Psyllid ID: psy13966

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170----
Protein Sequence
TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQKK
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHHHccHHccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHcccccccEEEEEcccccccccEEEEEccccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccccEEEEEEEEccccEEEccHHHHHHHHHHHHccHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
EEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHEcccccccEEEEEEEEEccccEEEEEEcccccEEEEcEEEEcccHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHccccccEEEEEEEcccEEEcccHHHHHHHHHHHHHHHHccHHHHcccc
Coil and Loop (DISEMBL)
TGLTADARILINRAQIEcqshkltvedpvTLEYITRYIAGLKQKytqsngrrpfgiscliggfdydgkprlyqtepsgiyyewkanatgrSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQKK
Flexible Loop (DISEMBL)
tgltadarILINraqiecqshkltvedpvtLEYITRYIAGLKqkytqsngrrPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWkanatgrsaKTVREFLEKfykseemtteKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEkekedeaekkkqkk
Low Complexity Region (SEG)
TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIeeyvneiekekedeaekkkqkk
Disordered region (IsUnstruct)
******ARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV******************
Disordered Region (DISOPRED)
TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVN*****************
Disordered Region (DISEMBL)
TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIE**************
Disordered Region (DISPRO)
TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKED*********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSxxxxxxxxxxxxxxxxxxxxxxxxKK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	174	2.2.26 [Sep-21-2011]
Q9CWH6	250	Proteasome subunit alpha	yes	N/A	0.988	0.688	0.710	8e-68
P22769	249	Proteasome subunit alpha	yes	N/A	0.896	0.626	0.743	2e-67
O16811	247	Proteasome subunit alpha	N/A	N/A	0.908	0.639	0.754	1e-66
Q9PVQ1	247	Proteasome subunit alpha	N/A	N/A	0.890	0.627	0.722	3e-64
Q9PVY6	248	Proteasome subunit alpha	N/A	N/A	0.890	0.625	0.722	3e-64
Q3ZBG0	248	Proteasome subunit alpha	yes	N/A	0.890	0.625	0.722	4e-64
Q9Z2U0	248	Proteasome subunit alpha	no	N/A	0.890	0.625	0.716	8e-64
P48004	254	Proteasome subunit alpha	yes	N/A	0.896	0.614	0.711	9e-64
Q5RDH8	248	Proteasome subunit alpha	yes	N/A	0.890	0.625	0.722	1e-63
Q9PTW9	251	Proteasome subunit alpha	N/A	N/A	0.890	0.617	0.716	2e-63

>sp|Q9CWH6|PSA7L_MOUSE Proteasome subunit alpha type-7-like OS=Mus musculus GN=Psma8 PE=2 SV=1

 Score =  256 bits (653), Expect = 8e-68,   Method: Compositional matrix adjust.
 Identities = 123/173 (71%), Positives = 147/173 (84%), Gaps = 1/173 (0%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR++I+RA++ECQSHKLTVEDPVT+EYITR+IA LKQKYTQSNGRRPFGIS LI 
Sbjct: 77  GLTADARVVISRARVECQSHKLTVEDPVTVEYITRFIATLKQKYTQSNGRRPFGISALIV 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD DG PRLYQT+PSG Y+ WKANA GRSAKTVREFLEK Y  + ++ +K  IKLAI+A
Sbjct: 137 GFDDDGIPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTEDAISNDKEAIKLAIKA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQKK 174
           LLEVVQSG KN+E+A++R  +P++M S  +IE  V+EIE+EK DEAEK K KK
Sbjct: 197 LLEVVQSGGKNIELAIIRRDQPLKMFSAKEIELEVSEIEREK-DEAEKTKSKK 248

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). This may be a testis-specific subunit.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|P22769|PSA71_DROME Proteasome subunit alpha type-7-1 OS=Drosophila melanogaster GN=Pros28.1 PE=1 SV=2

 Score =  254 bits (649), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 116/156 (74%), Positives = 132/156 (84%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLTADARI+INRAQ+ECQSH+L VEDPVTLEYITR+IA LKQKYTQSNGRRPFGISCLI
Sbjct: 76  AGLTADARIMINRAQVECQSHRLNVEDPVTLEYITRFIAQLKQKYTQSNGRRPFGISCLI 135

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           GGFD DG   L+QTEPSGI+YE+KANATGRSAK VREF EK Y+ EE+  E   +KLAIR
Sbjct: 136 GGFDADGSAHLFQTEPSGIFYEYKANATGRSAKVVREFFEKSYREEEVANEHGAVKLAIR 195

Query: 121 ALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           ALLEV QSGQ NLE+A+M +GKP++ML    I +YV
Sbjct: 196 ALLEVAQSGQNNLEVAIMENGKPLKMLDTDVITDYV 231

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

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O16811|PSA71_DROVI Proteasome subunit alpha type-7-1 OS=Drosophila virilis GN=Pros28.1 PE=3 SV=1

 Score =  251 bits (642), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 120/159 (75%), Positives = 137/159 (86%), Gaps = 1/159 (0%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLT DARILINRAQ+ECQSH+L VEDPVTLEYITRYIA LKQKYTQSNGRRPFGISCLI
Sbjct: 75  AGLT-DARILINRAQVECQSHRLNVEDPVTLEYITRYIAQLKQKYTQSNGRRPFGISCLI 133

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           GGFD DG P L+QTEPSGI+YE+KANATG SAKTVREF EK Y+ EE++TE+  +KLAIR
Sbjct: 134 GGFDADGSPYLFQTEPSGIFYEYKANATGCSAKTVREFFEKQYREEEVSTERGAVKLAIR 193

Query: 121 ALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
           ALLEV QSGQ NLE+A+M +GKP++ML    I EY++ I
Sbjct: 194 ALLEVAQSGQHNLEVAIMENGKPLKMLDRKVILEYLDII 232

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

Drosophila virilis (taxid: 7244)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9PVQ1|PSA7B_XENLA Proteasome subunit alpha type-7-B OS=Xenopus laevis GN=psma7-b PE=2 SV=1

 Score =  243 bits (621), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 112/155 (72%), Positives = 133/155 (85%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 75  GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct: 135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKHYTDEAIETDDLTIKLVIKA 194

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           LLEVVQSG KN+E+AVMR  +P+++L+  +IE YV
Sbjct: 195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEIERYV 229

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

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9PVY6|PSA7A_XENLA Proteasome subunit alpha type-7-A OS=Xenopus laevis GN=psma7-a PE=2 SV=1

 Score =  243 bits (621), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 112/155 (72%), Positives = 133/155 (85%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 75  GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct: 135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKHYTDEAIETDDLTIKLVIKA 194

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           LLEVVQSG KN+E+AVMR  +P+++L+  +IE YV
Sbjct: 195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEIERYV 229

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

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q3ZBG0|PSA7_BOVIN Proteasome subunit alpha type-7 OS=Bos taurus GN=PSMA7 PE=1 SV=1

 Score =  243 bits (621), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 112/155 (72%), Positives = 134/155 (86%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 75  GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct: 135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKA 194

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           LLEVVQSG KN+E+AVMR  +P+++L+  +IE+YV
Sbjct: 195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEIEKYV 229

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity (By similarity). Inhibits the transactivation function of HIF-1A under both normoxic and hypoxia-mimicking conditions.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9Z2U0|PSA7_MOUSE Proteasome subunit alpha type-7 OS=Mus musculus GN=Psma7 PE=1 SV=1

 Score =  242 bits (618), Expect = 8e-64,   Method: Compositional matrix adjust.
 Identities = 111/155 (71%), Positives = 134/155 (86%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 75  GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  + + T+  TIKL I+A
Sbjct: 135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAIETDDLTIKLVIKA 194

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           LLEVVQSG KN+E+AVMR  +P+++L+  +IE+YV
Sbjct: 195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEIEKYV 229

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. Inhibits the transactivation function of HIF-1A under both normoxic and hypoxia-mimicking conditions (By similarity). The interaction with EMAP2 increases the proteasome-mediated HIF-1A degradation under the hypoxic conditions (By similarity). Promotes MAVS degradation and thereby negatively regulates MAVS-mediated innate immune response.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P48004|PSA7_RAT Proteasome subunit alpha type-7 OS=Rattus norvegicus GN=Psma7 PE=1 SV=1

 Score =  242 bits (617), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 111/156 (71%), Positives = 134/156 (85%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GLTADARI+INRA++ECQSH+LTV DPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI
Sbjct: 80  SGLTADARIVINRARVECQSHRLTVGDPVTVEYITRYIASLKQRYTQSNGRRPFGISALI 139

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  + + T+  TIKL I+
Sbjct: 140 VGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAIETDDLTIKLVIK 199

Query: 121 ALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           ALLEVVQSG KN+E+AVMR  +P+++LS  +IE+YV
Sbjct: 200 ALLEVVQSGGKNIELAVMRRDQPLKILSPEEIEKYV 235

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. Inhibits the transactivation function of HIF-1A under both normoxic and hypoxia-mimicking conditions (By similarity). Promotes MAVS degradation and thereby negatively regulates MAVS-mediated innate immune response.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q5RDH8|PSA7_PONAB Proteasome subunit alpha type-7 OS=Pongo abelii GN=PSMA7 PE=2 SV=2

 Score =  242 bits (617), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 112/155 (72%), Positives = 133/155 (85%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVED VT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 75  GLTADARIVINRARVECQSHRLTVEDSVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct: 135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKA 194

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           LLEVVQSG KN+E+AVMR  +P+++L+  +IEEYV
Sbjct: 195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEIEEYV 229

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

Pongo abelii (taxid: 9601)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9PTW9|PSA7_CARAU Proteasome subunit alpha type-7 OS=Carassius auratus GN=psma7 PE=2 SV=1

 Score =  241 bits (614), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 111/155 (71%), Positives = 132/155 (85%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 77  GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIATLKQRYTQSNGRRPFGISALIV 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GRSAKTVREFLEK Y  E + ++   IKLAI+A
Sbjct: 137 GFDFDGTPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTDEAIASDNDAIKLAIKA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           LLEVVQSG KN+E+AV+R  +P+++L   +IE  V
Sbjct: 197 LLEVVQSGGKNIELAVIRRNQPLKILESKEIETLV 231

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.

Carassius auratus (taxid: 7957)

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	174
332375857	249	unknown [Dendroctonus ponderosae]	0.896	0.626	0.891	9e-79
189237685	249	PREDICTED: similar to proteasome beta-su	0.896	0.626	0.878	7e-77
114052034	249	proteasome beta-subunit [Bombyx mori] gi	0.908	0.634	0.841	6e-75
307201582	249	Proteasome subunit alpha type-7-1 [Harpe	0.896	0.626	0.852	9e-75
332019371	249	Proteasome subunit alpha type-7-1 [Acrom	0.896	0.626	0.852	1e-74
389611241	249	proteasome 28kD subunit 1 [Papilio polyt	0.908	0.634	0.841	2e-74
307181443	249	Proteasome subunit alpha type-7-1 [Campo	0.896	0.626	0.839	4e-74
322801471	249	hypothetical protein SINV_09089 [Solenop	0.896	0.626	0.846	5e-74
389609075	249	proteasome 28kD subunit 1 [Papilio xuthu	0.908	0.634	0.835	5e-74
156553324	248	PREDICTED: proteasome subunit alpha type	0.896	0.629	0.826	2e-73

>gi|332375857|gb|AEE63069.1| unknown [Dendroctonus ponderosae]

 Score =  297 bits (761), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 139/156 (89%), Positives = 145/156 (92%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIA LKQKYTQSNGRRPFGISCLIG
Sbjct: 77  GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIASLKQKYTQSNGRRPFGISCLIG 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG P LYQTEPSGIYYEWKANATGRSAKTVREFLEK+Y SEE++TE+ TIKLAIRA
Sbjct: 137 GFDYDGTPHLYQTEPSGIYYEWKANATGRSAKTVREFLEKYYTSEEVSTERGTIKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVN 157
           LLEVVQSGQKNLEIAVMRHG P+ ML    IE+YVN
Sbjct: 197 LLEVVQSGQKNLEIAVMRHGAPISMLDAETIEKYVN 232

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189237685|ref|XP_969117.2| PREDICTED: similar to proteasome beta-subunit [Tribolium castaneum] gi|270007836|gb|EFA04284.1| hypothetical protein TcasGA2_TC014574 [Tribolium castaneum]

 Score =  291 bits (745), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 137/156 (87%), Positives = 144/156 (92%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG
Sbjct: 77  GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDGKP LYQTEPSGIYYEWKANATGRSAKTVREFLEK+Y  EE+  E+ T+KLAIRA
Sbjct: 137 GFDYDGKPHLYQTEPSGIYYEWKANATGRSAKTVREFLEKYYTPEEVAEERGTVKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVN 157
           LLEVVQSGQKNLEIAVMRHG+P+ ML    IE+YV 
Sbjct: 197 LLEVVQSGQKNLEIAVMRHGEPLVMLDSDTIEKYVT 232

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|114052034|ref|NP_001040204.1| proteasome beta-subunit [Bombyx mori] gi|87248385|gb|ABD36245.1| proteasome beta-subunit [Bombyx mori]

 Score =  285 bits (728), Expect = 6e-75,   Method: Compositional matrix adjust.
 Identities = 133/158 (84%), Positives = 143/158 (90%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG
Sbjct: 77  GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG P L+QTEPSGIYYEWKANATGRSAKTVREFLEK Y ++E+ TE   +KLAIRA
Sbjct: 137 GFDYDGSPHLFQTEPSGIYYEWKANATGRSAKTVREFLEKNYTADEVATENGAVKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
           LLEVVQSGQKNLEIAVMR G+P++ML +  I  YV+ I
Sbjct: 197 LLEVVQSGQKNLEIAVMRRGQPMQMLDLDTINSYVSVI 234

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307201582|gb|EFN81344.1| Proteasome subunit alpha type-7-1 [Harpegnathos saltator]

 Score =  284 bits (727), Expect = 9e-75,   Method: Compositional matrix adjust.
 Identities = 133/156 (85%), Positives = 142/156 (91%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+LINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL+ 
Sbjct: 77  GLTADARVLINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLLA 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG P LYQTEPSGIYYEWKANATGRSAKTV EFLEK+Y  EE++TEK +IKLAIRA
Sbjct: 137 GFDYDGVPHLYQTEPSGIYYEWKANATGRSAKTVHEFLEKYYTMEEVSTEKGSIKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVN 157
           LLEVVQSGQKNLEIAVMR G+P++ML    I EYV 
Sbjct: 197 LLEVVQSGQKNLEIAVMRRGEPLQMLDTDTIGEYVT 232

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332019371|gb|EGI59872.1| Proteasome subunit alpha type-7-1 [Acromyrmex echinatior]

 Score =  283 bits (725), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 133/156 (85%), Positives = 141/156 (90%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+LINRAQ+ECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL+ 
Sbjct: 77  GLTADARVLINRAQVECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLLA 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG P LYQTEPSGIYYEWKANATGRSAKTV EFLEK+Y  EE++TEK  IKLAIRA
Sbjct: 137 GFDYDGVPHLYQTEPSGIYYEWKANATGRSAKTVHEFLEKYYTPEEVSTEKGCIKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVN 157
           LLEVVQSGQKNLEIAVMR G+P+EML    I EYV 
Sbjct: 197 LLEVVQSGQKNLEIAVMRRGQPLEMLDTDTIGEYVT 232

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389611241|dbj|BAM19232.1| proteasome 28kD subunit 1 [Papilio polytes]

 Score =  283 bits (723), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 133/158 (84%), Positives = 143/158 (90%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG
Sbjct: 77  GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG+P L+QTEPSGIYYEWKANATGRSAKTVREFLEK Y +EE+ TEK  +KLAIRA
Sbjct: 137 GFDYDGQPHLFQTEPSGIYYEWKANATGRSAKTVREFLEKNYNAEEVATEKGAVKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
           LLEVVQSGQKNLEIAVMR  + ++ML +  I  YV+ I
Sbjct: 197 LLEVVQSGQKNLEIAVMRRNQLMQMLDIDTINSYVSVI 234

Source: Papilio polytes

Species: Papilio polytes

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307181443|gb|EFN69038.1| Proteasome subunit alpha type-7-1 [Camponotus floridanus]

 Score =  282 bits (721), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 131/156 (83%), Positives = 142/156 (91%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+LINRAQ+ECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL+ 
Sbjct: 77  GLTADARVLINRAQVECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLLT 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG P LYQTEPSGIYYEWKANATGRSAKTV EFLEK+Y +EE++TE+  IKLAIRA
Sbjct: 137 GFDYDGVPHLYQTEPSGIYYEWKANATGRSAKTVHEFLEKYYTTEEVSTERGCIKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVN 157
           LLEVVQSGQKNLEIAVMR G+P++ML    I EYV 
Sbjct: 197 LLEVVQSGQKNLEIAVMRRGQPLQMLDTDTIGEYVT 232

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322801471|gb|EFZ22132.1| hypothetical protein SINV_09089 [Solenopsis invicta]

 Score =  281 bits (720), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 132/156 (84%), Positives = 141/156 (90%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+LINRAQ+ECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL+ 
Sbjct: 77  GLTADARVLINRAQVECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLLT 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG P LYQTEPSGIYYEWKANATGRSAKTV EFLEK+Y  EE++TEK  IKLAIRA
Sbjct: 137 GFDYDGVPHLYQTEPSGIYYEWKANATGRSAKTVHEFLEKYYTPEEVSTEKGCIKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVN 157
           LLEVVQSGQKNLEIAVMR G+P++ML    I EYV 
Sbjct: 197 LLEVVQSGQKNLEIAVMRRGQPLQMLDTDTIGEYVT 232

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389609075|dbj|BAM18149.1| proteasome 28kD subunit 1 [Papilio xuthus]

 Score =  281 bits (720), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 132/158 (83%), Positives = 143/158 (90%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG
Sbjct: 77  GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 136

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG+P L+QTEPSGIYYEWKANATGR+AKTVREFLEK Y +EE+ TEK  +KLAIRA
Sbjct: 137 GFDYDGQPHLFQTEPSGIYYEWKANATGRAAKTVREFLEKNYNAEEVATEKGAVKLAIRA 196

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
           LLEVVQSGQKNLEIAVMR  + ++ML +  I  YV+ I
Sbjct: 197 LLEVVQSGQKNLEIAVMRRNQLMQMLDIDTINSYVSVI 234

Source: Papilio xuthus

Species: Papilio xuthus

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156553324|ref|XP_001601425.1| PREDICTED: proteasome subunit alpha type-7-like [Nasonia vitripennis]

 Score =  280 bits (715), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 129/156 (82%), Positives = 143/156 (91%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+LINRAQIECQSHKLTVEDPVTLEYITR++A LKQKYTQSNGRRPFGISCL+ 
Sbjct: 76  GLTADARVLINRAQIECQSHKLTVEDPVTLEYITRFMASLKQKYTQSNGRRPFGISCLLA 135

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFDYDG P LYQTEPSGIYYEWKANATGR+AKTV+EFLEK+Y  EE++T+K TIKLAIRA
Sbjct: 136 GFDYDGVPHLYQTEPSGIYYEWKANATGRNAKTVKEFLEKYYTPEEVSTDKGTIKLAIRA 195

Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVN 157
           LLEVVQSGQKNLEIAVMR G+P++ML    I +YVN
Sbjct: 196 LLEVVQSGQKNLEIAVMRRGQPMQMLDSDTIGDYVN 231

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	174
FB|FBgn0004066	249	Prosalpha4 "Proteasome alpha4	0.839	0.586	0.773	2.5e-58
UNIPROTKB|F1NWM1	216	PSMA7 "Proteasome subunit alph	0.867	0.699	0.728	6.8e-56
UNIPROTKB|Q9PVQ1	247	psma7-b "Proteasome subunit al	0.867	0.611	0.721	8.6e-56
UNIPROTKB|Q9PVY6	248	psma7-a "Proteasome subunit al	0.867	0.608	0.721	8.6e-56
ZFIN|ZDB-GENE-040426-2194	251	psma8 "proteasome (prosome, ma	0.867	0.601	0.728	8.6e-56
UNIPROTKB|Q3ZBG0	248	PSMA7 "Proteasome subunit alph	0.867	0.608	0.721	1.4e-55
UNIPROTKB|F1PUB5	219	PSMA7 "Uncharacterized protein	0.867	0.689	0.721	1.4e-55
UNIPROTKB|Q9PTW9	251	psma7 "Proteasome subunit alph	0.867	0.601	0.721	2.3e-55
MGI|MGI:1347070	248	Psma7 "proteasome (prosome, ma	0.867	0.608	0.715	2.9e-55
UNIPROTKB|E2RF52	250	PSMA8 "Proteasome subunit alph	0.867	0.604	0.721	3.7e-55

FB|FBgn0004066 Prosalpha4 "Proteasome alpha4 subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 599 (215.9 bits), Expect = 2.5e-58, P = 2.5e-58
 Identities = 113/146 (77%), Positives = 128/146 (87%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRAQ+ECQSH+L VEDPVTLEYITR+IA LKQKYTQSNGRRPFGISCLIG
Sbjct:    77 GLTADARIMINRAQVECQSHRLNVEDPVTLEYITRFIAQLKQKYTQSNGRRPFGISCLIG 136

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD DG   L+QTEPSGI+YE+KANATGRSAK VREF EK Y+ EE+  E   +KLAIRA
Sbjct:   137 GFDADGSAHLFQTEPSGIFYEYKANATGRSAKVVREFFEKSYREEEVANEHGAVKLAIRA 196

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEML 147
             LLEV QSGQ NLE+A+M +GKP++ML
Sbjct:   197 LLEVAQSGQNNLEVAIMENGKPLKML 222

GO:0005839 "proteasome core complex" evidence=ISS

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

GO:0006508 "proteolysis" evidence=NAS

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

GO:0000502 "proteasome complex" evidence=NAS

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

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

GO:0005875 "microtubule associated complex" evidence=IDA

GO:0006974 "response to DNA damage stimulus" evidence=IMP

UNIPROTKB|F1NWM1 PSMA7 "Proteasome subunit alpha type-7" [Gallus gallus (taxid:9031)]

 Score = 576 (207.8 bits), Expect = 6.8e-56, P = 6.8e-56
 Identities = 110/151 (72%), Positives = 130/151 (86%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct:    43 GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 102

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct:   103 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKA 162

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+AVMR  +P+++LS  +I
Sbjct:   163 LLEVVQSGGKNIELAVMRRDQPLKILSPEEI 193

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

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

GO:0005839 "proteasome core complex" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

UNIPROTKB|Q9PVQ1 psma7-b "Proteasome subunit alpha type-7-B" [Xenopus laevis (taxid:8355)]

 Score = 575 (207.5 bits), Expect = 8.6e-56, P = 8.6e-56
 Identities = 109/151 (72%), Positives = 130/151 (86%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct:    75 GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct:   135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKHYTDEAIETDDLTIKLVIKA 194

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+AVMR  +P+++L+  +I
Sbjct:   195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEI 225

GO:0005839 "proteasome core complex" evidence=ISS

UNIPROTKB|Q9PVY6 psma7-a "Proteasome subunit alpha type-7-A" [Xenopus laevis (taxid:8355)]

 Score = 575 (207.5 bits), Expect = 8.6e-56, P = 8.6e-56
 Identities = 109/151 (72%), Positives = 130/151 (86%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct:    75 GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct:   135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKHYTDEAIETDDLTIKLVIKA 194

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+AVMR  +P+++L+  +I
Sbjct:   195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEI 225

GO:0005839 "proteasome core complex" evidence=ISS

ZFIN|ZDB-GENE-040426-2194 psma8 "proteasome (prosome, macropain) subunit, alpha type, 8" [Danio rerio (taxid:7955)]

 Score = 575 (207.5 bits), Expect = 8.6e-56, P = 8.6e-56
 Identities = 110/151 (72%), Positives = 130/151 (86%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct:    77 GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIATLKQRYTQSNGRRPFGISALIV 136

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFDYDG PRLYQT+PSG Y+ WKANA GRSAKTVREFLEK Y  E + ++   IKLAI+A
Sbjct:   137 GFDYDGTPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTDEAIASDNDAIKLAIKA 196

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+AV+R  +P+++L   +I
Sbjct:   197 LLEVVQSGGKNIELAVIRRNQPLKILESKEI 227

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

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

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

UNIPROTKB|Q3ZBG0 PSMA7 "Proteasome subunit alpha type-7" [Bos taurus (taxid:9913)]

 Score = 573 (206.8 bits), Expect = 1.4e-55, P = 1.4e-55
 Identities = 109/151 (72%), Positives = 130/151 (86%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct:    75 GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct:   135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKA 194

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+AVMR  +P+++L+  +I
Sbjct:   195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEI 225

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0042802 "identical protein 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|F1PUB5 PSMA7 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 573 (206.8 bits), Expect = 1.4e-55, P = 1.4e-55
 Identities = 109/151 (72%), Positives = 130/151 (86%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct:    46 GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 105

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct:   106 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKA 165

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+AVMR  +P+++L+  +I
Sbjct:   166 LLEVVQSGGKNIELAVMRRDQPLKILNPEEI 196

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

GO:0005839 "proteasome core complex" evidence=IEA

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

UNIPROTKB|Q9PTW9 psma7 "Proteasome subunit alpha type-7" [Carassius auratus (taxid:7957)]

 Score = 571 (206.1 bits), Expect = 2.3e-55, P = 2.3e-55
 Identities = 109/151 (72%), Positives = 130/151 (86%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct:    77 GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIATLKQRYTQSNGRRPFGISALIV 136

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD+DG PRLYQT+PSG Y+ WKANA GRSAKTVREFLEK Y  E + ++   IKLAI+A
Sbjct:   137 GFDFDGTPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTDEAIASDNDAIKLAIKA 196

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+AV+R  +P+++L   +I
Sbjct:   197 LLEVVQSGGKNIELAVIRRNQPLKILESKEI 227

GO:0005839 "proteasome core complex" evidence=ISS

MGI|MGI:1347070 Psma7 "proteasome (prosome, macropain) subunit, alpha type 7" [Mus musculus (taxid:10090)]

 Score = 570 (205.7 bits), Expect = 2.9e-55, P = 2.9e-55
 Identities = 108/151 (71%), Positives = 130/151 (86%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct:    75 GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  + + T+  TIKL I+A
Sbjct:   135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAIETDDLTIKLVIKA 194

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+AVMR  +P+++L+  +I
Sbjct:   195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEI 225

GO:0000502 "proteasome complex" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IDA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

GO:0042802 "identical protein binding" evidence=ISO

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

UNIPROTKB|E2RF52 PSMA8 "Proteasome subunit alpha type" [Canis lupus familiaris (taxid:9615)]

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 109/151 (72%), Positives = 128/151 (84%)

Query:     2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
             GLTADAR++INRA++ECQSHKLTVEDPVT+EYITR+IA LKQKYTQSNGRRPFGIS LI 
Sbjct:    77 GLTADARVVINRARVECQSHKLTVEDPVTVEYITRFIATLKQKYTQSNGRRPFGISALIV 136

Query:    62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
             GFD DG PRLYQT+PSG Y+ WKANA GRSAKTVREFLEK Y  + +  +   IKLAIRA
Sbjct:   137 GFDDDGIPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTEDAIANDNEAIKLAIRA 196

Query:   122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
             LLEVVQSG KN+E+A++R  +P++M S  +I
Sbjct:   197 LLEVVQSGGKNIELAIIRRNQPLKMFSAKEI 227

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
A4FZT6	PSA_METM5	3, ., 4, ., 2, 5, ., 1	0.3926	0.9080	0.6100	yes	N/A
P30186	PSA7A_ARATH	3, ., 4, ., 2, 5, ., 1	0.6884	0.7701	0.536	yes	N/A
O14818	PSA7_HUMAN	3, ., 4, ., 2, 5, ., 1	0.7161	0.8908	0.625	yes	N/A
P34120	PSA7_DICDI	3, ., 4, ., 2, 5, ., 1	0.5664	0.9770	0.68	yes	N/A
O13268	PSA7_CHICK	3, ., 4, ., 2, 5, ., 1	0.6923	0.8908	0.6224	yes	N/A
Q4R7D9	PSA7L_MACFA	3, ., 4, ., 2, 5, ., 1	0.7096	0.8908	0.62	N/A	N/A
Q95005	PSA7_CAEEL	3, ., 4, ., 2, 5, ., 1	0.6376	0.7931	0.5454	yes	N/A
P40303	PSA4_YEAST	3, ., 4, ., 2, 5, ., 1	0.5714	0.9137	0.6259	yes	N/A
Q3ZBG0	PSA7_BOVIN	3, ., 4, ., 2, 5, ., 1	0.7225	0.8908	0.625	yes	N/A
Q0J006	PSA7B_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.6794	0.8735	0.6104	yes	N/A
O24616	PSA7B_ARATH	3, ., 4, ., 2, 5, ., 1	0.6956	0.7701	0.536	yes	N/A
O16811	PSA71_DROVI	3, ., 4, ., 2, 5, ., 1	0.7547	0.9080	0.6396	N/A	N/A
Q9PVY6	PSA7A_XENLA	3, ., 4, ., 2, 5, ., 1	0.7225	0.8908	0.625	N/A	N/A
Q9PTW9	PSA7_CARAU	3, ., 4, ., 2, 5, ., 1	0.7161	0.8908	0.6175	N/A	N/A
Q10329	PSA4_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5574	0.9827	0.6602	yes	N/A
A6URN9	PSA_METVS	3, ., 4, ., 2, 5, ., 1	0.3806	0.9655	0.6486	yes	N/A
Q8TYB7	PSA_METKA	3, ., 4, ., 2, 5, ., 1	0.4082	0.9367	0.6626	yes	N/A
Q9PVQ1	PSA7B_XENLA	3, ., 4, ., 2, 5, ., 1	0.7225	0.8908	0.6275	N/A	N/A
P22769	PSA71_DROME	3, ., 4, ., 2, 5, ., 1	0.7435	0.8965	0.6265	yes	N/A
Q6YT00	PSA7A_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.6923	0.8735	0.6104	yes	N/A
Q9CWH6	PSA7L_MOUSE	3, ., 4, ., 2, 5, ., 1	0.7109	0.9885	0.688	yes	N/A
P48004	PSA7_RAT	3, ., 4, ., 2, 5, ., 1	0.7115	0.8965	0.6141	yes	N/A
Q5RDH8	PSA7_PONAB	3, ., 4, ., 2, 5, ., 1	0.7225	0.8908	0.625	yes	N/A
Q9Z2U0	PSA7_MOUSE	3, ., 4, ., 2, 5, ., 1	0.7161	0.8908	0.625	no	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.946
3rd Layer	3.4.25	0.963

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	174
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	1e-88
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	4e-62
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	3e-52
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	4e-45
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	9e-45
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	6e-44
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	6e-42
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	1e-41
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	7e-37
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	4e-32
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	5e-30
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	4e-29
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	2e-28
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	2e-26
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	7e-23
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	7e-21
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	3e-11
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	7e-10
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	3e-09
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	0.004

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score =  257 bits (659), Expect = 1e-88
 Identities = 107/137 (78%), Positives = 121/137 (88%), Gaps = 2/137 (1%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+LINRA++ECQSH+LTVEDPVT+EYITRYIAGL+Q+YTQS G RPFGIS LI 
Sbjct: 73  GLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIV 132

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD DG PRLYQT+PSG Y  WKANA GR++KTVREFLEK YK EEMT +  TIKLAI+A
Sbjct: 133 GFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYK-EEMTRDD-TIKLAIKA 190

Query: 122 LLEVVQSGQKNLEIAVM 138
           LLEVVQSG KN+E+AVM
Sbjct: 191 LLEVVQSGSKNIELAVM 207

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|238892 cd01911, proteasome_alpha, proteasome alpha subunit

 Score =  190 bits (485), Expect = 4e-62
 Identities = 70/140 (50%), Positives = 104/140 (74%), Gaps = 4/140 (2%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLTADAR+L+NRA++E Q+++ T  +P+ +E + + IA L Q YTQ  G RPFG+S LI
Sbjct: 72  AGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLI 131

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D +G P+LYQT+PSG Y+ +KA A G+ ++  + FLEK YK +++T E+A IKLA++
Sbjct: 132 AGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYK-KDLTLEEA-IKLALK 189

Query: 121 ALLEVVQSGQK--NLEIAVM 138
           AL EV++  +K  N+EIAV+
Sbjct: 190 ALKEVLEEDKKAKNIEIAVV 209

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 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 =  166 bits (422), Expect = 3e-52
 Identities = 76/163 (46%), Positives = 111/163 (68%), Gaps = 6/163 (3%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL ADAR+LI+RA++E Q ++LT  +P+ +E +T+ I   KQ+YTQ  G RPFG++ LI 
Sbjct: 82  GLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIA 141

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D DG PRL++T+PSG Y E+KA A G    TV EFLEK YK E+++ E+A I+LA++A
Sbjct: 142 GVD-DGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYK-EDLSLEEA-IELALKA 198

Query: 122 LLEVVQSG--QKNLEIA-VMRHGKPVEMLSVAQIEEYVNEIEK 161
           L +  +     +N+EIA +    K    LSV +IE+Y+ ++ K
Sbjct: 199 LAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKLLK 241

Length = 241

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

 Score =  146 bits (371), Expect = 4e-45
 Identities = 60/141 (42%), Positives = 90/141 (63%), Gaps = 6/141 (4%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL ADA+ L++ A+ E Q ++L    P+++E + + IA   Q YTQ +GRRP+G+S LI
Sbjct: 51  AGLAADAQTLVDYARAEAQLYRLRYGRPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLI 109

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D DG P LY  +PSG   E+KA A G  ++    FLEK YK  +MT E+A ++LA++
Sbjct: 110 AGYDEDGGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYK-PDMTLEEA-VELAVK 167

Query: 121 ALLEVVQ---SGQKNLEIAVM 138
           AL E ++       N+E+AV+
Sbjct: 168 ALKEAIERDALSGGNIEVAVI 188

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

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

 Score =  146 bits (371), Expect = 9e-45
 Identities = 65/138 (47%), Positives = 96/138 (69%), Gaps = 5/138 (3%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL ADAR+LI+RA+IE Q ++LT  +P+ +E + + I  LKQ+YTQ  G RPFG++ LI 
Sbjct: 75  GLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIA 134

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D DG PRL++T+PSG   E+KA A G   + V EFLEK Y+ E+++ ++A I+LA++A
Sbjct: 135 GVD-DGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYR-EDLSLDEA-IELALKA 191

Query: 122 LLEVVQSG--QKNLEIAV 137
           L   V+     +N+E+A 
Sbjct: 192 LYSAVEDKLTPENVEVAY 209

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 =  145 bits (367), Expect = 6e-44
 Identities = 58/166 (34%), Positives = 105/166 (63%), Gaps = 8/166 (4%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL ADA++L+  A+ E Q ++L   +P+++E + + ++ + Q+YTQS   RP+G+S L+
Sbjct: 76  AGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLV 133

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D DG PRLY T+PSG Y E+KA A G  ++    FLEK Y+ E+++ E+A I+LA++
Sbjct: 134 AGVD-DGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYR-EDLSLEEA-IELAVK 190

Query: 121 ALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEK 163
           AL   ++        +E+AV+   +    L   +I++ ++++ +++
Sbjct: 191 ALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLSEKE 236

Length = 236

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score =  139 bits (351), Expect = 6e-42
 Identities = 69/138 (50%), Positives = 98/138 (71%), Gaps = 5/138 (3%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL ADAR+LI+RA++E Q H+LT  +P+ +E + + I  LKQ+YTQ  G RPFG++ LI 
Sbjct: 74  GLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIA 133

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D DG PRL++T+PSG Y E+KA A G   + V EFLEK YK E+M+ E+A I+LA++A
Sbjct: 134 GVD-DGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYK-EDMSLEEA-IELALKA 190

Query: 122 LLEVVQSGQ--KNLEIAV 137
           L   ++  +  +N+EIA 
Sbjct: 191 LYAALEENETPENVEIAY 208

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  137 bits (348), Expect = 1e-41
 Identities = 56/141 (39%), Positives = 86/141 (60%), Gaps = 7/141 (4%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL ADA+ L+ R + E Q ++L   +P+ +E + + +A L  +YTQS   RP G+S L+
Sbjct: 46  AGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLV 103

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D +G P+LY  +PSG Y E+KA A G  ++     LEK YK  +MT E+A I+LA++
Sbjct: 104 AGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYK-PDMTLEEA-IELALK 161

Query: 121 ALLEVVQSG---QKNLEIAVM 138
           AL   ++       N+E+AV+
Sbjct: 162 ALKSALERDLYSGGNIEVAVI 182

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

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  126 bits (319), Expect = 7e-37
 Identities = 63/156 (40%), Positives = 93/156 (59%), Gaps = 5/156 (3%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G+  D R+L+ +A+   Q + L   +P+ +  + R IA + Q+YTQS G RPFG+S LI 
Sbjct: 73  GMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIA 132

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D  G P LYQ +PSG Y+ WKA A G++    + FLEK Y +E++  E A I  AI  
Sbjct: 133 GWDEGG-PYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRY-NEDLELEDA-IHTAILT 189

Query: 122 LLEVV--QSGQKNLEIAVMRHGKPVEMLSVAQIEEY 155
           L E    Q  +KN+EI +    K   +L+ A+I++Y
Sbjct: 190 LKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDY 225

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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score =  113 bits (286), Expect = 4e-32
 Identities = 53/140 (37%), Positives = 83/140 (59%), Gaps = 5/140 (3%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+L    + EC +++   + P+ +  +   +A   Q  TQ  GRRP+G+  LI 
Sbjct: 71  GLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIA 130

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D  G P L+QT PSG Y+E+KA + G  +++ R +LE+ ++  E  + +  IK A+RA
Sbjct: 131 GYDESG-PHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRA 189

Query: 122 LLEVVQSGQ----KNLEIAV 137
           L E +   Q    KN+ IA+
Sbjct: 190 LRETLPGEQELTIKNVSIAI 209

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

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

 Score =  109 bits (274), Expect = 5e-30
 Identities = 62/177 (35%), Positives = 100/177 (56%), Gaps = 10/177 (5%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADA ILIN+ ++  Q ++ T  +P  +E +   I  LKQ YTQ  G RPFG+S L  
Sbjct: 78  GLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFA 137

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D +   +LY T+PSG Y  WKA A G++ +T +  L++ +K E++T E+  + LA + 
Sbjct: 138 GYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWK-EDLTLEQG-LLLAAKV 195

Query: 122 LLEVVQS---GQKNLEIAVMRHGKP-----VEMLSVAQIEEYVNEIEKEKEDEAEKK 170
           L + + S       +E+ ++ HG+       +MLS  +I E + ++ +E   E    
Sbjct: 196 LTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAELLKKVTQEYAKENTNN 252

Length = 253

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  106 bits (266), Expect = 4e-29
 Identities = 51/140 (36%), Positives = 86/140 (61%), Gaps = 5/140 (3%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G+T+DA ILIN A++  Q +  + ++P+ +E + + +  +KQ YTQ  G RPFG+S L  
Sbjct: 76  GITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYA 135

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     +LYQ++PSG Y  WKA A G + +  +  L++ YK ++MT E+A + LA++ 
Sbjct: 136 GWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYK-DDMTLEEA-LALAVKV 193

Query: 122 L---LEVVQSGQKNLEIAVM 138
           L   ++  +   + LE A +
Sbjct: 194 LSKTMDSTKLTSEKLEFATL 213

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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score =  104 bits (261), Expect = 2e-28
 Identities = 51/146 (34%), Positives = 88/146 (60%), Gaps = 12/146 (8%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGR-----RPFG 55
           +GL ADAR LI+ A++E Q+H+ T  +P+T+E +T+ ++ L  ++ + +       RPFG
Sbjct: 72  SGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFG 131

Query: 56  ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVR-EFLEKFYKSEEMTTEKAT 114
           ++ LI G D +G P+L+ T+PSG +    A A G  ++  +    EK++K   MT E+A 
Sbjct: 132 VALLIAGVDENG-PQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKD--MTLEEA- 187

Query: 115 IKLAIRALLEVVQS--GQKNLEIAVM 138
            KLA+  L +V++      N+E+A +
Sbjct: 188 EKLALSILKQVMEEKLNSTNVELATV 213

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|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 = 98.2 bits (245), Expect = 2e-26
 Identities = 46/125 (36%), Positives = 72/125 (57%), Gaps = 7/125 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL ADA+ L+ R +   Q ++L   +P+++  + + +A L Q YTQ    RPFG++ ++
Sbjct: 46  AGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIV 102

Query: 61  GGFDYDGKPRLYQTEPSGIYYEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAI 119
            G D  G   LY  +PSG   E   A ATG  ++  +  LEK YK  +MT E+A ++LA+
Sbjct: 103 AGVDEGG-GNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYK-PDMTLEEA-VELAL 159

Query: 120 RALLE 124
           +AL  
Sbjct: 160 KALKS 164

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

>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score = 90.0 bits (224), Expect = 7e-23
 Identities = 42/118 (35%), Positives = 66/118 (55%), Gaps = 2/118 (1%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL AD R L++RA+ E ++++     P+ ++ +   +A     YT  +  RPFG S L+
Sbjct: 75  AGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLL 134

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLA 118
           GG+D DG P+LY  EPSG+ Y +   A G+  +  +  LEK  K  E+T  +A  + A
Sbjct: 135 GGYDSDG-PQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKL-KFSELTCREAVKEAA 190

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

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score = 85.0 bits (211), Expect = 7e-21
 Identities = 44/141 (31%), Positives = 75/141 (53%), Gaps = 4/141 (2%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           TG+ AD+R  + RA+ E    K      + ++ + + IA + Q YTQ    RP G+S ++
Sbjct: 74  TGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMIL 133

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEE--MTTEKATIKLA 118
            G D +  P+LY+ +P+G +  +KA A G   +    FLEK  K +   + + + T++LA
Sbjct: 134 IGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELA 193

Query: 119 IRALLEVVQSGQK--NLEIAV 137
           I  L  V+ +  K   +E+ V
Sbjct: 194 ISCLQTVLSTDFKATEIEVGV 214

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|238893 cd01912, proteasome_beta, proteasome beta subunit

 Score = 58.6 bits (143), Expect = 3e-11
 Identities = 36/150 (24%), Positives = 68/150 (45%), Gaps = 11/150 (7%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G  AD + L    +   + ++L     ++++     ++ +   Y       P+ +S ++
Sbjct: 46  AGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSY----RGFPYYVSLIV 101

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           GG D  G P LY  +P G   E    ATG  +K     L++ YK  +MT E+A ++L  +
Sbjct: 102 GGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYK-PDMTLEEA-VELVKK 159

Query: 121 ALLEV----VQSGQKNLEIAVMRHGKPVEM 146
           A+       + SG   +++AV+      E+
Sbjct: 160 AIDSAIERDLSSG-GGVDVAVITKDGVEEL 188

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

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

 Score = 55.0 bits (133), Expect = 7e-10
 Identities = 40/121 (33%), Positives = 63/121 (52%), Gaps = 7/121 (5%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G   DA+ L+   + E + ++L    P++++ +   ++ +      S+   P+ +  LIG
Sbjct: 47  GSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNI----LNSSKYFPYIVQLLIG 102

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D +G P LY  +P G   E K  ATG  +      LE  YK E+MT E+A  KLAIRA
Sbjct: 103 GVDEEG-PHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYK-EDMTVEEA-KKLAIRA 159

Query: 122 L 122
           +
Sbjct: 160 I 160

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

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

 Score = 53.0 bits (128), Expect = 3e-09
 Identities = 39/121 (32%), Positives = 61/121 (50%), Gaps = 7/121 (5%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G   DA+ L+   + E + ++L    P++     + +A L      SN   PF +  L+G
Sbjct: 48  GSVGDAQSLVRILKAEAKLYELRRGRPMS----VKALATLLSNILNSNRFFPFIVQLLVG 103

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D +G P LY  +P+G   E    ATG  +      LE  Y+ E+M+ E+A  KLA+RA
Sbjct: 104 GVDEEG-PHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYR-EDMSVEEA-KKLAVRA 160

Query: 122 L 122
           +
Sbjct: 161 I 161

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

 Score = 36.1 bits (84), Expect = 0.004
 Identities = 24/119 (20%), Positives = 48/119 (40%), Gaps = 14/119 (11%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSN---GRR--PFG 55
           +G  AD   L  R +   + +K +    ++ E I + +         S     RR  P+ 
Sbjct: 54  SGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLL---------STILYSRRFFPYY 104

Query: 56  ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKAT 114
           +  ++ G D +GK  +Y  +P G Y     +A G ++  ++  L+     +     + T
Sbjct: 105 VFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERT 163

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	174
KOG0183|consensus	249		100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
KOG0178|consensus	249		100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
KOG0181|consensus	233		100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
KOG0176|consensus	241		100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
KOG0182|consensus	246		100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	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
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
KOG0863|consensus	264		100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	99.98
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	99.98
KOG0184|consensus	254		99.98
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	99.98
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	99.97
KOG0177|consensus	200		99.94
KOG0179|consensus	235		99.93
KOG0175|consensus	285		99.93
KOG0174|consensus	224		99.91
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.89
KOG0180|consensus	204		99.85
KOG0185|consensus	256		99.83
KOG0173|consensus	271		99.82
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.75
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.74
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.72
COG3484	255	Predicted proteasome-type protease [Posttranslatio	96.96
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	95.85
KOG3361|consensus	157		88.52

>KOG0183|consensus

Probab=100.00  E-value=9.3e-41  Score=253.17  Aligned_cols=174  Identities=75%  Similarity=1.129  Sum_probs=165.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|-+|+.|+++.+.|++++.|+++|+.+.|.|||+++.||||++.+|+|||..|.|.||++||+|.|
T Consensus        75 aGl~aDArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePsG~f  154 (249)
T KOG0183|consen   75 AGLTADARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPSGIF  154 (249)
T ss_pred             cCCCccceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCCcch
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCCCeEEcCHHHHHHHHHHhc
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIE  160 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~~~~iei~ii~~~~~~~~l~~~ei~~~~~~~~  160 (174)
                      ++|++.|+|.+++.++.+|||+|.+....+..++|++++++|.++...++++|+++++...+.+++++.++|+.++..++
T Consensus       155 ~ewka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvqs~~~nie~aVm~~~~~~~~l~~~~I~~~v~~ie  234 (249)
T KOG0183|consen  155 SEWKANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQSGGKNIEVAVMKRRKDLKMLESEEIDDIVKEIE  234 (249)
T ss_pred             hhhhccccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhhcCCCeeEEEEEecCCceeecCHHHHHHHHHHHH
Confidence            99999999999999999999999877445889999999999999999999999999999987799999999999999999


Q ss_pred             cchHHHHHHhhhcC
Q psy13966        161 KEKEDEAEKKKQKK  174 (174)
Q Consensus       161 ~~~~~~~~~~~~~~  174 (174)
                      ++.+++++++++++
T Consensus       235 ~E~e~e~~~~~~~~  248 (249)
T KOG0183|consen  235 QEEEAEAEKKKKKK  248 (249)
T ss_pred             HHHHHHHHhhcccC
Confidence            99777777776653

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=1.6e-37  Score=245.10  Aligned_cols=153  Identities=38%  Similarity=0.649  Sum_probs=146.4

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|++++|.++..|++.+|++++++.+++.|++++|.||++++.|||+|++||+|||++ +|+||++||+|++
T Consensus        72 sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~-g~~Ly~~d~~G~~  150 (227)
T cd03750          72 SGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEG-GPYLYQVDPSGSY  150 (227)
T ss_pred             eEcHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCC-CCEEEEECCCCCE
Confidence            699999999999999999999999999999999999999999999999999999999999999966 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEEEcCCCeEEcCHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii~~~~~~~~l~~~ei~~~~  156 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.++  .+++++|+++++++++++++++||++++
T Consensus       151 ~~~~~~a~G~g~~~~~~~Le~~~~~~m--s~eeai~l~~~~l~~~~~~~l~~~~iev~iv~~~~~~~~~~~~ei~~~~  226 (227)
T cd03750         151 FTWKATAIGKNYSNAKTFLEKRYNEDL--ELEDAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYL  226 (227)
T ss_pred             EeeeEEEECCCCHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCEEECCHHHHHHHh
Confidence            999999999999999999999999998  9999999999999988875  4789999999997669999999999876

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

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=2e-37  Score=248.29  Aligned_cols=161  Identities=37%  Similarity=0.597  Sum_probs=152.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|++++|.++..|++.++.++++..+++.++..+|.|++++++|||+|++||+|||++++|+||++||+|++
T Consensus        77 sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~  156 (253)
T PTZ00246         77 AGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNY  156 (253)
T ss_pred             EEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECCCCCE
Confidence            69999999999999999999999999999999999999999999999999999999999999997667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC-----CeEEcCHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK-----PVEMLSVAQI  152 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~-----~~~~l~~~ei  152 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+..++   ++.++|+++++++     .|++++++||
T Consensus       157 ~~~~~~a~G~gs~~~~~~Le~~~~~~m--s~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l~~~ei  234 (253)
T PTZ00246        157 SGWKATAIGQNNQTAQSILKQEWKEDL--TLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEI  234 (253)
T ss_pred             ecceEEEECCCcHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEECCHHHH
Confidence            999999999999999999999999998  99999999999999999864   6899999999874     3899999999


Q ss_pred             HHHHHHhccch
Q psy13966        153 EEYVNEIEKEK  163 (174)
Q Consensus       153 ~~~~~~~~~~~  163 (174)
                      ++++.++..+.
T Consensus       235 ~~~l~~~~~~~  245 (253)
T PTZ00246        235 AELLKKVTQEY  245 (253)
T ss_pred             HHHHHHHhhhh
Confidence            99999996654

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=2e-36  Score=240.79  Aligned_cols=157  Identities=44%  Similarity=0.711  Sum_probs=149.4

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.++++++.++..|++.++++++++.++++|++.+|.|+++++.|||+|++||||||.+ +|+||.+||+|++
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            799999999999999999999999999999999999999999999999999999999999999965 4999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEEEcCCC-eEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVMRHGKP-VEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii~~~~~-~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|.++..++++|++.|+++|  +++||++++++||..+.++  .++.++|++++++++ |+.++++||+.++.
T Consensus       160 ~~~~~~a~G~g~~~~~~~Le~~~~~~~--s~eeai~l~~~al~~~~~~~~~~~~i~i~ii~~~~~~~~~~~~~ei~~~~~  237 (241)
T PRK03996        160 LEYKATAIGAGRDTVMEFLEKNYKEDL--SLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLE  237 (241)
T ss_pred             ecceEEEECCCcHHHHHHHHHhcccCC--CHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCcEEECCHHHHHHHHH
Confidence            999999999999999999999999999  9999999999999999875  378999999999864 99999999999998


Q ss_pred             Hhc
Q psy13966        158 EIE  160 (174)
Q Consensus       158 ~~~  160 (174)
                      ++.
T Consensus       238 ~~~  240 (241)
T PRK03996        238 KLL  240 (241)
T ss_pred             Hhh
Confidence            764

>KOG0178|consensus

Probab=100.00  E-value=6.5e-37  Score=231.76  Aligned_cols=162  Identities=31%  Similarity=0.539  Sum_probs=152.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|+++|+..|++++|..+++|.+.||++||++.|++.++++.|.||||+|.||||||++.+|||..-|++||+.||||++
T Consensus        77 aGlt~DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny  156 (249)
T KOG0178|consen   77 AGLTSDANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNY  156 (249)
T ss_pred             ecccccHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCc
Confidence            59999999999999999999999999999999999999999999999999999999999999998777999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC---eEEcCHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP---VEMLSVAQIEE  154 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~---~~~l~~~ei~~  154 (174)
                      ..|++.|+|.++..|++.|.+.|+++. .+++||..+|++.|.+..+.+   ...+||+.++++.+   ++++.++||..
T Consensus       157 ~gWka~ciG~N~~Aa~s~Lkqdykdd~-~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k~v~~i~~~~ev~k  235 (249)
T KOG0178|consen  157 GGWKATCIGANSGAAQSMLKQDYKDDE-NDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNKTVLKILKKDEVLK  235 (249)
T ss_pred             cccceeeeccchHHHHHHHHhhhcccc-ccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCceEEEecCHHHHHH
Confidence            999999999999999999999999886 379999999999999999864   68999999998743   78999999999


Q ss_pred             HHHHhccch
Q psy13966        155 YVNEIEKEK  163 (174)
Q Consensus       155 ~~~~~~~~~  163 (174)
                      ++.++..+.
T Consensus       236 ll~k~~~~~  244 (249)
T KOG0178|consen  236 LLEKYHETQ  244 (249)
T ss_pred             HHHHhhhhh
Confidence            999997644

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

Probab=100.00  E-value=4.8e-36  Score=237.93  Aligned_cols=156  Identities=35%  Similarity=0.633  Sum_probs=148.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|++++|.++..|++.++++|+++.+++.+++++|.|+++  .|||+|++||+|+|+ ++|+||++||+|++
T Consensus        76 sG~~aDa~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~rP~gv~~iiaG~d~-~~p~Ly~~Dp~G~~  152 (236)
T COG0638          76 AGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDD-GGPRLYSTDPSGSY  152 (236)
T ss_pred             ccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--cccceEEEEEEEEcC-CCCeEEEECCCCce
Confidence            799999999999999999999999999999999999999999999987  899999999999998 77999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++||+.|+++|  +++||++++++||+.+.++|   +++++|.+++++.+++.++++++..++.
T Consensus       153 ~~~~~~a~Gsgs~~a~~~Le~~y~~~m--~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~~~~~  230 (236)
T COG0638         153 NEYKATAIGSGSQFAYGFLEKEYREDL--SLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLD  230 (236)
T ss_pred             eecCEEEEcCCcHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHHHHHH
Confidence            999999999999999999999999998  99999999999999999965   5788999999966699999999999998


Q ss_pred             Hhcc
Q psy13966        158 EIEK  161 (174)
Q Consensus       158 ~~~~  161 (174)
                      .+..
T Consensus       231 ~~~~  234 (236)
T COG0638         231 DLSE  234 (236)
T ss_pred             HHhh
Confidence            8754

>KOG0181|consensus

Probab=100.00  E-value=6.8e-37  Score=229.22  Aligned_cols=155  Identities=35%  Similarity=0.602  Sum_probs=147.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+-+|++.+++..|..+.+|...|+++||+..|+..++..+|+|||+++.||||+++++||||.. +|.||++||||++
T Consensus        77 SGmgpD~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~-~p~LyQvdPSGsy  155 (233)
T KOG0181|consen   77 SGMGPDYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEG-GPLLYQVDPSGSY  155 (233)
T ss_pred             ecCCCceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCC-ceeEEEECCccce
Confidence            799999999999999999999999999999999999999999999999999999999999999965 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEEEcCCCeEEcCHHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYVNE  158 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii~~~~~~~~l~~~ei~~~~~~  158 (174)
                      ..|+++|+|.+...++++||++|++++  .++++|..|+-.|++..+-  ..++|||+++..++ |+++.+.||+..|..
T Consensus       156 f~wkatA~Gkn~v~aktFlEkR~~edl--eldd~ihtailtlkE~fege~~~~nieigv~~~~~-F~~lt~~eI~d~l~~  232 (233)
T KOG0181|consen  156 FAWKATAMGKNYVNAKTFLEKRYNEDL--ELDDAIHTAILTLKESFEGEMTAKNIEIGVCGENG-FRRLTPAEIEDYLAS  232 (233)
T ss_pred             eehhhhhhccCcchHHHHHHHHhcccc--ccchHHHHHHHHHHHHhccccccCceEEEEecCCc-eeecCHHHHHHHHhc
Confidence            999999999999999999999999998  9999999999999999874  47899999999765 999999999999876


Q ss_pred             h
Q psy13966        159 I  159 (174)
Q Consensus       159 ~  159 (174)
                      +
T Consensus       233 l  233 (233)
T KOG0181|consen  233 L  233 (233)
T ss_pred             C
Confidence            4

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=1.4e-35  Score=232.90  Aligned_cols=157  Identities=20%  Similarity=0.302  Sum_probs=144.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCC-CCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYD-GKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~-g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.|++++|.++..|++.++++|+++.+|+.|++++|.++ .+.+|||+|++||||||++ ++|+||++||+|+
T Consensus        48 sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~-~~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~  126 (219)
T TIGR03690        48 AGTAGLAIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAMVRGNL-PAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGG  126 (219)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhh-hhccCCceEEEEEEEECCCCCCcEEEEEeCCCC
Confidence            7999999999999999999999999999999999999999999887 4568999999999999964 6799999999995


Q ss_pred             -eeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CC--c-----EEEEEEEcCCCeEEcC
Q psy13966         80 -YYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QK--N-----LEIAVMRHGKPVEMLS  148 (174)
Q Consensus        80 -~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~--~-----iei~ii~~~~~~~~l~  148 (174)
                       +..++++|+|+|+..++++||+.|+++|  |.+||++++++||..+.+++   ++  .     ++|++++++| |++++
T Consensus       127 ~~~~~~~~a~G~g~~~a~~~Le~~~~~~m--s~eeai~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~g-~~~l~  203 (219)
T TIGR03690       127 RYEERGYHAVGSGSVFAKGALKKLYSPDL--DEDDALRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITADG-ARRVP  203 (219)
T ss_pred             eeecCCeEEEeccHHHHHHHHHhcCCCCc--CHHHHHHHHHHHHHHHHhcccccCCcccccccccEEEEEccCc-eEEcC
Confidence             7777999999999999999999999998  99999999999999999865   33  3     3999998776 99999


Q ss_pred             HHHHHHHHHHhcc
Q psy13966        149 VAQIEEYVNEIEK  161 (174)
Q Consensus       149 ~~ei~~~~~~~~~  161 (174)
                      ++||+.++.++..
T Consensus       204 ~~ei~~~~~~~~~  216 (219)
T TIGR03690       204 ESELEELARAIVE  216 (219)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988743

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

>KOG0176|consensus

Probab=100.00  E-value=8.6e-36  Score=223.79  Aligned_cols=156  Identities=31%  Similarity=0.601  Sum_probs=145.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCC-----CCcceeeeeEEEEeCCCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG-----RRPFGISCLIGGFDYDGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~-----~RP~gv~~il~G~D~~g~~~Ly~vd   75 (174)
                      ||+.+|+++|++++|.+|++|++.||++|+++.+.+.++++...|-....     .|||||++|+||+|++| |+||+.|
T Consensus        79 SGl~aDarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~g-pqL~h~d  157 (241)
T KOG0176|consen   79 SGLIADARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDETG-PQLYHLD  157 (241)
T ss_pred             cccccchHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCCC-ceEEEeC
Confidence            79999999999999999999999999999999999999999877754322     49999999999999665 9999999


Q ss_pred             CCCceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEEEcCCCeEEcCHHHHH
Q psy13966         76 PSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIE  153 (174)
Q Consensus        76 ~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii~~~~~~~~l~~~ei~  153 (174)
                      |||++.+|++-|||+|+.-+.+.|++.|++++  +++|++.+++..|+.+++.  +.++++++++++++.|++++++|++
T Consensus       158 PSGtf~~~~AKAIGSgsEga~~~L~~e~~~~l--tL~ea~~~~L~iLkqVMeeKl~~~Nvev~~vt~e~~f~~~t~EE~~  235 (241)
T KOG0176|consen  158 PSGTFIRYKAKAIGSGSEGAESSLQEEYHKDL--TLKEAEKIVLKILKQVMEEKLNSNNVEVAVVTPEGEFHIYTPEEVE  235 (241)
T ss_pred             CCCceEEecceeccccchHHHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHHHhcCccceEEEEEcccCceEecCHHHHH
Confidence            99999999999999999999999999999999  9999999999999999874  6889999999999899999999999


Q ss_pred             HHHHHh
Q psy13966        154 EYVNEI  159 (174)
Q Consensus       154 ~~~~~~  159 (174)
                      ..+.++
T Consensus       236 ~~i~~~  241 (241)
T KOG0176|consen  236 QVIKRL  241 (241)
T ss_pred             HHHhcC
Confidence            987653

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=1.6e-35  Score=228.45  Aligned_cols=142  Identities=18%  Similarity=0.253  Sum_probs=133.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|++++|.++..|++.++++++++.++++|++++|.|+++.  |||+|++||+|||++++|+||++||+|++
T Consensus        47 sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~--rP~~~~~li~G~d~~~~p~Ly~~d~~G~~  124 (193)
T cd03758          47 SGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSR--TPYQVNLLLAGYDKVEGPSLYYIDYLGTL  124 (193)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcC--CCeEEEEEEEEEcCCCCcEEEEECCCcce
Confidence            7999999999999999999999999999999999999999999887653  89999999999997677999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEc
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEML  147 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l  147 (174)
                      .+++++|+|+|+..++++||+.|+++|  |.+||++++.+|+..+.+++   +++++|++++++| ++++
T Consensus       125 ~~~~~~a~G~gs~~~~~~Le~~~~~~m--s~eeai~l~~~a~~~~~~rd~~~~~~i~i~ii~~~g-~~~~  191 (193)
T cd03758         125 VKVPYAAHGYGAYFCLSILDRYYKPDM--TVEEALELMKKCIKELKKRFIINLPNFTVKVVDKDG-IRDL  191 (193)
T ss_pred             EECCeeEEeecHHHHHHHHHhccCCCC--CHHHHHHHHHHHHHHHHHhccccCCceEEEEEcCCC-eEeC
Confidence            999999999999999999999999998  99999999999999999864   7899999999997 6543

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=2.7e-35  Score=229.48  Aligned_cols=136  Identities=77%  Similarity=1.165  Sum_probs=131.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.+++|.++..|++.++++|+++.+++.|++++|.||++++.|||+|++||+|||++++|+||++||+|++
T Consensus        72 sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~  151 (207)
T cd03755          72 AGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTY  151 (207)
T ss_pred             ecchhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCcCE
Confidence            79999999999999999999999999999999999999999999999999999999999999998777999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcCCCcEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVM  138 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~~~~iei~ii  138 (174)
                      .+++++|+|+|+..++++||+.|+++|  +.+||++++++||..+.+.++++|||+++
T Consensus       152 ~~~~~~a~G~gs~~~~~~Le~~~~~~m--s~eeai~l~~~~l~~~~~~~~~~~e~~~~  207 (207)
T cd03755         152 SAWKANAIGRNSKTVREFLEKNYKEEM--TRDDTIKLAIKALLEVVQSGSKNIELAVM  207 (207)
T ss_pred             EcceEEEECCCCHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHhCCCCCeEEEEEC
Confidence            999999999999999999999999999  99999999999999999977899999875

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=7.9e-35  Score=225.23  Aligned_cols=143  Identities=22%  Similarity=0.238  Sum_probs=132.9

Q ss_pred             CCchHHHHHHHHHHHHHHH-HhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQ-SHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~-~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.+++++|.++. .+++.++.+|+++.+|++|++++  |++++++|||+|++||||||++++|+||++||+|+
T Consensus        48 sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~i~~~~--y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~  125 (197)
T cd03760          48 SGDYADFQYLKRLLDQLVIDDECLDDGHSLSPKEIHSYLTRVL--YNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGT  125 (197)
T ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--HHHhhcCCCceEEEEEEEEcCCCCEEEEEEcCCcc
Confidence            7999999999999999987 56788999999999999999985  88888999999999999999767799999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhccc--ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcC
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYKS--EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLS  148 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~~--~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~  148 (174)
                      +.+++++|+|+|+..++++||+.|++  +|  |++||++++.+||..+.+++   ++.++|++|+++| +++-.
T Consensus       126 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~~m--s~eea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g-~~~~~  196 (197)
T cd03760         126 AYEDPHVATGFGAYLALPLLREAWEKKPDL--TEEEARALIEECMKVLYYRDARSINKYQIAVVTKEG-VEIEG  196 (197)
T ss_pred             EEECCEeEEccHHHHHHHHHHhhcCCCCCC--CHHHHHHHHHHHHHHHHHhccccCCceEEEEECCCC-EEeCC
Confidence            99999999999999999999999999  88  99999999999999999864   7899999999987 66543

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=8.7e-35  Score=227.89  Aligned_cols=138  Identities=31%  Similarity=0.516  Sum_probs=131.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|.++..|+++++++|+++.+|+.|++++|.||++++.|||+|++||+|||++++|+||++||+|++
T Consensus        74 sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~  153 (215)
T cd03754          74 TGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYF  153 (215)
T ss_pred             EechhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCccE
Confidence            79999999999999999999999999999999999999999999999999999999999999997667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccccccc--CHHHHHHHHHHHHHHHhhcC--CCcEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMT--TEKATIKLAIRALLEVVQSG--QKNLEIAVM  138 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~--s~~eai~l~~~~l~~~~~~~--~~~iei~ii  138 (174)
                      .+++++|+|+|+..++++||+.|++++.+  |++|+++++++||..+.+++  ++.+||+|+
T Consensus       154 ~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~~~~~ei~~~  215 (215)
T cd03754         154 AGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFKATEIEVGVV  215 (215)
T ss_pred             EeEEEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            99999999999999999999999997545  99999999999999998864  689999875

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=1.1e-34  Score=228.54  Aligned_cols=148  Identities=44%  Similarity=0.727  Sum_probs=140.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.++++.++..|++.++++++++.+++.|++++|.|+++++.|||+|++||+|||+ ++|+||.+||+|++
T Consensus        74 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~-~~~~Ly~~D~~G~~  152 (224)
T TIGR03633        74 SGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFETDPSGAL  152 (224)
T ss_pred             eecHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeC-CcCEEEEECCCCCe
Confidence            79999999999999999999999999999999999999999999999999999999999999994 56999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEEEcCCC-eEEcCHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVMRHGKP-VEMLSVAQ  151 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii~~~~~-~~~l~~~e  151 (174)
                      .+++++|+|+++..++++|++.|+++|  +++||++++++||..+.+.  .++.++|++++++|+ |+.++++|
T Consensus       153 ~~~~~~a~G~g~~~~~~~L~~~~~~~~--~~eeai~l~~~al~~~~~d~~~~~~i~i~ii~~~g~~~~~~~~~~  224 (224)
T TIGR03633       153 LEYKATAIGAGRQAVTEFLEKEYREDL--SLDEAIELALKALYSAVEDKLTPENVEVAYITVEDKKFRKLSVEE  224 (224)
T ss_pred             ecceEEEECCCCHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHhcccCCCCcEEEEEEEcCCCcEEECCCCC
Confidence            999999999999999999999999998  9999999999999998873  378999999999866 89888765

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.

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=1.8e-34  Score=230.19  Aligned_cols=153  Identities=17%  Similarity=0.285  Sum_probs=141.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceee--eeEEEEeCCCCceEEEeCCCC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGIS--CLIGGFDYDGKPRLYQTEPSG   78 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~--~il~G~D~~g~~~Ly~vd~~G   78 (174)
                      ||+.+|++.|++++|.++..|++++|++|+++.+|++|++++|.+      |||+++  +||||||++| |+||++||+|
T Consensus        85 sG~~aD~~~l~~~lr~~~~~y~~~~g~~isv~~la~~ls~~l~~~------R~~~~~v~~iiaG~D~~g-p~Ly~vDp~G  157 (247)
T PTZ00488         85 AGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNY------KGMGLSMGTMICGWDKKG-PGLFYVDNDG  157 (247)
T ss_pred             CcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc------CCCCeeEEEEEEEEeCCC-CEEEEEcCCc
Confidence            799999999999999999999999999999999999999998644      565555  8999999665 9999999999


Q ss_pred             ceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHH
Q psy13966         79 IYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEY  155 (174)
Q Consensus        79 ~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~  155 (174)
                      ++.+++++|+|+|+..++++||+.|+++|  |.+||++++++||..+.+++   +++++|++|+++| ++.++++||+.+
T Consensus       158 s~~~~~~~a~G~gs~~~~~~Le~~~k~dm--s~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g-~~~l~~~ei~~~  234 (247)
T PTZ00488        158 TRLHGNMFSCGSGSTYAYGVLDAGFKWDL--NDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDG-WKKISADDCFDL  234 (247)
T ss_pred             ceeecCCEEEccCHHHHHHHHHhcCcCCC--CHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCc-cEECCHHHHHHH
Confidence            99999999999999999999999999998  99999999999999999964   7899999999987 999999999999


Q ss_pred             HHHhccch
Q psy13966        156 VNEIEKEK  163 (174)
Q Consensus       156 ~~~~~~~~  163 (174)
                      ++++++..
T Consensus       235 l~~~~~~~  242 (247)
T PTZ00488        235 HQKYAAEK  242 (247)
T ss_pred             HHHHhhhc
Confidence            99986543

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=1.1e-34  Score=226.96  Aligned_cols=135  Identities=33%  Similarity=0.505  Sum_probs=128.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+++|++.+++++|.++..|++.++++++++.+++.|++++|.||+++++|||+|++||+|||++ +|+||++||+|++
T Consensus        75 sG~~~D~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~-gp~Ly~~D~~Gs~  153 (212)
T cd03751          75 AGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSD-GPQLYMIEPSGVS  153 (212)
T ss_pred             EEChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCC-cCEEEEECCCCCE
Confidence            699999999999999999999999999999999999999999999999999999999999999965 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc---CCCcEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS---GQKNLEIAVM  138 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~---~~~~iei~ii  138 (174)
                      .+++++|+|+|+..++++||+.|+++|  |++||+++++++|+.+.+.   +..+|||+++
T Consensus       154 ~~~~~~a~G~g~~~a~~~Lek~~~~dm--s~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         154 YGYFGCAIGKGKQAAKTELEKLKFSEL--TCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             EeeEEEEECCCCHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            999999999999999999999999999  9999999999999999983   4689999874

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=3.5e-34  Score=224.11  Aligned_cols=136  Identities=36%  Similarity=0.620  Sum_probs=130.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|.++..|++.++++|+++.+++.|+.++|.||++++.|||+|++||+|||++.+|+||.+||+|++
T Consensus        75 sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d~~G~~  154 (213)
T cd03752          75 AGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNY  154 (213)
T ss_pred             ecChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEECCCCCe
Confidence            79999999999999999999999999999999999999999999999999999999999999997666999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVM  138 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii  138 (174)
                      .+++++|+|+++..++++||+.|+++|  +++||++++++||..+.+++   +.+++|+++
T Consensus       155 ~~~~~~a~G~gs~~~~~~Le~~y~~~m--s~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         155 SGWKATAIGNNNQAAQSLLKQDYKDDM--TLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             eeeeEEEECCCcHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            999999999999999999999999999  99999999999999999864   678999874

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=5.3e-34  Score=219.18  Aligned_cols=139  Identities=17%  Similarity=0.277  Sum_probs=130.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|++++|.++.+|++.++++|+++.+|++|++++|.|++    +||+|++||||||++ +|+||++||+|++
T Consensus        46 sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la~~ls~~l~~~~~----~~~~v~~li~G~D~~-g~~L~~~dp~G~~  120 (188)
T cd03761          46 AGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNMLYQYKG----MGLSMGTMICGWDKT-GPGLYYVDSDGTR  120 (188)
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCC----CCeEEEEEEEEEeCC-CCEEEEEcCCceE
Confidence            79999999999999999999999999999999999999999998864    589999999999964 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEc
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEML  147 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l  147 (174)
                      .+++++|+|+|+..++++||+.|+++|  |.+||++++.+||..+.+++   +++++|++|+++| ++++
T Consensus       121 ~~~~~~a~G~g~~~~~~~Le~~~~~~~--s~eea~~l~~~~l~~~~~rd~~sg~~~~v~ii~~~g-~~~~  187 (188)
T cd03761         121 LKGDLFSVGSGSTYAYGVLDSGYRYDL--SVEEAYDLARRAIYHATHRDAYSGGNVNLYHVREDG-WRKI  187 (188)
T ss_pred             EEcCeEEEcccHHHHHHHHHhcCCCCC--CHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEcCCc-eEEc
Confidence            999999999999999999999999998  99999999999999999864   7899999999987 6554

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

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=6.5e-34  Score=224.56  Aligned_cols=153  Identities=14%  Similarity=0.171  Sum_probs=139.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcC-CCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeC-CCCceEEEeCCCC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVE-DPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDY-DGKPRLYQTEPSG   78 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~-~g~~~Ly~vd~~G   78 (174)
                      ||+.+|++.|+++++.++..|++.++ .+++++.+|+.+++.++.++ +++.|||+|++||+|||+ +.+|+||++||+|
T Consensus        65 sG~~~D~~~lv~~~r~~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~-~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG  143 (228)
T TIGR03691        65 VGKYNEFENLRRAGIRYADMRGYSYDRRDVTGRGLANAYAQTLGTIF-TEQQKPYEVEICVAEVGETPDQDQLYRITFDG  143 (228)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHhhhcCCCCccHHHHHHHHHhhccccc-ccccCcceEEEEEEEEcCCCCCCEEEEECCCC
Confidence            79999999999999999999999998 78999999988888887776 678899999999999985 4569999999999


Q ss_pred             ceeeee-eEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhh-----cCCCcEEEEEEEcCC---CeEEcCH
Q psy13966         79 IYYEWK-ANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQ-----SGQKNLEIAVMRHGK---PVEMLSV  149 (174)
Q Consensus        79 ~~~~~~-~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~-----~~~~~iei~ii~~~~---~~~~l~~  149 (174)
                      ++.+++ ++|+|+|+..++++||+.|+++|  +++||++++++||..+.+     .++.+|||+++++++   .|++|++
T Consensus       144 ~~~~~~~~~aiG~gs~~a~~~Lek~y~~~m--s~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~~l~~  221 (228)
T TIGR03691       144 SIVDERGFVVMGGTTEPIATALKESYRDGL--SLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRITG  221 (228)
T ss_pred             CceeccceEEECCChHHHHHHHHHhcCCCC--CHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceEECCH
Confidence            999976 89999999999999999999998  999999999999999964     357899999999753   4999999


Q ss_pred             HHHHHHH
Q psy13966        150 AQIEEYV  156 (174)
Q Consensus       150 ~ei~~~~  156 (174)
                      +||+.++
T Consensus       222 ~ei~~~l  228 (228)
T TIGR03691       222 EALERLL  228 (228)
T ss_pred             HHHHhhC
Confidence            9998764

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.

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=5.5e-34  Score=222.75  Aligned_cols=136  Identities=38%  Similarity=0.659  Sum_probs=129.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|.++..|+++++++|+++.+|+.+++++|.||++++.|||+|++||+|||++| |+||++||+|++
T Consensus        70 sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~g-p~Ly~~Dp~G~~  148 (211)
T cd03749          70 AGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESG-PHLFQTCPSGNY  148 (211)
T ss_pred             EeChHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCC-CeEEEECCCcCE
Confidence            7999999999999999999999999999999999999999999999999999999999999999654 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcc--cccccCHHHHHHHHHHHHHHHhhc----CCCcEEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYK--SEEMTTEKATIKLAIRALLEVVQS----GQKNLEIAVMR  139 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~--~~~~~s~~eai~l~~~~l~~~~~~----~~~~iei~ii~  139 (174)
                      .+++++|+|+++..++++||+.|+  ++|  +++|++++++++|..++++    .+++|||++++
T Consensus       149 ~~~~~~a~G~g~~~a~~~Le~~~~~~~~m--s~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         149 FEYKATSIGARSQSARTYLERHFEEFEDC--SLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             eeeeEEEECCCcHHHHHHHHHhhccccCC--CHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            999999999999999999999998  577  9999999999999999874    35899999874

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=9.3e-34  Score=218.96  Aligned_cols=137  Identities=18%  Similarity=0.278  Sum_probs=128.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|.++..|++.++.+|+++.+|++|++++  |++  +.|||+|++||||||++++|+||++||+|++
T Consensus        49 sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~la~~l~~~l--y~~--r~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~  124 (195)
T cd03759          49 AGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLL--YEK--RFGPYFVEPVVAGLDPDGKPFICTMDLIGCP  124 (195)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH--HHh--cCCCceEEEEEEEEcCCCCEEEEEEcCCCcc
Confidence            799999999999999999999999999999999999999998  555  3689999999999998888999999999999


Q ss_pred             eeee-eEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC
Q psy13966         81 YEWK-ANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP  143 (174)
Q Consensus        81 ~~~~-~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~  143 (174)
                      ..++ ++|+|+|+..++++||+.|+|+|  |.+||++++++||..+.+++   +++++|++|+++|.
T Consensus       125 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~--s~~ea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~  189 (195)
T cd03759         125 SIPSDFVVSGTASEQLYGMCESLWRPDM--EPDELFETISQALLSAVDRDALSGWGAVVYIITKDKV  189 (195)
T ss_pred             cccCCEEEEcccHHHHHHHHHhccCCCC--CHHHHHHHHHHHHHHHHhhCcccCCceEEEEEcCCcE
Confidence            8887 99999999999999999999998  99999999999999999864   78999999999873

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

>KOG0182|consensus

Probab=100.00  E-value=2.9e-33  Score=212.09  Aligned_cols=161  Identities=32%  Similarity=0.517  Sum_probs=153.4

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|+.+|++..+.++|.++.+++++||.+||++.||+.++++.|.|||+.-+||+||.+++.|+|++.||.+|.+||.|-+
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            59999999999999999999999999999999999999999999999999999999999999999888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCC-eEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKP-VEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~-~~~l~~~ei~~~~~  157 (174)
                      ..+++++.|-....+.++|||+++++..+|.+|++++++.||..++..|  ...+||++++++.+ |+.|+.+||+..|.
T Consensus       161 ~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~se~EVgvv~~~~p~f~~Ls~~eie~hL~  240 (246)
T KOG0182|consen  161 YGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFKSSELEVGVVTVDNPEFRILSAEEIEEHLQ  240 (246)
T ss_pred             ccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccCCcceEEEEEEcCCcceeeccHHHHHHHHH
Confidence            9999999999999999999999999865589999999999999999865  57999999999866 99999999999999


Q ss_pred             Hhcc
Q psy13966        158 EIEK  161 (174)
Q Consensus       158 ~~~~  161 (174)
                      .|.+
T Consensus       241 ~IAE  244 (246)
T KOG0182|consen  241 AIAE  244 (246)
T ss_pred             Hhhh
Confidence            9854

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=3.9e-33  Score=220.76  Aligned_cols=139  Identities=19%  Similarity=0.232  Sum_probs=128.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCC-CCCHHHHHHHHHHHHH-HhhhcCC-----CCcceeeeeEEEEeCCCCceEEE
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVED-PVTLEYITRYIAGLKQ-KYTQSNG-----RRPFGISCLIGGFDYDGKPRLYQ   73 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~-~i~~~~la~~ls~~~~-~~t~~~~-----~RP~gv~~il~G~D~~g~~~Ly~   73 (174)
                      ||+.+|++.|++++|.++..|++.+|+ +++++.+|+.++++++ .++|+.+     .|||+|++||+|||+++||+||+
T Consensus        49 sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~  128 (236)
T cd03765          49 AGNLATTQAVISLLQRDLEDPEETNLLNAPTMFDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFL  128 (236)
T ss_pred             CCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCHHHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEE
Confidence            799999999999999999999999999 8999999999999864 5667665     48999999999999666699999


Q ss_pred             eCCCCceeeee----eEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC
Q psy13966         74 TEPSGIYYEWK----ANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK  142 (174)
Q Consensus        74 vd~~G~~~~~~----~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~  142 (174)
                      +||+|++.+++    ++|+|. +..++++||+.|+++|  |++||++++++||..+++++   +.+|+|.+|+++|
T Consensus       129 idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek~yk~~m--s~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~G  201 (236)
T cd03765         129 IYPQGNFIEATPDTPFLQIGE-TKYGKPILDRVITPDT--SLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERDS  201 (236)
T ss_pred             ECCCCCEEeecCCCceeeeCC-chhhHHHHHHhcCCCC--CHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECCC
Confidence            99999999995    479996 7999999999999999  99999999999999999964   7899999999996

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

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=4.9e-33  Score=217.31  Aligned_cols=136  Identities=46%  Similarity=0.787  Sum_probs=130.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.++++.++..|+++++++++++.+++.|+.++|.|+++++.|||+|++||+|||+. +|+||.+||+|++
T Consensus        73 sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~-~~~ly~vd~~G~~  151 (211)
T cd03756          73 SGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDG-GPRLFETDPSGAY  151 (211)
T ss_pred             ecCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCC-CCEEEEECCCCCe
Confidence            799999999999999999999999999999999999999999999999999999999999999965 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMR  139 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~  139 (174)
                      .+++++|+|+++..++++|++.|+|+|  +++||++++++||..+.+++  +++++|++++
T Consensus       152 ~~~~~~a~G~g~~~~~~~Le~~~~~~m--~~~ea~~l~~~~l~~~~~~~~~~~~~~v~ii~  210 (211)
T cd03756         152 NEYKATAIGSGRQAVTEFLEKEYKEDM--SLEEAIELALKALYAALEENETPENVEIAYVT  210 (211)
T ss_pred             eeeEEEEECCCCHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHhcccCCCCcEEEEEEe
Confidence            999999999999999999999999999  99999999999999998864  7899999986

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

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=1.3e-32  Score=211.16  Aligned_cols=140  Identities=26%  Similarity=0.388  Sum_probs=131.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|.++++.++..|++.++++++++.+++++++++|.+    ++|||+|++||||||+ ++|+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~----~~~P~~~~~lvaG~d~-~~~~ly~~D~~G~~  120 (188)
T cd03764          46 AGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSS----KYFPYIVQLLIGGVDE-EGPHLYSLDPLGSI  120 (188)
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc----CCCCcEEEEEEEEEeC-CCCEEEEECCCCCE
Confidence            799999999999999999999999999999999999999999764    5799999999999996 56999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcC
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLS  148 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~  148 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++|+++++.+||..+.+++   +++++|++++++| ++++.
T Consensus       121 ~~~~~~a~G~g~~~~~~~L~~~~~~~~--~~~ea~~l~~~~l~~~~~rd~~~~~~i~i~iv~~~g-~~~~~  188 (188)
T cd03764         121 IEDKYTATGSGSPYAYGVLEDEYKEDM--TVEEAKKLAIRAIKSAIERDSASGDGIDVVVITKDG-YKELE  188 (188)
T ss_pred             EEcCEEEEcCcHHHHHHHHHhcCCCCC--CHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEECCCC-eEeCC
Confidence            999999999999999999999999998  99999999999999999864   7899999999987 88763

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.

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=1.5e-32  Score=210.41  Aligned_cols=135  Identities=24%  Similarity=0.422  Sum_probs=128.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.+.++++.++..|++.++.+++++.++++|++++|.+    ++|||+|++||+|||++| |+||.+||+|++
T Consensus        47 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~----~~rP~~v~~ivaG~d~~g-~~Ly~~d~~G~~  121 (185)
T TIGR03634        47 AGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNILNSN----RFFPFIVQLLVGGVDEEG-PHLYSLDPAGGI  121 (185)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc----CCCCeEEEEEEEEEeCCC-CEEEEECCCCCe
Confidence            799999999999999999999999999999999999999999765    689999999999999765 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK  142 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~  142 (174)
                      .+++++|+|+++..++++|++.|+++|  |++||++++.+||..+.+++   +++++|++++++|
T Consensus       122 ~~~~~~a~G~g~~~~~~~Le~~~~~~~--s~~ea~~l~~~~l~~~~~r~~~~~~~~~v~ii~~~g  184 (185)
T TIGR03634       122 IEDDYTATGSGSPVAYGVLEDEYREDM--SVEEAKKLAVRAIKSAIERDVASGNGIDVAVITKDG  184 (185)
T ss_pred             EECCEEEEcCcHHHHHHHHHhcCCCCC--CHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEcCCC
Confidence            999999999999999999999999998  99999999999999999864   7899999999987

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=2.9e-32  Score=213.23  Aligned_cols=137  Identities=19%  Similarity=0.326  Sum_probs=128.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|.++..|++.+|++|+++.++++|++++  |++  +.|||+|++||||||++++|+||++||+|++
T Consensus        54 sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~l--y~~--R~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~  129 (212)
T cd03757          54 SGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTIL--YSR--RFFPYYVFNILAGIDEEGKGVVYSYDPVGSY  129 (212)
T ss_pred             cchHHHHHHHHHHHHHHHHHHhHHhCCCCCHHHHHHHHHHHH--Hhh--cCCCeEEEEEEEEEcCCCCEEEEEEcCccCe
Confidence            799999999999999999999999999999999999999998  443  3579999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcc---------cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYK---------SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP  143 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~---------~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~  143 (174)
                      .+++++|+|+|+..++++||+.|+         ++|  |++||++++.+||..+.+++   +++++|++|+++|.
T Consensus       130 ~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~~~~m--s~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g~  202 (212)
T cd03757         130 ERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPL--SLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGI  202 (212)
T ss_pred             eecCEEEEeecHHHHHHHHHHHHHhhccCcCCCCCC--CHHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCCE
Confidence            999999999999999999999985         778  99999999999999999864   78999999999973

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

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=2.9e-32  Score=212.59  Aligned_cols=136  Identities=50%  Similarity=0.835  Sum_probs=130.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.++++.++..|++.+|++++++.+|+++++++|.|+++++.|||+|++||+|||++++|+||.+||+|++
T Consensus        72 sG~~~D~~~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~  151 (209)
T cd01911          72 AGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTY  151 (209)
T ss_pred             ccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCCCe
Confidence            79999999999999999999999999999999999999999999999999999999999999998777999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVM  138 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii  138 (174)
                      .+++++|+|+++..++++|++.|+|+|  +.+||++++.+||..+.+++  ++.++|+++
T Consensus       152 ~~~~~~a~G~g~~~~~~~L~~~~~~~m--s~~ea~~l~~~~l~~~~~~d~~~~~~~i~i~  209 (209)
T cd01911         152 FGYKATAIGKGSQEAKTFLEKRYKKDL--TLEEAIKLALKALKEVLEEDKKAKNIEIAVV  209 (209)
T ss_pred             eeeeEEEeCCCcHHHHHHHHHhcccCC--CHHHHHHHHHHHHHHHHhccCCCCcEEEEEC
Confidence            999999999999999999999999999  99999999999999999875  678888874

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.

>KOG0863|consensus

Probab=100.00  E-value=3.4e-32  Score=208.50  Aligned_cols=162  Identities=31%  Similarity=0.537  Sum_probs=150.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|+.+|++.|++++|.+|..+++.|++++|+..|...|.+.+|..||+.+.|||||+++++|||+.| |+||.++|+|++
T Consensus        75 AGLt~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~G-~hl~e~~Psg~v  153 (264)
T KOG0863|consen   75 AGLTADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDESG-PHLYEFCPSGNV  153 (264)
T ss_pred             eccCcchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCCC-ceeEEEcCCccE
Confidence            6999999999999999999999999999999999999999999999999999999999999999776 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC----CCcEEEEEEEcCCCeEEcCHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG----QKNLEIAVMRHGKPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~----~~~iei~ii~~~~~~~~l~~~ei~~~~  156 (174)
                      .++++.+||+.|+.++++||++..+.+..+.+|.|..++.||+..+..+    ..+++|.|+.+|.+|++++.+++..++
T Consensus       154 ~e~~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~~~d~~~~~k~~  233 (264)
T KOG0863|consen  154 FECKGMSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFTILDQKDVAKYV  233 (264)
T ss_pred             EEEeeeecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceEeecHHHHHHHH
Confidence            9999999999999999999999865433499999999999999998643    689999999999999999999999888


Q ss_pred             HHhccch
Q psy13966        157 NEIEKEK  163 (174)
Q Consensus       157 ~~~~~~~  163 (174)
                      .-.+..+
T Consensus       234 ~~~~~~~  240 (264)
T KOG0863|consen  234 DLFKKVD  240 (264)
T ss_pred             HHhhcCC
Confidence            8776643

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=6.2e-32  Score=207.78  Aligned_cols=140  Identities=24%  Similarity=0.346  Sum_probs=130.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.+++|.++..|+++++++++++.++++|++.+|.|.     .||+|++||||||++| |+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~-----~p~~v~~ivaG~d~~g-~~ly~~d~~G~~  119 (189)
T cd03763          46 AGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQ-----GHIGAALVLGGVDYTG-PHLYSIYPHGST  119 (189)
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHcC-----CccceeEEEEeEcCCC-CEEEEECCCCCE
Confidence            7999999999999999999999999999999999999999997653     3999999999999665 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSV  149 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~  149 (174)
                      .+++++|+|+++..++++|++.|+|+|  |++||++++.+||..+.+++   +++++|++++++| ++...|
T Consensus       120 ~~~~~~a~G~~~~~~~~~L~~~~~~~l--s~~ea~~l~~~~l~~~~~rd~~~~~~~~v~ii~~~g-~~~~~~  188 (189)
T cd03763         120 DKLPFVTMGSGSLAAMSVLEDRYKPDM--TEEEAKKLVCEAIEAGIFNDLGSGSNVDLCVITKDG-VEYLRN  188 (189)
T ss_pred             EecCEEEEcCCHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHHhcCcCCCceEEEEEcCCc-EEEecC
Confidence            999999999999999999999999998  99999999999999998864   7899999999997 665543

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=1.1e-31  Score=206.20  Aligned_cols=135  Identities=14%  Similarity=0.261  Sum_probs=128.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|.++++.++..|+..++++++++.++++++.++|.++     |||+|++||||||++++|+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~-----~~~~~~~ii~G~d~~~gp~ly~~d~~G~~  120 (188)
T cd03762          46 SGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYK-----EMLSAGIIVAGWDEQNGGQVYSIPLGGML  120 (188)
T ss_pred             cccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHhcc-----ccceeeEEEEEEcCCCCcEEEEECCCCCE
Confidence            7999999999999999999999999999999999999999997653     79999999999997566999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK  142 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~  142 (174)
                      .+++++++|+++..++++|++.|+++|  +++||++++++||..+.+++   ++.++|++|+++|
T Consensus       121 ~~~~~~~~G~g~~~~~~~Le~~~~~~~--s~~ea~~l~~~al~~~~~rd~~~~~~~~i~~i~~~g  183 (188)
T cd03762         121 IRQPFAIGGSGSTYIYGYVDANYKPGM--TLEECIKFVKNALSLAMSRDGSSGGVIRLVIITKDG  183 (188)
T ss_pred             EecCEEEEcccHHHHHHHHHhcCCCCC--CHHHHHHHHHHHHHHHHHhccccCCCEEEEEECCCC
Confidence            999999999999999999999999999  99999999999999999965   7899999999987

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=99.98  E-value=2.9e-31  Score=203.61  Aligned_cols=139  Identities=23%  Similarity=0.356  Sum_probs=130.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.++++.++..|++.++++++++.++++++++++.+++    |||+|++||||||++++|+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~----~P~~~~~iv~G~d~~~~~~l~~id~~G~~  121 (189)
T cd01912          46 AGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRG----FPYYVSLIVGGVDKGGGPFLYYVDPLGSL  121 (189)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCC----CCeEEEEEEEEEcCCCCeEEEEECCCCCe
Confidence            79999999999999999999999999999999999999999976654    89999999999997677999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEM  146 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~  146 (174)
                      .+++++|+|+++..++++|++.|+|+|  +++||++++.+||..+.+++   +..++|.+++++| ++.
T Consensus       122 ~~~~~~a~G~~~~~~~~~Le~~~~~~~--s~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi~~~g-~~~  187 (189)
T cd01912         122 IEAPFVATGSGSKYAYGILDRGYKPDM--TLEEAVELVKKAIDSAIERDLSSGGGVDVAVITKDG-VEE  187 (189)
T ss_pred             EecCEEEEcccHHHHHHHHHhccCCCC--CHHHHHHHHHHHHHHHHHhcCccCCcEEEEEECCCC-EEE
Confidence            999999999999999999999999998  99999999999999988864   7899999999987 543

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

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=99.98  E-value=1.6e-31  Score=209.10  Aligned_cols=135  Identities=34%  Similarity=0.621  Sum_probs=126.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcC-----CCCcceeeeeEEEEeCCCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSN-----GRRPFGISCLIGGFDYDGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~-----~~RP~gv~~il~G~D~~g~~~Ly~vd   75 (174)
                      ||+.+|++.+.+++|.++..|++.++++|+++.+++.|+.++|.|++..     +.|||+|++||+|||++ +|+||.+|
T Consensus        72 sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~-gp~Ly~vd  150 (213)
T cd03753          72 SGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDEN-GPQLFHTD  150 (213)
T ss_pred             ecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCC-CCEEEEEC
Confidence            7999999999999999999999999999999999999999999998743     47999999999999965 59999999


Q ss_pred             CCCceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEE
Q psy13966         76 PSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVM  138 (174)
Q Consensus        76 ~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii  138 (174)
                      |+|++.+++++|+|+++..++++|++.|+++|  +++||++++++||+.+.++  ++++++|+++
T Consensus       151 ~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~l--s~eeai~l~~~~l~~~~~~~~~~~~~ei~~~  213 (213)
T cd03753         151 PSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDM--TLEEAEKLALSILKQVMEEKLNSTNVELATV  213 (213)
T ss_pred             CCCCeecccEEEECCCcHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            99999999999999999999999999999998  9999999999999998765  3688999874

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

>KOG0184|consensus

Probab=99.98  E-value=4.6e-32  Score=206.83  Aligned_cols=158  Identities=28%  Similarity=0.423  Sum_probs=141.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|+.+|++.|.+++|.++.+|+.+|+.++|...++.++++++|.||.|+..|||||+.|+++||. ++||||.+||||..
T Consensus        79 aGl~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~-~g~~LymiepSG~~  157 (254)
T KOG0184|consen   79 AGLIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDD-EGPQLYMIEPSGSS  157 (254)
T ss_pred             eccccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeC-CCceEEEEcCCCCc
Confidence            69999999999999999999999999999999999999999999999999999999999999995 45999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcC-CCeEEcCHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHG-KPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~-~~~~~l~~~ei~~~~  156 (174)
                      +.|+++|+|.|.+.|+++|||+.-.+|  +++|+++.+.++|+.+.+..   ...+|++|++.+ ++.+..-|+|+-+..
T Consensus       158 ~~Y~~aaiGKgrq~aKtElEKL~~~~m--t~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eTnG~h~~vp~el~~ea  235 (254)
T KOG0184|consen  158 YGYKGAAIGKGRQAAKTELEKLKIDEM--TCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEETNGLHEKVPSELLEEA  235 (254)
T ss_pred             cceeeeeccchhHHHHHHHHhcccccc--cHHHHHHHHHheeEeecccccCcceEEEEEEEEeecCCccccCcHHHHHHH
Confidence            999999999999999999999998888  99999999999999999853   458899999876 335544455776666


Q ss_pred             HHhcc
Q psy13966        157 NEIEK  161 (174)
Q Consensus       157 ~~~~~  161 (174)
                      .++..
T Consensus       236 ~~~a~  240 (254)
T KOG0184|consen  236 EKYAK  240 (254)
T ss_pred             HHHHH
Confidence            65543

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

Probab=99.98  E-value=3.7e-31  Score=202.67  Aligned_cols=136  Identities=41%  Similarity=0.715  Sum_probs=131.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.++++.++..|++.++.+++++.+++.++.++|.+++++++|||++++|++|||++++|+||.+||+|++
T Consensus        51 sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~  130 (190)
T PF00227_consen   51 SGLTADFQYLIRRLREEAQEYRFSYGRPISPEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSGSY  130 (190)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHHSSGTCHHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTSEE
T ss_pred             cccccchHHHHhhhcccchhhhhccCccccchhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeecccccc
Confidence            69999999999999999999999999999999999999999999999999999999999999998888999999999999


Q ss_pred             eee-eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEE
Q psy13966         81 YEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVM  138 (174)
Q Consensus        81 ~~~-~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii  138 (174)
                      .++ +++|+|+|+..++++|++.|+++|  +++||++++.+||..+.+++   +++++|++|
T Consensus       131 ~~~~~~~aiG~g~~~~~~~l~~~~~~~~--~~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  131 IECKRFAAIGSGSQFAQPILEKLYKPDL--SLEEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             EEBSSEEEESTTHHHHHHHHHHHHTTTS--SHHHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             ccccccccchhcchhhhHHHHhhccCCC--CHHHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            999 699999999999999999999999  99999999999999999854   789999886

They include the proteasome in Eukaryotes, Archaea, and Actinomycetales and the HslVU (ClpQY, clpXP) complex in other eubacteria. Genes homologous to eubacterial HslV (ClpQ) and HslU (ClpY, clpX) have also been demonstrated in to be present in the genome of trypanosomatid protozoa []. The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). The prokaryotic ATP-dependent proteasome is coded for by the heat-shock locus VU (HslVU). It consists of HslV, the protease (MEROPS peptidase subfamily T1B), and HslU, IPR004491 from INTERPRO, the ATPase and chaperone belonging to the AAA/Clp/Hsp100 family. The crystal structure of Thermotoga maritima HslV has been determined to 2.1-A resolution. The structure of the dodecameric enzyme is well conserved compared to those from Escherichia coli and Haemophilus influenzae [, ]. This entry contains threonine peptidases and non-peptidase homologs belong to MEROPS peptidase family T1 (proteasome family, clan PB(T)). The family consists of the protease components of the archaeal and bacterial proteasomes and the alpha and beta subunits of the eukaryotic proteasome. ; GO: 0004298 threonine-type endopeptidase activity, 0051603 proteolysis involved in cellular protein catabolic process, 0005839 proteasome core complex; PDB: 3KRD_1 3H6F_M 2FHH_F 3HF9_F 2FHG_D 3HFA_B 3H6I_K 3MI0_A 3MFE_1 3MKA_F ....

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=99.97  E-value=2.5e-30  Score=196.84  Aligned_cols=134  Identities=40%  Similarity=0.672  Sum_probs=127.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|.++++.++..|++.++.+++++.+++.|++++|.++++  .|||++++||+|||.+++|+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~--~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~  123 (182)
T cd01906          46 AGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPSGSY  123 (182)
T ss_pred             eeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCC--ccChheEEEEEEEeCCCCcEEEEECCCCCE
Confidence            699999999999999999999999999999999999999999999876  899999999999997677999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVM  138 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii  138 (174)
                      .+++++|+|+++..++++|++.|+++|  |++|+++++.+||..+.+++   +..++|+++
T Consensus       124 ~~~~~~a~G~g~~~~~~~L~~~~~~~~--s~~ea~~l~~~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         124 IEYKATAIGSGSQYALGILEKLYKPDM--TLEEAIELALKALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             eeccEEEECCCcHHHHHHHHHHccCCC--CHHHHHHHHHHHHHHHHcccCCCCCCEEEEEC
Confidence            999999999999999999999999998  99999999999999999864   578888874

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

>KOG0177|consensus

Probab=99.94  E-value=4.3e-26  Score=170.33  Aligned_cols=143  Identities=16%  Similarity=0.262  Sum_probs=134.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|..+|+.++.+++...++.|++++|.++||...|+++++.++.+..  +.+||.|++++||+|.+.+|.||++|..|+.
T Consensus        47 ~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aahFtR~~La~~LR--sr~~yqV~~LvaGYd~~~gp~L~~iDyla~~  124 (200)
T KOG0177|consen   47 VGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAHFTRRELAESLR--SRTPYQVNILVAGYDPEEGPELYYIDYLATL  124 (200)
T ss_pred             ecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHHHHHHHHHHHHh--cCCCceEEEEEeccCCCCCCceeeehhhhhc
Confidence            58899999999999999999999999999999999999999988764  4789999999999999877999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc---CCCcEEEEEEEcCCCeEEcC
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS---GQKNLEIAVMRHGKPVEMLS  148 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~---~~~~iei~ii~~~~~~~~l~  148 (174)
                      .+.++++.|.++.++.++|++.|+|+|  |.+||+++..+|+.++.+|   +..++.+.+|+||| ++.++
T Consensus       125 ~~vpy~~hGy~~~f~~sIlDr~Y~pdm--t~eea~~lmkKCv~El~kRlvin~~~f~v~IVdkdG-ir~~~  192 (200)
T KOG0177|consen  125 VSVPYAAHGYGSYFCLSILDRYYKPDM--TIEEALDLMKKCVLELKKRLVINLPGFIVKIVDKDG-IRKLD  192 (200)
T ss_pred             ccCCcccccchhhhhHHHHHhhhCCCC--CHHHHHHHHHHHHHHHHHhcccCCCCcEEEEEcCCC-ceecc
Confidence            999999999999999999999999999  9999999999999999986   67899999999998 66554

>KOG0179|consensus

Probab=99.93  E-value=1.2e-24  Score=165.03  Aligned_cols=140  Identities=19%  Similarity=0.323  Sum_probs=129.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+++|+.+|...++.....|+..++..|++..+|+.|+..+  |  +.++.||.+..||+|+|++|++.+|+.||.|++
T Consensus        75 sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~s~A~lls~~L--Y--~kRFFPYYv~~ilaGiDeeGKG~VySyDPvGsy  150 (235)
T KOG0179|consen   75 SGFYADTLALVKVIKSRIKQYEHDHNKKMSIHSAAQLLSTIL--Y--SKRFFPYYVFNILAGIDEEGKGAVYSYDPVGSY  150 (235)
T ss_pred             ccchhhHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHH--h--hcccccceeeeeeecccccCceeEEeecCCcce
Confidence            799999999999999999999999999999999999999998  3  457889999999999999999999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcc-c--------ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCe
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYK-S--------EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPV  144 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~-~--------~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~  144 (174)
                      .+.-+.|-|+++..++++|+.+.. +        ..+|++++|+.++.++|..+.+++   ++.++|.|++++|..
T Consensus       151 er~~~~AgGsa~~mI~PfLDnQi~~kn~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~gV~  226 (235)
T KOG0179|consen  151 ERVTCRAGGSAASMIQPFLDNQIGHKNQNLENAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKDGVE  226 (235)
T ss_pred             eeeeeecCCcchhhhhhhhhhhccCcCcccccCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecCCEE
Confidence            999999999999999999998752 2        234799999999999999999986   899999999999853

>KOG0175|consensus

Probab=99.93  E-value=3e-25  Score=172.66  Aligned_cols=154  Identities=17%  Similarity=0.300  Sum_probs=142.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|-++|++.+-+.+..+|..|++++++-|++...+++||++++.|.   ++ -+.+..+|||||+.| |.||.||..|+.
T Consensus       117 AGgAADCqfWer~L~kecRL~eLRnkeriSVsaASKllsN~~y~Yk---Gm-GLsmGtMi~G~Dk~G-P~lyYVDseG~R  191 (285)
T KOG0175|consen  117 AGGAADCQFWERVLAKECRLHELRNKERISVSAASKLLSNMVYQYK---GM-GLSMGTMIAGWDKKG-PGLYYVDSEGTR  191 (285)
T ss_pred             cCcchhhHHHHHHHHHHHHHHHHhcCcceehHHHHHHHHHHHhhcc---Cc-chhheeeEeeccCCC-CceEEEcCCCCE
Confidence            5889999999999999999999999999999999999999996554   33 478899999999776 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      ..-+-.++|+||.+|+++|+..|+++|  +.+||.+|+.+++..+..+|   +..|.++.|+++| |..+++.++..+..
T Consensus       192 l~G~~FSVGSGs~yAYGVLDsgYr~dl--s~eEA~~L~rrAI~hAThRDaySGG~vnlyHv~edG-W~~v~~~Dv~~L~~  268 (285)
T KOG0175|consen  192 LSGDLFSVGSGSTYAYGVLDSGYRYDL--SDEEAYDLARRAIYHATHRDAYSGGVVNLYHVKEDG-WVKVSNTDVSELHY  268 (285)
T ss_pred             ecCceEeecCCCceeEEeeccCCCCCC--CHHHHHHHHHHHHHHHHhcccccCceEEEEEECCcc-ceecCCccHHHHHH
Confidence            999999999999999999999999999  99999999999999999885   7899999999997 99999999999977


Q ss_pred             Hhccc
Q psy13966        158 EIEKE  162 (174)
Q Consensus       158 ~~~~~  162 (174)
                      .+.+.
T Consensus       269 ~~~e~  273 (285)
T KOG0175|consen  269 HYYEV  273 (285)
T ss_pred             HHHHh
Confidence            76553

>KOG0174|consensus

Probab=99.91  E-value=3.2e-24  Score=160.99  Aligned_cols=152  Identities=9%  Similarity=0.196  Sum_probs=139.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||.++|.|.+.+.++.....|...++.++++...|+.++.+.+.|.     ..+.+++||+|||++.+.++|.+...|..
T Consensus        65 SGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v~~aA~l~r~~~Y~~r-----e~L~AgliVAGwD~~~gGqVY~iplGG~l  139 (224)
T KOG0174|consen   65 SGSAADTQAIADIVRYHLELYTIQENKPPLVHTAASLFREICYNYR-----EMLSAGLIVAGWDEKEGGQVYSIPLGGSL  139 (224)
T ss_pred             CCchhhHHHHHHHHHHHHHHhhhhcCCCchHHHHHHHHHHHHHhCH-----HhhhcceEEeecccccCceEEEeecCceE
Confidence            7999999999999999999999999999999999999999985443     35889999999999888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC-eEEcCHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP-VEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~-~~~l~~~ei~~~~  156 (174)
                      .+.++..-|+||.+++++++..|+|+|  ++||++.++.+++.-++.+|   +..|.+.+|+++|. ++.++++++..+.
T Consensus       140 ~rq~~aIgGSGStfIYGf~D~~~r~nM--t~EE~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~~~~  217 (224)
T KOG0174|consen  140 TRQPFAIGGSGSTFIYGFCDANWRPNM--TLEECVRFVKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLGQFA  217 (224)
T ss_pred             eecceeeccCCceeeeeeehhhcCCCC--CHHHHHHHHHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCcccccc
Confidence            999999999999999999999999999  99999999999999999986   68999999999986 5688898887776


Q ss_pred             HHh
Q psy13966        157 NEI  159 (174)
Q Consensus       157 ~~~  159 (174)
                      .+.
T Consensus       218 v~t  220 (224)
T KOG0174|consen  218 VET  220 (224)
T ss_pred             ccC
Confidence            544

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

Probab=99.89  E-value=8.5e-22  Score=145.47  Aligned_cols=117  Identities=37%  Similarity=0.584  Sum_probs=112.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|..+|++.+.++++.++..|++.++.++++..+++.+++.++.+++   .||+++++||+|+|+ ++|+||.+||+|.+
T Consensus        46 sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~p~~~~~iiag~~~-~~~~l~~id~~g~~  121 (164)
T cd01901          46 AGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDE-GGGNLYYIDPSGPV  121 (164)
T ss_pred             ecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcC---CCCcceEEEEEEEcC-CCCEEEEECCCcCE
Confidence            68999999999999999999999999999999999999999998886   899999999999997 67999999999999


Q ss_pred             eee-eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHH
Q psy13966         81 YEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALL  123 (174)
Q Consensus        81 ~~~-~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~  123 (174)
                      ..+ .++++|+++..+.++|++.|++++  +.+++++++.+||.
T Consensus       122 ~~~~~~~~~G~~~~~~~~~l~~~~~~~~--~~~~~~~~~~~~l~  163 (164)
T cd01901         122 IENPGAVATGSRSQRAKSLLEKLYKPDM--TLEEAVELALKALK  163 (164)
T ss_pred             eecCcEEEECCCCHHHHHHHHHHhcCCC--CHHHHHHHHHHHHh
Confidence            999 999999999999999999999998  99999999999985

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

>KOG0180|consensus

Probab=99.85  E-value=2.5e-20  Score=137.73  Aligned_cols=136  Identities=18%  Similarity=0.258  Sum_probs=128.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|+.+|++++.++++..-..|+++.++.|.|+.+++.+|.+++  .  .++-||.+..+|||.|++++|.+..+|..|..
T Consensus        54 ~glatDvqtl~~~~~fr~nLy~lre~R~i~P~~~s~mvS~~lY--e--kRfgpYf~~PvVAGl~~~~kPfIc~mD~IGc~  129 (204)
T KOG0180|consen   54 TGLATDVQTLLERLRFRKNLYELREEREIKPETFSSMVSSLLY--E--KRFGPYFTEPVVAGLDDDNKPFICGMDLIGCI  129 (204)
T ss_pred             cccchhHHHHHHHHHHHHhHHHhhhhcccCcHHHHHHHHHHHH--H--hhcCCcccceeEeccCCCCCeeEeecccccCc
Confidence            6899999999999999999999999999999999999999993  2  35679999999999999999999999999998


Q ss_pred             eee-eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC
Q psy13966         81 YEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK  142 (174)
Q Consensus        81 ~~~-~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~  142 (174)
                      ..- ++++.|.++...++.+|..|+|+|  ..+++++.+.++|.++.++|   ++...+++|+||.
T Consensus       130 ~~~~DFVvsGTa~e~L~GmCE~ly~pnm--epd~LFetisQa~Lna~DRDalSGwGa~vyiI~kdk  193 (204)
T KOG0180|consen  130 DAPKDFVVSGTASEQLYGMCEALYEPNM--EPDELFETISQALLNAVDRDALSGWGAVVYIITKDK  193 (204)
T ss_pred             CccCCeEEecchHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHHhHhhhhhhccCCeEEEEEccch
Confidence            775 799999999999999999999999  99999999999999999986   8999999999985

>KOG0185|consensus

Probab=99.83  E-value=2.5e-20  Score=143.61  Aligned_cols=151  Identities=17%  Similarity=0.229  Sum_probs=135.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhH-hhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHK-LTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~-~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||-.+|+|.|.+.+.....+.. +..|..+.|+.++++|+..+  |..++.+.|++.+++|||+|++|.|.|-.+|.-|.
T Consensus        87 sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvl--Y~rRsKmnPlwntlvVgGv~~~g~~~lg~V~~~G~  164 (256)
T KOG0185|consen   87 SGDISDFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVL--YARRSKMNPLWNTLVVGGVDNTGEPFLGYVDLLGV  164 (256)
T ss_pred             CccHHHHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHH--HHhhhccCchhhheeEeeecCCCCeeEEEEeeccc
Confidence            6899999999999999887753 66779999999999999999  77788999999999999999989999999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhcc-cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHH
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYK-SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEE  154 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~-~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~  154 (174)
                      .++.+..|+|.|..++.++|++.|. ....++.+||.+++.+|++....+|   .+.++|++|+++| +.+-.|..|+.
T Consensus       165 ~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~eG-v~i~~p~qv~~  242 (256)
T KOG0185|consen  165 AYESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDEEG-VTISKPYQVKT  242 (256)
T ss_pred             cccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEcccc-eEecCceeeee
Confidence            9999999999999999999999997 2222499999999999999999986   5799999999986 77776666653

>KOG0173|consensus

Probab=99.82  E-value=2.4e-19  Score=139.51  Aligned_cols=134  Identities=22%  Similarity=0.361  Sum_probs=121.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|-.+|...+.+-+-.+...|++..++++++-..-..+.+.+..|.   +  -.|+.+|++|+|..| ||||++-|.|+.
T Consensus        83 AGtAADte~vt~m~ss~l~Lh~l~t~R~~rVv~A~~mlkQ~LFrYq---G--~IgA~LiiGGvD~TG-pHLy~i~phGSt  156 (271)
T KOG0173|consen   83 AGTAADTEMVTRMISSNLELHRLNTGRKPRVVTALRMLKQHLFRYQ---G--HIGAALILGGVDPTG-PHLYSIHPHGST  156 (271)
T ss_pred             CCchhhHHHHHHHHHHHHHHHHhccCCCCceeeHHHHHHHHHHHhc---C--cccceeEEccccCCC-CceEEEcCCCCc
Confidence            4788999999999999999999999999998877778888875553   2  378999999999887 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK  142 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~  142 (174)
                      ...++.++|+|+..+++.||.+|+|+|  +.+||++++.+|+..-+..|   +.+|.+.+|++.+
T Consensus       157 d~~Pf~alGSGslaAmsvlEsr~k~dl--t~eea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~  219 (271)
T KOG0173|consen  157 DKLPFTALGSGSLAAMSVLESRWKPDL--TKEEAIKLVCEAIAAGIFNDLGSGSNVDLCVITKKG  219 (271)
T ss_pred             CccceeeeccchHHHHHHHHHhcCccc--CHHHHHHHHHHHHHhhhccccCCCCceeEEEEeCCC
Confidence            999999999999999999999999999  99999999999999887654   7899999999754

>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=99.75  E-value=3e-17  Score=123.92  Aligned_cols=116  Identities=13%  Similarity=0.047  Sum_probs=93.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcce-eeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFG-ISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~g-v~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||..+|++.|.++++.++..|+...++     .+++.+..++ .    ...+|+. +.+++++|     ++||.+||.|.
T Consensus        47 aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~aa~l~~~l~-~----~~~~~~l~a~~iv~~~-----~~ly~id~~G~  111 (171)
T cd01913          47 AGSTADAFTLFERFEAKLEQYPGNLLR-----AAVELAKDWR-T----DRYLRRLEAMLIVADK-----EHTLLISGNGD  111 (171)
T ss_pred             cccHHHHHHHHHHHHHHHHHhhchHHH-----HHHHHHHHHH-h----ccCcCceEEEEEEeCC-----CcEEEECCCCC
Confidence            699999999999999999999988774     3344433332 1    1345665 66666544     49999999999


Q ss_pred             eeeee--eEecCcChHHHHHHHHhhcccc-cccCHHHHHHHHHHHHHHHhhcC---CCcEEEE
Q psy13966         80 YYEWK--ANATGRSAKTVREFLEKFYKSE-EMTTEKATIKLAIRALLEVVQSG---QKNLEIA  136 (174)
Q Consensus        80 ~~~~~--~~aiG~gs~~a~~~Lek~~~~~-~~~s~~eai~l~~~~l~~~~~~~---~~~iei~  136 (174)
                      +.+.+  +.++|+||.+|+++|+..|+++ |  +   +.++|++++..+.++|   +++|.+-
T Consensus       112 ~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~m--s---~~~la~~Av~~A~~rd~~tg~~i~~~  169 (171)
T cd01913         112 VIEPDDGIAAIGSGGNYALAAARALLDHTDL--S---AEEIARKALKIAADICIYTNHNITVE  169 (171)
T ss_pred             EeccCCCeEEEeCCHHHHHHHHHHhhccCCC--C---HHHHHHHHHHHHHhhCcccCCCEEEE
Confidence            99984  9999999999999999999995 8  7   5599999999999986   6677664

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=99.74  E-value=4.3e-17  Score=123.55  Aligned_cols=118  Identities=17%  Similarity=0.123  Sum_probs=95.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|.++++.++..|+.  +.   ++..++.+..+.    .+...+|+.+++|++  |.   |+||.+||.|++
T Consensus        48 aG~~aD~q~l~~~l~~~~~~y~~--~~---~~~~a~l~~~l~----~~~~~~~l~~~~lv~--d~---~~ly~id~~G~~  113 (172)
T PRK05456         48 AGSTADAFTLFERFEAKLEEHQG--NL---LRAAVELAKDWR----TDRYLRRLEAMLIVA--DK---EHSLIISGNGDV  113 (172)
T ss_pred             eccHHHHHHHHHHHHHHHHHccC--cc---HHHHHHHHHHHH----hccCCCccEEEEEEE--cC---CcEEEECCCCcE
Confidence            69999999999999999999883  22   355554443332    122347888999994  42   799999999999


Q ss_pred             eee--eeEecCcChHHHHHHHHhhcc-cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEE
Q psy13966         81 YEW--KANATGRSAKTVREFLEKFYK-SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAV  137 (174)
Q Consensus        81 ~~~--~~~aiG~gs~~a~~~Lek~~~-~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~i  137 (174)
                      .+.  +++++|+|+.+++++|++.|+ |+|     ||++++++|+..+.+++   +++|.|-.
T Consensus       114 ~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m-----eA~~la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        114 IEPEDGIIAIGSGGNYALAAARALLENTDL-----SAEEIAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             eccCCCeEEEecCHHHHHHHHHHhhhcCCC-----CHHHHHHHHHHHHHHhCeeCCCcEEEEE
Confidence            776  799999999999999999999 987     99999999999999985   66776643

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.72  E-value=1.7e-16  Score=119.77  Aligned_cols=117  Identities=15%  Similarity=0.083  Sum_probs=92.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|.++++.++..|+...     .+.+++.++++    ..+...+.+.+.+|++||     ++||.+||.|.+
T Consensus        47 aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~a~l~~~~----~~~~~~~~l~a~~iv~~~-----~~ly~i~~~G~~  112 (171)
T TIGR03692        47 AGSTADAFTLFERFEAKLEEYQGNL-----TRAAVELAKDW----RTDRYLRRLEAMLIVADK-----ETSLLISGTGDV  112 (171)
T ss_pred             cchHHHHHHHHHHHHHHHHHccCch-----HHHHHHHHHHH----hhcccccccEEEEEEEcC-----CCEEEEcCCCcE
Confidence            6999999999999999999988743     35555554442    112222334477777644     499999999999


Q ss_pred             eee--eeEecCcChHHHHHHHHhhc-ccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEE
Q psy13966         81 YEW--KANATGRSAKTVREFLEKFY-KSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIA  136 (174)
Q Consensus        81 ~~~--~~~aiG~gs~~a~~~Lek~~-~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~  136 (174)
                      .+.  ++.++|+||.+|+++|+..| +++|  +   |+++|++++..+.++|   +++|.|-
T Consensus       113 ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~--s---a~~la~~Av~~A~~rd~~sg~~i~v~  169 (171)
T TIGR03692       113 IEPEDGIAAIGSGGNYALAAARALLRNTDL--S---AEEIAREALKIAADICIYTNHNITIE  169 (171)
T ss_pred             eccCCCeEEEeCCHHHHHHHHHHhhhcCCC--C---HHHHHHHHHHHHHhhCccCCCCEEEE
Confidence            996  59999999999999999999 4666  5   9999999999999986   5677664

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

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

Probab=96.96  E-value=0.017  Score=44.65  Aligned_cols=137  Identities=17%  Similarity=0.180  Sum_probs=93.1

Q ss_pred             CCchHHHHHHHHHHHHHHHH--hHhhcCCCCCHHHHHHHHHHHHHHhh-hcCC-----CCcceeeeeEEEEeCCCCceEE
Q psy13966          1 TGLTADARILINRAQIECQS--HKLTVEDPVTLEYITRYIAGLKQKYT-QSNG-----RRPFGISCLIGGFDYDGKPRLY   72 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~--~~~~~~~~i~~~~la~~ls~~~~~~t-~~~~-----~RP~gv~~il~G~D~~g~~~Ly   72 (174)
                      +|.-+=.|.+++.+....+.  +....+. .+.-+.+.+++....+-. +.+.     ---|-|++|++|-=..+-|.||
T Consensus        50 aGNLA~tQaV~~ll~e~~~~d~~~~L~n~-~sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly  128 (255)
T COG3484          50 AGNLAITQAVLHLLDERIQRDDGDSLLNI-PSMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLY  128 (255)
T ss_pred             cCccHHHHHHHHHHHHHhhccchhhhhcc-hhHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeE
Confidence            46667778888877766642  2222222 355666666666554322 1111     1358899999997544458999


Q ss_pred             EeCCCCceeee----eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcC
Q psy13966         73 QTEPSGIYYEW----KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHG  141 (174)
Q Consensus        73 ~vd~~G~~~~~----~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~  141 (174)
                      .+-|.|++.+-    .+.-+|. ..+-+++|++.+..++  +++|+.+.++-.+..-++.+   +--+.+.++.+|
T Consensus       129 ~IYpqGNFIqaT~etpf~QiGE-tKYGKPildR~i~~~~--pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~d  201 (255)
T COG3484         129 LIYPQGNFIQATPETPFLQIGE-TKYGKPILDRTITYDT--PLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEAD  201 (255)
T ss_pred             EEccCCCeeecCCCCceeEccc-cccCchhhhhhhhccC--CHHHHhhheEEecchhhhccccccCCceeEEEecc
Confidence            99999999874    5667886 4567899999999998  99999988887776666543   345666666665

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

Probab=95.85  E-value=0.19  Score=37.63  Aligned_cols=119  Identities=18%  Similarity=0.090  Sum_probs=75.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|..+|+..|.+++..++.+|.-+      +...+..++.-.  ++ -..+|-+-.-++++  |+   -.+|-+.-.|-.
T Consensus        51 AGstADaftLfe~fe~kle~~~g~------L~raavelaKdw--r~-Dk~lr~LEAmllVa--d~---~~il~isG~gdV  116 (178)
T COG5405          51 AGSTADAFTLFERFEAKLEQYQGD------LFRAAVELAKDW--RT-DKYLRKLEAMLLVA--DK---THILIITGNGDV  116 (178)
T ss_pred             cccchhHHHHHHHHHHHHHHccCc------HHHHHHHHHHhh--hh-hhHHHHHhhheeEe--CC---CcEEEEecCcce
Confidence            588999999999999999887511      111233333322  11 11235555666664  33   467777777776


Q ss_pred             eee--eeEecCcChHHHHHHHHhhccc-ccccCHHHHHHHHHHHHHHHhhc---CCCcEEEEEE
Q psy13966         81 YEW--KANATGRSAKTVREFLEKFYKS-EEMTTEKATIKLAIRALLEVVQS---GQKNLEIAVM  138 (174)
Q Consensus        81 ~~~--~~~aiG~gs~~a~~~Lek~~~~-~~~~s~~eai~l~~~~l~~~~~~---~~~~iei~ii  138 (174)
                      .+.  ..++||+|.++|.+--.-.+.. ++     .|-+++.++|.-+-+.   .+++|.|-.+
T Consensus       117 ~epe~~~~aIGSGgnyAl~AarAl~~~~~l-----sA~eIa~~sl~iA~eiciyTN~ni~ve~l  175 (178)
T COG5405         117 IEPEDDIIAIGSGGNYALSAARALMENTEL-----SAREIAEKSLKIAGDICIYTNHNIVVEEL  175 (178)
T ss_pred             ecCCCCeEEEcCCchHHHHHHHHHHhccCC-----CHHHHHHHHHhhhheEEEecCCcEEEEEe
Confidence            664  4899999999999998888753 44     4556677777666542   3455555444

>KOG3361|consensus

Probab=88.52  E-value=1.1  Score=32.58  Aligned_cols=78  Identities=13%  Similarity=0.186  Sum_probs=53.9

Q ss_pred             EEeCCCCceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCCCeEEcCHHH
Q psy13966         72 YQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQ  151 (174)
Q Consensus        72 y~vd~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~~~~iei~ii~~~~~~~~l~~~e  151 (174)
                      ..+|-+|.+...++-..|.||..|-+-+-..|-..+  |++|+..+--.-+.+-+...+  |.+       -..+|..+-
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgk--t~dea~kIkNteIAKeL~LPP--VKL-------HCSMLAEDA  139 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGK--TLDEALKIKNTEIAKELSLPP--VKL-------HCSMLAEDA  139 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccc--cHHHHHhcccHHHHHhccCCc--hhh-------hhHHHHHHH
Confidence            568889999999999999999999999999999888  999987653222222111111  111       033566666


Q ss_pred             HHHHHHHhc
Q psy13966        152 IEEYVNEIE  160 (174)
Q Consensus       152 i~~~~~~~~  160 (174)
                      |...+..+.
T Consensus       140 IKaAikdyk  148 (157)
T KOG3361|consen  140 IKAAIKDYK  148 (157)
T ss_pred             HHHHHHHHH
Confidence            766666663

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	174
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		8e-63
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		9e-63
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		4e-62
1vsy_D	227	Proteasome Activator Complex Length = 227		4e-48
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		6e-48
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		6e-48
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		6e-48
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		2e-24
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		4e-23
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		5e-23
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		2e-21
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		2e-21
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		1e-20
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		1e-20
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		1e-20
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		1e-20
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		1e-20
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		1e-20
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		5e-20
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		5e-20
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		5e-20
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		5e-20
1vsy_C	232	Proteasome Activator Complex Length = 232		6e-20
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		1e-19
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		3e-19
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		3e-17
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		3e-17
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		4e-17
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		6e-17
1vsy_B	231	Proteasome Activator Complex Length = 231		9e-16
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		1e-15
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		2e-13
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		2e-13
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		2e-13
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		2e-13
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		2e-13
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		3e-13
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		3e-13
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		3e-13
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		3e-13
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		4e-13
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		4e-13
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		4e-13
1vsy_E	250	Proteasome Activator Complex Length = 250		4e-13
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		2e-09
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		2e-09
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		3e-09
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		3e-09
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		3e-09
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		1e-08
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		1e-08
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		8e-07
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		8e-07
1ryp_K	198	Crystal Structure Of The 20s Proteasome From Yeast		2e-04
1g0u_L	241	A Gated Channel Into The Proteasome Core Particle L		7e-04
1ryp_M	222	Crystal Structure Of The 20s Proteasome From Yeast		8e-04

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

Iteration: 1
 Score =  235 bits (600), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 108/151 (71%), Positives = 130/151 (86%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 75  GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  + + T+  TIKL I+A
Sbjct: 135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAIETDDLTIKLVIKA 194
Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
           LLEVVQSG KN+E+AVMR  +P+++L+  +I
Sbjct: 195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEI 225

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

Iteration: 1
 Score =  235 bits (600), Expect = 9e-63,   Method: Compositional matrix adjust.
 Identities = 108/151 (71%), Positives = 130/151 (86%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 75  GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  + + T+  TIKL I+A
Sbjct: 135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAIETDDLTIKLVIKA 194
Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
           LLEVVQSG KN+E+AVMR  +P+++L+  +I
Sbjct: 195 LLEVVQSGGKNIELAVMRRDQPLKILNPEEI 225

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

Iteration: 1
 Score =  233 bits (594), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 108/151 (71%), Positives = 129/151 (85%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI 
Sbjct: 75  GLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIV 134
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+A
Sbjct: 135 GFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKA 194
Query: 122 LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
           LLEVVQSG KN+E+AVMR  + +++L+  +I
Sbjct: 195 LLEVVQSGGKNIELAVMRRDQSLKILNPEEI 225

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

Iteration: 1
 Score =  186 bits (473), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 89/154 (57%), Positives = 118/154 (76%), Gaps = 2/154 (1%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL AD+RILI +A++E QSH+LT+EDPVT+EY+TRY+AG++Q+YTQS G RPFG+S LI
Sbjct: 60  SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI 119
Query: 61  GGFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFY-KSEEMTTEKATIKLA 118
            GFD  D +P+LYQTEPSGIY  W A   GR++KTVREFLEK Y + E   T +  +KL 
Sbjct: 120 AGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLT 179
Query: 119 IRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
           +R+LLEVVQ+G KN+EI V++    +  LS  +I
Sbjct: 180 VRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEI 213

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

Iteration: 1
 Score =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 89/154 (57%), Positives = 118/154 (76%), Gaps = 2/154 (1%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL AD+RILI +A++E QSH+LT+EDPVT+EY+TRY+AG++Q+YTQS G RPFG+S LI
Sbjct: 76  SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI 135
Query: 61  GGFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFY-KSEEMTTEKATIKLA 118
            GFD  D +P+LYQTEPSGIY  W A   GR++KTVREFLEK Y + E   T +  +KL 
Sbjct: 136 AGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLT 195
Query: 119 IRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
           +R+LLEVVQ+G KN+EI V++    +  LS  +I
Sbjct: 196 VRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEI 229

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

Iteration: 1
 Score =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 89/154 (57%), Positives = 118/154 (76%), Gaps = 2/154 (1%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL AD+RILI +A++E QSH+LT+EDPVT+EY+TRY+AG++Q+YTQS G RPFG+S LI
Sbjct: 74  SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI 133
Query: 61  GGFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFY-KSEEMTTEKATIKLA 118
            GFD  D +P+LYQTEPSGIY  W A   GR++KTVREFLEK Y + E   T +  +KL 
Sbjct: 134 AGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLT 193
Query: 119 IRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
           +R+LLEVVQ+G KN+EI V++    +  LS  +I
Sbjct: 194 VRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEI 227

>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 =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 89/154 (57%), Positives = 118/154 (76%), Gaps = 2/154 (1%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL AD+RILI +A++E QSH+LT+EDPVT+EY+TRY+AG++Q+YTQS G RPFG+S LI
Sbjct: 76  SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI 135
Query: 61  GGFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFY-KSEEMTTEKATIKLA 118
            GFD  D +P+LYQTEPSGIY  W A   GR++KTVREFLEK Y + E   T +  +KL 
Sbjct: 136 AGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLT 195
Query: 119 IRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQI 152
           +R+LLEVVQ+G KN+EI V++    +  LS  +I
Sbjct: 196 VRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEI 229

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

Iteration: 1
 Score =  107 bits (268), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 51/106 (48%), Positives = 72/106 (67%), Gaps = 2/106 (1%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+LI+RA+IE Q ++LT ++P+T++ + + I   KQ+YTQ  G RPFG+S LI
Sbjct: 70  SGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQYTQYGGVRPFGVSLLI 129
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSE 106
            G D    P+LY+T+PSG   E+KA A G     V EF EK Y+ +
Sbjct: 130 AGVDE--VPKLYETDPSGALLEYKATAIGMGRNAVTEFFEKEYRDD 173

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

Iteration: 1
 Score =  103 bits (258), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 54/122 (44%), Positives = 83/122 (68%), Gaps = 3/122 (2%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+LI+RA++E Q ++LT  + +++E + + I  +KQ YTQ  G RPFG+S LI
Sbjct: 83  SGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLI 142
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D + + RL++T+PSG   E+KA A G     V E LEK Y+ +++T ++  ++LAI 
Sbjct: 143 AGIDKN-EARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYR-DDITLDEG-LELAIT 199
Query: 121 AL 122
           AL
Sbjct: 200 AL 201

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

Iteration: 1
 Score =  103 bits (257), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 50/106 (47%), Positives = 71/106 (66%), Gaps = 2/106 (1%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+LI+RA+IE Q ++LT + P+T++ + + I   KQ+YTQ  G RPFG+S LI
Sbjct: 79  SGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLI 138
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSE 106
            G   +  P+LY+T+PSG   E+KA A G     V EF EK Y+ +
Sbjct: 139 AGV--NEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDD 182

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

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 5/139 (3%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +G+  D R+L++RA+   Q + L  ++P+    + + +A + Q+YTQS G RPFG+S LI
Sbjct: 76  SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLI 135
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G++ +G+P L+Q++PSG Y+ WKA A G++    + FLEK Y +E++  E A I  AI 
Sbjct: 136 CGWN-EGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRY-NEDLELEDA-IHTAIL 192
Query: 121 ALLEVV--QSGQKNLEIAV 137
            L E    Q  + N+E+ +
Sbjct: 193 TLKESFEGQMTEDNIEVGI 211

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

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 5/139 (3%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +G+  D R+L++RA+   Q + L  ++P+    + + +A + Q+YTQS G RPFG+S LI
Sbjct: 77  SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLI 136
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G++ +G+P L+Q++PSG Y+ WKA A G++    + FLEK Y +E++  E A I  AI 
Sbjct: 137 CGWN-EGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRY-NEDLELEDA-IHTAIL 193
Query: 121 ALLEVV--QSGQKNLEIAV 137
            L E    Q  + N+E+ +
Sbjct: 194 TLKESFEGQMTEDNIEVGI 212

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

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 56/143 (39%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+L++ A+I  Q  K+T    V +E + + +A   Q+YTQ  G RP+G+S + 
Sbjct: 79  SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF 138
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D  G PRL+  +P+G   E+KA A G     V  FLE+ YK  E   EK  + L I+
Sbjct: 139 AGIDQIG-PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYK--ENLPEKEAVTLGIK 195
Query: 121 ALLEVVQSGQ--KNLEIAVMRHG 141
           AL   ++ G+  K  EIA +  G
Sbjct: 196 ALKSSLEEGEELKAPEIASITVG 218

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

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 56/143 (39%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+L++ A+I  Q  K+T    V +E + + +A   Q+YTQ  G RP+G+S + 
Sbjct: 83  SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF 142
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D  G PRL+  +P+G   E+KA A G     V  FLE+ YK  E   EK  + L I+
Sbjct: 143 AGIDQIG-PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYK--ENLPEKEAVTLGIK 199
Query: 121 ALLEVVQSGQ--KNLEIAVMRHG 141
           AL   ++ G+  K  EIA +  G
Sbjct: 200 ALKSSLEEGEELKAPEIASITVG 222

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

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 56/143 (39%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+L++ A+I  Q  K+T    V +E + + +A   Q+YTQ  G RP+G+S + 
Sbjct: 83  SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF 142
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D  G PRL+  +P+G   E+KA A G     V  FLE+ YK  E   EK  + L I+
Sbjct: 143 AGIDQIG-PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYK--ENLPEKEAVTLGIK 199
Query: 121 ALLEVVQSGQ--KNLEIAVMRHG 141
           AL   ++ G+  K  EIA +  G
Sbjct: 200 ALKSSLEEGEELKAPEIASITVG 222

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

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 56/143 (39%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+L++ A+I  Q  K+T    V +E + + +A   Q+YTQ  G RP+G+S + 
Sbjct: 79  SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF 138
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D  G PRL+  +P+G   E+KA A G     V  FLE+ YK  E   EK  + L I+
Sbjct: 139 AGIDQIG-PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYK--ENLPEKEAVTLGIK 195
Query: 121 ALLEVVQSGQ--KNLEIAVMRHG 141
           AL   ++ G+  K  EIA +  G
Sbjct: 196 ALKSSLEEGEELKAPEIASITVG 218

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

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 56/143 (39%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+L++ A+I  Q  K+T    V +E + + +A   Q+YTQ  G RP+G+S + 
Sbjct: 79  SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF 138
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D  G PRL+  +P+G   E+KA A G     V  FLE+ YK  E   EK  + L I+
Sbjct: 139 AGIDQIG-PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYK--ENLPEKEAVTLGIK 195
Query: 121 ALLEVVQSGQ--KNLEIAVMRHG 141
           AL   ++ G+  K  EIA +  G
Sbjct: 196 ALKSSLEEGEELKAPEIASITVG 218

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

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 56/143 (39%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+L++ A+I  Q  K+T    V +E + + +A   Q+YTQ  G RP+G+S + 
Sbjct: 73  SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF 132
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D  G PRL+  +P+G   E+KA A G     V  FLE+ YK  E   EK  + L I+
Sbjct: 133 AGIDQIG-PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYK--ENLPEKEAVTLGIK 189
Query: 121 ALLEVVQSGQ--KNLEIAVMRHG 141
           AL   ++ G+  K  EIA +  G
Sbjct: 190 ALKSSLEEGEELKAPEIASITVG 212

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

Iteration: 1
 Score = 93.6 bits (231), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 54/143 (37%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADA ILIN A+I  Q++  T  + + +E + R ++ +KQ YTQ  G RPFG+S +  
Sbjct: 69  GLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYA 128
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     +LY + PSG Y  WKA + G +    +  L+  YK ++M  + A I+LA++ 
Sbjct: 129 GYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK-DDMKVDDA-IELALKT 186
Query: 122 LLEVVQSGQ---KNLEIAVMRHG 141
           L +   S       LE A +R G
Sbjct: 187 LSKTTDSSALTYDRLEFATIRKG 209

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

Iteration: 1
 Score = 93.6 bits (231), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 54/143 (37%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADA ILIN A+I  Q++  T  + + +E + R ++ +KQ YTQ  G RPFG+S +  
Sbjct: 79  GLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYA 138
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     +LY + PSG Y  WKA + G +    +  L+  YK ++M  + A I+LA++ 
Sbjct: 139 GYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK-DDMKVDDA-IELALKT 196
Query: 122 LLEVVQSGQ---KNLEIAVMRHG 141
           L +   S       LE A +R G
Sbjct: 197 LSKTTDSSALTYDRLEFATIRKG 219

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

Iteration: 1
 Score = 93.6 bits (231), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 54/143 (37%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADA ILIN A+I  Q++  T  + + +E + R ++ +KQ YTQ  G RPFG+S +  
Sbjct: 78  GLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYA 137
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     +LY + PSG Y  WKA + G +    +  L+  YK ++M  + A I+LA++ 
Sbjct: 138 GYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK-DDMKVDDA-IELALKT 195
Query: 122 LLEVVQSGQ---KNLEIAVMRHG 141
           L +   S       LE A +R G
Sbjct: 196 LSKTTDSSALTYDRLEFATIRKG 218

>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 = 93.6 bits (231), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 54/143 (37%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADA ILIN A+I  Q++  T  + + +E + R ++ +KQ YTQ  G RPFG+S +  
Sbjct: 79  GLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYA 138
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     +LY + PSG Y  WKA + G +    +  L+  YK ++M  + A I+LA++ 
Sbjct: 139 GYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK-DDMKVDDA-IELALKT 196
Query: 122 LLEVVQSGQ---KNLEIAVMRHG 141
           L +   S       LE A +R G
Sbjct: 197 LSKTTDSSALTYDRLEFATIRKG 219

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

Iteration: 1
 Score = 93.6 bits (231), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 54/143 (37%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADA ILIN A+I  Q++  T  + + +E + R ++ +KQ YTQ  G RPFG+S +  
Sbjct: 66  GLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYA 125
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     +LY + PSG Y  WKA + G +    +  L+  YK ++M  + A I+LA++ 
Sbjct: 126 GYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK-DDMKVDDA-IELALKT 183
Query: 122 LLEVVQSGQ---KNLEIAVMRHG 141
           L +   S       LE A +R G
Sbjct: 184 LSKTTDSSALTYDRLEFATIRKG 206

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

Iteration: 1
 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 53/148 (35%), Positives = 85/148 (57%), Gaps = 6/148 (4%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G+T+DA +L N  ++  Q + L  ++P+  E +   +  +KQ YTQ  G+RPFG+S L  
Sbjct: 78  GITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYI 137
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     +LYQ++PSG Y  WKA   G ++      L++ YK  EMT  K+ + LAI+ 
Sbjct: 138 GWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTL-KSALALAIKV 196
Query: 122 L---LEVVQSGQKNLEIAVM--RHGKPV 144
           L   ++V +   + +EIA +   +GK V
Sbjct: 197 LNKTMDVSKLSAEKVEIATLTRENGKTV 224

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

Iteration: 1
 Score = 91.3 bits (225), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 52/148 (35%), Positives = 84/148 (56%), Gaps = 6/148 (4%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G+T+DA +L N  ++  Q + L  ++P+  E +   +  +KQ YTQ  G+RPFG+S L  
Sbjct: 78  GITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYI 137
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     +LYQ++PSG Y  WKA   G ++      L++ YK  EMT  K+ + LA++ 
Sbjct: 138 GWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTL-KSALALAVKV 196
Query: 122 L---LEVVQSGQKNLEIAVM--RHGKPV 144
           L   ++V +   + +EIA +    GK V
Sbjct: 197 LNKTMDVSKLSAEKVEIATLTRESGKTV 224

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

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 9/150 (6%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+L N  + EC   +   + P+ +  +   I    Q  TQ  GRRP+G+  LI 
Sbjct: 76  GLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIA 135
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTE-KATIKLAIR 120
           G+D D  P ++QT PS  Y++ +A + G  +++ R +LE+ + SE M       +K  +R
Sbjct: 136 GYD-DMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLER-HMSEFMECNLNELVKHGLR 193
Query: 121 ALLEVVQSGQ----KNLEIAVMRHGKPVEM 146
           AL E + + Q    KN+ I ++  GK +E 
Sbjct: 194 ALRETLPAEQDLTTKNVSIGIV--GKDLEF 221

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

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 9/150 (6%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GLTADAR+L N  + EC   +   + P+ +  +   I    Q  TQ  GRRP+G+  LI 
Sbjct: 76  GLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIA 135
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTE-KATIKLAIR 120
           G+D D  P ++QT PS  Y++ +A + G  +++ R +LE+ + SE M       +K  +R
Sbjct: 136 GYD-DMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLER-HMSEFMECNLDELVKHGLR 193
Query: 121 ALLEVVQSGQ----KNLEIAVMRHGKPVEM 146
           AL E + + Q    KN+ I ++  GK +E 
Sbjct: 194 ALRETLPAEQDLTTKNVSIGIV--GKDLEF 221

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

Iteration: 1
 Score = 84.0 bits (206), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 47/155 (30%), Positives = 92/155 (59%), Gaps = 10/155 (6%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG-----RRPFG 55
           +GL ADA+ LI++A++E Q+H  T  + +T+E +T+ ++ L  ++ + +       RPFG
Sbjct: 79  SGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFG 138
Query: 56  ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATI 115
           ++ L GG D  G P+L+  +PSG + +  A A G +++  +  L++ Y  + MT ++A I
Sbjct: 139 VALLFGGVDEKG-PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYH-KSMTLKEA-I 195
Query: 116 KLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLS 148
           K ++  L +V++      N+E+A ++ G+   M +
Sbjct: 196 KSSLIILKQVMEEKLNATNIELATVQPGQNFHMFT 230

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

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 47/155 (30%), Positives = 92/155 (59%), Gaps = 10/155 (6%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG-----RRPFG 55
           +GL ADA+ LI++A++E Q+H  T  + +T+E +T+ ++ L  ++ + +       RPFG
Sbjct: 79  SGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFG 138
Query: 56  ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATI 115
           ++ L GG D  G P+L+  +PSG + +  A A G +++  +  L++ Y  + MT ++A I
Sbjct: 139 VALLFGGVDEKG-PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQEVYH-KSMTLKEA-I 195
Query: 116 KLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLS 148
           K ++  L +V++      N+E+A ++ G+   M +
Sbjct: 196 KSSLIILKQVMEEKLNATNIELATVQPGQNFHMFT 230

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

Iteration: 1
 Score = 79.3 bits (194), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 50/147 (34%), Positives = 84/147 (57%), Gaps = 7/147 (4%)
Query: 1   TGLTADARILINRA-QIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL 59
           +G+  D R+L++++ ++   S+K    +    + +   +A + Q+ TQS G RPFG+S L
Sbjct: 57  SGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLL 116
Query: 60  IGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAI 119
           I G D      LYQ +PSG Y+ WKA A G+ +   + FLEK + ++E+  E A I +A+
Sbjct: 117 IAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRW-NDELELEDA-IHIAL 174
Query: 120 RALLEVVQSGQKN---LEIAVMRHGKP 143
             L E V+ G+ N   +E+A++    P
Sbjct: 175 LTLKESVE-GEFNGDTIELAIIGDENP 200

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

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 50/147 (34%), Positives = 84/147 (57%), Gaps = 7/147 (4%)
Query: 1   TGLTADARILINRA-QIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL 59
           +G+  D R+L++++ ++   S+K    +    + +   +A + Q+ TQS G RPFG+S L
Sbjct: 76  SGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLL 135
Query: 60  IGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAI 119
           I G D      LYQ +PSG Y+ WKA A G+ +   + FLEK + ++E+  E A I +A+
Sbjct: 136 IAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRW-NDELELEDA-IHIAL 193
Query: 120 RALLEVVQSGQKN---LEIAVMRHGKP 143
             L E V+ G+ N   +E+A++    P
Sbjct: 194 LTLKESVE-GEFNGDTIELAIIGDENP 219

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

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 73/128 (57%), Gaps = 7/128 (5%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GLTADAR +I  A+    +H L  ++ + +E +T+ +  L      S   RPFG++ LI
Sbjct: 79  SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLAAAAAMS---RPFGVALLI 135
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVR-EFLEKFYKSEEMTTEKATIKLAI 119
            G D D   +L+  EPSG +Y + A A G  ++  + E L +++ S  +T ++A + L +
Sbjct: 136 AGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS--LTLKEAEL-LVL 192
Query: 120 RALLEVVQ 127
           + L +V++
Sbjct: 193 KILKQVME 200

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

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/137 (32%), Positives = 71/137 (51%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           TG+TAD+R  + RA+ E  + K      + ++ + + IA + Q YTQ+   RP G   ++
Sbjct: 81  TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMIL 140
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D +  P++Y+ +P+G Y  +KA A G        FLEK  K +   T + T++ AI 
Sbjct: 141 IGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAIT 200
Query: 121 ALLEVVQSGQKNLEIAV 137
            L  V+    K  EI V
Sbjct: 201 CLSTVLSIDFKPSEIEV 217

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

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/137 (32%), Positives = 71/137 (51%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           TG+TAD+R  + RA+ E  + K      + ++ + + IA + Q YTQ+   RP G   ++
Sbjct: 81  TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMIL 140
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D +  P++Y+ +P+G Y  +KA A G        FLEK  K +   T + T++ AI 
Sbjct: 141 IGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAIT 200
Query: 121 ALLEVVQSGQKNLEIAV 137
            L  V+    K  EI V
Sbjct: 201 CLSTVLSIDFKPSEIEV 217

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

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 43/139 (30%), Positives = 70/139 (50%), Gaps = 3/139 (2%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL  D R L+NR + E  S K   + P+ +      +    Q +T  N  RPFG+S + 
Sbjct: 75  SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIF 134
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKF--YKSEEMTTEKATIKLA 118
           GG D +G   LY  EPSG Y+ +K  ATG+  ++ +  LEK   +  E ++  +A  + A
Sbjct: 135 GGVDKNG-AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAA 193
Query: 119 IRALLEVVQSGQKNLEIAV 137
               L    + +K+ E+ +
Sbjct: 194 KIIYLAHEDNKEKDFELEI 212

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

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 43/139 (30%), Positives = 70/139 (50%), Gaps = 3/139 (2%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL  D R L+NR + E  S K   + P+ +      +    Q +T  N  RPFG+S + 
Sbjct: 73  SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIF 132
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKF--YKSEEMTTEKATIKLA 118
           GG D +G   LY  EPSG Y+ +K  ATG+  ++ +  LEK   +  E ++  +A  + A
Sbjct: 133 GGVDKNG-AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAA 191
Query: 119 IRALLEVVQSGQKNLEIAV 137
               L    + +K+ E+ +
Sbjct: 192 KIIYLAHEDNKEKDFELEI 210

>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 = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 43/139 (30%), Positives = 70/139 (50%), Gaps = 3/139 (2%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL  D R L+NR + E  S K   + P+ +      +    Q +T  N  RPFG+S + 
Sbjct: 79  SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIF 138
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKF--YKSEEMTTEKATIKLA 118
           GG D +G   LY  EPSG Y+ +K  ATG+  ++ +  LEK   +  E ++  +A  + A
Sbjct: 139 GGVDKNGA-HLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAA 197
Query: 119 IRALLEVVQSGQKNLEIAV 137
               L    + +K+ E+ +
Sbjct: 198 KIIYLAHEDNKEKDFELEI 216

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

Iteration: 1
 Score = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 43/139 (30%), Positives = 70/139 (50%), Gaps = 3/139 (2%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL  D R L+NR + E  S K   + P+ +      +    Q +T  N  RPFG+S + 
Sbjct: 79  SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIF 138
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKF--YKSEEMTTEKATIKLA 118
           GG D +G   LY  EPSG Y+ +K  ATG+  ++ +  LEK   +  E ++  +A  + A
Sbjct: 139 GGVDKNG-AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAA 197
Query: 119 IRALLEVVQSGQKNLEIAV 137
               L    + +K+ E+ +
Sbjct: 198 KIIYLAHEDNKEKDFELEI 216

>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 = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 43/139 (30%), Positives = 70/139 (50%), Gaps = 3/139 (2%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL  D R L+NR + E  S K   + P+ +      +    Q +T  N  RPFG+S + 
Sbjct: 78  SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIF 137
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKF--YKSEEMTTEKATIKLA 118
           GG D +G   LY  EPSG Y+ +K  ATG+  ++ +  LEK   +  E ++  +A  + A
Sbjct: 138 GGVDKNGA-HLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAA 196
Query: 119 IRALLEVVQSGQKNLEIAV 137
               L    + +K+ E+ +
Sbjct: 197 KIIYLAHEDNKEKDFELEI 215

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

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 75/134 (55%), Gaps = 10/134 (7%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG------RRPF 54
           +GLTADAR +I  A+    +H L  ++ + +E +T+ +  L  ++ +          RPF
Sbjct: 81  SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPF 140
Query: 55  GISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVR-EFLEKFYKSEEMTTEKA 113
           G++ LI G D D   +L+  EPSG +Y + A A G  ++  + E L +++ S  +T ++A
Sbjct: 141 GVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS--LTLKEA 198
Query: 114 TIKLAIRALLEVVQ 127
            + L ++ L +V++
Sbjct: 199 EL-LVLKILKQVME 211

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

Iteration: 1
 Score = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 75/134 (55%), Gaps = 10/134 (7%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG------RRPF 54
           +GLTADAR +I  A+    +H L  ++ + +E +T+ +  L  ++ +          RPF
Sbjct: 71  SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPF 130
Query: 55  GISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVR-EFLEKFYKSEEMTTEKA 113
           G++ LI G D D   +L+  EPSG +Y + A A G  ++  + E L +++ S  +T ++A
Sbjct: 131 GVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS--LTLKEA 188
Query: 114 TIKLAIRALLEVVQ 127
            + L ++ L +V++
Sbjct: 189 EL-LVLKILKQVME 201

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

Iteration: 1
 Score = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 75/134 (55%), Gaps = 10/134 (7%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG------RRPF 54
           +GLTADAR +I  A+    +H L  ++ + +E +T+ +  L  ++ +          RPF
Sbjct: 80  SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPF 139
Query: 55  GISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVR-EFLEKFYKSEEMTTEKA 113
           G++ LI G D D   +L+  EPSG +Y + A A G  ++  + E L +++ S  +T ++A
Sbjct: 140 GVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS--LTLKEA 197
Query: 114 TIKLAIRALLEVVQ 127
            + L ++ L +V++
Sbjct: 198 EL-LVLKILKQVME 210

>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 = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 75/134 (55%), Gaps = 10/134 (7%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG------RRPF 54
           +GLTADAR +I  A+    +H L  ++ + +E +T+ +  L  ++ +          RPF
Sbjct: 79  SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPF 138
Query: 55  GISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVR-EFLEKFYKSEEMTTEKA 113
           G++ LI G D D   +L+  EPSG +Y + A A G  ++  + E L +++ S  +T ++A
Sbjct: 139 GVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS--LTLKEA 196
Query: 114 TIKLAIRALLEVVQ 127
            + L ++ L +V++
Sbjct: 197 EL-LVLKILKQVME 209

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

Iteration: 1
 Score = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 75/134 (55%), Gaps = 10/134 (7%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG------RRPF 54
           +GLTADAR +I  A+    +H L  ++ + +E +T+ +  L  ++ +          RPF
Sbjct: 79  SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPF 138
Query: 55  GISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVR-EFLEKFYKSEEMTTEKA 113
           G++ LI G D D   +L+  EPSG +Y + A A G  ++  + E L +++ S  +T ++A
Sbjct: 139 GVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS--LTLKEA 196
Query: 114 TIKLAIRALLEVVQ 127
            + L ++ L +V++
Sbjct: 197 EL-LVLKILKQVME 209

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/149 (29%), Positives = 68/149 (45%), Gaps = 10/149 (6%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL  DAR+L N  + +C    L     + +E     +    QK TQS G RP+G+  LI 
Sbjct: 76  GLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSAGGRPYGVGLLII 135
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEK----FYKSEEMTTEKATIKL 117
           G+D  G   L + +PSG   E    A G  ++  + +LE+    F K +    E   IK 
Sbjct: 136 GYDKSG-AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDE--LIKA 192
Query: 118 AIRALLEVVQSGQ---KNLEIAVMRHGKP 143
            + A+ + ++       NL IA++    P
Sbjct: 193 GVEAISQSLRDESLTVDNLSIAIVGKDTP 221

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/149 (29%), Positives = 68/149 (45%), Gaps = 10/149 (6%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL  DAR+L N  + +C    L     + +E     +    QK TQS G RP+G+  LI 
Sbjct: 75  GLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSAGGRPYGVGLLII 134
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEK----FYKSEEMTTEKATIKL 117
           G+D  G   L + +PSG   E    A G  ++  + +LE+    F K +    E   IK 
Sbjct: 135 GYDKSG-AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDE--LIKA 191
Query: 118 AIRALLEVVQSGQ---KNLEIAVMRHGKP 143
            + A+ + ++       NL IA++    P
Sbjct: 192 GVEAISQSLRDESLTVDNLSIAIVGKDTP 220

>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 = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 44/149 (29%), Positives = 68/149 (45%), Gaps = 10/149 (6%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL  DAR+L N  + +C    L     + +E     +    QK TQS G RP+G+  LI 
Sbjct: 76  GLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLII 135
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEK----FYKSEEMTTEKATIKL 117
           G+D  G   L + +PSG   E    A G  ++  + +LE+    F K +    E   IK 
Sbjct: 136 GYDKSG-AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDE--LIKA 192
Query: 118 AIRALLEVVQSGQ---KNLEIAVMRHGKP 143
            + A+ + ++       NL IA++    P
Sbjct: 193 GVEAISQSLRDESLTVDNLSIAIVGKDTP 221

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 44/149 (29%), Positives = 68/149 (45%), Gaps = 10/149 (6%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL  DAR+L N  + +C    L     + +E     +    QK TQS G RP+G+  LI 
Sbjct: 77  GLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLII 136
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEK----FYKSEEMTTEKATIKL 117
           G+D  G   L + +PSG   E    A G  ++  + +LE+    F K +    E   IK 
Sbjct: 137 GYDKSG-AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDE--LIKA 193
Query: 118 AIRALLEVVQSGQ---KNLEIAVMRHGKP 143
            + A+ + ++       NL IA++    P
Sbjct: 194 GVEAISQSLRDESLTVDNLSIAIVGKDTP 222

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 44/149 (29%), Positives = 68/149 (45%), Gaps = 10/149 (6%)
Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL  DAR+L N  + +C    L     + +E     +    QK TQS G RP+G+  LI 
Sbjct: 75  GLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLII 134
Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEK----FYKSEEMTTEKATIKL 117
           G+D  G   L + +PSG   E    A G  ++  + +LE+    F K +    E   IK 
Sbjct: 135 GYDKSG-AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDE--LIKA 191
Query: 118 AIRALLEVVQSGQ---KNLEIAVMRHGKP 143
            + A+ + ++       NL IA++    P
Sbjct: 192 GVEAISQSLRDESLTVDNLSIAIVGKDTP 220

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 60/118 (50%), Gaps = 1/118 (0%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL ADAR L + A+ E  + +      + L+++   +A     YT  +  RPFG S ++
Sbjct: 79  AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFML 138
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLA 118
           G +  +   +LY  +PSG+ Y +   A G++ +  +  +EK  + +EMT      ++A
Sbjct: 139 GSYSANDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKL-QMKEMTCRDVVKEVA 195

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL ADAR L + A+ E  + +      + L+++   +A     YT  +  RPFG S ++
Sbjct: 78  AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFML 137
Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMT 109
           G +  +   +LY  +PSG+ Y +   A G++ +  +  +EK  + +EMT
Sbjct: 138 GSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKL-QMKEMT 185

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 30/118 (25%), Positives = 58/118 (49%), Gaps = 7/118 (5%)
Query: 32  EYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRS 91
           + + + +A L Q YTQ    RP G+       D +  P +Y+T+P+G Y  +KA ATG  
Sbjct: 106 DVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPK 165
Query: 92  AKTVREFLEKFYKSEEMT-----TEKATIKLAIRALLEVV--QSGQKNLEIAVMRHGK 142
            + +   LE  +K  ++      + +  ++ AI  +++ +  +  + +LE+ V    K
Sbjct: 166 QQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK 223

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 30/118 (25%), Positives = 58/118 (49%), Gaps = 7/118 (5%)
Query: 32  EYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRS 91
           + + + +A L Q YTQ    RP G+       D +  P +Y+T+P+G Y  +KA ATG  
Sbjct: 115 DVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPK 174
Query: 92  AKTVREFLEKFYKSEEMT-----TEKATIKLAIRALLEVV--QSGQKNLEIAVMRHGK 142
            + +   LE  +K  ++      + +  ++ AI  +++ +  +  + +LE+ V    K
Sbjct: 175 QQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK 232

>pdb|1RYP|K Chain K, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 198

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 39/75 (52%), Gaps = 4/75 (5%)
Query: 51  RRPFGISCLIGGFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMT 109
           RRP+ ++ LIGG+D    KP LYQ +  G   E    A G S       L+  Y+  +MT
Sbjct: 95  RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRP-DMT 153
Query: 110 TEKA--TIKLAIRAL 122
           TE+    +KL ++ L
Sbjct: 154 TEEGLDLLKLCVQEL 168

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 41/161 (25%), Positives = 69/161 (42%), Gaps = 16/161 (9%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDP-VTLEYITRYIAGLKQKYTQSNGRR--PFGIS 57
            G  AD   L+ R +   + +     D  +++    R I  L        G+R  P+ + 
Sbjct: 74  NGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLY------GKRFFPYYVH 127
Query: 58  CLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEK--FYKS--EEMTTEKA 113
            +I G D DGK  +Y  +P G Y   +  A G +A  +  FL+    +K+  E  T  K 
Sbjct: 128 TIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKV 187
Query: 114 TIKLAIRALLEVVQSGQKNLEIAVMRH---GKPVEMLSVAQ 151
              L   ++ EV++  + +   A  RH   G  +E+L V +
Sbjct: 188 KKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTK 228

>pdb|1RYP|M Chain M, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 222

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 41/161 (25%), Positives = 69/161 (42%), Gaps = 16/161 (9%)
Query: 1   TGLTADARILINRAQIECQSHKLTVEDP-VTLEYITRYIAGLKQKYTQSNGRR--PFGIS 57
            G  AD   L+ R +   + +     D  +++    R I  L        G+R  P+ + 
Sbjct: 55  NGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLY------GKRFFPYYVH 108
Query: 58  CLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEK--FYKS--EEMTTEKA 113
            +I G D DGK  +Y  +P G Y   +  A G +A  +  FL+    +K+  E  T  K 
Sbjct: 109 TIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKV 168
Query: 114 TIKLAIRALLEVVQSGQKNLEIAVMRH---GKPVEMLSVAQ 151
              L   ++ EV++  + +   A  RH   G  +E+L V +
Sbjct: 169 KKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTK 209

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	174
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-81
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	8e-76
1iru_F	263	20S proteasome; cell cycle, immune response, prote	1e-73
1iru_C	261	20S proteasome; cell cycle, immune response, prote	3e-71
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-69
1iru_A	246	20S proteasome; cell cycle, immune response, prote	4e-68
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	6e-68
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	1e-67
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	1e-67
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	2e-67
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	2e-67
1iru_E	241	20S proteasome; cell cycle, immune response, prote	3e-66
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	5e-66
1iru_B	233	20S proteasome; cell cycle, immune response, prote	4e-65
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	1e-63
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	3e-63
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-62
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	2e-60
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	4e-35
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	7e-34
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	5e-25
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	6e-25
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	2e-24
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	2e-24
1iru_I	234	20S proteasome; cell cycle, immune response, prote	7e-21
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	8e-19
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	3e-18
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	2e-17
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	1e-16
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	5e-16
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	6e-16
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	1e-15
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	1e-14
1iru_L	204	20S proteasome; cell cycle, immune response, prote	2e-14
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-11
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	4e-11
1iru_H	205	20S proteasome; cell cycle, immune response, prote	1e-10
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	2e-10
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	4e-10
1iru_K	201	20S proteasome; cell cycle, immune response, prote	4e-10
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	2e-09
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	8e-09
1iru_J	205	20S proteasome; cell cycle, immune response, prote	3e-08
1iru_M	213	20S proteasome; cell cycle, immune response, prote	2e-07
1iru_N	219	20S proteasome; cell cycle, immune response, prote	1e-05

>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 =  240 bits (616), Expect = 1e-81
 Identities = 121/173 (69%), Positives = 147/173 (84%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI
Sbjct: 74  AGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALI 133

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+
Sbjct: 134 VGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIK 193

Query: 121 ALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQK 173
           ALLEVVQSG KN+E+AVMR  + +++L+  +IE+YV EIEKEKE+  +KK++K
Sbjct: 194 ALLEVVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEKEENEKKKQKK 246

>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 =  225 bits (576), Expect = 8e-76
 Identities = 95/169 (56%), Positives = 129/169 (76%), Gaps = 4/169 (2%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL AD+RILI +A++E QSH+LT+EDPVT+EY+TRY+AG++Q+YTQS G RPFG+S LI
Sbjct: 74  SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI 133

Query: 61  GGFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYK--SEEMTTEKATIKL 117
            GFD  D +P+LYQTEPSGIY  W A   GR++KTVREFLEK Y       T E+  +KL
Sbjct: 134 AGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEEC-VKL 192

Query: 118 AIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDE 166
            +R+LLEVVQ+G KN+EI V++    +  LS  +I +YV +IE+EK+++
Sbjct: 193 TVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQEKQEQ 241

>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 =  220 bits (564), Expect = 1e-73
 Identities = 48/175 (27%), Positives = 86/175 (49%), Gaps = 5/175 (2%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLTADAR+L N  + EC   +   + P+ +  +   I    Q  TQ  GRRP+G+  LI
Sbjct: 75  AGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLI 134

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D  G P ++QT PS  Y++ +A + G  +++ R +LE+             +K  +R
Sbjct: 135 AGYDDMG-PHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLR 193

Query: 121 ALLEVVQSGQ----KNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKK 171
           AL E + + Q    KN+ I ++       +     +  ++  +E+  + +A+  +
Sbjct: 194 ALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEERPQRKAQPAQ 248

>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 =  214 bits (548), Expect = 3e-71
 Identities = 57/180 (31%), Positives = 100/180 (55%), Gaps = 7/180 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G+T+DA +L N  ++  Q + L  ++P+  E +   +  +KQ YTQ  G+RPFG+S L 
Sbjct: 77  AGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLY 136

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D     +LYQ++PSG Y  WKA   G ++      L++ YK  EMT + A + LAI+
Sbjct: 137 IGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSA-LALAIK 195

Query: 121 AL---LEVVQSGQKNLEIAVMRHGKP---VEMLSVAQIEEYVNEIEKEKEDEAEKKKQKK 174
            L   ++V +   + +EIA +        + +L   ++E+ + + E+E+     +KK+K+
Sbjct: 196 VLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHEEEEAKAEREKKEKE 255

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

 Score =  211 bits (538), Expect = 1e-69
 Identities = 60/176 (34%), Positives = 112/176 (63%), Gaps = 5/176 (2%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+LI+RA++E Q ++LT  + +++E + + I  +KQ YTQ  G RPFG+S LI
Sbjct: 83  SGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLI 142

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D +   RL++T+PSG   E+KA A G     V E LEK Y+ +++T ++  ++LAI 
Sbjct: 143 AGIDKNE-ARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYR-DDITLDEG-LELAIT 199

Query: 121 ALLEVVQS-GQKNLEIAVMRH-GKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQKK 174
           AL +  +    +N+++ ++       + + V +I++ + +++K+  +E +K+++ +
Sbjct: 200 ALTKANEDIKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVKKKLNEENKKEEENR 255

>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 =  206 bits (526), Expect = 4e-68
 Identities = 48/167 (28%), Positives = 86/167 (51%), Gaps = 4/167 (2%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           TG+TAD+R  + RA+ E  + K      + ++ + + IA + Q YTQ+   RP G   ++
Sbjct: 81  TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMIL 140

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D +  P++Y+ +P+G Y  +KA A G        FLEK  K +   T + T++ AI 
Sbjct: 141 IGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAIT 200

Query: 121 ALLEVVQSG--QKNLEIAVMRHGKP-VEMLSVAQIEEYVNEIEKEKE 164
            L  V+        +E+ V+    P   +L+ A+I+ ++  +  E++
Sbjct: 201 CLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVALA-ERD 246

>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 =  205 bits (524), Expect = 6e-68
 Identities = 55/158 (34%), Positives = 89/158 (56%), Gaps = 5/158 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+L++ A+I  Q  K+T    V +E + + +A   Q+YTQ  G RP+G+S + 
Sbjct: 79  SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF 138

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D  G PRL+  +P+G   E+KA A G     V  FLE+ YK E +  ++A + L I+
Sbjct: 139 AGIDQIG-PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYK-ENLPEKEA-VTLGIK 195

Query: 121 ALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           AL   ++ G   K  EIA +  G    +    ++++++
Sbjct: 196 ALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

>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 =  205 bits (523), Expect = 1e-67
 Identities = 42/174 (24%), Positives = 88/174 (50%), Gaps = 10/174 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSN------GRRPF 54
           +GLTADAR +I  A+    +H L  ++ + +E +T+ +  L  ++ +          RPF
Sbjct: 71  SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPF 130

Query: 55  GISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKAT 114
           G++ LI G D D   +L+  EPSG +Y + A A G  ++  +  L   +    +T ++A 
Sbjct: 131 GVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH-SSLTLKEA- 188

Query: 115 IKLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDE 166
             L ++ L +V++    + N +++ +      ++    +  E + E+++++  E
Sbjct: 189 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELKEKEAAE 242

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

 Score =  205 bits (523), Expect = 1e-67
 Identities = 60/172 (34%), Positives = 103/172 (59%), Gaps = 7/172 (4%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+LI+RA+IE Q ++LT + P+T++ + + I   KQ+YTQ  G RPFG+S LI
Sbjct: 79  SGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLI 138

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G   +  P+LY+T+PSG   E+KA A G     V EF EK Y+ ++++ + A + L + 
Sbjct: 139 AG--VNEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYR-DDLSFDDA-MVLGLV 194

Query: 121 ALLEVVQSG--QKNLEIAVM-RHGKPVEMLSVAQIEEYVNEIEKEKEDEAEK 169
           A+   ++S    +N+E+  +    +  + +S  +++ YV    +   +  +K
Sbjct: 195 AMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERANERIRELLKK 246

>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 =  204 bits (521), Expect = 2e-67
 Identities = 46/170 (27%), Positives = 77/170 (45%), Gaps = 10/170 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G   DAR    RA+ E    +      +  + + + +A L Q YTQ    RP G+    
Sbjct: 75  NGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTF 134

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKS------EEMTTEKAT 114
              D +  P +Y+T+P+G Y  +KA ATG   + +   LE  +K        E + EK  
Sbjct: 135 VSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKV- 193

Query: 115 IKLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKE 162
           ++ AI  +++ + +   + +LE+ V    K    LS   IEE +  I ++
Sbjct: 194 VEFAITHMIDALGTEFSKNDLEVGVATKDKF-FTLSAENIEERLVAIAEQ 242

>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 =  204 bits (520), Expect = 2e-67
 Identities = 42/161 (26%), Positives = 70/161 (43%), Gaps = 6/161 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL  DAR+L N  + +C    L     + +E     +    QK TQS G RP+G+  LI
Sbjct: 74  AGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLI 133

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMT--TEKATIKLA 118
            G+D  G   L + +PSG   E    A G  ++  + +LE+   +           IK  
Sbjct: 134 IGYDKSG-AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 192

Query: 119 IRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           + A+ + ++       NL IA++    P  +     + +Y+
Sbjct: 193 VEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>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 =  201 bits (514), Expect = 3e-66
 Identities = 50/166 (30%), Positives = 99/166 (59%), Gaps = 10/166 (6%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGR-----RPFG 55
           +GL ADA+ LI++A++E Q+H  T  + +T+E +T+ ++ L  ++ + +       RPFG
Sbjct: 79  SGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFG 138

Query: 56  ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATI 115
           ++ L GG D  G P+L+  +PSG + +  A A G +++  +  L++ Y  + MT ++A I
Sbjct: 139 VALLFGGVDEKG-PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYH-KSMTLKEA-I 195

Query: 116 KLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
           K ++  L +V++      N+E+A ++ G+   M +  ++EE + +I
Sbjct: 196 KSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 241

>1ryp_C 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_B* 1g65_B 2f16_B* 2fak_B* 2fny_B* 2gpl_B* 3d29_B* 3dy3_B* 3dy4_B* 3e47_B* 3gpj_B* 3gpt_B* 3gpw_B* 3hye_B* 3mg0_B* 3mg4_B* 3okj_B* 3shj_B* 3tdd_B* 3nzj_B* ... Length = 244

 Score =  200 bits (512), Expect = 5e-66
 Identities = 55/168 (32%), Positives = 89/168 (52%), Gaps = 10/168 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLTADA ILIN A+I  Q++  T  + + +E + R ++ +KQ YTQ  G RPFG+S + 
Sbjct: 77  AGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIY 136

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D     +LY + PSG Y  WKA + G +    +  L+  YK ++M  + A I+LA++
Sbjct: 137 AGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK-DDMKVDDA-IELALK 194

Query: 121 ALLEVVQSG---QKNLEIAVMRHGK-----PVEMLSVAQIEEYVNEIE 160
            L +   S       LE A +R G        ++    +I++ + +  
Sbjct: 195 TLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVKTG 242

>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 =  198 bits (505), Expect = 4e-65
 Identities = 55/161 (34%), Positives = 92/161 (57%), Gaps = 6/161 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +G+  D R+L++RA+   Q + L  ++P+    + + +A + Q+YTQS G RPFG+S LI
Sbjct: 76  SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLI 135

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G++    P L+Q++PSG Y+ WKA A G++    + FLEK Y  E++  E A I  AI 
Sbjct: 136 CGWNEGR-PYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYN-EDLELEDA-IHTAIL 192

Query: 121 ALLEVV--QSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
            L E    Q  + N+E+ +         L+  ++++Y+  I
Sbjct: 193 TLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAI 232

>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 =  196 bits (500), Expect = 1e-63
 Identities = 45/178 (25%), Positives = 83/178 (46%), Gaps = 8/178 (4%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL  D R L+NR + E  S K   + P+ +      +    Q +T  N  RPFG+S + 
Sbjct: 79  SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIF 138

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSE-EMTTEKATIKLAI 119
           GG D +G   LY  EPSG Y+ +K  ATG+  ++ +  LEK      E  + +  +K A 
Sbjct: 139 GGVDKNG-AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAA 197

Query: 120 RALLEVV-QSGQKNLEIAV-----MRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKK 171
           + +      + +K+ E+ +            + +    ++E ++  +KE   + ++ +
Sbjct: 198 KIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFAQKEINGDDDEDE 255

>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 =  194 bits (495), Expect = 3e-63
 Identities = 50/172 (29%), Positives = 83/172 (48%), Gaps = 5/172 (2%)

Query: 1   TGLTADARILINRAQIECQ-SHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL 59
           +G+  D R+L+++++     S+K    +    + +   +A + Q+ TQS G RPFG+S L
Sbjct: 76  SGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLL 135

Query: 60  IGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAI 119
           I G D      LYQ +PSG Y+ WKA A G+ +   + FLEK +  +E+  E A I +A+
Sbjct: 136 IAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWN-DELELEDA-IHIAL 193

Query: 120 RALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEK 169
             L E V+       +E+A++    P  +       +      K    E   
Sbjct: 194 LTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQEIND 245

>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 =  192 bits (490), Expect = 1e-62
 Identities = 42/174 (24%), Positives = 77/174 (44%), Gaps = 6/174 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL ADAR L + A+ E  + +      + L+++   +A     YT  +  RPFG S ++
Sbjct: 78  AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFML 137

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           G +  +   +LY  +PSG+ Y +   A G++ +  +  +EK    +EMT     +K   +
Sbjct: 138 GSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQM-KEMTCRDI-VKEVAK 195

Query: 121 ALLEV---VQSGQKNLEIAVM-RHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKK 170
            +  V   V+     LE++ +         +    I E   +  KE   E ++ 
Sbjct: 196 IIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKYAKESLKEEDES 249

>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 =  187 bits (476), Expect = 2e-60
 Identities = 46/170 (27%), Positives = 81/170 (47%), Gaps = 10/170 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL  D R L+NR + E  S K   + P+ +      +    Q +T  N  RPFG+S + 
Sbjct: 75  SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIF 134

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFY--KSEEMTTEKATIKLA 118
           GG D +G   LY  EPSG Y+ +K  ATG+  ++ +  LEK      E ++  +A +K A
Sbjct: 135 GGVDKNG-AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREA-VKQA 192

Query: 119 IRALLEVV-QSGQKNLEIAV-----MRHGKPVEMLSVAQIEEYVNEIEKE 162
            + +      + +K+ E+ +            + +    ++E ++  +KE
Sbjct: 193 AKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFAQKE 242

>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 =  122 bits (307), Expect = 4e-35
 Identities = 29/186 (15%), Positives = 63/186 (33%), Gaps = 22/186 (11%)

Query: 1   TGLTADARILINRAQIECQSHKLT--VEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISC 58
            G   +   L         +        D    +    Y   L   +T+    +P+ +  
Sbjct: 65  AGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTE--QAKPYEVEL 122

Query: 59  LIGGFDYDG---KPRLYQTEPSG-IYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKAT 114
            +    + G   +P LY+    G I  E      G + + +   L++ Y  E  +   A 
Sbjct: 123 CVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYA-ENASLTDA- 180

Query: 115 IKLAIRALLEVVQSGQ---------KNLEIAVMRHGKPVE---MLSVAQIEEYVNEIEKE 162
           +++A+ AL                  +LE+AV+   +P      ++ + ++  + + E  
Sbjct: 181 LRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLVDQESP 240

Query: 163 KEDEAE 168
           + D   
Sbjct: 241 QSDGES 246

>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 =  119 bits (299), Expect = 7e-34
 Identities = 29/187 (15%), Positives = 65/187 (34%), Gaps = 20/187 (10%)

Query: 1   TGLTADARILINRAQIECQSHKLT-VEDPVTLEYITRYIA-GLKQKYTQSNGRRPFGISC 58
            G   +   L     +       +     VT   +    A  L   +T+    +P+ +  
Sbjct: 65  VGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--QPKPYEVEI 122

Query: 59  LI---GGFDYDGKPRLYQTEPSGIYYEWK-ANATGRSAKTVREFLEKFYKSEEMTTEKAT 114
            +   G       P+LY+    G   + +     G + + +   + + Y+  ++  E A 
Sbjct: 123 CVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYR-ADLDLEAA- 180

Query: 115 IKLAIRALLEVVQS-------GQKNLEIAVMRHGKP---VEMLSVAQIEEYVNEIEKEKE 164
           + +A+ AL +              +LE+AV+   +P      ++   +E+ V        
Sbjct: 181 VGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAEPAAAS 240

Query: 165 DEAEKKK 171
           + A + K
Sbjct: 241 ESAPEPK 247

>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 = 96.3 bits (240), Expect = 5e-25
 Identities = 36/165 (21%), Positives = 58/165 (35%), Gaps = 13/165 (7%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD   +        + H L       +    + +     KY     +   G   ++ 
Sbjct: 76  GTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVA 130

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D  G   L+     G        + G  +      LE  +K +++T E+A IKLA  A
Sbjct: 131 GVDPTG-SHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWK-QDLTKEEA-IKLASDA 187

Query: 122 LLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKE 162
           +   +     SG  N+++ VM  GK  E L          E +K 
Sbjct: 188 IQAGIWNDLGSG-SNVDVCVMEIGKDAEYLRNYLTPNVREEKQKS 231

>3unf_H Proteasome subunit beta type-10; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_H Length = 234

 Score = 95.4 bits (238), Expect = 6e-25
 Identities = 37/174 (21%), Positives = 63/174 (36%), Gaps = 19/174 (10%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G+ AD  +    A  + + H L+      +  +TR +     +Y     +   G S ++G
Sbjct: 47  GVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRY-----QGHVGASLVVG 101

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D +G P+LY+  P G Y      A G         LE  ++   MT E A  +L + A
Sbjct: 102 GVDLNG-PQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQ-PNMTLEAA-QELLVEA 158

Query: 122 LLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKK 171
           +   +     SG  N++  V+  G                  E  +     +  
Sbjct: 159 ITAGILSDLGSG-GNVDACVITAGG------AKLQRALSTPTEPVQRAGRYRFA 205

>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 = 93.9 bits (234), Expect = 2e-24
 Identities = 36/165 (21%), Positives = 58/165 (35%), Gaps = 13/165 (7%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD   +        + H L       +    + +     KY     +   G   ++ 
Sbjct: 47  GTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVA 101

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D  G   L+     G        + G  +      LE  +K +++T E+A IKLA  A
Sbjct: 102 GVDPTG-SHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWK-QDLTKEEA-IKLASDA 158

Query: 122 LLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKE 162
           +   +     SG  N+++ VM  GK  E L          E +K 
Sbjct: 159 IQAGIWNDLGSG-SNVDVCVMEIGKDAEYLRNYLTPNVREEKQKS 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 = 93.4 bits (233), Expect = 2e-24
 Identities = 38/169 (22%), Positives = 73/169 (43%), Gaps = 13/169 (7%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL  DA++L+   + E + ++L     + +E +   ++ +  +        P+ +  L+G
Sbjct: 55  GLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKY----MPYMVQLLVG 110

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G   D  P ++  + +G   E    +TG  +  V   LE  Y  E+MT ++  + L IRA
Sbjct: 111 G--IDTAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYS-EKMTVDEG-VDLVIRA 166

Query: 122 LLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDE 166
           +    Q    SG   +++AV+        L   QIE  + ++       
Sbjct: 167 ISAAKQRDSASG-GMIDVAVITRKDGYVQLPTDQIESRIRKLGLILHHH 214

>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 = 84.7 bits (210), Expect = 7e-21
 Identities = 29/142 (20%), Positives = 51/142 (35%), Gaps = 13/142 (9%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD  +         + H L+      +    R +  +  +Y     R   G + ++G
Sbjct: 47  GTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRY-----RGYIGAALVLG 101

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D  G P LY   P G   +      G  +       E  ++  +M  E+A   L   A
Sbjct: 102 GVDVTG-PHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFR-PDMEEEEA-KNLVSEA 158

Query: 122 LLEVVQ----SGQKNLEIAVMR 139
           +   +     SG  N+++ V+ 
Sbjct: 159 IAAGIFNDLGSG-SNIDLCVIS 179

>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 = 80.4 bits (198), Expect = 8e-19
 Identities = 30/184 (16%), Positives = 61/184 (33%), Gaps = 21/184 (11%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G    A  L+    +E + ++     P+T +     +A + +        +   +  L+ 
Sbjct: 112 GTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGN-LGAAMQGLAVVPLLV 170

Query: 62  GFDYDG-----KPRLYQTEPSGIYYEWKAN--ATGRSAKTVREFLEKFYKSEEMTTEKAT 114
           G+D D        R+   +  G  YE +A   A G  +   +  L+K Y   +   E A 
Sbjct: 171 GYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYS-PDSDEETA- 228

Query: 115 IKLAIRALLE----------VVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKE 164
           ++ AI +L +             +         +        +S     E    I  E+ 
Sbjct: 229 LRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAG-AVHVSEETTSELARRIVAERT 287

Query: 165 DEAE 168
           ++  
Sbjct: 288 EQGG 291

>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 = 78.0 bits (192), Expect = 3e-18
 Identities = 30/184 (16%), Positives = 61/184 (33%), Gaps = 21/184 (11%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G    A  L+    +E + ++     P+T +     +A + +        +   +  L+ 
Sbjct: 47  GTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGN-LGAAMQGLAVVPLLV 105

Query: 62  GFDYDG-----KPRLYQTEPSGIYYEWKAN--ATGRSAKTVREFLEKFYKSEEMTTEKAT 114
           G+D D        R+   +  G  YE +A   A G  +   +  L+K Y   +   E A 
Sbjct: 106 GYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYS-PDSDEETA- 163

Query: 115 IKLAIRALLE----------VVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKE 164
           ++ AI +L +             +         +        +S     E    I  E+ 
Sbjct: 164 LRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQ-AGAVHVSEETTSELARRIVAERT 222

Query: 165 DEAE 168
           ++  
Sbjct: 223 EQGG 226

>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 = 76.3 bits (188), Expect = 2e-17
 Identities = 26/170 (15%), Positives = 63/170 (37%), Gaps = 12/170 (7%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD +        +C+ H+L  ++ +++   ++ ++ L  +Y          +  +I 
Sbjct: 122 GGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMIC 177

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+     P +Y  +  G   +      G         L+  YK  +++ E A + L  R+
Sbjct: 178 GYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYK-WDLSVEDA-LYLGKRS 235

Query: 122 LLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEA 167
           +L        SG  ++ +  +             + E   ++++E+    
Sbjct: 236 ILAAAHRDAYSG-GSVNLYHVTEDG-WIYHGNHDVGELFWKVKEEEGSFN 283

>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 = 72.6 bits (179), Expect = 1e-16
 Identities = 34/157 (21%), Positives = 65/157 (41%), Gaps = 11/157 (7%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G   D        Q   Q + +  +  ++ + ++ ++     K  +S  RRP+ ++ LIG
Sbjct: 48  GEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRS--RRPYQVNVLIG 105

Query: 62  GFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           G+D    KP LYQ +  G   E    A G S       L+  Y+  +MTTE+  + L   
Sbjct: 106 GYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYR-PDMTTEEG-LDLLKL 163

Query: 121 ALLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIE 153
            + E+ +       K + + ++     +  +   Q +
Sbjct: 164 CVQELEKRMPMDF-KGVIVKIVDKDG-IRQVDDFQAQ 198

>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 = 71.5 bits (176), Expect = 5e-16
 Identities = 26/169 (15%), Positives = 63/169 (37%), Gaps = 12/169 (7%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD +        +C+ H+L  ++ +++   ++ ++ L  +Y          +  +I 
Sbjct: 47  GGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMIC 102

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+     P +Y  +  G   +      G         L+  YK  +++ E A + L  R+
Sbjct: 103 GYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYK-WDLSVEDA-LYLGKRS 160

Query: 122 LLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDE 166
           +L        SG  ++ +  +             + E   ++++E+   
Sbjct: 161 ILAAAHRDAYSG-GSVNLYHVTEDG-WIYHGNHDVGELFWKVKEEEGSF 207

>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 = 71.5 bits (175), Expect = 1e-15
 Identities = 22/184 (11%), Positives = 56/184 (30%), Gaps = 21/184 (11%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  A A        +E + ++     P+T       +A + +        +      L+ 
Sbjct: 104 GTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLA-AAMQGLLALPLLA 162

Query: 62  GFDYDG-----KPRLYQTEPSGIYYEWKAN--ATGRSAKTVREFLEKFYKSEEMTTEKAT 114
           G+D          R+   + +G +   +    A G  +   +  ++K Y  +    +   
Sbjct: 163 GYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYS-QVTDGDSG- 220

Query: 115 IKLAIRALLE----------VVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKE 164
           +++A+ AL +                      ++        +  ++I E    I + + 
Sbjct: 221 LRVAVEALYDAADDDSATGGPDLVRGIFPTAVIIDADG-AVDVPESRIAELARAIIESRS 279

Query: 165 DEAE 168
               
Sbjct: 280 GADT 283

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

 Score = 67.6 bits (166), Expect = 1e-14
 Identities = 40/165 (24%), Positives = 73/165 (44%), Gaps = 14/165 (8%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G   DA+ L    +IE   +++  E   T+  I    + L   Y       P+ +  LIG
Sbjct: 47  GSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRY----FPYLVQLLIG 102

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKA-NATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           G D +G   +Y  +P G   E K   ATG  + T    LE  +   E+  ++A ++LA+R
Sbjct: 103 GIDSEG-KSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFT-PEIGVDEA-VELAVR 159

Query: 121 ALLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEK 161
           A+   ++    SG   +++  +   +     S  ++E+ + +  K
Sbjct: 160 AIYSAMKRDSASG-DGIDVVKITEDE-FYQYSPEEVEQILAKFRK 202

>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 = 67.2 bits (165), Expect = 2e-14
 Identities = 27/162 (16%), Positives = 62/162 (38%), Gaps = 13/162 (8%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD          +C+ ++L  ++ +++   ++ +A +  +Y          +  +I 
Sbjct: 47  GGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMIC 102

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D  G P LY  +  G        + G  +      +++ Y   ++  E+A   LA RA
Sbjct: 103 GWDKRG-PGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYS-YDLEVEQA-YDLARRA 159

Query: 122 LLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
           + +       SG   + +  +R       +S   + +   + 
Sbjct: 160 IYQATYRDAYSG-GAVNLYHVREDG-WIRVSSDNVADLHEKY 199

>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 = 59.3 bits (144), Expect = 2e-11
 Identities = 32/160 (20%), Positives = 55/160 (34%), Gaps = 27/160 (16%)

Query: 1   TGLTADARILINRAQIECQSHKLTVED-PVTLEYITRYIAGLKQKYTQSNGRRPFGISCL 59
            G  AD   L+ R +   + +     D  ++        A   Q         P+ +  +
Sbjct: 55  NGFAADGDALVKRFKNSVKWYHFDHNDKKLS----INSAARNIQHLLYGKRFFPYYVHTI 110

Query: 60  IGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKS-------------- 105
           I G D DGK  +Y  +P G Y   +  A G +A  +  FL+                   
Sbjct: 111 IAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKK 170

Query: 106 --EEMTTEKATIKLAIRALLEVVQ----SGQKNLEIAVMR 139
             + ++ E+  IKL   +     +     G   LEI ++ 
Sbjct: 171 PLKYLSVEEV-IKLVRDSFTSATERHIQVG-DGLEILIVT 208

>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 = 59.0 bits (143), Expect = 4e-11
 Identities = 27/172 (15%), Positives = 54/172 (31%), Gaps = 13/172 (7%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYIT-RYIAGLKQK--YTQSNGRRPFGIS 57
           +G  +D + +    +     +          E +   YI        Y + +   P   +
Sbjct: 87  SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNA 146

Query: 58  CLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYK----SEEMTTEKA 113
            ++ G   +G   L      G+ Y     ATG  A      L K         + T + A
Sbjct: 147 IIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVA 206

Query: 114 TIKLAIRALLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEK 161
             +  + A+  +      S  +N  +A++     +      Q+E    +  K
Sbjct: 207 -EEAIVNAMRVLYYRDARSS-RNFSLAIIDKNTGLTFKKNLQVENMKWDFAK 256

>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 = 56.8 bits (138), Expect = 1e-10
 Identities = 20/121 (16%), Positives = 44/121 (36%), Gaps = 7/121 (5%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD + + +    +   H + + +P  +         +  +Y     R       +I 
Sbjct: 47  GSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRY-----REDLMAGIIIA 101

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D     ++Y     G+         G  +  +  +++  Y+ E MT E+  ++    A
Sbjct: 102 GWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYR-EGMTKEEC-LQFTANA 159

Query: 122 L 122
           L
Sbjct: 160 L 160

>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 = 56.1 bits (136), Expect = 2e-10
 Identities = 28/151 (18%), Positives = 57/151 (37%), Gaps = 13/151 (8%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           TGL  D   L    + +   +KL  E  +  E  T+ ++    +        P+ +  ++
Sbjct: 53  TGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFG----PYFVGPVV 108

Query: 61  GGFD-YDGKPRLYQTEPSGIYYEWKA-NATGRSAKTVREFLEKFYKSEEMTTEKATIKLA 118
            G +   GKP +   +  G   E K    +G ++  +    E  Y+   +  E    +  
Sbjct: 109 AGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYE-PNLEPEDL-FETI 166

Query: 119 IRALLEVVQ----SGQKNLEIAVMRHGKPVE 145
            +ALL        SG     + +++  + V+
Sbjct: 167 SQALLNAADRDALSG-WGAVVYIIKKDEVVK 196

>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 = 55.8 bits (135), Expect = 4e-10
 Identities = 28/172 (16%), Positives = 55/172 (31%), Gaps = 13/172 (7%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYIT-RYIAGLKQK--YTQSNGRRPFGIS 57
           +G  +D + +    +     +          E +   YI        Y + +   P   +
Sbjct: 54  SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNA 113

Query: 58  CLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSE----EMTTEKA 113
            ++ G   +G   L      G+ Y     ATG  A      L K    E    + T + A
Sbjct: 114 IIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVA 173

Query: 114 TIKLAIRALLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEK 161
             +  + A+  +      S  +N  +A++     +      Q+E    +  K
Sbjct: 174 -EEAIVNAMRVLYYRDARSS-RNFSLAIIDKNTGLTFKKNLQVENMKWDFAK 223

>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 = 55.3 bits (134), Expect = 4e-10
 Identities = 23/141 (16%), Positives = 51/141 (36%), Gaps = 9/141 (6%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G   D        Q   Q +K+     ++      +    +        R P+ ++ L+ 
Sbjct: 48  GEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTR--RNLADCLRSRTPYHVNLLLA 105

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D    P LY  +      +    A G  A      L+++Y    ++ E+A ++L  + 
Sbjct: 106 GYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYT-PTISRERA-VELLRKC 163

Query: 122 LLEVVQ----SGQKNLEIAVM 138
           L E+ +    +      + ++
Sbjct: 164 LEELQKRFILNL-PTFSVRII 183

>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 = 53.0 bits (128), Expect = 2e-09
 Identities = 22/122 (18%), Positives = 44/122 (36%), Gaps = 8/122 (6%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  ADA+ + + A  + + H L +E+P  +      +  +  KY     R       ++ 
Sbjct: 47  GSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKY-----REDLLAHLIVA 101

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D             G+         G  +  +  +++  YK   MT E+   +    A
Sbjct: 102 GWDQRE-GGQVYGTMGGMLIRQPFTIGGSGSSYIYGYVDAAYK-PGMTPEEC-RRFTTNA 158

Query: 122 LL 123
           + 
Sbjct: 159 IT 160

>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 = 51.8 bits (125), Expect = 8e-09
 Identities = 19/123 (15%), Positives = 45/123 (36%), Gaps = 8/123 (6%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD + + +  Q   + +      P      T   A + ++    N +       ++ 
Sbjct: 56  GSAADTQAIADIVQYHLELYTSQYGTP-----STETAASVFKELCYEN-KDNLTAGIIVA 109

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G+D   K  +Y     G  ++      G  +  +  + +K ++ E M+ E+  +     +
Sbjct: 110 GYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFR-ENMSKEET-VDFIKHS 167

Query: 122 LLE 124
           L +
Sbjct: 168 LSQ 170

>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 = 50.2 bits (121), Expect = 3e-08
 Identities = 24/151 (15%), Positives = 50/151 (33%), Gaps = 13/151 (8%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL  D + +  R +     ++L     +    +   +A L  +        P+    +I
Sbjct: 54  AGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFG----PYYTEPVI 109

Query: 61  GGFDYDG-KPRLYQTEPSGIYYEWKA-NATGRSAKTVREFLEKFYKSEEMTTEKATIKLA 118
            G D    KP +   +  G          +G  A+ +    E  ++   M  +    +  
Sbjct: 110 AGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWE-PNMDPDHL-FETI 167

Query: 119 IRALLEVVQ----SGQKNLEIAVMRHGKPVE 145
            +A+L  V     SG   + + ++   K   
Sbjct: 168 SQAMLNAVDRDAVSGM-GVIVHIIEKDKITT 197

>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 = 48.0 bits (115), Expect = 2e-07
 Identities = 25/151 (16%), Positives = 56/151 (37%), Gaps = 18/151 (11%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +G   D   L    +   + +K +    +T   I   ++ +           P+ +  +I
Sbjct: 55  SGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFF----PYYVYNII 110

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKS--------EEMTTEK 112
           GG D +GK  +Y  +P G Y      A G ++  ++  L+               ++ ++
Sbjct: 111 GGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDR 170

Query: 113 ATIKLAIRALLEVVQ----SGQKNLEIAVMR 139
           A ++L     +   +    +G   L I ++ 
Sbjct: 171 A-MRLVKDVFISAAERDVYTG-DALRICIVT 199

>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 = 42.6 bits (101), Expect = 1e-05
 Identities = 26/145 (17%), Positives = 49/145 (33%), Gaps = 11/145 (7%)

Query: 1   TGLTADARILINRAQIECQSHKL-TVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL 59
           +G  AD + L           +L       +   I  ++              P   + +
Sbjct: 54  SGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMN--PLWNTMV 111

Query: 60  IGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYK-SEEMTTEKATIKLA 118
           IGG+  DG+  L   +  G+ YE  + ATG  A   +  L +  +    ++  +A   L 
Sbjct: 112 IGGYA-DGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEA-RDLV 169

Query: 119 IRALLEVVQ----SGQKNLEIAVMR 139
            R +  +      S     + A + 
Sbjct: 170 ERCMRVLYYRDARSY-NRFQTATVT 193

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	174
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
1iru_E	241	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
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	99.98
1iru_J	205	20S proteasome; cell cycle, immune response, prote	99.98
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	99.98
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	99.97
1iru_I	234	20S proteasome; cell cycle, immune response, prote	99.97
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.9
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.89
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.89

>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=5.3e-39  Score=254.64  Aligned_cols=158  Identities=28%  Similarity=0.437  Sum_probs=151.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++.+|++.++++|+++.+|++|++++|.|++++++|||+|++||||||++++|+||++||+|++
T Consensus        75 aG~~aD~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~  154 (243)
T 1ryp_A           75 NGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYY  154 (243)
T ss_dssp             ESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCE
T ss_pred             EecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcCCCCE
Confidence            69999999999999999999999999999999999999999999999999999999999999997667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccc-------ccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCCeEEcCHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKS-------EEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQ  151 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~-------~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~~~~l~~~e  151 (174)
                      .+++++|+|+++..++++||+.|++       +|  |++||++++++||..+.+++  +++++|++|+++| |++++++|
T Consensus       155 ~~~~~~a~G~gs~~a~~~Le~~~~~~~~~~~~~m--s~eea~~l~~~al~~~~~rd~s~~~iev~vi~~~g-~~~l~~~e  231 (243)
T 1ryp_A          155 VGYKATATGPKQQEITTNLENHFKKSKIDHINEE--SWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK-FFTLSAEN  231 (243)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCS--SHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETTE-EEECCHHH
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhhhcccccccCC--CHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCC-eEECCHHH
Confidence            9999999999999999999999999       88  99999999999999998875  7899999999997 99999999


Q ss_pred             HHHHHHHhcc
Q psy13966        152 IEEYVNEIEK  161 (174)
Q Consensus       152 i~~~~~~~~~  161 (174)
                      |+.++.++.+
T Consensus       232 i~~~~~~~~~  241 (243)
T 1ryp_A          232 IEERLVAIAE  241 (243)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHhhc
Confidence            9999999854

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

Probab=100.00  E-value=4.1e-39  Score=256.11  Aligned_cols=169  Identities=70%  Similarity=1.101  Sum_probs=157.4

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++.+|+++++++++++.+|+++++++|.||++++.|||+|++||||||++++|+||.+||+|++
T Consensus        74 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~  153 (248)
T 1iru_D           74 AGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTY  153 (248)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCE
T ss_pred             eecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCcE
Confidence            69999999999999999999999999999999999999999999999999999999999999996667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCCCeEEcCHHHHHHHHHHhc
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIE  160 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~~~~iei~ii~~~~~~~~l~~~ei~~~~~~~~  160 (174)
                      .+++++|+|+|+..++++|++.|+++|..+++||++++++||..+.+.++++++|++|+++|.|++++++||+.++..+.
T Consensus       154 ~~~~~~aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~~sg~~i~v~vi~~~g~~~~l~~~ei~~~~~~~~  233 (248)
T 1iru_D          154 HAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIE  233 (248)
T ss_dssp             EEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSCTTSTTCCEEEEESSSCEECCCHHHHHHHTTTTT
T ss_pred             EEeeEEEECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHcCCCCcEEEEEEECCCcEEECCHHHHHHHHHHHH
Confidence            99999999999999999999999987433999999999999999988778899999999998899999999999999997


Q ss_pred             cchHHHHHH
Q psy13966        161 KEKEDEAEK  169 (174)
Q Consensus       161 ~~~~~~~~~  169 (174)
                      .+.+++++.
T Consensus       234 ~~~~~~~~~  242 (248)
T 1iru_D          234 KEKEENEKK  242 (248)
T ss_dssp             TTTTTTTSS
T ss_pred             hcchhhhhh
Confidence            766554433

>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=1.1e-38  Score=255.37  Aligned_cols=164  Identities=32%  Similarity=0.539  Sum_probs=154.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+|+.+++++|.||+++++|||+|++||||||++++|+||.+||+|++
T Consensus        77 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~  156 (261)
T 1iru_C           77 AGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNY  156 (261)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEE
T ss_pred             eEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECCCceE
Confidence            69999999999999999999999999999999999999999999999999999999999999997667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccc-ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC---eEEcCHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKS-EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP---VEMLSVAQIE  153 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~-~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~---~~~l~~~ei~  153 (174)
                      .+++++|+|+|+..++++|++.|++ +|  |++||++++++||..+.+++   +++|+|++|++++.   |++++++||+
T Consensus       157 ~~~~~~aiGsgs~~a~~~Le~~~~~~~m--s~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~~~ei~  234 (261)
T 1iru_C          157 GGWKATCIGNNSAAAVSMLKQDYKEGEM--TLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVE  234 (261)
T ss_dssp             EECSEEEESTTTTHHHHHHHHHCCTTCC--CHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHH
T ss_pred             EeeeeEEeCcccHHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECCHHHHH
Confidence            9999999999999999999999999 98  99999999999999999874   68999999999874   8999999999


Q ss_pred             HHHHHhccchHHH
Q psy13966        154 EYVNEIEKEKEDE  166 (174)
Q Consensus       154 ~~~~~~~~~~~~~  166 (174)
                      .++.++.++..++
T Consensus       235 ~~l~~~~~~~~~~  247 (261)
T 1iru_C          235 QLIKKHEEEEAKA  247 (261)
T ss_dssp             HHHHHHHTTTTTT
T ss_pred             HHHHHHHhchhhh
Confidence            9999996544333

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

Probab=100.00  E-value=2.8e-38  Score=247.11  Aligned_cols=164  Identities=21%  Similarity=0.320  Sum_probs=146.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|++.++++++++.+++++++++|.|    ++|||+|++||||||++++|+||.+||+|++
T Consensus        47 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~----~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~  122 (219)
T 3h4p_a           47 AGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACATLLSNILHSS----RMFPFLTQIIIGGYDLLEGAKLFSLDPLGGM  122 (219)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHT----TTTTCCCCCEEEEEETTTEEEEEEECSSCCE
T ss_pred             eEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHh----cCCCceEEEEEEEEeCCCCcEEEEECCCCce
Confidence            799999999999999999999999999999999999999999766    3689999999999998567999999999999


Q ss_pred             eeee-eEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHH
Q psy13966         81 YEWK-ANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~-~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~  156 (174)
                      .+++ ++|+|+|+..++++||+.|+++|  +++||++++++||..+.+++   +++|+|++++++| |++++++||+.++
T Consensus       123 ~~~~~~~aiG~gs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~g-~~~l~~~ei~~~l  199 (219)
T 3h4p_a          123 NEEKTFTATGSGSPIAYGVLEAGYDRDM--SVEEGIKLALNALKSAMERDTFSGNGISLAVITKDG-VKIFEDEEIEKIL  199 (219)
T ss_dssp             EECSSEEEESTTHHHHHHHHHTSCCTTC--CHHHHHHHHHHHHHHHHTSCSSCCSCCCEEEEETTE-EEECCHHHHHHHH
T ss_pred             EecCCEEEEcCCHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC-eEEcCHHHHHHHH
Confidence            9999 99999999999999999999998  99999999999999999875   6899999999986 9999999999999


Q ss_pred             HHhccchHHHHHHhh
Q psy13966        157 NEIEKEKEDEAEKKK  171 (174)
Q Consensus       157 ~~~~~~~~~~~~~~~  171 (174)
                      .+++.+++.+++++-
T Consensus       200 ~~~~~~~~~~~~~~~  214 (219)
T 3h4p_a          200 DSMKAKPKKKTTKRS  214 (219)
T ss_dssp             HHCC-----------
T ss_pred             HHhhcccccccchhh
Confidence            999998888877643

>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=3.8e-38  Score=249.43  Aligned_cols=159  Identities=57%  Similarity=0.970  Sum_probs=152.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCC-CCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYD-GKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~-g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+|+++++++|.||+++++|||+|++||||||++ ++|+||.+||+|+
T Consensus        74 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~  153 (241)
T 1ryp_D           74 SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGI  153 (241)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSC
T ss_pred             eecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCCCC
Confidence            699999999999999999999999999999999999999999999999899999999999999974 6799999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhc---ccccccCHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCCCeEEcCHHHHHHHH
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFY---KSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYV  156 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~---~~~~~~s~~eai~l~~~~l~~~~~~~~~~iei~ii~~~~~~~~l~~~ei~~~~  156 (174)
                      +.+++++|+|+|+..++++|++.|   +++|  +++||++++++||..+.+.++++++|++|+++++|++++++||+.++
T Consensus       154 ~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~m--s~eea~~l~~~al~~~~~~sg~~i~v~vi~~~~~~~~l~~~ei~~~~  231 (241)
T 1ryp_D          154 YSSWSAQTIGRNSKTVREFLEKNYDRKEPPA--TVEECVKLTVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYV  231 (241)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHTTCCTTSCCC--SHHHHHHHHHHHHHHHHCSCSTTEEEEEEETTTEEEECCHHHHHHHH
T ss_pred             EEEeeeEEECCCcHHHHHHHHHhhhcccCCC--CHHHHHHHHHHHHHHHhcCCCCcEEEEEEECCCcEEECCHHHHHHHH
Confidence            999999999999999999999999   8998  99999999999999998866889999999999789999999999999


Q ss_pred             HHhcc
Q psy13966        157 NEIEK  161 (174)
Q Consensus       157 ~~~~~  161 (174)
                      .++.+
T Consensus       232 ~~~~~  236 (241)
T 1ryp_D          232 TQIEQ  236 (241)
T ss_dssp             HHHTH
T ss_pred             HHHhh
Confidence            99843

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

Probab=100.00  E-value=6.3e-38  Score=248.85  Aligned_cols=159  Identities=30%  Similarity=0.488  Sum_probs=151.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+|+.+++++|.|++++++|||+|++||||||++++|+||.+||+|++
T Consensus        81 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~  160 (246)
T 1iru_A           81 TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYY  160 (246)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCE
T ss_pred             eccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCeeE
Confidence            69999999999999999999999999999999999999999999999999999999999999997667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccc--ccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCC-eEEcCHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKS--EEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKP-VEMLSVAQIEEY  155 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~--~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~-~~~l~~~ei~~~  155 (174)
                      .+++++|+|+|+..++++||+.|++  +|  +++||++++++||..+.+++  +++++|++|+++|. |++++++||+.+
T Consensus       161 ~~~~~~aiG~gs~~a~~~Le~~~~~~~~m--s~eea~~la~~al~~~~~rd~sg~~i~v~vi~~~g~~~~~l~~~ei~~~  238 (246)
T 1iru_A          161 CGFKATAAGVKQTESTSFLEKKVKKKFDW--TFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAH  238 (246)
T ss_dssp             EEBSEEEEETTHHHHHHHHHHHTTSCCCC--CHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHHH
T ss_pred             EEeeEEEECCCcHHHHHHHHHhhcccCCC--CHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCeEEECCHHHHHHH
Confidence            9999999999999999999999999  88  99999999999999999865  78999999999976 899999999999


Q ss_pred             HHHhcc
Q psy13966        156 VNEIEK  161 (174)
Q Consensus       156 ~~~~~~  161 (174)
                      +.++.+
T Consensus       239 ~~~~~~  244 (246)
T 1iru_A          239 LVALAE  244 (246)
T ss_dssp             HHHHHT
T ss_pred             HHHhhc
Confidence            999844

>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=1.6e-37  Score=246.25  Aligned_cols=159  Identities=33%  Similarity=0.534  Sum_probs=151.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+++.+++++|.||+++++|||+|++||||||.+++|+||.+||+|++
T Consensus        77 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~  156 (244)
T 1ryp_C           77 AGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNY  156 (244)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             EEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCCccE
Confidence            69999999999999999999999999999999999999999999999999999999999999995567999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc-C--CCcEEEEEEE--cCCC---eEEcCHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS-G--QKNLEIAVMR--HGKP---VEMLSVAQI  152 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~-~--~~~iei~ii~--~~~~---~~~l~~~ei  152 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.++ +  +++++|++|+  +++.   |++++++||
T Consensus       157 ~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l~~~ei  234 (244)
T 1ryp_C          157 TGWKAISVGANTSAAQTLLQMDYKDDM--KVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEI  234 (244)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHH
T ss_pred             EeeeEEEECCCcHHHHHHHHHhhhcCC--CHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEECCHHHH
Confidence            999999999999999999999999998  9999999999999999887 3  6899999999  9876   999999999


Q ss_pred             HHHHHHhcc
Q psy13966        153 EEYVNEIEK  161 (174)
Q Consensus       153 ~~~~~~~~~  161 (174)
                      +.++.+++.
T Consensus       235 ~~~~~~~~~  243 (244)
T 1ryp_C          235 KDILVKTGI  243 (244)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHhhc
Confidence            999998865

>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D* 1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D* 3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 3mg0_D* 3mg4_D* 3okj_D* 3shj_D* 3tdd_D* 2z5c_C ...

Probab=100.00  E-value=4.4e-38  Score=249.14  Aligned_cols=159  Identities=26%  Similarity=0.497  Sum_probs=151.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCC------CCcceeeeeEEEEeCCCCceEEEe
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG------RRPFGISCLIGGFDYDGKPRLYQT   74 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~------~RP~gv~~il~G~D~~g~~~Ly~v   74 (174)
                      ||+.+|++.|+++++.++.+|+++++++++++.+++.+++++|.||++++      .|||+|++||||||++++|+||.+
T Consensus        71 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~i  150 (242)
T 1ryp_E           71 SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHA  150 (242)
T ss_dssp             EESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEE
T ss_pred             eecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEE
Confidence            69999999999999999999999999999999999999999999999988      999999999999996667999999


Q ss_pred             CCCCceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEEEcCCCeEEcCHHHH
Q psy13966         75 EPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQI  152 (174)
Q Consensus        75 d~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii~~~~~~~~l~~~ei  152 (174)
                      ||+|++.+++++|+|+|+..++++|++.|+++|  |++||++++++||..+.++  ++.+++|+++++++.|++++++||
T Consensus       151 dp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~ei  228 (242)
T 1ryp_E          151 EPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSL--TLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKT  228 (242)
T ss_dssp             CTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHH
T ss_pred             CCCCCEeccCEEEECCCCHHHHHHHHHhhccCC--CHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCeEECCHHHH
Confidence            999999999999999999999999999999998  9999999999999999885  478999999999988999999999


Q ss_pred             HHHHHHhcc
Q psy13966        153 EEYVNEIEK  161 (174)
Q Consensus       153 ~~~~~~~~~  161 (174)
                      +.++.++.+
T Consensus       229 ~~~~~~~~~  237 (242)
T 1ryp_E          229 AELIKELKE  237 (242)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999999844

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F

Probab=100.00  E-value=7.9e-38  Score=249.51  Aligned_cols=162  Identities=23%  Similarity=0.325  Sum_probs=152.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+++++++++|.||+++++|||+|++||||||.+++|+||++||+|++
T Consensus        78 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~  157 (254)
T 1iru_G           78 AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVS  157 (254)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             ecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCCCE
Confidence            69999999999999999999999999999999999999999999999999999999999999996567999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcC--CCeEEcCHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHG--KPVEMLSVAQIEEY  155 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~--~~~~~l~~~ei~~~  155 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.+.+   +..|+|++|+++  |.|+++++++++.+
T Consensus       158 ~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~~~~i~~~  235 (254)
T 1iru_G          158 YGYWGCAIGKARQAAKTEIEKLQMKEM--TCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEA  235 (254)
T ss_dssp             EEBSEEEESTTHHHHHHHHTTSCGGGC--CHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHH
T ss_pred             EeeeeEEecCccHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECCHHHHHHH
Confidence            999999999999999999999999998  99999999999999998753   678999999987  56999999999999


Q ss_pred             HHHhccchH
Q psy13966        156 VNEIEKEKE  164 (174)
Q Consensus       156 ~~~~~~~~~  164 (174)
                      +..++...+
T Consensus       236 ~~~~~~~~~  244 (254)
T 1iru_G          236 EKYAKESLK  244 (254)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHhhh
Confidence            999866544

>1iru_B 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_A* 3une_A 3unf_A* 3unh_A

Probab=100.00  E-value=2.3e-37  Score=243.74  Aligned_cols=155  Identities=34%  Similarity=0.628  Sum_probs=148.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++.+++++.+++++++++|.|++++++|||+|++||+|||+ ++|+||.+||+|++
T Consensus        76 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~-~gp~Ly~id~~G~~  154 (233)
T 1iru_B           76 SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNE-GRPYLFQSDPSGAY  154 (233)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECS-SSEEEEEECTTSCE
T ss_pred             EEccHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeC-CCCeEEEECCCCCE
Confidence            69999999999999999999999999999999999999999999999999999999999999995 45999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCCeEEcCHHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQIEEYVNE  158 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~~~~l~~~ei~~~~~~  158 (174)
                      .+++++|+|+|+..++++||+.|+++|  |++||++++++||..+.+++  +++++|.++++++ +++++++||+.++.+
T Consensus       155 ~~~~~~aiG~gs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~d~sg~~i~v~vi~~~g-~~~l~~~ei~~~~~~  231 (233)
T 1iru_B          155 FAWKATAMGKNYVNGKTFLEKRYNEDL--ELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAA  231 (233)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETTE-EEECCHHHHHHHHTT
T ss_pred             EEeeEEEECCCCHHHHHHHHHHhccCC--CHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCC-EEECCHHHHHHHHHh
Confidence            999999999999999999999999998  99999999999999998875  6899999999997 999999999999876


Q ss_pred             h
Q psy13966        159 I  159 (174)
Q Consensus       159 ~  159 (174)
                      +
T Consensus       232 ~  232 (233)
T 1iru_B          232 I  232 (233)
T ss_dssp             C
T ss_pred             c
Confidence            5

>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=6.9e-37  Score=242.93  Aligned_cols=157  Identities=37%  Similarity=0.634  Sum_probs=149.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++.+++++.+|+.+++++|.|+++++.|||++++||||||  ++|+||.+||+|++
T Consensus        79 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D--~gp~Ly~idp~G~~  156 (246)
T 1j2p_A           79 SGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN--EVPKLYETDPSGAL  156 (246)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES--SSEEEEEECTTCCE
T ss_pred             eEccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC--CCCEEEEECCCceE
Confidence            6999999999999999999999999999999999999999999999999999999999999999  55999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEEE-cCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVMR-HGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii~-~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.++  .+++++|++|+ ++++|++++++||+.++.
T Consensus       157 ~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~l~~~ei~~~~~  234 (246)
T 1j2p_A          157 LEYKATAIGMGRMAVTEFFEKEYRDDL--SFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVE  234 (246)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHH
T ss_pred             EeeeEEEECCCcHHHHHHHHHHhccCC--CHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCceEECCHHHHHHHHH
Confidence            999999999999999999999999998  9999999999999999885  47899999999 766799999999999999


Q ss_pred             Hhcc
Q psy13966        158 EIEK  161 (174)
Q Consensus       158 ~~~~  161 (174)
                      ++.+
T Consensus       235 ~~~~  238 (246)
T 1j2p_A          235 RANE  238 (246)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9843

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

Probab=100.00  E-value=2e-38  Score=254.25  Aligned_cols=159  Identities=36%  Similarity=0.635  Sum_probs=151.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|++.++.+++++.+|+.|++++|.||+++++|||+|++||||||+ ++|+||++||+|++
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 SGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDK-NEARLFETDPSGAL  161 (264)
T ss_dssp             EECSHHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEET-TEEEEEEECTTCCC
T ss_pred             ccchHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeC-CcCEEEEECCCceE
Confidence            69999999999999999999999999999999999999999999999999999999999999996 45999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc-CCCcEEEEEEEcC-CCeEEcCHHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS-GQKNLEIAVMRHG-KPVEMLSVAQIEEYVNE  158 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~-~~~~iei~ii~~~-~~~~~l~~~ei~~~~~~  158 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.++ ++++++|++|+++ .+|++++++||+.++.+
T Consensus       162 ~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eea~~la~~al~~a~~~~sg~~iev~vi~~~~~~~~~l~~~ei~~~~~~  239 (264)
T 3h4p_A          162 IEYKATAIGSGRPVVMELLEKEYRDDI--TLDEGLELAITALTKANEDIKPENVDVCIITVKDAQFKKIPVEEIKKLIEK  239 (264)
T ss_dssp             EEESEEEESTTHHHHTTTHHHHCCTTC--CSHHHHHHHHHHHHHHSSSCCTTSEEEEEEETTTTEEEECCTTTTGGGTTT
T ss_pred             EecCeEEECCCHHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHhccCCCeEEEEEEEeCCCcEEECCHHHHHHHHHH
Confidence            999999999999999999999999998  9999999999999999984 6789999999986 45999999999999999


Q ss_pred             hccc
Q psy13966        159 IEKE  162 (174)
Q Consensus       159 ~~~~  162 (174)
                      +.++
T Consensus       240 ~~~~  243 (264)
T 3h4p_A          240 VKKK  243 (264)
T ss_dssp             TTTS
T ss_pred             HHHh
Confidence            9664

>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=2e-37  Score=248.40  Aligned_cols=160  Identities=29%  Similarity=0.526  Sum_probs=151.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|++.++++++++.+++++++++|.||++++.|||+|++||||||+ ++|+||.+||+|++
T Consensus        75 aG~~aD~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~-~gp~Ly~idp~G~~  153 (263)
T 1iru_F           75 AGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDD-MGPHIFQTCPSANY  153 (263)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECSSSCE
T ss_pred             eCCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcC-CCCEEEEECCCCCE
Confidence            69999999999999999999999999999999999999999999999999999999999999997 45999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccc--ccccCHHHHHHHHHHHHHHHhhcC----CCcEEEEEEEcCCCeEEcCHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKS--EEMTTEKATIKLAIRALLEVVQSG----QKNLEIAVMRHGKPVEMLSVAQIEE  154 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~--~~~~s~~eai~l~~~~l~~~~~~~----~~~iei~ii~~~~~~~~l~~~ei~~  154 (174)
                      .+++++|+|+|+..++++|++.|++  +|  +++||++++++||..+.+++    +++|+|++|+++++|++++++||+.
T Consensus       154 ~~~~~~aiGsgs~~a~~~Le~~~~~~~~m--s~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~~~ei~~  231 (263)
T 1iru_F          154 FDCRAMSIGARSQSARTYLERHMSEFMEC--NLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSP  231 (263)
T ss_dssp             EEESEEEESTTHHHHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHH
T ss_pred             EEeeEEEcCcccHHHHHHHHHHhcccCCC--CHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECCHHHHHH
Confidence            9999999999999999999999998  88  99999999999999998754    5799999999996699999999999


Q ss_pred             HHHHhccch
Q psy13966        155 YVNEIEKEK  163 (174)
Q Consensus       155 ~~~~~~~~~  163 (174)
                      ++.++...+
T Consensus       232 ~~~~~~~~~  240 (263)
T 1iru_F          232 FLEGLEERP  240 (263)
T ss_dssp             HHTTCCCCC
T ss_pred             HHHHHhccc
Confidence            999997544

>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=4.7e-37  Score=241.97  Aligned_cols=152  Identities=36%  Similarity=0.597  Sum_probs=145.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+|+++++++|.|+++++.|||+|++||||||+ ++|+||.+||+|++
T Consensus        79 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~-~gp~Ly~id~~G~~  157 (233)
T 1yar_A           79 SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQ-IGPRLFDCDPAGTI  157 (233)
T ss_dssp             EEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECS-SCEEEEEECTTCCE
T ss_pred             eeCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeC-CCCEEEEECCCCCE
Confidence            69999999999999999999999999999999999999999999999999999999999999997 55999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCCeEEcCHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQIEEY  155 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~~~~l~~~ei~~~  155 (174)
                      .+++++|+|+|+..++++||+.|+++|  +++||++++++||..+.+++  +++++|.++++++.|++++++||+.+
T Consensus       158 ~~~~~~aiG~gs~~a~~~Le~~~~~~~--s~eea~~la~~al~~~~~~d~s~~~i~v~vi~~~~~~~~~~~~ei~~~  232 (233)
T 1yar_A          158 NEYKATAIGSGKDAVVSFLEREYKENL--PEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKF  232 (233)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTT
T ss_pred             EeeeEEEEcCCcHHHHHHHHHHhccCC--CHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCEEECCHHHHHhh
Confidence            999999999999999999999999998  99999999999999998875  78999999999987999999999865

>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=2e-36  Score=240.59  Aligned_cols=157  Identities=17%  Similarity=0.257  Sum_probs=141.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcC-CCCCHHHHHHHHH-HHHHHhhhcCCCCcceeeeeEEEEeC---CCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVE-DPVTLEYITRYIA-GLKQKYTQSNGRRPFGISCLIGGFDY---DGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~~~~la~~ls-~~~~~~t~~~~~RP~gv~~il~G~D~---~g~~~Ly~vd   75 (174)
                      ||+.+|++.|.+.++.+++.|++.++ .+++++.|+++|+ .+.|.||+  ++|||+|++||+|||+   .++|+||++|
T Consensus        65 aG~~aD~~~l~~~~~~~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~--~~rP~gv~~liaG~D~~~~~~gp~Ly~~D  142 (248)
T 3mi0_A           65 AGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTE--QAKPYEVELCVAEVAHYGETKRPELYRIT  142 (248)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHH--SSSCCCEEEEEEECCCTTCCCCCEEEEEC
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhcc--CCCCceEEEEEEEEcCCCCCCCCEEEEEC
Confidence            69999999999999999999999999 9999999999999 78899997  7899999999999997   3679999999


Q ss_pred             CCCceee-eeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHh-------hc--CCCcEEEEEEEcCCC--
Q psy13966         76 PSGIYYE-WKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVV-------QS--GQKNLEIAVMRHGKP--  143 (174)
Q Consensus        76 ~~G~~~~-~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~-------~~--~~~~iei~ii~~~~~--  143 (174)
                      |+|++.. ++++|+|+|+..++++||+.|+++|  +++||++++++||..+.       ++  .+++|+|++|++++.  
T Consensus       143 p~G~~~~e~~~~a~Gsgs~~a~~~Le~~y~~~m--t~eeai~la~~aL~~~~~~~~~~~~~~~~~~~iev~vv~~~g~~~  220 (248)
T 3mi0_A          143 YDGSIADEPHFVVMGGTTEPIANALKESYAENA--SLTDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRR  220 (248)
T ss_dssp             TTSCEEEESSEEEESSCHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHC------------CCTTEEEEEEETTSSSC
T ss_pred             CCeEEeecccEEEECccHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHhhcccCcccccCCCcEEEEEEECCCCcc
Confidence            9999995 9999999999999999999999998  99999999999999998       33  478999999999864  


Q ss_pred             -eEEcCHHHHHHHHHHhcc
Q psy13966        144 -VEMLSVAQIEEYVNEIEK  161 (174)
Q Consensus       144 -~~~l~~~ei~~~~~~~~~  161 (174)
                       |++++++||+.++.++..
T Consensus       221 ~f~~l~~~ei~~~l~~~~~  239 (248)
T 3mi0_A          221 AFRRITGSALQALLVDQES  239 (248)
T ss_dssp             CEEECCHHHHHHTC-----
T ss_pred             cEEECCHHHHHHHHHHcCC
Confidence             999999999999998844

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

Probab=100.00  E-value=3e-36  Score=232.55  Aligned_cols=152  Identities=23%  Similarity=0.348  Sum_probs=143.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|++++++++|++.+++++++++|.+    +.|||++++||+|||++ +|+||.+||+|++
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~----r~rp~~~~~lvaG~D~~-gp~Ly~id~~G~~  120 (202)
T 1j2q_H           46 AGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSY----RYFPYLVQLLIGGIDSE-GKSIYSIDPIGGA  120 (202)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHT----TTSCCCEEEEEEEEETT-EEEEEEECTTCCE
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhh----CCCCceEEEEEEEEeCC-CCEEEEECCCCCe
Confidence            699999999999999999999999999999999999999999764    37899999999999974 5999999999999


Q ss_pred             eeee-eEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHH
Q psy13966         81 YEWK-ANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~-~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~  156 (174)
                      .+++ ++|+|+|+..++++||+.|+++|  |++||++++++||..+.+++   +++++|++++++| +++++++||+.++
T Consensus       121 ~~~~~~~aiG~g~~~a~~~Le~~~~~~~--s~eea~~la~~al~~~~~~d~~s~~~i~v~vi~~~g-~~~l~~~ei~~~~  197 (202)
T 1j2q_H          121 IEEKDIVATGSGSLTAYGVLEDRFTPEI--GVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDE-FYQYSPEEVEQIL  197 (202)
T ss_dssp             EEESSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEECSSC-EEECHHHHHHHHG
T ss_pred             eecCCEEEEcCCHHHHHHHHHhhcCCCc--CHHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCC-eEEeCHHHHHHHH
Confidence            9999 99999999999999999999998  99999999999999998864   6889999999996 9999999999999


Q ss_pred             HHhc
Q psy13966        157 NEIE  160 (174)
Q Consensus       157 ~~~~  160 (174)
                      .+++
T Consensus       198 ~~~~  201 (202)
T 1j2q_H          198 AKFR  201 (202)
T ss_dssp             GGTT
T ss_pred             HHhh
Confidence            8874

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D

Probab=100.00  E-value=1.4e-36  Score=240.39  Aligned_cols=156  Identities=31%  Similarity=0.606  Sum_probs=148.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCC-----CCcceeeeeEEEEeCCCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG-----RRPFGISCLIGGFDYDGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~-----~RP~gv~~il~G~D~~g~~~Ly~vd   75 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+++.+++++|.|+++++     .|||+|++|||||| +++|+||.+|
T Consensus        79 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D-~~gp~Ly~id  157 (241)
T 1iru_E           79 SGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVD-EKGPQLFHMD  157 (241)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEE-TTEEEEEEEC
T ss_pred             eeChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEe-CCCCEEEEEC
Confidence            69999999999999999999999999999999999999999999999888     89999999999999 5669999999


Q ss_pred             CCCceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc--CCCcEEEEEEEcCCCeEEcCHHHHH
Q psy13966         76 PSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIE  153 (174)
Q Consensus        76 ~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~--~~~~iei~ii~~~~~~~~l~~~ei~  153 (174)
                      |+|++.+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.++  ++.+++|.++++++.|++++++||+
T Consensus       158 p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~l~~~ei~  235 (241)
T 1iru_E          158 PSGTFVQCDARAIGSASEGAQSSLQELYHKSM--TLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELE  235 (241)
T ss_dssp             TTSCEEEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHH
T ss_pred             CCCcEEecceEEECCCcHHHHHHHHHHhccCC--CHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCCCeEECCHHHHH
Confidence            99999999999999999999999999999998  9999999999999999885  4789999999999889999999999


Q ss_pred             HHHHHh
Q psy13966        154 EYVNEI  159 (174)
Q Consensus       154 ~~~~~~  159 (174)
                      .++.++
T Consensus       236 ~~~~~~  241 (241)
T 1iru_E          236 EVIKDI  241 (241)
T ss_dssp             HHHTTC
T ss_pred             HHHHhC
Confidence            998653

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

Probab=100.00  E-value=7.6e-37  Score=240.88  Aligned_cols=154  Identities=27%  Similarity=0.441  Sum_probs=144.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++||++.+++.+++++|.|||+.+.|||+|++||||||++ +|+||++||+|++
T Consensus        74 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~-gp~Ly~idp~G~~  152 (233)
T 1ryp_F           74 AGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKS-GAHLLEFQPSGNV  152 (233)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETT-EEEEEEECTTSCE
T ss_pred             EechHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCC-cCEEEEECCCCCe
Confidence            699999999999999999999999999999999999999999999999999999999999999974 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccc--ccccCHHHHHHHHHHHHHHHhhc---CCCcEEEEEEEcCCCeEEcCHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKS--EEMTTEKATIKLAIRALLEVVQS---GQKNLEIAVMRHGKPVEMLSVAQIEEY  155 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~--~~~~s~~eai~l~~~~l~~~~~~---~~~~iei~ii~~~~~~~~l~~~ei~~~  155 (174)
                      .+++++|+|+|+..++++||+.|++  +|.+|++||++++++||..+.+.   ++++++|++|+++++|++++++||+.+
T Consensus       153 ~~~~~~aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~~d~~~s~~~i~v~vi~~~~~~~~l~~~ei~~~  232 (233)
T 1ryp_F          153 TELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKY  232 (233)
T ss_dssp             EEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGGGG
T ss_pred             eeeeEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEECCCCEEECCHHHHHhh
Confidence            9999999999999999999999998  54339999999999999988832   368999999999967999999999765

>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=9.8e-36  Score=236.80  Aligned_cols=157  Identities=29%  Similarity=0.499  Sum_probs=148.1

Q ss_pred             CCchHHHHHHHHHHHHHHHH-hHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQS-HKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~-~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||..+|++.|+++++.++.. |+..++.+++++.+++.+++++|.|++++++|||+|++||||||++++|+||.+||+|+
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            69999999999999999999 99999999999999999999999999988999999999999999867799999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcC---------------C
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHG---------------K  142 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~---------------~  142 (174)
                      +.+++++|+|+|+..++++|++.|+++|  |++||++++++||..+.+++  +++++|++|+++               .
T Consensus       156 ~~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~~~~~~~~  233 (250)
T 1ryp_B          156 YFPWKATAIGKGSVAAKTFLEKRWNDEL--ELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGP  233 (250)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCC
T ss_pred             EEeeceeEecCccHHHHHHHHHHhccCC--CHHHHHHHHHHHHHHHhccccCCCCEEEEEEEccccccccccccccCCCC
Confidence            9999999999999999999999999999  99999999999999998764  789999999986               2


Q ss_pred             CeEEcCHHHHHHHHHHh
Q psy13966        143 PVEMLSVAQIEEYVNEI  159 (174)
Q Consensus       143 ~~~~l~~~ei~~~~~~~  159 (174)
                      .|++++++||+.++.++
T Consensus       234 ~~~~l~~~ei~~~l~~~  250 (250)
T 1ryp_B          234 RFRKLTSQEINDRLEAL  250 (250)
T ss_dssp             SEEECCHHHHHHHHTTC
T ss_pred             CeEECCHHHHHHHHHhC
Confidence            49999999999998653

>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=1e-35  Score=241.00  Aligned_cols=158  Identities=28%  Similarity=0.435  Sum_probs=145.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|++++|.++.+|++.++++|+++.+|++|++++|.||+++++|||+|++||||||.+| |+||++||+|++
T Consensus        79 aG~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~G-p~Ly~iDp~G~~  157 (288)
T 3nzj_F           79 SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNG-AHLYMLEPSGSY  157 (288)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTE-EEEEEECTTSCE
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCC-CEEEEECCCCCE
Confidence            6999999999999999999999999999999999999999999999999999999999999999855 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhh---cccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEc-C--CCeEEcCHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKF---YKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRH-G--KPVEMLSVAQ  151 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~---~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~-~--~~~~~l~~~e  151 (174)
                      .+++++|+|+|+..++++|++.   |+++|  |++||++++++||..+.+++   +..++|+||++ +  +.++.+|.++
T Consensus       158 ~~~~~~aiGsgs~~a~~~Lek~~~~~~~~m--s~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~~~~~~~~~~vp~~~  235 (288)
T 3nzj_F          158 WGYKGAATGKGRQSAKAELEKLVDHHPEGL--SAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDL  235 (288)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHHHHCTTCC--CHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEETTTSTTCCEECCHHH
T ss_pred             EEcCEEEEcCcHHHHHHHHHHhccccCCCC--CHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEecCCCceEEECCHHH
Confidence            9999999999999999999999   99998  99999999999999999863   56899999999 3  4467888888


Q ss_pred             HHHHHHHhcc
Q psy13966        152 IEEYVNEIEK  161 (174)
Q Consensus       152 i~~~~~~~~~  161 (174)
                      +++.....++
T Consensus       236 ~~~~~~~~~~  245 (288)
T 3nzj_F          236 LQEAIDFAQK  245 (288)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7766555544

>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=3.8e-35  Score=228.94  Aligned_cols=153  Identities=22%  Similarity=0.340  Sum_probs=142.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+++.++++++.+    +.|||++++|||||| + +|+||.+||+|++
T Consensus        54 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~----r~rp~~v~~lvaG~D-~-gp~Ly~idp~G~~  127 (217)
T 1yar_H           54 AGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQV----KYMPYMVQLLVGGID-T-APHVFSIDAAGGS  127 (217)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHT----TTSCCCEEEEEEEES-S-SEEEEEECTTCCE
T ss_pred             CcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc----CCCCceEEEEEEEEC-C-CCEEEEECCCCCe
Confidence            699999999999999999999999999999999999999999764    379999999999999 5 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++||+.|+++|  |++||++++++||..+.+++   +++++|++++++.++++++++||+.++.
T Consensus       128 ~~~~~~aiGsgs~~a~~~Le~~~~~~~--s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei~~~~~  205 (217)
T 1yar_H          128 VEDIYASTGSGSPFVYGVLESQYSEKM--TVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIR  205 (217)
T ss_dssp             EEESEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHH
T ss_pred             EecCEEEEcCCHHHHHHHHHhhcccCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHHHHHHH
Confidence            999999999999999999999999998  99999999999999998764   6889999999933599999999999998


Q ss_pred             Hhcc
Q psy13966        158 EIEK  161 (174)
Q Consensus       158 ~~~~  161 (174)
                      ++..
T Consensus       206 ~~~~  209 (217)
T 1yar_H          206 KLGL  209 (217)
T ss_dssp             HHTC
T ss_pred             HHHH
Confidence            8753

>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=2.1e-35  Score=233.01  Aligned_cols=160  Identities=18%  Similarity=0.231  Sum_probs=148.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCC-----ceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGK-----PRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~-----~~Ly~vd   75 (174)
                      ||+.+|++.|+++++.++..|++.++.+++++.+++.|++++|.|++++ +|||+|++||||||++++     |+||.+|
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~-~rp~~v~~lvaG~D~~~g~~~~~p~Ly~id  124 (235)
T 1q5q_H           46 AGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYD  124 (235)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHHH-TTTCCEEEEEEEECTTCSSTTSCEEEEEEC
T ss_pred             CCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHHHHHHHHHHHHHHhh-hcccceEEEEEEEECCCCccCCCCEEEEEC
Confidence            6999999999999999999999999999999999999999999988765 899999999999998766     9999999


Q ss_pred             CCCceeee--eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---C--CcE-----EEEEEEcCCC
Q psy13966         76 PSGIYYEW--KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---Q--KNL-----EIAVMRHGKP  143 (174)
Q Consensus        76 ~~G~~~~~--~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~--~~i-----ei~ii~~~~~  143 (174)
                      |+|++.++  +++|+|+|+..++++|++.|+++|  |++||++++++||..+.+++   +  ..+     +|++|+++| 
T Consensus       125 p~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~~~g-  201 (235)
T 1q5q_H          125 VVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDS--DEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAG-  201 (235)
T ss_dssp             TTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTE-
T ss_pred             CCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEeCCC-
Confidence            99999999  999999999999999999999998  99999999999999999864   2  223     999999986 


Q ss_pred             eEEcCHHHHHHHHHHhccchH
Q psy13966        144 VEMLSVAQIEEYVNEIEKEKE  164 (174)
Q Consensus       144 ~~~l~~~ei~~~~~~~~~~~~  164 (174)
                      |++++++|++.++.++..+.+
T Consensus       202 ~~~l~~~ei~~~~~~~~~~~~  222 (235)
T 1q5q_H          202 AVHVSEETTSELARRIVAERT  222 (235)
T ss_dssp             EEECCHHHHHHHHHHHHHHHH
T ss_pred             eEEeCHHHHHHHHHHHHHHHh
Confidence            999999999999999955443

>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L 1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K* 2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K* 3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ...

Probab=100.00  E-value=1.3e-35  Score=230.56  Aligned_cols=154  Identities=14%  Similarity=0.254  Sum_probs=145.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+++++++++|.|++    +||++++||||||++++|+||.+||+|++
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~----~p~~v~~lvaG~D~~~gp~Ly~idp~G~~  121 (212)
T 1ryp_L           46 AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTR  121 (212)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTT----SCCCBEEEEEEEETTTEEEEEEEETTCCE
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhhCC----CCceEEEEEEEEeCCCCCEEEEEcCCcee
Confidence            79999999999999999999999999999999999999999998886    39999999999996667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++|++.|+++|  |++||++++++||..+.+++   +++++|++++++| +++++++||+.++.
T Consensus       122 ~~~~~~aiGsgs~~a~~~Le~~~~~~~--s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~g-~~~~~~~ei~~~~~  198 (212)
T 1ryp_L          122 LKGDIFCVGSGQTFAYGVLDSNYKWDL--SVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDG-WIYHGNHDVGELFW  198 (212)
T ss_dssp             EECSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTE-EEEEEEEEHHHHHH
T ss_pred             EecCCEEEcCCHHHHHHHHHhhCCCCC--CHHHHHHHHHHHHHHHHHhccccCCceEEEEEcCCc-eEEECHHHHHHHHH
Confidence            999999999999999999999999998  99999999999999998863   7899999999986 99999999999998


Q ss_pred             Hhcc
Q psy13966        158 EIEK  161 (174)
Q Consensus       158 ~~~~  161 (174)
                      ++.+
T Consensus       199 ~~~~  202 (212)
T 1ryp_L          199 KVKE  202 (212)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8844

>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=2.6e-35  Score=227.60  Aligned_cols=154  Identities=14%  Similarity=0.224  Sum_probs=144.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|.++++.++..|+++++++++++.+++.+++++|.|++    +||+|++||||||+ ++|+||.+||+|++
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r~----~~~~v~~lvaG~D~-~gp~Ly~idp~G~~  120 (204)
T 1iru_L           46 AGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDK-RGPGLYYVDSEGNR  120 (204)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTT----SCCCBEEEEEEECS-SSEEEEEEESSSCE
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhCC----CCeeEEEEEEEEeC-CCCEEEEECCCCcE
Confidence            79999999999999999999999999999999999999999987754    59999999999997 45999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc---CCCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS---GQKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~---~~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++||+.|+++|  |++||++++++||..+.++   .+++++|++++++| |++++++||+.++.
T Consensus       121 ~~~~~~aiG~gs~~a~~~Le~~~~~~~--s~eea~~l~~~al~~~~~rd~~s~~~i~v~vi~~~g-~~~l~~~ei~~~~~  197 (204)
T 1iru_L          121 ISGATFSVGSGSVYAYGVMDRGYSYDL--EVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDG-WIRVSSDNVADLHE  197 (204)
T ss_dssp             EECSEEEESTTHHHHHHHHHTTCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEECSSC-EEEEEEEEHHHHHH
T ss_pred             EEeCCEEEEcCHHHHHHHHhccCCCCC--CHHHHHHHHHHHHHHHHHhCccCCCceEEEEEeCCc-eEEeCHHHHHHHHH
Confidence            999999999999999999999999998  9999999999999999875   37899999999986 99999999999999


Q ss_pred             Hhccc
Q psy13966        158 EIEKE  162 (174)
Q Consensus       158 ~~~~~  162 (174)
                      ++.++
T Consensus       198 ~~~~~  202 (204)
T 1iru_L          198 KYSGS  202 (204)
T ss_dssp             HHTC-
T ss_pred             HhccC
Confidence            98653

>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=5.2e-35  Score=231.93  Aligned_cols=155  Identities=26%  Similarity=0.414  Sum_probs=142.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++.+|+++++++++++.+|++|++++|.||+++++|||+|++||+|||+ ++|+||.+||+|++
T Consensus        75 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~-~gp~Ly~idp~G~~  153 (244)
T 1ryp_G           75 SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYMLEPSGSY  153 (244)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEEECTTSCE
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeC-CcCEEEEECCCCCE
Confidence            69999999999999999999999999999999999999999999999999999999999999996 45999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhh---cccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEc---CCCeEEcCHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKF---YKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRH---GKPVEMLSVAQ  151 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~---~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~---~~~~~~l~~~e  151 (174)
                      .+++++|+|+|+..++++||+.   |+++|  |++||++++++||..+.+++   +..++|++|++   +| ++.+.|++
T Consensus       154 ~~~~~~aiG~gs~~a~~~Le~~~~~~~~~m--s~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g-~~~~~~~~  230 (244)
T 1ryp_G          154 WGYKGAATGKGRQSAKAELEKLVDHHPEGL--SAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNG-LHKFVKGD  230 (244)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHHHHCTTCC--CHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTT-SEEECCTH
T ss_pred             EEeeEEEECCChHHHHHHHHHhHhhcCCCC--CHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCC-eeeeChHH
Confidence            9999999999999999999997   99998  99999999999999999864   67999999998   55 77777777


Q ss_pred             HHHHHHHh
Q psy13966        152 IEEYVNEI  159 (174)
Q Consensus       152 i~~~~~~~  159 (174)
                      +-+...+.
T Consensus       231 ~~~~~~~~  238 (244)
T 1ryp_G          231 LLQEAIDF  238 (244)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            65555444

>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=1.3e-35  Score=237.37  Aligned_cols=164  Identities=16%  Similarity=0.234  Sum_probs=143.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcC-CCCCHHHHHHHHHH-HHHHhhhcCCCCcceeeeeEEEEe--C-CCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVE-DPVTLEYITRYIAG-LKQKYTQSNGRRPFGISCLIGGFD--Y-DGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~~~~la~~ls~-~~~~~t~~~~~RP~gv~~il~G~D--~-~g~~~Ly~vd   75 (174)
                      ||+.+|++.|+++++.++..|++.++ .+++++.+|++|++ +.|.|+  .+.|||+|++||||||  . +++|+||++|
T Consensus        65 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt--~~~rP~~v~~lvaG~D~~~~~~gp~Ly~id  142 (259)
T 1q5q_A           65 VGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFT--EQPKPYEVEICVAEVGRVGSPKAPQLYRIT  142 (259)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHH--HSSSCCCEEEEEEECCCSSCCCCCEEEEEE
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhc--cCCCCceEEEEEEEEcccCCCCCCEEEEEC
Confidence            69999999999999999999999988 49999999999999 778898  3789999999999999  3 5669999999


Q ss_pred             CCCcee-eeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHh-----hc--CCCcEEEEEEEcCC---Ce
Q psy13966         76 PSGIYY-EWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVV-----QS--GQKNLEIAVMRHGK---PV  144 (174)
Q Consensus        76 ~~G~~~-~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~-----~~--~~~~iei~ii~~~~---~~  144 (174)
                      |+|++. .++++|+|+++..++++|++.|+++|  +++||++++++||..+.     ++  ++.+|+|++|++++   +|
T Consensus       143 p~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~~~~~rd~sg~~iev~vi~~~~~~~~~  220 (259)
T 1q5q_A          143 YDGSIVDEQHFVVMGGTTEPIATAMRESYRADL--DLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAF  220 (259)
T ss_dssp             TTSCEEEESSEEEESSSHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCE
T ss_pred             CCCceeeCCCEEEECCChHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHhhcccccccCCCCcEEEEEEECCCCcCCe
Confidence            999999 78999999999999999999999998  99999999999999887     55  47899999999996   79


Q ss_pred             EEcCHHHHHHHHHHhccchHHHHH
Q psy13966        145 EMLSVAQIEEYVNEIEKEKEDEAE  168 (174)
Q Consensus       145 ~~l~~~ei~~~~~~~~~~~~~~~~  168 (174)
                      ++++++||+.++.++.....+++.
T Consensus       221 ~~l~~~ei~~~~~~~~~~~~~~~~  244 (259)
T 1q5q_A          221 RRIAGTALEQLVPAEPAAASESAP  244 (259)
T ss_dssp             EECCHHHHHTTSCCC---------
T ss_pred             EECCHHHHHHHHHHhhhccccccc
Confidence            999999999999999665555443

>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=3.3e-35  Score=227.24  Aligned_cols=151  Identities=13%  Similarity=0.259  Sum_probs=142.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+++++++++|.|++     ||++++||||||++++|+||.+||+|++
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~-----p~~~~~lvaG~D~~~gp~ly~~d~~G~~  120 (205)
T 1iru_H           46 SGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEGGQVYSVPMGGMM  120 (205)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTT-----TCCEEEEEEEEETTTEEEEEEECTTSCC
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCc-----CccEEEEEEEEeCCCCCEEEEECCCCcE
Confidence            69999999999999999999999999999999999999999988874     9999999999998667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC-eEEcCHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP-VEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~-~~~l~~~ei~~~~  156 (174)
                      .+++++++|+|+..++++||+.|+++|  |++||++++++||..+.+++   +++++|.+++++|. +++++++||+.++
T Consensus       121 ~~~~~~a~Gsgs~~a~~~Le~~~~~~~--s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~  198 (205)
T 1iru_H          121 VRQSFAIGGSGSSYIYGYVDATYREGM--TKEECLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFA  198 (205)
T ss_dssp             EECSEEEESGGGGGGHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCC
T ss_pred             EecCEEEECCCHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHHHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHH
Confidence            999999999999999999999999998  99999999999999998864   78999999999975 6899999998776


Q ss_pred             HH
Q psy13966        157 NE  158 (174)
Q Consensus       157 ~~  158 (174)
                      ++
T Consensus       199 ~~  200 (205)
T 1iru_H          199 VA  200 (205)
T ss_dssp             CC
T ss_pred             hh
Confidence            54

>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=5.7e-34  Score=231.37  Aligned_cols=161  Identities=17%  Similarity=0.235  Sum_probs=147.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCC-----ceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGK-----PRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~-----~~Ly~vd   75 (174)
                      ||+.+|++.|+++++.++.+|++.++.+++++.+++.|++++|.|+++. .|||+|++||+|||++++     |+||++|
T Consensus       111 aG~~aD~~~l~~~~r~~~~~y~~~~g~~isv~~la~~la~~l~~~~~~~-~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iD  189 (294)
T 1q5r_H          111 AGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDLDADDESRAGRIVSYD  189 (294)
T ss_dssp             EEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHH-TTTTCEEEEEEEECTTCSCTTSCEEEEEEC
T ss_pred             eecHHHHHHHHHHHHHHHHHhhHhhCCCCCHHHHHHHHHHHHHHHHhhh-cCCcceEEEEEEEeCCCCcCCCCCEEEEEC
Confidence            6999999999999999999999999999999999999999999998765 899999999999998756     9999999


Q ss_pred             CCCceeee--eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---C--CcE-----EEEEEEcCCC
Q psy13966         76 PSGIYYEW--KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---Q--KNL-----EIAVMRHGKP  143 (174)
Q Consensus        76 ~~G~~~~~--~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~--~~i-----ei~ii~~~~~  143 (174)
                      |+|++.++  +++|+|+|+..++++|++.|+++|  +++||++++++||..+.+++   +  +.+     +|++|+++| 
T Consensus       190 p~G~~~e~~~~~~AiGsgs~~a~~~Le~~y~~~m--s~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~~~g-  266 (294)
T 1q5r_H          190 VVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDS--DEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAG-  266 (294)
T ss_dssp             SSSCEEECCSSEEEESTTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTE-
T ss_pred             CCCeEEecCCCeEEEecCcHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEECCC-
Confidence            99999999  899999999999999999999998  99999999999999999864   2  236     999999986 


Q ss_pred             eEEcCHHHHHHHHHHhccchHH
Q psy13966        144 VEMLSVAQIEEYVNEIEKEKED  165 (174)
Q Consensus       144 ~~~l~~~ei~~~~~~~~~~~~~  165 (174)
                      +++++++||+.++.++.++.++
T Consensus       267 ~~~l~~~ei~~~l~~i~~~~~~  288 (294)
T 1q5r_H          267 AVHVSEETTSELARRIVAERTE  288 (294)
T ss_dssp             EEECCHHHHHHHHHHHCC----
T ss_pred             EEEcCHHHHHHHHHHHHHHhhh
Confidence            9999999999999999665443

>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=2.2e-34  Score=233.04  Aligned_cols=154  Identities=14%  Similarity=0.254  Sum_probs=146.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|.++++.++..|+++++++++++.+++.+++++|.|++    +||++++||||||.+++|+||++||+|++
T Consensus       121 aG~~AD~~~l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~----~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~  196 (287)
T 3nzj_K          121 AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEGPTIYYVDSDGTR  196 (287)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTT----SCCCEEEEEEEEETTTEEEEEEEETTCCE
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcC----CCceEEEEEEEEcCCCCCEEEEECCCceE
Confidence            69999999999999999999999999999999999999999988875    49999999999997677999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++|++.|+++|  |++||++++++||..+.++|   ++.++|++|+++| |++++++||+.++.
T Consensus       197 ~~~~~~AiGsgs~~a~~~Le~~y~~dm--s~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkdg-~~~l~~~ev~~~l~  273 (287)
T 3nzj_K          197 LKGDIFCVGSGQTFAYGVLDSNYKWDL--SVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDG-WIYHGNHDVGELFW  273 (287)
T ss_dssp             EECSEEEESTTHHHHHHHHHTSCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTE-EEEEEEEEHHHHHH
T ss_pred             EEcCeEEEecchHHHHHHHHHhhcCCC--CHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCCC-EEEeCHHHHHHHHH
Confidence            999999999999999999999999998  99999999999999999864   6899999999996 99999999999999


Q ss_pred             Hhcc
Q psy13966        158 EIEK  161 (174)
Q Consensus       158 ~~~~  161 (174)
                      ++.+
T Consensus       274 ~~~e  277 (287)
T 3nzj_K          274 KVKE  277 (287)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8854

>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=9.3e-34  Score=217.89  Aligned_cols=144  Identities=21%  Similarity=0.315  Sum_probs=134.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeC-CCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDY-DGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~-~g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+++++++.++.|++.  ++||++++||+|||+ +++|+||.+||+|+
T Consensus        47 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~~--r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~  124 (198)
T 1ryp_K           47 AGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQIDYLGT  124 (198)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTS--SSCCCEEEEEEEEETTTTEEEEEEECTTCC
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccc--CCCceEEEEEEEEeCCCCCcEEEEECCCCC
Confidence            699999999999999999999999999999999999999999887742  359999999999997 56799999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCH
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSV  149 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~  149 (174)
                      +.+++++|+|+|+..++++||+.|+++|  |++||++++++||..+.+++   +++++|.+++++| ++++++
T Consensus       125 ~~~~~~~aiG~g~~~a~~~Le~~~~~~~--s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g-~~~~~~  194 (198)
T 1ryp_K          125 KVELPYGAHGYSGFYTFSLLDHHYRPDM--TTEEGLDLLKLCVQELEKRMPMDFKGVIVKIVDKDG-IRQVDD  194 (198)
T ss_dssp             EEECSEEECTTHHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEEETTE-EEEECC
T ss_pred             EEECCEEEEcccHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHHhCccCCCceEEEEEcCCC-EEEecc
Confidence            9999999999999999999999999998  99999999999999998864   7899999999986 888765

>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=3.8e-34  Score=225.46  Aligned_cols=151  Identities=17%  Similarity=0.255  Sum_probs=141.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHh-----hcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKL-----TVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~-----~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd   75 (174)
                      ||..+|++.|.++++.++..|++     .++.+++++.+|+++++++  |++++++|||+|++||+|||++++|+||.+|
T Consensus        54 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id  131 (233)
T 1ryp_N           54 SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVN  131 (233)
T ss_dssp             EEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEE
T ss_pred             cccHHHHHHHHHHHHHHHHHHhhccchhhcCCCCCHHHHHHHHHHHH--HHhcCCCCCceEEEEEEEEcCCCCEEEEEEC
Confidence            69999999999999999999999     9999999999999999998  6667778999999999999987679999999


Q ss_pred             CCCceeeeeeEecCcChHHHHHHHHhhccc-----ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEc
Q psy13966         76 PSGIYYEWKANATGRSAKTVREFLEKFYKS-----EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEML  147 (174)
Q Consensus        76 ~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~-----~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l  147 (174)
                      |+|++.+++++|+|+|+..++++||+.|++     +|  |++||++++++||..+.+++   +++++|.+|+++++++++
T Consensus       132 ~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~m--s~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~~~~  209 (233)
T 1ryp_N          132 LLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKT--TVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFK  209 (233)
T ss_dssp             TTCCEECCSEEECTHHHHHHHHHHTTTCSSGGGGGGC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEE
T ss_pred             CCcCeEEcCEEEECcCHHHHHHHHHHhhccccccCCC--CHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCeEEc
Confidence            999999999999999999999999999999     88  99999999999999999864   789999999998349999


Q ss_pred             CHHHHHHH
Q psy13966        148 SVAQIEEY  155 (174)
Q Consensus       148 ~~~ei~~~  155 (174)
                      +++||+.+
T Consensus       210 ~~~~i~~~  217 (233)
T 1ryp_N          210 KNLQVENM  217 (233)
T ss_dssp             EEEECCSC
T ss_pred             ChHhcccc
Confidence            99988766

>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=5.3e-34  Score=222.55  Aligned_cols=149  Identities=17%  Similarity=0.177  Sum_probs=139.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHh-hcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKL-TVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~-~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.|+++++.++..|++ .++.+++++.+++++++++  |++++++|||++++||+|||+. +|+||.+||+|+
T Consensus        54 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~-gp~Ly~id~~G~  130 (219)
T 1iru_N           54 SGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYADG-ESFLGYVDMLGV  130 (219)
T ss_dssp             EEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEEETT-EEEEEEECSSCC
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHhcccCCCceEEEEEEEEECC-CCEEEEECCCCC
Confidence            69999999999999999999998 9999999999999999998  5666789999999999999964 699999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhccc--ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHH
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYKS--EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEE  154 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~~--~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~  154 (174)
                      +.+++++|+|+|+..++++||+.|++  +|  |++||++++++||..+.+++   +++++|.+|+++| +++++++||+.
T Consensus       131 ~~~~~~~aiGsgs~~a~~~Le~~~~~~~~m--t~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g-~~~~~~~~i~~  207 (219)
T 1iru_N          131 AYEAPSLATGYGAYLAQPLLREVLEKQPVL--SQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKG-VEIEGPLSTET  207 (219)
T ss_dssp             EEECSEEECTTHHHHTHHHHHHHHTSCSCC--CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTE-EEEEEEECCCC
T ss_pred             eEECCeEEECccHHHHHHHHHhhcCCCCCC--CHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCC-EEEcCCeeccc
Confidence            99999999999999999999999999  98  99999999999999998864   7899999999987 99999988765


Q ss_pred             H
Q psy13966        155 Y  155 (174)
Q Consensus       155 ~  155 (174)
                      .
T Consensus       208 ~  208 (219)
T 1iru_N          208 N  208 (219)
T ss_dssp             C
T ss_pred             h
Confidence            4

>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=5.4e-33  Score=225.40  Aligned_cols=158  Identities=15%  Similarity=0.167  Sum_probs=140.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCC-----ceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGK-----PRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~-----~~Ly~vd   75 (174)
                      ||..+|++.|+++++.++..|++.++.+++++.+++.++++++.|++ ..+|||+|++||||||.+++     |+||++|
T Consensus       103 aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~-~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~iD  181 (291)
T 2jay_A          103 AGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLA-AAMQGLLALPLLAGYDIHASDPQSAGRIVSFD  181 (291)
T ss_dssp             ESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHH-HHHHTCCCEEEEEEECTTCSCSTTCEEEEEEC
T ss_pred             cccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhh-hhccccceeEEEEEEeCCCCcCCCCCEEEEEC
Confidence            69999999999999999999999999999999999999999998875 45799999999999998776     9999999


Q ss_pred             CCCcee--eeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcE--------EEEEEEcCCC
Q psy13966         76 PSGIYY--EWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNL--------EIAVMRHGKP  143 (174)
Q Consensus        76 ~~G~~~--~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~i--------ei~ii~~~~~  143 (174)
                      |+|++.  +++++|+|+|+..++++|++.|+++|  +++||++++++||..+.++|  .+++        +|++|+++| 
T Consensus       182 p~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~v~vi~~dg-  258 (291)
T 2jay_A          182 AAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVT--DGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIIDADG-  258 (291)
T ss_dssp             TTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCC--SHHHHHHHHHHHHHHC----------------CCEEEEEETTE-
T ss_pred             CCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCC--CHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCEEEEEECCC-
Confidence            999998  88999999999999999999999998  99999999999999998875  2334        699999996 


Q ss_pred             eEEcCHHHHHHHHHHhccc
Q psy13966        144 VEMLSVAQIEEYVNEIEKE  162 (174)
Q Consensus       144 ~~~l~~~ei~~~~~~~~~~  162 (174)
                      |++++++||+.++..+.++
T Consensus       259 ~~~l~~~ei~~~~~~~~~~  277 (291)
T 2jay_A          259 AVDVPESRIAELARAIIES  277 (291)
T ss_dssp             EEECCHHHHHHHHHHC---
T ss_pred             eEEcCHHHHHHHHHHHHHh
Confidence            9999999999999998553

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

Probab=100.00  E-value=1.5e-32  Score=213.49  Aligned_cols=138  Identities=17%  Similarity=0.313  Sum_probs=130.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+|++|++++  |+++  .|||++++||||||++|+|+||.+||+|++
T Consensus        55 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~  130 (213)
T 1iru_M           55 SGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTIL--YSRR--FFPYYVYNIIGGLDEEGKGAVYSFDPVGSY  130 (213)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHH--HHTT--TSCCCEEEEEEEECTTSCEEEEEECTTSCE
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HhhC--CCCceEEEEEEEEcCCCCEEEEEECCCCCE
Confidence            699999999999999999999999999999999999999998  6654  799999999999998788999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhh---------cccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeE
Q psy13966         81 YEWKANATGRSAKTVREFLEKF---------YKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVE  145 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~---------~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~  145 (174)
                      .+++++|+|+|+..++++||+.         |+++|  |++||++++++||..+.+++   +++++|.+|+++| ++
T Consensus       131 ~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~~~~~~--s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g-~~  204 (213)
T 1iru_M          131 QRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPL--SLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEG-IR  204 (213)
T ss_dssp             EEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCC--CHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTE-EE
T ss_pred             EECCEEEEeeCHHHHHHHHhhccccccccccCCCCC--CHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCC-eE
Confidence            9999999999999999999999         77888  99999999999999999864   7899999999986 44

>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=4e-33  Score=219.89  Aligned_cols=145  Identities=22%  Similarity=0.362  Sum_probs=135.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.++++.++.+|+++++++++++.++++++++++.|     .+||++++||||||++ +|+||++||+|++
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~llvaG~D~~-gp~Ly~idp~G~~  119 (234)
T 3unf_H           46 AGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRY-----QGHVGASLVVGGVDLN-GPQLYEVHPHGSY  119 (234)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETT-EEEEEEECTTSCE
T ss_pred             cccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHhc-----CCCccEEEEEEEEeCC-CCEEEEECCCCCE
Confidence            699999999999999999999999999999999999999998654     4799999999999975 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEE  154 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~  154 (174)
                      .+++++|+|+|+..++++||+.|+++|  +++||++++++||..+..+|   +++|+|++++++| ++++.+.+++.
T Consensus       120 ~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eeA~~la~~al~~~~~~D~~sg~~iev~vi~~dg-~~~l~~~~i~~  193 (234)
T 3unf_H          120 SRLPFTALGSGQGAAVALLEDRFQPNM--TLEAAQELLVEAITAGILSDLGSGGNVDACVITAGG-AKLQRALSTPT  193 (234)
T ss_dssp             EECSEEEEETTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEESSC-EEEEEEEECCC
T ss_pred             EeccEEEEcCCchhhHHHHHhccCCCC--CHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEECCC-EEEeCceeccc
Confidence            999999999999999999999999998  99999999999999998763   7899999999996 99998887653

>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=3.3e-33  Score=224.17  Aligned_cols=151  Identities=17%  Similarity=0.255  Sum_probs=141.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHh-----hcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKL-----TVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~-----~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd   75 (174)
                      ||+.+|++.|++++|.++..|++     .++.+++++.+++++++++  |++++++|||+|++||||||++++|+||.+|
T Consensus        87 aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id  164 (266)
T 1g0u_M           87 SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVN  164 (266)
T ss_dssp             EEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEE
T ss_pred             ccCHHHHHHHHHHHHHHHHHhhhccchhhcCCCCCHHHHHHHHHHHH--HHhccCCCCceEEEEEEEEcCCCCEEEEEEC
Confidence            69999999999999999999998     9999999999999999998  6667778999999999999987679999999


Q ss_pred             CCCceeeeeeEecCcChHHHHHHHHhhccc-----ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEc
Q psy13966         76 PSGIYYEWKANATGRSAKTVREFLEKFYKS-----EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEML  147 (174)
Q Consensus        76 ~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~-----~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l  147 (174)
                      |+|++.+++++|+|+|+..++++||+.|++     +|  |++||++++++||..+.+++   +++|+|.+|+++.+++++
T Consensus       165 p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~m--s~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~~~~  242 (266)
T 1g0u_M          165 LLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKT--TVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFK  242 (266)
T ss_dssp             TTCCEECCSEEECTHHHHTHHHHHTTTCSSGGGGGGC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEE
T ss_pred             CCCCEEeCCEEEEccCHHHHHHHHHHhhcccccCCCC--CHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCeEEc
Confidence            999999999999999999999999999999     88  99999999999999999864   789999999998349999


Q ss_pred             CHHHHHHH
Q psy13966        148 SVAQIEEY  155 (174)
Q Consensus       148 ~~~ei~~~  155 (174)
                      +++||+.+
T Consensus       243 ~~~ei~~~  250 (266)
T 1g0u_M          243 KNLQVENM  250 (266)
T ss_dssp             EEEECCCC
T ss_pred             CHHHhhhh
Confidence            99888766

>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=5.2e-32  Score=208.66  Aligned_cols=144  Identities=15%  Similarity=0.205  Sum_probs=130.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.++++++.++..|+++++++++++.+++++++.+. |..+ ..|||++++||+|||++++|+||.+||+|++
T Consensus        47 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~~~~~l~-~~~~-~~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~  124 (201)
T 1iru_K           47 VGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLA-DCLR-SRTPYHVNLLLAGYDEHEGPALYYMDYLAAL  124 (201)
T ss_dssp             EESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHH-HHHT-SSSCCCEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             CcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-HHHh-cCCCccEEEEEEEEeCCCCeEEEEECCCcCe
Confidence            6999999999999999999999999999999999999887652 2222 3479999999999997667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSV  149 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~  149 (174)
                      .+++++|+|+|+..++++||+.|+++|  |++||++++++||..+.+++   +..++|.+|+++| ++++++
T Consensus       125 ~~~~~~aiGsgs~~a~~~Le~~~~~~~--s~eea~~l~~~al~~a~~rd~~sg~~i~v~vi~~~g-~~~~~~  193 (201)
T 1iru_K          125 AKAPFAAHGYGAFLTLSILDRYYTPTI--SRERAVELLRKCLEELQKRFILNLPTFSVRIIDKNG-IHDLDN  193 (201)
T ss_dssp             EECSEEEESHHHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEEETTE-EECCCC
T ss_pred             EECCEEEECCcHHHHHHHHHhcccCCC--CHHHHHHHHHHHHHHHHhhccccCCceEEEEEcCCC-eEEeec
Confidence            999999999999999999999999998  99999999999999998864   6899999999996 776653

>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=8.2e-33  Score=212.74  Aligned_cols=147  Identities=14%  Similarity=0.245  Sum_probs=134.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|.++++.++..|++.++++++++.++++++++++.+     .|||++++||||||++++|+||.  |+|++
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~-----~~p~~v~~lvaG~D~~~~p~ly~--p~G~~  118 (199)
T 3unf_N           46 SGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKY-----REDLLAHLIVAGWDQREGGQVYG--TMGGM  118 (199)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHT-----TTTCCCCEEEEEEETTTEEEEEE--CGGGC
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhc-----CCCceEEEEEEEEeCCCCcEEEE--ECCCc
Confidence            799999999999999999999999999999999999999999654     46999999999999867799999  99998


Q ss_pred             eeee-eEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC-eEEcCHHHHHHH
Q psy13966         81 YEWK-ANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP-VEMLSVAQIEEY  155 (174)
Q Consensus        81 ~~~~-~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~-~~~l~~~ei~~~  155 (174)
                      ..+. ++++|+|+..++++||+.|+++|  |++||++++++||..+.+++   +++++|++++++|. +++++++||+.+
T Consensus       119 ~~~~~~~~~Gsgs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~~~  196 (199)
T 3unf_N          119 LIRQPFTIGGSGSSYIYGYVDAAYKPGM--TPEECRRFTTNAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPKF  196 (199)
T ss_dssp             CEECSEEEEEGGGGGGHHHHHHHCCSSC--CHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSCCC
T ss_pred             eecCCEEEEccCHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCccc
Confidence            7776 44569999999999999999999  99999999999999999874   68999999999973 889999999765


Q ss_pred             H
Q psy13966        156 V  156 (174)
Q Consensus       156 ~  156 (174)
                      +
T Consensus       197 ~  197 (199)
T 3unf_N          197 Y  197 (199)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=8.5e-32  Score=210.68  Aligned_cols=141  Identities=21%  Similarity=0.240  Sum_probs=130.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+++.+++.++.|     .|||++++||||||++ +|+||.+||+|++
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~-----~~p~~v~~lvaG~D~~-gp~Ly~idp~G~~  119 (222)
T 1ryp_I           46 AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDPT-GSHLFSIHAHGST  119 (222)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETT-EEEEEEECTTSCE
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhhc-----CCCCCeeEEEEEEeCC-CCEEEEECCCCCE
Confidence            699999999999999999999999999999999999999998654     4899999999999975 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSV  149 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~  149 (174)
                      .+++++|+|+|+..++++||+.|+++|  +++||++++++||..+.++|   +++++|++++++++++++.+
T Consensus       120 ~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~  189 (222)
T 1ryp_I          120 DVGYYLSLGSGSLAAMAVLESHWKQDL--TKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRN  189 (222)
T ss_dssp             EECSEEEESTTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEE
T ss_pred             EecCEEEECCCHHHHHHHHHhhCCCCc--CHHHHHHHHHHHHHHHHhccccCCCcEEEEEEECCCCEEEEec
Confidence            999999999999999999999999998  99999999999999998864   68999999999875776543

>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=1.3e-31  Score=209.61  Aligned_cols=138  Identities=23%  Similarity=0.350  Sum_probs=128.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcC-CCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVE-DPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.|+++++.++..|+++++ ++++++.+|+.+++.+  |++  ++|||++++||||||++|+|+||.+||+|+
T Consensus        55 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l--y~~--r~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~  130 (222)
T 1ryp_M           55 NGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLL--YGK--RFFPYYVHTIIAGLDEDGKGAVYSFDPVGS  130 (222)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHH--HTT--TTSCCCEEEEEEEECTTSCEEEEEECTTSC
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHH--Hhc--CCCCceEEEEEEEEcCCCCeEEEEECCCcC
Confidence            69999999999999999999999999 9999999999999998  543  378999999999999888899999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhh-----------------cccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEE
Q psy13966         80 YYEWKANATGRSAKTVREFLEKF-----------------YKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMR  139 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~-----------------~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~  139 (174)
                      +.+++++|+|+|+..++++|++.                 |+++|  +++||++++++||..+.+++   +++|+|.+|+
T Consensus       131 ~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~~--s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi~  208 (222)
T 1ryp_M          131 YEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYL--SVEEVIKLVRDSFTSATERHIQVGDGLEILIVT  208 (222)
T ss_dssp             EEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEE
T ss_pred             EEecCEEEEcCcHHHHHHHHhcccccccccccccccccccCCCCC--CHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEc
Confidence            99999999999999999999998                 77888  99999999999999999864   7899999999


Q ss_pred             cCCCeE
Q psy13966        140 HGKPVE  145 (174)
Q Consensus       140 ~~~~~~  145 (174)
                      ++| ++
T Consensus       209 ~~g-~~  213 (222)
T 1ryp_M          209 KDG-VR  213 (222)
T ss_dssp             TTE-EE
T ss_pred             CCC-eE
Confidence            986 44

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ...

Probab=99.98  E-value=2.2e-31  Score=205.61  Aligned_cols=137  Identities=18%  Similarity=0.246  Sum_probs=127.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeC-CCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDY-DGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~-~g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+|+++++++  |+++.  .||++++||+|||+ +++|+||.+||+|+
T Consensus        53 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~--y~~~~--~P~~v~~lvaG~D~~~~gp~Ly~idp~G~  128 (204)
T 1ryp_J           53 TGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSL--YERRF--GPYFVGPVVAGINSKSGKPFIAGFDLIGC  128 (204)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHH--HTTTT--SCCCEEEEEEEECTTTCCEEEEEECTTCC
T ss_pred             eEcHHHHHHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHH--HHhcC--CCceEEEEEEEEeCCCCceEEEEECCCCC
Confidence            699999999999999999999999999999999999999999  77653  39999999999996 57799999999999


Q ss_pred             eeee-eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC
Q psy13966         80 YYEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP  143 (174)
Q Consensus        80 ~~~~-~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~  143 (174)
                      +.++ .++|+|+|+..++++||+.|+++|  +++||++++++||..+.+++   +++++|.+|+++|.
T Consensus       129 ~~~~~~~~aiG~gs~~a~~~Le~~~~~~~--s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~  194 (204)
T 1ryp_J          129 IDEAKDFIVSGTASDQLFGMCESLYEPNL--EPEDLFETISQALLNAADRDALSGWGAVVYIIKKDEV  194 (204)
T ss_dssp             EECCSSEEEEETTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCE
T ss_pred             ccccCceeEeccCHHHHHHHHhhhcCCCc--CHHHHHHHHHHHHHHHHHhCcccCCcEEEEEEcCCCE
Confidence            9776 569999999999999999999998  99999999999999999864   78999999999873

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I

Probab=99.98  E-value=3.5e-31  Score=204.61  Aligned_cols=136  Identities=16%  Similarity=0.230  Sum_probs=126.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeC-CCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDY-DGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~-~g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.|+++++.++..|+++++++++++.+|+.+++++  |+++  ..||++++||+|||+ +++|+||.+||+|+
T Consensus        54 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~  129 (205)
T 1iru_J           54 AGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLL--YEKR--FGPYYTEPVIAGLDPKTFKPFICSLDLIGC  129 (205)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHH--HTTT--TSCCSCCCEEEEECTTSCCEEEEEECTTCC
T ss_pred             cccHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHH--HHhc--CCCceEEEEEEEEeCCCCCeEEEEECCCCC
Confidence            799999999999999999999999999999999999999999  7765  349999999999996 56799999999999


Q ss_pred             eeee-eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC
Q psy13966         80 YYEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK  142 (174)
Q Consensus        80 ~~~~-~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~  142 (174)
                      +.++ .++|+|+|+..++++||+.|+++|  |++||++++++||..+.+++   +++++|.+|+++|
T Consensus       130 ~~~~~~~~aiG~gs~~a~~~Le~~~~~~~--s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g  194 (205)
T 1iru_J          130 PMVTDDFVVSGTCAEQMYGMCESLWEPNM--DPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDK  194 (205)
T ss_dssp             EEECSSEEEEETTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSB
T ss_pred             ccccCCeeEeeeCHHHHHHHHhcccCCCC--CHHHHHHHHHHHHHHHHHhCcccCCceEEEEEcCCC
Confidence            9776 569999999999999999999998  99999999999999999874   6899999999987

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

Probab=99.98  E-value=2.2e-31  Score=205.82  Aligned_cols=136  Identities=12%  Similarity=0.189  Sum_probs=128.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|.++++.++.+|++.+++ ++++.+++++++++|.|+++     |++++||+|||++++|+||.+||+|++
T Consensus        55 aG~~aD~~~l~~~~~~~~~~~~~~~~~-~~v~~la~~l~~~~~~~~~~-----~~~~~lvaG~D~~~gp~Ly~id~~G~~  128 (205)
T 1ryp_H           55 SGSAADTQAIADIVQYHLELYTSQYGT-PSTETAASVFKELCYENKDN-----LTAGIIVAGYDDKNKGEVYTIPLGGSV  128 (205)
T ss_dssp             EEBHHHHHHHHHHHHHHHHHHHHHHSS-CCHHHHHHHHHHHHHHTTTT-----CCEEEEEEEEETTTEEEEEEECTTSCC
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhhcC-----ceEEEEEEEEecCCCcEEEEECCCccE
Confidence            699999999999999999999999999 99999999999999988752     999999999997667999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCe
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPV  144 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~  144 (174)
                      .+++++|+|+|+..++++||+.|+++|  |++||++++++||..+.+++   +++++|.+++++|..
T Consensus       129 ~~~~~~aiGsgs~~a~~~Le~~~~~~~--s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~~  193 (205)
T 1ryp_H          129 HKLPYAIAGSGSTFIYGYCDKNFRENM--SKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVE  193 (205)
T ss_dssp             EEESEEEESGGGGGGHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEE
T ss_pred             EecCEEEEEecHHHHHHHHHhccCCCC--CHHHHHHHHHHHHHHHHHhCCccCCeEEEEEEcCCCEE
Confidence            999999999999999999999999998  99999999999999998864   789999999999743

>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_H* 3nzx_H* 4b4t_2

Probab=99.97  E-value=3.7e-31  Score=211.68  Aligned_cols=141  Identities=21%  Similarity=0.258  Sum_probs=130.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|+++++.++..|++.++++++++.+++.+++.++.|     .|||++++||||||++| |+||++||+|++
T Consensus        75 aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~-----~~~~gv~llvaG~D~~G-p~Ly~iDp~G~~  148 (261)
T 3nzj_H           75 AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDPTG-SHLFSIHAHGST  148 (261)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEETTE-EEEEEECTTSCE
T ss_pred             ccCHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHHh-----cCcccEEEEEEEEeCCC-CEEEEECCCccE
Confidence            699999999999999999999999999999999999999988543     47999999999999754 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSV  149 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~  149 (174)
                      .+++++|+|+|+..++++||+.|+++|  +++||++++++||..+..+|   +++|+|++|+++|.++++.+
T Consensus       149 ~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~~~~~~  218 (261)
T 3nzj_H          149 DVGYYLSLGSGSLAAMAVLESHWKQDL--TKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRN  218 (261)
T ss_dssp             EECSEEEESTTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEE
T ss_pred             EecCeEEeccchHHHHHHHHHHhccCC--CHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcEEEecc
Confidence            999999999999999999999999999  99999999999999998764   68999999999986665543

>1iru_I 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_H* 3une_H

Probab=99.97  E-value=8.7e-31  Score=206.51  Aligned_cols=141  Identities=18%  Similarity=0.305  Sum_probs=130.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|.++++.++..|+++++++++++.+++.+++.++.|     .+||++++||||||++ +|+||.+||+|++
T Consensus        46 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~~~~v~llvaG~D~~-gp~Ly~idp~G~~  119 (234)
T 1iru_I           46 AGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRY-----RGYIGAALVLGGVDVT-GPHLYSIYPHGST  119 (234)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEECSS-CEEEEEECTTSCE
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhc-----CCCCceeEEEEEEcCC-CCEEEEECCCCCE
Confidence            699999999999999999999999999999999999999998654     3699999999999975 4999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVA  150 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~  150 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+..++   +++++|.+++++| ++.+.+.
T Consensus       120 ~~~~~~aiGsgs~~a~~~Le~~~~~~m--s~eeA~~la~~al~~a~~~d~~sg~~i~v~vi~k~g-~~~~~~~  189 (234)
T 1iru_I          120 DKLPYVTMGSGSLAAMAVFEDKFRPDM--EEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNK-LDFLRPY  189 (234)
T ss_dssp             EECSEEEESTTHHHHHHHHHHSCCTTC--CHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEETTE-EECCSEE
T ss_pred             EecCEEEECCchHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCc-EEEEcce
Confidence            999999999999999999999999998  99999999999999988864   6899999999986 8766643

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

Probab=99.90  E-value=4.4e-23  Score=155.00  Aligned_cols=119  Identities=16%  Similarity=0.190  Sum_probs=101.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|.++++.++..|+.+         +.+.++++.+.++++...|||++++|++  |   +|+||.+||+|++
T Consensus        47 aG~~aD~~~l~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~~~~~~lv~--D---~p~Ly~~d~~G~~  112 (171)
T 1m4y_A           47 AGSVADAMTLFDRFEAKLREWGGN---------LTKAAVELAKDWRTDRVLRRLEALLLVA--D---KENIFIISGNGEV  112 (171)
T ss_dssp             ESCHHHHHHHHHHHHHHHHHTTTC---------HHHHHHHHHHHHHHCTTGGGCCCEEEEE--C---SSCEEEECTTSCE
T ss_pred             CccHHHHHHHHHHHHHHHHHhccc---------HHHHHHHHHHHHHHhCCCCceEEEEEEE--c---CCEEEEECCCCCE
Confidence            699999999999999999998854         2444445555566666788999999988  5   5999999999999


Q ss_pred             eeee--eEecCcChHHHHHHHHhhcc-cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEE
Q psy13966         81 YEWK--ANATGRSAKTVREFLEKFYK-SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVM  138 (174)
Q Consensus        81 ~~~~--~~aiG~gs~~a~~~Lek~~~-~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii  138 (174)
                      .+++  +.|+|+|++.++++||+.|+ ++|  |.   .+++.+||..+.++|   +++++|.++
T Consensus       113 ~~~~~~~~a~Gsgs~~a~~~le~~~~~~~m--s~---~~l~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          113 IQPDDDAAAIGSGGPYALAAAKALLRNTDL--SA---REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             ECCSSSEEEESTTHHHHHHHHHHHHHHCCC--CH---HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             EecCCCEEEECCcHHHHHHHHHHhcccCCC--CH---HHHHHHHHHHHHHhCcccCCeEEEEEC
Confidence            9998  99999999999999999999 898  76   678999999998864   678888653

>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=99.89  E-value=8.4e-23  Score=153.94  Aligned_cols=120  Identities=14%  Similarity=0.103  Sum_probs=103.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|.++++.++..|+.      +   ++..++.+.+.++++...||+  +++++|+|   +|+||++||+|++
T Consensus        47 aG~~aD~~~l~~~~~~~~~~~~~------~---~~~~~~~l~~~~~~~~~~r~~--~~~l~g~d---~p~Ly~~d~~G~~  112 (174)
T 1g3k_A           47 AGGTADAFTLFELFERKLEMHQG------H---LLKSAVELAKDWRTDRALRKL--EAMLIVAD---EKESLIITGIGDV  112 (174)
T ss_dssp             ESCHHHHHHHHHHHHHHHHHTTT------C---HHHHHHHHHHHHHHSTTGGGC--CCEEEEEC---SSCEEEEETTTEE
T ss_pred             CccHHHHHHHHHHHHHHHHHhcC------c---HHHHHHHHHHHHHhccCcCcc--eEEEEEEC---CCEEEEEcCCCcE
Confidence            69999999999999999999986      2   345556666667777778886  46778887   4999999999999


Q ss_pred             eeee---eEecCcChHHHHHHHHhhcc-cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEE
Q psy13966         81 YEWK---ANATGRSAKTVREFLEKFYK-SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMR  139 (174)
Q Consensus        81 ~~~~---~~aiG~gs~~a~~~Lek~~~-~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~  139 (174)
                      .+++   ++|+|+|++.++++||+.|+ ++|  |.+   +++.+||..+.+++   +++++|.+|+
T Consensus       113 ~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~m--t~~---~l~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          113 VQPEEDQILAIGSGGNYALSAARALVENTEL--SAH---EIVEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             ECCCTTCEEEESTTHHHHHHHHHHHHHHCCC--CHH---HHHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             EecCCCcEEEEcccHHHHHHHHHHhcccCCC--CHH---HHHHHHHHHHHHhccccCCceEEEEec
Confidence            9988   99999999999999999999 998  854   78999999888864   7899999885

>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=99.89  E-value=1.5e-22  Score=153.54  Aligned_cols=119  Identities=14%  Similarity=0.102  Sum_probs=103.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|.++++.++..|+   +      .+++.++.+.+.++++...|||++++||+  |   +|+||.+||+|++
T Consensus        53 aG~~aD~~~l~~~~~~~~~~y~---g------~~~~~~~~l~~~~~~~~~~rp~~~~~lva--d---~p~ly~~d~~G~~  118 (180)
T 2z3b_A           53 AGSVADAFTLFEKFEAKLEEYN---G------NLKRAAVELAKEWRSDKVLRKLEAMLIVM--N---QDTLLLVSGTGEV  118 (180)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHTT---T------CHHHHHHHHHHHHHHCTTGGGCCCCEEEE--C---SSCEEEECTTCCE
T ss_pred             CchHHHHHHHHHHHHHHHHHhc---C------ChHHHHHHHHHHHHhhhCcCcceEEEEEE--c---CCeEEEECCCCcE
Confidence            7999999999999999999988   3      23444556667777888899999999999  4   4999999999999


Q ss_pred             eee--eeEecCcChHHHHHHHHhhccc---ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEE
Q psy13966         81 YEW--KANATGRSAKTVREFLEKFYKS---EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVM  138 (174)
Q Consensus        81 ~~~--~~~aiG~gs~~a~~~Lek~~~~---~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii  138 (174)
                      .++  +++|+|+|+..++++||+.|++   +|  |.+|+   +.+||..+.++|   +++++|.+|
T Consensus       119 ~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~m--t~eel---~~~al~~a~~rd~~sg~~i~v~~i  179 (180)
T 2z3b_A          119 IEPDDGILAIGSGGNYALAAGRALKKHAGESM--SASEI---ARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             ECCSSSEEEESTTHHHHHHHHHHHHHHHGGGC--CHHHH---HHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             EEeCCCEEEECCCHHHHHHHHHHhhhccCCCC--CHHHH---HHHHHHHHHHhcCccCCeEEEEEE
Confidence            984  9999999999999999999998   88  99994   679999888864   788998887

---

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	174
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	3e-48
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-40
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-39
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-38
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	4e-36
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-35
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-34
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-34
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	4e-34
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	2e-33
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	5e-33
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	7e-32
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	5e-31
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-30
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	8e-30
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	7e-26
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	4e-23
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	1e-21
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-21
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	1e-19
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	5e-19
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	4e-18
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	5e-18
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	4e-17
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-15
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-14
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-13
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-10

>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 =  154 bits (391), Expect = 3e-48
 Identities = 120/171 (70%), Positives = 145/171 (84%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLTADARI+INRA++ECQSH+LTVEDPVT+EYITRYIA LKQ+YTQSNGRRPFGIS LI
Sbjct: 73  AGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALI 132

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            GFD+DG PRLYQT+PSG Y+ WKANA GR AK+VREFLEK Y  E + T+  TIKL I+
Sbjct: 133 VGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIK 192

Query: 121 ALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKK 171
           ALLEVVQSG KN+E+AVMR  + +++L+  +IE+YV EIEKEKE+  +KK+
Sbjct: 193 ALLEVVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEKEENEKKKQ 243

>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 =  134 bits (339), Expect = 2e-40
 Identities = 95/168 (56%), Positives = 130/168 (77%), Gaps = 2/168 (1%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL AD+RILI +A++E QSH+LT+EDPVT+EY+TRY+AG++Q+YTQS G RPFG+S LI
Sbjct: 74  SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI 133

Query: 61  GGFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMT-TEKATIKLA 118
            GFD  D +P+LYQTEPSGIY  W A   GR++KTVREFLEK Y  +E   T +  +KL 
Sbjct: 134 AGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLT 193

Query: 119 IRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDE 166
           +R+LLEVVQ+G KN+EI V++    +  LS  +I +YV +IE+EK+++
Sbjct: 194 VRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQEKQEQ 241

>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 =  132 bits (332), Expect = 2e-39
 Identities = 46/168 (27%), Positives = 81/168 (48%), Gaps = 5/168 (2%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLTADAR+L N  + EC   +   + P+ +  +   I    Q  TQ  GRRP+G+  LI
Sbjct: 72  AGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLI 131

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D  G P ++QT PS  Y++ +A + G  +++ R +LE+             +K  +R
Sbjct: 132 AGYDDMG-PHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLR 190

Query: 121 ALLEVVQS----GQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKE 164
           AL E + +      KN+ I ++       +     +  ++  +E+  +
Sbjct: 191 ALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEERPQ 238

>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 =  128 bits (324), Expect = 3e-38
 Identities = 47/164 (28%), Positives = 84/164 (51%), Gaps = 3/164 (1%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           TG+TAD+R  + RA+ E  + K      + ++ + + IA + Q YTQ+   RP G   ++
Sbjct: 80  TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMIL 139

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D +  P++Y+ +P+G Y  +KA A G        FLEK  K +   T + T++ AI 
Sbjct: 140 IGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAIT 199

Query: 121 ALLEVVQS--GQKNLEIAVMRHGKP-VEMLSVAQIEEYVNEIEK 161
            L  V+        +E+ V+    P   +L+ A+I+ ++  + +
Sbjct: 200 CLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVALAE 243

>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 =  123 bits (310), Expect = 4e-36
 Identities = 50/166 (30%), Positives = 99/166 (59%), Gaps = 10/166 (6%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG-----RRPFG 55
           +GL ADA+ LI++A++E Q+H  T  + +T+E +T+ ++ L  ++ + +       RPFG
Sbjct: 72  SGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFG 131

Query: 56  ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATI 115
           ++ L GG D  G P+L+  +PSG + +  A A G +++  +  L++ Y  + MT ++A I
Sbjct: 132 VALLFGGVDEKG-PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYH-KSMTLKEA-I 188

Query: 116 KLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
           K ++  L +V++      N+E+A ++ G+   M +  ++EE + +I
Sbjct: 189 KSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 234

>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 =  122 bits (307), Expect = 1e-35
 Identities = 58/177 (32%), Positives = 100/177 (56%), Gaps = 8/177 (4%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G+T+DA +L N  ++  Q + L  ++P+  E +   +  +KQ YTQ  G+RPFG+S L 
Sbjct: 76  AGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLY 135

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D     +LYQ++PSG Y  WKA   G ++      L++ YK  EMT + A + LAI+
Sbjct: 136 IGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSA-LALAIK 194

Query: 121 AL---LEVVQSGQKNLEIAVMRHGKP---VEMLSVAQIEEYVNEIEKEKEDEAEKKK 171
            L   ++V +   + +EIA +        + +L   ++E+ + + E E+E +AE++K
Sbjct: 195 VLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHE-EEEAKAEREK 250

>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 =  119 bits (300), Expect = 1e-34
 Identities = 42/170 (24%), Positives = 75/170 (44%), Gaps = 6/170 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL ADAR L + A+ E  + +      + L+++   +A     YT  +  RPFG S ++
Sbjct: 78  AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFML 137

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           G +  +   +LY  +PSG+ Y +   A G++ +  +  +EK    +EMT     +K   +
Sbjct: 138 GSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQM-KEMTCRDI-VKEVAK 195

Query: 121 ALLEV---VQSGQKNLEIAVM-RHGKPVEMLSVAQIEEYVNEIEKEKEDE 166
            +  V   V+     LE++ +         +    I E   +  KE   E
Sbjct: 196 IIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKYAKESLKE 245

>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 =  119 bits (298), Expect = 2e-34
 Identities = 42/161 (26%), Positives = 70/161 (43%), Gaps = 6/161 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GL  DAR+L N  + +C    L     + +E     +    QK TQS G RP+G+  LI
Sbjct: 74  AGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLI 133

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMT--TEKATIKLA 118
            G+D  G   L + +PSG   E    A G  ++  + +LE+   +           IK  
Sbjct: 134 IGYDKSG-AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAG 192

Query: 119 IRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYV 156
           + A+ + ++       NL IA++    P  +     + +Y+
Sbjct: 193 VEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 243

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  118 bits (296), Expect = 4e-34
 Identities = 44/171 (25%), Positives = 75/171 (43%), Gaps = 9/171 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G   DAR    RA+ E    +      +  + + + +A L Q YTQ    RP G+    
Sbjct: 75  NGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTF 134

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYK-----SEEMTTEKATI 115
              D +  P +Y+T+P+G Y  +KA ATG   + +   LE  +K          + +  +
Sbjct: 135 VSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVV 194

Query: 116 KLAIRALLEVVQ--SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKE 164
           + AI  +++ +     + +LE+ V    K    LS   IEE +  I  E++
Sbjct: 195 EFAITHMIDALGTEFSKNDLEVGVATKDKF-FTLSAENIEERLVAIA-EQD 243

>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 =  115 bits (290), Expect = 2e-33
 Identities = 54/158 (34%), Positives = 86/158 (54%), Gaps = 5/158 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+L++ A+I  Q  K+T    V +E + + +A   Q+YTQ  G RP+G+S + 
Sbjct: 67  SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF 126

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D  G PRL+  +P+G   E+KA A G     V  FLE+ YK      E   + L I+
Sbjct: 127 AGIDQIG-PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKE--AVTLGIK 183

Query: 121 ALLEVVQSGQ--KNLEIAVMRHGKPVEMLSVAQIEEYV 156
           AL   ++ G+  K  EIA +  G    +    ++++++
Sbjct: 184 ALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 221

>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 =  115 bits (289), Expect = 5e-33
 Identities = 42/174 (24%), Positives = 88/174 (50%), Gaps = 10/174 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG------RRPF 54
           +GLTADAR +I  A+    +H L  ++ + +E +T+ +  L  ++ +          RPF
Sbjct: 71  SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPF 130

Query: 55  GISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKAT 114
           G++ LI G D D   +L+  EPSG +Y + A A G  ++  +  L   +    +T ++A 
Sbjct: 131 GVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH-SSLTLKEA- 188

Query: 115 IKLAIRALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDE 166
             L ++ L +V++    + N +++ +      ++    +  E + E+++++  E
Sbjct: 189 ELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELKEKEAAE 242

>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 =  112 bits (281), Expect = 7e-32
 Identities = 47/170 (27%), Positives = 80/170 (47%), Gaps = 10/170 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL  D R L+NR + E  S K   + P+ +      +    Q +T  N  RPFG+S + 
Sbjct: 75  SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIF 134

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYK--SEEMTTEKATIKLA 118
           GG D +G   LY  EPSG Y+ +K  ATG+  ++ +  LEK      E ++  +A +K A
Sbjct: 135 GGVDKNG-AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREA-VKQA 192

Query: 119 IRALLEVVQSGQ---KNLEIAVM---RHGKPVEMLSVAQIEEYVNEIEKE 162
            + +    +  +     LEI+           + +    ++E ++  +KE
Sbjct: 193 AKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFAQKE 242

>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 =  110 bits (276), Expect = 5e-31
 Identities = 59/172 (34%), Positives = 103/172 (59%), Gaps = 7/172 (4%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +GL ADAR+LI+RA+IE Q ++LT + P+T++ + + I   KQ+YTQ  G RPFG+S LI
Sbjct: 76  SGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLI 135

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G   +  P+LY+T+PSG   E+KA A G     V EF EK Y+ ++++ + A + L + 
Sbjct: 136 AG--VNEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYR-DDLSFDDA-MVLGLV 191

Query: 121 ALLEVV--QSGQKNLEIAVMRH-GKPVEMLSVAQIEEYVNEIEKEKEDEAEK 169
           A+   +  +   +N+E+  ++   +  + +S  +++ YV    +   +  +K
Sbjct: 192 AMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERANERIRELLKK 243

>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 =  109 bits (272), Expect = 2e-30
 Identities = 55/166 (33%), Positives = 89/166 (53%), Gaps = 10/166 (6%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            GLTADA ILIN A+I  Q++  T  + + +E + R ++ +KQ YTQ  G RPFG+S + 
Sbjct: 77  AGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIY 136

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D     +LY + PSG Y  WKA + G +    +  L+  YK ++M  + A I+LA++
Sbjct: 137 AGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK-DDMKVDDA-IELALK 194

Query: 121 ALLEVVQSG---QKNLEIAVMRHGKP-----VEMLSVAQIEEYVNE 158
            L +   S       LE A +R G        ++    +I++ + +
Sbjct: 195 TLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVK 240

>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 =  107 bits (268), Expect = 8e-30
 Identities = 48/175 (27%), Positives = 81/175 (46%), Gaps = 5/175 (2%)

Query: 2   GLTADARILINRAQIECQ-SHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           G+  D R+L+++++     S+K    +    + +   +A + Q+ TQS G RPFG+S LI
Sbjct: 77  GMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLI 136

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D      LYQ +PSG Y+ WKA A G+ +   + FLEK +  E     +  I +A+ 
Sbjct: 137 AGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDE--LELEDAIHIALL 194

Query: 121 ALLEVVQS--GQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQK 173
            L E V+       +E+A++    P  +       +      K    E   + + 
Sbjct: 195 TLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQEINDRLEA 249

>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 = 96.7 bits (240), Expect = 7e-26
 Identities = 54/161 (33%), Positives = 90/161 (55%), Gaps = 6/161 (3%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +G+  D R+L++RA+   Q + L  ++P+    + + +A + Q+YTQS G RPFG+S LI
Sbjct: 76  SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLI 135

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G   +G+P L+Q++PSG Y+ WKA A G++    + FLEK Y   E    +  I  AI 
Sbjct: 136 CG-WNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYN--EDLELEDAIHTAIL 192

Query: 121 ALLEVV--QSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEI 159
            L E    Q  + N+E+ +         L+  ++++Y+  I
Sbjct: 193 TLKESFEGQMTEDNIEVGICNE-AGFRRLTPTEVKDYLAAI 232

>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 = 89.3 bits (221), Expect = 4e-23
 Identities = 22/172 (12%), Positives = 56/172 (32%), Gaps = 18/172 (10%)

Query: 1   TGLTADARILINRAQIECQSHKLTVED-PVTLEYITRYIAGLKQKYTQSNGRRPFGISCL 59
            G   +   L     +       + +   VT   +    A        +   +P+ +   
Sbjct: 57  VGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQT-LGTIFTEQPKPYEVEIC 115

Query: 60  IGGFD---YDGKPRLYQTEPSGIYYEWKANATGRS-AKTVREFLEKFYKSEEMTTEKATI 115
           +           P+LY+    G   + +         + +   + + Y+++     +A +
Sbjct: 116 VAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRAD--LDLEAAV 173

Query: 116 KLAIRALLEVVQS-------GQKNLEIAVMRHGKP---VEMLSVAQIEEYVN 157
            +A+ AL +              +LE+AV+   +P      ++   +E+ V 
Sbjct: 174 GIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP 225

>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 = 85.2 bits (210), Expect = 1e-21
 Identities = 33/169 (19%), Positives = 62/169 (36%), Gaps = 9/169 (5%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G  AD   L+ R +   + +     D    +      A   Q         P+ +  +I
Sbjct: 55  NGFAADGDALVKRFKNSVKWYHFDHNDK---KLSINSAARNIQHLLYGKRFFPYYVHTII 111

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G D DGK  +Y  +P G Y   +  A G +A  +  FL+     +         K+   
Sbjct: 112 AGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKP 171

Query: 121 A----LLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKED 165
                + EV++  + +   A  RH +  + L +  + +  + + KE  +
Sbjct: 172 LKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTK--DGVRKEFYE 218

>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 = 85.2 bits (210), Expect = 2e-21
 Identities = 29/181 (16%), Positives = 60/181 (33%), Gaps = 13/181 (7%)

Query: 1   TGLTADARILINRAQIECQSHKL-----TVEDPVTLEYITRYIAGLKQKYTQSNGRRPFG 55
           +G  +D + +    +     +         E+ +   YI  Y+A     Y + +   P  
Sbjct: 54  SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLA--TVMYQRRSKMNPLW 111

Query: 56  ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMT---TEK 112
            + ++ G   +G   L      G+ Y     ATG  A      L K    E      T +
Sbjct: 112 NAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQ 171

Query: 113 ATIKLAIRALLEVVQ---SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEK 169
              +  + A+  +        +N  +A++     +      Q+E    +  K+ +    +
Sbjct: 172 VAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAKDIKGYGTQ 231

Query: 170 K 170
           K
Sbjct: 232 K 232

>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 = 79.4 bits (195), Expect = 1e-19
 Identities = 35/155 (22%), Positives = 67/155 (43%), Gaps = 7/155 (4%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G   D        Q   Q + +  +  ++ + ++ ++     K  +S  RRP+ ++ LIG
Sbjct: 48  GEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRS--RRPYQVNVLIG 105

Query: 62  GFD-YDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKA--TIKLA 118
           G+D    KP LYQ +  G   E    A G S       L+  Y+  +MTTE+    +KL 
Sbjct: 106 GYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYR-PDMTTEEGLDLLKLC 164

Query: 119 IRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIE 153
           ++ L + +    K + + ++     +  +   Q +
Sbjct: 165 VQELEKRMPMDFKGVIVKIVDKDG-IRQVDDFQAQ 198

>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 = 77.9 bits (191), Expect = 5e-19
 Identities = 36/162 (22%), Positives = 69/162 (42%), Gaps = 11/162 (6%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           GL  DA++L+   + E + ++L     + +E +   +              P+ +  L+G
Sbjct: 47  GLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLL----SNMLNQVKYMPYMVQLLVG 102

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G   D  P ++  + +G   E    +TG  +  V   LE  Y  E+MT ++  + L IRA
Sbjct: 103 G--IDTAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYS-EKMTVDEG-VDLVIRA 158

Query: 122 LLEVVQ---SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIE 160
           +    Q   +    +++AV+        L   QIE  + ++ 
Sbjct: 159 ISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKLG 200

>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 = 75.6 bits (185), Expect = 4e-18
 Identities = 35/164 (21%), Positives = 66/164 (40%), Gaps = 10/164 (6%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G   DA+ L    +IE   +++  E   T+  I             S    P+ +  LI
Sbjct: 46  AGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLT----SNLLNSYRYFPYLVQLLI 101

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           GG D +GK         G   E    ATG  + T    LE  +   E+  ++A ++LA+R
Sbjct: 102 GGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFT-PEIGVDEA-VELAVR 159

Query: 121 ALLEVVQ---SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEK 161
           A+   ++   +    +++  +   +     S  ++E+ + +  K
Sbjct: 160 AIYSAMKRDSASGDGIDVVKITEDE-FYQYSPEEVEQILAKFRK 202

>d1rypl_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 212

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 75.6 bits (185), Expect = 5e-18
 Identities = 26/167 (15%), Positives = 63/167 (37%), Gaps = 12/167 (7%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G  AD +        +C+ H+L  ++ +++   ++ ++ L  +Y          +  +I
Sbjct: 46  AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMI 101

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+     P +Y  +  G   +      G         L+  YK  +++ E A + L  R
Sbjct: 102 CGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYK-WDLSVEDA-LYLGKR 159

Query: 121 ALLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEK 163
           ++L        SG  ++ +  +             + E   ++++E+
Sbjct: 160 SILAAAHRDAYSG-GSVNLYHVTEDG-WIYHGNHDVGELFWKVKEEE 204

>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 = 73.7 bits (180), Expect = 4e-17
 Identities = 31/173 (17%), Positives = 57/173 (32%), Gaps = 16/173 (9%)

Query: 2   GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
           G  AD   +        + H L       +    +       K      +   G   ++ 
Sbjct: 47  GTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQM-----LKQHLFKYQGHIGAYLIVA 101

Query: 62  GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
           G D  G   L+     G        + G  +      LE  +K +   T++  IKLA  A
Sbjct: 102 GVDPTG-SHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQD--LTKEEAIKLASDA 158

Query: 122 LLEVVQ---SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKK 171
           +   +        N+++ VM  GK  E      +  Y+    +E++ ++ K  
Sbjct: 159 IQAGIWNDLGSGSNVDVCVMEIGKDAEY-----LRNYLTPNVREEKQKSYKFP 206

>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 = 67.4 bits (164), Expect = 5e-15
 Identities = 23/161 (14%), Positives = 57/161 (35%), Gaps = 13/161 (8%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +G  AD + + +    +   H + + +P  +         +  +Y +           +I
Sbjct: 46  SGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIII 100

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D     ++Y     G+         G  +  +  +++  Y+      E   ++    
Sbjct: 101 AGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEE--CLQFTAN 158

Query: 121 ALLEVVQ----SGQKNLEIAVMRH-GKPVEMLSVAQIEEYV 156
           AL   ++    SG   + +A +   G   ++L   QI ++ 
Sbjct: 159 ALALAMERDGSSG-GVIRLAAIAESGVERQVLLGDQIPKFA 198

>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 = 65.2 bits (158), Expect = 5e-14
 Identities = 29/159 (18%), Positives = 57/159 (35%), Gaps = 8/159 (5%)

Query: 1   TGLTADARILINRAQIECQSH-KLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCL 59
           +G  AD + L             L      +   I  ++   +  Y++ +   P   + +
Sbjct: 54  SGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLT--RAMYSRRSKMNPLWNTMV 111

Query: 60  IGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAI 119
           IGG+  DG+  L   +  G+ YE  + ATG  A   +  L +  + + + ++     L  
Sbjct: 112 IGGYA-DGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVE 170

Query: 120 RALLEVVQ---SGQKNLEIAVMRHGKPVEMLSVAQIEEY 155
           R +  +           + A +   K VE+      E  
Sbjct: 171 RCMRVLYYRDARSYNRFQTATVTE-KGVEIEGPLSTETN 208

>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 = 63.6 bits (154), Expect = 2e-13
 Identities = 29/177 (16%), Positives = 56/177 (31%), Gaps = 19/177 (10%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
            G  AD  +         + H L+      +    R +     K      R   G + ++
Sbjct: 46  AGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRML-----KQMLFRYRGYIGAALVL 100

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
           GG D  G P LY   P G   +      G  +       E  ++      E+    L   
Sbjct: 101 GGVDVTG-PHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFR--PDMEEEEAKNLVSE 157

Query: 121 ALLEVVQSGQ---KNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQKK 174
           A+   + +      N+++ V+   K ++ L    +         +K     + + +K
Sbjct: 158 AIAAGIFNDLGSGSNIDLCVISKNK-LDFLRPYTVPN-------KKGTRLGRYRCEK 206

>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 = 55.1 bits (132), Expect = 2e-10
 Identities = 25/165 (15%), Positives = 59/165 (35%), Gaps = 19/165 (11%)

Query: 1   TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
           +G  AD + + +  Q   + +      P T    +        K      +       ++
Sbjct: 55  SGSAADTQAIADIVQYHLELYTSQYGTPSTETAASV------FKELCYENKDNLTAGIIV 108

Query: 61  GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
            G+D   K  +Y     G  ++      G  +  +  + +K ++ E M+ E+  +     
Sbjct: 109 AGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFR-ENMSKEET-VDFIKH 166

Query: 121 ALLEVVQ----SGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEK 161
           +L + ++    SG   + + V+          V ++  Y +E E+
Sbjct: 167 SLSQAIKWDGSSG-GVIRMVVLTAAG------VERLIFYPDEYEQ 204

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	174
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	99.97
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.97
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.97
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.97
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.97
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	99.96
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.96
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.96
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.96
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.96
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.94
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.38
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.09
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.03
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	85.56

>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=3.3e-41  Score=265.51  Aligned_cols=168  Identities=70%  Similarity=1.101  Sum_probs=159.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.++++++.++..|+++++.+|+++.+|+.|++++|.||+++++|||+|++||+|||++|+|+||++||+|++
T Consensus        73 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~  152 (243)
T d1irud_          73 AGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTY  152 (243)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCE
T ss_pred             EEchhhHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcEEE
Confidence            69999999999999999999999999999999999999999999999999999999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCCCeEEcCHHHHHHHHHHhc
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIE  160 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~~~~iei~ii~~~~~~~~l~~~ei~~~~~~~~  160 (174)
                      .+++++|+|+|+..++++|++.|+++|.++.++++++++++|......++++|+|++++++++|++++++||+.++.+++
T Consensus       153 ~~~~~~a~G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~~~~~~~~vei~ii~k~~~~~~l~~~eI~~~l~~i~  232 (243)
T d1irud_         153 HAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIE  232 (243)
T ss_dssp             EEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSCTTSTTCCEEEEESSSCEECCCHHHHHHHTTTTT
T ss_pred             EeccEEEECCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHHhcCCCCcEEEEEEECCCCEEECCHHHHHHHHHHHH
Confidence            99999999999999999999999999877889999999999999888888899999999987799999999999999998


Q ss_pred             cchHHHHH
Q psy13966        161 KEKEDEAE  168 (174)
Q Consensus       161 ~~~~~~~~  168 (174)
                      ++++++++
T Consensus       233 ~~~~~~~~  240 (243)
T d1irud_         233 KEKEENEK  240 (243)
T ss_dssp             TTTTTTTS
T ss_pred             hhhhhhhh
Confidence            87766543

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.8e-39  Score=254.58  Aligned_cols=161  Identities=29%  Similarity=0.449  Sum_probs=151.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|++++|.++.+|++.++++++++.+|+.+++++|.||+++++|||+|++||+|||++++|+||++||+|++
T Consensus        80 sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~  159 (244)
T d1irua_          80 TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYY  159 (244)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCE
T ss_pred             ecchHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCccE
Confidence            69999999999999999999999999999999999999999999999999999999999999998778999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCC-CeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGK-PVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~-~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++||++|++.+.++++||++++++||+.+.+++  .++|+|+|+++++ +|++++++||+.++.
T Consensus       160 ~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~~~~iev~ii~~~~~~~~~l~~~ei~~~l~  239 (244)
T d1irua_         160 CGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLV  239 (244)
T ss_dssp             EEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHHHHH
T ss_pred             EecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEeCCCcEEECCHHHHHHHHH
Confidence            9999999999999999999999965433499999999999999999875  5789999999986 489999999999999


Q ss_pred             Hhcc
Q psy13966        158 EIEK  161 (174)
Q Consensus       158 ~~~~  161 (174)
                      ++.+
T Consensus       240 ~~~~  243 (244)
T d1irua_         240 ALAE  243 (244)
T ss_dssp             HHHT
T ss_pred             HHhc
Confidence            9854

>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=8.9e-40  Score=256.59  Aligned_cols=163  Identities=28%  Similarity=0.502  Sum_probs=154.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.++++++.++..|++++|++++++.+++.|++++|.||++++.|||++++||||||++ ||+||++||+|++
T Consensus        72 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~-gp~Ly~~D~~G~~  150 (238)
T d1iruf_          72 AGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDM-GPHIFQTCPSANY  150 (238)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETT-EEEEEEECSSSCE
T ss_pred             eccchHHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCC-CceEEEEcCCCCE
Confidence            699999999999999999999999999999999999999999999999999999999999999975 4999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhc----CCCcEEEEEEEcCCCeEEcCHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQS----GQKNLEIAVMRHGKPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~----~~~~iei~ii~~~~~~~~l~~~ei~~~~  156 (174)
                      .+++++|+|+|+..++++|++.|+++|.++++|+++++++||..++..    ++.+|+|++++++++|++++++||+.++
T Consensus       151 ~~~~~~a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~~~ei~~~l  230 (238)
T d1iruf_         151 FDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFL  230 (238)
T ss_dssp             EEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHH
T ss_pred             EeeeeEEECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECCHHHHHHHH
Confidence            999999999999999999999999988779999999999999988753    3689999999999889999999999999


Q ss_pred             HHhccchH
Q psy13966        157 NEIEKEKE  164 (174)
Q Consensus       157 ~~~~~~~~  164 (174)
                      .++++.++
T Consensus       231 ~~i~ek~~  238 (238)
T d1iruf_         231 EGLEERPQ  238 (238)
T ss_dssp             TTCCCCCC
T ss_pred             HHHHhCcC
Confidence            99977653

>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=8.6e-39  Score=251.54  Aligned_cols=161  Identities=27%  Similarity=0.416  Sum_probs=152.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|.++.+|++.++.+++++.+++.|++++|.||++++.|||+|++||+|||++++|+||++||+|++
T Consensus        75 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~  154 (243)
T d1rypa_          75 NGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYY  154 (243)
T ss_dssp             ESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCE
T ss_pred             ecCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCCEEE
Confidence            69999999999999999999999999999999999999999999999999999999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccccc-----ccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCCeEEcCHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEE-----MTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQIE  153 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~-----~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~~~~l~~~ei~  153 (174)
                      .+++++|+|+|+..++++|++.|+++|     .++++|+++++++||+.+..++  +++++|++++++| +++++++||+
T Consensus       155 ~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~~~~~iei~iitk~g-~~~l~~eeI~  233 (243)
T d1rypa_         155 VGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK-FFTLSAENIE  233 (243)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETTE-EEECCHHHHH
T ss_pred             EecceEEeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCCc-eEEeCHHHHH
Confidence            999999999999999999999998754     2489999999999999999875  6799999999986 9999999999


Q ss_pred             HHHHHhccc
Q psy13966        154 EYVNEIEKE  162 (174)
Q Consensus       154 ~~~~~~~~~  162 (174)
                      +++.++.++
T Consensus       234 ~~l~~i~e~  242 (243)
T d1rypa_         234 ERLVAIAEQ  242 (243)
T ss_dssp             HHHHHHTTT
T ss_pred             HHHHHHhcc
Confidence            999998654

>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=7e-39  Score=251.85  Aligned_cols=164  Identities=58%  Similarity=0.972  Sum_probs=154.5

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeC-CCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDY-DGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~-~g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.|+++++.++..|++.++++++++.+++.++.++|.||+++++|||+|++||+|||+ +++|+||.+||+|+
T Consensus        74 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~  153 (241)
T d1rypd_          74 SGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGI  153 (241)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSC
T ss_pred             eeccchHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEE
Confidence            69999999999999999999999999999999999999999999999999999999999999996 46799999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhccccc-ccCHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCCCeEEcCHHHHHHHHHH
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYKSEE-MTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNE  158 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~~~~-~~s~~eai~l~~~~l~~~~~~~~~~iei~ii~~~~~~~~l~~~ei~~~~~~  158 (174)
                      +.+++++|+|+|+..++++|++.|++++ .++++|++++|++||+.+.++++++|+|+++++|++|++++++||+.++.+
T Consensus       154 ~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~~~~~iei~ii~~d~~~~~l~~~ei~~~l~~  233 (241)
T d1rypd_         154 YSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQ  233 (241)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCSCSTTEEEEEEETTTEEEECCHHHHHHHHHH
T ss_pred             EEeeCeEEECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcCCCCcEEEEEEECCCCEEECCHHHHHHHHHH
Confidence            9999999999999999999999997642 139999999999999999998899999999999988999999999999999


Q ss_pred             hccchH
Q psy13966        159 IEKEKE  164 (174)
Q Consensus       159 ~~~~~~  164 (174)
                      |++++.
T Consensus       234 i~~~~~  239 (241)
T d1rypd_         234 IEQEKQ  239 (241)
T ss_dssp             HTHHHH
T ss_pred             HHHHHh
Confidence            966554

>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=5.9e-39  Score=253.51  Aligned_cols=161  Identities=32%  Similarity=0.548  Sum_probs=152.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|.++..|++.++.+++++.+++.+++++|.||+++++|||+|++||+|||++++|+||.+||+|++
T Consensus        76 sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~  155 (250)
T d1iruc_          76 AGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNY  155 (250)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEE
T ss_pred             ecccchHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEcccccE
Confidence            69999999999999999999999999999999999999999999999999999999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccc-ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC---eEEcCHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKS-EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP---VEMLSVAQIE  153 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~-~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~---~~~l~~~ei~  153 (174)
                      .+++++|+|+|+..++++|++.|++ +|  +++||++++++||+.+.+++   +++|+|++++++++   |++++++||+
T Consensus       156 ~~~~~~a~G~gs~~a~~~Le~~y~~~~m--s~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~~~Ei~  233 (250)
T d1iruc_         156 GGWKATCIGNNSAAAVSMLKQDYKEGEM--TLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVE  233 (250)
T ss_dssp             EECSEEEESTTTTHHHHHHHHHCCTTCC--CHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHH
T ss_pred             eeeeEEEeCcChHHHHHHHHhhcccCCC--CHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECCHHHHH
Confidence            9999999999999999999999985 78  99999999999999998754   68999999999865   8999999999


Q ss_pred             HHHHHhccch
Q psy13966        154 EYVNEIEKEK  163 (174)
Q Consensus       154 ~~~~~~~~~~  163 (174)
                      .++.+++++.
T Consensus       234 ~~l~~~~e~~  243 (250)
T d1iruc_         234 QLIKKHEEEE  243 (250)
T ss_dssp             HHHHHHHTTT
T ss_pred             HHHHHHHHHh
Confidence            9999987654

>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=3.7e-38  Score=244.66  Aligned_cols=153  Identities=35%  Similarity=0.599  Sum_probs=146.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+.+++|.++..|++.++++++++.+++.++.++|.|++++++|||++++||+|||++ +|+||++||+|++
T Consensus        67 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~-gp~Ly~id~~G~~  145 (221)
T d1yara1          67 SGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQI-GPRLFDCDPAGTI  145 (221)
T ss_dssp             EEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSS-CEEEEEECTTCCE
T ss_pred             eeccchHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecC-CCeEEEEcCCccE
Confidence            699999999999999999999999999999999999999999999999999999999999999965 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCCeEEcCHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~~~~l~~~ei~~~~  156 (174)
                      .+++++|+|+|+..++++|++.|+|+|  |++||++++++||+.+.+++  .+.++|+++++++++++++++||+++|
T Consensus       146 ~~~~~~a~G~g~~~~~~~Le~~~~~~m--s~~ea~~la~~~l~~~~~~~~~~~~~ei~~i~~~~~~r~l~~~ei~~~l  221 (221)
T d1yara1         146 NEYKATAIGSGKDAVVSFLEREYKENL--PEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL  221 (221)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             EEeeEEEECCchHHHHHHHHHHhhccc--cHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCCEEECCHHHHHHhC
Confidence            999999999999999999999999999  99999999999999988764  578999999998889999999998764

>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=1.3e-38  Score=249.23  Aligned_cols=152  Identities=28%  Similarity=0.479  Sum_probs=144.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.+++++|.++..|++.++++|+++.+|+.|++++|.||++++.|||||++||+|||++| |+||++||+|++
T Consensus        74 sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~g-~~Ly~idp~G~~  152 (233)
T d1rypf_          74 AGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSG-AHLLEFQPSGNV  152 (233)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTE-EEEEEECTTSCE
T ss_pred             eeccccHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCCC-CEEEEEccccce
Confidence            6999999999999999999999999999999999999999999999999999999999999999765 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhc----ccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFY----KSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIE  153 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~----~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~  153 (174)
                      .+++++|+|+|++.++++|++.|    +++|  +++|+++++++||..+.+++   +++|||++++++++|++++++||+
T Consensus       153 ~~~~~~aiG~gs~~a~~~Le~~~~~~~~~dm--s~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l~~~ei~  230 (233)
T d1rypf_         153 TELYGTAIGARSQGAKTYLERTLDTFIKIDG--NPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVA  230 (233)
T ss_dssp             EEESEEEESTTHHHHHHHHHHHHHHHTTCCS--CHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGG
T ss_pred             ecccEEEecCchHHHHHHHHHHHhhccccCC--CHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEECCHHHHH
Confidence            99999999999999999999876    4577  99999999999999988754   689999999999889999999997


Q ss_pred             HH
Q psy13966        154 EY  155 (174)
Q Consensus       154 ~~  155 (174)
                      .+
T Consensus       231 ~~  232 (233)
T d1rypf_         231 KY  232 (233)
T ss_dssp             GG
T ss_pred             hh
Confidence            65

>d1irue_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.2e-38  Score=247.01  Aligned_cols=156  Identities=31%  Similarity=0.611  Sum_probs=147.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCC-----CCcceeeeeEEEEeCCCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG-----RRPFGISCLIGGFDYDGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~-----~RP~gv~~il~G~D~~g~~~Ly~vd   75 (174)
                      ||+.+|++.++++++.++..|++.++++++++.+++.|++++|.||++.+     .|||+|++|+||||++| |+||.+|
T Consensus        72 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~g-p~Ly~id  150 (234)
T d1irue_          72 SGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKG-PQLFHMD  150 (234)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTE-EEEEEEC
T ss_pred             eeccchHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCC-CEEEEEe
Confidence            69999999999999999999999999999999999999999999998866     79999999999999764 9999999


Q ss_pred             CCCceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCCeEEcCHHHHH
Q psy13966         76 PSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQIE  153 (174)
Q Consensus        76 ~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~~~~l~~~ei~  153 (174)
                      |+|++.+++++|+|+|+..++++|++.|+++|  +++||++++++||+.+.+++  +.+|+|++++++++|++++++||+
T Consensus       151 p~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~--~~eeai~~a~~al~~~~~~~~~~~~iei~ii~~~~~~k~l~~~ei~  228 (234)
T d1irue_         151 PSGTFVQCDARAIGSASEGAQSSLQELYHKSM--TLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELE  228 (234)
T ss_dssp             TTSCEEEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHH
T ss_pred             cCcccceeeeEEeCCchHHHHHHHHHhhccCC--CHHHHHHHHHHHHHHHHhccCCCCCEEEEEEECCCCEEECCHHHHH
Confidence            99999999999999999999999999999999  99999999999999988764  678999999998789999999999


Q ss_pred             HHHHHh
Q psy13966        154 EYVNEI  159 (174)
Q Consensus       154 ~~~~~~  159 (174)
                      +++.+|
T Consensus       229 ~~l~~i  234 (234)
T d1irue_         229 EVIKDI  234 (234)
T ss_dssp             HHHTTC
T ss_pred             HHHHhC
Confidence            998764

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=1.6e-37  Score=244.34  Aligned_cols=162  Identities=36%  Similarity=0.608  Sum_probs=152.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.++++++.++..|+++++.+++++.+++.++.++|.||+++++|||+|++|++|||+  +|+||++||+|++
T Consensus        76 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~--~p~Ly~~Dp~G~~  153 (243)
T d1j2pa_          76 SGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE--VPKLYETDPSGAL  153 (243)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS--SEEEEEECTTCCE
T ss_pred             eecccHHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC--CceEEEEeccCce
Confidence            69999999999999999999999999999999999999999999999999999999999999984  4999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcC-CCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHG-KPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~-~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++|++.|+++|  |++||++++++||+.+.+++  .++|||++++++ ++|++++++||+.++.
T Consensus       154 ~~~~~~a~G~g~~~a~~~Le~~y~~~m--s~eeai~la~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~l~~~ei~~~~~  231 (243)
T d1j2pa_         154 LEYKATAIGMGRMAVTEFFEKEYRDDL--SFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVE  231 (243)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHH
T ss_pred             eeeeEEEeCCCcHHHHHHHHhhcccCC--CHHHHHHHHHHHHHHHHhcccCCCceEEEEEEeCCCcEEECCHHHHHHHHH
Confidence            999999999999999999999999999  99999999999999999875  468999999986 3599999999999999


Q ss_pred             HhccchHHH
Q psy13966        158 EIEKEKEDE  166 (174)
Q Consensus       158 ~~~~~~~~~  166 (174)
                      ++.++.++.
T Consensus       232 ~~~e~~~~~  240 (243)
T d1j2pa_         232 RANERIREL  240 (243)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            997766654

>d1irug_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4.9e-38  Score=247.64  Aligned_cols=158  Identities=23%  Similarity=0.339  Sum_probs=144.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.|++++|.++.+|++++|.+++++.+|+.|++++|.||+++++|||+|++||+|||++++|+||++||+|++
T Consensus        78 sG~~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~~  157 (245)
T d1irug_          78 AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVS  157 (245)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             ccCchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCceE
Confidence            69999999999999999999999999999999999999999999999999999999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcC-CCeEEcCHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHG-KPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~-~~~~~l~~~ei~~~~  156 (174)
                      .+++++|+|+|++.++++||+.|+++|  |++||++++++||+.+.+++   +.+|+|++|+++ +.++.+.|+|+.+.+
T Consensus       158 ~~~~~~a~G~gs~~a~~~Le~~~~~dm--t~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~~~~e~~~~~  235 (245)
T d1irug_         158 YGYWGCAIGKARQAAKTEIEKLQMKEM--TCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEA  235 (245)
T ss_dssp             EEBSEEEESTTHHHHHHHHTTSCGGGC--CHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHH
T ss_pred             EeeeEEEECCccHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEEChHHHHHHH
Confidence            999999999999999999999999999  99999999999999998753   468999999886 336566666776666


Q ss_pred             HHhc
Q psy13966        157 NEIE  160 (174)
Q Consensus       157 ~~~~  160 (174)
                      .++.
T Consensus       236 ~~~~  239 (245)
T d1irug_         236 EKYA  239 (245)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6653

>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=7.4e-38  Score=245.96  Aligned_cols=161  Identities=26%  Similarity=0.493  Sum_probs=151.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCC------CCcceeeeeEEEEeCCCCceEEEe
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNG------RRPFGISCLIGGFDYDGKPRLYQT   74 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~------~RP~gv~~il~G~D~~g~~~Ly~v   74 (174)
                      ||+.+|++.++++++.++..|++.++++++++.+++.|++++|.||++.+      +|||+|++||+|||++++|+||.+
T Consensus        71 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~i  150 (242)
T d1rype_          71 SGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHA  150 (242)
T ss_dssp             EESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEE
T ss_pred             eecchhHHHHHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEE
Confidence            69999999999999999999999999999999999999999999987653      699999999999998888999999


Q ss_pred             CCCCceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCCeEEcCHHHH
Q psy13966         75 EPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQI  152 (174)
Q Consensus        75 d~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~~~~l~~~ei  152 (174)
                      ||+|++.+++++|+|+|+..++++|++.|+++|  |++||++++++||+.+.+++  .++++|++++++.+|+++++++|
T Consensus       151 dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~m--s~~ea~~la~~~l~~~~~~~~~~~~~~v~~i~~~~g~~~l~~~~i  228 (242)
T d1rype_         151 EPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSL--TLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKT  228 (242)
T ss_dssp             CTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHH
T ss_pred             cCCCceeccceeecccchHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHhccCCCCceEEEEEECCCCeEECCHHHH
Confidence            999999999999999999999999999999999  99999999999999998864  56899999998777999999999


Q ss_pred             HHHHHHhccch
Q psy13966        153 EEYVNEIEKEK  163 (174)
Q Consensus       153 ~~~~~~~~~~~  163 (174)
                      ++++.++.++.
T Consensus       229 ~~~~~~i~e~~  239 (242)
T d1rype_         229 AELIKELKEKE  239 (242)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999996644

>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=4.4e-37  Score=242.63  Aligned_cols=157  Identities=31%  Similarity=0.521  Sum_probs=148.1

Q ss_pred             CCchHHHHHHHHHHHHHHH-HhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQ-SHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~-~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||+.+|++.++++++.++. +|+..++.+++++.+++.+++++|.|+++++.|||+|++||+|||+++||+||++||+|+
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            6999999999999999986 589999999999999999999999999999999999999999999877899999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCC--------------
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKP--------------  143 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~--------------  143 (174)
                      +.+++++|+|+|+..++++|++.|+++|  +++||++++++||+.+.+++  +.+|+|++|++++.              
T Consensus       156 ~~~~~~~a~G~gs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~d~s~~~iev~vi~~~~~~~~~~~~v~~~~~~  233 (250)
T d1rypb_         156 YFPWKATAIGKGSVAAKTFLEKRWNDEL--ELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGP  233 (250)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCC
T ss_pred             EEEeeEEecCcchHHHHHHHHHhcccCC--CHHHHHHHHHHHHHHHhhccCCCCCEEEEEEeCCCcccccccccccccCC
Confidence            9999999999999999999999999999  99999999999999998765  67899999988653              


Q ss_pred             -eEEcCHHHHHHHHHHh
Q psy13966        144 -VEMLSVAQIEEYVNEI  159 (174)
Q Consensus       144 -~~~l~~~ei~~~~~~~  159 (174)
                       |++++++||+++++.|
T Consensus       234 ~fr~ls~eei~~~l~~l  250 (250)
T d1rypb_         234 RFRKLTSQEINDRLEAL  250 (250)
T ss_dssp             SEEECCHHHHHHHHTTC
T ss_pred             ceEECCHHHHHHHHHhC
Confidence             8999999999998764

>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=1.4e-36  Score=238.88  Aligned_cols=158  Identities=34%  Similarity=0.557  Sum_probs=150.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.++++++.++..|++.++.+++++.+++.++++++.|++++++|||+|++||+|||++++|+||.+||+|++
T Consensus        77 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~  156 (244)
T d1rypc_          77 AGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNY  156 (244)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             ecccCcHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEecCCCcE
Confidence            69999999999999999999999999999999999999999999999999999999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC-----eEEcCHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP-----VEMLSVAQI  152 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~-----~~~l~~~ei  152 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.+++   +++|+|+++++++.     +++++++||
T Consensus       157 ~~~~~~a~G~g~~~a~~~Le~~~~~~m--s~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~~~~~~~~~~~~~Ei  234 (244)
T d1rypc_         157 TGWKAISVGANTSAAQTLLQMDYKDDM--KVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEI  234 (244)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHH
T ss_pred             eeeeeeeccchhHHHHHHHHhcccCCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCcccceeEEECCHHHH
Confidence            999999999999999999999999999  99999999999999999865   57899999999864     789999999


Q ss_pred             HHHHHHhc
Q psy13966        153 EEYVNEIE  160 (174)
Q Consensus       153 ~~~~~~~~  160 (174)
                      ++++.+..
T Consensus       235 ~~~l~k~~  242 (244)
T d1rypc_         235 KDILVKTG  242 (244)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhC
Confidence            99998753

>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=2e-35  Score=232.45  Aligned_cols=159  Identities=28%  Similarity=0.421  Sum_probs=146.4

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.++++++.++..|++.++++++++.+++.++.++|.||++++.|||+|++||+|||++ +|+||.+||+|++
T Consensus        75 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~-gp~Ly~idp~Gs~  153 (244)
T d1rypg_          75 SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKN-GAHLYMLEPSGSY  153 (244)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETT-EEEEEEECTTSCE
T ss_pred             ccchhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCC-CCEEEEEcCCccE
Confidence            699999999999999999999999999999999999999999999999999999999999999976 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHh---hcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcC---CCeEEcCHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEK---FYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHG---KPVEMLSVAQ  151 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek---~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~---~~~~~l~~~e  151 (174)
                      .+++++|+|+|+..++++||+   .|+++|  |++||++++++||..+.+++   ..+++|++++.+   +.++.++.++
T Consensus       154 ~~~~~~a~G~gs~~~~~~Lek~~~~~~~~m--t~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~~~~~~~~~~~~e~  231 (244)
T d1rypg_         154 WGYKGAATGKGRQSAKAELEKLVDHHPEGL--SAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDL  231 (244)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHHHHCTTCC--CHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHH
T ss_pred             EecCeEecCCccHHHHHHHHHHHhhCCCCC--CHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEEcCCCeEEECCHHH
Confidence            999999999999999999996   689998  99999999999999998752   468999999753   4478888888


Q ss_pred             HHHHHHHhccc
Q psy13966        152 IEEYVNEIEKE  162 (174)
Q Consensus       152 i~~~~~~~~~~  162 (174)
                      ++.+++..+++
T Consensus       232 ~~~~~~~~~~~  242 (244)
T d1rypg_         232 LQEAIDFAQKE  242 (244)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            88888877654

>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=3.9e-35  Score=228.81  Aligned_cols=155  Identities=33%  Similarity=0.614  Sum_probs=148.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||+.+|++.++++++.++..|++.++.+++++.+++.++.++|.++++..+|||+++++++|+|++ +|+||++||+|++
T Consensus        76 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~-~~~ly~id~~G~~  154 (233)
T d1irub_          76 SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEG-RPYLFQSDPSGAY  154 (233)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSS-SEEEEEECTTSCE
T ss_pred             eccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccC-CceEEEEcCCcce
Confidence            699999999999999999999999999999999999999999999999999999999999999854 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC--CCcEEEEEEEcCCCeEEcCHHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG--QKNLEIAVMRHGKPVEMLSVAQIEEYVNE  158 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~--~~~iei~ii~~~~~~~~l~~~ei~~~~~~  158 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.+++  .++|+|++++++| +++++|+||++++.+
T Consensus       155 ~~~~~~a~G~gs~~~~~~Le~~~~~~m--s~eea~~l~~~~L~~~~~~d~~~~~vev~ii~~~g-~~~l~~~eI~~~l~~  231 (233)
T d1irub_         155 FAWKATAMGKNYVNGKTFLEKRYNEDL--ELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAA  231 (233)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETTE-EEECCHHHHHHHHTT
T ss_pred             EeccceecCCcHHHHHHHHHhhcccCc--cHHHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCC-eEECCHHHHHHHHHH
Confidence            999999999999999999999999999  99999999999999998865  5789999999986 999999999999987


Q ss_pred             h
Q psy13966        159 I  159 (174)
Q Consensus       159 ~  159 (174)
                      +
T Consensus       232 i  232 (233)
T d1irub_         232 I  232 (233)
T ss_dssp             C
T ss_pred             h
Confidence            6

>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=1.1e-34  Score=221.95  Aligned_cols=151  Identities=23%  Similarity=0.347  Sum_probs=141.9

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.++++++.++++|++.++.+++++.+++.++++++.+    +.|||++++|+||+|+  +|+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~----~~~p~~~~~lvaG~d~--~p~l~~~d~~G~~  119 (203)
T d1yarh1          46 AGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQV----KYMPYMVQLLVGGIDT--APHVFSIDAAGGS  119 (203)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHT----TTSCCCEEEEEEEESS--SEEEEEECTTCCE
T ss_pred             CCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHhh----ccCCccceeEEEEEcC--CCeeEecCCccce
Confidence            699999999999999999999999999999999999999988654    4689999999999984  3999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++|++.|+|+|  |.+||++++.+||+.+.+++   ++.++|++++++.+|++++++||++++.
T Consensus       120 ~~~~~~a~G~g~~~~~~~L~~~~~~~~--s~eea~~l~~~~l~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei~~~~~  197 (203)
T d1yarh1         120 VEDIYASTGSGSPFVYGVLESQYSEKM--TVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIR  197 (203)
T ss_dssp             EEESEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHH
T ss_pred             ecccccccCCCcHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCEEECCHHHHHHHHH
Confidence            999999999999999999999999999  99999999999999998864   6789999999877799999999999998


Q ss_pred             Hh
Q psy13966        158 EI  159 (174)
Q Consensus       158 ~~  159 (174)
                      ++
T Consensus       198 ~~  199 (203)
T d1yarh1         198 KL  199 (203)
T ss_dssp             HH
T ss_pred             Hh
Confidence            87

>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=1.8e-34  Score=220.54  Aligned_cols=152  Identities=15%  Similarity=0.247  Sum_probs=143.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.+.++++.++..|++.++.+++++.+++.+++++|.|+    .+||+++++++|+|++| |+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~----~~p~~~~~lvaG~d~~~-~~l~~~d~~G~~  120 (201)
T d1irul_          46 AGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYK----GMGLSMGTMICGWDKRG-PGLYYVDSEGNR  120 (201)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTT----TSCCCBEEEEEEECSSS-EEEEEEESSSCE
T ss_pred             cCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhhhcc----CCCceEEEEEEEEecCC-ceEEEEccCceE
Confidence            7999999999999999999999999999999999999999997664    47999999999999764 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|++.++++|++.|+++|  |.+||++++++||..+.++|   ++.++|++++++| +++++++||.+++.
T Consensus       121 ~~~~~~a~G~g~~~~~~~Le~~~~~~m--s~eea~~l~~~~l~~~~~~d~~sg~~~~v~~i~~~G-~~~i~~~ev~~~~~  197 (201)
T d1irul_         121 ISGATFSVGSGSVYAYGVMDRGYSYDL--EVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDG-WIRVSSDNVADLHE  197 (201)
T ss_dssp             EECSEEEESTTHHHHHHHHHTTCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEECSSC-EEEEEEEEHHHHHH
T ss_pred             EEeeeEEecCchHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHHHhCCCCCCceEEEEEeCCc-eEEECHHHHHHHHH
Confidence            999999999999999999999999999  99999999999999998864   7899999999997 99999999999988


Q ss_pred             Hhc
Q psy13966        158 EIE  160 (174)
Q Consensus       158 ~~~  160 (174)
                      +++
T Consensus       198 ~~~  200 (201)
T d1irul_         198 KYS  200 (201)
T ss_dssp             HHT
T ss_pred             hhc
Confidence            874

>d1j2qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=5.2e-34  Score=217.64  Aligned_cols=153  Identities=24%  Similarity=0.366  Sum_probs=143.0

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|+++++.++..|++.++.+++++.+++.+++++|.|+    .|||++++|++|||++| |+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~----~~p~~~~~lvaG~d~~~-~~l~~~d~~G~~  120 (202)
T d1j2qh_          46 AGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYR----YFPYLVQLLIGGIDSEG-KSIYSIDPIGGA  120 (202)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTT----TSCCCEEEEEEEEETTE-EEEEEECTTCCE
T ss_pred             cCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHHHHHHHHHhhhc----ccceeeEEEEEEEcCCC-ceEEEEeCCCCe
Confidence            6999999999999999999999999999999999999999998776    37999999999999765 999999999998


Q ss_pred             eee-eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHH
Q psy13966         81 YEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYV  156 (174)
Q Consensus        81 ~~~-~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~  156 (174)
                      .++ .++|+|+|+..++++|++.|+|+|  +++||++++++||..+.+++   ++.++|++++++| +++++++||+.++
T Consensus       121 ~~~~~~~a~G~g~~~~~~~Le~~~~~~m--s~~ea~~l~~~al~~~~~~d~~~g~~v~v~~i~~~g-~~~~~~~ei~~~l  197 (202)
T d1j2qh_         121 IEEKDIVATGSGSLTAYGVLEDRFTPEI--GVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDE-FYQYSPEEVEQIL  197 (202)
T ss_dssp             EEESSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEECSSC-EEECHHHHHHHHG
T ss_pred             EeecceEEccCChHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCC-EEEeCHHHHHHHH
Confidence            776 589999999999999999999999  99999999999999999865   6799999999997 9999999999999


Q ss_pred             HHhcc
Q psy13966        157 NEIEK  161 (174)
Q Consensus       157 ~~~~~  161 (174)
                      .++++
T Consensus       198 ~~~~k  202 (202)
T d1j2qh_         198 AKFRK  202 (202)
T ss_dssp             GGTTC
T ss_pred             HHhhC
Confidence            98854

>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=1.6e-34  Score=220.49  Aligned_cols=147  Identities=20%  Similarity=0.304  Sum_probs=137.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeC-CCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDY-DGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~-~g~~~Ly~vd~~G~   79 (174)
                      ||..+|++.|.++++.++..|+++++.+++++.++++++..++.+++  ..|||++++||||||+ +++|+||++||+|+
T Consensus        47 sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~--~~~P~~~~~liaG~D~~~~~p~L~~id~~G~  124 (198)
T d1rypk_          47 AGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIR--SRRPYQVNVLIGGYDKKKNKPELYQIDYLGT  124 (198)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTT--SSSCCCEEEEEEEEETTTTEEEEEEECTTCC
T ss_pred             cCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHh--cccccceEEEEEEEecCCCceEEEEeccccc
Confidence            69999999999999999999999999999999999999999976654  5799999999999997 46799999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHH
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQI  152 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei  152 (174)
                      +.+++++|+|+|+..++++|++.|+++|  +.+||++++.+||..+..++   +++++|++|++|| +++++++|+
T Consensus       125 ~~~~~~~a~G~gs~~~~~~Le~~~~~~~--~~eea~~l~~~~l~~~~~~d~~s~~~~~v~vi~~dG-~~~~~~~~~  197 (198)
T d1rypk_         125 KVELPYGAHGYSGFYTFSLLDHHYRPDM--TTEEGLDLLKLCVQELEKRMPMDFKGVIVKIVDKDG-IRQVDDFQA  197 (198)
T ss_dssp             EEECSEEECTTHHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEEETTE-EEEECCCSC
T ss_pred             EEecceEEEeccchhhHHHHHhcccccC--CHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCC-eEEcchhcc
Confidence            9999999999999999999999999999  99999999999999998764   6799999999997 999988765

>d1rypl_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=8.6e-34  Score=218.52  Aligned_cols=155  Identities=14%  Similarity=0.260  Sum_probs=145.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|+++++.++..|++.++.+++++.+++.+++++|.|+    .+|++++.+++|+|.+++|+||.+||+|++
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~----~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~  121 (212)
T d1rypl_          46 AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYK----GAGLSMGTMICGYTRKEGPTIYYVDSDGTR  121 (212)
T ss_dssp             CBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTT----TSCCCBEEEEEEEETTTEEEEEEEETTCCE
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHhc----cCCcceEeeeeEeecCCCCEEEEECCCceE
Confidence            7999999999999999999999999999999999999999997653    469999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVN  157 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~~~~~  157 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++++||..+.++|   +++|+|++|+++| +++++++||.+++.
T Consensus       122 ~~~~~~a~G~gs~~~~~~Le~~~~~~m--t~~ea~~l~~~al~~~~~rd~~sg~~v~v~vi~~~g-~~~~~~~ev~~~~~  198 (212)
T d1rypl_         122 LKGDIFCVGSGQTFAYGVLDSNYKWDL--SVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDG-WIYHGNHDVGELFW  198 (212)
T ss_dssp             EECSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTE-EEEEEEEEHHHHHH
T ss_pred             EecceEEEccCcccchhHHHHhccCCC--CHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEcCCc-eEEeCHHHHHHHHH
Confidence            999999999999999999999999999  99999999999999998864   7899999999997 99999999999999


Q ss_pred             Hhccc
Q psy13966        158 EIEKE  162 (174)
Q Consensus       158 ~~~~~  162 (174)
                      +++++
T Consensus       199 ~~~~~  203 (212)
T d1rypl_         199 KVKEE  203 (212)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            88654

>d1ryph_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.9e-33  Score=214.66  Aligned_cols=146  Identities=12%  Similarity=0.210  Sum_probs=133.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|+++++.++..|+++++++ ++..+++.++.+++.     +.|||++++||||||++++|+||++||+|++
T Consensus        55 sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~-----~~~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~  128 (205)
T d1ryph_          55 SGSAADTQAIADIVQYHLELYTSQYGTP-STETAASVFKELCYE-----NKDNLTAGIIVAGYDDKNKGEVYTIPLGGSV  128 (205)
T ss_dssp             EEBHHHHHHHHHHHHHHHHHHHHHHSSC-CHHHHHHHHHHHHHH-----TTTTCCEEEEEEEEETTTEEEEEEECTTSCC
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHcCCc-cHHHHHHHHHHHHHh-----CccCceEEEEEEeecCCCCcEEEEECCCCcE
Confidence            6999999999999999999999999976 578899999988732     3589999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC-eEEcCHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP-VEMLSVAQIEE  154 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~-~~~l~~~ei~~  154 (174)
                      .+++++|+|+|+..++++|++.|+++|  |.+||++++++||..+.++|   +++|+|++|++||. ++.+.|+|+++
T Consensus       129 ~~~~~~a~G~g~~~~~~~Le~~~~~~m--s~~ea~~l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~~~~~e~~~  204 (205)
T d1ryph_         129 HKLPYAIAGSGSTFIYGYCDKNFRENM--SKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQ  204 (205)
T ss_dssp             EEESEEEESGGGGGGHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECHHHHTC
T ss_pred             EecCeEEeecCcHHHHHHHHhhhhccc--CHHHHHHHHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEEecCcccccc
Confidence            999999999999999999999999999  99999999999999999864   68999999999973 34689999864

>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=3e-33  Score=217.83  Aligned_cols=154  Identities=15%  Similarity=0.228  Sum_probs=134.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcC-CCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCC---CCceEEEeCC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVE-DPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYD---GKPRLYQTEP   76 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~---g~~~Ly~vd~   76 (174)
                      ||+.+|++.|+++++.++..|++.++ .+++++.+++.++++++. ++..+.|||||++||||||..   ++|+||++||
T Consensus        57 sG~~aD~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-~~~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDp  135 (227)
T d1q5qa_          57 VGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGT-IFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITY  135 (227)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHH-HHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEET
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHH-HHHhcCCCceEEEEEEEEecCCCCCCCEEEEEcc
Confidence            69999999999999999999999998 568999999999998763 334467999999999999963   4699999999


Q ss_pred             CCceeeeee-EecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC-------CCcEEEEEEEcCCC---eE
Q psy13966         77 SGIYYEWKA-NATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG-------QKNLEIAVMRHGKP---VE  145 (174)
Q Consensus        77 ~G~~~~~~~-~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~-------~~~iei~ii~~~~~---~~  145 (174)
                      +|++.++++ ++.|.++..++++|++.|+++|  |++||+++|++||+.+...+       +++|+|+++++++.   |+
T Consensus       136 sG~~~~~~~~~~~g~~s~~~~~~Le~~y~~~m--s~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~~~fr  213 (227)
T d1q5qa_         136 DGSIVDEQHFVVMGGTTEPIATAMRESYRADL--DLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFR  213 (227)
T ss_dssp             TSCEEEESSEEEESSSHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEE
T ss_pred             ccceeeecccccCCCchHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCccceE
Confidence            999988875 5567889999999999999999  99999999999999888642       46899999998864   99


Q ss_pred             EcCHHHHHHHHH
Q psy13966        146 MLSVAQIEEYVN  157 (174)
Q Consensus       146 ~l~~~ei~~~~~  157 (174)
                      +++++||++++.
T Consensus       214 ~l~~~ei~~~l~  225 (227)
T d1q5qa_         214 RIAGTALEQLVP  225 (227)
T ss_dssp             ECCHHHHHTTSC
T ss_pred             EcCHHHHHHHhc
Confidence            999999998763

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.97  E-value=9.6e-33  Score=215.31  Aligned_cols=152  Identities=17%  Similarity=0.246  Sum_probs=140.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhc-----CCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTV-----EDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~-----~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd   75 (174)
                      ||..+|++.+.++++.++..|++++     +..+++..+++++++.+  |+++.++|||+|+++|+|||++|+|+||.+|
T Consensus        54 sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~--y~~~~~~~P~~~~~liaG~d~~g~~~ly~~d  131 (233)
T d1ryp2_          54 SGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQSNGDQFLRYVN  131 (233)
T ss_dssp             EEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECTTSCEEEEEEE
T ss_pred             ccCchHHHHHHHHHHHHHHHHHHhhCCCCCCcccCHHHHHHHHHHHH--HhhccccCCceeEEEEEEEcCCCCeEEEEEc
Confidence            6999999999999999999998876     57789999999999987  7777789999999999999999999999999


Q ss_pred             CCCceeeeeeEecCcChHHHHHHHHhhcc-----cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEc
Q psy13966         76 PSGIYYEWKANATGRSAKTVREFLEKFYK-----SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEML  147 (174)
Q Consensus        76 ~~G~~~~~~~~aiG~gs~~a~~~Lek~~~-----~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l  147 (174)
                      |+|++.+++++|+|+|+..++++|++.|+     |+|  +++||++++++||..+.++|   +++|+|++|++|++++++
T Consensus       132 ~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~m--s~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~g~~~~  209 (233)
T d1ryp2_         132 LLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKT--TVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFK  209 (233)
T ss_dssp             TTCCEECCSEEECTHHHHHHHHHHTTTCCSGGGGGGC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEE
T ss_pred             CCCcEEeeeeEEecCccHHHHHHHHHHHhhccccccc--CHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCCCEEEC
Confidence            99999999999999999999999999997     677  99999999999999999864   789999999999779999


Q ss_pred             CHHHHHHHH
Q psy13966        148 SVAQIEEYV  156 (174)
Q Consensus       148 ~~~ei~~~~  156 (174)
                      .+++|++..
T Consensus       210 ~~~~ie~~~  218 (233)
T d1ryp2_         210 KNLQVENMK  218 (233)
T ss_dssp             EEEECCSCC
T ss_pred             Chhcchhhh
Confidence            999886643

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.97  E-value=5.1e-32  Score=207.02  Aligned_cols=148  Identities=14%  Similarity=0.277  Sum_probs=136.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.+.+.++.++..|++.++.+++++.++++++++++.+     .+||++++|++|||++++|+||.+||.|++
T Consensus        46 sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~-----~~p~~~~~lvaG~d~~~~~~l~~~d~~g~~  120 (202)
T d1iruh_          46 SGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRY-----REDLMAGIIIAGWDPQEGGQVYSVPMGGMM  120 (202)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHT-----TTTCCEEEEEEEEETTTEEEEEEECTTSCC
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhh-----ccceeEEEEEEEeecCCCcEEEEECCCCce
Confidence            699999999999999999999999999999999999999998654     369999999999998888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCC-eEEcCHHHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKP-VEMLSVAQIEEY  155 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~-~~~l~~~ei~~~  155 (174)
                      .+++++|+|+|+..++++|++.|+++|  +++||++++.+||..+.++|   ++.|+|++|+++|. ++.++++||.++
T Consensus       121 ~~~~~~a~G~g~~~a~~~L~~~~~~~~--~~~ea~~l~~~al~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~  197 (202)
T d1iruh_         121 VRQSFAIGGSGSSYIYGYVDATYREGM--TKEECLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKF  197 (202)
T ss_dssp             EECSEEEESGGGGGGHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCC
T ss_pred             eecceeEEeCCHHHHHHHHHHhhccCC--cHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhh
Confidence            999999999999999999999999999  99999999999999998864   78999999999973 346999887654

>d1irui_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.97  E-value=2.3e-31  Score=205.84  Aligned_cols=144  Identities=18%  Similarity=0.295  Sum_probs=133.4

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.+.++++.++..|++.+|.+++++.++++++++++.     ..|||++++|++|||++| |+||++||+|++
T Consensus        46 aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~y~-----~~~p~~~~~ivaG~D~~g-~~L~~id~~G~~  119 (220)
T d1irui_          46 AGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFR-----YRGYIGAALVLGGVDVTG-PHLYSIYPHGST  119 (220)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHH-----TTTCSCEEEEEEEECSSC-EEEEEECTTSCE
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhhhhh-----cccccceeEEEEEEeCCC-cEEEEEeCCCcE
Confidence            69999999999999999999999999999999999999999842     347999999999999765 999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIE  153 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~  153 (174)
                      .+++++|+|+|+..++++|++.|+++|  |++||++++++||..+.++|   +++|+|++|+++| ++++.+.+++
T Consensus       120 ~~~~~~a~Gsgs~~a~~~L~~~~~~~~--s~~ea~~l~~~al~~~~~~D~~sg~~i~i~vitkdg-~~~~~~~~~~  192 (220)
T d1irui_         120 DKLPYVTMGSGSLAAMAVFEDKFRPDM--EEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNK-LDFLRPYTVP  192 (220)
T ss_dssp             EECSEEEESTTHHHHHHHHHHSCCTTC--CHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEETTE-EECCSEEECC
T ss_pred             EEeeEEEEccccHHHHHHHHHhcccCC--CHHHHHHHHHHHHHHhhccCCCCCCcEEEEEEECCC-eEEeCccccc
Confidence            999999999999999999999999999  99999999999999998865   6899999999996 8888777653

>d1rypi_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.97  E-value=6.3e-30  Score=198.13  Aligned_cols=140  Identities=19%  Similarity=0.214  Sum_probs=128.7

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      ||..+|++.|.++++.++..|++.++.++++..+++.+++.++     ...|||+++++++|+|++ +|+||.+||+|++
T Consensus        46 sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a~~l~~~~~-----~~~~p~~~~~l~aG~d~~-g~~Ly~id~~G~~  119 (222)
T d1rypi_          46 AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLF-----KYQGHIGAYLIVAGVDPT-GSHLFSIHAHGST  119 (222)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHH-----HTTTCSCEEEEEEEEETT-EEEEEEECTTSCE
T ss_pred             cccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHHHHHHHHHH-----hhhhccceeEEEEEEcCC-CcEEEEEecCcce
Confidence            6999999999999999999999999999999999999998873     235899999999999975 5999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcC
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLS  148 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~  148 (174)
                      .+++++|+|+|++.++++|++.|+|+|  +++||++++++||..+.++|   +++|+|+++++++..+.+.
T Consensus       120 ~~~~~~a~Gsg~~~a~~~Le~~~k~~m--s~eea~~l~~~al~~a~~~D~~sg~~i~i~vi~~~~~~~~~~  188 (222)
T d1rypi_         120 DVGYYLSLGSGSLAAMAVLESHWKQDL--TKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLR  188 (222)
T ss_dssp             EECSEEEESTTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEE
T ss_pred             EEeeEEEECCCcHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHhcccCCCCCcEEEEEEEcCCCeEEec
Confidence            999999999999999999999999999  99999999999999999875   6899999999886655544

>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=2e-29  Score=194.83  Aligned_cols=158  Identities=17%  Similarity=0.204  Sum_probs=142.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEe-----CCCCceEEEeC
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFD-----YDGKPRLYQTE   75 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D-----~~g~~~Ly~vd   75 (174)
                      +|..+|++.+.++++.++..|++.++.++++..+++.+++++|.|++ ...|||++.++++|++     .+++|+||.+|
T Consensus        46 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d  124 (224)
T d1q5qh_          46 AGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLG-AAMQGLAVVPLLVGYDLDADDESRAGRIVSYD  124 (224)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHH-HHTTTCCEEEEEEEECTTCSSTTSCEEEEEEC
T ss_pred             cccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHHHHHHHHHHHhhc-ccccCccceeeEEEeecccccccCCceEEEEE
Confidence            58999999999999999999999999999999999999999998875 4577888888888765     45679999999


Q ss_pred             CCCceeee--eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---C-------CcEEEEEEEcCCC
Q psy13966         76 PSGIYYEW--KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---Q-------KNLEIAVMRHGKP  143 (174)
Q Consensus        76 ~~G~~~~~--~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~-------~~iei~ii~~~~~  143 (174)
                      |+|+..++  +++|+|+|+..|+++|++.|+++|  |.+||++++++||..+.++|   +       ..+.+.+++++| 
T Consensus       125 ~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~m--t~~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~~~g-  201 (224)
T d1q5qh_         125 VVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDS--DEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAG-  201 (224)
T ss_dssp             TTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTE-
T ss_pred             ccCcEEEeccceeeecCccHHHHHHHHHhhcccC--CHHHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEeCCc-
Confidence            99998776  679999999999999999999999  99999999999999998864   2       248999999997 


Q ss_pred             eEEcCHHHHHHHHHHhccc
Q psy13966        144 VEMLSVAQIEEYVNEIEKE  162 (174)
Q Consensus       144 ~~~l~~~ei~~~~~~~~~~  162 (174)
                      +++++++||++++.++..+
T Consensus       202 ~~~l~~~ei~~~~~~~~~~  220 (224)
T d1q5qh_         202 AVHVSEETTSELARRIVAE  220 (224)
T ss_dssp             EEECCHHHHHHHHHHHHHH
T ss_pred             EEEcCHHHHHHHHHHHHHH
Confidence            9999999999999998554

>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=99.96  E-value=3.1e-29  Score=191.27  Aligned_cols=139  Identities=18%  Similarity=0.230  Sum_probs=127.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeC-CCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDY-DGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~-~g~~~Ly~vd~~G~   79 (174)
                      +|..+|++.|.++++.++..|+++++.+++++.++++|++.+|.+    ..|||+++++++|||+ +|+|+||++||+|+
T Consensus        53 ~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~----~~~p~~v~~li~G~d~~~g~~~L~~~D~~G~  128 (204)
T d1rypj_          53 TGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYER----RFGPYFVGPVVAGINSKSGKPFIAGFDLIGC  128 (204)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTT----TTSCCCEEEEEEEECTTTCCEEEEEECTTCC
T ss_pred             cCcchHHHHHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhh----cccceeeeEEEEEEecCCCcceEEEeCCCCc
Confidence            599999999999999999999999999999999999999998643    3589999999999996 56699999999999


Q ss_pred             eeeee-eEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeE
Q psy13966         80 YYEWK-ANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVE  145 (174)
Q Consensus        80 ~~~~~-~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~  145 (174)
                      +.+++ ++++|+|+..++++|++.|+++|  +++||++++++||..+.+++   +++++|.+++++|..+
T Consensus       129 ~~~~~~~~~~G~g~~~a~~~l~~~~~~~m--s~~ea~~l~~~al~~a~~~d~~sg~~~~v~ii~kdg~~~  196 (204)
T d1rypj_         129 IDEAKDFIVSGTASDQLFGMCESLYEPNL--EPEDLFETISQALLNAADRDALSGWGAVVYIIKKDEVVK  196 (204)
T ss_dssp             EECCSSEEEEETTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEE
T ss_pred             cccccCcEEeecchHHHHHHHHhccccCC--CHHHHHHHHHHHHHHHHHhcCccCCeEEEEEEECCceEE
Confidence            98875 78889999999999999999999  99999999999999999875   7899999999998433

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.96  E-value=1.2e-28  Score=190.32  Aligned_cols=136  Identities=22%  Similarity=0.336  Sum_probs=123.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcC-CCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVE-DPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||..+|++.|.++++.++..|++.++ .++++..+++.++.++    ++.+.|||+|+++|+|||++|+|+||.+||+|+
T Consensus        55 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~  130 (222)
T d1ryp1_          55 NGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLL----YGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGS  130 (222)
T ss_dssp             EESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHH----HTTTTSCCCEEEEEEEECTTSCEEEEEECTTSC
T ss_pred             ccChHHHHHHHHHHHHHhhhhhhhcCCCCCcHHHHHHHHHHHH----HhhhhhhheeeeeEEEEeCCCCeEEEEECCCcE
Confidence            69999999999999999999998876 5677877777666554    456789999999999999999899999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhcc-----------------cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEE
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYK-----------------SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMR  139 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~-----------------~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~  139 (174)
                      +.+++++|+|+|+..++++||+.|+                 ++|  |.+||++++.+||..+.+++   ++.++|.+|+
T Consensus       131 ~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~l--t~~ea~~l~~~al~~a~~rd~~sg~~v~v~iit  208 (222)
T d1ryp1_         131 YEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYL--SVEEVIKLVRDSFTSATERHIQVGDGLEILIVT  208 (222)
T ss_dssp             EEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCC--CHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEE
T ss_pred             EEEeceEEEcccHHHHHHHHHHhhccccccCcccchhhhcccccc--cHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEe
Confidence            9999999999999999999999987                 567  99999999999999999875   6889999999


Q ss_pred             cCC
Q psy13966        140 HGK  142 (174)
Q Consensus       140 ~~~  142 (174)
                      +||
T Consensus       209 kdG  211 (222)
T d1ryp1_         209 KDG  211 (222)
T ss_dssp             TTE
T ss_pred             CCC
Confidence            997

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.96  E-value=1.4e-29  Score=195.34  Aligned_cols=147  Identities=18%  Similarity=0.198  Sum_probs=132.3

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHh-hcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKL-TVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~-~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~   79 (174)
                      ||..+|++.+.+.++.++..|+. .++.+++++.+++.+++++  |+++...|||++++|++|+|+ ++|+||.+||+|+
T Consensus        54 sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~--y~~~~~~~p~~~~~li~G~d~-~~~~l~~~D~~G~  130 (217)
T d1iru2_          54 SGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYAD-GESFLGYVDMLGV  130 (217)
T ss_dssp             EEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEEET-TEEEEEEECSSCC
T ss_pred             ccccHHHHHHHHHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHH--HHhccccCcccceEEEEEEcC-CCcEEEEEecCce
Confidence            69999999999999999988875 5579999999999999977  777778999999999999995 5699999999999


Q ss_pred             eeeeeeEecCcChHHHHHHHHhhcc--cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHHHHH
Q psy13966         80 YYEWKANATGRSAKTVREFLEKFYK--SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIE  153 (174)
Q Consensus        80 ~~~~~~~aiG~gs~~a~~~Lek~~~--~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~ei~  153 (174)
                      +.+++++|+|+|+..++++|++.|+  |+|  |.+||++++.+||..+.++|   ++.++|++|+++| +++..|.+++
T Consensus       131 ~~~~~~~a~G~g~~~a~~~Le~~~~~~~~l--t~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G-~~~~~~~~~~  206 (217)
T d1iru2_         131 AYEAPSLATGYGAYLAQPLLREVLEKQPVL--SQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKG-VEIEGPLSTE  206 (217)
T ss_dssp             EEECSEEECTTHHHHTHHHHHHHHTSCSCC--CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTE-EEEEEEECCC
T ss_pred             eEeeeEEeccCcHHHHHHHHHHHhcccCCC--CHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCCC-EEEcCCeecc
Confidence            9999999999999999999999765  777  99999999999999998864   7899999999997 7777666553

>d1iruj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.96  E-value=2.9e-28  Score=186.20  Aligned_cols=136  Identities=15%  Similarity=0.210  Sum_probs=125.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCC-CceEEEeCCCCc
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDG-KPRLYQTEPSGI   79 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g-~~~Ly~vd~~G~   79 (174)
                      ||..+|++.|.++++.++..|++.++.+++++.++++++++++.+    .++||+|++||||||+++ +|.+|.+||.|.
T Consensus        53 sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~----~~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~  128 (204)
T d1iruj_          53 AGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEK----RFGPYYTEPVIAGLDPKTFKPFICSLDLIGC  128 (204)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHTT----TTSCCSCCCEEEEECTTSCCEEEEEECTTCC
T ss_pred             ccCchHHHHHHHHHHHhhhhhhhhcccccchHHHHHHHHHHHHHh----hhccceeEEEEEEEcCCCCceEEEEecCCCc
Confidence            799999999999999999999999999999999999999998643    468999999999999754 688999999999


Q ss_pred             eeee-eeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC
Q psy13966         80 YYEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK  142 (174)
Q Consensus        80 ~~~~-~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~  142 (174)
                      ...+ .++++|+|+..++++|++.|+++|  +.+||++++++||..+.++|   +++++|.+++++|
T Consensus       129 ~~~~~~~~~~G~g~~~~~~~l~~~~~~~m--s~~ea~~l~~~al~~a~~rd~~sg~~~~v~ii~k~g  193 (204)
T d1iruj_         129 PMVTDDFVVSGTCAEQMYGMCESLWEPNM--DPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDK  193 (204)
T ss_dssp             EEECSSEEEEETTHHHHHHHHHHHCCSSC--CHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSB
T ss_pred             eeeecceEEechhHHHHHHHHHhccccCC--CHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEeCCC
Confidence            8776 578899999999999999999999  99999999999999999875   7899999999997

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.96  E-value=2.8e-28  Score=183.68  Aligned_cols=145  Identities=15%  Similarity=0.210  Sum_probs=135.1

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|..+|++.+.++++.++..|+..++.+++++.+++.++..++.+  ....+|++++++++|||.+++|+||.+||+|.+
T Consensus        47 ~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~  124 (199)
T d1iruk_          47 VGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADC--LRSRTPYHVNLLLAGYDEHEGPALYYMDYLAAL  124 (199)
T ss_dssp             EESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHH--HTSSSCCCEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             cccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHHHHHHHHHHHH--hhccCCcceeeeecceeccCCceEEeecccceE
Confidence            589999999999999999999999999999999999999988654  446789999999999999888999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCCCeEEcCHH
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGKPVEMLSVA  150 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~~~~~l~~~  150 (174)
                      ..++++|+|+|+..++++|++.|+++|  +++||++++++||..+.++|   ++.++|++|+++| ++.+++.
T Consensus       125 ~~~~~~a~G~gs~~a~~~l~~~~~~~~--~~~ea~~l~~~al~~~~~~d~~sg~~~~v~vv~~~g-~~~~~~~  194 (199)
T d1iruk_         125 AKAPFAAHGYGAFLTLSILDRYYTPTI--SRERAVELLRKCLEELQKRFILNLPTFSVRIIDKNG-IHDLDNI  194 (199)
T ss_dssp             EECSEEEESHHHHHHHHHHHHHCCTTC--CHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEEETTE-EECCCCB
T ss_pred             EeeeeeeecccchhhhHHHHHhccCCC--CHHHHHHHHHHHHHHHHHhcCCcCCceEEEEEcCCC-eEEcCCc
Confidence            999999999999999999999999999  99999999999999999864   7899999999997 8877653

>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=99.94  E-value=5.6e-26  Score=173.36  Aligned_cols=136  Identities=17%  Similarity=0.274  Sum_probs=127.2

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|..+|++.+.++++.++..|++.++.++++..+++.++..+|.++    .+|++++++++|||.+|+|.+|.+||+|++
T Consensus        55 aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~  130 (213)
T d1iru1_          55 SGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRR----FFPYYVYNIIGGLDEEGKGAVYSFDPVGSY  130 (213)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTT----TSCCCEEEEEEEECTTSCEEEEEECTTSCE
T ss_pred             cCccchHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHH----hhhcccccceEEEecCCCcEEEecCCccee
Confidence            5899999999999999999999999999999999999999987554    579999999999999999999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcc---------cccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEEEcCC
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYK---------SEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVMRHGK  142 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~---------~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii~~~~  142 (174)
                      .+++++++|+|+..+++.|++.|.         ++|  |++||++++.+||..+.+++   ++.++|++++++|
T Consensus       131 ~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~~~~~--s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G  202 (213)
T d1iru1_         131 QRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPL--SLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEG  202 (213)
T ss_dssp             EEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCC--CHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTE
T ss_pred             eecCeeeecCccHHHHHHHHHhhcccchhcccccCC--CHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCC
Confidence            999999999999999999998875         567  99999999999999999864   6889999999997

>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=99.38  E-value=1.9e-13  Score=100.89  Aligned_cols=124  Identities=10%  Similarity=-0.010  Sum_probs=87.8

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|..+|.+.+.+.++.+...+....     ...+.............+....++.+....+|++..+ +.++..+++|  
T Consensus        53 ~g~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~--  124 (180)
T d2z3ba1          53 AGSVADAFTLFEKFEAKLEEYNGNL-----KRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSG-TGEVIEPDDG--  124 (180)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHTTTCH-----HHHHHHHHHHHHHCTTGGGCCCCEEEECSSCEEEECT-TCCEECCSSS--
T ss_pred             chHHHHHHHHHHHHHHHHHhhcccc-----chhHHHHHHHHhHHHHHHHhhcceeeeeccccccccC-Cceeeccccc--
Confidence            5778899998888777765543222     2222222222222222333445566666667776544 7777777666  


Q ss_pred             eeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNLEIAVM  138 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~ii  138 (174)
                          +.|+|+|+.+|++.|+..|+++|  +.+||++++.+||+.|.++|   ++.++|.+|
T Consensus       125 ----~~a~GSGs~~A~g~l~~~~~~~~--s~~eA~~l~~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         125 ----ILAIGSGGNYALAAGRALKKHAG--ESMSASEIARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             ----EEEESTTHHHHHHHHHHHHHHHG--GGCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             ----EEEEcCchHHHHHHHHHHhhcCC--CccCHHHHHHHHHHHHHhhcEEcCCcEEEEEe
Confidence                67999999999999999999999  99999999999999999875   677877665

>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=99.09  E-value=4.7e-11  Score=86.75  Aligned_cols=121  Identities=10%  Similarity=-0.068  Sum_probs=81.6

Q ss_pred             CCchHHHHHHHHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCcceeeeeEEEEeCCCCceEEEeCCCCce
Q psy13966          1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIY   80 (174)
Q Consensus         1 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~t~~~~~RP~gv~~il~G~D~~g~~~Ly~vd~~G~~   80 (174)
                      +|..+|.+.+......+...+....     ........+..+..+     ..++....++.+++ +++|.++..|+.|..
T Consensus        46 ~g~~ad~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~-~~~~~~~~~d~~g~~  114 (171)
T d1m4ya_          46 FAGSVADAMTLFDRFEAKLREWGGN-----LTKAAVELAKDWRTD-----RVLRRLEALLLVAD-KENIFIISGNGEVIQ  114 (171)
T ss_dssp             EESCHHHHHHHHHHHHHHHHHTTTC-----HHHHHHHHHHHHHHC-----TTGGGCCCEEEEEC-SSCEEEECTTSCEEC
T ss_pred             EeechhhHHHHHHHHHHHHHHhhcc-----chhhHHHHHHHHHHh-----hhhcccccccceec-CCcceEEecCCceee
Confidence            3677888887776665554433221     122222222222211     22333344444455 567999999999999


Q ss_pred             eeeeeEecCcChHHHHHHHHhhccc-ccccCHHHHHHHHHHHHHHHhhcC---CCcEEEEE
Q psy13966         81 YEWKANATGRSAKTVREFLEKFYKS-EEMTTEKATIKLAIRALLEVVQSG---QKNLEIAV  137 (174)
Q Consensus        81 ~~~~~~aiG~gs~~a~~~Lek~~~~-~~~~s~~eai~l~~~~l~~~~~~~---~~~iei~i  137 (174)
                      ....+.|+|+|+.+|++.|+..+++ ++     +|.+++.+||..|.++|   +++|+|..
T Consensus       115 ~~~~~~a~GSGs~~A~g~l~~~~~~~~~-----~a~el~~~Ai~~A~e~dvyTg~~~~i~~  170 (171)
T d1m4ya_         115 PDDDAAAIGSGGPYALAAAKALLRNTDL-----SAREIVEKAMTIAGEICIYTNQNIVIEE  170 (171)
T ss_dssp             CSSSEEEESTTHHHHHHHHHHHHHHCCC-----CHHHHHHHHHHHHHHHCTTCCSCCEEEE
T ss_pred             ecCCEEEEcchHHHHHHHHHhhccCCCC-----CHHHHHHHHHHHHHhhceEcCCcEEEEE
Confidence            9999999999999999999987753 55     46778999999888875   67887754

>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=99.03  E-value=4.2e-10  Score=81.81  Aligned_cols=78  Identities=12%  Similarity=-0.023  Sum_probs=64.9

Q ss_pred             eeeEEEEeCCCCceEEEeCCCCceeeeeeEecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHhhcC---CCcE
Q psy13966         57 SCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSG---QKNL  133 (174)
Q Consensus        57 ~~il~G~D~~g~~~Ly~vd~~G~~~~~~~~aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l~~~~~~~---~~~i  133 (174)
                      ...+.|+|.++++.++..|+.|.+.+..+.|+|+|+.+|++.|+.+++  +  +.++|.+++.+||..|.++|   +++|
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~--~~~~A~ela~~Ai~~Aae~dvyTgd~~  167 (173)
T d1g3ka_          92 EAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--N--TELSAHEIVEKSLRIAGDICVFTNTNF  167 (173)
T ss_dssp             CCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--H--CCCCHHHHHHHHHHHHHHHCTTCCSCC
T ss_pred             ccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--c--CCCCHHHHHHHHHHHHHhhcEEcCCcE
Confidence            344555666788999999999999999999999999999999998885  3  44578889999999998875   6788


Q ss_pred             EEEEE
Q psy13966        134 EIAVM  138 (174)
Q Consensus       134 ei~ii  138 (174)
                      +|-.|
T Consensus       168 ~i~~~  172 (173)
T d1g3ka_         168 TIEEL  172 (173)
T ss_dssp             EEEEE
T ss_pred             EEEEC
Confidence            87654

>d1cuka1 a.5.1.1 (A:156-203) DNA helicase RuvA subunit, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: DNA helicase RuvA subunit, C-terminal domain
family: DNA helicase RuvA subunit, C-terminal domain
domain: DNA helicase RuvA subunit, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=85.56  E-value=0.31  Score=26.75  Aligned_cols=34  Identities=21%  Similarity=0.360  Sum_probs=29.6

Q ss_pred             ecCcChHHHHHHHHhhcccccccCHHHHHHHHHHHH
Q psy13966         87 ATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRAL  122 (174)
Q Consensus        87 aiG~gs~~a~~~Lek~~~~~~~~s~~eai~l~~~~l  122 (174)
                      +.|+....+...+.+...+++  +.++.|..+++++
T Consensus        14 ~LGY~~~ea~~av~~i~~~~~--s~E~lIk~ALk~m   47 (48)
T d1cuka1          14 ALGYKPQEASRMVSKIARPDA--SSETLIREALRAA   47 (48)
T ss_dssp             HHTCCHHHHHHHHHHSCCSSC--CHHHHHHHHHHTT
T ss_pred             HcCCCHHHHHHHHHHhcCCCC--CHHHHHHHHHHHh
Confidence            469999999999999988888  9999998888754