+ I              P  V  ++  +D
Sbjct: 60  DGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRF----FPYYVHTIIAGLD 115

Query: 145 EECGPRLFKCDPAG 158
           E+    ++  DP G
Sbjct: 116 EDGKGAVYSFDPVG 129

>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 = 54.6 bits (132), Expect = 2e-09
 Identities = 21/134 (15%), Positives = 42/134 (31%), Gaps = 25/134 (18%)

Query: 36  GVTSIGVRGKDSVCVV--------TQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA 87
           G T + + G+D    +            +  +          + +T    +  +G   D 
Sbjct: 9   GGTILAIAGED--FAIVASDTRLSEGFSIHTR-----DSPKCYKLTDKTVIGCSGFHGDC 61

Query: 88  RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMR---PLGVVAMVLSID 144
            TL +        ++      M    +A  ++          Y R   P  V  ++  +D
Sbjct: 62  LTLTKIIEARLKMYKHSNNKAMTTGAIAAMLS-------TILYSRRFFPYYVYNIIGGLD 114

Query: 145 EECGPRLFKCDPAG 158
           EE    ++  DP G
Sbjct: 115 EEGKGAVYSFDPVG 128

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I Length = 205

 Score = 52.5 bits (127), Expect = 8e-09
 Identities = 23/135 (17%), Positives = 48/135 (35%), Gaps = 26/135 (19%)

Query: 36  GVTSIGVRGKDSVCVV--------TQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA 87
           G   + ++GK+  CV          Q ++            +FP+   L +   G+  D 
Sbjct: 8   GGAVMAMKGKN--CVAIAADRRFGIQAQLVTT-----DFQKIFPMGDRLYIGLAGLATDV 60

Query: 88  RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMR---PLGVVAMVLSID 144
           +T+ Q+ ++    +  K G ++    L   +A          Y +   P     ++  +D
Sbjct: 61  QTVAQRLKFRLNLYELKEGRQIKPYTLMSMVA-------NLLYEKRFGPYYTEPVIAGLD 113

Query: 145 EE-CGPRLFKCDPAG 158
            +   P +   D  G
Sbjct: 114 PKTFKPFICSLDLIG 128

>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 = 52.8 bits (127), Expect = 1e-08
 Identities = 18/137 (13%), Positives = 45/137 (32%), Gaps = 18/137 (13%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDKLL------DHTSVTHLFPITKYLGLLATGMTADART 89
           G + I ++  + V +       D L           V  L P+     +  +G  +D + 
Sbjct: 41  GTSVISMKYDNGVIIAA-----DNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 95

Query: 90  LVQQARYEAAEFRFKY-----GYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSID 144
           + +  +    E  +          +    + +++   + +Y + + M PL    +V  + 
Sbjct: 96  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYL--ATVMYQRRSKMNPLWNAIIVAGVQ 153

Query: 145 EECGPRLFKCDPAGHFF 161
                 L   +  G  +
Sbjct: 154 SNGDQFLRYVNLLGVTY 170

>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 = 50.8 bits (122), Expect = 5e-08
 Identities = 18/134 (13%), Positives = 44/134 (32%), Gaps = 18/134 (13%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDKLL------DHTSVTHLFPITKYLGLLATGMTADART 89
           G + I ++  + V +       D L           V  L P+     +  +G  +D + 
Sbjct: 8   GTSVISMKYDNGVIIAA-----DNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 62

Query: 90  LVQQARYEAAEFRFKY-----GYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSID 144
           + +  +    E  +          +    + +++   + +Y + + M PL    +V  + 
Sbjct: 63  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYL--ATVMYQRRSKMNPLWNAIIVAGVQ 120

Query: 145 EECGPRLFKCDPAG 158
                 L   +  G
Sbjct: 121 SNGDQFLRYVNLLG 134

>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 = 49.9 bits (120), Expect = 6e-08
 Identities = 20/129 (15%), Positives = 36/129 (27%), Gaps = 21/129 (16%)

Query: 38  TSIGVRGKDSVCVV--------TQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADART 89
           T + V       VV            V ++         L P+ + +    +G  ADA+ 
Sbjct: 2   TIMAVEFDG--GVVVGSDSRVSAGTAVVNR-----VFDKLSPLHQRIFCALSGSAADAQA 54

Query: 90  LVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGP 149
           +   A Y+      +      V   A  + +       + Y   L    +V   D+    
Sbjct: 55  IADMAAYQLELHGLELEEPPLVLAAANVVKN-----ISYKYREDLLAHLIVAGWDQR-EG 108

Query: 150 RLFKCDPAG 158
                   G
Sbjct: 109 GQVYGTMGG 117

>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 = 49.9 bits (120), Expect = 6e-08
 Identities = 25/133 (18%), Positives = 44/133 (33%), Gaps = 23/133 (17%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDK------LLDHTSVTHLFPITKYLGLLATGMTADART 89
           G   + + GKD V +       D       L        +F        +  G+  D  T
Sbjct: 8   GGIVVAMTGKDCVAIAC-----DLRLGSQSLGVSNKFEKIFHYGHVFLGIT-GLATDVTT 61

Query: 90  LVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMR---PLGVVAMVLSIDEE 146
           L +  RY+   ++ K    +  +   + ++          Y R   P  V  +V  I+ +
Sbjct: 62  LNEMFRYKTNLYKLKEERAIEPETFTQLVS-------SSLYERRFGPYFVGPVVAGINSK 114

Query: 147 CG-PRLFKCDPAG 158
            G P +   D  G
Sbjct: 115 SGKPFIAGFDLIG 127

>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 = 44.1 bits (105), Expect = 7e-06
 Identities = 19/134 (14%), Positives = 39/134 (29%), Gaps = 27/134 (20%)

Query: 36  GVTSIGVRGKDSVCV-----------VTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMT 84
           G + + V  KD V +           +  +   DKL           +   +    +G  
Sbjct: 9   GASIMAVTFKDGVILGADSRTTTGAYIANRVT-DKL---------TRVHDKIWCCRSGSA 58

Query: 85  ADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSID 144
           AD + +    +Y    +  +YG        A    +       +     L    +V   D
Sbjct: 59  ADTQAIADIVQYHLELYTSQYGTPSTETA-ASVFKE-----LCYENKDNLTAGIIVAGYD 112

Query: 145 EECGPRLFKCDPAG 158
           ++    ++     G
Sbjct: 113 DKNKGEVYTIPLGG 126

>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 = 43.7 bits (104), Expect = 9e-06
 Identities = 22/130 (16%), Positives = 45/130 (34%), Gaps = 15/130 (11%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDK------LLDHTSVTHLFPITKYLGLLATGMTADART 89
           G + +GV+ +  V +       D       L    +++ +  +     L A+G  AD + 
Sbjct: 8   GTSVLGVKFEGGVVIAA-----DMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQY 62

Query: 90  LVQQARYEAAEFRFKY-GYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECG 148
           L Q       +      G+      +  W+     +Y++ + M PL    ++    +   
Sbjct: 63  LKQVLGQMVIDEELLGDGHSYSPRAIHSWL--TRAMYSRRSKMNPLWNTMVIGGYADG-E 119

Query: 149 PRLFKCDPAG 158
             L   D  G
Sbjct: 120 SFLGYVDMLG 129

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	210
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.96
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.96
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.96

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 4b4t_G 4g4s_G* 3bdm_F* 1fnt_G* 2zcy_F*

Probab=100.00  E-value=1.7e-52  Score=360.77  Aligned_cols=191  Identities=29%  Similarity=0.454  Sum_probs=174.0

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLA   80 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~   80 (210)
                      ||| ++.+||+++|+|||||||||||||.||+++|+ |+|||+++||||||+|+|.+.+++..+..+||++|+++|+|++
T Consensus         1 m~~-~~~~yd~~~t~fSP~Grl~QvEYA~kAv~~Gt-T~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~d~i~~~~   78 (288)
T 3nzj_F            1 MTS-IGTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVY   78 (288)
T ss_dssp             -----CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEETTTEEEEE
T ss_pred             CCC-CcCCccCCcccCCCCCchHHHHHHHHHHhcCC-cEEEEEECCEEEEEEcCCcccCCccccccceEEEEcCCEEEEe
Confidence            886 99999999999999999999999999999998 9999999999999999999977766667899999999999999


Q ss_pred             ecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCce
Q 028367           81 TGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHF  160 (210)
Q Consensus        81 sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~  160 (210)
                      +|+.+|++.|++++|.+++.|+++++++|+++.+++++++++|.||++++.|||+|++||+|||++ ||+||++||+|++
T Consensus        79 aG~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~-Gp~Ly~iDp~G~~  157 (288)
T 3nzj_F           79 SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSY  157 (288)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETT-EEEEEEECTTSCE
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCC-CCEEEEECCCCCE
Confidence            999999999999999999999999999999999999999999999999999999999999999986 8999999999999


Q ss_pred             eeeceEEEccCCchhhhhhHHHHH---HHHHHHHHHHHH
Q 028367          161 FGHKVGGFFNKNSIYDTFCFLSAI---WIYNAIIVYILH  196 (210)
Q Consensus       161 ~~~~~~a~G~gs~~a~~~~~~~~~---~~~~~~~~~~~~  196 (210)
                      .+++++|+|+|++++++++  +..   |..+..+..++.
T Consensus       158 ~~~~~~aiGsgs~~a~~~L--ek~~~~~~~~ms~eEAv~  194 (288)
T 3nzj_F          158 WGYKGAATGKGRQSAKAEL--EKLVDHHPEGLSAREAVK  194 (288)
T ss_dssp             EEBSEEEESTTHHHHHHHH--HHHHHHCTTCCCHHHHHH
T ss_pred             EEcCEEEEcCcHHHHHHHH--HHhccccCCCCCHHHHHH
Confidence            9999999999999999994  333   555555554443

>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=3.8e-52  Score=350.30  Aligned_cols=186  Identities=52%  Similarity=0.818  Sum_probs=176.1

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhc-cCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKA-AGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~-gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +||+++|+|||||||+|||||.||+++ |+ |+|||+++||||||+|+|.+++++.+++.+||++|+++++|+++|+.+|
T Consensus         2 ~yd~~~t~fsp~Grl~QvEYA~~av~~~Gt-t~vgi~~~dgVvlaad~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   80 (243)
T 1ryp_A            2 GYDRHITIFSPEGRLYQVEYAFKATNQTNI-NSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             GGGGTSSSCCTTSCCHHHHHHHHHTTTTCC-CEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCceECCCCeeHHHHHHHHHHhcCCC-cEEEEEeCCEEEEEEEecCCccccCCCcCCceEEECCCEEEEEEecHHH
Confidence            799999999999999999999999999 87 9999999999999999999999998889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.+.+|.+++.|++++|++|+++.+++++++++|.|+++.+.|||+|++||+|||+++||+||++||+|++.+++++
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~~~~~~~  160 (243)
T 1ryp_A           81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKAT  160 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcCCCCEEEEEEE
Confidence            99999999999999999999999999999999999999999888999999999999997558999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHH-------HHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIY-------NAIIVYILH  196 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~-------~~~~~~~~~  196 (210)
                      |+|+|++.++++  ++..|..       +..+..++.
T Consensus       161 a~G~gs~~a~~~--Le~~~~~~~~~~~~~ms~eea~~  195 (243)
T 1ryp_A          161 ATGPKQQEITTN--LENHFKKSKIDHINEESWEKVVE  195 (243)
T ss_dssp             EESTTHHHHHHH--HHHHHHHHCSSSCCCSSHHHHHH
T ss_pred             EECCCcHHHHHH--HHHHhhhcccccccCCCHHHHHH
Confidence            999999999998  4677777       666666654

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

Probab=100.00  E-value=1.4e-52  Score=357.43  Aligned_cols=185  Identities=37%  Similarity=0.612  Sum_probs=164.2

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLA   80 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~   80 (210)
                      |..+.+++||+++|+|||||||+|||||.||+++|+ |+|||+++||||||+|+|.+.+++.+++.+||++|+++++|++
T Consensus         4 ~~~~~~~~yd~~~t~fSp~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~d~i~~~~   82 (264)
T 3h4p_A            4 MQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGT-TAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAAT   82 (264)
T ss_dssp             ------------CCCCCSSSSCHHHHHHHHHHHHSC-CEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEETTEEEEE
T ss_pred             CcCCCccccCCCcceECCCCeeHHHHhHHHHHhcCC-cEEEEEECCEEEEEEecCccCCccccCccccEEEecCcEEEEe
Confidence            555667899999999999999999999999999998 9999999999999999999988888899999999999999999


Q ss_pred             ecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCce
Q 028367           81 TGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHF  160 (210)
Q Consensus        81 sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~  160 (210)
                      +|+.+|++.|++.+|.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+|||++ ||+||++||+|++
T Consensus        83 aG~~aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~-gp~Ly~iDp~G~~  161 (264)
T 3h4p_A           83 SGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKN-EARLFETDPSGAL  161 (264)
T ss_dssp             EECSHHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETT-EEEEEEECTTCCC
T ss_pred             ccchHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCC-cCEEEEECCCceE
Confidence            999999999999999999999999999999999999999999999999999999999999999975 8999999999999


Q ss_pred             eeeceEEEccCCchhhhhhHHHHHHHHHH
Q 028367          161 FGHKVGGFFNKNSIYDTFCFLSAIWIYNA  189 (210)
Q Consensus       161 ~~~~~~a~G~gs~~a~~~~~~~~~~~~~~  189 (210)
                      .+++++|+|+|+++|++++  +..|..+.
T Consensus       162 ~~~~~~aiGsgs~~a~~~L--e~~~~~~m  188 (264)
T 3h4p_A          162 IEYKATAIGSGRPVVMELL--EKEYRDDI  188 (264)
T ss_dssp             EEESEEEESTTHHHHTTTH--HHHCCTTC
T ss_pred             EecCeEEECCCHHHHHHHH--HHhccCCC
Confidence            9999999999999999995  33444333

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F

Probab=100.00  E-value=1.5e-51  Score=348.99  Aligned_cols=190  Identities=35%  Similarity=0.517  Sum_probs=175.7

Q ss_pred             CCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecC
Q 028367            4 GSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGM   83 (210)
Q Consensus         4 ~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~   83 (210)
                      +++++||+++|+|||||||+|||||.|++++|+ |+|||+++||||||+|+|.+.++...++.+||++|+++|+|+++|+
T Consensus         2 ~~~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~   80 (254)
T 1iru_G            2 SIGTGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGL   80 (254)
T ss_dssp             CCCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEEC
T ss_pred             CcccccCCCCccCCcCCccHHHHhHHHHHhcCC-CEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEECCCEEEEEecC
Confidence            367799999999999999999999999999988 9999999999999999999976666788999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeee
Q 028367           84 TADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH  163 (210)
Q Consensus        84 ~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~  163 (210)
                      .+|++.|.+++|.+++.|+++++++++++.+++++++++|.|+++++.|||++++||+|||+++||+||++||+|++.++
T Consensus        81 ~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~  160 (254)
T 1iru_G           81 LADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGY  160 (254)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEB
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCCCEEee
Confidence            99999999999999999999999999999999999999999999888999999999999995558999999999999999


Q ss_pred             ceEEEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          164 KVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       164 ~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      +++|+|+|+++|++++  +..|..+..+..++.
T Consensus       161 ~~~aiGsgs~~a~~~L--e~~~~~~ms~eea~~  191 (254)
T 1iru_G          161 WGCAIGKARQAAKTEI--EKLQMKEMTCRDIVK  191 (254)
T ss_dssp             SEEEESTTHHHHHHHH--TTSCGGGCCHHHHHH
T ss_pred             eeEEecCccHHHHHHH--HHhccCCCCHHHHHH
Confidence            9999999999999994  445555555555554

>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=2e-51  Score=346.44  Aligned_cols=191  Identities=55%  Similarity=0.869  Sum_probs=178.2

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhc-cCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKA-AGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLL   79 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~-gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~   79 (210)
                      ||+  +++||+++|+|||||||+|||||.|++++ |+ |+|||+++||||||+|+|.+++++.+++.+||++|+++++++
T Consensus         3 m~~--~~~yd~~~t~fsp~Grl~QvEya~~av~~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~   79 (246)
T 1iru_A            3 RGS--SAGFDRHITIFSPEGRLYQVEYAFKAINQGGL-TSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCV   79 (246)
T ss_dssp             CSC--CCTTTTTSSCCCTTSCCHHHHHHHHHHHTTCC-EEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEE
T ss_pred             CCc--cCCcCCCCccCCCCCeehHHHHHHHHHhcCCC-CEEEEEeCCEEEEEEeecCCCcccCCCccCceEEECCCEEEE
Confidence            564  57899999999999999999999999999 87 999999999999999999999898888999999999999999


Q ss_pred             EecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCc
Q 028367           80 ATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGH  159 (210)
Q Consensus        80 ~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs  159 (210)
                      ++|+.+|++.+.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+|||+++||+||.+||+|+
T Consensus        80 ~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~  159 (246)
T 1iru_A           80 MTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGY  159 (246)
T ss_dssp             EEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSC
T ss_pred             EeccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCee
Confidence            99999999999999999999999999999999999999999999999988899999999999999755899999999999


Q ss_pred             eeeeceEEEccCCchhhhhhHHHHHHHH--HHHHHHHHH
Q 028367          160 FFGHKVGGFFNKNSIYDTFCFLSAIWIY--NAIIVYILH  196 (210)
Q Consensus       160 ~~~~~~~a~G~gs~~a~~~~~~~~~~~~--~~~~~~~~~  196 (210)
                      +.+++++|+|+|+++|+++  ++..|..  +..+..++.
T Consensus       160 ~~~~~~~aiG~gs~~a~~~--Le~~~~~~~~ms~eea~~  196 (246)
T 1iru_A          160 YCGFKATAAGVKQTESTSF--LEKKVKKKFDWTFEQTVE  196 (246)
T ss_dssp             EEEBSEEEEETTHHHHHHH--HHHHTTSCCCCCHHHHHH
T ss_pred             EEEeeEEEECCCcHHHHHH--HHHhhcccCCCCHHHHHH
Confidence            9999999999999999998  4666766  655555543

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A

Probab=100.00  E-value=2.5e-51  Score=343.17  Aligned_cols=189  Identities=36%  Similarity=0.555  Sum_probs=167.5

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLA   80 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~   80 (210)
                      |+|   ++||+++|+|||||||+|+|||.|++++|+ |+|||+++||||||+|+|.+.+++.+++.+||++|++++++++
T Consensus         3 m~~---~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~~~i~~~~   78 (233)
T 1yar_A            3 QGQ---MAYSRAITVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVT   78 (233)
T ss_dssp             -------------CCCCTTSCCHHHHHHHHHHTTSC-CEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEE
T ss_pred             ccc---ccCCCCCceECcCCeeHHHHhHHHHHhcCC-cEEEEEECCEEEEEEeccCCcccccccccCeEEEecCCEEEEE
Confidence            564   589999999999999999999999999988 9999999999999999999977888889999999999999999


Q ss_pred             ecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCce
Q 028367           81 TGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHF  160 (210)
Q Consensus        81 sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~  160 (210)
                      ||+.+|++.+.++++.+++.|+++++++++++.+++++++++|+|+++.+.|||++++||+|||++ ||+||.+||+|++
T Consensus        79 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~-gp~Ly~id~~G~~  157 (233)
T 1yar_A           79 SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTI  157 (233)
T ss_dssp             EEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSS-CEEEEEECTTCCE
T ss_pred             eeCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeCC-CCEEEEECCCCCE
Confidence            999999999999999999999999999999999999999999999998899999999999999985 9999999999999


Q ss_pred             eeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          161 FGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       161 ~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      .+++++|+|+|+++|++++  +..|..+..+..++.
T Consensus       158 ~~~~~~aiG~gs~~a~~~L--e~~~~~~~s~eea~~  191 (233)
T 1yar_A          158 NEYKATAIGSGKDAVVSFL--EREYKENLPEKEAVT  191 (233)
T ss_dssp             EEBSEEEESTTHHHHHHHH--HHHCCTTCCHHHHHH
T ss_pred             EeeeEEEEcCCcHHHHHHH--HHHhccCCCHHHHHH
Confidence            9999999999999999994  555655555554443

>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=3.2e-51  Score=342.53  Aligned_cols=186  Identities=34%  Similarity=0.530  Sum_probs=174.7

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      ++||+++|+|||||||+|||||.+++++|+ |+|||+++||||||+|+|.+++++.+++.+||++|++++++++||+.+|
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   81 (233)
T 1iru_B            3 RGYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPD   81 (233)
T ss_dssp             CCCCSBSCCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHH
T ss_pred             CCccCCceeECCCCeEehhHhHHHHHHcCC-cEEEEEeCCEEEEEEEecCCccccccccCCeEEEECCCEEEEEEEccHH
Confidence            479999999999999999999999999998 9999999999999999999988888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.++++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+|||++ ||+||.+||+|++.+++++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~-gp~Ly~id~~G~~~~~~~~  160 (233)
T 1iru_B           82 YRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEG-RPYLFQSDPSGAYFAWKAT  160 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSS-SEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCC-CCeEEEECCCCCEEEeeEE
Confidence            999999999999999999999999999999999999999999899999999999999965 8999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      |+|+|++++++++  +..|..+..+..++.
T Consensus       161 aiG~gs~~a~~~L--e~~~~~~ms~eea~~  188 (233)
T 1iru_B          161 AMGKNYVNGKTFL--EKRYNEDLELEDAIH  188 (233)
T ss_dssp             EESTTHHHHHHHH--HHHCCTTCCHHHHHH
T ss_pred             EECCCCHHHHHHH--HHHhccCCCHHHHHH
Confidence            9999999999984  555666655555544

>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=8.2e-51  Score=342.20  Aligned_cols=184  Identities=33%  Similarity=0.578  Sum_probs=170.8

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEEEecChHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +||+++|+|||||||+|+|||.|++++|+ |+|||+++||||||+|+|.+.+++. +++.+||++|++++++++||+.+|
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD   82 (244)
T 1ryp_C            4 RYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GGCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             ccCCCCceECcCCeeHHHHhHHHHHhcCC-cEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHH
Confidence            79999999999999999999999999988 9999999999999999999976766 889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.+.++.+++.|+++++++++++.+++++++++|+|+++.+.|||++++||+|||+++||+||.+||+|++.+++++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~  162 (244)
T 1ryp_C           83 AEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAI  162 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCCccEEeeeEE
Confidence            99999999999999999999999999999999999999999999999999999999994458999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYNAIIVYI  194 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~~~~~~~  194 (210)
                      |+|+|+++|++++  +..|..+..+..+
T Consensus       163 aiGsgs~~a~~~L--e~~~~~~ms~eea  188 (244)
T 1ryp_C          163 SVGANTSAAQTLL--QMDYKDDMKVDDA  188 (244)
T ss_dssp             EESTTHHHHHHHH--HHHCCTTCCHHHH
T ss_pred             EECCCcHHHHHHH--HHhhhcCCCHHHH
Confidence            9999999999995  4444444444433

>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=9.7e-51  Score=345.31  Aligned_cols=189  Identities=32%  Similarity=0.514  Sum_probs=174.6

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLL   79 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~   79 (210)
                      |++    +||+++|+|||||||+|||||.+++++|+ |+|||+++||||||+|+|.+.++.. +++.+||++|+++++++
T Consensus         1 m~~----~yd~~~t~fsp~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~   75 (261)
T 1iru_C            1 MSR----RYDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACS   75 (261)
T ss_dssp             -CT----TTCCCTTCCCTTSCCHHHHHHHHHHTTSC-CEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEE
T ss_pred             CCC----ccCCCCccCCCCCeehHHHhHHHHHhcCC-cEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEE
Confidence            777    89999999999999999999999999998 9999999999999999999955554 55689999999999999


Q ss_pred             EecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCc
Q 028367           80 ATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGH  159 (210)
Q Consensus        80 ~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs  159 (210)
                      +||+.+|++.|.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+|||+++||+||.+||+|+
T Consensus        76 ~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~  155 (261)
T 1iru_C           76 VAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGN  155 (261)
T ss_dssp             EEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTE
T ss_pred             EeEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECCCce
Confidence            99999999999999999999999999999999999999999999999988999999999999999755899999999999


Q ss_pred             eeeeceEEEccCCchhhhhhHHHHHHHH-HHHHHHHHH
Q 028367          160 FFGHKVGGFFNKNSIYDTFCFLSAIWIY-NAIIVYILH  196 (210)
Q Consensus       160 ~~~~~~~a~G~gs~~a~~~~~~~~~~~~-~~~~~~~~~  196 (210)
                      +.+++++|+|+|+++|+++  ++..|.. +..+..++.
T Consensus       156 ~~~~~~~aiGsgs~~a~~~--Le~~~~~~~ms~eeA~~  191 (261)
T 1iru_C          156 YGGWKATCIGNNSAAAVSM--LKQDYKEGEMTLKSALA  191 (261)
T ss_dssp             EEECSEEEESTTTTHHHHH--HHHHCCTTCCCHHHHHH
T ss_pred             EEeeeeEEeCcccHHHHHH--HHHhhccCCCCHHHHHH
Confidence            9999999999999999998  5777777 666655544

>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E* 1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E* 3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E* 3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ...

Probab=100.00  E-value=1.4e-50  Score=338.88  Aligned_cols=185  Identities=25%  Similarity=0.381  Sum_probs=173.6

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      ++||+++|+|||||||+|||||.|++++|+ |+|||+++||||||+|+|.+.++.  ++.+||++|++++++++||+.+|
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~--~~~~Ki~~i~~~i~~~~aG~~aD   79 (233)
T 1ryp_F            3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAPD   79 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHH
T ss_pred             CcccCCCccCCCCCeehHHHHHHHHHHcCC-CEEEEEcCCEEEEEEEeccccccc--cccCcEEEEcCCEEEEEEechHH
Confidence            369999999999999999999999999998 999999999999999999997765  37799999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.+.+|.+++.|++++|++|+++.+++++++++|.|||+.+.|||++++||+|||++ ||+||++||+|++.+++++
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~-gp~Ly~idp~G~~~~~~~~  158 (233)
T 1ryp_F           80 ARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNVTELYGT  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETT-EEEEEEECTTSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCC-cCEEEEECCCCCeeeeeEE
Confidence            999999999999999999999999999999999999999999999999999999999986 8999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHH--HH--HHHHHHHh
Q 028367          167 GFFNKNSIYDTFCFLSAIWIY--NA--IIVYILHW  197 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~--~~--~~~~~~~~  197 (210)
                      |+|+|+++|+++  ++..|..  +.  .+..++..
T Consensus       159 aiG~gs~~a~~~--Le~~~~~~~~m~~s~eea~~~  191 (233)
T 1ryp_F          159 AIGARSQGAKTY--LERTLDTFIKIDGNPDELIKA  191 (233)
T ss_dssp             EESTTHHHHHHH--HHHHHHHHTTCCSCHHHHHHH
T ss_pred             EECCCcHHHHHH--HHHHhccccccCCCHHHHHHH
Confidence            999999999998  5777777  66  67766653

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

Probab=100.00  E-value=1.4e-50  Score=342.11  Aligned_cols=188  Identities=30%  Similarity=0.442  Sum_probs=175.3

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLA   80 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~   80 (210)
                      |++    +||+++|+|||||||+|||||.|++++|+ |+|||+++||||||+|+|.+++++.+++.+||++|+++++|++
T Consensus         1 ~~~----~yd~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~   75 (250)
T 1ryp_B            1 MTD----RYSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVY   75 (250)
T ss_dssp             CCC----CCCSBSSCBCTTSCBHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEE
T ss_pred             CCC----cccCCceeECCCCccHHHHhHHHHHHcCC-cEEEEEECCEEEEEEeccCCCccccCcccCceEEECCCEEEEe
Confidence            777    89999999999999999999999999988 9999999999999999999988988889999999999999999


Q ss_pred             ecChHHHHHHHHHHHHHHHH-HHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCc
Q 028367           81 TGMTADARTLVQQARYEAAE-FRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGH  159 (210)
Q Consensus        81 sG~~~D~~~l~~~~r~~~~~-~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs  159 (210)
                      ||+.+|++.+.+.++.+++. |+..++.+++++.+++.++++++.++++.+.|||++++||+|||+++||+||.+||+|+
T Consensus        76 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~  155 (250)
T 1ryp_B           76 SGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGS  155 (250)
T ss_dssp             EECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSC
T ss_pred             eeCHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEECCCCC
Confidence            99999999999999999999 99999999999999999999999999988999999999999999866899999999999


Q ss_pred             eeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          160 FFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       160 ~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +.+++++|+|+|+++|++++  +..|..+..+..|+
T Consensus       156 ~~~~~~~aiGsgs~~a~~~L--e~~~~~~ms~eea~  189 (250)
T 1ryp_B          156 YFPWKATAIGKGSVAAKTFL--EKRWNDELELEDAI  189 (250)
T ss_dssp             EEEBSEEEESTTHHHHHHHH--HHHCCTTCCHHHHH
T ss_pred             EEeeceeEecCccHHHHHHH--HHHhccCCCHHHHH
Confidence            99999999999999999995  55555554444443

>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=1.5e-50  Score=341.03  Aligned_cols=188  Identities=29%  Similarity=0.440  Sum_probs=171.9

Q ss_pred             CCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChH
Q 028367            6 GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTA   85 (210)
Q Consensus         6 ~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~   85 (210)
                      +++||+++|+||||||++|+|||.|++++|+ |+|||+++||||||+|+|.+.+++..+..+||++|+++++|++||+.+
T Consensus         1 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~a   79 (244)
T 1ryp_G            1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIP   79 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHH
T ss_pred             CCCccCCcccCCcCCchHHHHhHHHHHHCCC-CEEEEEECCEEEEEEecccCCCCccccccCceEEecCCEEEEEcccHH
Confidence            3589999999999999999999999999998 999999999999999999996666655569999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeece
Q 028367           86 DARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKV  165 (210)
Q Consensus        86 D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~  165 (210)
                      |++.+.++++.++++|+++++++++++.+++++++++|.||++++.|||++++||+|||++ ||+||.+||+|++.++++
T Consensus        80 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~-gp~Ly~idp~G~~~~~~~  158 (244)
T 1ryp_G           80 DGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYKG  158 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETT-EEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeCC-cCEEEEECCCCCEEEeeE
Confidence            9999999999999999999999999999999999999999998889999999999999975 899999999999999999


Q ss_pred             EEEccCCchhhhhhHHHH--HHHHHHHHHHHHH
Q 028367          166 GGFFNKNSIYDTFCFLSA--IWIYNAIIVYILH  196 (210)
Q Consensus       166 ~a~G~gs~~a~~~~~~~~--~~~~~~~~~~~~~  196 (210)
                      +|+|+|+++|++++ ++.  .|..+..+..++.
T Consensus       159 ~aiG~gs~~a~~~L-e~~~~~~~~~ms~eea~~  190 (244)
T 1ryp_G          159 AATGKGRQSAKAEL-EKLVDHHPEGLSAREAVK  190 (244)
T ss_dssp             EEESTTHHHHHHHH-HHHHHHCTTCCCHHHHHH
T ss_pred             EEECCChHHHHHHH-HHhHhhcCCCCCHHHHHH
Confidence            99999999999994 332  2655555555544

>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=7.5e-51  Score=343.57  Aligned_cols=185  Identities=35%  Similarity=0.560  Sum_probs=173.9

Q ss_pred             CCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADAR   88 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (210)
                      ||+++|+|||||||+|||||.|++++|+ |+|||+++||||||+|+|.+.+++.+++.+||++|+++++++++|+.+|++
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~   81 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADAR   81 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSC-CEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             ccCCCceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEcCCEEEEEeecHHHHH
Confidence            9999999999999999999999999998 999999999999999999997788888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEE
Q 028367           89 TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGF  168 (210)
Q Consensus        89 ~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~  168 (210)
                      .+.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+|||+++||+||.+||+|++.+++++|+
T Consensus        82 ~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~ai  161 (248)
T 1iru_D           82 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI  161 (248)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeEEEE
Confidence            99999999999999999999999999999999999999988899999999999999555999999999999999999999


Q ss_pred             ccCCchhhhhhHHHHHHHHHH--HHHHHHH
Q 028367          169 FNKNSIYDTFCFLSAIWIYNA--IIVYILH  196 (210)
Q Consensus       169 G~gs~~a~~~~~~~~~~~~~~--~~~~~~~  196 (210)
                      |+|+++++++  ++..|..+.  .+..++.
T Consensus       162 G~gs~~a~~~--Le~~~~~~m~~s~eea~~  189 (248)
T 1iru_D          162 GRGAKSVREF--LEKNYTDEAIETDDLTIK  189 (248)
T ss_dssp             STTHHHHHHH--HTTTCCSSTTCSHHHHHH
T ss_pred             CCCcHHHHHH--HHHhhcccccCCHHHHHH
Confidence            9999999998  466676666  5555544

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

Probab=100.00  E-value=2.1e-50  Score=340.29  Aligned_cols=178  Identities=37%  Similarity=0.599  Sum_probs=168.3

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA   87 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~   87 (210)
                      +||+++|+|||||||+|+|||.+++++|+ |+|||+++||||||+|+|.+.+++.+++.+||++|+++++++++|+.+|+
T Consensus         7 ~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~   85 (246)
T 1j2p_A            7 GYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVADA   85 (246)
T ss_dssp             TSSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHHH
T ss_pred             CcCCCCceECCCCeehHHHhHHHHHHcCC-cEEEEEECCEEEEEEeccCCccccccCccCcEEEECCCEEEEEeEccHHH
Confidence            89999999999999999999999999988 99999999999999999999888878899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEE
Q 028367           88 RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGG  167 (210)
Q Consensus        88 ~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a  167 (210)
                      +.+.+.+|.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+||| + ||+||.+||+|++.+++++|
T Consensus        86 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~-gp~Ly~idp~G~~~~~~~~a  163 (246)
T 1j2p_A           86 RVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-E-VPKLYETDPSGALLEYKATA  163 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-S-SEEEEEECTTCCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-C-CCEEEEECCCceEEeeeEEE
Confidence            999999999999999999999999999999999999999988999999999999999 5 99999999999999999999


Q ss_pred             EccCCchhhhhhHHHHHHHHHHH
Q 028367          168 FFNKNSIYDTFCFLSAIWIYNAI  190 (210)
Q Consensus       168 ~G~gs~~a~~~~~~~~~~~~~~~  190 (210)
                      +|+|+++|++++  +..|..+..
T Consensus       164 iGsgs~~a~~~L--e~~~~~~ms  184 (246)
T 1j2p_A          164 IGMGRMAVTEFF--EKEYRDDLS  184 (246)
T ss_dssp             ESTTHHHHHHHH--HHHCCTTCC
T ss_pred             ECCCcHHHHHHH--HHHhccCCC
Confidence            999999999995  344443333

>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C* 1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C* 3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C* 3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ...

Probab=100.00  E-value=1.5e-50  Score=340.13  Aligned_cols=186  Identities=31%  Similarity=0.526  Sum_probs=172.2

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEEEecChHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +||+++|+|||||||+|||||.|++++|+ |+|||+++||||||+|+|.+.+++. +++.+||++|+++++++++|+.+|
T Consensus         1 ~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD   79 (241)
T 1ryp_D            1 GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNAD   79 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHH
T ss_pred             CCCCCceeECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHH
Confidence            59999999999999999999999999998 9999999999999999999966665 448999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCC-CCcEEEEECCCCceeeece
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEE-CGPRLFKCDPAGHFFGHKV  165 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~-~gp~Ly~vD~~Gs~~~~~~  165 (210)
                      ++.+.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+|||++ +||+||.+||+|++.++++
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~  159 (241)
T 1ryp_D           80 SRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSA  159 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCCCCEEEeee
Confidence            999999999999999999999999999999999999999988889999999999999984 5999999999999999999


Q ss_pred             EEEccCCchhhhhhHHHHHH---HHHHHHHHHHH
Q 028367          166 GGFFNKNSIYDTFCFLSAIW---IYNAIIVYILH  196 (210)
Q Consensus       166 ~a~G~gs~~a~~~~~~~~~~---~~~~~~~~~~~  196 (210)
                      +|+|+|+++++++  ++..|   ..+..+..++.
T Consensus       160 ~aiG~gs~~a~~~--Le~~~~~~~~~ms~eea~~  191 (241)
T 1ryp_D          160 QTIGRNSKTVREF--LEKNYDRKEPPATVEECVK  191 (241)
T ss_dssp             EEESTTHHHHHHH--HHTTCCTTSCCCSHHHHHH
T ss_pred             EEECCCcHHHHHH--HHHhhhcccCCCCHHHHHH
Confidence            9999999999998  46667   56655555543

>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=2e-50  Score=339.46  Aligned_cols=185  Identities=29%  Similarity=0.560  Sum_probs=169.3

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      ++||+++|+|||||||+|||||.|++++|+ |+|||+++||||||+|+|.+.+++.+++.+||++|++++++++||+.+|
T Consensus         6 ~~yd~~~t~fsp~Grl~QvEya~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD   84 (241)
T 1iru_E            6 SEYDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIAD   84 (241)
T ss_dssp             --CCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHH
T ss_pred             CCCCCCCceECCCCccHHHHHHHHHHHcCC-cEEEEEcCCEEEEEEecccCCcCcCccccceEEEEcCCEEEEEeeChHH
Confidence            589999999999999999999999999988 9999999999999999999966666889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcC-----cccceEEEEEEEEeCCCCcEEEEECCCCcee
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAY-----MRPLGVVAMVLSIDEECGPRLFKCDPAGHFF  161 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~-----~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~  161 (210)
                      ++.+.+.++.+++.|+++++++++++.+++++++++|+|+++.+     .|||++++||+|||++ ||+||.+||+|++.
T Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~-gp~Ly~idp~G~~~  163 (241)
T 1iru_E           85 AKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK-GPQLFHMDPSGTFV  163 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETT-EEEEEEECTTSCEE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCC-CCEEEEECCCCcEE
Confidence            99999999999999999999999999999999999999988777     8999999999999954 89999999999999


Q ss_pred             eeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          162 GHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       162 ~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      ++++.|+|+|++++++++  +..|..+..+..|+
T Consensus       164 ~~~~~aiGsgs~~a~~~L--e~~~~~~ms~eea~  195 (241)
T 1iru_E          164 QCDARAIGSASEGAQSSL--QELYHKSMTLKEAI  195 (241)
T ss_dssp             EBSEEEESTTHHHHHHHH--HHHCCTTCCHHHHH
T ss_pred             ecceEEECCCcHHHHHHH--HHHhccCCCHHHHH
Confidence            999999999999999995  55555554444443

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E

Probab=100.00  E-value=1.4e-49  Score=338.69  Aligned_cols=185  Identities=28%  Similarity=0.493  Sum_probs=173.0

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      ++||+++|+|||||||+|||||.|++++|+ |+|||+++||||||+|+|.+.++.  ++.+||++|+++|+|++||+.+|
T Consensus         4 ~~yd~~~t~fsP~Grl~QvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r~~~gl~--~~~~KI~~i~~~i~~~~aG~~aD   80 (263)
T 1iru_F            4 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSELA--AHQKKILHVDNHIGISIAGLTAD   80 (263)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSC-CEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHH
T ss_pred             CCCCCCCccCCCCCeehHHHHHHHHHHcCC-cEEEEEeCCEEEEEEecccccccc--cchhcEEEEcCCEEEEEeCCHHH
Confidence            589999999999999999999999999988 999999999999999999997765  47799999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.|.+.++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+|||++ ||+||.+||+|++.+++++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~~-gp~Ly~idp~G~~~~~~~~  159 (263)
T 1iru_F           81 ARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDM-GPHIFQTCPSANYFDCRAM  159 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETT-EEEEEEECSSSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcCC-CCEEEEECCCCCEEEeeEE
Confidence            999999999999999999999999999999999999999999999999999999999985 8999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHH--HHHHHHHHHh
Q 028367          167 GFFNKNSIYDTFCFLSAIWIY--NAIIVYILHW  197 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~--~~~~~~~~~~  197 (210)
                      |+|+|+++++++  ++..|..  +..+..++.-
T Consensus       160 aiGsgs~~a~~~--Le~~~~~~~~ms~eea~~l  190 (263)
T 1iru_F          160 SIGARSQSARTY--LERHMSEFMECNLNELVKH  190 (263)
T ss_dssp             EESTTHHHHHHH--HHHHHHHHTTCCHHHHHHH
T ss_pred             EcCcccHHHHHH--HHHHhcccCCCCHHHHHHH
Confidence            999999999998  4666766  6666666553

>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D* 1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D* 3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 3mg0_D* 3mg4_D* 3okj_D* 3shj_D* 3tdd_D* 2z5c_C ...

Probab=100.00  E-value=1.8e-49  Score=333.61  Aligned_cols=183  Identities=29%  Similarity=0.502  Sum_probs=168.7

Q ss_pred             CcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHHH
Q 028367           10 DRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADART   89 (210)
Q Consensus        10 d~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~   89 (210)
                      |+++|+|||||||+|||||.+++++|+ |+|||+++||||||+|+|.+.+++.+++.+||++|++++++++||+.+|++.
T Consensus         1 d~~~t~fsp~Grl~QvEyA~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   79 (242)
T 1ryp_E            1 DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARS   79 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHH
T ss_pred             CCCCceECCCCcChHHHhHHHHHHcCC-CEEEEEECCEEEEEEeecCCCcCccCccCCceEEEcCCEEEEEeecHHHHHH
Confidence            788999999999999999999999988 9999999999999999999966666888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcC------cccceEEEEEEEEeCCCCcEEEEECCCCceeee
Q 028367           90 LVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAY------MRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH  163 (210)
Q Consensus        90 l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~------~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~  163 (210)
                      +.++++.+++.|++++|++++++.+++.+++++|.|+++.+      .|||++++||+|||+++||+||.+||+|++.++
T Consensus        80 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~  159 (242)
T 1ryp_E           80 MIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRY  159 (242)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEecc
Confidence            99999999999999999999999999999999999998877      899999999999995558999999999999999


Q ss_pred             ceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          164 KVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       164 ~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      ++.|+|+|++++++++  +..|..+..+..++
T Consensus       160 ~~~aiGsgs~~a~~~L--e~~~~~~ms~eea~  189 (242)
T 1ryp_E          160 NAKAIGSGSEGAQAEL--LNEWHSSLTLKEAE  189 (242)
T ss_dssp             SEEEESTTHHHHHHHH--HHHCCTTCCHHHHH
T ss_pred             CEEEECCCCHHHHHHH--HHhhccCCCHHHHH
Confidence            9999999999999995  55555554444443

>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=9.6e-40  Score=277.43  Aligned_cols=172  Identities=16%  Similarity=0.149  Sum_probs=151.9

Q ss_pred             cceeCCCCccc-hhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHHHHH
Q 028367           13 ITIFSPEGRLF-QVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLV   91 (210)
Q Consensus        13 ~t~Fsp~Grl~-Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~   91 (210)
                      ...|||||++. |+|||.|++++|+ |+|||+++||||||+|+|       +++.+||++|+++|+|+++|+.+|++.|.
T Consensus         4 p~~~sPe~~~~~qvEYA~~av~~Gt-t~vgi~~~dgVVlaaD~r-------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~   75 (259)
T 1q5q_A            4 PYYASAEQIMRDRSELARKGIARGR-SVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGKYNEFENLR   75 (259)
T ss_dssp             -----CHHHHHHHHHHHHHHHHTSC-CEEEEECSSEEEEEECCS-------CSSSCSEEEEETTEEEEEEECHHHHHHHH
T ss_pred             CcccCHHHHHHHHHHHHHHHHhcCC-cEEEEEeCCEEEEEEecC-------CCCcCcEEEeCCCEEEEEccCHHHHHHHH
Confidence            34689999996 9999999999998 999999999999999999       36789999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhC-CCCCHHHHHHHHHH-HHHHhhhhcCcccceEEEEEEEEe--C-CCCcEEEEECCCCcee-eece
Q 028367           92 QQARYEAAEFRFKYG-YEMPVDVLAKWIAD-KSQVYTQHAYMRPLGVVAMVLSID--E-ECGPRLFKCDPAGHFF-GHKV  165 (210)
Q Consensus        92 ~~~r~~~~~~~~~~g-~~i~~~~la~~ls~-~~~~~t~~~~~rP~gv~~ivaG~D--~-~~gp~Ly~vD~~Gs~~-~~~~  165 (210)
                      ++++.+++.|+++++ ++++++.+++++++ +.|.|+  .+.|||+|++||+|||  + ++||+||++||+|++. ++++
T Consensus        76 ~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt--~~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~~~  153 (259)
T 1q5q_A           76 RAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFT--EQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHF  153 (259)
T ss_dssp             HHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHH--HSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSE
T ss_pred             HHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhc--cCCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCCCE
Confidence            999999999999998 49999999999999 667786  4789999999999999  3 4499999999999999 7899


Q ss_pred             EEEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          166 GGFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       166 ~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      +|+|+|++.|+++  ++..|..+..+..++.
T Consensus       154 ~aiG~gs~~a~~~--Le~~~~~~ms~eea~~  182 (259)
T 1q5q_A          154 VVMGGTTEPIATA--MRESYRADLDLEAAVG  182 (259)
T ss_dssp             EEESSSHHHHHHH--HHHHCCTTCCHHHHHH
T ss_pred             EEECCChHHHHHH--HHhhccCCCCHHHHHH
Confidence            9999999999998  4666766666665554

>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=7.1e-38  Score=264.45  Aligned_cols=160  Identities=16%  Similarity=0.163  Sum_probs=144.3

Q ss_pred             hhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHH
Q 028367           24 QVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRF  103 (210)
Q Consensus        24 Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~  103 (210)
                      ++|||.|++++|+ |+|||+++||||||+|+|       +++.+||++|++||+|+++|+.+|++.|.+.++.+++.|++
T Consensus        16 r~EYA~~av~~Gt-T~vgi~~kdgVVlaadkr-------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~l~~~   87 (248)
T 3mi0_A           16 RSELARKGIARAK-SVVALAYAGGVLFVAENP-------SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQFADTRGY   87 (248)
T ss_dssp             HHHHHHHHHHTSC-CEEEEEETTEEEEEEECC-------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHhCCC-cEEEEEeCCEEEEEEeCC-------CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHHHHHHHHH
Confidence            5899999999988 999999999999999999       35889999999999999999999999999999999999999


Q ss_pred             HhC-CCCCHHHHHHHHH-HHHHHhhhhcCcccceEEEEEEEEeC---CCCcEEEEECCCCceee-eceEEEccCCchhhh
Q 028367          104 KYG-YEMPVDVLAKWIA-DKSQVYTQHAYMRPLGVVAMVLSIDE---ECGPRLFKCDPAGHFFG-HKVGGFFNKNSIYDT  177 (210)
Q Consensus       104 ~~g-~~i~~~~la~~ls-~~~~~~t~~~~~rP~gv~~ivaG~D~---~~gp~Ly~vD~~Gs~~~-~~~~a~G~gs~~a~~  177 (210)
                      +++ ++++++.|+++++ .+.|.|++  ++|||+|++||+|||+   ++||+||++||+|++.+ ++++|+|+|++.|++
T Consensus        88 ~~~~~~i~v~~la~~l~~~l~q~yt~--~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~  165 (248)
T 3mi0_A           88 AYDRRDVTGRQLANVYAQTLGTIFTE--QAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIAN  165 (248)
T ss_dssp             HSCGGGCCHHHHHHHHHHHHHHHHHH--SSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEEEESSCHHHHHH
T ss_pred             hcCCCCCCHHHHHHHHHHHHHHHhcc--CCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEEEECccHHHHHH
Confidence            999 9999999999999 77888987  7899999999999998   35999999999999995 999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHH
Q 028367          178 FCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~  195 (210)
                      ++  +..|..+..+..++
T Consensus       166 ~L--e~~y~~~mt~eeai  181 (248)
T 3mi0_A          166 AL--KESYAENASLTDAL  181 (248)
T ss_dssp             HH--HHHCCTTCCHHHHH
T ss_pred             HH--HhhcCCCCCHHHHH
Confidence            95  44444444444433

>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=8.8e-36  Score=246.65  Aligned_cols=160  Identities=21%  Similarity=0.324  Sum_probs=140.4

Q ss_pred             HHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCC
Q 028367           30 KAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYE  108 (210)
Q Consensus        30 kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~  108 (210)
                      +++++|+ |+|||+++||||||+|+|.+ ++++.+++.+||++|++++++++||+.+|++.+.+++|.+++.|+++++++
T Consensus         3 ~~~~~Gt-t~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (217)
T 1yar_H            3 QTLETGT-TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVN   81 (217)
T ss_dssp             ------C-CEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             CCCCCCc-cEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            4677887 99999999999999999999 689988999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------
Q 028367          109 MPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------  179 (210)
Q Consensus       109 i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------  179 (210)
                      ++++.+++++++.+|.+    +.|||++++||+||| + ||+||.+||+|++.+++++|+|+|+++|++++         
T Consensus        82 ~~v~~la~~l~~~~~~~----r~rp~~v~~lvaG~D-~-gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s  155 (217)
T 1yar_H           82 MPIEAVATLLSNMLNQV----KYMPYMVQLLVGGID-T-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMT  155 (217)
T ss_dssp             CCHHHHHHHHHHHHHHT----TTSCCCEEEEEEEES-S-SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             CCHHHHHHHHHHHHHhc----CCCCceEEEEEEEEC-C-CCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCCC
Confidence            99999999999999764    488999999999999 5 89999999999999999999999999999996         


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 028367          180 FLSAIWIYNAIIVYILH  196 (210)
Q Consensus       180 ~~~~~~~~~~~~~~~~~  196 (210)
                      +++|..+.-+++..++.
T Consensus       156 ~eea~~la~~al~~~~~  172 (217)
T 1yar_H          156 VDEGVDLVIRAISAAKQ  172 (217)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            44455555555554444

>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=1.9e-36  Score=250.66  Aligned_cols=160  Identities=13%  Similarity=0.076  Sum_probs=145.4

Q ss_pred             HHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHH-HhCC
Q 028367           30 KAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRF-KYGY  107 (210)
Q Consensus        30 kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~-~~g~  107 (210)
                      +++++|+ |+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|+.+|++.|.+.+|.+++.|++ ++++
T Consensus         3 ~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (219)
T 1iru_N            3 NPMVTGT-SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (219)
T ss_dssp             SCCSEEC-CCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCccCCc-eEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            5788887 99999999999999999999 7888889999999999999999999999999999999999999998 9999


Q ss_pred             CCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHH
Q 028367          108 EMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIY  187 (210)
Q Consensus       108 ~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~  187 (210)
                      +++++.+++++++.++  +++.+.|||++++||+|||++ ||+||.+||+|++.++++.|+|+|+++|+++  ++..|..
T Consensus        82 ~~~v~~la~~l~~~ly--~~r~~~~P~~v~~lvaG~D~~-gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~--Le~~~~~  156 (219)
T 1iru_N           82 SYSPRAIHSWLTRAMY--SRRSKMNPLWNTMVIGGYADG-ESFLGYVDMLGVAYEAPSLATGYGAYLAQPL--LREVLEK  156 (219)
T ss_dssp             CCCHHHHHHHHHHHHH--HHHHTTCCCCEEEEEEEEETT-EEEEEEECSSCCEEECSEEECTTHHHHTHHH--HHHHHTS
T ss_pred             CCCHHHHHHHHHHHHH--HhcccCCCceEEEEEEEEECC-CCEEEEECCCCCeEECCeEEECccHHHHHHH--HHhhcCC
Confidence            9999999999999995  456678999999999999986 9999999999999999999999999999998  4556655


Q ss_pred             --HHHHHHHH
Q 028367          188 --NAIIVYIL  195 (210)
Q Consensus       188 --~~~~~~~~  195 (210)
                        +..+..++
T Consensus       157 ~~~mt~eea~  166 (219)
T 1iru_N          157 QPVLSQTEAR  166 (219)
T ss_dssp             CSCCCHHHHH
T ss_pred             CCCCCHHHHH
Confidence              44444443

>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=1.4e-35  Score=256.03  Aligned_cols=168  Identities=15%  Similarity=0.105  Sum_probs=152.2

Q ss_pred             HHHHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhC
Q 028367           28 AFKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYG  106 (210)
Q Consensus        28 a~kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g  106 (210)
                      |.||+++|+ |+|||+++||||||+|+|.+ ++++.+++.+||++|+++++|+++|+.+|++.|.++++.++++|+++++
T Consensus        58 a~~Av~~Gt-TiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g  136 (294)
T 1q5r_H           58 SGDLAPHGT-TIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEG  136 (294)
T ss_dssp             --CCSCBCC-CEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHhcCc-eEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhC
Confidence            889999987 99999999999999999999 6899899999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCC-----cEEEEECCCCceeee--ceEEEccCCchhhhhh
Q 028367          107 YEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECG-----PRLFKCDPAGHFFGH--KVGGFFNKNSIYDTFC  179 (210)
Q Consensus       107 ~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~g-----p~Ly~vD~~Gs~~~~--~~~a~G~gs~~a~~~~  179 (210)
                      ++++++.+++.+++++|.++++. .|||++++||+|||++++     |+||++||+|++.++  ++.|+|+|+++|++++
T Consensus       137 ~~isv~~la~~la~~l~~~~~~~-~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~L  215 (294)
T 1q5r_H          137 VPLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSAL  215 (294)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHH-TTTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHhhh-cCCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHH
Confidence            99999999999999999988754 899999999999998756     999999999999999  8999999999999997


Q ss_pred             ---------HHHHHHHHHHHHHHHHHh
Q 028367          180 ---------FLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       180 ---------~~~~~~~~~~~~~~~~~~  197 (210)
                               +++|..+.-+++..++.+
T Consensus       216 e~~y~~~ms~eEAi~la~~aL~~a~~r  242 (294)
T 1q5r_H          216 KKIYSPDSDEETALRAAIESLYDAADD  242 (294)
T ss_dssp             HHHCCSSCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHHHhh
Confidence                     455666666666655554

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

Probab=100.00  E-value=2.9e-35  Score=240.62  Aligned_cols=147  Identities=18%  Similarity=0.267  Sum_probs=135.9

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|+.+|++.+.+++|.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T 1j2q_H            1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEECCCcCcCCEEeeccccCEEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            599999999999999999999 6888889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeec-eEEEccCCchhhhhhHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK-VGGFFNKNSIYDTFCFLSAIWIYNAI  190 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~-~~a~G~gs~~a~~~~~~~~~~~~~~~  190 (210)
                      +++++++|.+    +.|||++++||+|||++ ||+||.+||+|++.+++ ++|+|+|+++|++++  +..|..+..
T Consensus        81 ~~l~~~~~~~----r~rp~~~~~lvaG~D~~-gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~L--e~~~~~~~s  149 (202)
T 1j2q_H           81 TLTSNLLNSY----RYFPYLVQLLIGGIDSE-GKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVL--EDRFTPEIG  149 (202)
T ss_dssp             HHHHHHHHHT----TTSCCCEEEEEEEEETT-EEEEEEECTTCCEEEESSEEEESTTHHHHHHHH--HHHCCTTCC
T ss_pred             HHHHHHHHhh----CCCCceEEEEEEEEeCC-CCEEEEECCCCCeeecCCEEEEcCCHHHHHHHH--HhhcCCCcC
Confidence            9999999764    48899999999999985 89999999999999999 999999999999995  444443333

>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB: 3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H* 3h6i_C 3h6f_C 3hf9_H 3mfe_H

Probab=100.00  E-value=5.8e-36  Score=258.06  Aligned_cols=184  Identities=11%  Similarity=0.057  Sum_probs=135.6

Q ss_pred             CCCCcccceeCCCCcc-----ch--hhhHHHHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEE
Q 028367            7 GGYDRHITIFSPEGRL-----FQ--VEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGL   78 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl-----~Q--veya~kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~   78 (210)
                      ..|+.-+....||.-.     ++  +|||.+ +++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|
T Consensus        23 ~~f~~~~~~~~~~~l~~~~~~~~~~~~ya~~-v~~Gt-TiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~  100 (291)
T 2jay_A           23 SSFTDFLRRQAPELLPASISGGAPLAGGDAQ-LPHGT-TIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTAT  100 (291)
T ss_dssp             ------------------------------------C-CEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEE
T ss_pred             ccHHHHhhhcChhhccccccccCcCcccccc-ccCCc-EEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEE
Confidence            3566566677776443     22  689999 99987 99999999999999999999 567878899999999999999


Q ss_pred             EEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCC-----cEEEE
Q 028367           79 LATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECG-----PRLFK  153 (210)
Q Consensus        79 ~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~g-----p~Ly~  153 (210)
                      +++|+.+|++.+.+.++.+++.|++.++++++++.+++.+++++|.+++ ...|||+|++||+|||++++     |+||+
T Consensus       101 ~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~-~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~  179 (291)
T 2jay_A          101 GIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLA-AAMQGLLALPLLAGYDIHASDPQSAGRIVS  179 (291)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHH-HHHHTCCCEEEEEEECTTCSCSTTCEEEEE
T ss_pred             EEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhh-hhccccceeEEEEEEeCCCCcCCCCCEEEE
Confidence            9999999999999999999999999999999999999999999998865 45789999999999998755     89999


Q ss_pred             ECCCCcee--eeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          154 CDPAGHFF--GHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       154 vD~~Gs~~--~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +||+|++.  ++++.|+|+|+++|++++  +..|..+..+..|+
T Consensus       180 iDp~G~~~e~~~~~~aiGsgs~~a~~~L--e~~~~~~ms~eEAi  221 (291)
T 2jay_A          180 FDAAGGWNIEEEGYQAVGSGSLFAKSSM--KKLYSQVTDGDSGL  221 (291)
T ss_dssp             ECTTSCEEECSSSEEEESTTHHHHHHHH--HHHGGGCCSHHHHH
T ss_pred             ECCCCcEEecCCCEEEEecCHHHHHHHH--HHhcCCCCCHHHHH
Confidence            99999999  889999999999999995  55555555554443

>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=1.9e-35  Score=242.32  Aligned_cols=162  Identities=12%  Similarity=0.158  Sum_probs=145.3

Q ss_pred             HHHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCC
Q 028367           29 FKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGY  107 (210)
Q Consensus        29 ~kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~  107 (210)
                      .|++++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||+.+|++.+.+++|.+++.|++++++
T Consensus         3 ~~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   81 (205)
T 1ryp_H            3 KGEVSLGA-SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT   81 (205)
T ss_dssp             TTCCBCCC-CEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCCcCCc-eEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            46788987 99999999999999999999 55888889999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh--------
Q 028367          108 EMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC--------  179 (210)
Q Consensus       108 ~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~--------  179 (210)
                       ++++.+++++++++|++++    + |++++||+|||+++||+||.+||+|++.++++.|+|+|+++|++++        
T Consensus        82 -~~v~~la~~l~~~~~~~~~----~-~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~  155 (205)
T 1ryp_H           82 -PSTETAASVFKELCYENKD----N-LTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENM  155 (205)
T ss_dssp             -CCHHHHHHHHHHHHHHTTT----T-CCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTC
T ss_pred             -CCHHHHHHHHHHHHHhhhc----C-ceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCC
Confidence             9999999999999998854    2 9999999999985589999999999999999999999999999996        


Q ss_pred             -HHHHHHHHHHHHHHHHHh
Q 028367          180 -FLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       180 -~~~~~~~~~~~~~~~~~~  197 (210)
                       +++|..+.-.++..++.+
T Consensus       156 s~eea~~l~~~al~~a~~~  174 (205)
T 1ryp_H          156 SKEETVDFIKHSLSQAIKW  174 (205)
T ss_dssp             CHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHh
Confidence             445555555555555544

>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=2.3e-36  Score=252.54  Aligned_cols=153  Identities=12%  Similarity=0.127  Sum_probs=141.9

Q ss_pred             HHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHH-----
Q 028367           30 KAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRF-----  103 (210)
Q Consensus        30 kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~-----  103 (210)
                      +++++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|+++|+.+|++.|.+++|.+++.|++     
T Consensus         3 ~av~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (233)
T 1ryp_N            3 QPIVTGT-SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCEEEC-CEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             ccccCCc-eEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchh
Confidence            5678888 99999999999999999999 7888888999999999999999999999999999999999999999     


Q ss_pred             HhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHH
Q 028367          104 KYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSA  183 (210)
Q Consensus       104 ~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~  183 (210)
                      +++++++++.+++++++.+  |+++.+.|||++++||+|||+++||+||.+||+|++.++++.|+|+|+++|++++  +.
T Consensus        82 ~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~L--e~  157 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLL--RK  157 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHH--TT
T ss_pred             hcCCCCCHHHHHHHHHHHH--HHhcCCCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHH--HH
Confidence            9999999999999999999  4556678999999999999986689999999999999999999999999999984  44


Q ss_pred             HHHH
Q 028367          184 IWIY  187 (210)
Q Consensus       184 ~~~~  187 (210)
                      .|..
T Consensus       158 ~~~~  161 (233)
T 1ryp_N          158 VVDR  161 (233)
T ss_dssp             TCSS
T ss_pred             hhcc
Confidence            4544

>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=1.6e-35  Score=243.94  Aligned_cols=143  Identities=15%  Similarity=0.250  Sum_probs=133.1

Q ss_pred             HhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 028367           32 VKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMP  110 (210)
Q Consensus        32 v~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~  110 (210)
                      +++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||+.+|++.|.+.++.+++.|+++++++++
T Consensus         6 v~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (213)
T 1iru_M            6 VFNGG-TILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMT   84 (213)
T ss_dssp             CCCCC-EEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             cCCCC-cEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            45787 99999999999999999999 45566778999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh
Q 028367          111 VDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       111 ~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~  179 (210)
                      ++.+++++++++  |+++  .|||++++||+|||++++|+||.+||+|++.+++++|+|+|+++|++++
T Consensus        85 v~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~L  149 (213)
T 1iru_M           85 TGAIAAMLSTIL--YSRR--FFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLL  149 (213)
T ss_dssp             HHHHHHHHHHHH--HHTT--TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHH
T ss_pred             HHHHHHHHHHHH--HhhC--CCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHH
Confidence            999999999999  5543  7999999999999977569999999999999999999999999999984

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

Probab=100.00  E-value=1.8e-35  Score=245.25  Aligned_cols=158  Identities=20%  Similarity=0.260  Sum_probs=143.2

Q ss_pred             cCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 028367           35 AGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDV  113 (210)
Q Consensus        35 gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~  113 (210)
                      |+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|+++|+.+|++.+.+.+|.+++.|+++++++++++.
T Consensus         1 Gt-t~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~   79 (219)
T 3h4p_a            1 MT-TTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLA   79 (219)
T ss_dssp             -C-CEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHH
T ss_pred             Cc-cEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHH
Confidence            44 99999999999999999998 67888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeec-eEEEccCCchhhhhh---------HHHH
Q 028367          114 LAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK-VGGFFNKNSIYDTFC---------FLSA  183 (210)
Q Consensus       114 la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~-~~a~G~gs~~a~~~~---------~~~~  183 (210)
                      +++++++++|.+    +.|||++++||+|||+++||+||++||+|++.+++ +.|+|+|+++|++++         +++|
T Consensus        80 la~~l~~~~~~~----~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea  155 (219)
T 3h4p_a           80 CATLLSNILHSS----RMFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEG  155 (219)
T ss_dssp             HHHHHHHHHHHT----TTTTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHH
T ss_pred             HHHHHHHHHHHh----cCCCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHH
Confidence            999999999876    47899999999999985589999999999999999 999999999999996         4556


Q ss_pred             HHHHHHHHHHHHHh
Q 028367          184 IWIYNAIIVYILHW  197 (210)
Q Consensus       184 ~~~~~~~~~~~~~~  197 (210)
                      ..+.-.++..++.+
T Consensus       156 ~~la~~al~~~~~r  169 (219)
T 3h4p_a          156 IKLALNALKSAMER  169 (219)
T ss_dssp             HHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHhh
Confidence            66666666655554

>3nzj_K Proteasome component PRE2; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_K* 3nzx_K* 4b4t_5

Probab=100.00  E-value=2.9e-35  Score=253.18  Aligned_cols=166  Identities=13%  Similarity=0.135  Sum_probs=145.8

Q ss_pred             hHHHHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHh
Q 028367           27 YAFKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKY  105 (210)
Q Consensus        27 ya~kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~  105 (210)
                      ++.+++++|+ |+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|+.+|++.+.+.++.+++.|++++
T Consensus        67 ~~~~~v~~Gt-T~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~l~~~lr~~~~~y~~~~  145 (287)
T 3nzj_K           67 DCKIKIAHGT-TTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELRE  145 (287)
T ss_dssp             ---------C-CEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhheccCc-eEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            6788999998 99999999999999999999 788889999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh------
Q 028367          106 GYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC------  179 (210)
Q Consensus       106 g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~------  179 (210)
                      +++++++.+++++++++|.+++    +||++++||+|||+++||+||.+||+|++.++++.|+|+|+++|++++      
T Consensus       146 ~~~isv~~la~~ls~~l~~~r~----~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~~~~~AiGsgs~~a~~~Le~~y~~  221 (287)
T 3nzj_K          146 KERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW  221 (287)
T ss_dssp             SSCCCHHHHHHHHHHHHHHTTT----SCCCEEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHTSCCT
T ss_pred             CCCCCHHHHHHHHHHHHHhhcC----CCceEEEEEEEEcCCCCCEEEEECCCceEEEcCeEEEecchHHHHHHHHHhhcC
Confidence            9999999999999999988753    599999999999966689999999999999999999999999999997      


Q ss_pred             ---HHHHHHHHHHHHHHHHHh
Q 028367          180 ---FLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       180 ---~~~~~~~~~~~~~~~~~~  197 (210)
                         +++|..+.-.++..++.+
T Consensus       222 dms~eEAi~la~~aL~~a~~r  242 (287)
T 3nzj_K          222 DLSVEDALYLGKRSILAAAHR  242 (287)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhh
Confidence               566777777777777665

>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=5.4e-35  Score=238.19  Aligned_cols=158  Identities=13%  Similarity=0.138  Sum_probs=140.1

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|+.+|++.+.+++|.+++.|+++++++++++.++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   81 (198)
T 1ryp_K            2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVS   81 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             ceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            599999999999999999998 5566578999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeC-CCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDE-ECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FLSAIW  185 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~-~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~~~~~  185 (210)
                      +++++.+|.+++  ..+||++++||+|||+ ++||+||.+||+|++.++++.|+|+|+++|++++         +++|..
T Consensus        82 ~~l~~~l~~~~~--~r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~  159 (198)
T 1ryp_K           82 SFVRQELAKSIR--SRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLD  159 (198)
T ss_dssp             HHHHHHHHHHTT--SSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHHhcc--cCCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHH
Confidence            999999988763  2359999999999997 4589999999999999999999999999999996         444555


Q ss_pred             HHHHHHHHHHH
Q 028367          186 IYNAIIVYILH  196 (210)
Q Consensus       186 ~~~~~~~~~~~  196 (210)
                      +.-+++..++.
T Consensus       160 l~~~al~~~~~  170 (198)
T 1ryp_K          160 LLKLCVQELEK  170 (198)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555544

>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=1.1e-34  Score=237.76  Aligned_cols=156  Identities=12%  Similarity=0.120  Sum_probs=140.8

Q ss_pred             ceEEEEEcCCEEEEEEecCCCc-ceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVPD-KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~~-~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+. .++.+++.+||++|++++++++||+.+|++.+.+++|.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (205)
T 1iru_H            1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (205)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEecCCcCceEEcCCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            5899999999999999999994 588888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FLSAIWI  186 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~~~~~~  186 (210)
                      +++++++|.+++     ||++++||+|||+++||+||.+||+|++.+++++|+|+|+++|++++         +++|..+
T Consensus        81 ~~l~~~~~~~~~-----p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l  155 (205)
T 1iru_H           81 SLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQF  155 (205)
T ss_dssp             HHHHHHHHHTTT-----TCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhcCc-----CccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            999999998853     99999999999985589999999999999999999999999999996         4445555


Q ss_pred             HHHHHHHHHHh
Q 028367          187 YNAIIVYILHW  197 (210)
Q Consensus       187 ~~~~~~~~~~~  197 (210)
                      .-+++..++.+
T Consensus       156 ~~~al~~~~~~  166 (205)
T 1iru_H          156 TANALALAMER  166 (205)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            55555555443

>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=9.6e-35  Score=243.20  Aligned_cols=160  Identities=16%  Similarity=0.127  Sum_probs=145.7

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|+++++|++||+.+|++.|.++++.+++.|+++++++++++.++
T Consensus         1 tT~vgi~~~dgVVlaaD~r~~~g~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (235)
T 1q5q_H            1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (235)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCCcCCEEecCCcCcEEEeCCcEEEEcCCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHH
Confidence            599999999999999999999 6899899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCC-----cEEEEECCCCceeee--ceEEEccCCchhhhhh---------
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECG-----PRLFKCDPAGHFFGH--KVGGFFNKNSIYDTFC---------  179 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~g-----p~Ly~vD~~Gs~~~~--~~~a~G~gs~~a~~~~---------  179 (210)
                      +.+++++|.++++. .|||++++||+|||++++     |+||.+||+|++.++  +++|+|+|+++|++++         
T Consensus        81 ~~l~~~~~~~~~~~-~rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms  159 (235)
T 1q5q_H           81 NRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSD  159 (235)
T ss_dssp             HHHHHHHHTTHHHH-TTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHHHHhh-hcccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCC
Confidence            99999999987764 899999999999998757     999999999999999  9999999999999996         


Q ss_pred             HHHHHHHHHHHHHHHHHh
Q 028367          180 FLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~  197 (210)
                      +++|..+.-+++..++.+
T Consensus       160 ~eeA~~la~~al~~a~~~  177 (235)
T 1q5q_H          160 EETALRAAIESLYDAADD  177 (235)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            445555555555555553

>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=1.3e-34  Score=246.16  Aligned_cols=162  Identities=15%  Similarity=0.110  Sum_probs=139.1

Q ss_pred             HHHHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhC
Q 028367           28 AFKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYG  106 (210)
Q Consensus        28 a~kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g  106 (210)
                      ..|++++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|++||+.+|++.+.+.++.+++.|+++++
T Consensus        22 ~~kav~~Gt-Tivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~  100 (261)
T 3nzj_H           22 QPKATSTGT-TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTS  100 (261)
T ss_dssp             --------C-CEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCcccccCc-eEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhC
Confidence            358899998 99999999999999999999 6788889999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh-------
Q 028367          107 YEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC-------  179 (210)
Q Consensus       107 ~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~-------  179 (210)
                      ++++++.+++++++.+++|     .|||++++||+|||++ ||+||++||+|++.+++++|+|+|+++|++++       
T Consensus       101 ~~~~v~~~a~~l~~~l~~~-----~~~~gv~llvaG~D~~-Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~  174 (261)
T 3nzj_H          101 REPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDPT-GSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQD  174 (261)
T ss_dssp             SCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETT-EEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSS
T ss_pred             CCCCHHHHHHHHHHHHHHh-----cCcccEEEEEEEEeCC-CCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhccC
Confidence            9999999999999988654     4799999999999986 89999999999999999999999999999996       


Q ss_pred             --HHHHHHHHHHHHHHHHH
Q 028367          180 --FLSAIWIYNAIIVYILH  196 (210)
Q Consensus       180 --~~~~~~~~~~~~~~~~~  196 (210)
                        +++|..+.-.++..++.
T Consensus       175 ms~eEA~~la~~al~~a~~  193 (261)
T 3nzj_H          175 LTKEEAIKLASDAIQAGIW  193 (261)
T ss_dssp             CCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHh
Confidence              34444444444444443

>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L 1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K* 2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K* 3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ...

Probab=100.00  E-value=1e-34  Score=239.10  Aligned_cols=157  Identities=13%  Similarity=0.157  Sum_probs=141.9

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|++++++++||+.+|++.+.+++|.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (212)
T 1ryp_L            1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCCeEecCcccceeeeCCcEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            599999999999999999999 6899889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FLSAIWI  186 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~~~~~~  186 (210)
                      +++++++|+|++    .||++++||+|||+++||+||.+||+|++.++++.|+|+|+++|++++         +++|..+
T Consensus        81 ~~l~~~~~~~~~----~p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l  156 (212)
T 1ryp_L           81 KILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  156 (212)
T ss_dssp             HHHHHHHHHTTT----SCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhCC----CCceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHH
Confidence            999999998864    499999999999965589999999999999999999999999999996         3445555


Q ss_pred             HHHHHHHHHHh
Q 028367          187 YNAIIVYILHW  197 (210)
Q Consensus       187 ~~~~~~~~~~~  197 (210)
                      .-.++..++.+
T Consensus       157 a~~al~~~~~r  167 (212)
T 1ryp_L          157 GKRSILAAAHR  167 (212)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            55555555443

>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=7.2e-36  Score=254.41  Aligned_cols=160  Identities=11%  Similarity=0.108  Sum_probs=143.8

Q ss_pred             chhhhHHHHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHH
Q 028367           23 FQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEF  101 (210)
Q Consensus        23 ~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~  101 (210)
                      ...+.+.+++++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|+++|+.+|++.|.+.+|.+++.|
T Consensus        29 ~~~~~~~~av~~Gt-T~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~  107 (266)
T 1g0u_M           29 SPMVNTQQPIVTGT-SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTEN  107 (266)
T ss_dssp             -----CCCCCEEEC-CEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhccCcccCc-eEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHh
Confidence            34567788999988 99999999999999999998 78888889999999999999999999999999999999999999


Q ss_pred             HH-----HhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhh
Q 028367          102 RF-----KYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYD  176 (210)
Q Consensus       102 ~~-----~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~  176 (210)
                      ++     +++++++++.+++++++++  |+++.+.|||++++||+|||+++||+||.+||+|++.+++++|+|+|+++|+
T Consensus       108 ~~~~~~~~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~  185 (266)
T 1g0u_M          108 AYDNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMAN  185 (266)
T ss_dssp             HTTCTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHH
T ss_pred             hhccchhhcCCCCCHHHHHHHHHHHH--HHhccCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHH
Confidence            98     9999999999999999999  4556678999999999999986689999999999999999999999999999


Q ss_pred             hhhHHHHHHHH
Q 028367          177 TFCFLSAIWIY  187 (210)
Q Consensus       177 ~~~~~~~~~~~  187 (210)
                      +++  +..|..
T Consensus       186 ~~L--e~~~~~  194 (266)
T 1g0u_M          186 PLL--RKVVDR  194 (266)
T ss_dssp             HHH--TTTCSS
T ss_pred             HHH--HHhhcc
Confidence            984  444444

>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=2e-34  Score=235.94  Aligned_cols=156  Identities=15%  Similarity=0.145  Sum_probs=142.0

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|++++++++||+.+|++.+.+.++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (204)
T 1iru_L            1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (204)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCCEEEcCcccceEEcCCCEEEEccCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            599999999999999999999 6888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FLSAIWI  186 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~~~~~~  186 (210)
                      +++++.+|.++    .+||++++||+|||++ ||+||.+||+|++.++++.|+|+|+++|++++         +++|..+
T Consensus        81 ~~l~~~~~~~r----~~~~~v~~lvaG~D~~-gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l  155 (204)
T 1iru_L           81 KLLANMVYQYK----GMGLSMGTMICGWDKR-GPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDL  155 (204)
T ss_dssp             HHHHHHHHTTT----TSCCCBEEEEEEECSS-SEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHhC----CCCeeEEEEEEEEeCC-CCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHH
Confidence            99999998774    4699999999999985 99999999999999999999999999999996         4555556


Q ss_pred             HHHHHHHHHHh
Q 028367          187 YNAIIVYILHW  197 (210)
Q Consensus       187 ~~~~~~~~~~~  197 (210)
                      .-.++..++.+
T Consensus       156 ~~~al~~~~~r  166 (204)
T 1iru_L          156 ARRAIYQATYR  166 (204)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            55566555544

>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=8.6e-35  Score=241.47  Aligned_cols=143  Identities=17%  Similarity=0.264  Sum_probs=133.1

Q ss_pred             HhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhC-CCC
Q 028367           32 VKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYG-YEM  109 (210)
Q Consensus        32 v~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g-~~i  109 (210)
                      +++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|+.+|++.|.+.++.+++.|+++++ +++
T Consensus         6 v~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (222)
T 1ryp_M            6 GDNGG-TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKL   84 (222)
T ss_dssp             CCCCC-EEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             ccCCc-cEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            46787 99999999999999999999 5556788999999999999999999999999999999999999999999 999


Q ss_pred             CHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh
Q 028367          110 PVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       110 ~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~  179 (210)
                      +++.+++++++.++  ++  +.|||++++||+|||++++|+||.+||.|++.++++.|+|+|+++|++++
T Consensus        85 ~v~~la~~l~~~ly--~~--r~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~L  150 (222)
T 1ryp_M           85 SINSAARNIQHLLY--GK--RFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFL  150 (222)
T ss_dssp             CHHHHHHHHHHHHH--TT--TTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH--hc--CCCCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHH
Confidence            99999999999984  32  47899999999999987579999999999999999999999999999984

>1iru_K 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_J* 3une_J 3unf_J* 3unh_J

Probab=100.00  E-value=4.6e-34  Score=233.33  Aligned_cols=153  Identities=15%  Similarity=0.192  Sum_probs=135.2

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|+.+|++.+.++++.+++.|+++++++++++.++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   81 (201)
T 1iru_K            2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAA   81 (201)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            599999999999999999999 6888889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVY  193 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~  193 (210)
                      +++++.+... .+ +.|||++++||+|||+++||+||.+||+|++.++++.|+|+|+++|++++  +..|..+..+..
T Consensus        82 ~~~~~~l~~~-~~-~~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~L--e~~~~~~~s~ee  155 (201)
T 1iru_K           82 NFTRRNLADC-LR-SRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSIL--DRYYTPTISRER  155 (201)
T ss_dssp             HHHHHHHHHH-HT-SSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHH--HHHCCTTCCHHH
T ss_pred             HHHHHHHHHH-Hh-cCCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHH--HhcccCCCCHHH
Confidence            9998765322 12 33799999999999986689999999999999999999999999999985  444444433333

>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=7.2e-34  Score=238.05  Aligned_cols=154  Identities=16%  Similarity=0.190  Sum_probs=137.7

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|++||+.+|++.+.+.++.++++|++++|++++++.++
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVT   80 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEecCCEEEEecccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHH
Confidence            699999999999999999999 4556678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FLSAIWI  186 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~~~~~~  186 (210)
                      +++++++++|     .+||++++||+|||++ ||+||++||+|++.++++.|+|+|+++|++++         +++|..+
T Consensus        81 ~~l~~~l~~~-----~~p~~v~llvaG~D~~-gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~l  154 (234)
T 3unf_H           81 RILRQTLFRY-----QGHVGASLVVGGVDLN-GPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQEL  154 (234)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEETT-EEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHH
T ss_pred             HHHHHHHHhc-----CCCccEEEEEEEEeCC-CCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHH
Confidence            9999999765     4699999999999986 89999999999999999999999999999995         3444444


Q ss_pred             HHHHHHHHHH
Q 028367          187 YNAIIVYILH  196 (210)
Q Consensus       187 ~~~~~~~~~~  196 (210)
                      .-.++..++.
T Consensus       155 a~~al~~~~~  164 (234)
T 3unf_H          155 LVEAITAGIL  164 (234)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            4444444443

>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H* 1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H* 2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H* 3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ...

Probab=100.00  E-value=1.6e-33  Score=233.89  Aligned_cols=155  Identities=15%  Similarity=0.104  Sum_probs=140.5

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|+.+|++.+.+++|.+++.|+++++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEecCCEEEEecccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            599999999999999999999 5556678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FLSAIWI  186 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~~~~~~  186 (210)
                      +++++.+++|     .|||++++||+|+|++ ||+||.+||+|++.++++.|+|+|+++|++++         +++|..+
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~~-gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~l  154 (222)
T 1ryp_I           81 QMLKQHLFKY-----QGHIGAYLIVAGVDPT-GSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKL  154 (222)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEETT-EEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHH
T ss_pred             HHHHHHHhhc-----CCCCCeeEEEEEEeCC-CCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHH
Confidence            9999999765     4799999999999986 89999999999999999999999999999996         4556666


Q ss_pred             HHHHHHHHHHh
Q 028367          187 YNAIIVYILHW  197 (210)
Q Consensus       187 ~~~~~~~~~~~  197 (210)
                      .-.++..++.+
T Consensus       155 a~~al~~~~~~  165 (222)
T 1ryp_I          155 ASDAIQAGIWN  165 (222)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            66666665544

>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=9.3e-34  Score=232.16  Aligned_cols=159  Identities=15%  Similarity=0.225  Sum_probs=137.3

Q ss_pred             hccCceEEEEEcCCEEEEEEecCCCcc-eeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCH
Q 028367           33 KAAGVTSIGVRGKDSVCVVTQKKVPDK-LLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPV  111 (210)
Q Consensus        33 ~~gg~tvIgik~~dgVVlaad~~~~~~-li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~  111 (210)
                      .+|+ |+|||+++||||||+|+|.+.+ ++.+++.+||++|++++++++||+.+|++.+.+.++.+++.|++++++++++
T Consensus         6 ~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   84 (205)
T 1iru_J            6 YNGG-AVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   84 (205)
T ss_dssp             SSCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             CCCC-eEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCH
Confidence            5777 9999999999999999999944 4456689999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeC-CCCcEEEEECCCCceeee-ceEEEccCCchhhhhh---------H
Q 028367          112 DVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDE-ECGPRLFKCDPAGHFFGH-KVGGFFNKNSIYDTFC---------F  180 (210)
Q Consensus       112 ~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~-~~gp~Ly~vD~~Gs~~~~-~~~a~G~gs~~a~~~~---------~  180 (210)
                      +.+++++++.+  |+++  ..||++++||+|||+ ++||+||.+||+|++.++ .++|+|+|+++|++++         +
T Consensus        85 ~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~  160 (205)
T 1iru_J           85 YTLMSMVANLL--YEKR--FGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDP  160 (205)
T ss_dssp             HHHHHHHHHHH--HTTT--TSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHH--HHhc--CCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCH
Confidence            99999999999  6553  459999999999996 458999999999999766 5699999999999996         3


Q ss_pred             HHHHHHHHHHHHHHHH
Q 028367          181 LSAIWIYNAIIVYILH  196 (210)
Q Consensus       181 ~~~~~~~~~~~~~~~~  196 (210)
                      ++|..+.-.++..++.
T Consensus       161 eea~~l~~~al~~~~~  176 (205)
T 1iru_J          161 DHLFETISQAMLNAVD  176 (205)
T ss_dssp             HHHHHHHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4444444444444443

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ...

Probab=100.00  E-value=2.6e-33  Score=229.31  Aligned_cols=159  Identities=16%  Similarity=0.181  Sum_probs=137.3

Q ss_pred             HhccCceEEEEEcCCEEEEEEecCCCcc-eeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 028367           32 VKAAGVTSIGVRGKDSVCVVTQKKVPDK-LLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMP  110 (210)
Q Consensus        32 v~~gg~tvIgik~~dgVVlaad~~~~~~-li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~  110 (210)
                      +.+|+ |+|||+++||||||+|+|.+.+ ++.+++.+||++|+ +++++++|+.+|++.+.+.++.+++.|+++++++++
T Consensus         5 ~~~Gt-t~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   82 (204)
T 1ryp_J            5 SINGG-IVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIE   82 (204)
T ss_dssp             GSSCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             CCCCC-eEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCC
Confidence            45777 9999999999999999999944 44566899999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeC-CCCcEEEEECCCCceeee-ceEEEccCCchhhhhh---------
Q 028367          111 VDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDE-ECGPRLFKCDPAGHFFGH-KVGGFFNKNSIYDTFC---------  179 (210)
Q Consensus       111 ~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~-~~gp~Ly~vD~~Gs~~~~-~~~a~G~gs~~a~~~~---------  179 (210)
                      ++.+++++++.+  |+++  ..||++++||+|||+ ++||+||.+||+|++.++ .++|+|+|+++|++++         
T Consensus        83 v~~la~~l~~~~--y~~~--~~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s  158 (204)
T 1ryp_J           83 PETFTQLVSSSL--YERR--FGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLE  158 (204)
T ss_dssp             HHHHHHHHHHHH--HTTT--TSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCC
T ss_pred             HHHHHHHHHHHH--HHhc--CCCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCCCcC
Confidence            999999999999  6654  349999999999996 458999999999999766 6699999999999996         


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 028367          180 FLSAIWIYNAIIVYILH  196 (210)
Q Consensus       180 ~~~~~~~~~~~~~~~~~  196 (210)
                      +++|..+.-.++..++.
T Consensus       159 ~eea~~l~~~al~~~~~  175 (204)
T 1ryp_J          159 PEDLFETISQALLNAAD  175 (204)
T ss_dssp             HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34445554444444443

>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=9.2e-33  Score=231.17  Aligned_cols=155  Identities=14%  Similarity=0.084  Sum_probs=138.5

Q ss_pred             ceEEEEEcCCEEEEEEecCCCc-ceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVPD-KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~~-~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+. .++.+++.+||++|+++++|++||+.+|++.+.+.++.+++.|++++|++++++.++
T Consensus         1 TTivgi~~~dgVVlaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 1iru_I            1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (234)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCceeccCcccceEEecCCEEEEecCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            5999999999999999999994 455567899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh---------HHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC---------FLSAIWI  186 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~---------~~~~~~~  186 (210)
                      +++++.++.|     .+||++++||+|||++ ||+||.+||+|++.++++.|+|+|++.|++++         +++|..+
T Consensus        81 ~~l~~~l~~~-----~~~~~v~llvaG~D~~-gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~l  154 (234)
T 1iru_I           81 RMLKQMLFRY-----RGYIGAALVLGGVDVT-GPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNL  154 (234)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEECSS-CEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTH
T ss_pred             HHHHHHHHhc-----CCCCceeEEEEEEcCC-CCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHH
Confidence            9999999765     3699999999999986 89999999999999999999999999999986         4455555


Q ss_pred             HHHHHHHHHHh
Q 028367          187 YNAIIVYILHW  197 (210)
Q Consensus       187 ~~~~~~~~~~~  197 (210)
                      .-.++..++.+
T Consensus       155 a~~al~~a~~~  165 (234)
T 1iru_I          155 VSEAIAAGIFN  165 (234)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            55555555443

>3unf_N Proteasome subunit beta type-9; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_N

Probab=100.00  E-value=1.7e-32  Score=223.56  Aligned_cols=154  Identities=16%  Similarity=0.111  Sum_probs=136.4

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|+.+|++.+.+.+|.+++.|+++++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (199)
T 3unf_N            1 TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAA   80 (199)
T ss_dssp             CEEEEEECSSCEEEEECCCEEETTEEEESSCCCEEEEETTEEEEECSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             CeEEEEEeCCeEEEEECCcccCCceeEccccCceEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            699999999999999999999 5688889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeec-eEEEccCCchhhhhh---------HHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK-VGGFFNKNSIYDTFC---------FLSAIW  185 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~-~~a~G~gs~~a~~~~---------~~~~~~  185 (210)
                      +++++.+|++     .|||++++||+|||++++|+||+  |+|++..++ ++++|+|+++|++++         +++|..
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~  153 (199)
T 3unf_N           81 NVVKNISYKY-----REDLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRR  153 (199)
T ss_dssp             HHHHHHHHHT-----TTTCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHhc-----CCCceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHH
Confidence            9999999765     46999999999999866899999  999987665 555799999999996         445555


Q ss_pred             HHHHHHHHHHHh
Q 028367          186 IYNAIIVYILHW  197 (210)
Q Consensus       186 ~~~~~~~~~~~~  197 (210)
                      +.-+++..++.+
T Consensus       154 la~~al~~~~~~  165 (199)
T 3unf_N          154 FTTNAITLAMNR  165 (199)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            555555555554

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

Probab=99.96  E-value=6.7e-29  Score=198.10  Aligned_cols=134  Identities=13%  Similarity=0.094  Sum_probs=116.2

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeE-cCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPI-TKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVL  114 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~l  114 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++| +++++++++|+.+|++.+.+.+|.+++.|+.+     .++.+
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~   75 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc-----HHHHH
Confidence            599999999999999999999 688888999999999 99999999999999999999999999998744     14444


Q ss_pred             HHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeec--eEEEccCCchhhhhhHHHHHHH
Q 028367          115 AKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK--VGGFFNKNSIYDTFCFLSAIWI  186 (210)
Q Consensus       115 a~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~--~~a~G~gs~~a~~~~~~~~~~~  186 (210)
                      ++.    .+.++++...|||+++++++  |   ||+||.+||+|++.+++  +.|+|+|+++|++++  +..|.
T Consensus        76 ~~l----~~~~~~~~~~~~~~~~~lv~--D---~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~l--e~~~~  138 (171)
T 1m4y_A           76 VEL----AKDWRTDRVLRRLEALLLVA--D---KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAA--KALLR  138 (171)
T ss_dssp             HHH----HHHHHHCTTGGGCCCEEEEE--C---SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHH--HHHHH
T ss_pred             HHH----HHHHHHhCCCCceEEEEEEE--c---CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHH--HHhcc
Confidence            444    33444555678899999998  4   79999999999999988  999999999999994  56665

>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=99.96  E-value=3.8e-29  Score=201.41  Aligned_cols=144  Identities=14%  Similarity=0.098  Sum_probs=123.0

Q ss_pred             hccCceEEEEEcCCEEEEEEecCCC-cce-eecCCcceeeeE-cCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCC
Q 028367           33 KAAGVTSIGVRGKDSVCVVTQKKVP-DKL-LDHTSVTHLFPI-TKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEM  109 (210)
Q Consensus        33 ~~gg~tvIgik~~dgVVlaad~~~~-~~l-i~~~~~~KI~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i  109 (210)
                      .+|+ |+|||+++||||||+|+|.+ +.+ +.+++.+||++| +++++++++|..+|++.|.++++.+++.|+   |   
T Consensus         3 ~~Gt-Tivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g---   75 (180)
T 2z3b_A            3 FHAT-TIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G---   75 (180)
T ss_dssp             BCCC-CEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T---
T ss_pred             CCCe-EEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C---
Confidence            4566 99999999999999999999 677 889999999999 999999999999999999999999999988   3   


Q ss_pred             CHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceee--eceEEEccCCchhhhhhHHHHHHHH
Q 028367          110 PVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFG--HKVGGFFNKNSIYDTFCFLSAIWIY  187 (210)
Q Consensus       110 ~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~--~~~~a~G~gs~~a~~~~~~~~~~~~  187 (210)
                      +   +.+.++++.+.+++....|||++++||+  |   +|+||.+||+|++.+  +++.|+|+|+++|+++  ++..|..
T Consensus        76 ~---~~~~~~~l~~~~~~~~~~rp~~~~~lva--d---~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~--le~~~~~  145 (180)
T 2z3b_A           76 N---LKRAAVELAKEWRSDKVLRKLEAMLIVM--N---QDTLLLVSGTGEVIEPDDGILAIGSGGNYALAA--GRALKKH  145 (180)
T ss_dssp             C---HHHHHHHHHHHHHHCTTGGGCCCCEEEE--C---SSCEEEECTTCCEECCSSSEEEESTTHHHHHHH--HHHHHHH
T ss_pred             C---hHHHHHHHHHHHHhhhCcCcceEEEEEE--c---CCeEEEECCCCcEEEeCCCEEEECCCHHHHHHH--HHHhhhc
Confidence            2   3334444555566677889999999999  3   799999999999998  4999999999999999  4667765


Q ss_pred             ---HHHHHH
Q 028367          188 ---NAIIVY  193 (210)
Q Consensus       188 ---~~~~~~  193 (210)
                         +.....
T Consensus       146 ~~~~mt~ee  154 (180)
T 2z3b_A          146 AGESMSASE  154 (180)
T ss_dssp             HGGGCCHHH
T ss_pred             cCCCCCHHH
Confidence               445444

>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=99.96  E-value=2.8e-28  Score=195.11  Aligned_cols=134  Identities=16%  Similarity=0.078  Sum_probs=115.7

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeE-cCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPI-TKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVL  114 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~l  114 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++| +++++++++|+.+|++.|.+++|.+++.|+.      +   +
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~---~   71 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG------H---L   71 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------C---H
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------c---H
Confidence            599999999999999999999 668888999999999 9999999999999999999999999999885      3   3


Q ss_pred             HHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeec---eEEEccCCchhhhhhHHHHHHH
Q 028367          115 AKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK---VGGFFNKNSIYDTFCFLSAIWI  186 (210)
Q Consensus       115 a~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~---~~a~G~gs~~a~~~~~~~~~~~  186 (210)
                      .+.++.+.+.+++++..||+  +++++|+|   +|+||++||+|++.+++   +.|+|+|+++|++++  +..|.
T Consensus        72 ~~~~~~l~~~~~~~~~~r~~--~~~l~g~d---~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~l--e~~~~  139 (174)
T 1g3k_A           72 LKSAVELAKDWRTDRALRKL--EAMLIVAD---EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAA--RALVE  139 (174)
T ss_dssp             HHHHHHHHHHHHHSTTGGGC--CCEEEEEC---SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHH--HHHHH
T ss_pred             HHHHHHHHHHHHhccCcCcc--eEEEEEEC---CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHH--HHhcc
Confidence            44444555555666677775  57777886   79999999999999988   999999999999984  66665

---

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	210
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-63
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	4e-56
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-53
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	4e-53
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-52
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	1e-49
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	3e-49
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	4e-49
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	7e-49
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-48
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	6e-48
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	1e-47
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-47
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	9e-46
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-44
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	2e-44
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	6e-30
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-21
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	8e-21
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	1e-16
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	7e-16
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	1e-15
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	1e-15
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-15
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	2e-15
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	8e-15
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	8e-15
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-14
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-14
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-14
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	3e-14
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-14
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-13
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-13

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 244

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  195 bits (497), Expect = 1e-63
 Identities = 110/178 (61%), Positives = 140/178 (78%)

Query: 2   SRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLL 61
           SRGS  G+DRHITIFSPEGRL+QVEYAFKA+   G+TS+ VRGKD   +VTQKKVPDKLL
Sbjct: 1   SRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLL 60

Query: 62  DHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADK 121
           D ++VTHLF IT+ +G + TGMTAD+R+ VQ+ARYEAA +++KYGYE+PVD+L K IAD 
Sbjct: 61  DSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADI 120

Query: 122 SQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC 179
           SQVYTQ+A MRPLG   +++ IDEE GP+++KCDPAG++ G K      K +   +F 
Sbjct: 121 SQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFL 178

>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 =  176 bits (447), Expect = 4e-56
 Identities = 64/159 (40%), Positives = 93/159 (58%), Gaps = 1/159 (0%)

Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   + FSP+GR+FQVEYA KAV+    T+IG+R KD V    +K V  KL +  S
Sbjct: 4   GTGYDLSASTFSPDGRVFQVEYAMKAVEN-SSTAIGIRCKDGVVFGVEKLVLSKLYEEGS 62

Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              LF + +++G+   G+ ADAR+L   AR EA+ FR  +GY +P+  LA  +A     Y
Sbjct: 63  NKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAY 122

Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           T ++ +RP G   M+ S     G +L+  DP+G  +G+ 
Sbjct: 123 TLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYW 161

>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 =  169 bits (428), Expect = 2e-53
 Identities = 96/172 (55%), Positives = 125/172 (72%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GYDRHITIFSPEGRL+QVEYAFKA     + S+ VRGKD   V++QKKVPDKLLD T+V+
Sbjct: 2   GYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVS 61

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
           ++F I++ +G++  G   DAR    +A+ EAAEFR+KYGY+MP DVLAK +A+ SQ+YTQ
Sbjct: 62  YIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQ 121

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC 179
            AYMRPLGV+   +S+DEE GP ++K DPAG++ G+K      K     T  
Sbjct: 122 RAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNL 173

>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 =  168 bits (427), Expect = 4e-53
 Identities = 56/159 (35%), Positives = 89/159 (55%), Gaps = 2/159 (1%)

Query: 6   GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTS 65
           G GYD   ++FSP+GR FQVEYA KAV+  G TSIG++  D V    +K +  KLL    
Sbjct: 1   GTGYDLSNSVFSPDGRNFQVEYAVKAVEN-GTTSIGIKCNDGVVFAVEKLITSKLLVPQK 59

Query: 66  VTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVY 125
              +  + +++G + +G+  D R LV + R EAA F+  Y   +P+   A  +    Q +
Sbjct: 60  NVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAH 119

Query: 126 TQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           T +  +RP GV  +   +D+  G  L+  +P+G ++G+K
Sbjct: 120 TLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYK 157

>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 =  166 bits (422), Expect = 2e-52
 Identities = 62/156 (39%), Positives = 93/156 (59%), Gaps = 1/156 (0%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR IT+FSP+G LFQVEYA +AVK  G T++GVRG+D V +  +KK   KL D  +V  
Sbjct: 2   YDRAITVFSPDGHLFQVEYAQEAVKK-GSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRK 60

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  +   + +   G+TADAR ++ +AR E    R      + V+ + ++IA   Q YTQ 
Sbjct: 61  ICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS 120

Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
              RP G+ A+++  D +  PRL++ DP+G +   K
Sbjct: 121 NGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWK 156

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 250

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  159 bits (404), Expect = 1e-49
 Identities = 55/165 (33%), Positives = 87/165 (52%), Gaps = 6/165 (3%)

Query: 1   MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKL 60
           M+      Y   +T FSP G+L Q++YA  AVK  GVTS+G++  + V + T+KK    L
Sbjct: 1   MTDR----YSFSLTTFSPSGKLGQIDYALTAVK-QGVTSLGIKATNGVVIATEKKSSSPL 55

Query: 61  LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAA-EFRFKYGYEMPVDVLAKWIA 119
               +++ +  +T  +G + +GM  D R LV ++R  A   ++  YG   P  +L   +A
Sbjct: 56  AMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVA 115

Query: 120 DKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
              Q  TQ   +RP GV  ++   DE  G  L++ DP+G +F  K
Sbjct: 116 KIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWK 160

>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 =  158 bits (401), Expect = 3e-49
 Identities = 56/161 (34%), Positives = 93/161 (57%), Gaps = 7/161 (4%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YDR +  FSPEGRLFQVEY  +A+K  G T+IG++  + VC+  +K++   L++ +S+  
Sbjct: 1   YDRGVNTFSPEGRLFQVEYDIEAIKL-GSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEK 59

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  I  ++G   +G+ ADA+TL+ +AR E     F Y   M V+ + + +++ +  + + 
Sbjct: 60  IVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEE 119

Query: 129 -----AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
                A  RP GV  +   +DE+ GP+LF  DP+G F    
Sbjct: 120 DADPGAMSRPFGVALLFGGVDEK-GPQLFHMDPSGTFVQCD 159

>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 =  158 bits (400), Expect = 4e-49
 Identities = 55/159 (34%), Positives = 93/159 (58%), Gaps = 3/159 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSV 66
           GYDR ++IFSP+G +FQVEYA +AVK  G  ++GV+GK+ V +  +++   KL D   + 
Sbjct: 1   GYDRALSIFSPDGHIFQVEYALEAVK-RGTCAVGVKGKNCVVLGCERRSTLKLQDTRITP 59

Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
           + +  I  ++ L  +G+ AD+R L+++AR EA   R      + V+ L +++A   Q YT
Sbjct: 60  SKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT 119

Query: 127 QHAYMRPLGVVAMVLSIDEE-CGPRLFKCDPAGHFFGHK 164
           Q   +RP GV  ++   D     P+L++ +P+G +    
Sbjct: 120 QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWS 158

>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 =  157 bits (399), Expect = 7e-49
 Identities = 52/158 (32%), Positives = 84/158 (53%), Gaps = 2/158 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
            YD   TIFSPEGRL+QVEYA +A+     T +G+   D V +  +++   KLLD    +
Sbjct: 3   RYDSRTTIFSPEGRLYQVEYAMEAIGH-AGTCLGILANDGVLLAAERRNIHKLLDEVFFS 61

Query: 68  H-LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
             ++ + + +     G+T+DA  L  + R  A  +  +Y   +P + L   + D  Q YT
Sbjct: 62  EKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYT 121

Query: 127 QHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           Q    RP GV  + +  D+  G +L++ DP+G++ G K
Sbjct: 122 QFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWK 159

>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 =  156 bits (395), Expect = 2e-48
 Identities = 50/156 (32%), Positives = 84/156 (53%), Gaps = 4/156 (2%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD  +T++SP+GR+ Q+EYA +AVK  G  ++G++ K    +V  K+   +L        
Sbjct: 3   YDNDVTVWSPQGRIHQIEYAMEAVK-QGSATVGLKSKTHAVLVALKRAQSELAA--HQKK 59

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +  +  ++G+   G+TADAR L    R E  + RF +   +PV  L   I  K+Q+ TQ 
Sbjct: 60  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQR 119

Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
              RP GV  ++   D+  GP +F+  P+ ++F  +
Sbjct: 120 YGRRPYGVGLLIAGYDDM-GPHIFQTCPSANYFDCR 154

>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 =  155 bits (392), Expect = 6e-48
 Identities = 57/162 (35%), Positives = 91/162 (56%), Gaps = 2/162 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSV 66
            YD   TIFSPEGRL+QVEYA +++     T+IG+   D + +  ++KV   LL+  TS 
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYALESISH-AGTAIGIMASDGIVLAAERKVTSTLLEQDTST 62

Query: 67  THLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYT 126
             L+ +   + +   G+TADA  L+  AR  A  +   Y  ++PV++L + ++D  Q YT
Sbjct: 63  EKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT 122

Query: 127 QHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGF 168
           QH  +RP GV  +    D+  G +L+  +P+G++ G K    
Sbjct: 123 QHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISV 164

>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 =  154 bits (390), Expect = 1e-47
 Identities = 52/176 (29%), Positives = 93/176 (52%), Gaps = 7/176 (3%)

Query: 10  DRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHL 69
           DR ++ FSPEGRLFQVEY+ +A+K  G T+IG+  K+ V +  +K+    LL+  S+  +
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKL-GSTAIGIATKEGVVLGVEKRATSPLLESDSIEKI 59

Query: 70  FPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH- 128
             I +++G   +G+TADAR++++ AR  A      Y  ++ V+ L + + D +  + +  
Sbjct: 60  VEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGA 119

Query: 129 -----AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC 179
                   RP GV  ++   D + G +LF  +P+G F+ +      + +       
Sbjct: 120 SGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 175

>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 =  153 bits (387), Expect = 2e-47
 Identities = 46/161 (28%), Positives = 73/161 (45%), Gaps = 4/161 (2%)

Query: 9   YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH 68
           YD     FSP GRLFQVEYA +A+K  G  ++G+R      +V  K+  D+L        
Sbjct: 5   YDGDTVTFSPTGRLFQVEYALEAIK-QGSVTVGLRSNTHAVLVALKRNADELSS--YQKK 61

Query: 69  LFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH 128
           +    +++GL   G+  DAR L    R +       +  ++ V+     + DK+Q  TQ 
Sbjct: 62  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 121

Query: 129 AYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFF 169
              RP GV  +++  D + G  L +  P+G+          
Sbjct: 122 YGGRPYGVGLLIIGYD-KSGAHLLEFQPSGNVTELYGTAIG 161

>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 =  149 bits (378), Expect = 9e-46
 Identities = 65/156 (41%), Positives = 99/156 (63%), Gaps = 3/156 (1%)

Query: 8   GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVT 67
           GYDR IT+FSP+GRLFQVEYA +AVK  G T+IG++ K+ V ++  K+V  KLL+  ++ 
Sbjct: 4   GYDRAITVFSPDGRLFQVEYAREAVKR-GATAIGIKCKEGVILIADKRVGSKLLEKDTIE 62

Query: 68  HLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQ 127
            ++ I +++    +G+ ADAR L+ +AR EA   R  Y   + V  LAK I D  Q YTQ
Sbjct: 63  KIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQ 122

Query: 128 HAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH 163
           +  +RP GV  ++  ++E   P+L++ DP+G    +
Sbjct: 123 YGGVRPFGVSLLIAGVNEV--PKLYETDPSGALLEY 156

>d1irub_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 233

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  146 bits (368), Expect = 2e-44
 Identities = 61/160 (38%), Positives = 89/160 (55%), Gaps = 2/160 (1%)

Query: 5   SGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHT 64
           +  GY   +T FSP G+L Q+EYA  AV   G  S+G++  + V + T+KK    L D  
Sbjct: 1   AERGYSFSLTTFSPSGKLVQIEYALAAVAG-GAPSVGIKAANGVVLATEKKQKSILYDER 59

Query: 65  SVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQV 124
           SV  + PITK++GL+ +GM  D R LV +AR  A ++   Y   +P   L + +A   Q 
Sbjct: 60  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 119

Query: 125 YTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
           YTQ   +RP GV  ++   +E   P LF+ DP+G +F  K
Sbjct: 120 YTQSGGVRPFGVSLLICGWNEGR-PYLFQSDPSGAYFAWK 158

>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 =  145 bits (367), Expect = 2e-44
 Identities = 64/151 (42%), Positives = 96/151 (63%), Gaps = 2/151 (1%)

Query: 14  TIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPIT 73
           T+FSP+GRLFQVEYA +AVK  G T++G++  + V +++ KKV  +L++  S+  +  I 
Sbjct: 1   TVFSPDGRLFQVEYAREAVKK-GSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLID 59

Query: 74  KYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRP 133
            Y+  + +G+ ADAR LV  AR  A + +  YG  + ++ L K +AD+ Q YTQ+  +RP
Sbjct: 60  DYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRP 119

Query: 134 LGVVAMVLSIDEECGPRLFKCDPAGHFFGHK 164
            GV  +   ID+  GPRLF CDPAG    +K
Sbjct: 120 YGVSLIFAGIDQI-GPRLFDCDPAGTINEYK 149

>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 =  108 bits (270), Expect = 6e-30
 Identities = 24/161 (14%), Positives = 47/161 (29%), Gaps = 13/161 (8%)

Query: 24  QVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGM 83
           + E A K +   G + + +  +D V  V +          T++  +  +   LG  A G 
Sbjct: 8   RSELARKGIAR-GRSVVVLTFRDGVLFVAENPS-------TALHKVSELYDRLGFAAVGK 59

Query: 84  TADARTLVQQARYEAAEFRFKYGY-EMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLS 142
             +   L +     A    + Y   ++    LA   A            +P  V   V  
Sbjct: 60  YNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQT-LGTIFTEQPKPYEVEICVAE 118

Query: 143 IDE---ECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCF 180
           +        P+L++    G     +        +       
Sbjct: 119 VGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAM 159

>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 = 85.6 bits (211), Expect = 3e-21
 Identities = 22/130 (16%), Positives = 45/130 (34%), Gaps = 4/130 (3%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDKLL-DHTSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G T +G+ G+D   +    +       +      +F     + + A G  AD   LV++ 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKC 154
           +     + F +  +          A   Q         P  V  ++  +DE+    ++  
Sbjct: 69  KNSVKWYHFDHNDKKLSI---NSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSF 125

Query: 155 DPAGHFFGHK 164
           DP G +   +
Sbjct: 126 DPVGSYEREQ 135

>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 = 84.4 bits (208), Expect = 8e-21
 Identities = 19/135 (14%), Positives = 45/135 (33%), Gaps = 8/135 (5%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G + I ++  + V +          LL    V  L P+     +  +G  +D + + +  
Sbjct: 8   GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67

Query: 95  RYEAAEFRFKY-----GYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGP 149
           +    E  +          +    + +++A    +Y + + M PL    +V  +      
Sbjct: 68  KDLVTENAYDNPLADAEEALEPSYIFEYLAT--VMYQRRSKMNPLWNAIIVAGVQSNGDQ 125

Query: 150 RLFKCDPAGHFFGHK 164
            L   +  G  +   
Sbjct: 126 FLRYVNLLGVTYSSP 140

>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 = 72.9 bits (178), Expect = 1e-16
 Identities = 20/144 (13%), Positives = 48/144 (33%), Gaps = 4/144 (2%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLLDHTSVTH-LFPITKYLGLLATGMTADARTLVQQARY 96
             +G+R +DSV + + K V   +            ++ +  +   G   D     +  + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEEC-GPRLFKCD 155
               +  +  YE+    ++ ++  +     +    RP  V  ++   D++   P L++ D
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQELAKSIR--SRRPYQVNVLIGGYDKKKNKPELYQID 120

Query: 156 PAGHFFGHKVGGFFNKNSIYDTFC 179
             G       G          +  
Sbjct: 121 YLGTKVELPYGAHGYSGFYTFSLL 144

>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 = 70.6 bits (172), Expect = 7e-16
 Identities = 20/142 (14%), Positives = 48/142 (33%), Gaps = 6/142 (4%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDKLLDHT-SVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G   + ++GK+ V +   ++   +    T     +FP+   L +   G+  D +T+ Q+ 
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGP-RLFK 153
           ++    +  K G ++    L   +A+            P     ++  +D +     +  
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVAN----LLYEKRFGPYYTEPVIAGLDPKTFKPFICS 122

Query: 154 CDPAGHFFGHKVGGFFNKNSIY 175
            D  G              +  
Sbjct: 123 LDLIGCPMVTDDFVVSGTCAEQ 144

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 217

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 70.6 bits (172), Expect = 1e-15
 Identities = 21/155 (13%), Positives = 46/155 (29%), Gaps = 5/155 (3%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G + +GV+ +  V +          L    +++ +  +     L A+G  AD + L Q  
Sbjct: 8   GTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL 67

Query: 95  RYEAAEFRFKY-GYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFK 153
                +      G+      +  W+     +Y++ + M PL    ++    +     L  
Sbjct: 68  GQMVIDEELLGDGHSYSPRAIHSWLTR--AMYSRRSKMNPLWNTMVIGGYADG-ESFLGY 124

Query: 154 CDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYN 188
            D  G  +            +              
Sbjct: 125 VDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPV 159

>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 = 70.2 bits (171), Expect = 1e-15
 Identities = 18/132 (13%), Positives = 41/132 (31%), Gaps = 5/132 (3%)

Query: 38  TSIGVRGKDSVCVVTQKKV-PDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T++  R +  + V    +      +   +V  +  I  +L     G  AD +        
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           +      +    + V   +K +++    Y        L +  M+     + GP ++  D 
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQYKGA----GLSMGTMICGYTRKEGPTIYYVDS 117

Query: 157 AGHFFGHKVGGF 168
            G      +   
Sbjct: 118 DGTRLKGDIFCV 129

>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 = 69.5 bits (169), Expect = 2e-15
 Identities = 23/130 (17%), Positives = 45/130 (34%), Gaps = 3/130 (2%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLLDH-TSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
             IG++G D V V + +     ++        +F +++ + LL  G   D     +  + 
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
               ++ + GYE+     A +         +     P  V  ++   DE  GP L+  D 
Sbjct: 63  NVQLYKMRNGYELSPTAAANFTRRNLADCLR--SRTPYHVNLLLAGYDEHEGPALYYMDY 120

Query: 157 AGHFFGHKVG 166
                     
Sbjct: 121 LAALAKAPFA 130

>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 = 69.4 bits (169), Expect = 2e-15
 Identities = 25/139 (17%), Positives = 49/139 (35%), Gaps = 5/139 (3%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQAR 95
           G   + + GKD V +    ++  + L  ++         ++ L  TG+  D  TL +  R
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLGITGLATDVTTLNEMFR 67

Query: 96  YEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECG-PRLFKC 154
           Y+   ++ K    +  +   + ++          Y     V  +V  I+ + G P +   
Sbjct: 68  YKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYF----VGPVVAGINSKSGKPFIAGF 123

Query: 155 DPAGHFFGHKVGGFFNKNS 173
           D  G     K        S
Sbjct: 124 DLIGCIDEAKDFIVSGTAS 142

>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 = 68.3 bits (166), Expect = 8e-15
 Identities = 20/128 (15%), Positives = 38/128 (29%), Gaps = 7/128 (5%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLLDHT-SVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T  GV  KD + +    +  + ++    + + +  I+  +     G  AD     Q    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
                    G    V    + +           Y   +G   ++  +D   GP L+   P
Sbjct: 62  NLELHSLSTGRLPRVVTANRMLKQM-----LFRYRGYIGAALVLGGVDVT-GPHLYSIYP 115

Query: 157 AGHFFGHK 164
            G      
Sbjct: 116 HGSTDKLP 123

>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 = 68.3 bits (166), Expect = 8e-15
 Identities = 25/136 (18%), Positives = 44/136 (32%), Gaps = 5/136 (3%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLL-DHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T + +  K  V +   ++     L     V  ++   +Y      G    A  LV+    
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAY----MRPLGVVAMVLSIDEECGPRLF 152
           E   +    G  +  D  A  +A   +     A     + PL V   + + DE    R+ 
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 153 KCDPAGHFFGHKVGGF 168
             D  G  +  + G  
Sbjct: 122 SYDVVGGRYEERAGYH 137

>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 = 67.5 bits (164), Expect = 2e-14
 Identities = 18/127 (14%), Positives = 36/127 (28%), Gaps = 7/127 (5%)

Query: 38  TSIGVRGKDSVCVVTQKKV-PDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T +GV+  + V +    +     ++   +   L  I+  +     G  AD   + Q    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
                      E  V    + +      Y  H          ++++  +  G  LF    
Sbjct: 62  NIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGA------YLIVAGVDPTGSHLFSIHA 115

Query: 157 AGHFFGH 163
            G     
Sbjct: 116 HGSTDVG 122

>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 = 66.7 bits (162), Expect = 2e-14
 Identities = 19/127 (14%), Positives = 41/127 (32%), Gaps = 6/127 (4%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLL-DHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T++  + +  V V    +          +V  +  I  YL     G  AD     +    
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           +   +  +    + V   +K +A+    Y           +  ++   ++ GP L+  D 
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQYKGMGLS-----MGTMICGWDKRGPGLYYVDS 116

Query: 157 AGHFFGH 163
            G+    
Sbjct: 117 EGNRISG 123

>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 = 66.3 bits (161), Expect = 3e-14
 Identities = 17/128 (13%), Positives = 36/128 (28%), Gaps = 6/128 (4%)

Query: 38  TSIGVRGKDSVCVVTQKKVPDKLL-DHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T + V+    V +    +        +     L PI   +    +G  AD + +     Y
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           +      +      V   A    +       + Y   L    ++   D + G +++    
Sbjct: 62  QLGFHSIELNEPPLVHTAASLFKEM-----CYRYREDLMAGIIIAGWDPQEGGQVYSVPM 116

Query: 157 AGHFFGHK 164
            G      
Sbjct: 117 GGMMVRQS 124

>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 = 66.4 bits (161), Expect = 3e-14
 Identities = 33/127 (25%), Positives = 59/127 (46%), Gaps = 7/127 (5%)

Query: 38  TSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T++G+  KD+V + T+++V  +  + H +   LF I  Y G+   G+  DA+ LV+  + 
Sbjct: 2   TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           E   +R +    MP++ +A  +++         YM  L    +V  ID      +F  D 
Sbjct: 62  ELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQL----LVGGIDTAP--HVFSIDA 115

Query: 157 AGHFFGH 163
           AG     
Sbjct: 116 AGGSVED 122

>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 = 65.6 bits (159), Expect = 5e-14
 Identities = 25/139 (17%), Positives = 54/139 (38%), Gaps = 6/139 (4%)

Query: 38  TSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARY 96
           T++G+  KD V + T+K+      +   +   ++ I   + +   G   DA+ L +  + 
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61

Query: 97  EAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDP 156
           EA  +  +   +  V  +A   ++    Y    Y+     V +++   +  G  ++  DP
Sbjct: 62  EANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYL-----VQLLIGGIDSEGKSIYSIDP 116

Query: 157 AGHFFGHKVGGFFNKNSIY 175
            G     K        S+ 
Sbjct: 117 IGGAIEEKDIVATGSGSLT 135

>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 = 64.1 bits (155), Expect = 2e-13
 Identities = 20/130 (15%), Positives = 43/130 (33%), Gaps = 5/130 (3%)

Query: 36  GVTSIGVRGKDSVCVVTQKKVPDKLLDH-TSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G T + + G+D   V +  ++ +    H       + +T    +  +G   D  TL +  
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKC 154
                 ++      M    +A  ++          Y        ++  +DEE    ++  
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYN----IIGGLDEEGKGAVYSF 124

Query: 155 DPAGHFFGHK 164
           DP G +    
Sbjct: 125 DPVGSYQRDS 134

>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 = 63.6 bits (154), Expect = 3e-13
 Identities = 17/130 (13%), Positives = 37/130 (28%), Gaps = 7/130 (5%)

Query: 36  GVTSIGVRGKDSVCVVTQKKV-PDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQA 94
           G + + V  KD V +    +      + +     L  +   +    +G  AD + +    
Sbjct: 9   GASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68

Query: 95  RYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKC 154
           +Y    +  +YG            A        +     L    +V   D++    ++  
Sbjct: 69  QYHLELYTSQYGTPST------ETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTI 122

Query: 155 DPAGHFFGHK 164
              G      
Sbjct: 123 PLGGSVHKLP 132

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	210
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	99.98
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.98
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.97
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.97
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.79
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.75
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.71

>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=6.8e-54  Score=359.82  Aligned_cols=188  Identities=35%  Similarity=0.518  Sum_probs=175.3

Q ss_pred             CCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecC
Q 028367            4 GSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGM   83 (210)
Q Consensus         4 ~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~   83 (210)
                      +++++||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|++.+.+++.+++.+||++|+++++|++||+
T Consensus         2 ~~~~~yd~~~t~Fsp~Grl~QvEYa~~av~~G~-t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~~~i~~~~sG~   80 (245)
T d1irug_           2 SIGTGYDLSASTFSPDGRVFQVEYAMKAVENSS-TAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGL   80 (245)
T ss_dssp             CCCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEEC
T ss_pred             CCccccCCCCceECCCCeehHHHHHHHHHHcCC-cEEEEEeCCEEEEEEeccccccccccCccceEEEcCCCEEEEeccC
Confidence            388899999999999999999999999999998 9999999999999999998877878888999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeee
Q 028367           84 TADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH  163 (210)
Q Consensus        84 ~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~  163 (210)
                      .+|++.+++++|.++++|++++|++++++.+++++++++|.||++.++|||+|++||+|+|+++||+||++||+|++.++
T Consensus        81 ~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~~~~~  160 (245)
T d1irug_          81 LADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGY  160 (245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEB
T ss_pred             chhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCceEEee
Confidence            99999999999999999999999999999999999999999999999999999999999997778999999999999999


Q ss_pred             ceEEEccCCchhhhhhHHHHHHHHHHHHHHH
Q 028367          164 KVGGFFNKNSIYDTFCFLSAIWIYNAIIVYI  194 (210)
Q Consensus       164 ~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~  194 (210)
                      +++|+|+|++.+.+++  +..|..+..+..+
T Consensus       161 ~~~a~G~gs~~a~~~L--e~~~~~dmt~eea  189 (245)
T d1irug_         161 WGCAIGKARQAAKTEI--EKLQMKEMTCRDI  189 (245)
T ss_dssp             SEEEESTTHHHHHHHH--TTSCGGGCCHHHH
T ss_pred             eEEEECCccHHHHHHH--HhhcCCCCCHHHH
Confidence            9999999999999985  4444444444443

>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=3.6e-53  Score=354.95  Aligned_cols=182  Identities=60%  Similarity=0.970  Sum_probs=173.9

Q ss_pred             CCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEe
Q 028367            2 SRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLAT   81 (210)
Q Consensus         2 ~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~s   81 (210)
                      ||++.++||+++|+||||||++|||||+||+++||+|+|||+++||||||+|++.+++++.+++.+||++|+++++|++|
T Consensus         1 ~~~~~~gyd~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~s   80 (244)
T d1irua_           1 SRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMT   80 (244)
T ss_dssp             CCSCCCTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEE
T ss_pred             CCCCCCCcCCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEecCCcEEEEe
Confidence            67788999999999999999999999999999988789999999999999999999888888889999999999999999


Q ss_pred             cChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCcee
Q 028367           82 GMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFF  161 (210)
Q Consensus        82 G~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~  161 (210)
                      |+.+|++.+.+.+|.+++.|++.++++++++.+++.++.++|.++++.+.|||++++||+|||+++||+||++||+|++.
T Consensus        81 G~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~  160 (244)
T d1irua_          81 GMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYC  160 (244)
T ss_dssp             ECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEE
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCccEE
Confidence            99999999999999999999999999999999999999999999999999999999999999987689999999999999


Q ss_pred             eeceEEEccCCchhhhhhHHHHHH
Q 028367          162 GHKVGGFFNKNSIYDTFCFLSAIW  185 (210)
Q Consensus       162 ~~~~~a~G~gs~~a~~~~~~~~~~  185 (210)
                      +++++|+|+|++.++++.  +..|
T Consensus       161 ~~~~~a~G~gs~~~~~~L--e~~~  182 (244)
T d1irua_         161 GFKATAAGVKQTESTSFL--EKKV  182 (244)
T ss_dssp             EBSEEEEETTHHHHHHHH--HHHT
T ss_pred             ecceEeccCchhHHHHHH--Hhcc
Confidence            999999999999999983  4444

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.3e-51  Score=346.39  Aligned_cols=188  Identities=30%  Similarity=0.442  Sum_probs=174.8

Q ss_pred             CCCCCCCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEE
Q 028367            1 MSRGSGGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLA   80 (210)
Q Consensus         1 m~~~~~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~   80 (210)
                      ||+    +||+++|+|||||||+|+|||+||+++|+ |+|||+++||||||+|+|.+++++.+++.+||++|+++++|++
T Consensus         1 m~~----~yd~~~t~fsp~G~l~QvEyA~kav~~G~-tvvgi~~~dgVvlaad~r~~~~~~~~~~~~ki~~I~~~i~~~~   75 (250)
T d1rypb_           1 MTD----RYSFSLTTFSPSGKLGQIDYALTAVKQGV-TSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVY   75 (250)
T ss_dssp             CCC----CCCSBSSCBCTTSCBHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEE
T ss_pred             CCc----cccCCCceECCCCeehHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecccCCccccccccceeEeccCCEEEEe
Confidence            887    99999999999999999999999999998 9999999999999999998877777788999999999999999


Q ss_pred             ecChHHHHHHHHHHHHHHHH-HHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCc
Q 028367           81 TGMTADARTLVQQARYEAAE-FRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGH  159 (210)
Q Consensus        81 sG~~~D~~~l~~~~r~~~~~-~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs  159 (210)
                      ||+.+|++.++++++.++.. |+..++++++++.+++++++++|.|+++.+.|||+++++|+|+|++.||+||++||.|+
T Consensus        76 sG~~~D~~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id~~G~  155 (250)
T d1rypb_          76 SGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGS  155 (250)
T ss_dssp             EECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSC
T ss_pred             eecccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEcCcEE
Confidence            99999999999999999875 89999999999999999999999999999999999999999999876899999999999


Q ss_pred             eeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          160 FFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       160 ~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +.+++++|+|+|++.|++++  +-.|..+..+..++
T Consensus       156 ~~~~~~~a~G~gs~~a~~~L--e~~~~~~ms~eea~  189 (250)
T d1rypb_         156 YFPWKATAIGKGSVAAKTFL--EKRWNDELELEDAI  189 (250)
T ss_dssp             EEEBSEEEESTTHHHHHHHH--HHHCCTTCCHHHHH
T ss_pred             EEEeeEEecCcchHHHHHHH--HHhcccCCCHHHHH
Confidence            99999999999999999994  55566555444443

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.4e-51  Score=345.41  Aligned_cols=189  Identities=29%  Similarity=0.440  Sum_probs=175.2

Q ss_pred             CCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChH
Q 028367            6 GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTA   85 (210)
Q Consensus         6 ~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~   85 (210)
                      +++||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|++.+.+++..++.+||++|+++++|+++|+.+
T Consensus         1 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~-t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   79 (244)
T d1rypg_           1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGT-TSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIP   79 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHH
T ss_pred             CCCcCCCCceECCCCeehHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecccCCCCccccccceEEEccCceEEEEccchh
Confidence            4689999999999999999999999999998 999999999999999999997677666778999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeece
Q 028367           86 DARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKV  165 (210)
Q Consensus        86 D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~  165 (210)
                      |++.++++++.+++.|+++++++++++.+++.++..+|.||++.+.|||++++||+|||++ ||+||.+||+|++.++++
T Consensus        80 D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~-gp~Ly~idp~Gs~~~~~~  158 (244)
T d1rypg_          80 DGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSYWGYKG  158 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETT-EEEEEEECTTSCEEEBSE
T ss_pred             hHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCC-CCEEEEEcCCccEEecCe
Confidence            9999999999999999999999999999999999999999999999999999999999987 999999999999999999


Q ss_pred             EEEccCCchhhhhhHHH--HHHHHHHHHHHHHHh
Q 028367          166 GGFFNKNSIYDTFCFLS--AIWIYNAIIVYILHW  197 (210)
Q Consensus       166 ~a~G~gs~~a~~~~~~~--~~~~~~~~~~~~~~~  197 (210)
                      +|+|+|++.++++ +++  ..|..+.....+++.
T Consensus       159 ~a~G~gs~~~~~~-Lek~~~~~~~~mt~eeai~l  191 (244)
T d1rypg_         159 AATGKGRQSAKAE-LEKLVDHHPEGLSAREAVKQ  191 (244)
T ss_dssp             EEESTTHHHHHHH-HHHHHHHCTTCCCHHHHHHH
T ss_pred             EecCCccHHHHHH-HHHHHhhCCCCCCHHHHHHH
Confidence            9999999999998 444  356666666655553

>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=1.7e-51  Score=345.74  Aligned_cols=185  Identities=29%  Similarity=0.479  Sum_probs=171.9

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCc-ceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPD-KLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~-~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|++.+. .++.+++.+||++|+++++|++||+.+|
T Consensus         3 ~yd~~~t~fsp~Grl~QvEyA~kav~~G~-tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   81 (250)
T d1iruc_           3 RYDSRTTIFSPEGRLYQVEYAMEAIGHAG-TCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSD   81 (250)
T ss_dssp             TTCCCTTCCCTTSCCHHHHHHHHHHTTSC-CEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHH
T ss_pred             ccCCCCeeECCCCcchHHHHHHHHHhcCC-cEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccch
Confidence            89999999999999999999999999998 999999999999999999984 4555778899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+++.+|.++..|++.+|++++++.+++.++.++|.++++.++|||++++||+|+|+++||+||.+||+|++.+++++
T Consensus        82 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~~~~~~~  161 (250)
T d1iruc_          82 ANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKAT  161 (250)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSEE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEcccccEeeeeEE
Confidence            99999999999999999999999999999999999999999999999999999999998778999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHH-HHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIY-NAIIVYIL  195 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~-~~~~~~~~  195 (210)
                      |+|+|++.+.++  ++..|.. +..+..++
T Consensus       162 a~G~gs~~a~~~--Le~~y~~~~ms~eeai  189 (250)
T d1iruc_         162 CIGNNSAAAVSM--LKQDYKEGEMTLKSAL  189 (250)
T ss_dssp             EESTTTTHHHHH--HHHHCCTTCCCHHHHH
T ss_pred             EeCcChHHHHHH--HHhhcccCCCCHHHHH
Confidence            999999999998  4556653 44544443

>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=2.6e-51  Score=343.19  Aligned_cols=180  Identities=54%  Similarity=0.867  Sum_probs=171.1

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      .+||+++|+|||||||+|||||+||+++||+|+|||+++||||||+|+|.+++++.+++.+||++|+++++|++||+.+|
T Consensus         1 ~gyd~~~t~fsp~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   80 (243)
T d1rypa_           1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             CGGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCCCeECCCCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccccccccCcccceEecCCCEEEEEecCcHH
Confidence            37999999999999999999999999997778999999999999999999888888888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.+.+|.++++|+++++++++++.+++++++.+|.|+++.+.|||++++||+|||+++||+||++||+|++.+++++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~  160 (243)
T d1rypa_          81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKAT  160 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCCEEEEecceE
Confidence            99999999999999999999999999999999999999999999999999999999998778999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYN  188 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~  188 (210)
                      |+|+|+++++++  ++..|..+
T Consensus       161 a~G~gs~~~~~~--Le~~~~~~  180 (243)
T d1rypa_         161 ATGPKQQEITTN--LENHFKKS  180 (243)
T ss_dssp             EESTTHHHHHHH--HHHHHHHH
T ss_pred             EeCccHHHHHHH--HHHHhhcc
Confidence            999999999999  45566543

>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=1.8e-51  Score=344.23  Aligned_cols=178  Identities=35%  Similarity=0.580  Sum_probs=169.8

Q ss_pred             CCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADAR   88 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (210)
                      ||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|++.+++++.+++.+||++|+++++|++||+.+|++
T Consensus         2 yd~~~t~Fsp~Grl~QvEya~kav~~G~-Tvvgik~~dgVvla~d~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   80 (243)
T d1irud_           2 YDRAITVFSPDGHLFQVEYAQEAVKKGS-TAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADAR   80 (243)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSC-CEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             CCCCCeeECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEeccccCcccCCCccccEEECCCCEEEEEEEchhhHH
Confidence            9999999999999999999999999998 999999999999999999889999989999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEE
Q 028367           89 TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGF  168 (210)
Q Consensus        89 ~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~  168 (210)
                      .+++.+|.+++.|++++|.+|+++.+++++++++|.||++.++|||++++||+|||+++||+||.+||+|++.+++++|+
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~~~a~  160 (243)
T d1irud_          81 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI  160 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcEEEEeccEEEE
Confidence            99999999999999999999999999999999999999999999999999999999877899999999999999999999


Q ss_pred             ccCCchhhhhhHHHHHHHHHH
Q 028367          169 FNKNSIYDTFCFLSAIWIYNA  189 (210)
Q Consensus       169 G~gs~~a~~~~~~~~~~~~~~  189 (210)
                      |+|++.|+++.  +..|..+.
T Consensus       161 G~gs~~a~~~L--ek~~~~~~  179 (243)
T d1irud_         161 GRGAKSVREFL--EKNYTDEA  179 (243)
T ss_dssp             STTHHHHHHHH--TTTCCSST
T ss_pred             CCChHHHHHHH--HHhcccCC
Confidence            99999999983  44454433

>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=8e-51  Score=340.40  Aligned_cols=187  Identities=33%  Similarity=0.562  Sum_probs=175.5

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +||+++|+||||||++|||||+||+++|+ |+|||+++||||||+|++.+ +.++.+++.+||++|++++++++||+.+|
T Consensus         4 ~yd~~~t~fsp~G~~~Qveya~~ai~~G~-T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (244)
T d1rypc_           4 RYDSRTTIFSPEGRLYQVEYALESISHAG-TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GGCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             ccCCCceeECCCCcChHHHHHHHHHhcCC-CEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCc
Confidence            79999999999999999999999999998 99999999999999999998 45566778999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+.+.+|.+++.|+++++++++++.++++++.+++.|+++.++|||++++||+|+|+++||+||.+||.|++.+++++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~~~~~  162 (244)
T d1rypc_          83 AEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAI  162 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEecCCCcEeeeeee
Confidence            99999999999999999999999999999999999999999999999999999999998768999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHHHHHHHHHHh
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~~  197 (210)
                      |+|+|+++|+++  ++..|..+..+..|+..
T Consensus       163 a~G~g~~~a~~~--Le~~~~~~ms~eeai~l  191 (244)
T d1rypc_         163 SVGANTSAAQTL--LQMDYKDDMKVDDAIEL  191 (244)
T ss_dssp             EESTTHHHHHHH--HHHHCCTTCCHHHHHHH
T ss_pred             eccchhHHHHHH--HHhcccCCCCHHHHHHH
Confidence            999999999998  46667777666666654

>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=2.4e-50  Score=336.59  Aligned_cols=176  Identities=29%  Similarity=0.509  Sum_probs=167.6

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      ++||+++|+|||||||+|||||.||+++|+ |+|||+++||||||+|++.++.+..  +.+||++|+++++|++||+.+|
T Consensus         1 ~~yd~~~tiFsp~Grl~QvEYA~kav~~G~-t~vgik~~dgVvlaad~~~~~~~~~--~~~KI~~I~~~i~~~~sG~~~D   77 (238)
T d1iruf_           1 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGS-ATVGLKSKTHAVLVALKRAQSELAA--HQKKILHVDNHIGISIAGLTAD   77 (238)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSC-CEEEEECSSEEEEEEECCCSSTTBC--CCCCEEEEETTEEEEEEECHHH
T ss_pred             CCCCCCCeeECCCCcchHHHHHHHHHhcCC-CEEEEEeCCEEEEEEecccccCCCC--ccceEEEeCCceEEEEeccchH
Confidence            479999999999999999999999999998 9999999999999999999977765  4579999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+++.+|.+++.|++++|++++++.++++++.++|.|+++.+.|||++++||+|||++ ||+||++||+|++.+++++
T Consensus        78 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~-gp~Ly~~D~~G~~~~~~~~  156 (238)
T d1iruf_          78 ARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDM-GPHIFQTCPSANYFDCRAM  156 (238)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETT-EEEEEEECSSSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCC-CceEEEEcCCCCEEeeeeE
Confidence            999999999999999999999999999999999999999999999999999999999986 8999999999999999999


Q ss_pred             EEccCCchhhhhhHHHHHHHHH
Q 028367          167 GFFNKNSIYDTFCFLSAIWIYN  188 (210)
Q Consensus       167 a~G~gs~~a~~~~~~~~~~~~~  188 (210)
                      |+|+|++.+.++  ++..|..+
T Consensus       157 a~G~g~~~~~~~--Lek~~~~~  176 (238)
T d1iruf_         157 SIGARSQSARTY--LERHMSEF  176 (238)
T ss_dssp             EESTTHHHHHHH--HHHHHHHH
T ss_pred             EECCCchhhHHH--HHhhcccc
Confidence            999999999998  46777764

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.5e-50  Score=336.84  Aligned_cols=168  Identities=27%  Similarity=0.443  Sum_probs=162.5

Q ss_pred             CCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHH
Q 028367            7 GGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         7 ~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      ++||+++|+||||||++|||||+||+++|+ |+|||+++||||||+|++.++.+.  ++.+||++|+++++|++||+.+|
T Consensus         3 ~~yd~~~t~FspdGrl~QvEyA~kav~~g~-t~igi~~~dgvvlaad~~~~~~l~--~~~~KI~~I~~~i~~~~sG~~~D   79 (233)
T d1rypf_           3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGS-VTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAPD   79 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHH
T ss_pred             ccccCCCceECCCCcChHHHHHHHHHHcCC-CEEEEEECCeEEEEEeccccccCC--cchheEEEcCCCEEEEEeecccc
Confidence            479999999999999999999999999998 999999999999999999987764  46689999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceE
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVG  166 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~  166 (210)
                      ++.+++.+|.+++.|++++|++++++.+++.+++++|+||++.+.|||++++||+|||++ ||+||++||+|++.+++++
T Consensus        80 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~-g~~Ly~idp~G~~~~~~~~  158 (233)
T d1rypf_          80 ARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNVTELYGT  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETT-EEEEEEECTTSCEEEESEE
T ss_pred             HHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCC-CCEEEEEccccceecccEE
Confidence            999999999999999999999999999999999999999999999999999999999987 8999999999999999999


Q ss_pred             EEccCCchhhhh
Q 028367          167 GFFNKNSIYDTF  178 (210)
Q Consensus       167 a~G~gs~~a~~~  178 (210)
                      |+|+|++.+.++
T Consensus       159 aiG~gs~~a~~~  170 (233)
T d1rypf_         159 AIGARSQGAKTY  170 (233)
T ss_dssp             EESTTHHHHHHH
T ss_pred             EecCchHHHHHH
Confidence            999999999998

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=2.2e-50  Score=337.73  Aligned_cols=185  Identities=36%  Similarity=0.564  Sum_probs=172.0

Q ss_pred             CCCCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChH
Q 028367            6 GGGYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTA   85 (210)
Q Consensus         6 ~~~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~   85 (210)
                      +++||+++|+||||||++|||||+||+++|+ |+|||+++||||||+|++.+.+++..++.+||++|+++++|++||+.+
T Consensus         2 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~-t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   80 (243)
T d1j2pa_           2 QMGYDRAITVFSPDGRLFQVEYAREAVKRGA-TAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVA   80 (243)
T ss_dssp             CTTSSSCTTCCCTTSCCHHHHHHHHHHHTSC-CEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHH
T ss_pred             CCCcCCCCccCCCCCcchHHHHHHHHHHcCC-CEEEEEECCEEEEEEecCccccCccccccccEeecCCcEEEEeeeccc
Confidence            5789999999999999999999999999998 999999999999999999997677777889999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeece
Q 028367           86 DARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKV  165 (210)
Q Consensus        86 D~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~  165 (210)
                      |++.+.+.++.++..|++++|++++++.+++.++..+|.++++.+.|||++++|++|+|+  +|+||.+||+|++.++++
T Consensus        81 D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~--~p~Ly~~Dp~G~~~~~~~  158 (243)
T d1j2pa_          81 DARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE--VPKLYETDPSGALLEYKA  158 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS--SEEEEEECTTCCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC--CceEEEEeccCceeeeeE
Confidence            999999999999999999999999999999999999999999999999999999999985  699999999999999999


Q ss_pred             EEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          166 GGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       166 ~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      +|+|+|++.|+++.  +-.|..+..+..++
T Consensus       159 ~a~G~g~~~a~~~L--e~~y~~~ms~eeai  186 (243)
T d1j2pa_         159 TAIGMGRMAVTEFF--EKEYRDDLSFDDAM  186 (243)
T ss_dssp             EEESTTHHHHHHHH--HHHCCTTCCHHHHH
T ss_pred             EEeCCCcHHHHHHH--HhhcccCCCHHHHH
Confidence            99999999999984  44565555444443

>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=1e-50  Score=337.79  Aligned_cols=184  Identities=29%  Similarity=0.565  Sum_probs=171.9

Q ss_pred             CCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHH
Q 028367            9 YDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADAR   88 (210)
Q Consensus         9 yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (210)
                      ||+++|+||||||++|||||+||+++|+ |+|||+++||||||+|++.+.+++..++.+||++|++++++++||+.+|++
T Consensus         1 yd~~~t~fsp~G~l~QvEYa~kav~~G~-t~vgik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (234)
T d1irue_           1 YDRGVNTFSPEGRLFQVEYDIEAIKLGS-TAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAK   79 (234)
T ss_dssp             CCCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHH
T ss_pred             CCCCCceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEecCccCCCcccCcccCEEEccCcEEEEEeeccchHH
Confidence            8999999999999999999999999998 999999999999999999987788788889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcC-----cccceEEEEEEEEeCCCCcEEEEECCCCceeee
Q 028367           89 TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAY-----MRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH  163 (210)
Q Consensus        89 ~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~-----~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~  163 (210)
                      .+.+.+|.++..|++++|++++++.+++++++++|.||++..     .|||++++||+|||++ ||+||.+||+|++.++
T Consensus        80 ~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~-gp~Ly~idp~G~~~~~  158 (234)
T d1irue_          80 TLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK-GPQLFHMDPSGTFVQC  158 (234)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETT-EEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCC-CCEEEEEecCccccee
Confidence            999999999999999999999999999999999999988755     7999999999999987 8999999999999999


Q ss_pred             ceEEEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          164 KVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       164 ~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      +++|+|+|++.+++++  +..|..+..+..++.
T Consensus       159 ~~~a~G~gs~~~~~~L--e~~~~~~~~~eeai~  189 (234)
T d1irue_         159 DARAIGSASEGAQSSL--QELYHKSMTLKEAIK  189 (234)
T ss_dssp             SEEEESTTHHHHHHHH--HHHCCTTCCHHHHHH
T ss_pred             eeEEeCCchHHHHHHH--HHhhccCCCHHHHHH
Confidence            9999999999999994  556766665555543

>d1rypd_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.5e-49  Score=332.15  Aligned_cols=176  Identities=31%  Similarity=0.548  Sum_probs=166.4

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceee-cCCcceeeeEcCcEEEEEecChHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLD-HTSVTHLFPITKYLGLLATGMTAD   86 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~-~~~~~KI~~I~~~i~~~~sG~~~D   86 (210)
                      +||+++|+||||||++|||||.||+++|+ |+|||+++||||||+|++.+.+++. .++.+||++|++|++|++||+.+|
T Consensus         1 gyd~~~t~fsp~Grl~QvEya~kav~~G~-tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   79 (241)
T d1rypd_           1 GYDRALSIFSPDGHIFQVEYALEAVKRGT-CAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNAD   79 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHH
T ss_pred             CCCCCCceECCCCcEeHHHHHHHHHHcCC-CEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccch
Confidence            69999999999999999999999999998 9999999999999999999966654 568899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCC-CCcEEEEECCCCceeeece
Q 028367           87 ARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEE-CGPRLFKCDPAGHFFGHKV  165 (210)
Q Consensus        87 ~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~-~gp~Ly~vD~~Gs~~~~~~  165 (210)
                      ++.+.+.+|.+++.|++++|++++++.++++++.++|+||++.++|||+|++||+|||++ +||+||.+||+|++.++++
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~~~  159 (241)
T d1rypd_          80 SRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSA  159 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEEEEeeCe
Confidence            999999999999999999999999999999999999999999999999999999999964 5899999999999999999


Q ss_pred             EEEccCCchhhhhhHHHHHHH
Q 028367          166 GGFFNKNSIYDTFCFLSAIWI  186 (210)
Q Consensus       166 ~a~G~gs~~a~~~~~~~~~~~  186 (210)
                      +|+|+|++.|++++  +..|.
T Consensus       160 ~a~G~gs~~~~~~L--e~~~~  178 (241)
T d1rypd_         160 QTIGRNSKTVREFL--EKNYD  178 (241)
T ss_dssp             EEESTTHHHHHHHH--HTTCC
T ss_pred             EEECcCHHHHHHHH--HHhhh
Confidence            99999999999983  45553

>d1yara1 d.153.1.4 (A:13-233) Proteasome alpha subunit (non-catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=1.5e-49  Score=327.97  Aligned_cols=178  Identities=37%  Similarity=0.574  Sum_probs=168.7

Q ss_pred             ceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHHHHHHH
Q 028367           14 TIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQ   93 (210)
Q Consensus        14 t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   93 (210)
                      |+||||||++|+|||+||+++|+ |+|||+++||||||+|++.+++++.+++.+||++|+++++++++|+.+|++.+++.
T Consensus         1 t~fsp~G~l~QvEYa~~av~~G~-t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~   79 (221)
T d1yara1           1 TVFSPDGRLFQVEYAREAVKKGS-TALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF   79 (221)
T ss_dssp             CCCCTTSCCHHHHHHHHHHTTSC-CEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             CeECCCCcchHHHHHHHHHhcCC-cEEEEEeCCEEEEEEecccCCcccccCccceEEEecCCceEEeeeccchHHHHHHH
Confidence            79999999999999999999998 99999999999999999998888888889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCc
Q 028367           94 ARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNS  173 (210)
Q Consensus        94 ~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~  173 (210)
                      +|.+++.|+++++++++++.++++++.+++.++++.++|||++++||+|+|++ ||+||.+||+|++.+++++|+|+|++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~-gp~Ly~id~~G~~~~~~~~a~G~g~~  158 (221)
T d1yara1          80 ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTINEYKATAIGSGKD  158 (221)
T ss_dssp             HHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSS-CEEEEEECTTCCEEEBSEEEESTTHH
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecC-CCeEEEEcCCccEEEeeEEEECCchH
Confidence            99999999999999999999999999999999999999999999999999987 89999999999999999999999999


Q ss_pred             hhhhhhHHHHHHHHHHHHHHHH
Q 028367          174 IYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       174 ~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      .|+++  ++..|..+..+..|+
T Consensus       159 ~~~~~--Le~~~~~~ms~~ea~  178 (221)
T d1yara1         159 AVVSF--LEREYKENLPEKEAV  178 (221)
T ss_dssp             HHHHH--HHHHCCTTCCHHHHH
T ss_pred             HHHHH--HHHHhhccccHHHHH
Confidence            99998  456777666665553

>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=1.6e-49  Score=331.91  Aligned_cols=184  Identities=29%  Similarity=0.509  Sum_probs=171.5

Q ss_pred             CcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHHH
Q 028367           10 DRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADART   89 (210)
Q Consensus        10 d~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~   89 (210)
                      |+++|+||||||++|+|||+||+++|+ |+|||+++||||||+|+|.+.+++..++.+||++|+++++|++||+.+|++.
T Consensus         1 d~~~t~fsp~G~l~Qveya~~a~~~G~-t~Vgi~~~dgVvla~d~r~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   79 (242)
T d1rype_           1 DRGVSTFSPEGRLFQVEYSLEAIKLGS-TAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARS   79 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSC-CEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHH
T ss_pred             CCCcceECCCCcchHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeCCccCcCcccCccceEEEcCCCEEEEEeecchhHHH
Confidence            789999999999999999999999998 9999999999999999999977887788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhc------CcccceEEEEEEEEeCCCCcEEEEECCCCceeee
Q 028367           90 LVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHA------YMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH  163 (210)
Q Consensus        90 l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~------~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~  163 (210)
                      +.+.++.+++.|+++++++++++.+++++++++|.|+++.      ++|||++++||+|+|++++|+||.+||+|++.++
T Consensus        80 l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~~  159 (242)
T d1rype_          80 MIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRY  159 (242)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceecc
Confidence            9999999999999999999999999999999999988754      4799999999999998768999999999999999


Q ss_pred             ceEEEccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          164 KVGGFFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       164 ~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      +++|+|+|++.++++  ++..|..+..+..++.
T Consensus       160 ~~~a~G~gs~~~~~~--Le~~~~~~ms~~ea~~  190 (242)
T d1rype_         160 NAKAIGSGSEGAQAE--LLNEWHSSLTLKEAEL  190 (242)
T ss_dssp             SEEEESTTHHHHHHH--HHHHCCTTCCHHHHHH
T ss_pred             ceeecccchHHHHHH--HHHhccCCCCHHHHHH
Confidence            999999999999998  5777887766666544

>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=1.3e-48  Score=324.08  Aligned_cols=185  Identities=35%  Similarity=0.544  Sum_probs=174.6

Q ss_pred             CCCcccceeCCCCccchhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHH
Q 028367            8 GYDRHITIFSPEGRLFQVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADA   87 (210)
Q Consensus         8 ~yd~~~t~Fsp~Grl~Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~   87 (210)
                      +||+++|+||||||++|||||+||+++|+ |+|||+++||||||+|++.+.+++..++.+||++|+++++|+++|+.+|+
T Consensus         4 gyd~~~t~fsp~Gr~~Qveya~kav~~G~-tvigik~~dgVvlaaD~r~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~   82 (233)
T d1irub_           4 GYSFSLTTFSPSGKLVQIEYALAAVAGGA-PSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPDY   82 (233)
T ss_dssp             CCCSBSCCCCTTSCCHHHHHHHHHHHTSC-CEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHHH
T ss_pred             CcCCCCCeECCCCcChHHHHHHHHHHcCC-CEEEEEeCCEEEEEEeCCcccCCccccccceEEEecCceEEEEeccchHH
Confidence            89999999999999999999999999998 99999999999999999998666677889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEE
Q 028367           88 RTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGG  167 (210)
Q Consensus        88 ~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a  167 (210)
                      +.+++.++.+++.|++++|++++++.+++.++..+|++++..+.||++++++++|+|++ ||+||.+||.|++.+++++|
T Consensus        83 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~-~~~ly~id~~G~~~~~~~~a  161 (233)
T d1irub_          83 RVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEG-RPYLFQSDPSGAYFAWKATA  161 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSS-SEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccC-CceEEEEcCCcceEecccee
Confidence            99999999999999999999999999999999999999999999999999999999977 89999999999999999999


Q ss_pred             EccCCchhhhhhHHHHHHHHHHHHHHHHH
Q 028367          168 FFNKNSIYDTFCFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       168 ~G~gs~~a~~~~~~~~~~~~~~~~~~~~~  196 (210)
                      +|+|++++.++  ++..|..+..+..++.
T Consensus       162 ~G~gs~~~~~~--Le~~~~~~ms~eea~~  188 (233)
T d1irub_         162 MGKNYVNGKTF--LEKRYNEDLELEDAIH  188 (233)
T ss_dssp             ESTTHHHHHHH--HHHHCCTTCCHHHHHH
T ss_pred             cCCcHHHHHHH--HHhhcccCccHHHHHH
Confidence            99999999998  5667777766666554

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=1.1e-35  Score=245.93  Aligned_cols=162  Identities=14%  Similarity=0.128  Sum_probs=141.1

Q ss_pred             hhhhHHHHHhccCceEEEEEcCCEEEEEEecCCCcceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHH
Q 028367           24 QVEYAFKAVKAAGVTSIGVRGKDSVCVVTQKKVPDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRF  103 (210)
Q Consensus        24 Qveya~kav~~gg~tvIgik~~dgVVlaad~~~~~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~  103 (210)
                      |+|||.|++++|+ |+|||+++||||||+|+|.+       ..+||++|+|||+|+++|+.+|++.+++++|.++..|++
T Consensus         8 q~eyA~~av~~Gt-T~vgi~~~~GVvlaad~r~~-------s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~   79 (227)
T d1q5qa_           8 RSELARKGIARGR-SVVVLTFRDGVLFVAENPST-------ALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGY   79 (227)
T ss_dssp             HHHHHHHHHHTSC-CEEEEECSSEEEEEECCSCS-------SSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-CEEEEEECCEEEEEEccCCC-------CcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHH
Confidence            9999999999988 99999999999999999863       468999999999999999999999999999999999999


Q ss_pred             HhCC-CCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCC---CCcEEEEECCCCceeeece-EEEccCCchhhhh
Q 028367          104 KYGY-EMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEE---CGPRLFKCDPAGHFFGHKV-GGFFNKNSIYDTF  178 (210)
Q Consensus       104 ~~g~-~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~---~gp~Ly~vD~~Gs~~~~~~-~a~G~gs~~a~~~  178 (210)
                      +++. +++++.+++.++.+++. ++..+.|||++++||+|||..   .+|+||.+||+|++.+++. ++.|++++.+.++
T Consensus        80 ~~~~~~~~~~~la~~~~~~~~~-~~~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~  158 (227)
T d1q5qa_          80 SYDRRDVTGRSLANAYAQTLGT-IFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATA  158 (227)
T ss_dssp             HSCGGGCCHHHHHHHHHHHHHH-HHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHH
T ss_pred             HhCCCCCcHHHHHHHHHHHHHH-HHHhcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHHHHH
Confidence            9984 68999999999988764 344577999999999999963   4799999999999988765 5556778888888


Q ss_pred             hHHHHHHHHHHHHHHHHH
Q 028367          179 CFLSAIWIYNAIIVYILH  196 (210)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~  196 (210)
                        ++..|..+..+..++.
T Consensus       159 --Le~~y~~~ms~eea~~  174 (227)
T d1q5qa_         159 --MRESYRADLDLEAAVG  174 (227)
T ss_dssp             --HHHHCCTTCCHHHHHH
T ss_pred             --HHHhccCCCCHHHHHH
Confidence              4667777776666654

>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=6.9e-35  Score=236.47  Aligned_cols=152  Identities=22%  Similarity=0.335  Sum_probs=138.3

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|++++++++||..+|++.+.+.+|.+++.|+..++++++++.++
T Consensus         1 TT~igi~~kdgVvia~D~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (203)
T d1yarh1           1 TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVA   80 (203)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCEeecCCcccEEEecCCeeeecCCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            699999999999999999988 8888899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      ++++++++.+    +.|||++++++||+|+  +|+||.+||+|++.+++++|+|+|++.++++.  +..|..+..+..|+
T Consensus        81 ~~l~~~~~~~----~~~p~~~~~lvaG~d~--~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L--~~~~~~~~s~eea~  152 (203)
T d1yarh1          81 TLLSNMLNQV----KYMPYMVQLLVGGIDT--APHVFSIDAAGGSVEDIYASTGSGSPFVYGVL--ESQYSEKMTVDEGV  152 (203)
T ss_dssp             HHHHHHHHHT----TTSCCCEEEEEEEESS--SEEEEEECTTCCEEEESEEEESTTHHHHHHHH--HHHCCTTCCHHHHH
T ss_pred             HHHHHHHHhh----ccCCccceeEEEEEcC--CCeeEecCCccceecccccccCCCcHHHHHHH--HHhccCCCCHHHHH
Confidence            9999988765    5789999999999986  69999999999999999999999999999984  55555555544444


Q ss_pred             H
Q 028367          196 H  196 (210)
Q Consensus       196 ~  196 (210)
                      .
T Consensus       153 ~  153 (203)
T d1yarh1         153 D  153 (203)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.3e-34  Score=234.21  Aligned_cols=153  Identities=14%  Similarity=0.137  Sum_probs=138.0

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.+|.+++.|+++++++++++.++
T Consensus         2 ~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   81 (198)
T d1rypk_           2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVS   81 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             eEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHH
Confidence            599999999999999999998 7777788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCC-CCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEE-CGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVY  193 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~-~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~  193 (210)
                      ++++..++.+++  +.|||++++||+|||+. +||+||.+||+|++.+++++|+|+|+.++.++.  +..|..+.....
T Consensus        82 ~~i~~~~~~~~~--~~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~L--e~~~~~~~~~ee  156 (198)
T d1rypk_          82 SFVRQELAKSIR--SRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLL--DHHYRPDMTTEE  156 (198)
T ss_dssp             HHHHHHHHHHTT--SSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHH--HHHCCTTCCHHH
T ss_pred             HHHHHHHHHHHh--cccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHH--HhcccccCCHHH
Confidence            999999977643  57999999999999974 589999999999999999999999999999984  444544443333

>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=4.3e-35  Score=237.50  Aligned_cols=138  Identities=16%  Similarity=0.185  Sum_probs=132.3

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|++.+ +.++.+++.+||++|+++++|+++|..+|++.+.+.++.+++.|+..++++++++.++
T Consensus         1 TT~igi~~~dgVvlaaD~~~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (201)
T d1irul_           1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (201)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCCEeecCCcccEEEeCCcEEEEEcCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHH
Confidence            699999999999999999988 7888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~  179 (210)
                      +++++.+|.+    +.+||+++++++|+|++ +|+||.+||+|++.+++++|+|+|+++|.++.
T Consensus        81 ~~l~~~~~~~----~~~p~~~~~lvaG~d~~-~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L  139 (201)
T d1irul_          81 KLLANMVYQY----KGMGLSMGTMICGWDKR-GPGLYYVDSEGNRISGATFSVGSGSVYAYGVM  139 (201)
T ss_dssp             HHHHHHHHTT----TTSCCCBEEEEEEECSS-SEEEEEEESSSCEEECSEEEESTTHHHHHHHH
T ss_pred             HHHHHHhhhc----cCCCceEEEEEEEEecC-CceEEEEccCceEEEeeeEEecCchHHHHHHH
Confidence            9999999866    46899999999999987 99999999999999999999999999999984

>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=8.9e-34  Score=230.68  Aligned_cols=153  Identities=12%  Similarity=0.134  Sum_probs=136.2

Q ss_pred             HhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 028367           32 VKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMP  110 (210)
Q Consensus        32 v~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~  110 (210)
                      +++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|+++|..+|++.+.+.++.+++.|+++++++ +
T Consensus         6 v~~Gt-Tivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~   83 (205)
T d1ryph_           6 VSLGA-SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-S   83 (205)
T ss_dssp             CBCCC-CEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-C
T ss_pred             ccCcc-eEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-c
Confidence            56787 99999999999999999998 788888899999999999999999999999999999999999999999965 5


Q ss_pred             HHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHH
Q 028367          111 VDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAI  190 (210)
Q Consensus       111 ~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~  190 (210)
                      +..++++++.+++.+     .+||+++++|+|||++++|+||.+||.|++.+++++|+|+|+++|++++  +..|..+..
T Consensus        84 ~~~~~~~~~~~~~~~-----~~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~L--e~~~~~~ms  156 (205)
T d1ryph_          84 TETAASVFKELCYEN-----KDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYC--DKNFRENMS  156 (205)
T ss_dssp             HHHHHHHHHHHHHHT-----TTTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHH--HHHCCTTCC
T ss_pred             HHHHHHHHHHHHHhC-----ccCceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHH--HhhhhcccC
Confidence            788999999988643     4799999999999987789999999999999999999999999999995  444444443


Q ss_pred             HHH
Q 028367          191 IVY  193 (210)
Q Consensus       191 ~~~  193 (210)
                      +..
T Consensus       157 ~~e  159 (205)
T d1ryph_         157 KEE  159 (205)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>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=1.6e-33  Score=228.34  Aligned_cols=151  Identities=13%  Similarity=0.110  Sum_probs=138.3

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.+|.+++.|+++++.+++++.++
T Consensus         1 TTivai~~~dgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1iruh_           1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCccccCCeeecCCcceEEEcCCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            699999999999999999998 7888889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYI  194 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~  194 (210)
                      ++++..++++     .+||+++++++|+|++++|+||.+||.|++.+.+++|+|+|++++++++  +..|..+..+..+
T Consensus        81 ~~l~~~l~~~-----~~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L--~~~~~~~~~~~ea  152 (202)
T d1iruh_          81 SLFKEMCYRY-----REDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYV--DATYREGMTKEEC  152 (202)
T ss_dssp             HHHHHHHHHT-----TTTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHH--HHHCCTTCCHHHH
T ss_pred             HHHHHHHHhh-----ccceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHH--HHhhccCCcHHHH
Confidence            9999999765     3699999999999987789999999999999999999999999999985  4455544444443

>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=3.8e-34  Score=233.77  Aligned_cols=152  Identities=12%  Similarity=0.133  Sum_probs=138.8

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|+++|..+|++.+.+.+|.+++.|++.++++++++.++
T Consensus         1 TT~iai~~kdgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (212)
T d1rypl_           1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            699999999999999999988 7888889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYI  194 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~  194 (210)
                      +++++++|+|    +.+|+++..+++|+|++.||+||.+||+|++.+++++|+|+|++++++++  +..|..+..+..|
T Consensus        81 ~~ls~~~~~~----~~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~L--e~~~~~~mt~~ea  153 (212)
T d1rypl_          81 KILSNLVYQY----KGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVL--DSNYKWDLSVEDA  153 (212)
T ss_dssp             HHHHHHHHHT----TTSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHH--HHHCCTTCCHHHH
T ss_pred             HHHHHHHHHh----ccCCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHH--HHhccCCCCHHHH
Confidence            9999999876    45799999999999988789999999999999999999999999999984  4555554444433

>d1j2qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=8.6e-34  Score=229.14  Aligned_cols=151  Identities=17%  Similarity=0.247  Sum_probs=136.7

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|+++++|++||..+|++.+.+.++.+++.|+..++.+++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~s~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1j2qh_           1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCeeccCccceEEEecCcEEEEecCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHH
Confidence            699999999999999999988 8888889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeee-ceEEEccCCchhhhhhHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGH-KVGGFFNKNSIYDTFCFLSAIWIYNAIIVYI  194 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~-~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~  194 (210)
                      +++++++|.+    +.|||+++++|+|+|++ +|+||.+||+|+..++ +++|+|+|++++++++  +..|..+..+..+
T Consensus        81 ~~~~~~~~~~----~~~p~~~~~lvaG~d~~-~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~L--e~~~~~~ms~~ea  153 (202)
T d1j2qh_          81 TLTSNLLNSY----RYFPYLVQLLIGGIDSE-GKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVL--EDRFTPEIGVDEA  153 (202)
T ss_dssp             HHHHHHHHHT----TTSCCCEEEEEEEEETT-EEEEEEECTTCCEEEESSEEEESTTHHHHHHHH--HHHCCTTCCHHHH
T ss_pred             HHHHHHHhhh----cccceeeEEEEEEEcCC-CceEEEEeCCCCeEeecceEEccCChHHHHHHH--HhhcCCCCCHHHH
Confidence            9999999877    35799999999999987 8999999999998776 5899999999999984  4455544444333

>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=7.4e-34  Score=235.02  Aligned_cols=165  Identities=12%  Similarity=0.104  Sum_probs=147.1

Q ss_pred             HHHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHh---
Q 028367           30 KAVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKY---  105 (210)
Q Consensus        30 kav~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~---  105 (210)
                      +++..|+ |+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|..+|++.+.+.++.++..|++++   
T Consensus         3 ~~i~tGt-Tivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~   81 (233)
T d1ryp2_           3 QPIVTGT-SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCEEEC-CEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             CCccccc-eEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCC
Confidence            4567887 99999999999999999988 888889999999999999999999999999999999999999998876   


Q ss_pred             --CCCCCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh----
Q 028367          106 --GYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC----  179 (210)
Q Consensus       106 --g~~i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~----  179 (210)
                        +.+++++.++++++..+  |+++.++|||+++++|+|+|++++|.||.+||.|++.+++++|+|+|+++|++++    
T Consensus        82 ~~~~~~~~~~~a~~l~~~~--y~~~~~~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~  159 (233)
T d1ryp2_          82 DAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             CCCcccCHHHHHHHHHHHH--HhhccccCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHH
Confidence              57889999999999987  5667789999999999999988789999999999999999999999999999985    


Q ss_pred             ----------HHHHHHHHHHHHHHHHHh
Q 028367          180 ----------FLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       180 ----------~~~~~~~~~~~~~~~~~~  197 (210)
                                +++|....-+++..+++|
T Consensus       160 ~~~~~~~~ms~eeA~~l~~~al~~~~~r  187 (233)
T d1ryp2_         160 DRESDIPKTTVQVAEEAIVNAMRVLYYR  187 (233)
T ss_dssp             CSGGGGGGCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccccccCHHHHHHHHHHHHHHHHHh
Confidence                      334555556666666554

>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=1.8e-33  Score=230.97  Aligned_cols=151  Identities=13%  Similarity=0.071  Sum_probs=137.0

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++++|.+++++.++
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEecCcEEEEEccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            699999999999999999998 6777788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYIL  195 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~~  195 (210)
                      ++++++++++     .+|+++++||+|+|++ ||+||.+||.|++.+++++|+|+|++++++++  +..|..+..+..|+
T Consensus        81 ~~l~~~~y~~-----~~p~~~~~ivaG~D~~-g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L--~~~~~~~~s~~ea~  152 (220)
T d1irui_          81 RMLKQMLFRY-----RGYIGAALVLGGVDVT-GPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVF--EDKFRPDMEEEEAK  152 (220)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEECSS-CEEEEEECTTSCEEECSEEEESTTHHHHHHHH--HHSCCTTCCHHHHH
T ss_pred             HHHHhhhhhc-----ccccceeEEEEEEeCC-CcEEEEEeCCCcEEEeeEEEEccccHHHHHHH--HHhcccCCCHHHHH
Confidence            9999998643     4799999999999987 89999999999999999999999999999985  55555554444443

>d1rypi_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.6e-32  Score=225.74  Aligned_cols=149  Identities=14%  Similarity=0.134  Sum_probs=135.5

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|+++|..+|++.+.+.++.+++.|++.++.++++..++
T Consensus         1 TTiVgik~~dGVviaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a   80 (222)
T d1rypi_           1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCceeecCCcccEEEEcCCEEEEecccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHH
Confidence            699999999999999999998 7888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVY  193 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~  193 (210)
                      +++++.++.     +.+|++++++++|+|++ ||+||.+||+|++.+++++|+|+|+++|++++  +..|..+..+..
T Consensus        81 ~~l~~~~~~-----~~~p~~~~~l~aG~d~~-g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~L--e~~~k~~ms~ee  150 (222)
T d1rypi_          81 QMLKQHLFK-----YQGHIGAYLIVAGVDPT-GSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVL--ESHWKQDLTKEE  150 (222)
T ss_dssp             HHHHHHHHH-----TTTCSCEEEEEEEEETT-EEEEEEECTTSCEEECSEEEESTTHHHHHHHH--HHHCCSSCCHHH
T ss_pred             HHHHHHHHh-----hhhccceeEEEEEEcCC-CcEEEEEecCcceEEeeEEEECCCcHHHHHHH--HhhccCCCCHHH
Confidence            999988754     35799999999999986 99999999999999999999999999999995  444544443333

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=3.4e-32  Score=222.97  Aligned_cols=142  Identities=18%  Similarity=0.268  Sum_probs=129.7

Q ss_pred             hccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhC-CCCC
Q 028367           33 KAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYG-YEMP  110 (210)
Q Consensus        33 ~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g-~~i~  110 (210)
                      ++|+ |+|||+++||||||+|+|.+ +.++..++.+||++|++++++++||+.+|++.+.+++|.+++.|++.++ ..++
T Consensus         7 ~nG~-Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T d1ryp1_           7 DNGG-TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCC-EEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             CCCc-EEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCc
Confidence            5788 99999999999999999998 6777788999999999999999999999999999999999999998876 5678


Q ss_pred             HHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh
Q 028367          111 VDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       111 ~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~  179 (210)
                      +..++++++..++    +.+.|||+++++|+|+|++++|+||.+||+|++.+++++|+|+|+++|+++.
T Consensus        86 ~~~~~~~~~~~~~----~~~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~L  150 (222)
T d1ryp1_          86 INSAARNIQHLLY----GKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFL  150 (222)
T ss_dssp             HHHHHHHHHHHHH----TTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHH
T ss_pred             HHHHHHHHHHHHH----hhhhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHH
Confidence            8888887776654    4578999999999999998779999999999999999999999999999983

>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=4.6e-32  Score=219.99  Aligned_cols=160  Identities=14%  Similarity=0.193  Sum_probs=140.6

Q ss_pred             hccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCH
Q 028367           33 KAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPV  111 (210)
Q Consensus        33 ~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~  111 (210)
                      -||+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++.++++
T Consensus         5 ~nG~-Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1iruj_           5 YNGG-AVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   83 (204)
T ss_dssp             SSCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             eCCc-eEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccch
Confidence            3687 99999999999999999998 778888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCC-CCcEEEEECCCCceeee-ceEEEccCCchhhhhh---------H
Q 028367          112 DVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEE-CGPRLFKCDPAGHFFGH-KVGGFFNKNSIYDTFC---------F  180 (210)
Q Consensus       112 ~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~-~gp~Ly~vD~~Gs~~~~-~~~a~G~gs~~a~~~~---------~  180 (210)
                      +.++++++.++|++    +.+||+++++|||+|++ .+|.+|.+|+.|....+ .++++|+|+++++++.         +
T Consensus        84 ~~~a~~l~~~~~~~----~~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~  159 (204)
T d1iruj_          84 YTLMSMVANLLYEK----RFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDP  159 (204)
T ss_dssp             HHHHHHHHHHHHTT----TTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHHHHh----hhccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCCCH
Confidence            99999999999754    56899999999999976 35889999999997765 6789999999999985         4


Q ss_pred             HHHHHHHHHHHHHHHHh
Q 028367          181 LSAIWIYNAIIVYILHW  197 (210)
Q Consensus       181 ~~~~~~~~~~~~~~~~~  197 (210)
                      ++|....-+++..+..|
T Consensus       160 ~ea~~l~~~al~~a~~r  176 (204)
T d1iruj_         160 DHLFETISQAMLNAVDR  176 (204)
T ss_dssp             HHHHHHHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            55555555555555544

>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=4.5e-32  Score=221.99  Aligned_cols=145  Identities=14%  Similarity=0.124  Sum_probs=134.4

Q ss_pred             HHhccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHH-hCCC
Q 028367           31 AVKAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFK-YGYE  108 (210)
Q Consensus        31 av~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~-~g~~  108 (210)
                      ++.+|+ |+|||+++||||||+|+|.+ +.++..++.+||++|+++++++++|..+|++.+.+.++.++..|+.. ++.+
T Consensus         4 ~~~~Gt-Tivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T d1iru2_           4 PMVTGT-SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHS   82 (217)
T ss_dssp             CCSEEC-CCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             CcCccc-EEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCC
Confidence            356787 99999999999999999988 78888899999999999999999999999999999999999987754 5799


Q ss_pred             CCHHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh
Q 028367          109 MPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       109 i~~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~  179 (210)
                      ++++.+++++++.+  |+++...|||+++++++|+|++ +|+||.+||+|++.+++++|+|+|+++|++++
T Consensus        83 ~~v~~~a~~l~~~~--y~~~~~~~p~~~~~li~G~d~~-~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~L  150 (217)
T d1iru2_          83 YSPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYADG-ESFLGYVDMLGVAYEAPSLATGYGAYLAQPLL  150 (217)
T ss_dssp             CCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEEETT-EEEEEEECSSCCEEECSEEECTTHHHHTHHHH
T ss_pred             CCHHHHHHHHHHHH--HHhccccCcccceEEEEEEcCC-CcEEEEEecCceeEeeeEEeccCcHHHHHHHH
Confidence            99999999999987  6667789999999999999976 89999999999999999999999999999995

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.98  E-value=1.9e-31  Score=215.72  Aligned_cols=159  Identities=15%  Similarity=0.148  Sum_probs=137.5

Q ss_pred             hccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCH
Q 028367           33 KAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPV  111 (210)
Q Consensus        33 ~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~  111 (210)
                      .+|+ |+|||+++||||||+|++.+ +.++..++.+||+++ ++++++++|..+|++.+.+.+|.+++.|+++++.++++
T Consensus         6 ~nG~-Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1rypj_           6 INGG-IVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEP   83 (204)
T ss_dssp             SSCC-EEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             cCCe-EEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcc
Confidence            3687 99999999999999999998 677778889999999 59999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCC-CcEEEEECCCCceeee-ceEEEccCCchhhhhh---------H
Q 028367          112 DVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEEC-GPRLFKCDPAGHFFGH-KVGGFFNKNSIYDTFC---------F  180 (210)
Q Consensus       112 ~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~-gp~Ly~vD~~Gs~~~~-~~~a~G~gs~~a~~~~---------~  180 (210)
                      +.+++++++.+|.+    +.+||+++++++|||+.+ .|+||++||+|++.++ .+++.|+|++++.+++         .
T Consensus        84 ~~la~~l~~~l~~~----~~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~  159 (204)
T d1rypj_          84 ETFTQLVSSSLYER----RFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEP  159 (204)
T ss_dssp             HHHHHHHHHHHHTT----TTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             hHHHHHHHHHHHhh----cccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccCCCH
Confidence            99999999998754    468999999999999753 4899999999999877 4788899999999986         4


Q ss_pred             HHHHHHHHHHHHHHHHh
Q 028367          181 LSAIWIYNAIIVYILHW  197 (210)
Q Consensus       181 ~~~~~~~~~~~~~~~~~  197 (210)
                      ++|..+..+++..+..|
T Consensus       160 ~ea~~l~~~al~~a~~~  176 (204)
T d1rypj_         160 EDLFETISQALLNAADR  176 (204)
T ss_dssp             HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            44444444444444443

>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=4e-31  Score=214.01  Aligned_cols=160  Identities=13%  Similarity=0.191  Sum_probs=145.2

Q ss_pred             hccCceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCH
Q 028367           33 KAAGVTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPV  111 (210)
Q Consensus        33 ~~gg~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~  111 (210)
                      .+|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|..+|++.+.+++|.+++.|+.+++.++++
T Consensus         7 ~nG~-Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (213)
T d1iru1_           7 FNGG-TILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCC-EEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             CCCc-EEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhH
Confidence            4787 99999999999999999998 677778889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh------------
Q 028367          112 DVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC------------  179 (210)
Q Consensus       112 ~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~------------  179 (210)
                      +.++++++..+|.+    +.+|++++.+++|+|.+++|.+|.+||.|++.+++++|+|+|+++|.++.            
T Consensus        86 ~~~~~~~~~~~~~~----~~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~  161 (213)
T d1iru1_          86 GAIAAMLSTILYSR----RFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNV  161 (213)
T ss_dssp             HHHHHHHHHHHHTT----TTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSC
T ss_pred             HHHHHHHHHHHHHH----HhhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhcc
Confidence            99999999999765    56799999999999998889999999999999999999999999999873            


Q ss_pred             ------HHHHHHHHHHHHHHHHHh
Q 028367          180 ------FLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       180 ------~~~~~~~~~~~~~~~~~~  197 (210)
                            +++|..+..+++..+..+
T Consensus       162 ~~~~~s~~ea~~~~~~~l~~~~~~  185 (213)
T d1iru1_         162 EHVPLSLDRAMRLVKDVFISAAER  185 (213)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCCHHHHHHHHHHHHHHHHHh
Confidence                  345666677776666654

>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=3.5e-30  Score=210.84  Aligned_cols=160  Identities=16%  Similarity=0.114  Sum_probs=142.4

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|++.+ ++++..++.+||++|+++++++++|..+|++.+.+.++.+++.|+++++.+++++.++
T Consensus         1 TTivgi~~kdgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T d1q5qh_           1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (224)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeecCCcceEEEeCCcEEEEecccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHH
Confidence            699999999999999999988 7888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeC-----CCCcEEEEECCCCceeee--ceEEEccCCchhhhhh---------
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDE-----ECGPRLFKCDPAGHFFGH--KVGGFFNKNSIYDTFC---------  179 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~-----~~gp~Ly~vD~~Gs~~~~--~~~a~G~gs~~a~~~~---------  179 (210)
                      +++++.+|.+++ ...+|+++.++++|+|.     +++|+||.+||+|+..++  ++.|+|+|+++|++++         
T Consensus        81 ~~~~~~~~~~~~-~~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt  159 (224)
T d1q5qh_          81 NRLASMVRGNLG-AAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSD  159 (224)
T ss_dssp             HHHHHHHHTTHH-HHTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHhhc-ccccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCC
Confidence            999999998864 56789999999998873     447999999999998765  7799999999999996         


Q ss_pred             HHHHHHHHHHHHHHHHHh
Q 028367          180 FLSAIWIYNAIIVYILHW  197 (210)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~  197 (210)
                      .++|.....+++..++.|
T Consensus       160 ~~ea~~l~~~al~~a~~r  177 (224)
T d1q5qh_         160 EETALRAAIESLYDAADD  177 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            445555566666666655

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.97  E-value=6.2e-30  Score=203.79  Aligned_cols=154  Identities=15%  Similarity=0.186  Sum_probs=138.8

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      |++|||+++||||||+|+|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+..++.+++++.++
T Consensus         2 t~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   81 (199)
T d1iruk_           2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAA   81 (199)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             eEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHH
Confidence            589999999999999999998 6777778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHHHHHH
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAIIVYI  194 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~~~~~  194 (210)
                      +.++..++.+  ....+|++++++++|+|++.+|+||.+||.|.+.+.+++|+|+|++++++++  +..|..+..+..+
T Consensus        82 ~~l~~~~~~~--~~~~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l--~~~~~~~~~~~ea  156 (199)
T d1iruk_          82 NFTRRNLADC--LRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSIL--DRYYTPTISRERA  156 (199)
T ss_dssp             HHHHHHHHHH--HTSSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHH--HHHCCTTCCHHHH
T ss_pred             HHHHHHHHHH--hhccCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHH--HHhccCCCCHHHH
Confidence            9999988655  4567899999999999998789999999999999999999999999999985  5555555444333

>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=99.79  E-value=7.6e-20  Score=142.64  Aligned_cols=132  Identities=8%  Similarity=-0.104  Sum_probs=102.0

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCcEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLA  115 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~la  115 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++.+|..+|.+.+.+..+.+...+...     ......
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~~-----~~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGG-----NLTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT-----CHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhhc-----cchhhH
Confidence            699999999999999999999 89999999999999999999999999999998888776665543321     122222


Q ss_pred             HHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh
Q 028367          116 KWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       116 ~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~  179 (210)
                      ......+...     ..++....++.+.+++ +|.++..|+.|.....++.|+|+|+++|++.+
T Consensus        76 ~~~~~~~~~~-----~~~~~~~~~~~~~~~~-~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l  133 (171)
T d1m4ya_          76 VELAKDWRTD-----RVLRRLEALLLVADKE-NIFIISGNGEVIQPDDDAAAIGSGGPYALAAA  133 (171)
T ss_dssp             HHHHHHHHHC-----TTGGGCCCEEEEECSS-CEEEECTTSCEECCSSSEEEESTTHHHHHHHH
T ss_pred             HHHHHHHHHh-----hhhcccccccceecCC-cceEEecCCceeeecCCEEEEcchHHHHHHHH
Confidence            2222222211     2233344445555655 89999999999999999999999999999984

>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=99.75  E-value=9e-18  Score=131.00  Aligned_cols=132  Identities=13%  Similarity=-0.059  Sum_probs=94.9

Q ss_pred             ceEEEEEcCCEEEEEEecCCC-cceeecCCcceeeeEcCc-EEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 028367           37 VTSIGVRGKDSVCVVTQKKVP-DKLLDHTSVTHLFPITKY-LGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVL  114 (210)
Q Consensus        37 ~tvIgik~~dgVVlaad~~~~-~~li~~~~~~KI~~I~~~-i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~~~~l  114 (210)
                      ||+|||+++||||||+|+|.+ ++++.+++.+||++|+++ ++++.+|...|.+.+.+..+.+...      .+.+....
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEM------HQGHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHH------TTTCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHh------hcCcchhH
Confidence            699999999999999999999 899999999999999887 5556666666665555444333222      22333334


Q ss_pred             HHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhh
Q 028367          115 AKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFC  179 (210)
Q Consensus       115 a~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~  179 (210)
                      +..+...+..    ....+..... +.+.|.++++.++..|..|...+..+.|+|+|+.+|++..
T Consensus        75 ~~~~~~~~~~----~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l  134 (173)
T d1g3ka_          75 AVELAKDWRT----DRALRKLEAM-LIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAA  134 (173)
T ss_dssp             HHHHHHHHHH----STTGGGCCCE-EEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHH
T ss_pred             HHHHHHHHHH----hhhhcccccc-cccccCCCcceecccCceEEecCCCEEEecchHHHHHHHH
Confidence            4444443321    2333344444 4455666689999999999999999999999999999973

>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=99.71  E-value=3.9e-18  Score=134.17  Aligned_cols=146  Identities=11%  Similarity=-0.069  Sum_probs=94.7

Q ss_pred             ccCceEEEEEcCCEEEEEEecCCC-cceeec-CCcceeeeEcC-cEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 028367           34 AAGVTSIGVRGKDSVCVVTQKKVP-DKLLDH-TSVTHLFPITK-YLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMP  110 (210)
Q Consensus        34 ~gg~tvIgik~~dgVVlaad~~~~-~~li~~-~~~~KI~~I~~-~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~g~~i~  110 (210)
                      +|+ |+|||+++||||||+|+|.+ ++++.. ...+|++++++ .++++.+|...|.+.+.+..+.+.+.++...     
T Consensus         4 ~GT-Tivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-----   77 (180)
T d2z3ba1           4 HAT-TIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNL-----   77 (180)
T ss_dssp             CCC-CEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCH-----
T ss_pred             CCe-EEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhcccc-----
Confidence            565 99999999999999999998 776664 46789999987 5888899999999999998887766543222     


Q ss_pred             HHHHHHHHHHHHHHhhhhcCcccceEEEEEEEEeCCCCcEEEEECCCCceeeeceEEEccCCchhhhhhHHHHHHHHHHH
Q 028367          111 VDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKVGGFFNKNSIYDTFCFLSAIWIYNAI  190 (210)
Q Consensus       111 ~~~la~~ls~~~~~~t~~~~~rP~gv~~ivaG~D~~~gp~Ly~vD~~Gs~~~~~~~a~G~gs~~a~~~~~~~~~~~~~~~  190 (210)
                      ...+.............+....++.......+++.. ++.++..      ....+.|+|+|+.+|++.  +++.|..++.
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~------~~~~~~a~GSGs~~A~g~--l~~~~~~~~s  148 (180)
T d2z3ba1          78 KRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVS-GTGEVIE------PDDGILAIGSGGNYALAA--GRALKKHAGE  148 (180)
T ss_dssp             HHHHHHHHHHHHHCTTGGGCCCCEEEECSSCEEEEC-TTCCEEC------CSSSEEEESTTHHHHHHH--HHHHHHHHGG
T ss_pred             chhHHHHHHHHhHHHHHHHhhcceeeeecccccccc-CCceeec------ccccEEEEcCchHHHHHH--HHHHhhcCCC
Confidence            111222222222111122233344444344444433 4444444      444588999999999998  4666655544


Q ss_pred             HHHH
Q 028367          191 IVYI  194 (210)
Q Consensus       191 ~~~~  194 (210)
                      ...|
T Consensus       149 ~~eA  152 (180)
T d2z3ba1         149 SMSA  152 (180)
T ss_dssp             GCCH
T ss_pred             ccCH
Confidence            4333