Citrus Sinensis ID: 029111

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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-------180-------190-------20
Protein Sequence
MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSGQETVKLAIRALLEVSC
Secondary Structure (PSIPRED)
ccccccccccccccccHHHHHHHHHHHHccccEEEEEEccEEEEEEEEccccccccccccccEEEEcccEEEEEEcccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHcccccccccEEEEEEEcccccccEEEEEcccccccccEEEEEccccHHHHHHHHHHcccccHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccHcccccccEcccccEHHHHHHHHHHcccccEEEEEccccEEEEEEcccccccEcHHHcccEEEEEccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHccccccccEccccEEEEEEEEEcccEcEEEEEEcccccEEEEcEEEEcccHHHHHHHHHcccccccccccHHHHHHHHHHccc
Coil and Loop (DISEMBL)
marydraitvfspdghlFQVEYALEAVRKgnaavgvrGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEcqshrltvedpvTVEYITRYIAGLQQKytqsggvrpfglstlivgfdpytgvpslyqtdpsgtfsawkanatgrnsNSIREFLEKNYKETSGQETVKLAIRALLEVSC
Flexible Loop (DISEMBL)
marydraitvfspdghlFQVEYALEAVRKGNAAVGVRGTDIVVLGVekksavklqdsrmvRKIVSLDNHIALACAGLKADARVLVNRARiecqshrltvedpvtVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKanatgrnsnsIREFLEknyketsgqetvKLAIRALLEVSC
Low Complexity Region (SEG)
MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSGQETVKLAIRALLEVSC
Disordered region (IsUnstruct)
*****RAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK*****************************LAIRA******
Disordered Region (DISOPRED)
*ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSGQETVKLAIRALLEVS*
Disordered Region (DISEMBL)
MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSGQETVKLAIRALLEVSC
Disordered Region (DISPRO)
***YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSGQETVKLAIRALLEVSC
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSGQETVKLAIRALLEVSC
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	199	2.2.26 [Sep-21-2011]
Q9SXU1	249	Proteasome subunit alpha	N/A	no	0.989	0.791	0.944	1e-108
O24030	259	Proteasome subunit alpha	N/A	no	0.989	0.760	0.944	1e-107
P30186	250	Proteasome subunit alpha	yes	no	0.989	0.788	0.928	1e-106
O24616	250	Proteasome subunit alpha	yes	no	0.989	0.788	0.928	1e-106
Q6YT00	249	Proteasome subunit alpha	yes	no	0.989	0.791	0.918	1e-105
A2YXU2	249	Proteasome subunit alpha	N/A	no	0.989	0.791	0.918	1e-105
Q0J006	249	Proteasome subunit alpha	yes	no	0.989	0.791	0.918	1e-105
A2Z3I9	249	Proteasome subunit alpha	N/A	no	0.989	0.791	0.918	1e-105
Q4R7D9	250	Proteasome subunit alpha	N/A	no	0.979	0.78	0.733	6e-83
Q9CWH6	250	Proteasome subunit alpha	yes	no	0.979	0.78	0.723	1e-82

>sp|Q9SXU1|PSA7_CICAR Proteasome subunit alpha type-7 OS=Cicer arietinum GN=PAD1 PE=2 SV=1

 Score =  389 bits (999), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 186/197 (94%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVLGVEKKS  KLQD+R V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDNVVLGVEKKSTAKLQDTRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVL+NRAR+ECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLINRARVECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYTG PSLYQTDPSGTFSAWKANATGRNSNSIREFLEKN+KE
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTGSPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNFKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

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.
Cicer arietinum (taxid: 3827)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|O24030|PSA7_SOLLC Proteasome subunit alpha type-7 OS=Solanum lycopersicum GN=PAD1 PE=2 SV=1

 Score =  388 bits (996), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 186/197 (94%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYA+EAVRKGNAAVGVRGTD VVLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYAMEAVRKGNAAVGVRGTDTVVLGVEKKSTPKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVLVN+ARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLVNKARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLI+GFDP+TGVPSLYQTDPSGTFSAWKANATGRNSNS REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIIGFDPHTGVPSLYQTDPSGTFSAWKANATGRNSNSTREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

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.

Solanum lycopersicum (taxid: 4081)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P30186|PSA7A_ARATH Proteasome subunit alpha type-7-A OS=Arabidopsis thaliana GN=PAD1 PE=1 SV=1

 Score =  384 bits (987), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 183/197 (92%), Positives = 190/197 (96%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVL VEKKS  KLQDSR  
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTVVLAVEKKSTPKLQDSRSA 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIVSLDNHIALACAGLKADARVL+N+ARIECQSHRLT+EDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVSLDNHIALACAGLKADARVLINKARIECQSHRLTLEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYT +P+LYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTRIPALYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           ++GQETVKLAIRALLEV
Sbjct: 181 SAGQETVKLAIRALLEV 197

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. Mediates the association of the SCF(TIR1) E3 ubiquitin ligase complex with the proteasome.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O24616|PSA7B_ARATH Proteasome subunit alpha type-7-B OS=Arabidopsis thaliana GN=PAD2 PE=1 SV=2

 Score =  384 bits (986), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 183/197 (92%), Positives = 190/197 (96%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVL VEKKS  KLQDSR  
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTVVLAVEKKSTPKLQDSRSA 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIVSLDNHIALACAGLKADARVL+N+ARIECQSHRLT+EDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVSLDNHIALACAGLKADARVLINKARIECQSHRLTLEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPY+ +PSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYSRLPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           +SGQET+KLAIRALLEV
Sbjct: 181 SSGQETIKLAIRALLEV 197

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q6YT00|PSA7A_ORYSJ Proteasome subunit alpha type-7-A OS=Oryza sativa subsp. japonica GN=Os08g0548900 PE=2 SV=1

 Score =  380 bits (977), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 181/197 (91%), Positives = 189/197 (95%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVLGVEKKS  KLQDSR +
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTVVLGVEKKSTPKLQDSRSM 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKI SLD HIALACAGLKADARVL+NRAR+ECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIASLDTHIALACAGLKADARVLINRARVECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYT  P+LYQTDPSGTFSAWKANATGRNSNS+REFLEKNYK+
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTEKPALYQTDPSGTFSAWKANATGRNSNSMREFLEKNYKD 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSG+ET+KLAIRALLEV
Sbjct: 181 TSGKETIKLAIRALLEV 197

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

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|A2YXU2|PSA7A_ORYSI Proteasome subunit alpha type-7-A OS=Oryza sativa subsp. indica GN=OsI_029135 PE=2 SV=2

 Score =  380 bits (977), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 181/197 (91%), Positives = 189/197 (95%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVLGVEKKS  KLQDSR +
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTVVLGVEKKSTPKLQDSRSM 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKI SLD HIALACAGLKADARVL+NRAR+ECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIASLDTHIALACAGLKADARVLINRARVECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYT  P+LYQTDPSGTFSAWKANATGRNSNS+REFLEKNYK+
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTEKPALYQTDPSGTFSAWKANATGRNSNSMREFLEKNYKD 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSG+ET+KLAIRALLEV
Sbjct: 181 TSGKETIKLAIRALLEV 197

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

Oryza sativa subsp. indica (taxid: 39946)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q0J006|PSA7B_ORYSJ Proteasome subunit alpha type-7-B OS=Oryza sativa subsp. japonica GN=PAD1 PE=2 SV=1

 Score =  379 bits (972), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 181/197 (91%), Positives = 188/197 (95%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRG+D VVLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGSDTVVLGVEKKSTPKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKI SLD HIALACAGLKADARVL+NRAR+ECQSHRLTVED VTVEYITRYIAGLQQKYT
Sbjct: 61  RKIASLDTHIALACAGLKADARVLINRARVECQSHRLTVEDAVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYT  P+LYQTDPSGTFSAWKANATGRNSNS+REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTDKPALYQTDPSGTFSAWKANATGRNSNSMREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSG+ET+KLAIRALLEV
Sbjct: 181 TSGKETIKLAIRALLEV 197

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

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|A2Z3I9|PSA7B_ORYSI Proteasome subunit alpha type-7-B OS=Oryza sativa subsp. indica GN=PAD1 PE=2 SV=1

 Score =  379 bits (972), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 181/197 (91%), Positives = 188/197 (95%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRG+D VVLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGSDTVVLGVEKKSTPKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKI SLD HIALACAGLKADARVL+NRAR+ECQSHRLTVED VTVEYITRYIAGLQQKYT
Sbjct: 61  RKIASLDTHIALACAGLKADARVLINRARVECQSHRLTVEDAVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYT  P+LYQTDPSGTFSAWKANATGRNSNS+REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTDKPALYQTDPSGTFSAWKANATGRNSNSMREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSG+ET+KLAIRALLEV
Sbjct: 181 TSGKETIKLAIRALLEV 197

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

Oryza sativa subsp. indica (taxid: 39946)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q4R7D9|PSA7L_MACFA Proteasome subunit alpha type-7-like OS=Macaca fascicularis GN=PSMA7L PE=2 SV=1

 Score =  306 bits (784), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 146/199 (73%), Positives = 170/199 (85%), Gaps = 4/199 (2%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           +RYDRAITVFSPDGHLFQVEYA EAV+KG+ AVG+RGT+IVVLGVEKKS  KLQD R VR
Sbjct: 3   SRYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGIRGTNIVVLGVEKKSVAKLQDERTVR 62

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI +LD+H+ +A AGL ADARV++NRAR+ECQSH+LTVEDPVTVEYITR+IA L+QKYTQ
Sbjct: 63  KICALDDHVCMAFAGLTADARVVINRARVECQSHKLTVEDPVTVEYITRFIATLKQKYTQ 122

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE- 180
           S G RPFG+S LIVGFD   G+P LYQTDPSGT+ AWKANA GR++ ++REFLEKNY E 
Sbjct: 123 SNGRRPFGISALIVGFDD-DGIPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTED 181

Query: 181 --TSGQETVKLAIRALLEV 197
              S  E +KLAI+ALLEV
Sbjct: 182 AIASDNEAIKLAIKALLEV 200

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.

Macaca fascicularis (taxid: 9541)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  305 bits (782), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 144/199 (72%), Positives = 172/199 (86%), Gaps = 4/199 (2%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           +RYDRAITVFSPDGHLFQVEYA EAV+KG+ AVG+RGT+IVVLGVEKKS  KLQD R VR
Sbjct: 3   SRYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGIRGTNIVVLGVEKKSVAKLQDERTVR 62

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI +LD+H+ +A AGL ADARV+++RAR+ECQSH+LTVEDPVTVEYITR+IA L+QKYTQ
Sbjct: 63  KICALDDHVCMAFAGLTADARVVISRARVECQSHKLTVEDPVTVEYITRFIATLKQKYTQ 122

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE- 180
           S G RPFG+S LIVGFD   G+P LYQTDPSGT+ AWKANA GR++ ++REFLEKNY E 
Sbjct: 123 SNGRRPFGISALIVGFDD-DGIPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTED 181

Query: 181 --TSGQETVKLAIRALLEV 197
             ++ +E +KLAI+ALLEV
Sbjct: 182 AISNDKEAIKLAIKALLEV 200

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: 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	199
225428005	249	PREDICTED: proteasome subunit alpha type	0.989	0.791	0.949	1e-107
225431090	249	PREDICTED: proteasome subunit alpha type	0.989	0.791	0.954	1e-107
255579983	249	proteasome subunit alpha type, putative	0.989	0.791	0.939	1e-107
356502736	249	PREDICTED: proteasome subunit alpha type	0.989	0.791	0.954	1e-107
76160964	249	proteasome, alpha subunit-like protein [	0.989	0.791	0.949	1e-106
449434142	249	PREDICTED: proteasome subunit alpha type	0.989	0.791	0.944	1e-106
449495162	211	PREDICTED: proteasome subunit alpha type	1.0	0.943	0.929	1e-106
77999287	249	proteasome-like protein alpha subunit [S	0.989	0.791	0.944	1e-106
12229936	249	RecName: Full=Proteasome subunit alpha t	0.989	0.791	0.944	1e-106
82621184	249	proteasome-like protein alpha subunit-li	0.989	0.791	0.944	1e-106

>gi|225428005|ref|XP_002278162.1| PREDICTED: proteasome subunit alpha type-7 [Vitis vinifera] gi|297744621|emb|CBI37883.3| unnamed protein product [Vitis vinifera]

 Score =  393 bits (1009), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 187/197 (94%), Positives = 193/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD +VLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTIVLGVEKKSTAKLQDSRTV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVL+NRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLINRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLI+GFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNS+REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIIGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSMREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225431090|ref|XP_002264052.1| PREDICTED: proteasome subunit alpha type-7 [Vitis vinifera] gi|297734987|emb|CBI17349.3| unnamed protein product [Vitis vinifera]

 Score =  393 bits (1009), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 188/197 (95%), Positives = 193/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD +VLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTIVLGVEKKSTAKLQDSRTV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVL+NRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLINRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNS+REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSMREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255579983|ref|XP_002530826.1| proteasome subunit alpha type, putative [Ricinus communis] gi|223529618|gb|EEF31566.1| proteasome subunit alpha type, putative [Ricinus communis]

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 185/197 (93%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD+VVLGVEKKS  KLQD+R V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDVVVLGVEKKSTAKLQDARTV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIVSLDNH+AL CAGLKADARVL+NRAR+ECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVSLDNHVALVCAGLKADARVLINRARVECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYTG+PSLYQTDPSG FSAWKANATGRNSNS+REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTGIPSLYQTDPSGAFSAWKANATGRNSNSMREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356502736|ref|XP_003520172.1| PREDICTED: proteasome subunit alpha type-7-like isoform 1 [Glycine max] gi|356502738|ref|XP_003520173.1| PREDICTED: proteasome subunit alpha type-7-like isoform 2 [Glycine max]

 Score =  392 bits (1006), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 188/197 (95%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDNVVLGVEKKSTAKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LDNHIALACAGLKADARVL+NRAR+ECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDNHIALACAGLKADARVLINRARVECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYTG PSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK+
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTGSPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKD 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|76160964|gb|ABA40445.1| proteasome, alpha subunit-like protein [Solanum tuberosum]

 Score =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 187/197 (94%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYA+EAVRKGNAAVGVRGTD VVLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYAMEAVRKGNAAVGVRGTDTVVLGVEKKSTPKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LDNHIALACAGLKADARVLVN+ARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDNHIALACAGLKADARVLVNKARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLI+GFDP+TGVPSLYQTDPSGTFSAWKANATGRNSNS REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIIGFDPHTGVPSLYQTDPSGTFSAWKANATGRNSNSTREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434142|ref|XP_004134855.1| PREDICTED: proteasome subunit alpha type-7-like [Cucumis sativus] gi|449491326|ref|XP_004158862.1| PREDICTED: proteasome subunit alpha type-7-like [Cucumis sativus]

 Score =  390 bits (1002), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 186/197 (94%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD +VLGVEKK+  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTIVLGVEKKATPKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVL+NRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLINRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLI+GFDPYTG PSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIIGFDPYTGAPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449495162|ref|XP_004159752.1| PREDICTED: proteasome subunit alpha type-7-like [Cucumis sativus]

 Score =  390 bits (1002), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 185/199 (92%), Positives = 193/199 (96%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRG+D +VLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGSDTIVLGVEKKSTPKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVL+NRAR+ECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLINRARVECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLI+GFDPYTG PSLYQTDPSGTFS+WKANATGRNSNSIREFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIIGFDPYTGTPSLYQTDPSGTFSSWKANATGRNSNSIREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEVSC 199
           TSGQETVKLAIRALLE SC
Sbjct: 181 TSGQETVKLAIRALLEASC 199

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|77999287|gb|ABB16990.1| proteasome-like protein alpha subunit [Solanum tuberosum]

 Score =  389 bits (999), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 186/197 (94%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYA+EAVRKGNAAVGVRGTD VVLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYAMEAVRKGNAAVGVRGTDTVVLGVEKKSTPKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVLVN+ARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLVNKARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLI+GFDP+TGVPSLYQTDPSGTFSAWKANATGRNSNS REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIIGFDPHTGVPSLYQTDPSGTFSAWKANATGRNSNSTREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|12229936|sp|Q9SXU1.1|PSA7_CICAR RecName: Full=Proteasome subunit alpha type-7; AltName: Full=20S proteasome alpha subunit D; AltName: Full=20S proteasome subunit alpha-4 gi|4586592|dbj|BAA76428.1| multicatalytic endopeptidase complex [Cicer arietinum]

 Score =  389 bits (999), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 186/197 (94%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVLGVEKKS  KLQD+R V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDNVVLGVEKKSTAKLQDTRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVL+NRAR+ECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLINRARVECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLIVGFDPYTG PSLYQTDPSGTFSAWKANATGRNSNSIREFLEKN+KE
Sbjct: 121 QSGGVRPFGLSTLIVGFDPYTGSPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNFKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Cicer arietinum

Species: Cicer arietinum

Genus: Cicer

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|82621184|gb|ABB86280.1| proteasome-like protein alpha subunit-like [Solanum tuberosum]

 Score =  389 bits (999), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 186/197 (94%), Positives = 192/197 (97%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           MARYDRAITVFSPDGHLFQVEYA+EAVRKGNAAVGVRGTD VVLGVEKKS  KLQDSR V
Sbjct: 1   MARYDRAITVFSPDGHLFQVEYAMEAVRKGNAAVGVRGTDTVVLGVEKKSTPKLQDSRSV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
           RKIV+LD+HIALACAGLKADARVLVN+ARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT
Sbjct: 61  RKIVNLDDHIALACAGLKADARVLVNKARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           QSGGVRPFGLSTLI+GFDP+TGVPSLYQTDPSGTFSAWKANATGRNSNS REFLEKNYKE
Sbjct: 121 QSGGVRPFGLSTLIIGFDPHTGVPSLYQTDPSGTFSAWKANATGRNSNSTREFLEKNYKE 180

Query: 181 TSGQETVKLAIRALLEV 197
           TSGQETVKLAIRALLEV
Sbjct: 181 TSGQETVKLAIRALLEV 197

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	199
TAIR|locus:2080833	250	PAD1 "20S proteasome alpha sub	0.989	0.788	0.928	4.8e-94
TAIR|locus:2156962	250	PAD2 "proteasome alpha subunit	0.989	0.788	0.928	6.1e-94
UNIPROTKB|E2RF52	250	PSMA8 "Proteasome subunit alph	0.979	0.78	0.738	9.3e-75
UNIPROTKB|F1SBA5	250	PSMA8 "Proteasome subunit alph	0.979	0.78	0.733	4e-74
ZFIN|ZDB-GENE-040426-2194	251	psma8 "proteasome (prosome, ma	0.979	0.776	0.728	4e-74
UNIPROTKB|Q9PTW9	251	psma7 "Proteasome subunit alph	0.979	0.776	0.723	1.1e-73
MGI|MGI:1920927	250	Psma8 "proteasome (prosome, ma	0.979	0.78	0.723	1.4e-73
DICTYBASE|DDB_G0272831	250	psmA7 "proteasome subunit alph	0.979	0.78	0.709	5.9e-73
UNIPROTKB|Q3ZBG0	248	PSMA7 "Proteasome subunit alph	0.969	0.778	0.725	2.5e-72
UNIPROTKB|O14818	248	PSMA7 "Proteasome subunit alph	0.969	0.778	0.725	2.5e-72

TAIR|locus:2080833 PAD1 "20S proteasome alpha subunit PAD1" [Arabidopsis thaliana (taxid:3702)]

 Score = 936 (334.5 bits), Expect = 4.8e-94, P = 4.8e-94
 Identities = 183/197 (92%), Positives = 190/197 (96%)

Query:     1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
             MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVL VEKKS  KLQDSR  
Sbjct:     1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTVVLAVEKKSTPKLQDSRSA 60

Query:    61 RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             RKIVSLDNHIALACAGLKADARVL+N+ARIECQSHRLT+EDPVTVEYITRYIAGLQQKYT
Sbjct:    61 RKIVSLDNHIALACAGLKADARVLINKARIECQSHRLTLEDPVTVEYITRYIAGLQQKYT 120

Query:   121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
             QSGGVRPFGLSTLIVGFDPYT +P+LYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE
Sbjct:   121 QSGGVRPFGLSTLIVGFDPYTRIPALYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180

Query:   181 TSGQETVKLAIRALLEV 197
             ++GQETVKLAIRALLEV
Sbjct:   181 SAGQETVKLAIRALLEV 197

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=ISM

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

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005819 "spindle" evidence=IDA

GO:0009524 "phragmoplast" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0000502 "proteasome complex" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0006096 "glycolysis" evidence=RCA

GO:0006833 "water transport" evidence=RCA

GO:0006972 "hyperosmotic response" evidence=RCA

GO:0007030 "Golgi organization" evidence=RCA

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

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

GO:0009853 "photorespiration" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

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

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

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

TAIR|locus:2156962 PAD2 "proteasome alpha subunit D2" [Arabidopsis thaliana (taxid:3702)]

 Score = 935 (334.2 bits), Expect = 6.1e-94, P = 6.1e-94
 Identities = 183/197 (92%), Positives = 190/197 (96%)

Query:     1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
             MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTD VVL VEKKS  KLQDSR  
Sbjct:     1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDTVVLAVEKKSTPKLQDSRSA 60

Query:    61 RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             RKIVSLDNHIALACAGLKADARVL+N+ARIECQSHRLT+EDPVTVEYITRYIAGLQQKYT
Sbjct:    61 RKIVSLDNHIALACAGLKADARVLINKARIECQSHRLTLEDPVTVEYITRYIAGLQQKYT 120

Query:   121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
             QSGGVRPFGLSTLIVGFDPY+ +PSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE
Sbjct:   121 QSGGVRPFGLSTLIVGFDPYSRLPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180

Query:   181 TSGQETVKLAIRALLEV 197
             +SGQET+KLAIRALLEV
Sbjct:   181 SSGQETIKLAIRALLEV 197

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=ISM

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

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0009507 "chloroplast" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0000502 "proteasome complex" evidence=IDA

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

 Score = 754 (270.5 bits), Expect = 9.3e-75, P = 9.3e-75
 Identities = 147/199 (73%), Positives = 170/199 (85%)

Query:     2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             +RYDRAITVFSPDGHLFQVEYA EAV+KG+ AVG+RGTDIVVLGVEKKS  KLQD R VR
Sbjct:     3 SRYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGIRGTDIVVLGVEKKSVAKLQDERTVR 62

Query:    62 KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
             KI +LD+H+ +A AGL ADARV++NRAR+ECQSH+LTVEDPVTVEYITR+IA L+QKYTQ
Sbjct:    63 KICALDDHVCMAFAGLTADARVVINRARVECQSHKLTVEDPVTVEYITRFIATLKQKYTQ 122

Query:   122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE- 180
             S G RPFG+S LIVGFD   G+P LYQTDPSGT+ AWKANA GR++ ++REFLEKNY E 
Sbjct:   123 SNGRRPFGISALIVGFDD-DGIPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTED 181

Query:   181 --TSGQETVKLAIRALLEV 197
                +  E +KLAIRALLEV
Sbjct:   182 AIANDNEAIKLAIRALLEV 200

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

UNIPROTKB|F1SBA5 PSMA8 "Proteasome subunit alpha type" [Sus scrofa (taxid:9823)]

 Score = 748 (268.4 bits), Expect = 4.0e-74, P = 4.0e-74
 Identities = 146/199 (73%), Positives = 169/199 (84%)

Query:     2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             +RYDRAITVFSPDGHLFQVEYA EAV+KG+ AV +RGTDIVVLGVEKKS  KLQD R VR
Sbjct:     3 SRYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVAIRGTDIVVLGVEKKSVAKLQDERTVR 62

Query:    62 KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
             KI +LD+H+ +A AGL ADARV++NRAR+ECQSH+LTVEDPVTVEYITR+IA L+QKYTQ
Sbjct:    63 KICALDDHVCMAFAGLTADARVVINRARVECQSHKLTVEDPVTVEYITRFIATLKQKYTQ 122

Query:   122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE- 180
             S G RPFG+S LIVGFD   G+P LYQTDPSGT+ AWKANA GR++ ++REFLEKNY E 
Sbjct:   123 SNGRRPFGISALIVGFDD-DGIPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTED 181

Query:   181 --TSGQETVKLAIRALLEV 197
                +  E +KLAIRALLEV
Sbjct:   182 AIANDNEAIKLAIRALLEV 200

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

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

 Score = 748 (268.4 bits), Expect = 4.0e-74, P = 4.0e-74
 Identities = 145/199 (72%), Positives = 168/199 (84%)

Query:     2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             ARYDRAITVFSPDGHLFQVEYA EAV+KG+ AVG+RG DIVVLGVEKKS  KLQ+ R VR
Sbjct:     3 ARYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGIRGKDIVVLGVEKKSVAKLQEERTVR 62

Query:    62 KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
             KI +LD H+ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQ
Sbjct:    63 KICALDEHVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIATLKQRYTQ 122

Query:   122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE- 180
             S G RPFG+S LIVGFD Y G P LYQTDPSGT+ AWKANA GR++ ++REFLEKNY + 
Sbjct:   123 SNGRRPFGISALIVGFD-YDGTPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTDE 181

Query:   181 --TSGQETVKLAIRALLEV 197
                S  + +KLAI+ALLEV
Sbjct:   182 AIASDNDAIKLAIKALLEV 200

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

 Score = 744 (267.0 bits), Expect = 1.1e-73, P = 1.1e-73
 Identities = 144/199 (72%), Positives = 168/199 (84%)

Query:     2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             ARYDRAITVFSPDGHLFQVEYA EAV+KG+ AVG+RG DIVVLGVEKKS  KLQ+ R VR
Sbjct:     3 ARYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGIRGKDIVVLGVEKKSVAKLQEERTVR 62

Query:    62 KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
             KI +LD H+ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQ
Sbjct:    63 KICALDEHVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIATLKQRYTQ 122

Query:   122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE- 180
             S G RPFG+S LIVGFD + G P LYQTDPSGT+ AWKANA GR++ ++REFLEKNY + 
Sbjct:   123 SNGRRPFGISALIVGFD-FDGTPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTDE 181

Query:   181 --TSGQETVKLAIRALLEV 197
                S  + +KLAI+ALLEV
Sbjct:   182 AIASDNDAIKLAIKALLEV 200

GO:0005839 "proteasome core complex" evidence=ISS

MGI|MGI:1920927 Psma8 "proteasome (prosome, macropain) subunit, alpha type, 8" [Mus musculus (taxid:10090)]

 Score = 743 (266.6 bits), Expect = 1.4e-73, P = 1.4e-73
 Identities = 144/199 (72%), Positives = 172/199 (86%)

Query:     2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             +RYDRAITVFSPDGHLFQVEYA EAV+KG+ AVG+RGT+IVVLGVEKKS  KLQD R VR
Sbjct:     3 SRYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGIRGTNIVVLGVEKKSVAKLQDERTVR 62

Query:    62 KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
             KI +LD+H+ +A AGL ADARV+++RAR+ECQSH+LTVEDPVTVEYITR+IA L+QKYTQ
Sbjct:    63 KICALDDHVCMAFAGLTADARVVISRARVECQSHKLTVEDPVTVEYITRFIATLKQKYTQ 122

Query:   122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE- 180
             S G RPFG+S LIVGFD   G+P LYQTDPSGT+ AWKANA GR++ ++REFLEKNY E 
Sbjct:   123 SNGRRPFGISALIVGFDD-DGIPRLYQTDPSGTYHAWKANAIGRSAKTVREFLEKNYTED 181

Query:   181 --TSGQETVKLAIRALLEV 197
               ++ +E +KLAI+ALLEV
Sbjct:   182 AISNDKEAIKLAIKALLEV 200

GO:0000502 "proteasome complex" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

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

DICTYBASE|DDB_G0272831 psmA7 "proteasome subunit alpha type 7" [Dictyostelium discoideum (taxid:44689)]

 Score = 737 (264.5 bits), Expect = 5.9e-73, P = 5.9e-73
 Identities = 139/196 (70%), Positives = 171/196 (87%)

Query:     2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             ARYDRAITVFSPDGHLFQVEYA+EAVRKG  AVGVRG D++VLGVEKK+  KLQD+R +R
Sbjct:     4 ARYDRAITVFSPDGHLFQVEYAMEAVRKGTVAVGVRGKDVIVLGVEKKATAKLQDARSIR 63

Query:    62 KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
             KIV LD+HI L  AGL AD+RVL+++A +ECQS+RLTVED  +VEYI+++IAG+QQ+YTQ
Sbjct:    64 KIVKLDDHICLTFAGLTADSRVLISKALMECQSYRLTVEDSPSVEYISKFIAGIQQRYTQ 123

Query:   122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
             SGGVRPFG+STLIVGFD   G P+LYQTDPSG++S+WKA A GR+S S+ EFLEKNY + 
Sbjct:   124 SGGVRPFGISTLIVGFDT-DGTPNLYQTDPSGSYSSWKAAAIGRSSKSVGEFLEKNYTDV 182

Query:   182 SGQETVKLAIRALLEV 197
             S +E++KLA+RALLE+
Sbjct:   183 SEEESIKLAVRALLEI 198

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

GO:0006508 "proteolysis" evidence=IEA;IDA

GO:0005737 "cytoplasm" evidence=IEA;IDA

GO:0005634 "nucleus" evidence=IEA;IDA

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

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

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

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

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

 Score = 731 (262.4 bits), Expect = 2.5e-72, P = 2.5e-72
 Identities = 143/197 (72%), Positives = 166/197 (84%)

Query:     4 YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
             YDRAITVFSPDGHLFQVEYA EAV+KG+ AVGVRG DIVVLGVEKKS  KLQD R VRKI
Sbjct:     3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVEKKSVAKLQDERTVRKI 62

Query:    64 VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
              +LD+++ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQS 
Sbjct:    63 CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122

Query:   124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG 183
             G RPFG+S LIVGFD + G P LYQTDPSGT+ AWKANA GR + S+REFLEKNY + + 
Sbjct:   123 GRRPFGISALIVGFD-FDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAI 181

Query:   184 QE---TVKLAIRALLEV 197
             +    T+KL I+ALLEV
Sbjct:   182 ETDDLTIKLVIKALLEV 198

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|O14818 PSMA7 "Proteasome subunit alpha type-7" [Homo sapiens (taxid:9606)]

 Score = 731 (262.4 bits), Expect = 2.5e-72, P = 2.5e-72
 Identities = 143/197 (72%), Positives = 166/197 (84%)

Query:     4 YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
             YDRAITVFSPDGHLFQVEYA EAV+KG+ AVGVRG DIVVLGVEKKS  KLQD R VRKI
Sbjct:     3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62

Query:    64 VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
              +LD+++ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQS 
Sbjct:    63 CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122

Query:   124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG 183
             G RPFG+S LIVGFD + G P LYQTDPSGT+ AWKANA GR + S+REFLEKNY + + 
Sbjct:   123 GRRPFGISALIVGFD-FDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAI 181

Query:   184 QE---TVKLAIRALLEV 197
             +    T+KL I+ALLEV
Sbjct:   182 ETDDLTIKLVIKALLEV 198

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

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005839 "proteasome core complex" evidence=ISS

GO:0000502 "proteasome complex" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

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

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

GO:0000209 "protein polyubiquitination" evidence=TAS

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

GO:0000278 "mitotic cell cycle" evidence=TAS

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

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

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

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

GO:0006915 "apoptotic process" evidence=TAS

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

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

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

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

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

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

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

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

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

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

GO:0042802 "identical protein binding" evidence=IPI

---

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)
O59219	PSA_PYRHO	3, ., 4, ., 2, 5, ., 1	0.5206	0.9547	0.7307	yes	no
Q9SXU1	PSA7_CICAR	3, ., 4, ., 2, 5, ., 1	0.9441	0.9899	0.7911	N/A	no
P30186	PSA7A_ARATH	3, ., 4, ., 2, 5, ., 1	0.9289	0.9899	0.788	yes	no
P34120	PSA7_DICDI	3, ., 4, ., 2, 5, ., 1	0.7091	0.9798	0.78	yes	no
O13268	PSA7_CHICK	3, ., 4, ., 2, 5, ., 1	0.7055	0.9698	0.7751	yes	no
Q4R7D9	PSA7L_MACFA	3, ., 4, ., 2, 5, ., 1	0.7336	0.9798	0.78	N/A	no
P40303	PSA4_YEAST	3, ., 4, ., 2, 5, ., 1	0.6188	0.9899	0.7755	yes	no
Q95005	PSA7_CAEEL	3, ., 4, ., 2, 5, ., 1	0.61	0.9849	0.7747	yes	no
Q0J006	PSA7B_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.9187	0.9899	0.7911	yes	no
Q8TAA3	PSA7L_HUMAN	3, ., 4, ., 2, 5, ., 1	0.7073	0.9798	0.7617	yes	no
A2Z3I9	PSA7B_ORYSI	3, ., 4, ., 2, 5, ., 1	0.9187	0.9899	0.7911	N/A	no
Q9V122	PSA_PYRAB	3, ., 4, ., 2, 5, ., 1	0.5154	0.9547	0.7307	yes	no
O24616	PSA7B_ARATH	3, ., 4, ., 2, 5, ., 1	0.9289	0.9899	0.788	yes	no
Q9PVY6	PSA7A_XENLA	3, ., 4, ., 2, 5, ., 1	0.7157	0.9698	0.7782	N/A	no
Q9PTW9	PSA7_CARAU	3, ., 4, ., 2, 5, ., 1	0.7236	0.9798	0.7768	N/A	no
Q10329	PSA4_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5808	0.9899	0.7606	yes	no
O24030	PSA7_SOLLC	3, ., 4, ., 2, 5, ., 1	0.9441	0.9899	0.7606	N/A	no
O29760	PSA_ARCFU	3, ., 4, ., 2, 5, ., 1	0.5197	0.8743	0.7073	yes	no
Q9PVQ1	PSA7B_XENLA	3, ., 4, ., 2, 5, ., 1	0.7157	0.9698	0.7813	N/A	no
P22769	PSA71_DROME	3, ., 4, ., 2, 5, ., 1	0.66	0.9849	0.7871	yes	no
Q6YT00	PSA7A_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.9187	0.9899	0.7911	yes	no
A2YXU2	PSA7A_ORYSI	3, ., 4, ., 2, 5, ., 1	0.9187	0.9899	0.7911	N/A	no
Q9CWH6	PSA7L_MOUSE	3, ., 4, ., 2, 5, ., 1	0.7236	0.9798	0.78	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.979
3rd Layer	3.4.25	0.983

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00036109001	RecName- Full=Proteasome subunit alpha type; EC=3.4.25.1;; The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity (By similarity) (249 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00015420001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (191 aa)			•	•	•	•	•		0.954
	GSVIVG00024499001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (245 aa)				•	•	•	•		0.933
	GSVIVG00014791001	SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_1, whole genome shotg [...] (309 aa)				•	•	•	•		0.924
	GSVIVG00023752001	SubName- Full=Putative uncharacterized protein (Chromosome chr7 scaffold_31, whole genome shotg [...] (205 aa)				•	•	•	•		0.911
	GSVIVG00010470001	SubName- Full=Chromosome chr17 scaffold_263, whole genome shotgun sequence; (386 aa)				•	•	•			0.903
	GSVIVG00026350001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (223 aa)			•	•	•	•	•		0.897
	GSVIVG00035048001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (272 aa)			•	•	•	•	•	•	0.876
	GSVIVG00030725001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (250 aa)			•	•	•	•	•	•	0.865
	GSVIVG00036762001	SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (440 aa)				•	•	•	•		0.858
	GSVIVG00006696001	SubName- Full=Chromosome chr2 scaffold_176, whole genome shotgun sequence; (267 aa)				•	•	•	•		0.799

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	199
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	1e-135
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-107
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	4e-89
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	4e-82
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	8e-79
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	7e-69
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	3e-64
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	1e-63
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	3e-58
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	9e-57
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	2e-56
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	1e-55
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	1e-53
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	2e-51
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	5e-49
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	8e-36
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	3e-18
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	1e-16
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	9e-16
pfam10584	23	pfam10584, Proteasome_A_N, Proteasome subunit A N-	6e-12
smart00948	23	smart00948, Proteasome_A_N, Proteasome subunit A N	1e-11
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	1e-06
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	1e-04
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	5e-04
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	0.001

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score =  375 bits (966), Expect = e-135
 Identities = 158/195 (81%), Positives = 171/195 (87%), Gaps = 2/195 (1%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDGHLFQVEYA EAVRKG  AVGVRG D VVLGVEKKS  KLQD R VRKI
Sbjct: 1   YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKI 60

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             LD+H+ LA AGL ADARVL+NRAR+ECQSHRLTVEDPVTVEYITRYIAGLQQ+YTQSG
Sbjct: 61  CMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSG 120

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-S 182
           GVRPFG+STLIVGFDP  G P LYQTDPSGT+SAWKANA GRNS ++REFLEKNYKE  +
Sbjct: 121 GVRPFGISTLIVGFDPD-GTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMT 179

Query: 183 GQETVKLAIRALLEV 197
             +T+KLAI+ALLEV
Sbjct: 180 RDDTIKLAIKALLEV 194

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 =  305 bits (783), Expect = e-107
 Identities = 113/195 (57%), Positives = 140/195 (71%), Gaps = 2/195 (1%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDR+IT FSP+G LFQVEYALEAV+ G+ AVG++G D VVL VEKK   KL D   V KI
Sbjct: 1   YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKI 60

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+HI  A AGL ADARVLVNRAR+E Q++R T  +P+ VE + + IA L Q YTQ G
Sbjct: 61  FKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYG 120

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-S 182
           GVRPFG+S LI G+D   G P LYQTDPSGT+  +KA A G+ S   + FLEK YK+  +
Sbjct: 121 GVRPFGVSLLIAGYDEEGG-PQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLT 179

Query: 183 GQETVKLAIRALLEV 197
            +E +KLA++AL EV
Sbjct: 180 LEEAIKLALKALKEV 194

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 =  260 bits (668), Expect = 4e-89
 Identities = 102/199 (51%), Positives = 139/199 (69%), Gaps = 3/199 (1%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
              YDRAIT+FSPDG L+QVEYA EAV++G  AVGV+  D VVL V+K+    L +   +
Sbjct: 7   QMGYDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSI 66

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
            KI  +D+HI  A AGL ADARVL++RAR+E Q +RLT  +P+ VE +T+ I   +Q+YT
Sbjct: 67  EKIFKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYT 126

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           Q GGVRPFG++ LI G D   G P L++TDPSG +  +KA A G   +++ EFLEKNYKE
Sbjct: 127 QHGGVRPFGVALLIAGVDD--GGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYKE 184

Query: 181 T-SGQETVKLAIRALLEVS 198
             S +E ++LA++AL + +
Sbjct: 185 DLSLEEAIELALKALAKAN 203

Length = 241

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

 Score =  242 bits (621), Expect = 4e-82
 Identities = 101/192 (52%), Positives = 134/192 (69%), Gaps = 3/192 (1%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDG L+QVEYA EAV++G  AVG++  D VVL V+K+   KL +   + KI
Sbjct: 3   YDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKI 62

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+HI  A +GL ADARVL++RARIE Q +RLT  +P+ VE + + I  L+Q+YTQ G
Sbjct: 63  FKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHG 122

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-S 182
           GVRPFG++ LI G D   G P L++TDPSG    +KA A G    ++ EFLEK Y+E  S
Sbjct: 123 GVRPFGVALLIAGVD--DGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLS 180

Query: 183 GQETVKLAIRAL 194
             E ++LA++AL
Sbjct: 181 LDEAIELALKAL 192

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

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score =  234 bits (598), Expect = 8e-79
 Identities = 99/192 (51%), Positives = 137/192 (71%), Gaps = 3/192 (1%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDG L+QVEYA EAV++G  A+G++  + VVL V+K+   KL +   + KI
Sbjct: 2   YDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKI 61

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+H+  A +GL ADARVL++RAR+E Q HRLT  +P+ VE + + I  L+Q+YTQ G
Sbjct: 62  YKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHG 121

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE-TS 182
           GVRPFG++ LI G D   G P L++TDPSG ++ +KA A G    ++ EFLEK YKE  S
Sbjct: 122 GVRPFGVALLIAGVDD--GGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMS 179

Query: 183 GQETVKLAIRAL 194
            +E ++LA++AL
Sbjct: 180 LEEAIELALKAL 191

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

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

 Score =  209 bits (534), Expect = 7e-69
 Identities = 96/199 (48%), Positives = 132/199 (66%), Gaps = 7/199 (3%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNA-AVGVRGTDIVVLGVEKKSAVKLQD-SRM 59
           A YDRAIT+FSP+G LFQVEYALEAV++G    VG++G D VVL  +K++   L   S  
Sbjct: 1   AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSN 60

Query: 60  VRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKY 119
           V KI  +D+HI +A AGL ADA+VLV  AR E Q +RL   +P++VE + + ++ + Q+Y
Sbjct: 61  VEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEY 120

Query: 120 TQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK 179
           TQS   RP+G+S L+ G D   G P LY TDPSG+++ +KA A G  S     FLEK Y+
Sbjct: 121 TQS--GRPYGVSLLVAGVDD--GGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYR 176

Query: 180 ET-SGQETVKLAIRALLEV 197
           E  S +E ++LA++AL   
Sbjct: 177 EDLSLEEAIELAVKALRAA 195

Length = 236

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  197 bits (503), Expect = 3e-64
 Identities = 87/194 (44%), Positives = 115/194 (59%), Gaps = 3/194 (1%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           Y  ++T FSP G L Q+EYAL AV  G  +VG++  + VVL  EKK    L D   V K+
Sbjct: 1   YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKV 60

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +  HI +  +G+  D RVLV +AR   Q + L   +P+ V  + R IA + Q+YTQSG
Sbjct: 61  EQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSG 120

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG 183
           GVRPFG+S LI G+D   G P LYQ DPSG++  WKA A G+N ++ + FLEK Y E   
Sbjct: 121 GVRPFGVSLLIAGWD--EGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLE 178

Query: 184 QE-TVKLAIRALLE 196
            E  +  AI  L E
Sbjct: 179 LEDAIHTAILTLKE 192

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

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  195 bits (498), Expect = 1e-63
 Identities = 82/194 (42%), Positives = 124/194 (63%), Gaps = 3/194 (1%)

Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVR 61
           RYD   T+FSP+G L+QVEYA+EA+      +G+   D +VL  EKK   KL D S    
Sbjct: 2   RYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSE 61

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  +D+HIA A AG+ +DA +L+N AR+  Q +  + ++P+ VE + + +  ++Q YTQ
Sbjct: 62  KIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQ 121

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GG+RPFG+S L  G+D + G   LYQ+DPSG +S WKA A G N+ + +  L+++YK+ 
Sbjct: 122 YGGLRPFGVSFLYAGWDKHYGF-QLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDD 180

Query: 182 SG-QETVKLAIRAL 194
              +E + LA++ L
Sbjct: 181 MTLEEALALAVKVL 194

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

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

 Score =  180 bits (460), Expect = 3e-58
 Identities = 77/174 (44%), Positives = 103/174 (59%), Gaps = 5/174 (2%)

Query: 27  VRKGNAAVGVRGTDIVVLGVEKKSAV--KLQDSRMVRKIVSLDNHIALACAGLKADARVL 84
           V+ G   VG++G D VVL  +K++    KL     V KI  +D+HI +A AGL ADA+ L
Sbjct: 1   VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60

Query: 85  VNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVP 144
           V+ AR E Q +RL    P++VE + + IA   Q YTQ  G RP+G+S LI G+D   G P
Sbjct: 61  VDYARAEAQLYRLRYGRPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLIAGYDE-DGGP 118

Query: 145 SLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEV 197
            LY  DPSG+   +KA A G  S     FLEK YK   + +E V+LA++AL E 
Sbjct: 119 HLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEA 172

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

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

 Score =  179 bits (455), Expect = 9e-57
 Identities = 84/194 (43%), Positives = 121/194 (62%), Gaps = 3/194 (1%)

Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVR 61
           RYD   T FSP+G L+QVEYALEA+   +  VG+   + V+LG +K  + KL D  ++  
Sbjct: 4   RYDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINE 63

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  +D+HI  A AGL ADA +L+N+ R+  Q +R T  +P  VE +   I  L+Q YTQ
Sbjct: 64  KIYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQ 123

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE- 180
            GG+RPFG+S L  G+D   G   LY TDPSG +S WKA A G+N+ + +  L++ +KE 
Sbjct: 124 FGGLRPFGVSFLFAGYDENLGY-QLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKED 182

Query: 181 TSGQETVKLAIRAL 194
            + ++ + LA + L
Sbjct: 183 LTLEQGLLLAAKVL 196

Length = 253

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score =  177 bits (450), Expect = 2e-56
 Identities = 83/200 (41%), Positives = 124/200 (62%), Gaps = 8/200 (4%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDR +  FSP+G LFQVEYA+EA++ G+ A+G++  + VVL VEK+    L +   V KI
Sbjct: 1   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKI 60

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
           + +D+HI  A +GL ADAR L++ AR+E Q+HR T  +P+TVE +T+ ++ L  ++ +  
Sbjct: 61  MEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGD 120

Query: 124 GV-----RPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY 178
                  RPFG++ LI G D     P L+ TDPSGTF+   A A G  S   +  L++ Y
Sbjct: 121 DGKKAMSRPFGVALLIAGVDENG--PQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKY 178

Query: 179 -KETSGQETVKLAIRALLEV 197
            K+ + +E  KLA+  L +V
Sbjct: 179 HKDMTLEEAEKLALSILKQV 198

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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score =  174 bits (444), Expect = 1e-55
 Identities = 81/196 (41%), Positives = 118/196 (60%), Gaps = 7/196 (3%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD  +T +SP G LFQVEYA+EAV++G+A VG++     VL   K++  +L  S   +KI
Sbjct: 1   YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL--SSYQKKI 58

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+HI +A AGL ADARVL    R EC ++R   + P+ V  +   +A   Q  TQ  
Sbjct: 59  FKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRY 118

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKN---YKE 180
           G RP+G+  LI G+D     P L+QT PSG +  +KA + G  S S R +LE++   +++
Sbjct: 119 GRRPYGVGLLIAGYDESG--PHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFED 176

Query: 181 TSGQETVKLAIRALLE 196
            S +E +K A+RAL E
Sbjct: 177 CSLEELIKHALRALRE 192

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  168 bits (429), Expect = 1e-53
 Identities = 70/167 (41%), Positives = 96/167 (57%), Gaps = 5/167 (2%)

Query: 33  AVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            VG++G D VVL  +K+    L   S  V KI  +D+HI  A AGL ADA+ LV R R E
Sbjct: 3   IVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKE 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            Q +RL   +P+ VE + + +A L  +YTQS  +RP G+S L+ G D   G P LY  DP
Sbjct: 63  AQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGG-PQLYSVDP 119

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLEV 197
           SG++  +KA A G  S      LEK YK   + +E ++LA++AL   
Sbjct: 120 SGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSA 166

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|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score =  163 bits (416), Expect = 2e-51
 Identities = 76/195 (38%), Positives = 108/195 (55%), Gaps = 3/195 (1%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD + + FSPDG +FQVEYA +AV     A+G+R  D VVL VEK    KL +    ++I
Sbjct: 4   YDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRI 63

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
            ++D HI +A AGL AD R LV+RAR E +++R     P+ V+ +   +A     YT   
Sbjct: 64  FNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYS 123

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK-NYKETS 182
            VRPFG S L+ G+D     P LY  +PSG    +   A G+   + +  LEK  + E +
Sbjct: 124 SVRPFGCSVLLGGYDSDG--PQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELT 181

Query: 183 GQETVKLAIRALLEV 197
            +E VK A + +  V
Sbjct: 182 CREAVKEAAKIIYIV 196

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 =  158 bits (402), Expect = 5e-49
 Identities = 76/197 (38%), Positives = 108/197 (54%), Gaps = 7/197 (3%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGN-AAVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
           +DR IT+FSP+G L+QVEYA +AV+     +V VRG D  V+  +KK   KL D   V  
Sbjct: 2   FDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTH 61

Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           +  + + I     G+ AD+R  V RAR E    +      + V+ + + IA + Q YTQ 
Sbjct: 62  LFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQH 121

Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE-- 180
             +RP G+S +++G D   G P LY+ DP+G F+ +KA A G        FLEK  K+  
Sbjct: 122 AYMRPLGVSMILIGIDEELG-PQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKP 180

Query: 181 ---TSGQETVKLAIRAL 194
               S +ETV+LAI  L
Sbjct: 181 DLIESYEETVELAISCL 197

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

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

 Score =  122 bits (309), Expect = 8e-36
 Identities = 62/167 (37%), Positives = 89/167 (53%), Gaps = 8/167 (4%)

Query: 33  AVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
           +V ++G   VVL  +K+ +  L      V KI   ++ IA   AGL ADA+ LV R R  
Sbjct: 3   SVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREA 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            Q +RL   +P++V  + + +A L Q YTQ    RPFG++ ++ G D   G  +LY  DP
Sbjct: 63  LQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDE--GGGNLYYIDP 117

Query: 152 SGTFSAW-KANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLE 196
           SG       A ATG  S   +  LEK YK   + +E V+LA++AL  
Sbjct: 118 SGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALKS 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|238893 cd01912, proteasome_beta, proteasome beta subunit

 Score = 77.9 bits (193), Expect = 3e-18
 Identities = 47/167 (28%), Positives = 78/167 (46%), Gaps = 11/167 (6%)

Query: 34  VGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           VG++G D VVL  + + SA  L  SR   KI  + ++I L  AG  AD + L    +   
Sbjct: 4   VGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNL 63

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
           + + L     ++V+     ++ +   Y +     P+ +S ++ G D   G P LY  DP 
Sbjct: 64  RLYELRNGRELSVKAAANLLSNILYSY-RGF---PYYVSLIVGGVDKGGG-PFLYYVDPL 118

Query: 153 GTFSAWKAN--ATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLE 196
           G+    +A   ATG  S      L++ YK   + +E V+L  +A+  
Sbjct: 119 GSLI--EAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDS 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 = 189

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

 Score = 73.8 bits (182), Expect = 1e-16
 Identities = 53/164 (32%), Positives = 79/164 (48%), Gaps = 8/164 (4%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            VG+   D VVL  +K+ S      S+ V+KI  +D+ IA+  AG   DA+ LV   + E
Sbjct: 3   TVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAE 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            + + L    P++++ +   ++ +      S    P+ +  LI G D     P LY  DP
Sbjct: 63  ARLYELRRGRPMSIKALATLLSNI----LNSSKYFPYIVQLLIGGVD--EEGPHLYSLDP 116

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRAL 194
            G+    K  ATG  S      LE  YKE  + +E  KLAIRA+
Sbjct: 117 LGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAI 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 = 71.5 bits (176), Expect = 9e-16
 Identities = 52/167 (31%), Positives = 81/167 (48%), Gaps = 8/167 (4%)

Query: 30  GNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   VG++  D VVL  +K+ S      S+  +K+  +D++IA+  AG   DA+ LV   
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 89  RIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQ 148
           + E + + L    P++V+ +   ++ +      S    PF +  L+ G D   G P LY 
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNI----LNSNRFFPFIVQLLVGGVDE-EG-PHLYS 114

Query: 149 TDPSGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRAL 194
            DP+G        ATG  S      LE  Y+E  S +E  KLA+RA+
Sbjct: 115 LDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAI 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|204518 pfam10584, Proteasome_A_N, Proteasome subunit A N-terminal signature

 Score = 57.0 bits (139), Expect = 6e-12
 Identities = 17/23 (73%), Positives = 21/23 (91%)

Query: 4  YDRAITVFSPDGHLFQVEYALEA 26
          YDR++T FSPDG LFQVEYA++A
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMKA 23

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

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

 Score = 56.4 bits (137), Expect = 1e-11
 Identities = 18/23 (78%), Positives = 21/23 (91%)

Query: 4  YDRAITVFSPDGHLFQVEYALEA 26
          YDR++T FSPDG LFQVEYA+EA
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMEA 23

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

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

 Score = 46.8 bits (112), Expect = 1e-06
 Identities = 40/177 (22%), Positives = 74/177 (41%), Gaps = 27/177 (15%)

Query: 34  VGVRGTDIVVL---GVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD---------A 81
           +G++G D V+L       +S + L+D     KI  L +H  +AC+G   D          
Sbjct: 5   IGIKGKDFVILAADTSAARSILVLKDD--EDKIYKLSDHKLMACSGEAGDRLQFAEYIQK 62

Query: 82  RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYT 141
            + + + R     +   +       +  R +A    +  +S    P+ ++ L+ G+D   
Sbjct: 63  NIQLYKMR-----NGYELSPKAAANFTRRELA----ESLRSRT--PYQVNLLLAGYDKVE 111

Query: 142 GVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEV 197
           G PSLY  D  GT       A G  +      L++ YK   + +E ++L  + + E+
Sbjct: 112 G-PSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKCIKEL 167

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

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

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 29/118 (24%), Positives = 49/118 (41%), Gaps = 5/118 (4%)

Query: 57  SRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQ 116
           SR   KI  L +   L  +G +AD   L  R +   + ++ +    ++    T  IA L 
Sbjct: 36  SRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMS----TEAIAQLL 91

Query: 117 QKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFL 174
                S    P+ +  ++ G D   G   +Y  DP G++     +A G  S+ I+  L
Sbjct: 92  STILYSRRFFPYYVFNILAGIDE-EGKGVVYSYDPVGSYERETYSAGGSASSLIQPLL 148

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

 Score = 39.1 bits (92), Expect = 5e-04
 Identities = 43/164 (26%), Positives = 63/164 (38%), Gaps = 9/164 (5%)

Query: 34  VGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           VGV   D VVLG + ++    +   +   KI  +  +I    AG  AD   + N      
Sbjct: 4   VGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNL 63

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
           + HRL       V      +     +Y   G +   G + ++ G D YTG P LY   P 
Sbjct: 64  ELHRLNTGRKPRVVTALTMLKQHLFRY--QGHI---GAALVLGGVD-YTG-PHLYSIYPH 116

Query: 153 GTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALL 195
           G+         G  S +    LE  YK   + +E  KL   A+ 
Sbjct: 117 GSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIE 160

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|239731 cd03762, proteasome_beta_type_6, proteasome beta type-6 subunit

 Score = 37.6 bits (88), Expect = 0.001
 Identities = 30/140 (21%), Positives = 51/140 (36%), Gaps = 9/140 (6%)

Query: 57  SRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQ 116
           +R+  K+  L + I    +G  AD + + +  R     H + + +P  V+        L 
Sbjct: 28  NRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLC 87

Query: 117 QKYTQSGGVRPFGLSTLIV-GFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLE 175
             Y      +    + +IV G+D   G   +Y     G          G  S  I  +++
Sbjct: 88  YNY------KEMLSAGIIVAGWDEQNG-GQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVD 140

Query: 176 KNYKETSGQE-TVKLAIRAL 194
            NYK     E  +K    AL
Sbjct: 141 ANYKPGMTLEECIKFVKNAL 160

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	199
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0181	233	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0178	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	100.0
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	100.0
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	99.97
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.97
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	99.97
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.96
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.96
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	99.51
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.43
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.28
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	95.31
KOG3361	157	consensus Iron binding protein involved in Fe-S cl	81.97
COG4079	293	Uncharacterized protein conserved in archaea [Func	81.92

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=7.3e-60  Score=376.16  Aligned_cols=194  Identities=39%  Similarity=0.557  Sum_probs=187.9

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      .+||+.+|+|||||||+|+|||++|+++|+|+|||+++||||||+|++.++.+...++.+||++|++|++++++|+.+|+
T Consensus         2 ~~yd~~~t~fsp~Grl~Qveya~~a~~~G~tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   81 (212)
T cd03751           2 TGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLADG   81 (212)
T ss_pred             CCccCCCceECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEEccccccccCcchhcceeEecCcEEEEEEEChHhH
Confidence            58999999999999999999999999999999999999999999999998877777789999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+++++|.+++.|++.+|++++++.++++|++++|.|++++++|||++++||+|||  ++||+||.+||+|++.+++++
T Consensus        82 ~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D--~~gp~Ly~~D~~Gs~~~~~~~  159 (212)
T cd03751          82 RHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYD--SDGPQLYMIEPSGVSYGYFGC  159 (212)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEe--CCcCEEEEECCCCCEEeeEEE
Confidence            999999999999999999999999999999999999999999999999999999999  468999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      |+|+|+..++++||+.|+++|| +||+++++++|+++
T Consensus       160 a~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~  196 (212)
T cd03751         160 AIGKGKQAAKTELEKLKFSELTCREAVKEAAKIIYIV  196 (212)
T ss_pred             EECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999 99999999999865

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=1.9e-59  Score=372.73  Aligned_cols=194  Identities=81%  Similarity=1.231  Sum_probs=188.0

Q ss_pred             CCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHH
Q 029111            4 YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARV   83 (199)
Q Consensus         4 yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~   83 (199)
                      ||+++|+|||||||+|+|||++|+++|+|+|||+++||||||+|++.+..++.+++.+||++|++|+++++||+.+|++.
T Consensus         1 ~d~~~~~fsp~Gr~~Qveya~~av~~G~t~Igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (207)
T cd03755           1 YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADARV   80 (207)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCCCCcccCCCccCcEEEECCCEEEEEecchhhHHH
Confidence            89999999999999999999999999999999999999999999998777777778999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEE
Q 029111           84 LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANAT  163 (199)
Q Consensus        84 l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~  163 (199)
                      +.+++|.+++.|++.++++|+++.++++|++++|+|+++++.|||++++||+|||+ +++|+||.+||+|++.+++++++
T Consensus        81 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~-~~~p~Ly~iD~~G~~~~~~~~a~  159 (207)
T cd03755          81 LINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDP-DGTPRLYQTDPSGTYSAWKANAI  159 (207)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeC-CCCeEEEEECCCcCEEcceEEEE
Confidence            99999999999999999999999999999999999999999999999999999997 67999999999999999999999


Q ss_pred             cCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          164 GRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       164 G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      |+|+..++++||+.|+++|+ +||++++++||+++.
T Consensus       160 G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~  195 (207)
T cd03755         160 GRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVV  195 (207)
T ss_pred             CCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999 999999999999763

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

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=7e-59  Score=374.30  Aligned_cols=193  Identities=45%  Similarity=0.715  Sum_probs=187.7

Q ss_pred             CCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHH
Q 029111            4 YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARV   83 (199)
Q Consensus         4 yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~   83 (199)
                      ||+.+|+|||||||+|+|||++|+++|+|+|||+++||||||+|++.+++++.+++.+||++|++|++|+++|..+|++.
T Consensus         1 yd~~~t~fsp~Grl~QveyA~~av~~G~t~igik~~dgVvlaad~~~~~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (227)
T cd03750           1 YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGMVYSGMGPDFRV   80 (227)
T ss_pred             CCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecCCccccCCCCcceEEEEcCCEEEEEeEcHHhHHH
Confidence            89999999999999999999999999999999999999999999999888888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEE
Q 029111           84 LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANAT  163 (199)
Q Consensus        84 l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~  163 (199)
                      +.+++|.+++.|++.+|++++++.++++|++++|.|+++++.|||++++||+|||+  .||+||++||+|++.+++++++
T Consensus        81 l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~--~g~~Ly~~d~~G~~~~~~~~a~  158 (227)
T cd03750          81 LVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDE--GGPYLYQVDPSGSYFTWKATAI  158 (227)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeC--CCCEEEEECCCCCEEeeeEEEE
Confidence            99999999999999999999999999999999999999999999999999999994  6899999999999999999999


Q ss_pred             cCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          164 GRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       164 G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      |+|++.++++||+.|+++|| +||++++++||+++.
T Consensus       159 G~g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~  194 (227)
T cd03750         159 GKNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGF  194 (227)
T ss_pred             CCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999 999999999998653

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=1.1e-58  Score=370.00  Aligned_cols=195  Identities=42%  Similarity=0.710  Sum_probs=187.8

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      ++||+.+|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.+++++. +++.+||++|++|+++++||..+|
T Consensus         1 ~~yd~~~~~fsp~Grl~Qveya~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (213)
T cd03752           1 RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSD   80 (213)
T ss_pred             CCcCCCCceECCCCEEhHHHhHHHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHh
Confidence            4799999999999999999999999999999999999999999999999886655 448999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+.+++|.+++.|+++++++++++.+++.|+..+|.|++.++.|||++++||+|||+ +.||+||.+||+|++.++++
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~-~~g~~ly~~d~~G~~~~~~~  159 (213)
T cd03752          81 ANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDK-HYGFQLYQSDPSGNYSGWKA  159 (213)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeC-CCCCEEEEECCCCCeeeeeE
Confidence            99999999999999999999999999999999999999999999999999999999996 67899999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+|+++..++++||+.|+++|| +||++++++||+++
T Consensus       160 ~a~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~  197 (213)
T cd03752         160 TAIGNNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKT  197 (213)
T ss_pred             EEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999 99999999999876

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=1e-57  Score=364.65  Aligned_cols=195  Identities=39%  Similarity=0.630  Sum_probs=186.5

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhc-CCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRK-GNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~-g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      +||+++|+|||||||+|+|||+||+++ |+|+|||+++||||||+|+|.++.++..++.+||++|++|++|++||+.+|+
T Consensus         1 ~yd~~~~~fsp~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~~Ki~~I~~~i~~~~sG~~~D~   80 (215)
T cd03754           1 GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIGCVMTGMIADS   80 (215)
T ss_pred             CCCCCCeeECCCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCcccCceEEEcCCEEEEEEechhhH
Confidence            699999999999999999999999975 7899999999999999999998877666688999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+.+++|.++..|+++++++++++.+|+++++++|.|+++++.|||++++||+|+|+ ++||+||++||+|++.+++++
T Consensus        81 ~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~-~~gp~Ly~~Dp~Gs~~~~~~~  159 (215)
T cd03754          81 RSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDE-ELGPQLYKCDPAGYFAGYKAT  159 (215)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeC-CCCeEEEEEcCCccEEeEEEE
Confidence            9999999999999999999999999999999999999999999999999999999996 679999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCC--C--c-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKNYKET--S--G-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~--~--s-~ea~~l~~~~l~~~~  198 (199)
                      |+|+|++.++++||+.|+++  |  + +||++++++||+++.
T Consensus       160 a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~  201 (215)
T cd03754         160 AAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVL  201 (215)
T ss_pred             EECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999995  7  9 999999999999763

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=1.5e-57  Score=366.01  Aligned_cols=195  Identities=51%  Similarity=0.846  Sum_probs=188.9

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      |+||.++|+|||||||+|+|||++|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|+++++||+.+|+
T Consensus         1 ~~~~~~~~~f~p~Grl~Qieya~~av~~G~tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   80 (224)
T TIGR03633         1 MGYDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVADA   80 (224)
T ss_pred             CCCCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCccccCCCccceEEEECCCEEEEEeecHHhH
Confidence            68999999999999999999999999999999999999999999999998777777889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+.+.++.++..|+++++++++++.++++|++.+|.|+++++.|||++++||+|+|  +++|+||.+||.|++.+++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d--~~~~~Ly~~D~~G~~~~~~~~  158 (224)
T TIGR03633        81 RVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVD--DGGPRLFETDPSGALLEYKAT  158 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEe--CCcCEEEEECCCCCeecceEE
Confidence            999999999999999999999999999999999999999998999999999999999  578999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      ++|+|+.+++++||+.|+++|+ +||++++++||+++.
T Consensus       159 a~G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~  196 (224)
T TIGR03633       159 AIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAV  196 (224)
T ss_pred             EECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999 999999999998753

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.

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=2.3e-57  Score=361.80  Aligned_cols=193  Identities=51%  Similarity=0.868  Sum_probs=187.3

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADAR   82 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~   82 (199)
                      +||.++|+|||||||+|+|||.||+++|+|+|||+++||||||+|++.++.++..++.+||++|++|+++++||+.+|++
T Consensus         1 ~y~~~~~~fsp~G~l~Q~eya~~av~~G~t~igik~~dgvvla~d~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   80 (211)
T cd03756           1 GYDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGAATSGLVADAR   80 (211)
T ss_pred             CCCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            69999999999999999999999999999999999999999999999987777778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEE
Q 029111           83 VLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANA  162 (199)
Q Consensus        83 ~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a  162 (199)
                      .+.+.++.+++.|+++++++++++.++++|++.+|.|++++++|||++++||+|||  +++|+||.+||+|++.++++++
T Consensus        81 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D--~~~~~ly~vd~~G~~~~~~~~a  158 (211)
T cd03756          81 VLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVD--DGGPRLFETDPSGAYNEYKATA  158 (211)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEe--CCCCEEEEECCCCCeeeeEEEE
Confidence            99999999999999999999999999999999999999999999999999999999  4789999999999999999999


Q ss_pred             EcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          163 TGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       163 ~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+|++.++++||+.|+|+|+ +||++++++||+++
T Consensus       159 ~G~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~  194 (211)
T cd03756         159 IGSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAA  194 (211)
T ss_pred             ECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999 99999999999865

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=3.4e-57  Score=369.89  Aligned_cols=195  Identities=43%  Similarity=0.694  Sum_probs=187.0

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCccccccc-ccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDS-RMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~-~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      .+||+++|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.+++++.. ++.+||++|++|++++++|..+|
T Consensus         3 ~~yd~~~~~fsp~Grl~QvEYA~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   82 (253)
T PTZ00246          3 RRYDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTAD   82 (253)
T ss_pred             CccCCCCceECCCCEEhHHHHHHHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHHH
Confidence            46999999999999999999999999999999999999999999999998866554 46899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+.+.+|.+++.|++.++++++++.++++++..+|.|++++++|||++++||+|||+ +++|+||++||+|++.++++
T Consensus        83 ~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~-~~gp~Ly~~D~~Gs~~~~~~  161 (253)
T PTZ00246         83 ANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDE-NLGYQLYHTDPSGNYSGWKA  161 (253)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeC-CCCcEEEEECCCCCEecceE
Confidence            99999999999999999999999999999999999999999999999999999999996 68999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+|.|+.+++++||+.|+++|+ +||++++++||+++
T Consensus       162 ~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~  199 (253)
T PTZ00246        162 TAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKS  199 (253)
T ss_pred             EEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999 99999999999875

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=3.8e-57  Score=360.51  Aligned_cols=190  Identities=42%  Similarity=0.690  Sum_probs=182.4

Q ss_pred             CCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHH
Q 029111            4 YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARV   83 (199)
Q Consensus         4 yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~   83 (199)
                      ||+++|+|||||||+|+|||++|+++|+|+|||+++||||||+|++.++.+.  ++.+||++|++|+++++||+.+|++.
T Consensus         1 yd~~~t~fsp~Grl~Qveya~~av~~G~t~IgIk~~dgVvlaad~r~~~~l~--~~~~KI~~I~~~i~~~~sG~~~D~~~   78 (211)
T cd03749           1 YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELS--SYQKKIFKVDDHIGIAIAGLTADARV   78 (211)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccCccccC--CccccEEEeCCCEEEEEEeChHhHHH
Confidence            8999999999999999999999999999999999999999999999877653  35699999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEE
Q 029111           84 LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANAT  163 (199)
Q Consensus        84 l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~  163 (199)
                      +.++++.+++.|+++++++++++.+++++++.+|.|+++.+.|||++++||+|||+  .||+||++||+|++.+++++|+
T Consensus        79 l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~--~gp~Ly~~Dp~G~~~~~~~~a~  156 (211)
T cd03749          79 LSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDE--SGPHLFQTCPSGNYFEYKATSI  156 (211)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcC--CCCeEEEECCCcCEeeeeEEEE
Confidence            99999999999999999999999999999999999999989999999999999994  6899999999999999999999


Q ss_pred             cCCcHhHHHHHHhhcc--CCCc-HHHHHHHHHHHhhc
Q 029111          164 GRNSNSIREFLEKNYK--ETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       164 G~g~~~~~~~Le~~~~--~~~s-~ea~~l~~~~l~~~  197 (199)
                      |+|++.++++||+.|+  ++|+ +|++++++++|+++
T Consensus       157 G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~  193 (211)
T cd03749         157 GARSQSARTYLERHFEEFEDCSLEELIKHALRALRET  193 (211)
T ss_pred             CCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999  5999 99999999999875

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

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

Probab=100.00  E-value=4.2e-58  Score=348.11  Aligned_cols=196  Identities=42%  Similarity=0.713  Sum_probs=188.0

Q ss_pred             CCCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         1 ~~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      |+.||+.+|+|||||||||+|||.+|++.|+|.|||+.++||||++++|++++|+.+++++||++|++||+|++||+.+|
T Consensus         5 rseydrgVNTfSpEGRlfQVEYaieAikLGsTaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgca~SGl~aD   84 (241)
T KOG0176|consen    5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGCAMSGLIAD   84 (241)
T ss_pred             HHHhcccccccCCCceeeehhhHHHHHhcCCceeeeeccceEEEEEeccccCcccCchhhhhheehhhceeeeccccccc
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCC-----CcccccceeeeeeeCCCCCceEEEECCCCCe
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGG-----VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTF  155 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~-----~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~  155 (199)
                      .+++++++|.++++|++.||++++++.+.+.++++...|-....     .|||||++++||+|  ++||+||+.||+|++
T Consensus        85 arTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D--~~gpqL~h~dPSGtf  162 (241)
T KOG0176|consen   85 ARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHD--ETGPQLYHLDPSGTF  162 (241)
T ss_pred             hHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeecc--CCCceEEEeCCCCce
Confidence            99999999999999999999999999999999999877765422     48999999999999  689999999999999


Q ss_pred             eeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          156 SAWKANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       156 ~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      .+|++-|+|+|+..|.+.|++.|+++|+ +||+.++++.|+.||
T Consensus       163 ~~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVM  206 (241)
T KOG0176|consen  163 IRYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVM  206 (241)
T ss_pred             EEecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999 999999999999875

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=6.8e-57  Score=358.60  Aligned_cols=194  Identities=58%  Similarity=0.895  Sum_probs=187.7

Q ss_pred             CCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHH
Q 029111            4 YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARV   83 (199)
Q Consensus         4 yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~   83 (199)
                      ||.++|+|||||||+|+|||++++++|+|+|||+++||||+|+|++.+.+++..++.+||++|++|++++++|..+|++.
T Consensus         1 ~~~~~~~f~~~G~~~q~eya~~~~~~G~tvigi~~~dgVvlaaD~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   80 (209)
T cd01911           1 YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADARV   80 (209)
T ss_pred             CCCCCccCCCCCEEeHHHHHHHHHHcCCCEEEEEECCEEEEEEEecCCccccCCcccceEEEecCCeEEEeccCcHhHHH
Confidence            89999999999999999999999999999999999999999999999887766688999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEE
Q 029111           84 LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANAT  163 (199)
Q Consensus        84 l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~  163 (199)
                      +.+.++.++..|+.++|++++++.+++++++.+|.|++++++|||++++||+|||+ +++|+||.+||.|++.+++++++
T Consensus        81 l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~-~~~~~Ly~iD~~G~~~~~~~~a~  159 (209)
T cd01911          81 LVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDE-EGGPQLYQTDPSGTYFGYKATAI  159 (209)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcC-CCCcEEEEECCCCCeeeeeEEEe
Confidence            99999999999999999999999999999999999999999999999999999997 56999999999999999999999


Q ss_pred             cCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          164 GRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       164 G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      |.|+..++++||+.|+++|+ +||++++++||+++.
T Consensus       160 G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~  195 (209)
T cd01911         160 GKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVL  195 (209)
T ss_pred             CCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999 999999999998764

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.

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1e-56  Score=364.76  Aligned_cols=195  Identities=52%  Similarity=0.848  Sum_probs=188.7

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||.++|+|||||||+|+|||.+|+++|+|+|||+++||||||+|++.++.+...++.+||++|++|+++++||..+|+
T Consensus         8 ~~y~~~~~~fsp~Gr~~Q~eya~~av~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   87 (241)
T PRK03996          8 MGYDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAASAGLVADA   87 (241)
T ss_pred             cccCCCCceECCCCeEhHHHHHHHHHHhCCCEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEcccHHHH
Confidence            47999999999999999999999999999999999999999999999998877777889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.++++++.+++.|++.++++++++.+++++++.+|.|+++++.|||++++||||||  ++||+||.+||+|++.+++++
T Consensus        88 ~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d--~~gp~Ly~id~~G~~~~~~~~  165 (241)
T PRK03996         88 RVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVD--DGGPRLFETDPSGAYLEYKAT  165 (241)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEe--CCcCEEEEECCCCCeecceEE
Confidence            999999999999999999999999999999999999999999999999999999999  478999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      |+|.|+..++++||+.|+++|+ +||++++++||+++.
T Consensus       166 a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~  203 (241)
T PRK03996        166 AIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKAN  203 (241)
T ss_pred             EECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999 999999999999764

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=2.3e-56  Score=356.55  Aligned_cols=192  Identities=43%  Similarity=0.731  Sum_probs=184.1

Q ss_pred             CCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHH
Q 029111            4 YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARV   83 (199)
Q Consensus         4 yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~   83 (199)
                      ||+++|+|||||||+|+|||++++++|+|+|||+++||||||+|++.++++...++.+||++|++|++|+++|+.+|++.
T Consensus         1 ~~~~~~~f~p~G~~~Q~eya~~a~~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (213)
T cd03753           1 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGCAMSGLIADART   80 (213)
T ss_pred             CCCCCccCCCCCeEhHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccCCcCcCCCccceEEEEcCCEEEEEecCHHHHHH
Confidence            89999999999999999999999999999999999999999999999877777778999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhccc-----CCCcccccceeeeeeeCCCCCceEEEECCCCCeeee
Q 029111           84 LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS-----GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW  158 (199)
Q Consensus        84 l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~-----~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~  158 (199)
                      +.+.++.+++.|++.+|++++++.++++|++.+|.|++.     .+.|||++++||+|||  ++||+||.+||+|++.++
T Consensus        81 l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D--~~gp~Ly~vd~~G~~~~~  158 (213)
T cd03753          81 LIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVD--ENGPQLFHTDPSGTFTRC  158 (213)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEc--CCCCEEEEECCCCCeecc
Confidence            999999999999999999999999999999999999874     3469999999999999  578999999999999999


Q ss_pred             eEEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          159 KANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       159 ~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +++++|++++.++++||+.|+++|+ +||++++++||+.+
T Consensus       159 ~~~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~  198 (213)
T cd03753         159 DAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQV  198 (213)
T ss_pred             cEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999 99999999999875

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

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

Probab=100.00  E-value=3.3e-54  Score=348.33  Aligned_cols=192  Identities=49%  Similarity=0.802  Sum_probs=184.1

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcC-CcEEEEEeCCEEEEEEeccCccc-ccccccccceEEecCCEEEEEeecHh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKG-NAAVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKA   79 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g-~t~vgi~~~dgVvla~d~~~~~~-l~~~~~~~ki~~i~~~i~~~~sG~~~   79 (199)
                      ++||+.+++|+|||+++|+|||.+++++| +|+|||+++||||||+|+|.+++ ++..++.+||++|+|||+|+++|+.+
T Consensus         1 ~~~~~~~~~fsp~g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~a   80 (236)
T COG0638           1 AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAA   80 (236)
T ss_pred             CCCcCcceeECCCCchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcH
Confidence            47999999999999999999999999875 99999999999999999999985 55666799999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee
Q 029111           80 DARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK  159 (199)
Q Consensus        80 D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~  159 (199)
                      |++.|+++++.+++.|++.+|++|+++.+++++++++|.|+++  .|||++++||+|+|+  ++|+||++||+|++.+++
T Consensus        81 Da~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~rP~gv~~iiaG~d~--~~p~Ly~~Dp~G~~~~~~  156 (236)
T COG0638          81 DAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDD--GGPRLYSTDPSGSYNEYK  156 (236)
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--cccceEEEEEEEEcC--CCCeEEEECCCCceeecC
Confidence            9999999999999999999999999999999999999999987  899999999999994  889999999999999999


Q ss_pred             EEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          160 ANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       160 ~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      ++|+|+|++.++++||+.|+++|+ |||++++++||+++
T Consensus       157 ~~a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al~~a  195 (236)
T COG0638         157 ATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAA  195 (236)
T ss_pred             EEEEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999999 99999999999976

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

Probab=100.00  E-value=1.6e-55  Score=337.73  Aligned_cols=196  Identities=77%  Similarity=1.178  Sum_probs=191.3

Q ss_pred             CCCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         1 ~~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      |++||+-+|+|||||+|||+|||++|+.+|+|+||++++|+|||+.+++...+|++.++..||..+++|++|+++|+.+|
T Consensus         1 msrydraltvFSPDGhL~QVEYAqEAvrkGstaVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld~hV~mafaGl~aD   80 (249)
T KOG0183|consen    1 MSRYDRALTVFSPDGHLFQVEYAQEAVRKGSTAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLDDHVVMAFAGLTAD   80 (249)
T ss_pred             CCccccceEEECCCCCEEeeHhHHHHHhcCceEEEeccCceEEEEEeecchhhhhhhhhhhhheeecceeeEEecCCCcc
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+++++|.+|++|+++.+.+++++.++++++.+.|.|||+.+.||||++.+|+|+|+ ++.|+||++||+|.+.+|++
T Consensus        81 ArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~-~g~p~lyqtePsG~f~ewka  159 (249)
T KOG0183|consen   81 ARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDP-DGTPRLYQTEPSGIFSEWKA  159 (249)
T ss_pred             ceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCC-CCCeeeEeeCCCcchhhhhc
Confidence            99999999999999999999999999999999999999999999999999999999999 78999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCC--Cc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNYKET--SG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~--~s-~ea~~l~~~~l~~~  197 (199)
                      .|+|.+++.++.+|||+|.+.  .+ .++++|++++|.+|
T Consensus       160 ~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleV  199 (249)
T KOG0183|consen  160 NAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEV  199 (249)
T ss_pred             cccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHH
Confidence            999999999999999999976  67 99999999999876

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

Probab=100.00  E-value=1.7e-53  Score=328.07  Aligned_cols=192  Identities=38%  Similarity=0.563  Sum_probs=187.1

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADAR   82 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~   82 (199)
                      +||...++|||+||+||+|||+|||.+++|+|||||||||||++|+..+++|..+...+||+.|++||+|+++|+.+|.+
T Consensus         7 GyDls~s~fSpdGrvfQveYA~KAven~~T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~r~iG~avaGl~~Dg~   86 (254)
T KOG0184|consen    7 GYDLSASTFSPDGRVFQVEYAQKAVENSGTCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVDRHIGMAVAGLIPDGR   86 (254)
T ss_pred             cccccceeeCCCCceehHHHHHHHHhcCCcEEEEecCCeEEEEEeeeecccccccCCCCceEeecccccEEEeccccchH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEE
Q 029111           83 VLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANA  162 (199)
Q Consensus        83 ~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a  162 (199)
                      .+..++|.++.+|+.+++.++|...+++++++..|.||.++..||||++.|+++||  ++||+||.+||+|..+.++++|
T Consensus        87 ~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd--~~g~~LymiepSG~~~~Y~~aa  164 (254)
T KOG0184|consen   87 HLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYD--DEGPQLYMIEPSGSSYGYKGAA  164 (254)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEe--CCCceEEEEcCCCCccceeeee
Confidence            99999999999999999999999999999999999999999999999999999999  6999999999999999999999


Q ss_pred             EcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhh
Q 029111          163 TGRNSNSIREFLEKNYKETSG-QETVKLAIRALLE  196 (199)
Q Consensus       163 ~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~  196 (199)
                      +|.|.+.|++.|||.-..+|+ +|+++.+.+.+..
T Consensus       165 iGKgrq~aKtElEKL~~~~mt~~e~VkeaakIiY~  199 (254)
T KOG0184|consen  165 IGKGRQAAKTELEKLKIDEMTCKELVKEAAKIIYK  199 (254)
T ss_pred             ccchhHHHHHHHHhcccccccHHHHHHHHHheeEe
Confidence            999999999999999889999 9999999888764

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

Probab=100.00  E-value=1.1e-52  Score=317.90  Aligned_cols=193  Identities=42%  Similarity=0.695  Sum_probs=188.8

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADAR   82 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~   82 (199)
                      +|..++|+|||+||+-|+|||+.|+.+|.+.|||+-.||||||++++..+.|.+..+++|++.|.+||+|.+||..+|++
T Consensus         5 ~y~fslTtFSpsGKL~QieyAL~Av~~G~~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~~~IG~vYSGmgpD~R   84 (233)
T KOG0181|consen    5 GYSFSLTTFSPSGKLVQIEYALTAVVNGQTSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKITPHIGCVYSGMGPDYR   84 (233)
T ss_pred             ccceeeEEEcCCCceehHHHHHHHHhCCCCceeeeecCceEEEeccCCCCccchhhhhhhHhhccCCcceEEecCCCcee
Confidence            69999999999999999999999999999999999999999999999999999888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEE
Q 029111           83 VLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANA  162 (199)
Q Consensus        83 ~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a  162 (199)
                      .+++..|+.++.|...|+++||+..|+..++.++|+|||+++.||||++++++|||  +++|.||++||+|++..|+++|
T Consensus        85 vlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~--~~~p~LyQvdPSGsyf~wkatA  162 (233)
T KOG0181|consen   85 VLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWD--EGGPLLYQVDPSGSYFAWKATA  162 (233)
T ss_pred             ehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecC--CCceeEEEECCccceeehhhhh
Confidence            99999999999999999999999999999999999999999999999999999999  5899999999999999999999


Q ss_pred             EcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          163 TGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       163 ~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +|.+...++.+||++|+++|. ++++..++..|++.
T Consensus       163 ~Gkn~v~aktFlEkR~~edleldd~ihtailtlkE~  198 (233)
T KOG0181|consen  163 MGKNYVNAKTFLEKRYNEDLELDDAIHTAILTLKES  198 (233)
T ss_pred             hccCcchHHHHHHHHhccccccchHHHHHHHHHHHH
Confidence            999999999999999999999 99999999999863

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

Probab=100.00  E-value=1.6e-50  Score=309.74  Aligned_cols=196  Identities=39%  Similarity=0.618  Sum_probs=190.0

Q ss_pred             CCCCCCCccccCCCCcchhhhhHHHHHhc-CCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHh
Q 029111            1 MARYDRAITVFSPDGHLFQVEYALEAVRK-GNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKA   79 (199)
Q Consensus         1 ~~~yd~~~~~f~peG~i~q~eya~~av~~-g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~   79 (199)
                      |.+|||++|+|||||||+|+|||.||+++ |-|.||++++|++|+++.++.+.+|++++++..+|+|+.+|+|+++|..+
T Consensus         6 ~agfDrhitIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~itk~ig~v~tG~~a   85 (246)
T KOG0182|consen    6 SAGFDRHITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRITKKIGCVITGMIA   85 (246)
T ss_pred             cCCccceEEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEeeccceEEEecCCc
Confidence            56899999999999999999999999998 67999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee
Q 029111           80 DARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK  159 (199)
Q Consensus        80 D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~  159 (199)
                      |.+..+.++|.++.++++++|.+||++.||++++++.|.|+|+..+||+||.+++.|+|+ +.||.+|.+||.|-+..++
T Consensus        86 Dar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~-E~gP~vYk~DpAGyy~g~k  164 (246)
T KOG0182|consen   86 DARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDE-ERGPSVYKTDPAGYYYGFK  164 (246)
T ss_pred             chHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEecc-ccCcceEeecCccccccce
Confidence            999999999999999999999999999999999999999999999999999999999998 8899999999999999999


Q ss_pred             EEEEcCCcHhHHHHHHhhccCC--Cc-HHHHHHHHHHHhhc
Q 029111          160 ANATGRNSNSIREFLEKNYKET--SG-QETVKLAIRALLEV  197 (199)
Q Consensus       160 ~~a~G~g~~~~~~~Le~~~~~~--~s-~ea~~l~~~~l~~~  197 (199)
                      +++.|.....+..+|||+|+++  ++ +|++++++.||..+
T Consensus       165 AtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~s  205 (246)
T KOG0182|consen  165 ATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSS  205 (246)
T ss_pred             eeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHH
Confidence            9999999999999999999987  78 99999999999764

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

Probab=100.00  E-value=7.7e-50  Score=305.76  Aligned_cols=193  Identities=42%  Similarity=0.678  Sum_probs=184.5

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhhH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      .||.-.|+||||||++|+|||++++.+.+|+|||-.+||||||++++.+++|.+ +...+||++|+|||+|+.+|+.+|+
T Consensus         4 ~ydsrttiFspEGRLyQVEyAmeais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~DA   83 (249)
T KOG0178|consen    4 RYDSRTTIFSPEGRLYQVEYAMEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTSDA   83 (249)
T ss_pred             CcCCcccccCCCcchHHHHHHHHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccccH
Confidence            489999999999999999999999999999999999999999999999997764 4578999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      ..|++.+|..++.|.+.+|+++|.+.|++.|+++.|.|||+++.||||||++-+|||. ..|.+||+.||+|++..|++.
T Consensus        84 nvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~-~~gyqLy~SdPSGny~gWka~  162 (249)
T KOG0178|consen   84 NVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDD-RYGYQLYQSDPSGNYGGWKAT  162 (249)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceec-CcceEEEecCCCCCcccccee
Confidence            9999999999999999999999999999999999999999999999999999999997 778999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCC-c-HHHHHHHHHHHhh
Q 029111          162 ATGRNSNSIREFLEKNYKETS-G-QETVKLAIRALLE  196 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~-s-~ea~~l~~~~l~~  196 (199)
                      ++|.++..++..|+..|+++. + +||..++++.|-.
T Consensus       163 ciG~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~k  199 (249)
T KOG0178|consen  163 CIGANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSK  199 (249)
T ss_pred             eeccchHHHHHHHHhhhccccccHHHHHHHHHHHHHh
Confidence            999999999999999999875 5 9999999998864

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

Probab=100.00  E-value=2.5e-45  Score=284.25  Aligned_cols=192  Identities=40%  Similarity=0.618  Sum_probs=182.3

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ..||.+.|+|||+||++|+|||++|++.|++.||+|.++-.||++-++..+.|  ++.++|||+|++|+++.++|+++|+
T Consensus         4 nqyd~d~t~wsPqGrl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~seL--ss~QkKi~~iD~h~g~siAGLt~Da   81 (264)
T KOG0863|consen    4 NQYDNDVTTWSPQGRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSEL--SSHQKKIFKIDDHIGISIAGLTADA   81 (264)
T ss_pred             ccccCceeEECCcceehHHHHHHHHHhcccceEeecccceEEEeeeccchhHH--HHhhheeEecccccceEEeccCcch
Confidence            35999999999999999999999999999999999999999999999887765  3467899999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.|.++++.+|..+++.+++++++.-+...|.+.+|..||+.+.|||||.++|+|||  +.||+||++.|+|++.+++..
T Consensus        82 rvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYD--e~G~hl~e~~Psg~v~e~~g~  159 (264)
T KOG0863|consen   82 RVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYD--ESGPHLYEFCPSGNVFECKGM  159 (264)
T ss_pred             HHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeec--CCCceeEEEcCCccEEEEeee
Confidence            999999999999999999999999999999999999999999999999999999999  689999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhcc--CCCc-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEKNYK--ETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~--~~~s-~ea~~l~~~~l~~~  197 (199)
                      ++|+.++.++++||++..  ++++ ||.+..++.||++.
T Consensus       160 sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~t  198 (264)
T KOG0863|consen  160 SIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRET  198 (264)
T ss_pred             ecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhh
Confidence            999999999999999776  5889 99999999999864

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=1.1e-43  Score=279.38  Aligned_cols=165  Identities=22%  Similarity=0.326  Sum_probs=156.7

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++ .++.+++.+|||+|++|++++++|..+|++.+.++++.+++.|++.++++++++.++
T Consensus         2 ~t~igi~~~dgVvlaad~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la   81 (193)
T cd03758           2 ETLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAA   81 (193)
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEecCcccEEEeCCCeEEEEccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            7999999999999999999976 667788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++++|.|++. + |||++++||+|||+ +++|+||++||+|++.+++++++|+|+.+++++||+.|+++|| +||++
T Consensus        82 ~~l~~~~~~~~~~-~-rP~~~~~li~G~d~-~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~  158 (193)
T cd03758          82 NFTRRELAESLRS-R-TPYQVNLLLAGYDK-VEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALE  158 (193)
T ss_pred             HHHHHHHHHHhhc-C-CCeEEEEEEEEEcC-CCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHH
Confidence            9999999988754 3 89999999999996 6899999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhcc
Q 029111          189 LAIRALLEVS  198 (199)
Q Consensus       189 l~~~~l~~~~  198 (199)
                      ++.+|++++.
T Consensus       159 l~~~a~~~~~  168 (193)
T cd03758         159 LMKKCIKELK  168 (193)
T ss_pred             HHHHHHHHHH
Confidence            9999998763

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=9.7e-44  Score=280.57  Aligned_cols=167  Identities=18%  Similarity=0.207  Sum_probs=157.1

Q ss_pred             cCCcEEEEEeCCEEEEEEeccCc-ccccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHH-HhhhhcCCCCCHH
Q 029111           29 KGNAAVGVRGTDIVVLGVEKKSA-VKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQ-SHRLTVEDPVTVE  106 (199)
Q Consensus        29 ~g~t~vgi~~~dgVvla~d~~~~-~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~-~~~~~~~~~~~~~  106 (199)
                      +|+|+|||+++||||||+|++.+ ..++.+++.+|||+|++|++++++|..+|++.+++++|.+++ .+++.++++++++
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   80 (197)
T cd03760           1 TGTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPK   80 (197)
T ss_pred             CCceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            58999999999999999999998 478888889999999999999999999999999999999987 4667899999999


Q ss_pred             HHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccC--CCc-
Q 029111          107 YITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE--TSG-  183 (199)
Q Consensus       107 ~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~~s-  183 (199)
                      .+++++++++  |++++++|||++++||||||+ +++|+||++||+|++.+++++|+|+|+.+++++||+.|++  +|| 
T Consensus        81 ~la~~i~~~~--y~~~~~~rP~~v~~iiaG~D~-~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~  157 (197)
T cd03760          81 EIHSYLTRVL--YNRRSKMNPLWNTLVVGGVDN-EGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTE  157 (197)
T ss_pred             HHHHHHHHHH--HHHhhcCCCceEEEEEEEEcC-CCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCH
Confidence            9999999986  778888999999999999995 5899999999999999999999999999999999999999  999 


Q ss_pred             HHHHHHHHHHHhhcc
Q 029111          184 QETVKLAIRALLEVS  198 (199)
Q Consensus       184 ~ea~~l~~~~l~~~~  198 (199)
                      +||++++.+||+.+.
T Consensus       158 eea~~l~~~~l~~~~  172 (197)
T cd03760         158 EEARALIEECMKVLY  172 (197)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999998753

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=1.2e-43  Score=279.54  Aligned_cols=165  Identities=23%  Similarity=0.364  Sum_probs=154.1

Q ss_pred             cCCcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHH
Q 029111           29 KGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEY  107 (199)
Q Consensus        29 ~g~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~  107 (199)
                      +|+|+|||+++||||||+|++.+++++. .++.+|||+|++|++++++|..+|++.++++++.+++.|++.++++++++.
T Consensus         2 ~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   81 (195)
T cd03759           2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKT   81 (195)
T ss_pred             CCceEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            6999999999999999999999887654 557899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee-EEEEcCCcHhHHHHHHhhccCCCc-HH
Q 029111          108 ITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK-ANATGRNSNSIREFLEKNYKETSG-QE  185 (199)
Q Consensus       108 la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s-~e  185 (199)
                      ++++|++.+  |++  +.+||++++||+|||+ +++|+||++||+|++.+++ ++|+|+|++.++++||+.|+++|| +|
T Consensus        82 la~~l~~~l--y~~--r~~P~~v~~ii~G~D~-~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  156 (195)
T cd03759          82 FSSLISSLL--YEK--RFGPYFVEPVVAGLDP-DGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDE  156 (195)
T ss_pred             HHHHHHHHH--HHh--cCCCceEEEEEEEEcC-CCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHH
Confidence            999999998  444  3689999999999997 6789999999999998887 999999999999999999999999 99


Q ss_pred             HHHHHHHHHhhcc
Q 029111          186 TVKLAIRALLEVS  198 (199)
Q Consensus       186 a~~l~~~~l~~~~  198 (199)
                      |++++++||+++.
T Consensus       157 a~~l~~~~l~~~~  169 (195)
T cd03759         157 LFETISQALLSAV  169 (195)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999764

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=6.7e-43  Score=280.83  Aligned_cols=178  Identities=18%  Similarity=0.225  Sum_probs=160.6

Q ss_pred             CCCCcchh-hhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHHHHHHHHH
Q 029111           12 SPDGHLFQ-VEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARI   90 (199)
Q Consensus        12 ~peG~i~q-~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~   90 (199)
                      +||--+-| -|||++|+++|+|+|||+++||||||+|++.       ++.+||++|++||+|+++|+.+|++.+++.++.
T Consensus         8 ~~~~~~~~~~EYA~kav~~g~T~VGIk~kdgVVLaaek~~-------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~   80 (228)
T TIGR03691         8 SPEQIMRDRAELARKGIARGRSVVVLTYADGILFVAENPS-------RSLHKISELYDRIGFAAVGKYNEFENLRRAGIR   80 (228)
T ss_pred             CHHHHHhhHHHHHHHHHHcCCcEEEEEeCCeEEEEEecCC-------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHH
Confidence            44443333 4999999999999999999999999999972       357899999999999999999999999999999


Q ss_pred             HHHHhhhhcC-CCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee-EEEEcCCcH
Q 029111           91 ECQSHRLTVE-DPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK-ANATGRNSN  168 (199)
Q Consensus        91 ~~~~~~~~~~-~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~-~~a~G~g~~  168 (199)
                      +++.|++.++ .+++++.+++.++..++.++ +++.|||+|++||+|||+++.||+||.+||+|++.+++ ++|+|+|++
T Consensus        81 ~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~-~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~  159 (228)
T TIGR03691        81 YADMRGYSYDRRDVTGRGLANAYAQTLGTIF-TEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTE  159 (228)
T ss_pred             HHHHHhhhcCCCCccHHHHHHHHHhhccccc-ccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChH
Confidence            9999999998 68999999998888877666 56789999999999998434789999999999999976 899999999


Q ss_pred             hHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          169 SIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       169 ~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      .++++||+.|+++|| +||++++.+||+++
T Consensus       160 ~a~~~Lek~y~~~ms~eeai~la~~aL~~~  189 (228)
T TIGR03691       160 PIATALKESYRDGLSLADALGLAVQALRAG  189 (228)
T ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999 99999999999876

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.

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=6.2e-43  Score=280.13  Aligned_cols=168  Identities=20%  Similarity=0.288  Sum_probs=157.8

Q ss_pred             cCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHH
Q 029111           29 KGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEY  107 (199)
Q Consensus        29 ~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~  107 (199)
                      +|+|+|||+++||||||+|++.++ +++.+++.+||++|++|++++++|..+|++.+.++++.+++.|++.++++++++.
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~   80 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDG   80 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            489999999999999999999997 7888889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCC-CeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HH
Q 029111          108 ITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSG-TFSAWKANATGRNSNSIREFLEKNYKETSG-QE  185 (199)
Q Consensus       108 la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G-~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~e  185 (199)
                      ++++|++++|.++ ...+|||++++||+|||+++++|+||++||+| ++..++++++|+|++.++++||+.|+++|| +|
T Consensus        81 la~~ls~~~~~~~-~~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~ee  159 (219)
T TIGR03690        81 KANRLAAMVRGNL-PAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDD  159 (219)
T ss_pred             HHHHHHHHHHhhh-hhccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHH
Confidence            9999999998877 44689999999999999623689999999999 577779999999999999999999999999 99


Q ss_pred             HHHHHHHHHhhc
Q 029111          186 TVKLAIRALLEV  197 (199)
Q Consensus       186 a~~l~~~~l~~~  197 (199)
                      |++++.+||+++
T Consensus       160 ai~l~~~al~~~  171 (219)
T TIGR03690       160 ALRVAVEALYDA  171 (219)
T ss_pred             HHHHHHHHHHHH
Confidence            999999999875

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.

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=1e-42  Score=272.89  Aligned_cols=162  Identities=20%  Similarity=0.311  Sum_probs=154.2

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|++.++ .++.+++.+|||+|++|++++++|..+|++.|++++|.+++.|++.+|++|+++.++
T Consensus         1 tT~igi~~kdgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la   80 (188)
T cd03761           1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAAS   80 (188)
T ss_pred             CcEEEEEECCEEEEEEcCCccCCcEEEcCCcceEEEccCcEEEEeCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            5899999999999999999988 677778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++++|.+++    .||++++||+|||  ++||+||++||+|++.+++++++|+|+++++++||+.|+++|| +||++
T Consensus        81 ~~ls~~l~~~~~----~~~~v~~li~G~D--~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~  154 (188)
T cd03761          81 KLLSNMLYQYKG----MGLSMGTMICGWD--KTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYD  154 (188)
T ss_pred             HHHHHHHHhcCC----CCeEEEEEEEEEe--CCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHH
Confidence            999999998754    4899999999999  5789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhcc
Q 029111          189 LAIRALLEVS  198 (199)
Q Consensus       189 l~~~~l~~~~  198 (199)
                      ++.+||+++.
T Consensus       155 l~~~~l~~~~  164 (188)
T cd03761         155 LARRAIYHAT  164 (188)
T ss_pred             HHHHHHHHHH
Confidence            9999998763

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=3.5e-42  Score=269.09  Aligned_cols=163  Identities=29%  Similarity=0.450  Sum_probs=155.1

Q ss_pred             CCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      |+|+|||+++||||||+|++.+. .++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+..++++++++.+
T Consensus         1 G~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (185)
T TIGR03634         1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKAL   80 (185)
T ss_pred             CCcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            78999999999999999999985 77778889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      +++|++.+|.+    ++|||++++||+|||+  +||+||.+||+|++.+++++++|.|+.+++++||+.|+++|| +||+
T Consensus        81 a~~l~~~~~~~----~~rP~~v~~ivaG~d~--~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~  154 (185)
T TIGR03634        81 ATLLSNILNSN----RFFPFIVQLLVGGVDE--EGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAK  154 (185)
T ss_pred             HHHHHHHHHhc----CCCCeEEEEEEEEEeC--CCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHH
Confidence            99999999765    5899999999999994  689999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHhhcc
Q 029111          188 KLAIRALLEVS  198 (199)
Q Consensus       188 ~l~~~~l~~~~  198 (199)
                      +++++||+++.
T Consensus       155 ~l~~~~l~~~~  165 (185)
T TIGR03634       155 KLAVRAIKSAI  165 (185)
T ss_pred             HHHHHHHHHHH
Confidence            99999998764

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=4.4e-42  Score=273.99  Aligned_cols=167  Identities=20%  Similarity=0.345  Sum_probs=155.4

Q ss_pred             HhcCCcEEEEEeCCEEEEEEeccCcccc-cccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCH
Q 029111           27 VRKGNAAVGVRGTDIVVLGVEKKSAVKL-QDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTV  105 (199)
Q Consensus        27 v~~g~t~vgi~~~dgVvla~d~~~~~~l-~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~  105 (199)
                      +++|+|+|||+++||||||+|++.++++ +..++.+||++|++|++++++|..+|++.+.+.++.+++.|++++|+++++
T Consensus         5 ~~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~   84 (212)
T cd03757           5 TDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMST   84 (212)
T ss_pred             cCCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCH
Confidence            4689999999999999999999998855 456789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhcc------
Q 029111          106 EYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK------  179 (199)
Q Consensus       106 ~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~------  179 (199)
                      +.++++++++++  .+  +.|||++++||||||+ +++|+||.+||+|++.+++++|+|+|+.+++++||+.|+      
T Consensus        85 ~~la~~ls~~ly--~~--R~~P~~~~~iiaG~D~-~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~  159 (212)
T cd03757          85 EAIAQLLSTILY--SR--RFFPYYVFNILAGIDE-EGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNN  159 (212)
T ss_pred             HHHHHHHHHHHH--hh--cCCCeEEEEEEEEEcC-CCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCc
Confidence            999999999995  33  3579999999999996 678999999999999999999999999999999999985      


Q ss_pred             ---CCCc-HHHHHHHHHHHhhcc
Q 029111          180 ---ETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       180 ---~~~s-~ea~~l~~~~l~~~~  198 (199)
                         ++|| +||++++.+||+++.
T Consensus       160 ~~~~~ms~eea~~l~~~~l~~~~  182 (212)
T cd03757         160 VERTPLSLEEAVSLVKDAFTSAA  182 (212)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHH
Confidence               8999 999999999998764

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

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

Probab=100.00  E-value=8.1e-42  Score=267.47  Aligned_cols=170  Identities=39%  Similarity=0.657  Sum_probs=160.8

Q ss_pred             HhcCCcEEEEEeCCEEEEEEeccCcc--cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCC
Q 029111           27 VRKGNAAVGVRGTDIVVLGVEKKSAV--KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVT  104 (199)
Q Consensus        27 v~~g~t~vgi~~~dgVvla~d~~~~~--~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~  104 (199)
                      |++|+|+|||+++||||||+|++.+.  .+..+++.+||++|++|++++++|..+|++.+.++++.+++.|++.++++++
T Consensus         1 v~~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~   80 (190)
T PF00227_consen    1 VNNGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPIS   80 (190)
T ss_dssp             HHTSBEEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTC
T ss_pred             CCCCeEEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCcccc
Confidence            57999999999999999999999983  4445555799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee-eEEEEcCCcHhHHHHHHhhccCCCc
Q 029111          105 VEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW-KANATGRNSNSIREFLEKNYKETSG  183 (199)
Q Consensus       105 ~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s  183 (199)
                      ++.+++.+++.++.++++.++||+++++|++|||+ +++|+||.+||+|++.++ +++++|+|+++++++||+.|+++|+
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~-~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~  159 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDE-DGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLS  159 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEET-TTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSS
T ss_pred             chhhhhhhHHHHhhhcccccccCccccceeeeecc-ccccceeeeccccccccccccccchhcchhhhHHHHhhccCCCC
Confidence            99999999999999999989999999999999996 677999999999999999 6999999999999999999999999


Q ss_pred             -HHHHHHHHHHHhhc
Q 029111          184 -QETVKLAIRALLEV  197 (199)
Q Consensus       184 -~ea~~l~~~~l~~~  197 (199)
                       +||++++++||+++
T Consensus       160 ~~ea~~~~~~~l~~~  174 (190)
T PF00227_consen  160 LEEAIELALKALKEA  174 (190)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence             99999999999975

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 ....

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=6.3e-41  Score=262.67  Aligned_cols=162  Identities=20%  Similarity=0.306  Sum_probs=153.5

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|++.++ .++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+..++++++++.++
T Consensus         1 ~t~igi~~~dgVvla~D~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a   80 (188)
T cd03762           1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAA   80 (188)
T ss_pred             CeEEEEEECCeEEEEEcccccCCceEEcCCcccEEEccCCEEEEecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHH
Confidence            5899999999999999999987 677777899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++++|.++     |||++++||+|+|+ +++|+||.+||.|++.+++++++|+|+.+++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~~~-----~~~~~~~ii~G~d~-~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~  154 (188)
T cd03762          81 SLFKNLCYNYK-----EMLSAGIIVAGWDE-QNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIK  154 (188)
T ss_pred             HHHHHHHHhcc-----ccceeeEEEEEEcC-CCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHH
Confidence            99999997653     68999999999996 6789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhcc
Q 029111          189 LAIRALLEVS  198 (199)
Q Consensus       189 l~~~~l~~~~  198 (199)
                      ++++||+.+.
T Consensus       155 l~~~al~~~~  164 (188)
T cd03762         155 FVKNALSLAM  164 (188)
T ss_pred             HHHHHHHHHH
Confidence            9999999764

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=7.1e-41  Score=262.36  Aligned_cols=161  Identities=32%  Similarity=0.446  Sum_probs=153.6

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|++.++ .++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+..++++++++.++
T Consensus         1 tt~iai~~~dgvvia~d~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (188)
T cd03764           1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALA   80 (188)
T ss_pred             CcEEEEEeCCEEEEEEccccccCCEEecCCcccEEEccCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            5899999999999999999987 777788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.+|.+    ++|||++++||||+|  +++|+||.+||+|++.+++++|+|+|+++++++||+.|+++|+ +||++
T Consensus        81 ~~i~~~~~~~----~~~P~~~~~lvaG~d--~~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~  154 (188)
T cd03764          81 TLLSNILNSS----KYFPYIVQLLIGGVD--EEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKK  154 (188)
T ss_pred             HHHHHHHHhc----CCCCcEEEEEEEEEe--CCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHH
Confidence            9999999764    479999999999999  4789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       155 l~~~~l~~~  163 (188)
T cd03764         155 LAIRAIKSA  163 (188)
T ss_pred             HHHHHHHHH
Confidence            999999865

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

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=5.9e-41  Score=270.13  Aligned_cols=165  Identities=16%  Similarity=0.181  Sum_probs=151.1

Q ss_pred             CcEEEEEeCCEEEEEEeccCcccccccccccceEEec----CCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCC-CCCH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLD----NHIALACAGLKADARVLVNRARIECQSHRLTVED-PVTV  105 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~----~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~-~~~~  105 (199)
                      +.+|||+++||||||+|+|++++++..++.+||++|+    +||+|+.||..+|++.+++++|.+++.|++.+|+ ++++
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~l~~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v   80 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAGVDNISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPTM   80 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCCCccccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCH
Confidence            4689999999999999999988877666899999998    8999999999999999999999999999999999 8999


Q ss_pred             HHHHHHHHHHHH-HhcccCC-----CcccccceeeeeeeCCCCCceEEEECCCCCeeee----eEEEEcCCcHhHHHHHH
Q 029111          106 EYITRYIAGLQQ-KYTQSGG-----VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW----KANATGRNSNSIREFLE  175 (199)
Q Consensus       106 ~~la~~ls~~~~-~~~~~~~-----~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~----~~~a~G~g~~~~~~~Le  175 (199)
                      +.+|+++++.++ .+++..+     .|||++++||+|||+ ++||+||++||+|++.++    +|+|+|. +.+++++||
T Consensus        81 ~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~-~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Le  158 (236)
T cd03765          81 FDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIK-GEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILD  158 (236)
T ss_pred             HHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEEC-CCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHH
Confidence            999999999854 4555543     489999999999996 678999999999999998    6689995 699999999


Q ss_pred             hhccCCCc-HHHHHHHHHHHhhc
Q 029111          176 KNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       176 ~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +.|+++|| +||++++++||+++
T Consensus       159 k~yk~~ms~eeai~la~~al~~a  181 (236)
T cd03765         159 RVITPDTSLEDAAKCALVSMDST  181 (236)
T ss_pred             HhcCCCCCHHHHHHHHHHHHHHH
Confidence            99999999 99999999999875

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

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=6.3e-41  Score=272.35  Aligned_cols=167  Identities=19%  Similarity=0.302  Sum_probs=154.1

Q ss_pred             HHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCC
Q 029111           26 AVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVT  104 (199)
Q Consensus        26 av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~  104 (199)
                      .+++|+|+|||+++||||||+|++.+. .++.+++.+||++|++|++++++|..+|++.+.++++.+++.|++++|++|+
T Consensus        35 ~~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~is  114 (247)
T PTZ00488         35 EFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELIS  114 (247)
T ss_pred             ccCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCC
Confidence            467899999999999999999999985 7778889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-
Q 029111          105 VEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-  183 (199)
Q Consensus       105 ~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-  183 (199)
                      ++.++++|++++|.+    +..|+.+++||+|||  ++||+||++||+|++.+++++++|+|+..++++||+.|+++|| 
T Consensus       115 v~~la~~ls~~l~~~----R~~~~~v~~iiaG~D--~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~  188 (247)
T PTZ00488        115 VAAASKILANIVWNY----KGMGLSMGTMICGWD--KKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLND  188 (247)
T ss_pred             HHHHHHHHHHHHHhc----CCCCeeEEEEEEEEe--CCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCCCH
Confidence            999999999999754    112444558999999  4679999999999999999999999999999999999999999 


Q ss_pred             HHHHHHHHHHHhhcc
Q 029111          184 QETVKLAIRALLEVS  198 (199)
Q Consensus       184 ~ea~~l~~~~l~~~~  198 (199)
                      +||++++++||+++.
T Consensus       189 eEai~l~~kal~~~~  203 (247)
T PTZ00488        189 EEAQDLGRRAIYHAT  203 (247)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999998763

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=2.1e-40  Score=257.84  Aligned_cols=164  Identities=43%  Similarity=0.649  Sum_probs=156.2

Q ss_pred             CcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|++.++.+.. +++.+|||+|+++++++++|..+|++.+.+.++.++..|+..++++++++.++
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALA   80 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCcceEEEECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            58999999999999999999875544 77899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.+|.++++  .|||++++||+|+|+ +++|+||.+||+|++.+++++++|.|+..++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~~~~~--~~p~~~~~lv~G~d~-~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~  157 (182)
T cd01906          81 KLLANLLYEYTQS--LRPLGVSLLVAGVDE-EGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIE  157 (182)
T ss_pred             HHHHHHHHHhCCC--ccChheEEEEEEEeC-CCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHH
Confidence            9999999999875  899999999999996 5899999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       158 l~~~~l~~~  166 (182)
T cd01906         158 LALKALKSA  166 (182)
T ss_pred             HHHHHHHHH
Confidence            999999865

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

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=1.3e-40  Score=261.17  Aligned_cols=160  Identities=24%  Similarity=0.276  Sum_probs=151.5

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++ .++.+++.+|||+|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (189)
T cd03763           1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTAL   80 (189)
T ss_pred             CeEEEEEECCeEEEEEcCCcccCceEEcCCccceEEecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            5899999999999999999988 566777899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.+|.|.     .||++++||||||  ++||+||.+||.|++.+++++++|+++..++++||+.|+|+|| +||++
T Consensus        81 ~~l~~~l~~~~-----~p~~v~~ivaG~d--~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~  153 (189)
T cd03763          81 TMLKQHLFRYQ-----GHIGAALVLGGVD--YTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKK  153 (189)
T ss_pred             HHHHHHHHHcC-----CccceeEEEEeEc--CCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHH
Confidence            99999998653     2999999999999  4679999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       154 l~~~~l~~~  162 (189)
T cd03763         154 LVCEAIEAG  162 (189)
T ss_pred             HHHHHHHHH
Confidence            999999865

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=3.6e-40  Score=258.35  Aligned_cols=162  Identities=27%  Similarity=0.379  Sum_probs=153.5

Q ss_pred             CcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|++.++.+.. .++.+|||+|+++++++++|+.+|++.+.++++.+++.|+..++++++++.++
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAA   80 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCcCcEEEccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999886544 78899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.++.+++    |||++++||+|+|+ +++|+||.+||+|++.+++++++|.++++++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~~~~----~P~~~~~iv~G~d~-~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~  155 (189)
T cd01912          81 NLLSNILYSYRG----FPYYVSLIVGGVDK-GGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVE  155 (189)
T ss_pred             HHHHHHHHhcCC----CCeEEEEEEEEEcC-CCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHH
Confidence            999999987664    89999999999996 5899999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++.+||+.+
T Consensus       156 ~~~~~l~~~  164 (189)
T cd01912         156 LVKKAIDSA  164 (189)
T ss_pred             HHHHHHHHH
Confidence            999999864

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.

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

Probab=100.00  E-value=3.7e-36  Score=227.07  Aligned_cols=166  Identities=22%  Similarity=0.312  Sum_probs=157.0

Q ss_pred             CCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      +.+++||++.|+|++|+||.... .++.+++.+|++.+++++.|+++|..+|+..+.+++.+.++.|+.++|.+++|+..
T Consensus         1 Me~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~a   80 (200)
T KOG0177|consen    1 METLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAA   80 (200)
T ss_pred             CceEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHH
Confidence            35899999999999999999876 56678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      |++.++.+..+.++  .+||.|+++|||+|+ +.||.||++|..|+..+.+|++.|.++.++.++|++.|+|+|| +||+
T Consensus        81 ahFtR~~La~~LRs--r~~yqV~~LvaGYd~-~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~  157 (200)
T KOG0177|consen   81 AHFTRRELAESLRS--RTPYQVNILVAGYDP-EEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEAL  157 (200)
T ss_pred             HHHHHHHHHHHHhc--CCCceEEEEEeccCC-CCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHH
Confidence            99999999999863  579999999999999 6779999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHhhcc
Q 029111          188 KLAIRALLEVS  198 (199)
Q Consensus       188 ~l~~~~l~~~~  198 (199)
                      ++..+|+.|.+
T Consensus       158 ~lmkKCv~El~  168 (200)
T KOG0177|consen  158 DLMKKCVLELK  168 (200)
T ss_pred             HHHHHHHHHHH
Confidence            99999998753

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

Probab=100.00  E-value=3.8e-33  Score=219.04  Aligned_cols=165  Identities=24%  Similarity=0.326  Sum_probs=154.8

Q ss_pred             HHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCC
Q 029111           25 EAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPV  103 (199)
Q Consensus        25 ~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~  103 (199)
                      ++.+.|+|++||.++||||+++|+|++. +++..++++||+.|.++|+|+.+|-++|...+...+..+.++|.+..++.+
T Consensus        32 ~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R~~  111 (271)
T KOG0173|consen   32 KATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGRKP  111 (271)
T ss_pred             cccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCCCC
Confidence            4557899999999999999999999997 777889999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc
Q 029111          104 TVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG  183 (199)
Q Consensus       104 ~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s  183 (199)
                      ++-..-++|.+.+..|..     .+++.+||+|+|  ..|||||.+.|.|+....+|.++|+|+..|+++||.+|+|||+
T Consensus       112 rVv~A~~mlkQ~LFrYqG-----~IgA~LiiGGvD--~TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k~dlt  184 (271)
T KOG0173|consen  112 RVVTALRMLKQHLFRYQG-----HIGAALILGGVD--PTGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWKPDLT  184 (271)
T ss_pred             ceeeHHHHHHHHHHHhcC-----cccceeEEcccc--CCCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcCcccC
Confidence            998888899999987764     479999999999  5899999999999999999999999999999999999999999


Q ss_pred             -HHHHHHHHHHHhh
Q 029111          184 -QETVKLAIRALLE  196 (199)
Q Consensus       184 -~ea~~l~~~~l~~  196 (199)
                       |||++|+.+|+..
T Consensus       185 ~eea~~Lv~eAi~A  198 (271)
T KOG0173|consen  185 KEEAIKLVCEAIAA  198 (271)
T ss_pred             HHHHHHHHHHHHHh
Confidence             9999999999874

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

Probab=100.00  E-value=3.2e-33  Score=217.40  Aligned_cols=188  Identities=19%  Similarity=0.255  Sum_probs=166.8

Q ss_pred             ccccCCCCcchhh------hhHHHHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhh
Q 029111            8 ITVFSPDGHLFQV------EYALEAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         8 ~~~f~peG~i~q~------eya~~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      +++|.|.|.....      ..-+.+.-+|+++||+|++||||+|+|+..++ ++...++++|+++++||+.+|++|..+|
T Consensus        13 ~~~f~~~~~~m~~a~~~~~qrt~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD   92 (256)
T KOG0185|consen   13 PGTFYPSGSLMENAGDYPIQRTLNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISD   92 (256)
T ss_pred             CCcCcCccchhhhccCCCcccccCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHH
Confidence            5678888653322      11234556899999999999999999999998 7888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhh-hhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee
Q 029111           81 ARVLVNRARIECQSHR-LTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK  159 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~-~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~  159 (199)
                      +|.+.+.+.+...+.+ +..|+.+.|+.++++|++++  |.+++++.|++..++|+|+|. ++.|.|..+|-.|..++.+
T Consensus        93 ~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvl--Y~rRsKmnPlwntlvVgGv~~-~g~~~lg~V~~~G~~Y~~~  169 (256)
T KOG0185|consen   93 FQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVL--YARRSKMNPLWNTLVVGGVDN-TGEPFLGYVDLLGVAYESP  169 (256)
T ss_pred             HHHHHHHHHHHHhcccccccccccChHHHHHHHHHHH--HHhhhccCchhhheeEeeecC-CCCeeEEEEeeccccccCc
Confidence            9999999988877754 56679999999999999999  678889999999999999996 6899999999999999999


Q ss_pred             EEEEcCCcHhHHHHHHhhcc---CCCc-HHHHHHHHHHHhhcc
Q 029111          160 ANATGRNSNSIREFLEKNYK---ETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       160 ~~a~G~g~~~~~~~Le~~~~---~~~s-~ea~~l~~~~l~~~~  198 (199)
                      ..|+|.|..+|.++|++.|.   ++++ +||.+++.+||+-.+
T Consensus       170 ~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~  212 (256)
T KOG0185|consen  170 VVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLY  212 (256)
T ss_pred             hhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHh
Confidence            99999999999999999998   5789 999999999998543

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

Probab=100.00  E-value=4.7e-33  Score=218.99  Aligned_cols=165  Identities=21%  Similarity=0.352  Sum_probs=156.5

Q ss_pred             HhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCH
Q 029111           27 VRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTV  105 (199)
Q Consensus        27 v~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~  105 (199)
                      ..+|+|.+|++++.|||+|+|+|++. .++.+..++||.+|+++..-.++|-++||+++-+.+.++|++|++++++.|++
T Consensus        68 ~~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSV  147 (285)
T KOG0175|consen   68 FAHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISV  147 (285)
T ss_pred             ecCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceeh
Confidence            36899999999999999999999998 78888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-H
Q 029111          106 EYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-Q  184 (199)
Q Consensus       106 ~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~  184 (199)
                      ...++.|++++++|...    -+.+..+|+|||  +.||.||+||..|+-...+-+++|+|+.+|.++|+..|++||+ |
T Consensus       148 saASKllsN~~y~YkGm----GLsmGtMi~G~D--k~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~e  221 (285)
T KOG0175|consen  148 SAASKLLSNMVYQYKGM----GLSMGTMIAGWD--KKGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDE  221 (285)
T ss_pred             HHHHHHHHHHHhhccCc----chhheeeEeecc--CCCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCCHH
Confidence            99999999999877632    378899999999  6999999999999999999999999999999999999999999 9


Q ss_pred             HHHHHHHHHHhhc
Q 029111          185 ETVKLAIRALLEV  197 (199)
Q Consensus       185 ea~~l~~~~l~~~  197 (199)
                      ||.+|+++++.+|
T Consensus       222 EA~~L~rrAI~hA  234 (285)
T KOG0175|consen  222 EAYDLARRAIYHA  234 (285)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999875

>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=100.00  E-value=7.9e-31  Score=198.48  Aligned_cols=161  Identities=39%  Similarity=0.515  Sum_probs=152.5

Q ss_pred             CcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||+|+|++.+..+.. ..+.+|++.++++++++++|..+|++.+.++++.+++.|+..++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            58999999999999999999875544 66899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee-eEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW-KANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      +.+++.++.+++   .||+++++||+|+|  +++|+||.+||.|++.+. +++++|.++..+.++|++.|+++++ +|++
T Consensus        81 ~~~~~~~~~~~~---~~p~~~~~iiag~~--~~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~  155 (164)
T cd01901          81 KELAKLLQVYTQ---GRPFGVNLIVAGVD--EGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAV  155 (164)
T ss_pred             HHHHHHHHHhcC---CCCcceEEEEEEEc--CCCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHH
Confidence            999999998886   79999999999999  488999999999999999 9999999999999999999999999 9999


Q ss_pred             HHHHHHHhh
Q 029111          188 KLAIRALLE  196 (199)
Q Consensus       188 ~l~~~~l~~  196 (199)
                      +++.+||+.
T Consensus       156 ~~~~~~l~~  164 (164)
T cd01901         156 ELALKALKS  164 (164)
T ss_pred             HHHHHHHhC
Confidence            999999863

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

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

Probab=99.97  E-value=4.1e-31  Score=202.55  Aligned_cols=165  Identities=19%  Similarity=0.352  Sum_probs=153.0

Q ss_pred             hcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHH
Q 029111           28 RKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVE  106 (199)
Q Consensus        28 ~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~  106 (199)
                      .||+|+|||.+.|+.|+|+|||.++ ..+.++..+|||+++|+++++.+|.++|+..|...++.+.+.|+..+++.|++.
T Consensus        27 ~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~  106 (235)
T KOG0179|consen   27 DNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSIH  106 (235)
T ss_pred             cCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccHH
Confidence            6899999999999999999999987 446788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhcc-------
Q 029111          107 YITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-------  179 (199)
Q Consensus       107 ~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~-------  179 (199)
                      .+|++|+..++  .  .++.|+.+..||+|+|+ ++++.+|+.||.|++.+.-+.|.|+++..++|+|+....       
T Consensus       107 s~A~lls~~LY--~--kRFFPYYv~~ilaGiDe-eGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e  181 (235)
T KOG0179|consen  107 SAAQLLSTILY--S--KRFFPYYVFNILAGIDE-EGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLE  181 (235)
T ss_pred             HHHHHHHHHHh--h--cccccceeeeeeecccc-cCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCcCcccc
Confidence            99999999994  3  36899999999999997 899999999999999999999999999999999997442       


Q ss_pred             ----CCCc-HHHHHHHHHHHhhc
Q 029111          180 ----ETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       180 ----~~~s-~ea~~l~~~~l~~~  197 (199)
                          +.|| |||+.|+.++|..|
T Consensus       182 ~~~~~~Ls~e~ai~lv~d~F~SA  204 (235)
T KOG0179|consen  182 NAERTPLSLERAIRLVKDAFTSA  204 (235)
T ss_pred             cCcccccCHHHHHHHHHHHhhhh
Confidence                3589 99999999998754

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

Probab=99.97  E-value=2.5e-31  Score=201.64  Aligned_cols=166  Identities=17%  Similarity=0.284  Sum_probs=154.8

Q ss_pred             HHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCC
Q 029111           26 AVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVT  104 (199)
Q Consensus        26 av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~  104 (199)
                      .+..|+|++|+++++||||++|+|++. .++.++-.+|+.+|+|+|+|+-||.++|.|.+.+.++.....|...++.+++
T Consensus        15 evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~   94 (224)
T KOG0174|consen   15 EVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPL   94 (224)
T ss_pred             ccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCch
Confidence            478999999999999999999999987 6677888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-
Q 029111          105 VEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-  183 (199)
Q Consensus       105 ~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-  183 (199)
                      +...|+.+++++++|..     -|...+||||||+ ..|.++|.+---|+..+-+++.-|+|+.+++++++.+|||+|+ 
T Consensus        95 v~~aA~l~r~~~Y~~re-----~L~AgliVAGwD~-~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~  168 (224)
T KOG0174|consen   95 VHTAASLFREICYNYRE-----MLSAGLIVAGWDE-KEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTL  168 (224)
T ss_pred             HHHHHHHHHHHHHhCHH-----hhhcceEEeeccc-ccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCCCH
Confidence            99999999999976543     4889999999998 8899999998888889999999999999999999999999999 


Q ss_pred             HHHHHHHHHHHhhc
Q 029111          184 QETVKLAIRALLEV  197 (199)
Q Consensus       184 ~ea~~l~~~~l~~~  197 (199)
                      ||++++..+|+..+
T Consensus       169 EE~~~fvk~Av~lA  182 (224)
T KOG0174|consen  169 EECVRFVKNAVSLA  182 (224)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999998654

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.97  E-value=2.2e-30  Score=199.52  Aligned_cols=152  Identities=16%  Similarity=0.131  Sum_probs=129.5

Q ss_pred             CCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEe-cCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHH
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSL-DNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEY  107 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~  107 (199)
                      |+|+|||+++||||||+|+|++. .++.+++.+||++| ++|++|+++|..+|+|.|.+.++.+++.|+..  .   ++.
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~~--~---~~~   75 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQGN--L---LRA   75 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccCc--c---HHH
Confidence            78999999999999999999986 67788899999999 99999999999999999999999999999832  1   455


Q ss_pred             HHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee--eEEEEcCCcHhHHHHHHhhcc-CCCcH
Q 029111          108 ITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW--KANATGRNSNSIREFLEKNYK-ETSGQ  184 (199)
Q Consensus       108 la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~--~~~a~G~g~~~~~~~Le~~~~-~~~s~  184 (199)
                      .++.+..+..    ....+|+.+++||+  |+    |+||.+||.|+..+.  +++++|+|+.+++++||+.|+ |+|  
T Consensus        76 ~a~l~~~l~~----~~~~~~l~~~~lv~--d~----~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m--  143 (172)
T PRK05456         76 AVELAKDWRT----DRYLRRLEAMLIVA--DK----EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL--  143 (172)
T ss_pred             HHHHHHHHHh----ccCCCccEEEEEEE--cC----CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC--
Confidence            5554433321    11236888998884  52    699999999999666  899999999999999999999 999  


Q ss_pred             HHHHHHHHHHhhcc
Q 029111          185 ETVKLAIRALLEVS  198 (199)
Q Consensus       185 ea~~l~~~~l~~~~  198 (199)
                      ||++++++|+++++
T Consensus       144 eA~~la~kai~~A~  157 (172)
T PRK05456        144 SAEEIAEKALKIAA  157 (172)
T ss_pred             CHHHHHHHHHHHHH
Confidence            79999999998764

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

Probab=99.97  E-value=1.8e-29  Score=188.29  Aligned_cols=165  Identities=21%  Similarity=0.305  Sum_probs=152.9

Q ss_pred             hcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHH
Q 029111           28 RKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVE  106 (199)
Q Consensus        28 ~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~  106 (199)
                      -+|+++||+++||||.+|+|.|... .....++.+|||+++|+.++|.+|++.|++.+.++++...+.|+++.++.+.|+
T Consensus         6 ynGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~   85 (204)
T KOG0180|consen    6 YNGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPE   85 (204)
T ss_pred             ecCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcH
Confidence            4899999999999999999999986 334567899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeee-eeEEEEcCCcHhHHHHHHhhccCCCc-H
Q 029111          107 YITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSA-WKANATGRNSNSIREFLEKNYKETSG-Q  184 (199)
Q Consensus       107 ~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~s-~  184 (199)
                      .+++++|..+++  .  ++-||.+..+|||+|+ +++|.|..+|..|+... .++.+.|.+++...+.+|..|+|+|. |
T Consensus        86 ~~s~mvS~~lYe--k--RfgpYf~~PvVAGl~~-~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd  160 (204)
T KOG0180|consen   86 TFSSMVSSLLYE--K--RFGPYFTEPVVAGLDD-DNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPD  160 (204)
T ss_pred             HHHHHHHHHHHH--h--hcCCcccceeEeccCC-CCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHH
Confidence            999999999953  2  4669999999999998 89999999999999954 49999999999999999999999999 9


Q ss_pred             HHHHHHHHHHhhc
Q 029111          185 ETVKLAIRALLEV  197 (199)
Q Consensus       185 ea~~l~~~~l~~~  197 (199)
                      |.++.+.++|.++
T Consensus       161 ~LFetisQa~Lna  173 (204)
T KOG0180|consen  161 ELFETISQALLNA  173 (204)
T ss_pred             HHHHHHHHHHHhH
Confidence            9999999998765

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

Probab=99.96  E-value=7.3e-29  Score=189.96  Aligned_cols=149  Identities=15%  Similarity=0.060  Sum_probs=123.5

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecC-CEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDN-HIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      +|+|||+++||||||+|+|++. .++.+++.+||++|++ |++|+++|..+|++.|.++++.+++.|+.+.++     .+
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~a   75 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HH
Confidence            6899999999999999999986 6778889999999999 999999999999999999999999999987764     33


Q ss_pred             HHHHHHHHHHhcccCCCcccc-cceeeeeeeCCCCCceEEEECCCCCeeeee--EEEEcCCcHhHHHHHHhhccCC-CcH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFG-LSTLIVGFDPYTGVPSLYQTDPSGTFSAWK--ANATGRNSNSIREFLEKNYKET-SGQ  184 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~-~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~--~~a~G~g~~~~~~~Le~~~~~~-~s~  184 (199)
                      ++.+..++ .|    +.+|+. +.+|++++      ++||.+||.|+..+.+  +.++|+|+.+++++||..|+++ || 
T Consensus        76 a~l~~~l~-~~----~~~~~l~a~~iv~~~------~~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms-  143 (171)
T cd01913          76 VELAKDWR-TD----RYLRRLEAMLIVADK------EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLS-  143 (171)
T ss_pred             HHHHHHHH-hc----cCcCceEEEEEEeCC------CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC-
Confidence            44433332 11    344554 55555533      3899999999999984  9999999999999999999995 99 


Q ss_pred             HHHHHHHHHHhhc
Q 029111          185 ETVKLAIRALLEV  197 (199)
Q Consensus       185 ea~~l~~~~l~~~  197 (199)
                       +.+++.+|++.|
T Consensus       144 -~~~la~~Av~~A  155 (171)
T cd01913         144 -AEEIARKALKIA  155 (171)
T ss_pred             -HHHHHHHHHHHH
Confidence             338888887765

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

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.96  E-value=3.6e-28  Score=186.11  Aligned_cols=151  Identities=15%  Similarity=0.110  Sum_probs=123.4

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEe-cCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSL-DNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      +|+|||+++||||||+|+|++. .++.+++.+||++| ++|++|+++|..+|++.|.++++.+++.|+.+.     .+.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~   75 (171)
T TIGR03692         1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEYQGNL-----TRAA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHHHHHHHHccCch-----HHHH
Confidence            6899999999999999999986 67788899999999 599999999999999999999999999998643     3555


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee--eEEEEcCCcHhHHHHHHhhcc-CCCcHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW--KANATGRNSNSIREFLEKNYK-ETSGQE  185 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~--~~~a~G~g~~~~~~~Le~~~~-~~~s~e  185 (199)
                      ++.++.+.    .+...+.+.+.+|++|+      ++||.+||.|...+.  ++.++|+|+.+++++||..|+ ++|+  
T Consensus        76 a~l~~~~~----~~~~~~~l~a~~iv~~~------~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s--  143 (171)
T TIGR03692        76 VELAKDWR----TDRYLRRLEAMLIVADK------ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS--  143 (171)
T ss_pred             HHHHHHHh----hcccccccEEEEEEEcC------CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC--
Confidence            55555421    11112234466666543      389999999999996  699999999999999999995 5666  


Q ss_pred             HHHHHHHHHhhcc
Q 029111          186 TVKLAIRALLEVS  198 (199)
Q Consensus       186 a~~l~~~~l~~~~  198 (199)
                      |++++.++++.|+
T Consensus       144 a~~la~~Av~~A~  156 (171)
T TIGR03692       144 AEEIAREALKIAA  156 (171)
T ss_pred             HHHHHHHHHHHHH
Confidence            8899999987653

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

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

Probab=99.51  E-value=9.5e-15  Score=74.04  Aligned_cols=23  Identities=78%  Similarity=1.314  Sum_probs=22.3

Q ss_pred             CCCCccccCCCCcchhhhhHHHH
Q 029111            4 YDRAITVFSPDGHLFQVEYALEA   26 (199)
Q Consensus         4 yd~~~~~f~peG~i~q~eya~~a   26 (199)
                      ||+++|+|||||||+|+|||.||
T Consensus         1 YD~~~t~FSp~Grl~QVEYA~~A   23 (23)
T PF10584_consen    1 YDRSITTFSPDGRLFQVEYAMKA   23 (23)
T ss_dssp             TSSSTTSBBTTSSBHHHHHHHHH
T ss_pred             CCCCceeECCCCeEEeeEeeecC
Confidence            89999999999999999999986

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

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

Probab=99.43  E-value=9e-13  Score=101.57  Aligned_cols=163  Identities=16%  Similarity=0.155  Sum_probs=125.3

Q ss_pred             CCcEEEEEeCCEEEEEEeccCcccccccccccceEEec---C-CEEEEEeecHhhHHHHHHHHHHHHHHhhh-hcCCCCC
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLD---N-HIALACAGLKADARVLVNRARIECQSHRL-TVEDPVT  104 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~---~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-~~~~~~~  104 (199)
                      ++.|||++.+.|.|+++|+|++-.+-..+..+|+|..+   + -++++.+|+.+-.|.+++.+.+..+...- .--.-++
T Consensus         1 MTYCv~l~l~~GlVf~sDsRTNAGvD~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~s   80 (255)
T COG3484           1 MTYCVGLILDFGLVFGSDSRTNAGVDYISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPS   80 (255)
T ss_pred             CceEEEEEeccceEEecccccccCchHHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcchh
Confidence            47899999999999999999876655456778887663   2 36778999999999999999877752211 1112345


Q ss_pred             HHHHHHHHHHHHHHhcccC------CCcccccceeeeeeeCCCCCceEEEECCCCCeeee----eEEEEcCCcHhHHHHH
Q 029111          105 VEYITRYIAGLQQKYTQSG------GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW----KANATGRNSNSIREFL  174 (199)
Q Consensus       105 ~~~la~~ls~~~~~~~~~~------~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~----~~~a~G~g~~~~~~~L  174 (199)
                      +-..+..+.+..++...+.      ..--|.|++|++|.-. ...|.||.+.|.|++.+.    +|..+|.. .+.+++|
T Consensus        81 m~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~-G~pp~Ly~IYpqGNFIqaT~etpf~QiGEt-KYGKPil  158 (255)
T COG3484          81 MYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIK-GEPPRLYLIYPQGNFIQATPETPFLQIGET-KYGKPIL  158 (255)
T ss_pred             HHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceec-CCCceeEEEccCCCeeecCCCCceeEcccc-ccCchhh
Confidence            6666777776655443321      1235899999999986 566899999999999876    89999976 8999999


Q ss_pred             HhhccCCCc-HHHHHHHHHHH
Q 029111          175 EKNYKETSG-QETVKLAIRAL  194 (199)
Q Consensus       175 e~~~~~~~s-~ea~~l~~~~l  194 (199)
                      ++.+..+++ +|+.+.+.-++
T Consensus       159 dR~i~~~~pLeea~kcaLvS~  179 (255)
T COG3484         159 DRTITYDTPLEEAAKCALVSF  179 (255)
T ss_pred             hhhhhccCCHHHHhhheEEec
Confidence            999999999 99998876544

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

Probab=99.28  E-value=4.9e-11  Score=88.92  Aligned_cols=150  Identities=17%  Similarity=0.140  Sum_probs=109.2

Q ss_pred             cCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecC-CEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHH
Q 029111           29 KGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDN-HIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVE  106 (199)
Q Consensus        29 ~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~  106 (199)
                      +++|+|+++-++=|+++.|...+- ..+...+.+|+.+|.+ ++..+++|..+|+.+|.+.++.++++|.-+        
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g~--------   74 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQGD--------   74 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccCc--------
Confidence            589999999999999999998875 4556667777766654 899999999999999999999999988621        


Q ss_pred             HHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee--eEEEEcCCcHhHHHHHHhhcc-CCCc
Q 029111          107 YITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW--KANATGRNSNSIREFLEKNYK-ETSG  183 (199)
Q Consensus       107 ~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~--~~~a~G~g~~~~~~~Le~~~~-~~~s  183 (199)
                       |.+..-+..+.+.....+|.+-.-++|+--      -.++-+.-.|.+.+.  +..++|+|..+|++--...++ +++|
T Consensus        75 -L~raavelaKdwr~Dk~lr~LEAmllVad~------~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~ls  147 (178)
T COG5405          75 -LFRAAVELAKDWRTDKYLRKLEAMLLVADK------THILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELS  147 (178)
T ss_pred             -HHHHHHHHHHhhhhhhHHHHHhhheeEeCC------CcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCC
Confidence             112222222222222335566676677633      258888888888655  599999999999999888876 4888


Q ss_pred             -HHHHHHHHHH
Q 029111          184 -QETVKLAIRA  193 (199)
Q Consensus       184 -~ea~~l~~~~  193 (199)
                       +|..+.++++
T Consensus       148 A~eIa~~sl~i  158 (178)
T COG5405         148 AREIAEKSLKI  158 (178)
T ss_pred             HHHHHHHHHhh
Confidence             5554444443

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

Probab=95.31  E-value=0.51  Score=36.87  Aligned_cols=30  Identities=17%  Similarity=0.202  Sum_probs=27.0

Q ss_pred             HhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          168 NSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       168 ~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +.+...|.+.|++.|+ +++.++..++|+++
T Consensus       131 ~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~  161 (194)
T PF09894_consen  131 EIANKELKKYWKPKMSLKDIENIFEKIMEEV  161 (194)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            5677789999999999 99999999999876

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

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

Probab=81.97  E-value=3  Score=30.65  Aligned_cols=42  Identities=21%  Similarity=0.231  Sum_probs=38.5

Q ss_pred             EEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          147 YQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       147 y~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      ..+|-+|.+...+|-..|.|+..|-+-+-..|-..++ ||+.+
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~k  113 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALK  113 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHh
Confidence            4678899999999999999999999999999999999 88864

>COG4079 Uncharacterized protein conserved in archaea [Function unknown]

Probab=81.92  E-value=27  Score=28.58  Aligned_cols=31  Identities=29%  Similarity=0.387  Sum_probs=26.3

Q ss_pred             HhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          168 NSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       168 ~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +.+..+|.++|.+.++ +++.++.+.+|..+.
T Consensus       132 e~aneflk~~l~~k~~lqd~~dal~elfe~vs  163 (293)
T COG4079         132 EVANEFLKDNLTKKSKLQDAVDALMELFETVS  163 (293)
T ss_pred             HHHHHHHHhhccCCCCHHHHHHHHHHHHHHhh
Confidence            4566778899999999 999999999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	199
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		2e-81
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		2e-81
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		1e-80
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		4e-74
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		6e-74
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		2e-73
1vsy_D	227	Proteasome Activator Complex Length = 227		2e-65
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		7e-48
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		4e-47
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		3e-46
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		1e-41
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		2e-41
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		2e-41
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		9e-41
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		2e-40
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		2e-40
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		5e-40
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		5e-40
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		1e-38
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		1e-38
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		2e-38
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		5e-37
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		6e-37
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		6e-37
1vsy_C	232	Proteasome Activator Complex Length = 232		4e-35
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		2e-34
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		1e-33
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		1e-33
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		5e-33
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		9e-33
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		9e-33
1vsy_E	250	Proteasome Activator Complex Length = 250		9e-33
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		9e-33
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		1e-31
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		3e-31
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		3e-31
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		8e-31
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		1e-30
1vsy_B	231	Proteasome Activator Complex Length = 231		1e-28
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		2e-26
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		2e-26
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		2e-26
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		3e-26
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		3e-26
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		3e-26
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		3e-26
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		6e-26
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		6e-26
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		6e-26
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		7e-26
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		1e-25
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		5e-24
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		8e-24
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		2e-07
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		2e-07
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		2e-06
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		4e-06
1ryp_M	222	Crystal Structure Of The 20s Proteasome From Yeast		5e-05
1g0u_L	241	A Gated Channel Into The Proteasome Core Particle L		5e-05
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		4e-04
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		4e-04
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		7e-04
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		8e-04

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

Iteration: 1
 Score =  297 bits (761), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 143/197 (72%), Positives = 166/197 (84%), Gaps = 4/197 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDGHLFQVEYA EAV+KG+ AVGVRG DIVVLGVEKKS  KLQD R VRKI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
            +LD+++ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQS 
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG 183
           G RPFG+S LIVGFD + G P LYQTDPSGT+ AWKANA GR + S+REFLEKNY + + 
Sbjct: 123 GRRPFGISALIVGFD-FDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAI 181
Query: 184 QE---TVKLAIRALLEV 197
           +    T+KL I+ALLEV
Sbjct: 182 ETDDLTIKLVIKALLEV 198

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

Iteration: 1
 Score =  297 bits (761), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 143/197 (72%), Positives = 166/197 (84%), Gaps = 4/197 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDGHLFQVEYA EAV+KG+ AVGVRG DIVVLGVEKKS  KLQD R VRKI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
            +LD+++ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQS 
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG 183
           G RPFG+S LIVGFD + G P LYQTDPSGT+ AWKANA GR + S+REFLEKNY + + 
Sbjct: 123 GRRPFGISALIVGFD-FDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAI 181
Query: 184 QE---TVKLAIRALLEV 197
           +    T+KL I+ALLEV
Sbjct: 182 ETDDLTIKLVIKALLEV 198

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

Iteration: 1
 Score =  295 bits (755), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 142/197 (72%), Positives = 165/197 (83%), Gaps = 4/197 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDGHLFQVEYA EAV+KG+ AVGVRG DIVVLGV KKS  KLQD R VRKI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVAKKSVAKLQDERTVRKI 62
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
            +LD+++ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQS 
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG 183
           G RPFG+S LIVGFD + G P LYQTDPSGT+ AWKANA GR + S+REFLEKNY + + 
Sbjct: 123 GRRPFGISALIVGFD-FDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDDAI 181
Query: 184 QE---TVKLAIRALLEV 197
           +    T+KL I+ALLEV
Sbjct: 182 ETDDLTIKLVIKALLEV 198

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

Iteration: 1
 Score =  273 bits (698), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 125/202 (61%), Positives = 164/202 (81%), Gaps = 5/202 (2%)
Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           M+ YDRA+++FSPDGH+FQVEYALEAV++G  AVGV+G + VVLG E++S +KLQD+R+ 
Sbjct: 1   MSGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRIT 60
Query: 61  -RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKY 119
             K+  +D+H+ L+ +GL AD+R+L+ +AR+E QSHRLT+EDPVTVEY+TRY+AG+QQ+Y
Sbjct: 61  PSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY 120
Query: 120 TQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY- 178
           TQSGGVRPFG+STLI GFDP    P LYQT+PSG +S+W A   GRNS ++REFLEKNY 
Sbjct: 121 TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD 180
Query: 179 -KETSG--QETVKLAIRALLEV 197
            KE     +E VKL +R+LLEV
Sbjct: 181 RKEPPATVEECVKLTVRSLLEV 202

>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 =  273 bits (697), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 125/202 (61%), Positives = 164/202 (81%), Gaps = 5/202 (2%)
Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           M+ YDRA+++FSPDGH+FQVEYALEAV++G  AVGV+G + VVLG E++S +KLQD+R+ 
Sbjct: 1   MSGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRIT 60
Query: 61  -RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKY 119
             K+  +D+H+ L+ +GL AD+R+L+ +AR+E QSHRLT+EDPVTVEY+TRY+AG+QQ+Y
Sbjct: 61  PSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY 120
Query: 120 TQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY- 178
           TQSGGVRPFG+STLI GFDP    P LYQT+PSG +S+W A   GRNS ++REFLEKNY 
Sbjct: 121 TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD 180
Query: 179 -KETSG--QETVKLAIRALLEV 197
            KE     +E VKL +R+LLEV
Sbjct: 181 RKEPPATVEECVKLTVRSLLEV 202

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

Iteration: 1
 Score =  271 bits (693), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 124/199 (62%), Positives = 162/199 (81%), Gaps = 5/199 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV-RK 62
           YDRA+++FSPDGH+FQVEYALEAV++G  AVGV+G + VVLG E++S +KLQD+R+   K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61
Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           +  +D+H+ L+ +GL AD+R+L+ +AR+E QSHRLT+EDPVTVEY+TRY+AG+QQ+YTQS
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 121
Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY--KE 180
           GGVRPFG+STLI GFDP    P LYQT+PSG +S+W A   GRNS ++REFLEKNY  KE
Sbjct: 122 GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKE 181
Query: 181 TSG--QETVKLAIRALLEV 197
                +E VKL +R+LLEV
Sbjct: 182 PPATVEECVKLTVRSLLEV 200

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

Iteration: 1
 Score =  244 bits (624), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 114/186 (61%), Positives = 149/186 (80%), Gaps = 5/186 (2%)
Query: 17  LFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV-RKIVSLDNHIALACA 75
           +FQVEYALEAV++G  AVGV+G + VVLG E++S +KLQD+R+   K+  +D+H+ L+ +
Sbjct: 1   IFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFS 60
Query: 76  GLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIV 135
           GL AD+R+L+ +AR+E QSHRLT+EDPVTVEY+TRY+AG+QQ+YTQSGGVRPFG+STLI 
Sbjct: 61  GLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIA 120
Query: 136 GFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY--KETSG--QETVKLAI 191
           GFDP    P LYQT+PSG +S+W A   GRNS ++REFLEKNY  KE     +E VKL +
Sbjct: 121 GFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTV 180
Query: 192 RALLEV 197
           R+LLEV
Sbjct: 181 RSLLEV 186

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

Iteration: 1
 Score =  186 bits (472), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 90/175 (51%), Positives = 122/175 (69%), Gaps = 3/175 (1%)
Query: 6   RAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVS 65
           RAITVFSPDG LFQVEYA EAV++G  A+G++  + V+L  +K+   KL ++  + KI  
Sbjct: 1   RAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEADTIEKIYK 60
Query: 66  LDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGV 125
           +D HI  A +GL ADARVL++RARIE Q +RLT ++P+TV+ + + I   +Q+YTQ GGV
Sbjct: 61  IDEHICAATSGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQYTQYGGV 120
Query: 126 RPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           RPFG+S LI G D    VP LY+TDPSG    +KA A G   N++ EF EK Y++
Sbjct: 121 RPFGVSLLIAGVDE---VPKLYETDPSGALLEYKATAIGMGRNAVTEFFEKEYRD 172

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

Iteration: 1
 Score =  184 bits (466), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 90/177 (50%), Positives = 121/177 (68%), Gaps = 3/177 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDG LFQVEYA EAV++G  A+G++  + V+L  +K+   KL +   + KI
Sbjct: 8   YDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKI 67
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D HI  A +GL ADARVL++RARIE Q +RLT + P+TV+ + + I   +Q+YTQ G
Sbjct: 68  YKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYG 127
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           GVRPFG+S LI G +    VP LY+TDPSG    +KA A G    ++ EF EK Y++
Sbjct: 128 GVRPFGVSLLIAGVNE---VPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRD 181

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

Iteration: 1
 Score =  181 bits (459), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 93/192 (48%), Positives = 128/192 (66%), Gaps = 3/192 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSP+G L+QVEYA EAVR+G  A+G+   D VVL V+++   KL   R + KI
Sbjct: 12  YDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKI 71
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+H+A A +GL ADARVL++RAR+E Q +RLT  + +++E + + I  ++Q YTQ G
Sbjct: 72  FQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHG 131
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-ETS 182
           GVRPFG+S LI G D       L++TDPSG    +KA A G     + E LEK Y+ + +
Sbjct: 132 GVRPFGVSLLIAGIDKNEA--RLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDIT 189
Query: 183 GQETVKLAIRAL 194
             E ++LAI AL
Sbjct: 190 LDEGLELAITAL 201

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

Iteration: 1
 Score =  165 bits (418), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 87/192 (45%), Positives = 124/192 (64%), Gaps = 3/192 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDG LFQVEYA EAV+KG+ A+G++  + V+L  +KK   +L +   + KI
Sbjct: 8   YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 67
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+++A   +GL ADARVLV+ ARI  Q  ++T    V +E + + +A   Q+YTQ G
Sbjct: 68  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 127
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-S 182
           GVRP+G+S +  G D     P L+  DP+GT + +KA A G   +++  FLE+ YKE   
Sbjct: 128 GVRPYGVSLIFAGIDQIG--PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLP 185
Query: 183 GQETVKLAIRAL 194
            +E V L I+AL
Sbjct: 186 EKEAVTLGIKAL 197

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

Iteration: 1
 Score =  165 bits (417), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 87/192 (45%), Positives = 124/192 (64%), Gaps = 3/192 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDG LFQVEYA EAV+KG+ A+G++  + V+L  +KK   +L +   + KI
Sbjct: 2   YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 61
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+++A   +GL ADARVLV+ ARI  Q  ++T    V +E + + +A   Q+YTQ G
Sbjct: 62  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 121
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-S 182
           GVRP+G+S +  G D     P L+  DP+GT + +KA A G   +++  FLE+ YKE   
Sbjct: 122 GVRPYGVSLIFAGIDQIG--PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLP 179
Query: 183 GQETVKLAIRAL 194
            +E V L I+AL
Sbjct: 180 EKEAVTLGIKAL 191

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

Iteration: 1
 Score =  165 bits (417), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 87/192 (45%), Positives = 124/192 (64%), Gaps = 3/192 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDG LFQVEYA EAV+KG+ A+G++  + V+L  +KK   +L +   + KI
Sbjct: 12  YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 71
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+++A   +GL ADARVLV+ ARI  Q  ++T    V +E + + +A   Q+YTQ G
Sbjct: 72  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 131
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-S 182
           GVRP+G+S +  G D     P L+  DP+GT + +KA A G   +++  FLE+ YKE   
Sbjct: 132 GVRPYGVSLIFAGIDQIG--PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLP 189
Query: 183 GQETVKLAIRAL 194
            +E V L I+AL
Sbjct: 190 EKEAVTLGIKAL 201

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

Iteration: 1
 Score =  162 bits (411), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 86/192 (44%), Positives = 123/192 (64%), Gaps = 3/192 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           Y RAITVFSPDG LFQVEYA EAV+KG+ A+G++  + V+L  +KK   +L +   + KI
Sbjct: 8   YSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 67
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D+++A   +GL ADARVLV+ ARI  Q  ++T    V +E + + +A   Q+YTQ G
Sbjct: 68  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG 127
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-S 182
           GVRP+G+S +  G D     P L+  DP+GT + +KA A G   +++  FLE+ YKE   
Sbjct: 128 GVRPYGVSLIFAGIDQIG--PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLP 185
Query: 183 GQETVKLAIRAL 194
            +E V L I+AL
Sbjct: 186 EKEAVTLGIKAL 197

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

Iteration: 1
 Score =  161 bits (408), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 81/177 (45%), Positives = 111/177 (62%), Gaps = 2/177 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           Y  ++T FSP G L Q+EYAL AV  G  +VG++  + VVL  EKK    L D R V K+
Sbjct: 5   YSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKV 64
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +  HI L  +G+  D RVLV+RAR   Q + L  ++P+    + + +A + Q+YTQSG
Sbjct: 65  EPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 124
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           GVRPFG+S LI G++   G P L+Q+DPSG + AWKA A G+N  + + FLEK Y E
Sbjct: 125 GVRPFGVSLLICGWN--EGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 179

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

Iteration: 1
 Score =  161 bits (408), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 81/177 (45%), Positives = 111/177 (62%), Gaps = 2/177 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           Y  ++T FSP G L Q+EYAL AV  G  +VG++  + VVL  EKK    L D R V K+
Sbjct: 6   YSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKV 65
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +  HI L  +G+  D RVLV+RAR   Q + L  ++P+    + + +A + Q+YTQSG
Sbjct: 66  EPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG 125
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           GVRPFG+S LI G++   G P L+Q+DPSG + AWKA A G+N  + + FLEK Y E
Sbjct: 126 GVRPFGVSLLICGWN--EGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNE 180

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

Iteration: 1
 Score =  160 bits (404), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 85/190 (44%), Positives = 122/190 (64%), Gaps = 3/190 (1%)
Query: 6   RAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVS 65
           RAITVFSPDG LFQVEYA EAV+KG+ A+G++  + V+L  +KK   +L +   + KI  
Sbjct: 10  RAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQL 69
Query: 66  LDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGV 125
           +D+++A   +GL ADARVLV+ ARI  Q  ++T    V +E + + +A   Q+YTQ GGV
Sbjct: 70  IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGV 129
Query: 126 RPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-SGQ 184
           RP+G+S +  G D     P L+  DP+GT + +KA A G   +++  FLE+ YKE    +
Sbjct: 130 RPYGVSLIFAGIDQIG--PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEK 187
Query: 185 ETVKLAIRAL 194
           E V L I+AL
Sbjct: 188 EAVTLGIKAL 197

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

Iteration: 1
 Score =  160 bits (404), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 85/190 (44%), Positives = 122/190 (64%), Gaps = 3/190 (1%)
Query: 6   RAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVS 65
           RAITVFSPDG LFQVEYA EAV+KG+ A+G++  + V+L  +KK   +L +   + KI  
Sbjct: 14  RAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQL 73
Query: 66  LDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGV 125
           +D+++A   +GL ADARVLV+ ARI  Q  ++T    V +E + + +A   Q+YTQ GGV
Sbjct: 74  IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGV 133
Query: 126 RPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-SGQ 184
           RP+G+S +  G D     P L+  DP+GT + +KA A G   +++  FLE+ YKE    +
Sbjct: 134 RPYGVSLIFAGIDQIG--PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEK 191
Query: 185 ETVKLAIRAL 194
           E V L I+AL
Sbjct: 192 EAVTLGIKAL 201

>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 =  155 bits (392), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 75/194 (38%), Positives = 124/194 (63%), Gaps = 3/194 (1%)
Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVR 61
           RYD   T+FSP+G L+QVEYALE++     A+G+  +D +VL  E+K ++  L+      
Sbjct: 5   RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTE 64
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           K+  L++ IA+A AGL ADA +L+N ARI  Q++  T  + + VE + R ++ ++Q YTQ
Sbjct: 65  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 124
Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GG+RPFG+S +  G+D   G   LY ++PSG ++ WKA + G N+++ +  L+ +YK+ 
Sbjct: 125 HGGLRPFGVSFIYAGYDDRYGY-QLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDD 183
Query: 182 SG-QETVKLAIRAL 194
               + ++LA++ L
Sbjct: 184 MKVDDAIELALKTL 197

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

Iteration: 1
 Score =  155 bits (392), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 75/194 (38%), Positives = 124/194 (63%), Gaps = 3/194 (1%)
Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVR 61
           RYD   T+FSP+G L+QVEYALE++     A+G+  +D +VL  E+K ++  L+      
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTE 63
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           K+  L++ IA+A AGL ADA +L+N ARI  Q++  T  + + VE + R ++ ++Q YTQ
Sbjct: 64  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 123
Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GG+RPFG+S +  G+D   G   LY ++PSG ++ WKA + G N+++ +  L+ +YK+ 
Sbjct: 124 HGGLRPFGVSFIYAGYDDRYGY-QLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDD 182
Query: 182 SG-QETVKLAIRAL 194
               + ++LA++ L
Sbjct: 183 MKVDDAIELALKTL 196

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

Iteration: 1
 Score =  155 bits (392), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 75/194 (38%), Positives = 124/194 (63%), Gaps = 3/194 (1%)
Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVR 61
           RYD   T+FSP+G L+QVEYALE++     A+G+  +D +VL  E+K ++  L+      
Sbjct: 5   RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTE 64
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           K+  L++ IA+A AGL ADA +L+N ARI  Q++  T  + + VE + R ++ ++Q YTQ
Sbjct: 65  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQ 124
Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GG+RPFG+S +  G+D   G   LY ++PSG ++ WKA + G N+++ +  L+ +YK+ 
Sbjct: 125 HGGLRPFGVSFIYAGYDDRYGY-QLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDD 183
Query: 182 SG-QETVKLAIRAL 194
               + ++LA++ L
Sbjct: 184 MKVDDAIELALKTL 197

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

Iteration: 1
 Score =  150 bits (379), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 79/197 (40%), Positives = 117/197 (59%), Gaps = 8/197 (4%)
Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV-R 61
           RYD   T+FSP+G L+QVEYA+EA+      +G+   D V+L  E+++  KL D      
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSE 63
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  L+  +A + AG+ +DA VL N  R+  Q + L  ++P+  E +   +  ++Q YTQ
Sbjct: 64  KIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQ 123
Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GG RPFG+S L +G+D + G   LYQ+DPSG +  WKA   G NS +    L+++YKE 
Sbjct: 124 FGGKRPFGVSLLYIGWDKHYGF-QLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE- 181
Query: 182 SGQETVK----LAIRAL 194
            G+ T+K    LAI+ L
Sbjct: 182 -GEMTLKSALALAIKVL 197

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

Iteration: 1
 Score =  150 bits (378), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 76/190 (40%), Positives = 114/190 (60%), Gaps = 4/190 (2%)
Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV-R 61
           RYD   T+FSP+G L+QVEYA+EA+      +G+   D V+L  E+++  KL D      
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSE 63
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  L+  +A + AG+ +DA VL N  R+  Q + L  ++P+  E +   +  ++Q YTQ
Sbjct: 64  KIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQ 123
Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GG RPFG+S L +G+D + G   LYQ+DPSG +  WKA   G NS +    L+++YKE 
Sbjct: 124 FGGKRPFGVSLLYIGWDKHYGF-QLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE- 181
Query: 182 SGQETVKLAI 191
            G+ T+K A+
Sbjct: 182 -GEMTLKSAL 190

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

Iteration: 1
 Score =  150 bits (378), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 72/188 (38%), Positives = 121/188 (64%), Gaps = 3/188 (1%)
Query: 9   TVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLD 67
           T+FSP+G L+QVEYALE++     A+G+  +D +VL  E+K ++  L+      K+  L+
Sbjct: 1   TIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLN 60
Query: 68  NHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRP 127
           + IA+A AGL ADA +L+N ARI  Q++  T  + + VE + R ++ ++Q YTQ GG+RP
Sbjct: 61  DKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRP 120
Query: 128 FGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QET 186
           FG+S +  G+D   G   LY ++PSG ++ WKA + G N+++ +  L+ +YK+     + 
Sbjct: 121 FGVSFIYAGYDDRYGY-QLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDA 179
Query: 187 VKLAIRAL 194
           ++LA++ L
Sbjct: 180 IELALKTL 187

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

Iteration: 1
 Score =  144 bits (363), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 70/185 (37%), Positives = 118/185 (63%), Gaps = 3/185 (1%)
Query: 12  SPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHI 70
           SP+G L+QVEYALE++     A+G+  +D +VL  E+K ++  L+      K+  L++ I
Sbjct: 1   SPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKI 60
Query: 71  ALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGL 130
           A+A AGL ADA +L+N ARI  Q++  T  + + VE + R ++ ++Q YTQ GG+RPFG+
Sbjct: 61  AVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGV 120
Query: 131 STLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVKL 189
           S +  G+D   G   LY ++PSG ++ WKA + G N+++ +  L+ +YK+     + ++L
Sbjct: 121 SFIYAGYDDRYGY-QLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIEL 179
Query: 190 AIRAL 194
           A++ L
Sbjct: 180 ALKTL 184

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

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 75/199 (37%), Positives = 118/199 (59%), Gaps = 10/199 (5%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           + YDR +  FSP+G LFQVEYA+EA++ G+ A+G++ ++ V L VEK+    L +   + 
Sbjct: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIE 65
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KIV +D HI  A +GL ADA+ L+++AR+E Q+H  T  + +TVE +T+ ++ L  ++ +
Sbjct: 66  KIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGE 125
Query: 122 SGG-----VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK 176
                    RPFG++ L  G D     P L+  DPSGTF    A A G  S   +  L++
Sbjct: 126 EDADPGAMSRPFGVALLFGGVDEKG--PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQE 183
Query: 177 NYKETSGQETVKLAIRALL 195
            Y ++    T+K AI++ L
Sbjct: 184 VYHKSM---TLKEAIKSSL 199

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

Iteration: 1
 Score =  139 bits (350), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 74/199 (37%), Positives = 117/199 (58%), Gaps = 10/199 (5%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           + YDR +  FSP+G LFQVEY +EA++ G+ A+G++ ++ V L VEK+    L +   + 
Sbjct: 6   SEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIE 65
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KIV +D HI  A +GL ADA+ L+++AR+E Q+H  T  + +TVE +T+ ++ L  ++ +
Sbjct: 66  KIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGE 125
Query: 122 SGG-----VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK 176
                    RPFG++ L  G D     P L+  DPSGTF    A A G  S   +  L++
Sbjct: 126 EDADPGAMSRPFGVALLFGGVDEKG--PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQE 183
Query: 177 NYKETSGQETVKLAIRALL 195
            Y ++    T+K AI++ L
Sbjct: 184 LYHKSM---TLKEAIKSSL 199

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

Iteration: 1
 Score =  139 bits (349), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 79/197 (40%), Positives = 119/197 (60%), Gaps = 5/197 (2%)
Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
           RY  ++T FSP G L Q++YAL AV++G  ++G++ T+ VV+  EKKS+  L  S  + K
Sbjct: 4   RYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSK 63
Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQS--HRLTVEDPVTVEYITRYIAGLQQKYT 120
           +  L   I    +G+  D RVLV+++R    +   R+  E P T + +   +A + Q+ T
Sbjct: 64  VSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPT-KLLVSEVAKIMQEAT 122
Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK- 179
           QSGGVRPFG+S LI G D + G  SLYQ DPSG++  WKA A G+ S + + FLEK +  
Sbjct: 123 QSGGVRPFGVSLLIAGHDEFNGF-SLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWND 181
Query: 180 ETSGQETVKLAIRALLE 196
           E   ++ + +A+  L E
Sbjct: 182 ELELEDAIHIALLTLKE 198

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

Iteration: 1
 Score =  137 bits (344), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 75/197 (38%), Positives = 114/197 (57%), Gaps = 5/197 (2%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           + YDR ++ FSP+G LFQVEY+LEA++ G+ A+G+   + VVLGVEK++   L +S  + 
Sbjct: 6   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 65
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KIV +D HI  A +GL ADAR ++  AR    +H L  ++ + VE +T+ +  L      
Sbjct: 66  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLAAAAAM 125
Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIR-EFLEKNYKE 180
           S   RPFG++ LI G D   G   L+  +PSGTF  + A A G  S   + E L + +  
Sbjct: 126 S---RPFGVALLIAGHDADDGY-QLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSS 181
Query: 181 TSGQETVKLAIRALLEV 197
            + +E   L ++ L +V
Sbjct: 182 LTLKEAELLVLKILKQV 198

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

Iteration: 1
 Score =  136 bits (342), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 74/203 (36%), Positives = 116/203 (57%), Gaps = 8/203 (3%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           + YDR ++ FSP+G LFQVEY+LEA++ G+ A+G+   + VVLGVEK++   L +S  + 
Sbjct: 7   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 66
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KIV +D HI  A +GL ADAR ++  AR    +H L  ++ + VE +T+ +  L  ++ +
Sbjct: 67  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGE 126
Query: 122 SGG------VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIR-EFL 174
                     RPFG++ LI G D   G   L+  +PSGTF  + A A G  S   + E L
Sbjct: 127 GASGEERLMSRPFGVALLIAGHDADDGY-QLFHAEPSGTFYRYNAKAIGSGSEGAQAELL 185
Query: 175 EKNYKETSGQETVKLAIRALLEV 197
            + +   + +E   L ++ L +V
Sbjct: 186 NEWHSSLTLKEAELLVLKILKQV 208

>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 =  136 bits (342), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 74/203 (36%), Positives = 116/203 (57%), Gaps = 8/203 (3%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           + YDR ++ FSP+G LFQVEY+LEA++ G+ A+G+   + VVLGVEK++   L +S  + 
Sbjct: 6   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 65
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KIV +D HI  A +GL ADAR ++  AR    +H L  ++ + VE +T+ +  L  ++ +
Sbjct: 66  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGE 125
Query: 122 SGG------VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIR-EFL 174
                     RPFG++ LI G D   G   L+  +PSGTF  + A A G  S   + E L
Sbjct: 126 GASGEERLMSRPFGVALLIAGHDADDGY-QLFHAEPSGTFYRYNAKAIGSGSEGAQAELL 184
Query: 175 EKNYKETSGQETVKLAIRALLEV 197
            + +   + +E   L ++ L +V
Sbjct: 185 NEWHSSLTLKEAELLVLKILKQV 207

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

Iteration: 1
 Score =  136 bits (342), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 74/203 (36%), Positives = 116/203 (57%), Gaps = 8/203 (3%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           + YDR ++ FSP+G LFQVEY+LEA++ G+ A+G+   + VVLGVEK++   L +S  + 
Sbjct: 6   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 65
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KIV +D HI  A +GL ADAR ++  AR    +H L  ++ + VE +T+ +  L  ++ +
Sbjct: 66  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGE 125
Query: 122 SGG------VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIR-EFL 174
                     RPFG++ LI G D   G   L+  +PSGTF  + A A G  S   + E L
Sbjct: 126 GASGEERLMSRPFGVALLIAGHDADDGY-QLFHAEPSGTFYRYNAKAIGSGSEGAQAELL 184
Query: 175 EKNYKETSGQETVKLAIRALLEV 197
            + +   + +E   L ++ L +V
Sbjct: 185 NEWHSSLTLKEAELLVLKILKQV 207

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

Iteration: 1
 Score =  136 bits (342), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 74/203 (36%), Positives = 116/203 (57%), Gaps = 8/203 (3%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           + YDR ++ FSP+G LFQVEY+LEA++ G+ A+G+   + VVLGVEK++   L +S  + 
Sbjct: 8   SEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIE 67
Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KIV +D HI  A +GL ADAR ++  AR    +H L  ++ + VE +T+ +  L  ++ +
Sbjct: 68  KIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGE 127
Query: 122 SGG------VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIR-EFL 174
                     RPFG++ LI G D   G   L+  +PSGTF  + A A G  S   + E L
Sbjct: 128 GASGEERLMSRPFGVALLIAGHDADDGY-QLFHAEPSGTFYRYNAKAIGSGSEGAQAELL 186
Query: 175 EKNYKETSGQETVKLAIRALLEV 197
            + +   + +E   L ++ L +V
Sbjct: 187 NEWHSSLTLKEAELLVLKILKQV 209

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

Iteration: 1
 Score =  132 bits (333), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 114/200 (57%), Gaps = 8/200 (4%)
Query: 5   DRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIV 64
           DR ++ FSP+G LFQVEY+LEA++ G+ A+G+   + VVLGVEK++   L +S  + KIV
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60
Query: 65  SLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGG 124
            +D HI  A +GL ADAR ++  AR    +H L  ++ + VE +T+ +  L  ++ +   
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120
Query: 125 ------VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIR-EFLEKN 177
                  RPFG++ LI G D   G   L+  +PSGTF  + A A G  S   + E L + 
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGY-QLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEW 179
Query: 178 YKETSGQETVKLAIRALLEV 197
           +   + +E   L ++ L +V
Sbjct: 180 HSSLTLKEAELLVLKILKQV 199

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

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 75/197 (38%), Positives = 113/197 (57%), Gaps = 7/197 (3%)
Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
           +YD  +TV+SP G + Q+EYA+EAV++G+A VG++     VL   K++  +L   +  +K
Sbjct: 5   QYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAHQ--KK 62
Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           I+ +DNHI ++ AGL ADAR+L N  R EC   R   + P+ V  +   I    Q  TQ 
Sbjct: 63  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQR 122
Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKN---YK 179
            G RP+G+  LI G+D     P ++QT PS  +   +A + G  S S R +LE++   + 
Sbjct: 123 YGRRPYGVGLLIAGYDDMG--PHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFM 180
Query: 180 ETSGQETVKLAIRALLE 196
           E +  E VK  +RAL E
Sbjct: 181 ECNLNELVKHGLRALRE 197

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

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 75/197 (38%), Positives = 113/197 (57%), Gaps = 7/197 (3%)
Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
           +YD  +TV+SP G + Q+EYA+EAV++G+A VG++     VL   K++  +L   +  +K
Sbjct: 5   QYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAHQ--KK 62
Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           I+ +DNHI ++ AGL ADAR+L N  R EC   R   + P+ V  +   I    Q  TQ 
Sbjct: 63  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQR 122
Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKN---YK 179
            G RP+G+  LI G+D     P ++QT PS  +   +A + G  S S R +LE++   + 
Sbjct: 123 YGRRPYGVGLLIAGYDDMG--PHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFM 180
Query: 180 ETSGQETVKLAIRALLE 196
           E +  E VK  +RAL E
Sbjct: 181 ECNLDELVKHGLRALRE 197

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

Iteration: 1
 Score =  129 bits (325), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 72/197 (36%), Positives = 109/197 (55%), Gaps = 5/197 (2%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGN-AAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           A +DR IT+FSP+G L+QVEYA +A+ +G   +V VRG D  V+  +KK   KL DS  V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66
Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             +  +  +I     G+ AD+R  V RAR E  + +      + V+ + + IA + Q YT
Sbjct: 67  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126
Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK- 179
           Q+  +RP G   +++G D   G P +Y+ DP+G +  +KA A G        FLEK  K 
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQG-PQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKK 185
Query: 180 --ETSGQETVKLAIRAL 194
             + + ++TV+ AI  L
Sbjct: 186 KFDWTFEQTVETAITCL 202

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

Iteration: 1
 Score =  129 bits (323), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 72/197 (36%), Positives = 108/197 (54%), Gaps = 5/197 (2%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGN-AAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           A +DR IT+FSP+G L+QVEYA +A+ +G   +V VRG D  V+  +KK   KL DS  V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66
Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             +  +   I     G+ AD+R  V RAR E  + +      + V+ + + IA + Q YT
Sbjct: 67  THLFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126
Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK- 179
           Q+  +RP G   +++G D   G P +Y+ DP+G +  +KA A G        FLEK  K 
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQG-PQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKK 185
Query: 180 --ETSGQETVKLAIRAL 194
             + + ++TV+ AI  L
Sbjct: 186 KFDWTFEQTVETAITCL 202

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

Iteration: 1
 Score =  122 bits (307), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 71/181 (39%), Positives = 109/181 (60%), Gaps = 5/181 (2%)
Query: 19  QVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLK 78
           Q++YAL AV++G  ++G++ T+ VV+  EKKS+  L  S  + K+  L   I    +G+ 
Sbjct: 1   QIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMG 60
Query: 79  ADARVLVNRARIECQS--HRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVG 136
            D RVLV+++R    +   R+  E P T + +   +A + Q+ TQSGGVRPFG+S LI G
Sbjct: 61  PDYRVLVDKSRKVAHTSYKRIYGEYPPT-KLLVSEVAKIMQEATQSGGVRPFGVSLLIAG 119
Query: 137 FDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-ETSGQETVKLAIRALL 195
            D + G  SLYQ DPSG++  WKA A G+ S + + FLEK +  E   ++ + +A+  L 
Sbjct: 120 HDEFNGF-SLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLK 178
Query: 196 E 196
           E
Sbjct: 179 E 179

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

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 73/195 (37%), Positives = 103/195 (52%), Gaps = 6/195 (3%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD + +VFSPDG  FQVEYA++AV  G  ++G++  D VV  VEK    KL   +   KI
Sbjct: 4   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 63
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D HI    +GL  D R LVNR R E  S +   + P+ +      +    Q +T   
Sbjct: 64  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN 123
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK---NYKE 180
            VRPFG+ST+  G D       LY  +PSG++  +K  ATG+   S +  LEK   ++ E
Sbjct: 124 SVRPFGVSTIFGGVDKNGA--HLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE 181
Query: 181 -TSGQETVKLAIRAL 194
             S +E VK A + +
Sbjct: 182 GLSAREAVKQAAKII 196

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

Iteration: 1
 Score =  114 bits (286), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 68/173 (39%), Positives = 93/173 (53%), Gaps = 4/173 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD     FSP G LFQVEYALEA+++G+  VG+R     VL   K++A +L  S   +KI
Sbjct: 5   YDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQKKI 62
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
           +  D H+ L+ AGL  DARVL N  R +C    L     + VE     +    QK TQS 
Sbjct: 63  IKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSA 122
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK 176
           G RP+G+  LI+G+D  +G   L +  PSG  +     A G  S   + +LE+
Sbjct: 123 GGRPYGVGLLIIGYDK-SGA-HLLEFQPSGNVTELYGTAIGARSQGAKTYLER 173

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

Iteration: 1
 Score =  114 bits (286), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 73/195 (37%), Positives = 103/195 (52%), Gaps = 6/195 (3%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD + +VFSPDG  FQVEYA++AV  G  ++G++  D VV  VEK    KL   +   KI
Sbjct: 8   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 67
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D HI    +GL  D R LVNR R E  S +   + P+ +      +    Q +T   
Sbjct: 68  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN 127
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK---NYKE 180
            VRPFG+ST+  G D       LY  +PSG++  +K  ATG+   S +  LEK   ++ E
Sbjct: 128 SVRPFGVSTIFGGVDKNGA--HLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE 185
Query: 181 -TSGQETVKLAIRAL 194
             S +E VK A + +
Sbjct: 186 GLSAREAVKQAAKII 200

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

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 68/173 (39%), Positives = 93/173 (53%), Gaps = 4/173 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD     FSP G LFQVEYALEA+++G+  VG+R     VL   K++A +L  S   +KI
Sbjct: 6   YDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQKKI 63
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
           +  D H+ L+ AGL  DARVL N  R +C    L     + VE     +    QK TQS 
Sbjct: 64  IKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSA 123
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK 176
           G RP+G+  LI+G+D  +G   L +  PSG  +     A G  S   + +LE+
Sbjct: 124 GGRPYGVGLLIIGYDK-SGA-HLLEFQPSGNVTELYGTAIGARSQGAKTYLER 174

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

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 73/195 (37%), Positives = 103/195 (52%), Gaps = 6/195 (3%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD + +VFSPDG  FQVEYA++AV  G  ++G++  D VV  VEK    KL   +   KI
Sbjct: 8   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 67
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D HI    +GL  D R LVNR R E  S +   + P+ +      +    Q +T   
Sbjct: 68  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN 127
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK---NYKE 180
            VRPFG+ST+  G D       LY  +PSG++  +K  ATG+   S +  LEK   ++ E
Sbjct: 128 SVRPFGVSTIFGGVDKNGA--HLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE 185
Query: 181 -TSGQETVKLAIRAL 194
             S +E VK A + +
Sbjct: 186 GLSAREAVKQAAKII 200

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

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 73/195 (37%), Positives = 103/195 (52%), Gaps = 6/195 (3%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD + +VFSPDG  FQVEYA++AV  G  ++G++  D VV  VEK    KL   +   KI
Sbjct: 2   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 61
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D HI    +GL  D R LVNR R E  S +   + P+ +      +    Q +T   
Sbjct: 62  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN 121
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK---NYKE 180
            VRPFG+ST+  G D       LY  +PSG++  +K  ATG+   S +  LEK   ++ E
Sbjct: 122 SVRPFGVSTIFGGVDKNGA--HLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE 179
Query: 181 -TSGQETVKLAIRAL 194
             S +E VK A + +
Sbjct: 180 GLSAREAVKQAAKII 194

>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 =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 73/195 (37%), Positives = 103/195 (52%), Gaps = 6/195 (3%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD + +VFSPDG  FQVEYA++AV  G  ++G++  D VV  VEK    KL   +   KI
Sbjct: 7   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 66
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D HI    +GL  D R LVNR R E  S +   + P+ +      +    Q +T   
Sbjct: 67  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN 126
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK---NYKE 180
            VRPFG+ST+  G D       LY  +PSG++  +K  ATG+   S +  LEK   ++ E
Sbjct: 127 SVRPFGVSTIFGGVDKNGA--HLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPE 184
Query: 181 -TSGQETVKLAIRAL 194
             S +E VK A + +
Sbjct: 185 GLSAREAVKQAAKII 199

>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 =  113 bits (283), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 68/173 (39%), Positives = 93/173 (53%), Gaps = 4/173 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD     FSP G LFQVEYALEA+++G+  VG+R     VL   K++A +L  S   +KI
Sbjct: 6   YDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQKKI 63
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
           +  D H+ L+ AGL  DARVL N  R +C    L     + VE     +    QK TQS 
Sbjct: 64  IKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSY 123
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK 176
           G RP+G+  LI+G+D  +G   L +  PSG  +     A G  S   + +LE+
Sbjct: 124 GGRPYGVGLLIIGYDK-SGA-HLLEFQPSGNVTELYGTAIGARSQGAKTYLER 174

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

Iteration: 1
 Score =  113 bits (283), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 68/173 (39%), Positives = 93/173 (53%), Gaps = 4/173 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD     FSP G LFQVEYALEA+++G+  VG+R     VL   K++A +L  S   +KI
Sbjct: 7   YDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQKKI 64
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
           +  D H+ L+ AGL  DARVL N  R +C    L     + VE     +    QK TQS 
Sbjct: 65  IKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSY 124
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK 176
           G RP+G+  LI+G+D  +G   L +  PSG  +     A G  S   + +LE+
Sbjct: 125 GGRPYGVGLLIIGYDK-SGA-HLLEFQPSGNVTELYGTAIGARSQGAKTYLER 175

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

Iteration: 1
 Score =  113 bits (283), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 68/173 (39%), Positives = 93/173 (53%), Gaps = 4/173 (2%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD     FSP G LFQVEYALEA+++G+  VG+R     VL   K++A +L  S   +KI
Sbjct: 5   YDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQKKI 62
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
           +  D H+ L+ AGL  DARVL N  R +C    L     + VE     +    QK TQS 
Sbjct: 63  IKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSY 122
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK 176
           G RP+G+  LI+G+D  +G   L +  PSG  +     A G  S   + +LE+
Sbjct: 123 GGRPYGVGLLIIGYDK-SGA-HLLEFQPSGNVTELYGTAIGARSQGAKTYLER 173

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

Iteration: 1
 Score =  113 bits (282), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 66/186 (35%), Positives = 101/186 (54%), Gaps = 2/186 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD + + FSPDG +FQVEYA++AV   + A+G+R  D VV GVEK    KL +    +++
Sbjct: 8   YDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRL 67
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
            ++D H+ +A AGL ADAR L + AR E  + R      + ++++   +A     YT   
Sbjct: 68  FNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYS 127
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK-NYKETS 182
            VRPFG S ++  +    G   LY  DPSG    +   A G+   + +  +EK   KE +
Sbjct: 128 AVRPFGCSFMLGSYSANDGA-QLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMT 186
Query: 183 GQETVK 188
            ++ VK
Sbjct: 187 CRDVVK 192

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

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 66/186 (35%), Positives = 101/186 (54%), Gaps = 2/186 (1%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YD + + FSPDG +FQVEYA++AV   + A+G+R  D VV GVEK    KL +    +++
Sbjct: 7   YDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRL 66
Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
            ++D H+ +A AGL ADAR L + AR E  + R      + ++++   +A     YT   
Sbjct: 67  FNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYS 126
Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK-NYKETS 182
            VRPFG S ++  +    G   LY  DPSG    +   A G+   + +  +EK   KE +
Sbjct: 127 AVRPFGCSFMLGSYSVNDGA-QLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMT 185
Query: 183 GQETVK 188
            ++ VK
Sbjct: 186 CRDIVK 191

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

Iteration: 1
 Score =  107 bits (266), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 72/204 (35%), Positives = 104/204 (50%), Gaps = 10/204 (4%)
Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNA-AVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           A YDR IT+FSP+G L+QVEYA +A  + N  ++ VRG D  V+  +KK   KL D   V
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60
Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             I  +   I +   G   DAR    RA+ E    R      +  + + + +A L Q YT
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120
Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK- 179
           Q   +RP G+    V  D   G PS+Y+TDP+G +  +KA ATG     I   LE ++K 
Sbjct: 121 QRAYMRPLGVILTFVSVDEELG-PSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKK 179
Query: 180 -------ETSGQETVKLAIRALLE 196
                  E S ++ V+ AI  +++
Sbjct: 180 SKIDHINEESWEKVVEFAITHMID 203

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

Iteration: 1
 Score =  106 bits (265), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 71/202 (35%), Positives = 103/202 (50%), Gaps = 10/202 (4%)
Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNA-AVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
           YDR IT+FSP+G L+QVEYA +A  + N  ++ VRG D  V+  +KK   KL D   V  
Sbjct: 12  YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 71
Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           I  +   I +   G   DAR    RA+ E    R      +  + + + +A L Q YTQ 
Sbjct: 72  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQR 131
Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK--- 179
             +RP G+    V  D   G PS+Y+TDP+G +  +KA ATG     I   LE ++K   
Sbjct: 132 AYMRPLGVILTFVSVDEELG-PSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSK 190
Query: 180 -----ETSGQETVKLAIRALLE 196
                E S ++ V+ AI  +++
Sbjct: 191 IDHINEESWEKVVEFAITHMID 212

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 45/176 (25%), Positives = 80/176 (45%), Gaps = 17/176 (9%)
Query: 25  EAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR---KIVSLDNHIALACAGLKADA 81
           + +  G   VG+   D V++  E++  V +++  M +   K+  +D +  +  AGL  DA
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERR--VTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDA 60
Query: 82  RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGL--QQKYTQSGGVRPFGLSTLIVGFDP 139
           +VLV   + E + +RL     + +E +   ++ +  Q KY       P+ +  L+ G D 
Sbjct: 61  QVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYM------PYMVQLLVGGIDT 114
Query: 140 YTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRAL 194
               P ++  D +G        +TG  S  +   LE  Y E  +  E V L IRA+
Sbjct: 115 ---APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAI 167

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 45/176 (25%), Positives = 80/176 (45%), Gaps = 17/176 (9%)
Query: 25  EAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR---KIVSLDNHIALACAGLKADA 81
           + +  G   VG+   D V++  E++  V +++  M +   K+  +D +  +  AGL  DA
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERR--VTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDA 60
Query: 82  RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGL--QQKYTQSGGVRPFGLSTLIVGFDP 139
           +VLV   + E + +RL     + +E +   ++ +  Q KY       P+ +  L+ G D 
Sbjct: 61  QVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYM------PYMVQLLVGGIDT 114
Query: 140 YTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRAL 194
               P ++  D +G        +TG  S  +   LE  Y E  +  E V L IRA+
Sbjct: 115 ---APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAI 167

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 44/167 (26%), Positives = 77/167 (46%), Gaps = 17/167 (10%)
Query: 34  VGVRGTDIVVLGVEKKSAVKLQDSRMVR---KIVSLDNHIALACAGLKADARVLVNRARI 90
           VG+   D V++  E++  V +++  M +   K+  +D +  +  AGL  DA+VLV   + 
Sbjct: 4   VGITLKDAVIMATERR--VTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61
Query: 91  ECQSHRLTVEDPVTVEYITRYIAGL--QQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQ 148
           E + +RL     + +E +   ++ +  Q KY       P+ +  L+ G D     P ++ 
Sbjct: 62  ELELYRLQRRVNMPIEAVATLLSNMLNQVKYM------PYMVQLLVGGIDT---APHVFS 112
Query: 149 TDPSGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRAL 194
            D +G        +TG  S  +   LE  Y E  +  E V L IRA+
Sbjct: 113 IDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAI 159

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 73/164 (44%), Gaps = 9/164 (5%)
Query: 34  VGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           VG+   D VV+  EK++ +     S+  +KI  + + +A+  AG   DA+ L    +IE 
Sbjct: 4   VGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEA 63
Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP- 151
             + +  E   TV    R IA L      S    P+ +  LI G D  +   S+Y  DP 
Sbjct: 64  NLYEIRRERKPTV----RAIATLTSNLLNSYRYFPYLVQLLIGGID--SEGKSIYSIDPI 117
Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVKLAIRAL 194
            G        ATG  S +    LE  +    G  E V+LA+RA+
Sbjct: 118 GGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAI 161

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 41/172 (23%), Positives = 71/172 (41%), Gaps = 12/172 (6%)
Query: 30  GNAAVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   +G+ G D  VL  + ++      +SR   K+    ++I ++  G  AD   LV R 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68
Query: 89  RIECQSHRLTVEDP-VTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLY 147
           +   + +     D  +++    R I    Q         P+ + T+I G D   G  ++Y
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNI----QHLLYGKRFFPYYVHTIIAGLDE-DGKGAVY 123
Query: 148 QTDPSGTFSAWKANATGRNSNSIREFLE-----KNYKETSGQETVKLAIRAL 194
             DP G++   +  A G  ++ I  FL+     KN  E      VK  ++ L
Sbjct: 124 SFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYL 175

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 41/172 (23%), Positives = 71/172 (41%), Gaps = 12/172 (6%)
Query: 30  GNAAVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   +G+ G D  VL  + ++      +SR   K+    ++I ++  G  AD   LV R 
Sbjct: 28  GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 87
Query: 89  RIECQSHRLTVEDP-VTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLY 147
           +   + +     D  +++    R I    Q         P+ + T+I G D   G  ++Y
Sbjct: 88  KNSVKWYHFDHNDKKLSINSAARNI----QHLLYGKRFFPYYVHTIIAGLDE-DGKGAVY 142
Query: 148 QTDPSGTFSAWKANATGRNSNSIREFLE-----KNYKETSGQETVKLAIRAL 194
             DP G++   +  A G  ++ I  FL+     KN  E      VK  ++ L
Sbjct: 143 SFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYL 194

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 36/171 (21%), Positives = 76/171 (44%), Gaps = 7/171 (4%)
Query: 27  VRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLV 85
           +  G   +  R    +++ V+ + +A     S+ V+K++ ++  +    AG  AD +   
Sbjct: 72  IAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWE 131
Query: 86  NRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPS 145
                +C+ H L  ++ ++V   ++ ++ L  +Y  +G      + T+I G+    G P+
Sbjct: 132 TWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAG----LSMGTMICGYTRKEG-PT 186
Query: 146 LYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-ETSGQETVKLAIRALL 195
           +Y  D  GT         G         L+ NYK + S ++ + L  R++L
Sbjct: 187 IYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSIL 237

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 35/156 (22%), Positives = 70/156 (44%), Gaps = 6/156 (3%)
Query: 41  IVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVE 100
           I+V    + +A     S+ V+K++ ++  +    AG  AD +        +C+ H L  +
Sbjct: 12  IIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREK 71
Query: 101 DPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA 160
           + ++V   ++ ++ L  +Y  +G      + T+I G+    G P++Y  D  GT      
Sbjct: 72  ERISVAAASKILSNLVYQYKGAG----LSMGTMICGYTRKEG-PTIYYVDSDGTRLKGDI 126
Query: 161 NATGRNSNSIREFLEKNYK-ETSGQETVKLAIRALL 195
              G         L+ NYK + S ++ + L  R++L
Sbjct: 127 FCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSIL 162

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 35/171 (20%), Positives = 76/171 (44%), Gaps = 7/171 (4%)
Query: 27  VRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLV 85
           +  G   +  R    +++ V+ + +A     S+ V++++ ++  +    AG  AD +   
Sbjct: 72  IAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWE 131
Query: 86  NRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPS 145
                +C+ H L  ++ ++V   ++ ++ L  +Y  +G      + T+I G+    G P+
Sbjct: 132 TWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAG----LSMGTMICGYTRKEG-PT 186
Query: 146 LYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-ETSGQETVKLAIRALL 195
           +Y  D  GT         G         L+ NYK + S ++ + L  R++L
Sbjct: 187 IYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSIL 237

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 34/156 (21%), Positives = 70/156 (44%), Gaps = 6/156 (3%)
Query: 41  IVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVE 100
           I+V    + +A     S+ V++++ ++  +    AG  AD +        +C+ H L  +
Sbjct: 12  IIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREK 71
Query: 101 DPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA 160
           + ++V   ++ ++ L  +Y  +G      + T+I G+    G P++Y  D  GT      
Sbjct: 72  ERISVAAASKILSNLVYQYKGAG----LSMGTMICGYTRKEG-PTIYYVDSDGTRLKGDI 126
Query: 161 NATGRNSNSIREFLEKNYK-ETSGQETVKLAIRALL 195
              G         L+ NYK + S ++ + L  R++L
Sbjct: 127 FCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSIL 162

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	199
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-111
1iru_F	263	20S proteasome; cell cycle, immune response, prote	1e-107
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	1e-106
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-106
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	1e-105
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	1e-104
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-104
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-104
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	1e-102
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-100
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	1e-100
1iru_C	261	20S proteasome; cell cycle, immune response, prote	1e-100
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	1e-100
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	2e-99
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	3e-99
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	4e-99
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	2e-97
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	2e-97
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	4e-49
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	4e-46
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	2e-38
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	5e-38
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	2e-34
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	2e-33
1iru_I	234	20S proteasome; cell cycle, immune response, prote	7e-31
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	2e-30
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	5e-29
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	3e-28
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	1e-26
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	6e-25
1iru_L	204	20S proteasome; cell cycle, immune response, prote	1e-23
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	2e-23
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	3e-21
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	7e-21
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-20
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	2e-19
1iru_H	205	20S proteasome; cell cycle, immune response, prote	3e-19
1iru_K	201	20S proteasome; cell cycle, immune response, prote	5e-19
1iru_J	205	20S proteasome; cell cycle, immune response, prote	3e-18
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	7e-18
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	2e-17
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	1e-15
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	1e-15
1iru_M	213	20S proteasome; cell cycle, immune response, prote	3e-15
1iru_N	219	20S proteasome; cell cycle, immune response, prote	9e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	3e-04

>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 =  317 bits (814), Expect = e-111
 Identities = 143/197 (72%), Positives = 164/197 (83%), Gaps = 4/197 (2%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDGHLFQVEYA EAV+KG+ AVGVRG DIVVLGVEKKS  KLQD R VRKI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
            +LD+++ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQS 
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE--- 180
           G RPFG+S LIVGFD   G P LYQTDPSGT+ AWKANA GR + S+REFLEKNY +   
Sbjct: 123 GRRPFGISALIVGFDF-DGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAI 181

Query: 181 TSGQETVKLAIRALLEV 197
            +   T+KL I+ALLEV
Sbjct: 182 ETDDLTIKLVIKALLEV 198

>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 =  306 bits (787), Expect = e-107
 Identities = 77/202 (38%), Positives = 112/202 (55%), Gaps = 9/202 (4%)

Query: 1   MAR--YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSR 58
           M R  YD  +TV+SP G + Q+EYA+EAV++G+A VG++     VL   K++  +L    
Sbjct: 1   MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAH- 59

Query: 59  MVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQK 118
             +KI+ +DNHI ++ AGL ADAR+L N  R EC   R   + P+ V  +   I    Q 
Sbjct: 60  -QKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQI 118

Query: 119 YTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY 178
            TQ  G RP+G+  LI G+D     P ++QT PS  +   +A + G  S S R +LE++ 
Sbjct: 119 PTQRYGRRPYGVGLLIAGYDDMG--PHIFQTCPSANYFDCRAMSIGARSQSARTYLERHM 176

Query: 179 KE---TSGQETVKLAIRALLEV 197
            E    +  E VK  +RAL E 
Sbjct: 177 SEFMECNLNELVKHGLRALRET 198

>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 =  303 bits (779), Expect = e-106
 Identities = 122/199 (61%), Positives = 161/199 (80%), Gaps = 5/199 (2%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRM-VRK 62
           YDRA+++FSPDGH+FQVEYALEAV++G  AVGV+G + VVLG E++S +KLQD+R+   K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61

Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           +  +D+H+ L+ +GL AD+R+L+ +AR+E QSHRLT+EDPVTVEY+TRY+AG+QQ+YTQS
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 121

Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET- 181
           GGVRPFG+STLI GFDP    P LYQT+PSG +S+W A   GRNS ++REFLEKNY    
Sbjct: 122 GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKE 181

Query: 182 ---SGQETVKLAIRALLEV 197
              + +E VKL +R+LLEV
Sbjct: 182 PPATVEECVKLTVRSLLEV 200

>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 =  302 bits (777), Expect = e-106
 Identities = 73/200 (36%), Positives = 110/200 (55%), Gaps = 5/200 (2%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNA-AVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           A +DR IT+FSP+G L+QVEYA +A+ +G   +V VRG D  V+  +KK   KL DS  V
Sbjct: 7   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 66

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             +  +  +I     G+ AD+R  V RAR E  + +      + V+ + + IA + Q YT
Sbjct: 67  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 126

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           Q+  +RP G   +++G D   G P +Y+ DP+G +  +KA A G        FLEK  K+
Sbjct: 127 QNAEMRPLGCCMILIGIDEEQG-PQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKK 185

Query: 181 T---SGQETVKLAIRALLEV 197
               + ++TV+ AI  L  V
Sbjct: 186 KFDWTFEQTVETAITCLSTV 205

>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 =  302 bits (775), Expect = e-105
 Identities = 76/200 (38%), Positives = 118/200 (59%), Gaps = 4/200 (2%)

Query: 1   MA-RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRM 59
           M  RY  ++T FSP G L Q++YAL AV++G  ++G++ T+ VV+  EKKS+  L  S  
Sbjct: 1   MTDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSET 60

Query: 60  VRKIVSLDNHIALACAGLKADARVLVNRARIECQ-SHRLTVEDPVTVEYITRYIAGLQQK 118
           + K+  L   I    +G+  D RVLV+++R     S++    +    + +   +A + Q+
Sbjct: 61  LSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQE 120

Query: 119 YTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY 178
            TQSGGVRPFG+S LI G D + G  SLYQ DPSG++  WKA A G+ S + + FLEK +
Sbjct: 121 ATQSGGVRPFGVSLLIAGHDEFNG-FSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRW 179

Query: 179 KET-SGQETVKLAIRALLEV 197
            +    ++ + +A+  L E 
Sbjct: 180 NDELELEDAIHIALLTLKES 199

>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 =  299 bits (769), Expect = e-104
 Identities = 71/205 (34%), Positives = 105/205 (51%), Gaps = 10/205 (4%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNA-AVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           A YDR IT+FSP+G L+QVEYA +A  + N  ++ VRG D  V+  +KK   KL D   V
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             I  +   I +   G   DAR    RA+ E    R      +  + + + +A L Q YT
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           Q   +RP G+    V  D   G PS+Y+TDP+G +  +KA ATG     I   LE ++K+
Sbjct: 121 QRAYMRPLGVILTFVSVDEELG-PSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKK 179

Query: 181 T--------SGQETVKLAIRALLEV 197
           +        S ++ V+ AI  +++ 
Sbjct: 180 SKIDHINEESWEKVVEFAITHMIDA 204

>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 =  298 bits (766), Expect = e-104
 Identities = 84/197 (42%), Positives = 117/197 (59%), Gaps = 3/197 (1%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             Y  ++T FSP G L Q+EYAL AV  G  +VG++  + VVL  EKK    L D R V 
Sbjct: 3   RGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVH 62

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           K+  +  HI L  +G+  D RVLV+RAR   Q + L  ++P+    + + +A + Q+YTQ
Sbjct: 63  KVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQ 122

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
           SGGVRPFG+S LI G++     P L+Q+DPSG + AWKA A G+N  + + FLEK Y E 
Sbjct: 123 SGGVRPFGVSLLICGWNEGR--PYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNED 180

Query: 182 -SGQETVKLAIRALLEV 197
              ++ +  AI  L E 
Sbjct: 181 LELEDAIHTAILTLKES 197

>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 =  297 bits (764), Expect = e-104
 Identities = 73/203 (35%), Positives = 119/203 (58%), Gaps = 8/203 (3%)

Query: 1   MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
            + YDR +  FSP+G LFQVEY +EA++ G+ A+G++ ++ V L VEK+    L +   +
Sbjct: 5   RSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSI 64

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
            KIV +D HI  A +GL ADA+ L+++AR+E Q+H  T  + +TVE +T+ ++ L  ++ 
Sbjct: 65  EKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFG 124

Query: 121 QSGG-----VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLE 175
           +         RPFG++ L  G D     P L+  DPSGTF    A A G  S   +  L+
Sbjct: 125 EEDADPGAMSRPFGVALLFGGVDEKG--PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQ 182

Query: 176 KNYKET-SGQETVKLAIRALLEV 197
           + Y ++ + +E +K ++  L +V
Sbjct: 183 ELYHKSMTLKEAIKSSLIILKQV 205

>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 =  295 bits (756), Expect = e-102
 Identities = 72/200 (36%), Positives = 100/200 (50%), Gaps = 6/200 (3%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             YD + +VFSPDG  FQVEYA++AV  G  ++G++  D VV  VEK    KL   +   
Sbjct: 6   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 65

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  +D HI    +GL  D R LVNR R E  S +   + P+ +      +    Q +T 
Sbjct: 66  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 125

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-- 179
              VRPFG+ST+  G D       LY  +PSG++  +K  ATG+   S +  LEK     
Sbjct: 126 YNSVRPFGVSTIFGGVDKNG--AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 183

Query: 180 --ETSGQETVKLAIRALLEV 197
               S +E VK A + +   
Sbjct: 184 PEGLSAREAVKQAAKIIYLA 203

>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 =  290 bits (744), Expect = e-100
 Identities = 65/197 (32%), Positives = 103/197 (52%), Gaps = 2/197 (1%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             YD + + FSPDG +FQVEYA++AV   + A+G+R  D VV GVEK    KL +    +
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           ++ ++D H+ +A AGL ADAR L + AR E  + R      + ++++   +A     YT 
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTL 124

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
              VRPFG S ++  +    G   LY  DPSG    +   A G+   + +  +EK   + 
Sbjct: 125 YSAVRPFGCSFMLGSYSVNDG-AQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKE 183

Query: 182 -SGQETVKLAIRALLEV 197
            + ++ VK   + +  V
Sbjct: 184 MTCRDIVKEVAKIIYIV 200

>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 =  289 bits (741), Expect = e-100
 Identities = 72/200 (36%), Positives = 100/200 (50%), Gaps = 6/200 (3%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             YD + +VFSPDG  FQVEYA++AV  G  ++G++  D VV  VEK    KL   +   
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  +D HI    +GL  D R LVNR R E  S +   + P+ +      +    Q +T 
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 121

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-- 179
              VRPFG+ST+  G D       LY  +PSG++  +K  ATG+   S +  LEK     
Sbjct: 122 YNSVRPFGVSTIFGGVDKNG--AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 179

Query: 180 --ETSGQETVKLAIRALLEV 197
               S +E VK A + +   
Sbjct: 180 PEGLSAREAVKQAAKIIYLA 199

>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 =  289 bits (742), Expect = e-100
 Identities = 77/201 (38%), Positives = 118/201 (58%), Gaps = 5/201 (2%)

Query: 1   MA-RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRM 59
           M+ RYD   T+FSP+G L+QVEYA+EA+      +G+   D V+L  E+++  KL D   
Sbjct: 1   MSRRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVF 60

Query: 60  V-RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQK 118
              KI  L+  +A + AG+ +DA VL N  R+  Q + L  ++P+  E +   +  ++Q 
Sbjct: 61  FSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQA 120

Query: 119 YTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY 178
           YTQ GG RPFG+S L +G+D + G   LYQ+DPSG +  WKA   G NS +    L+++Y
Sbjct: 121 YTQFGGKRPFGVSLLYIGWDKHYG-FQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDY 179

Query: 179 KET--SGQETVKLAIRALLEV 197
           KE   + +  + LAI+ L + 
Sbjct: 180 KEGEMTLKSALALAIKVLNKT 200

>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 =  288 bits (739), Expect = e-100
 Identities = 86/197 (43%), Positives = 123/197 (62%), Gaps = 3/197 (1%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             Y RAITVFSPDG LFQVEYA EAV+KG+ A+G++  + V+L  +KK   +L +   + 
Sbjct: 6   MAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIE 65

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  +D+++A   +GL ADARVLV+ ARI  Q  ++T    V +E + + +A   Q+YTQ
Sbjct: 66  KIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQ 125

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GGVRP+G+S +  G D     P L+  DP+GT + +KA A G   +++  FLE+ YKE 
Sbjct: 126 YGGVRPYGVSLIFAGIDQIG--PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 183

Query: 182 -SGQETVKLAIRALLEV 197
              +E V L I+AL   
Sbjct: 184 LPEKEAVTLGIKALKSS 200

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

 Score =  287 bits (736), Expect = 2e-99
 Identities = 93/197 (47%), Positives = 130/197 (65%), Gaps = 3/197 (1%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
           + YDRAITVFSP+G L+QVEYA EAVR+G  A+G+   D VVL V+++   KL   R + 
Sbjct: 10  SAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIE 69

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  +D+H+A A +GL ADARVL++RAR+E Q +RLT  + +++E + + I  ++Q YTQ
Sbjct: 70  KIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQ 129

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GGVRPFG+S LI G D       L++TDPSG    +KA A G     + E LEK Y++ 
Sbjct: 130 HGGVRPFGVSLLIAGIDKNE--ARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDD 187

Query: 182 -SGQETVKLAIRALLEV 197
            +  E ++LAI AL + 
Sbjct: 188 ITLDEGLELAITALTKA 204

>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 =  285 bits (732), Expect = 3e-99
 Identities = 69/200 (34%), Positives = 98/200 (49%), Gaps = 9/200 (4%)

Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
            YD     FSP G LFQVEYALEA+++G+  VG+R     VL   K++A +L      +K
Sbjct: 4   NYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSY--QKK 61

Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           I+  D H+ L+ AGL  DARVL N  R +C    L     + VE     +    QK TQS
Sbjct: 62  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 121

Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET- 181
            G RP+G+  LI+G+D       L +  PSG  +     A G  S   + +LE+      
Sbjct: 122 YGGRPYGVGLLIIGYDKSG--AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFI 179

Query: 182 ----SGQETVKLAIRALLEV 197
               +  E +K  + A+ + 
Sbjct: 180 KIDGNPDELIKAGVEAISQS 199

>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 =  286 bits (733), Expect = 4e-99
 Identities = 75/198 (37%), Positives = 123/198 (62%), Gaps = 3/198 (1%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMV 60
            RYD   T+FSP+G L+QVEYALE++     A+G+  +D +VL  E+K    L +     
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 62

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
            K+  L++ IA+A AGL ADA +L+N ARI  Q++  T  + + VE + R ++ ++Q YT
Sbjct: 63  EKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT 122

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           Q GG+RPFG+S +  G+D   G   LY ++PSG ++ WKA + G N+++ +  L+ +YK+
Sbjct: 123 QHGGLRPFGVSFIYAGYDDRYG-YQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKD 181

Query: 181 T-SGQETVKLAIRALLEV 197
                + ++LA++ L + 
Sbjct: 182 DMKVDDAIELALKTLSKT 199

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

 Score =  281 bits (722), Expect = 2e-97
 Identities = 93/197 (47%), Positives = 128/197 (64%), Gaps = 4/197 (2%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             YDRAITVFSPDG LFQVEYA EAV++G  A+G++  + V+L  +K+   KL +   + 
Sbjct: 6   MGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIE 65

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  +D HI  A +GL ADARVL++RARIE Q +RLT + P+TV+ + + I   +Q+YTQ
Sbjct: 66  KIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQ 125

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
            GGVRPFG+S LI G +    VP LY+TDPSG    +KA A G    ++ EF EK Y++ 
Sbjct: 126 YGGVRPFGVSLLIAGVN---EVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDD 182

Query: 182 -SGQETVKLAIRALLEV 197
            S  + + L + A+   
Sbjct: 183 LSFDDAMVLGLVAMGLS 199

>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 =  281 bits (722), Expect = 2e-97
 Identities = 72/200 (36%), Positives = 113/200 (56%), Gaps = 8/200 (4%)

Query: 5   DRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIV 64
           DR ++ FSP+G LFQVEY+LEA++ G+ A+G+   + VVLGVEK++   L +S  + KIV
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60

Query: 65  SLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG- 123
            +D HI  A +GL ADAR ++  AR    +H L  ++ + VE +T+ +  L  ++ +   
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

Query: 124 -----GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY 178
                  RPFG++ LI G D   G   L+  +PSGTF  + A A G  S   +  L   +
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDG-YQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEW 179

Query: 179 KET-SGQETVKLAIRALLEV 197
             + + +E   L ++ L +V
Sbjct: 180 HSSLTLKEAELLVLKILKQV 199

>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 =  159 bits (403), Expect = 4e-49
 Identities = 36/193 (18%), Positives = 69/193 (35%), Gaps = 14/193 (7%)

Query: 12  SPDGHLFQ-VEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHI 70
           SP+  + +  E A + + +  + V +     V+   E         SR ++KI  L + +
Sbjct: 8   SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENP-------SRSLQKISELYDRV 60

Query: 71  ALACAGLKADARVLVNRARIECQSHRLT-VEDPVTVEYITRYIAGLQQKYTQSGGVRPFG 129
             A AG   +   L         +         VT   +    A        +   +P+ 
Sbjct: 61  GFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGT-IFTEQAKPYE 119

Query: 130 LSTLI--VGFDPYTGVPSLYQTDPSGTFS-AWKANATGRNSNSIREFLEKNYKET-SGQE 185
           +   +  V     T  P LY+    G+ +        G  +  I   L+++Y E  S  +
Sbjct: 120 VELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTD 179

Query: 186 TVKLAIRALLEVS 198
            +++A+ AL   S
Sbjct: 180 ALRIAVAALRAGS 192

>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 =  151 bits (383), Expect = 4e-46
 Identities = 32/186 (17%), Positives = 65/186 (34%), Gaps = 15/186 (8%)

Query: 19  QVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLK 78
           + E A + + +G + V +   D V+   E  S         + K+  L + +  A  G  
Sbjct: 16  RSELARKGIARGRSVVVLTFRDGVLFVAENPS-------TALHKVSELYDRLGFAAVGKY 68

Query: 79  ADARVLVNRARIECQSHRLT-VEDPVTVEYITRYIA-GLQQKYTQSGGVRPFGLSTLI-- 134
            +   L     +       +     VT   +    A  L   +T+    +P+ +   +  
Sbjct: 69  NEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--QPKPYEVEICVAE 126

Query: 135 VGFDPYTGVPSLYQTDPSGTFSAWK-ANATGRNSNSIREFLEKNYKET-SGQETVKLAIR 192
           VG       P LY+    G+    +     G  +  I   + ++Y+     +  V +A+ 
Sbjct: 127 VGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVN 186

Query: 193 ALLEVS 198
           AL +  
Sbjct: 187 ALRQGG 192

>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 =  130 bits (330), Expect = 2e-38
 Identities = 36/166 (21%), Positives = 65/166 (39%), Gaps = 9/166 (5%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
             G+   D V+LG + + +   +   +   KI  +   I    AG+ AD  +    A  +
Sbjct: 3   IAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASK 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            + H L+      V  +TR +     +Y         G S ++ G D   G P LY+  P
Sbjct: 63  MELHALSTGREPRVATVTRILRQTLFRYQG-----HVGASLVVGGVDL-NG-PQLYEVHP 115

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLE 196
            G++S     A G    +    LE  ++   + +   +L + A+  
Sbjct: 116 HGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITA 161

>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 =  130 bits (330), Expect = 5e-38
 Identities = 38/187 (20%), Positives = 70/187 (37%), Gaps = 10/187 (5%)

Query: 11  FSPDGHLFQVEYAL-EAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDN 68
           +  +  L +  +   +A   G   VGV+  + VV+  + + +   +   +   K+  +  
Sbjct: 9   YQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISP 68

Query: 69  HIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPF 128
            I  A AG  AD   +        + H L       V    + +     KY         
Sbjct: 69  KIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG-----HI 123

Query: 129 GLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETV 187
           G   ++ G DP TG   L+     G+       + G  S +    LE ++K+  + +E +
Sbjct: 124 GAYLIVAGVDP-TG-SHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI 181

Query: 188 KLAIRAL 194
           KLA  A+
Sbjct: 182 KLASDAI 188

>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 =  120 bits (303), Expect = 2e-34
 Identities = 35/164 (21%), Positives = 62/164 (37%), Gaps = 9/164 (5%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            VGV+  + VV+  + + +   +   +   K+  +   I  A AG  AD   +       
Sbjct: 3   IVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSN 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            + H L       V    + +     KY         G   ++ G DP TG   L+    
Sbjct: 63  IELHSLYTSREPRVVSALQMLKQHLFKYQG-----HIGAYLIVAGVDP-TG-SHLFSIHA 115

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRAL 194
            G+       + G  S +    LE ++K+  + +E +KLA  A+
Sbjct: 116 HGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAI 159

>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 =  117 bits (296), Expect = 2e-33
 Identities = 41/175 (23%), Positives = 76/175 (43%), Gaps = 9/175 (5%)

Query: 25  EAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARV 83
           + +  G   VG+   D V++  E++ +       +  +K+  +D +  +  AGL  DA+V
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQV 62

Query: 84  LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGV 143
           LV   + E + +RL     + +E +   ++ +  +        P+ +  L+ G D  T  
Sbjct: 63  LVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKY----MPYMVQLLVGGID--TA- 115

Query: 144 PSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEV 197
           P ++  D +G        +TG  S  +   LE  Y E  +  E V L IRA+   
Sbjct: 116 PHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAA 170

>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 =  111 bits (280), Expect = 7e-31
 Identities = 34/167 (20%), Positives = 57/167 (34%), Gaps = 9/167 (5%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
             GV   D +VLG + + +   +   +   KI  +  +I    AG  AD  +        
Sbjct: 3   IAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSN 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            + H L+      V    R +  +  +Y         G + ++ G D  TG P LY   P
Sbjct: 63  LELHSLSTGRLPRVVTANRMLKQMLFRYRG-----YIGAALVLGGVDV-TG-PHLYSIYP 115

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEV 197
            G+         G  S +     E  ++     +E   L   A+   
Sbjct: 116 HGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAG 162

>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 =  111 bits (280), Expect = 2e-30
 Identities = 37/199 (18%), Positives = 70/199 (35%), Gaps = 9/199 (4%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRK 62
            +  I   S          + +    G   V +     V+L  +++ +   L  SR V  
Sbjct: 39  PENRIGHRSHSTRGGDGMESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEA 98

Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           +   D + A   AG    A  LV    +E + +      P+T +     +A + +     
Sbjct: 99  VYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGN-LG 157

Query: 123 GGVRPFGLSTLIVGFDPY----TGVPSLYQTDPSGTFSAWKAN--ATGRNSNSIREFLEK 176
             ++   +  L+VG+D      +    +   D  G     +A   A G  S   +  L+K
Sbjct: 158 AAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKK 217

Query: 177 NYKET-SGQETVKLAIRAL 194
            Y      +  ++ AI +L
Sbjct: 218 IYSPDSDEETALRAAIESL 236

>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 =  105 bits (265), Expect = 5e-29
 Identities = 34/165 (20%), Positives = 64/165 (38%), Gaps = 4/165 (2%)

Query: 34  VGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           +G+R  D V+L   K     +        K   L  H  ++ AG   D        +   
Sbjct: 5   LGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANI 64

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
           Q + +  +  ++ + ++ ++     K  +S    P+ ++ LI G+D     P LYQ D  
Sbjct: 65  QLYSIREDYELSPQAVSSFVRQELAKSIRSRR--PYQVNVLIGGYDKKKNKPELYQIDYL 122

Query: 153 GTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLE 196
           GT       A G +       L+ +Y+   + +E + L    + E
Sbjct: 123 GTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQE 167

>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 =  105 bits (265), Expect = 3e-28
 Identities = 35/174 (20%), Positives = 73/174 (41%), Gaps = 7/174 (4%)

Query: 25  EAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARV 83
             +  G   +  R    +++ V+ + +A     S+ V+K++ ++  +    AG  AD + 
Sbjct: 70  IKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQF 129

Query: 84  LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGV 143
                  +C+ H L  ++ ++V   ++ ++ L  +Y          + T+I G+    G 
Sbjct: 130 WETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEG- 184

Query: 144 PSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLE 196
           P++Y  D  GT         G         L+ NYK   S ++ + L  R++L 
Sbjct: 185 PTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILA 238

>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 Length = 235

 Score =  101 bits (252), Expect = 1e-26
 Identities = 34/170 (20%), Positives = 60/170 (35%), Gaps = 9/170 (5%)

Query: 33  AVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            V +     V+L  ++++       SR V K+   D + A   AG    A  LV    +E
Sbjct: 3   IVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVE 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKY----TQSGGVRPFGLSTLIVGFDPYTGVPSLY 147
            + +      P+T +     +A + +       Q   V P  +   +   D       + 
Sbjct: 63  LEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRA-GRIV 121

Query: 148 QTDPSGTFSAWKAN--ATGRNSNSIREFLEKNYKET-SGQETVKLAIRAL 194
             D  G     +A   A G  S   +  L+K Y      +  ++ AI +L
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESL 171

>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 = 95.8 bits (239), Expect = 6e-25
 Identities = 33/166 (19%), Positives = 71/166 (42%), Gaps = 7/166 (4%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            +  R    +++ V+ + +A     S+ V++++ ++  +    AG  AD +        +
Sbjct: 3   TLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQ 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
           C+ H L  ++ ++V   ++ ++ L  +Y          + T+I G+    G P++Y  D 
Sbjct: 63  CRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEG-PTIYYVDS 117

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLE 196
            GT         G         L+ NYK   S ++ + L  R++L 
Sbjct: 118 DGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILA 163

>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 = 91.9 bits (229), Expect = 1e-23
 Identities = 31/163 (19%), Positives = 69/163 (42%), Gaps = 8/163 (4%)

Query: 34  VGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           +  +    V++  + + +A     S+ V+K++ ++ ++    AG  AD          +C
Sbjct: 4   LAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQC 63

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
           + + L  ++ ++V   ++ +A +  +Y          + T+I G+D   G P LY  D  
Sbjct: 64  RIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDK-RG-PGLYYVDSE 117

Query: 153 GTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRAL 194
           G   +    + G  S      +++ Y      ++   LA RA+
Sbjct: 118 GNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAI 160

>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 = 93.8 bits (233), Expect = 2e-23
 Identities = 33/178 (18%), Positives = 70/178 (39%), Gaps = 9/178 (5%)

Query: 25  EAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARV 83
             +  G   V ++    VV+  +++ +   +   R VRK+   D++ A   AG  A A  
Sbjct: 52  AQLPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVE 111

Query: 84  LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPY--- 140
                 +E + +      P+T       +A + +    +   +      L+ G+D +   
Sbjct: 112 FARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAM-QGLLALPLLAGYDIHASD 170

Query: 141 -TGVPSLYQTDPSGTFSAWKAN--ATGRNSNSIREFLEKNYKE-TSGQETVKLAIRAL 194
                 +   D +G ++  +    A G  S   +  ++K Y + T G   +++A+ AL
Sbjct: 171 PQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEAL 228

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

 Score = 84.5 bits (210), Expect = 7e-21
 Identities = 47/165 (28%), Positives = 70/165 (42%), Gaps = 9/165 (5%)

Query: 34  VGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           VG+   D VV+  EK+ +      S+  +KI  + + +A+  AG   DA+ L    +IE 
Sbjct: 4   VGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEA 63

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
             + +  E   TV  I    + L   Y       P+ +  LI G D   G  S+Y  DP 
Sbjct: 64  NLYEIRRERKPTVRAIATLTSNLLNSYRY----FPYLVQLLIGGIDS-EG-KSIYSIDPI 117

Query: 153 GT-FSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALL 195
           G         ATG  S +    LE  +       E V+LA+RA+ 
Sbjct: 118 GGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIY 162

>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 = 83.9 bits (208), Expect = 2e-20
 Identities = 36/158 (22%), Positives = 65/158 (41%), Gaps = 7/158 (4%)

Query: 30  GNAAVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   +G+ G D  VL  + ++      +SR   K+    ++I ++  G  AD   LV R 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 89  RIECQSHRLTVED-PVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLY 147
           +   + +     D  +++    R I  L           P+ + T+I G D   G  ++Y
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRF----FPYYVHTIIAGLDE-DGKGAVY 123

Query: 148 QTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSGQE 185
             DP G++   +  A G  ++ I  FL+      +  E
Sbjct: 124 SFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYE 161

>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 = 81.1 bits (201), Expect = 2e-19
 Identities = 34/170 (20%), Positives = 63/170 (37%), Gaps = 8/170 (4%)

Query: 30  GNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   V + G D V +  + +  +  L  S    KI     H+ L   GL  D   L    
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMF 66

Query: 89  RIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQ 148
           R +   ++L  E  +  E  T+ ++    +        P+ +  ++ G +  +G P +  
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFG----PYFVGPVVAGINSKSGKPFIAG 122

Query: 149 TDPSGTFSAWKA-NATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLE 196
            D  G     K    +G  S+ +    E  Y+     ++  +   +ALL 
Sbjct: 123 FDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLN 172

>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 = 80.7 bits (200), Expect = 3e-19
 Identities = 30/163 (18%), Positives = 63/163 (38%), Gaps = 8/163 (4%)

Query: 34  VGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           + V+    VVLG + + +      +R+  K+  + + I    +G  AD + + +    + 
Sbjct: 4   MAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQL 63

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
             H + + +P  V         +  +Y +           +I G+DP  G   +Y     
Sbjct: 64  GFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEG-GQVYSVPMG 117

Query: 153 GTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRAL 194
           G          G  S+ I  +++  Y+E  + +E ++    AL
Sbjct: 118 GMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANAL 160

>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 = 79.9 bits (198), Expect = 5e-19
 Identities = 33/165 (20%), Positives = 66/165 (40%), Gaps = 5/165 (3%)

Query: 34  VGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           +G++G D V++  ++ +A   +Q      K+  +   I L C G   D        +   
Sbjct: 5   IGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNV 64

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
           Q +++     ++      +         +S    P+ ++ L+ G+D + G P+LY  D  
Sbjct: 65  QLYKMRNGYELSPTAAANFTRRNLADCLRSRT--PYHVNLLLAGYDEHEG-PALYYMDYL 121

Query: 153 GTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLE 196
              +     A G  +      L++ Y  T S +  V+L  + L E
Sbjct: 122 AALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEE 166

>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 = 77.6 bits (192), Expect = 3e-18
 Identities = 29/174 (16%), Positives = 64/174 (36%), Gaps = 17/174 (9%)

Query: 30  GNAAVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G A + ++G + V +  +++  ++ Q  +   +KI  + + + +  AGL  D + +  R 
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67

Query: 89  RIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQ 148
           +     + L     +    +   +A L  +        P+    +I G DP T  P +  
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFG----PYYTEPVIAGLDPKTFKPFICS 123

Query: 149 TDPSGT------FSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALL 195
            D  G       F       +G  +  +    E  ++         +   +A+L
Sbjct: 124 LDLIGCPMVTDDFV-----VSGTCAEQMYGMCESLWEPNMDPDHLFETISQAML 172

>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 = 76.8 bits (190), Expect = 7e-18
 Identities = 31/164 (18%), Positives = 61/164 (37%), Gaps = 9/164 (5%)

Query: 34  VGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           + V     VV+G + + +      +R+  K+  L   I  A +G  ADA+ + + A  + 
Sbjct: 4   MAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAYQL 63

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
           + H L +E+P  V      +  +  KY +           ++ G+D              
Sbjct: 64  ELHGLELEEPPLVLAAANVVKNISYKYRE-----DLLAHLIVAGWDQRE--GGQVYGTMG 116

Query: 153 GTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALL 195
           G          G  S+ I  +++  YK   + +E  +    A+ 
Sbjct: 117 GMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAIT 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 = 75.7 bits (187), Expect = 2e-17
 Identities = 30/172 (17%), Positives = 65/172 (37%), Gaps = 9/172 (5%)

Query: 27  VRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLV 85
           V  G + + V   D V+LG + + +      +R+  K+  + + I    +G  AD + + 
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 86  NRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPS 145
           +  +   + +      P T    +      ++   ++          ++ G+D       
Sbjct: 66  DIVQYHLELYTSQYGTPSTETAASV----FKELCYENKD--NLTAGIIVAGYDD-KNKGE 118

Query: 146 LYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLE 196
           +Y     G+         G  S  I  + +KN++E  S +ETV     +L +
Sbjct: 119 VYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQ 170

>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 = 72.1 bits (177), Expect = 1e-15
 Identities = 24/180 (13%), Positives = 60/180 (33%), Gaps = 11/180 (6%)

Query: 25  EAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARV 83
           + +  G + + ++  + V++  +   S   L     V +++ + ++  +  +G  +D + 
Sbjct: 36  QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 95

Query: 84  LVNRARIECQSHRLTVEDPVTVEYIT-RYIAGLQQK--YTQSGGVRPFGLSTLIVGFDPY 140
           +    +     +          E +   YI        Y +   + P   + ++ G    
Sbjct: 96  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQS- 154

Query: 141 TGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG------QETVKLAIRAL 194
            G   L   +  G   +    ATG  ++     L K     S       Q   +  + A+
Sbjct: 155 NGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAM 214

>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 = 71.2 bits (175), Expect = 1e-15
 Identities = 24/181 (13%), Positives = 60/181 (33%), Gaps = 11/181 (6%)

Query: 24  LEAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADAR 82
            + +  G + + ++  + V++  +   S   L     V +++ + ++  +  +G  +D +
Sbjct: 2   QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQ 61

Query: 83  VLVNRARIECQSHRLTVEDPVTVEYIT-RYIAGLQQK--YTQSGGVRPFGLSTLIVGFDP 139
            +    +     +          E +   YI        Y +   + P   + ++ G   
Sbjct: 62  HIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQS 121

Query: 140 YTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG------QETVKLAIRA 193
             G   L   +  G   +    ATG  ++     L K     S       Q   +  + A
Sbjct: 122 -NGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNA 180

Query: 194 L 194
           +
Sbjct: 181 M 181

>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 = 70.0 bits (172), Expect = 3e-15
 Identities = 28/180 (15%), Positives = 59/180 (32%), Gaps = 20/180 (11%)

Query: 30  GNAAVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   + + G D  ++  + + +      +R   K   L +   + C+G   D   L    
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 89  RIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLS--TLIVGFDPYTGVPSL 146
               + ++ +    +T   I   ++ +          R F      +I G D   G  ++
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSR------RFFPYYVYNIIGGLDE-EGKGAV 121

Query: 147 YQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSGQ----------ETVKLAIRALLE 196
           Y  DP G++      A G  S  ++  L+      + Q            ++L     + 
Sbjct: 122 YSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFIS 181

>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 = 63.4 bits (155), Expect = 9e-13
 Identities = 30/168 (17%), Positives = 54/168 (32%), Gaps = 9/168 (5%)

Query: 34  VGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           +GV+    VV+  +   S   L   R + +I+ ++N   L  +G  AD + L        
Sbjct: 12  LGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMV 71

Query: 93  QSHRL-TVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
               L       +   I  ++              P   + +I G+    G   L   D 
Sbjct: 72  IDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMN--PLWNTMVIGGYAD--GESFLGYVDM 127

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKETSG---QETVKLAIRALLE 196
            G      + ATG  +   +  L +  ++       E   L  R +  
Sbjct: 128 LGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRV 175

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.6 bits (94), Expect = 2e-04
 Identities = 30/184 (16%), Positives = 53/184 (28%), Gaps = 46/184 (25%)

Query: 39  TDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLT 98
             +VV  + K S V+ Q       I S+   + +      A  R +V+   I        
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463

Query: 99  VEDPVTVEYITRYIAG-----------------------LQQK--YTQSGGVRPFGLSTL 133
           +  P   +Y   +I                         L+QK  +  +       +   
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT 523

Query: 134 IVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK------NYKETSGQETV 187
           +     Y      Y  D    +         R  N+I +FL K        K T     +
Sbjct: 524 LQQLKFYKP----YICDNDPKYE--------RLVNAILDFLPKIEENLICSKYTD---LL 568

Query: 188 KLAI 191
           ++A+
Sbjct: 569 RIAL 572

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 38.8 bits (89), Expect = 3e-04
 Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 15/45 (33%)

Query: 47 EKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
          EK++  KLQ + +  K+ + D+  ALA           +  A +E
Sbjct: 18 EKQALKKLQ-ASL--KLYADDSAPALA-----------IK-ATME 47

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

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

>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=1.4e-59  Score=380.77  Aligned_cols=195  Identities=35%  Similarity=0.550  Sum_probs=189.7

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhc-CCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRK-GNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~-g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      ++||+.+|+|||||||+|+|||.||+++ |+|+|||+++||||||+|+|.+.+++.+++.+||++|++|++|+++|+.+|
T Consensus         1 ~~yd~~~t~fsp~Grl~QvEYA~~av~~~Gtt~vgi~~~dgVvlaad~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   80 (243)
T 1ryp_A            1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             CGGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCCceECCCCeeHHHHHHHHHHhcCCCcEEEEEeCCEEEEEEEecCCccccCCCcCCceEEECCCEEEEEEecHHH
Confidence            5899999999999999999999999999 999999999999999999999988888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+++.++.+++.|++.++++++++.+++++++++|.|++++++|||++++||+|||+ ++||+||++||+|++.++++
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~-~~gp~Ly~~dp~G~~~~~~~  159 (243)
T 1ryp_A           81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDE-ELGPSIYKTDPAGYYVGYKA  159 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEET-TTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcC-CCCcEEEEEcCCCCEEEEEE
Confidence            99999999999999999999999999999999999999999988999999999999996 58999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccC-------CCc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNYKE-------TSG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~-------~~s-~ea~~l~~~~l~~~  197 (199)
                      +++|+|++.++++||+.|++       +|| +||++++++||.++
T Consensus       160 ~a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~  204 (243)
T 1ryp_A          160 TATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDA  204 (243)
T ss_dssp             EEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHH
T ss_pred             EEECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999       999 99999999999876

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

Probab=100.00  E-value=5.6e-59  Score=375.07  Aligned_cols=196  Identities=43%  Similarity=0.695  Sum_probs=190.1

Q ss_pred             CCCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         1 ~~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      +++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++.+++.+||++|++|++++++|..+|
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   81 (233)
T 1iru_B            2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPD   81 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHH
T ss_pred             CCCccCCceeECCCCeEehhHhHHHHHHcCCcEEEEEeCCEEEEEEEecCCccccccccCCeEEEECCCEEEEEEEccHH
Confidence            47899999999999999999999999999999999999999999999999888888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+.++++.+++.|+++++++++++.+++++++++|.|++++++|||++++||+|||  ++||+||.+||+|++.++++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D--~~gp~Ly~id~~G~~~~~~~  159 (233)
T 1iru_B           82 YRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWN--EGRPYLFQSDPSGAYFAWKA  159 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEEC--SSSEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEe--CCCCeEEEECCCCCEEEeeE
Confidence            9999999999999999999999999999999999999999998899999999999999  57899999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          161 NATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +++|+|+++++++||+.|+++|| +||++++++||+++.
T Consensus       160 ~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~  198 (233)
T 1iru_B          160 TAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESF  198 (233)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTC
T ss_pred             EEECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999 999999999998763

>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=3.7e-59  Score=379.39  Aligned_cols=196  Identities=73%  Similarity=1.142  Sum_probs=189.4

Q ss_pred             CCCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         1 ~~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      |+ ||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++.+++.+||++|++|++++++|+.+|
T Consensus         1 ~~-yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD   79 (248)
T 1iru_D            1 MS-YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTAD   79 (248)
T ss_dssp             -C-CCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHH
T ss_pred             CC-ccCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEcCCEEEEEeecHHH
Confidence            55 99999999999999999999999999999999999999999999999988888888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.++++++.+++.|+++++++++++.+++++++++|.|++++++|||++++||+|||+ +++|+||.+||+|++.++++
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~~  158 (248)
T 1iru_D           80 ARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDF-DGTPRLYQTDPSGTYHAWKA  158 (248)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECS-SSCEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeC-CCCcEEEEEcCCCcEEEeeE
Confidence            99999999999999999999999999999999999999999988999999999999996 67999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCCC--c-HHHHHHHHHHHhhcc
Q 029111          161 NATGRNSNSIREFLEKNYKETS--G-QETVKLAIRALLEVS  198 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~~--s-~ea~~l~~~~l~~~~  198 (199)
                      +++|+|++.++++||+.|+++|  | +||++++++||+.+.
T Consensus       159 ~aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~  199 (248)
T 1iru_D          159 NAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVV  199 (248)
T ss_dssp             EEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTS
T ss_pred             EEECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999  9 999999999998763

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

Probab=100.00  E-value=1.5e-59  Score=384.57  Aligned_cols=196  Identities=47%  Similarity=0.772  Sum_probs=184.2

Q ss_pred             CCCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         1 ~~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      +++||+.+|+|||||||||+|||.+|+++|+|+|||+++||||||+|+|.+++++.+++.+||++|++||+|+++|+.+|
T Consensus         9 ~~~yd~~~t~fSp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~d~i~~~~aG~~aD   88 (264)
T 3h4p_A            9 PSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLVAD   88 (264)
T ss_dssp             -------CCCCCSSSSCHHHHHHHHHHHHSCCEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEETTEEEEEEECSHH
T ss_pred             ccccCCCcceECCCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEecCccCCccccCccccEEEecCcEEEEeccchHH
Confidence            36799999999999999999999999999999999999999999999999988888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.|+++++.+++.|++.++++++++.++++|++++|.|++++++|||++++||||||  ++||+||++||+|++.++++
T Consensus        89 ~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D--~~gp~Ly~iDp~G~~~~~~~  166 (264)
T 3h4p_A           89 ARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGID--KNEARLFETDPSGALIEYKA  166 (264)
T ss_dssp             HHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEE--TTEEEEEEECTTCCCEEESE
T ss_pred             HHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEe--CCcCEEEEECCCceEEecCe
Confidence            9999999999999999999999999999999999999999998999999999999999  47899999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          161 NATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +++|+|+.+++++||+.|+++|| +||++++++||..+.
T Consensus       167 ~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~  205 (264)
T 3h4p_A          167 TAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKAN  205 (264)
T ss_dssp             EEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHS
T ss_pred             EEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999 999999999998763

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A

Probab=100.00  E-value=1.6e-58  Score=372.32  Aligned_cols=194  Identities=44%  Similarity=0.688  Sum_probs=183.0

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADAR   82 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~   82 (199)
                      +||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++.+++.+||++|++|++++++|..+|++
T Consensus         7 ~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~   86 (233)
T 1yar_A            7 AYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADAR   86 (233)
T ss_dssp             ------CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHH
T ss_pred             cCCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEeccCCcccccccccCeEEEecCCEEEEEeeCHHHHH
Confidence            79999999999999999999999999999999999999999999999998888888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEE
Q 029111           83 VLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANA  162 (199)
Q Consensus        83 ~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a  162 (199)
                      .+.++++.+++.|+++++++++++.+++++++++|.|+++++.|||++++||+|||+  ++|+||.+||+|++.++++++
T Consensus        87 ~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~--~gp~Ly~id~~G~~~~~~~~a  164 (233)
T 1yar_A           87 VLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQ--IGPRLFDCDPAGTINEYKATA  164 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECS--SCEEEEEECTTCCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeC--CCCEEEEECCCCCEEeeeEEE
Confidence            999999999999999999999999999999999999999989999999999999994  789999999999999999999


Q ss_pred             EcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          163 TGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       163 ~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +|+|+++++++||+.|+++|| +||++++++||+++.
T Consensus       165 iG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~  201 (233)
T 1yar_A          165 IGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSL  201 (233)
T ss_dssp             ESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTS
T ss_pred             EcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999 999999999998763

>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=2.9e-58  Score=373.20  Aligned_cols=196  Identities=38%  Similarity=0.696  Sum_probs=189.1

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      ++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++. +++.+||++|++|++++++|..+|
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD   82 (244)
T 1ryp_C            3 RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GGGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             CccCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHH
Confidence            3799999999999999999999999999999999999999999999999987766 788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.++++++.+++.|++.++++++++.+++++++++|.|+++.++|||++++||+|||+ +++|+||.+||+|++.++++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~~  161 (244)
T 1ryp_C           83 AEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDD-RYGYQLYTSNPSGNYTGWKA  161 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEET-TTEEEEEEECTTCCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcC-CCCCEEEEECCCccEEeeeE
Confidence            99999999999999999999999999999999999999999889999999999999996 58999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          161 NATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +++|+|+++++++||+.|+++|+ +||++++++||+.+.
T Consensus       162 ~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~  200 (244)
T 1ryp_C          162 ISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTT  200 (244)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHC
T ss_pred             EEECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999 999999999998753

>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=2.1e-58  Score=376.08  Aligned_cols=195  Identities=33%  Similarity=0.494  Sum_probs=188.6

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++||+|+++|..+|+
T Consensus         5 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD~   84 (254)
T 1iru_G            5 TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLADA   84 (254)
T ss_dssp             SSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHHHH
T ss_pred             cccCCCCccCCcCCccHHHHhHHHHHhcCCCEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEECCCEEEEEecChHHH
Confidence            57999999999999999999999999999999999999999999999999876666789999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.|+++++.+++.|+++++++++++.+++++++++|.|++++++|||++++||+|||+ +++|+||++||+|++.+++++
T Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~~~  163 (254)
T 1iru_G           85 RSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSV-NDGAQLYMIDPSGVSYGYWGC  163 (254)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEET-TTEEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeC-CCCcEEEEEcCCCCEEeeeeE
Confidence            9999999999999999999999999999999999999999988999999999999996 688999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      ++|+|+++++++||+.|+++|+ +||++++++||+.+
T Consensus       164 aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~  200 (254)
T 1iru_G          164 AIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIV  200 (254)
T ss_dssp             EESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHH
T ss_pred             EecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999 99999999999865

>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=4.9e-58  Score=371.31  Aligned_cols=194  Identities=63%  Similarity=1.097  Sum_probs=186.8

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccc-cccceEEecCCEEEEEeecHhhH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSR-MVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~-~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      +||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++..+ +.+||++|++|++++++|..+|+
T Consensus         1 ~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~   80 (241)
T 1ryp_D            1 GYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADS   80 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCceeECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHH
Confidence            69999999999999999999999999999999999999999999999998666554 89999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCC-CCceEEEECCCCCeeeeeE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYT-GVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~-~~p~Ly~vd~~G~~~~~~~  160 (199)
                      +.+.++++.+++.|+++++++++++.+++++++++|.|++++++|||++++||+|||+ + ++|+||.+||+|++.++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~-~~~gp~Ly~idp~G~~~~~~~  159 (241)
T 1ryp_D           81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDP-RDDEPKLYQTEPSGIYSSWSA  159 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCT-TCCSCEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcC-CCCCeeEEEECCCCCEEEeee
Confidence            9999999999999999999999999999999999999999888999999999999995 4 8999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhc---cCCCc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNY---KETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~---~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +++|+|+++++++||+.|   +++|| +||++++++||+.+
T Consensus       160 ~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~  200 (241)
T 1ryp_D          160 QTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEV  200 (241)
T ss_dssp             EEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHH
T ss_pred             EEECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999   99999 99999999999875

>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=6.4e-58  Score=378.44  Aligned_cols=195  Identities=37%  Similarity=0.523  Sum_probs=188.0

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+.+|+|||||||||+|||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++||+|+++|+.+|+
T Consensus         6 ~~yd~~~t~fSP~Grl~QvEYA~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~d~i~~~~aG~~aD~   85 (288)
T 3nzj_F            6 TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPDG   85 (288)
T ss_dssp             CCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEETTTEEEEEEECHHHH
T ss_pred             CCccCCcccCCCCCchHHHHHHHHHHhcCCcEEEEEECCEEEEEEcCCcccCCccccccceEEEEcCCEEEEecCcHHHH
Confidence            57999999999999999999999999999999999999999999999999877666678999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.|+++++.+++.|++.++++++++.+++++++++|.|++++++|||++++||+|||+  +||+||++||+|++.+++++
T Consensus        86 ~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~--~Gp~Ly~iDp~G~~~~~~~~  163 (288)
T 3nzj_F           86 RHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK--NGAHLYMLEPSGSYWGYKGA  163 (288)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET--TEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeC--CCCEEEEECCCCCEEEcCEE
Confidence            9999999999999999999999999999999999999999989999999999999994  78999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhh---ccCCCc-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKN---YKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~---~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      ++|+|++.++++||+.   |+++|| +||++++++||..+.
T Consensus       164 aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~  204 (288)
T 3nzj_F          164 ATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAH  204 (288)
T ss_dssp             EESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHG
T ss_pred             EEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999   999999 999999999998753

>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=9e-58  Score=371.59  Aligned_cols=196  Identities=37%  Similarity=0.595  Sum_probs=189.4

Q ss_pred             CCCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            1 MARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         1 ~~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      |++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+.+++.+++.+||++|++|++++++|..+|
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   81 (250)
T 1ryp_B            2 TDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPD   81 (250)
T ss_dssp             CCCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHH
T ss_pred             CCcccCCceeECCCCccHHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCCccccCcccCceEEECCCEEEEeeeCHHH
Confidence            34799999999999999999999999999999999999999999999999888888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHH-hhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee
Q 029111           81 ARVLVNRARIECQS-HRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK  159 (199)
Q Consensus        81 ~~~l~~~~~~~~~~-~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~  159 (199)
                      ++.++++++.+++. |+..++.+++++.+++.+++++|.++++.++|||++++||+|||+ +++|+||.+||+|++.+++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~  160 (250)
T 1ryp_B           82 YRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDE-FNGFSLYQVDPSGSYFPWK  160 (250)
T ss_dssp             HHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEET-TTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcC-CCCcEEEEECCCCCEEeec
Confidence            99999999999999 999999999999999999999999999888999999999999996 5799999999999999999


Q ss_pred             EEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          160 ANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       160 ~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      ++++|+|+++++++||+.|+++|| +||++++++||+.+
T Consensus       161 ~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~  199 (250)
T 1ryp_B          161 ATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKES  199 (250)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHH
T ss_pred             eeEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999999 99999999999876

>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=6.9e-58  Score=371.45  Aligned_cols=196  Identities=37%  Similarity=0.609  Sum_probs=189.6

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhc-CCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRK-GNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~-g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      ++||+.+|+|||||||+|+|||.+|+++ |+|+|||+++||||||+|+|.+.+++.+++.+||++|++|++++++|..+|
T Consensus         7 ~~yd~~~t~fsp~Grl~QvEya~~av~~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   86 (246)
T 1iru_A            7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGMTAD   86 (246)
T ss_dssp             CTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEECHHH
T ss_pred             CCcCCCCccCCCCCeehHHHHHHHHHhcCCCCEEEEEeCCEEEEEEeecCCCcccCCCccCceEEECCCEEEEEeccHHH
Confidence            4799999999999999999999999999 999999999999999999999888888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.|.++++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||+|||+ ++||+||.+||+|++.++++
T Consensus        87 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~~  165 (246)
T 1iru_A           87 SRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDE-EQGPQVYKCDPAGYYCGFKA  165 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEET-TTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeC-CCCeEEEEEcCCeeEEEeeE
Confidence            99999999999999999999999999999999999999999888999999999999996 58999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccC--CCc-HHHHHHHHHHHhhcc
Q 029111          161 NATGRNSNSIREFLEKNYKE--TSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~--~~s-~ea~~l~~~~l~~~~  198 (199)
                      +++|+|+++++++||+.|++  +|+ +||++++++||+++.
T Consensus       166 ~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~  206 (246)
T 1iru_A          166 TAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVL  206 (246)
T ss_dssp             EEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHT
T ss_pred             EEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999  999 999999999998763

>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=9.9e-58  Score=370.12  Aligned_cols=194  Identities=37%  Similarity=0.527  Sum_probs=186.9

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++++++|..+|+
T Consensus         2 ~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD~   81 (244)
T 1ryp_G            2 TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPDG   81 (244)
T ss_dssp             CCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHHH
T ss_pred             CCccCCcccCCcCCchHHHHhHHHHHHCCCCEEEEEECCEEEEEEecccCCCCccccccCceEEecCCEEEEEcccHHHH
Confidence            68999999999999999999999999999999999999999999999999876666667999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.++++++.+++.|+++++++++++.+++++++++|.|++++++|||++++||+|||  ++||+||.+||+|++.+++++
T Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D--~~gp~Ly~idp~G~~~~~~~~  159 (244)
T 1ryp_G           82 RHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVD--KNGAHLYMLEPSGSYWGYKGA  159 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEE--TTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEe--CCcCEEEEECCCCCEEEeeEE
Confidence            999999999999999999999999999999999999999988899999999999999  478999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhh---ccCCCc-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEKN---YKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~---~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      ++|+|+++++++||+.   |+++|| +||++++++||+++
T Consensus       160 aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~  199 (244)
T 1ryp_G          160 ATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLA  199 (244)
T ss_dssp             EESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHH
T ss_pred             EECCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999997   999999 99999999999875

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

Probab=100.00  E-value=7.2e-58  Score=374.31  Aligned_cols=196  Identities=38%  Similarity=0.652  Sum_probs=187.6

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCccccccc-ccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDS-RMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~-~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      ++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.++++... ++.+||++|++|++++++|+.+|
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD   82 (261)
T 1iru_C            3 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSD   82 (261)
T ss_dssp             TTTCCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHH
T ss_pred             CccCCCCccCCCCCeehHHHhHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHHH
Confidence            47999999999999999999999999999999999999999999999999865544 45899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.|+++++.+++.|+++++++++++.+++++++++|.|+++.++|||++++||+|||+ ++||+||.+||+|++.++++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~~  161 (261)
T 1iru_C           83 ANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDK-HYGFQLYQSDPSGNYGGWKA  161 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEET-TTEEEEEEEETTTEEEECSE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeC-CCCcEEEEECCCceEEeeee
Confidence            99999999999999999999999999999999999999999888999999999999996 68999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccC-CCc-HHHHHHHHHHHhhcc
Q 029111          161 NATGRNSNSIREFLEKNYKE-TSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~-~~s-~ea~~l~~~~l~~~~  198 (199)
                      +++|+|+.+++++||+.|++ +|| +||++++++||..+.
T Consensus       162 ~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~  201 (261)
T 1iru_C          162 TCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTM  201 (261)
T ss_dssp             EEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSS
T ss_pred             EEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999 999 999999999998763

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

Probab=100.00  E-value=1.6e-57  Score=369.32  Aligned_cols=192  Identities=48%  Similarity=0.780  Sum_probs=187.2

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADAR   82 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~   82 (199)
                      +||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++.+++.+||++|++|++++++|..+|++
T Consensus         7 ~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~   86 (246)
T 1j2p_A            7 GYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVADAR   86 (246)
T ss_dssp             TSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHHHH
T ss_pred             CcCCCCceECCCCeehHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCccccccCccCcEEEECCCEEEEEeEccHHHH
Confidence            69999999999999999999999999999999999999999999999998887788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEE
Q 029111           83 VLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANA  162 (199)
Q Consensus        83 ~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a  162 (199)
                      .++++++.+++.|++.++++++++.+++++++++|.|+++.+.|||++++||+|||   ++|+||.+||+|++.++++++
T Consensus        87 ~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D---~gp~Ly~idp~G~~~~~~~~a  163 (246)
T 1j2p_A           87 VLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN---EVPKLYETDPSGALLEYKATA  163 (246)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES---SSEEEEEECTTCCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC---CCCEEEEECCCceEEeeeEEE
Confidence            99999999999999999999999999999999999999998899999999999998   689999999999999999999


Q ss_pred             EcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          163 TGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       163 ~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+|+++++++||+.|+++|| +||++++++||..+
T Consensus       164 iGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~  199 (246)
T 1j2p_A          164 IGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLS  199 (246)
T ss_dssp             ESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHH
T ss_pred             ECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999 99999999999875

>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=1e-57  Score=367.78  Aligned_cols=193  Identities=36%  Similarity=0.569  Sum_probs=185.8

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.++.+.  ++.+||++|++|++++++|..+|+
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~--~~~~Ki~~i~~~i~~~~aG~~aD~   80 (233)
T 1ryp_F            3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAPDA   80 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHHH
T ss_pred             CcccCCCccCCCCCeehHHHHHHHHHHcCCCEEEEEcCCEEEEEEEeccccccc--cccCcEEEEcCCEEEEEEechHHH
Confidence            369999999999999999999999999999999999999999999999988765  378999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+.++++.+++.|+++++++++++.+++++++++|.|+++.+.|||++++||||||  ++||+||++||+|++.+++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D--~~gp~Ly~idp~G~~~~~~~~  158 (233)
T 1ryp_F           81 RVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYD--KSGAHLLEFQPSGNVTELYGT  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEE--TTEEEEEEECTTSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEe--CCcCEEEEECCCCCeeeeeEE
Confidence            999999999999999999999999999999999999999998999999999999999  478999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccC--CC--c-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKNYKE--TS--G-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~--~~--s-~ea~~l~~~~l~~~~  198 (199)
                      ++|+|++.++++||+.|++  +|  | +||++++++||.++.
T Consensus       159 aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~  200 (233)
T 1ryp_F          159 AIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL  200 (233)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC
T ss_pred             EECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999  99  9 999999999998764

>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=1.2e-57  Score=368.93  Aligned_cols=194  Identities=38%  Similarity=0.654  Sum_probs=186.8

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADAR   82 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~   82 (199)
                      +||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++.+++.+||++|++|++++++|..+|++
T Consensus         7 ~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~   86 (241)
T 1iru_E            7 EYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAK   86 (241)
T ss_dssp             -CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHH
T ss_pred             CCCCCCceECCCCccHHHHHHHHHHHcCCcEEEEEcCCEEEEEEecccCCcCcCccccceEEEEcCCEEEEEeeChHHHH
Confidence            79999999999999999999999999999999999999999999999998776688899999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCC-----CcccccceeeeeeeCCCCCceEEEECCCCCeee
Q 029111           83 VLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGG-----VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSA  157 (199)
Q Consensus        83 ~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~-----~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~  157 (199)
                      .++++++.+++.|+.+++++++++.+++++++++|.|+++.+     .|||++++||+|||  +++|+||.+||+|++.+
T Consensus        87 ~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D--~~gp~Ly~idp~G~~~~  164 (241)
T 1iru_E           87 TLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVD--EKGPQLFHMDPSGTFVQ  164 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEE--TTEEEEEEECTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEe--CCCCEEEEECCCCcEEe
Confidence            999999999999999999999999999999999999998877     89999999999999  58999999999999999


Q ss_pred             eeEEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          158 WKANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       158 ~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      ++++++|+|+++++++||+.|+++|| +||++++++||.++.
T Consensus       165 ~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~  206 (241)
T 1iru_E          165 CDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVM  206 (241)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHC
T ss_pred             cceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999 999999999998753

>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=7.7e-57  Score=368.49  Aligned_cols=193  Identities=39%  Similarity=0.624  Sum_probs=185.9

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.++++.  ++.+||++|++||+|+++|+.+|+
T Consensus         4 ~~yd~~~t~fsP~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl~--~~~~KI~~i~~~i~~~~aG~~aD~   81 (263)
T 1iru_F            4 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--AHQKKILHVDNHIGISIAGLTADA   81 (263)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCCCccCCCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEecccccccc--cchhcEEEEcCCEEEEEeCCHHHH
Confidence            479999999999999999999999999999999999999999999999988764  378999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.|+++++.+++.|++.++++++++.+++++++++|.|+++.+.|||++++||+|||  ++||+||++||+|++.+++++
T Consensus        82 ~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D--~~gp~Ly~idp~G~~~~~~~~  159 (263)
T 1iru_F           82 RLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYD--DMGPHIFQTCPSANYFDCRAM  159 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEE--TTEEEEEEECSSSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEc--CCCCEEEEECCCCCEEEeeEE
Confidence            999999999999999999999999999999999999999988899999999999999  478999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccC--CCc-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKNYKE--TSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~--~~s-~ea~~l~~~~l~~~~  198 (199)
                      ++|+|+++++++||+.|++  +|| +||++++++||+++.
T Consensus       160 aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~  199 (263)
T 1iru_F          160 SIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETL  199 (263)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTS
T ss_pred             EcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999998  999 999999999998763

>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=4.8e-57  Score=365.64  Aligned_cols=193  Identities=37%  Similarity=0.639  Sum_probs=186.1

Q ss_pred             CCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHHH
Q 029111            5 DRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVL   84 (199)
Q Consensus         5 d~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l   84 (199)
                      |+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|+|.+++++.+++.+||++|++|++++++|..+|++.+
T Consensus         1 d~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l   80 (242)
T 1ryp_E            1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARSM   80 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHHH
T ss_pred             CCCCceECCCCcChHHHhHHHHHHcCCCEEEEEECCEEEEEEeecCCCcCccCccCCceEEEcCCEEEEEeecHHHHHHH
Confidence            78899999999999999999999999999999999999999999999877668889999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCC------CcccccceeeeeeeCCCCCceEEEECCCCCeeee
Q 029111           85 VNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGG------VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW  158 (199)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~------~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~  158 (199)
                      +++++.+++.|+++++++++++.+++++++++|.|+++++      .|||++++||+|||+ +++|+||.+||+|++.++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~  159 (242)
T 1ryp_E           81 IEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDA-DDGYQLFHAEPSGTFYRY  159 (242)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEET-TTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeC-CCCCEEEEECCCCCEecc
Confidence            9999999999999999999999999999999999999887      899999999999996 688999999999999999


Q ss_pred             eEEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          159 KANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       159 ~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +++++|+|+++++++||+.|+++|| +||++++++||..+.
T Consensus       160 ~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~  200 (242)
T 1ryp_E          160 NAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVM  200 (242)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999 999999999998763

>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=4.2e-47  Score=310.13  Aligned_cols=182  Identities=17%  Similarity=0.234  Sum_probs=165.4

Q ss_pred             ccccCCCCcch-hhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHHHHH
Q 029111            8 ITVFSPDGHLF-QVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVN   86 (199)
Q Consensus         8 ~~~f~peG~i~-q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~   86 (199)
                      |.-|||||++. |+|||.+++++|+|+|||+++||||||+|+|       +++.+||++|++||+|+++|..+|++.|++
T Consensus         4 p~~~sPe~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r-------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~   76 (259)
T 1q5q_A            4 PYYASAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGKYNEFENLRR   76 (259)
T ss_dssp             -----CHHHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS-------CSSSCSEEEEETTEEEEEEECHHHHHHHHH
T ss_pred             CcccCHHHHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC-------CCCcCcEEEeCCCEEEEEccCHHHHHHHHH
Confidence            45689999995 9999999999999999999999999999998       257899999999999999999999999999


Q ss_pred             HHHHHHHHhhhhcC-CCCCHHHHHHHHHH-HHHHhcccCCCcccccceeeeeee--CCCCCceEEEECCCCCee-eeeEE
Q 029111           87 RARIECQSHRLTVE-DPVTVEYITRYIAG-LQQKYTQSGGVRPFGLSTLIVGFD--PYTGVPSLYQTDPSGTFS-AWKAN  161 (199)
Q Consensus        87 ~~~~~~~~~~~~~~-~~~~~~~la~~ls~-~~~~~~~~~~~rp~~~~~iv~G~d--~~~~~p~Ly~vd~~G~~~-~~~~~  161 (199)
                      +++.+++.|++.++ ++++++.+++++++ +.|.|+.  +.|||++++||+|||  +.++||+||++||+|++. +++++
T Consensus        77 ~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~--~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~~~~  154 (259)
T 1q5q_A           77 AGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--QPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFV  154 (259)
T ss_dssp             HHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHH--SSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEE
T ss_pred             HHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhcc--CCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCCCEE
Confidence            99999999998888 59999999999999 6677773  689999999999999  224789999999999999 88999


Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      ++|+|++.++++||+.|+++|+ +||++++++||..+.
T Consensus       155 aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~  192 (259)
T 1q5q_A          155 VMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGG  192 (259)
T ss_dssp             EESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC
T ss_pred             EECCChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999 999999999998763

>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=3.7e-45  Score=296.49  Aligned_cols=171  Identities=20%  Similarity=0.272  Sum_probs=160.6

Q ss_pred             hhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhh
Q 029111           19 QVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLT   98 (199)
Q Consensus        19 q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~   98 (199)
                      +.|||.||+++|+|+|||+++||||||+|+|       +++.+||++|++||+|+++|..+|++.|.+.++.+++.|++.
T Consensus        16 r~EYA~~av~~GtT~vgi~~kdgVVlaadkr-------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~l~~~~   88 (248)
T 3mi0_A           16 RSELARKGIARAKSVVALAYAGGVLFVAENP-------SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQFADTRGYA   88 (248)
T ss_dssp             HHHHHHHHHHTSCCEEEEEETTEEEEEEECC-------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHhCCCcEEEEEeCCEEEEEEeCC-------CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHHHHHHHHHh
Confidence            5799999999999999999999999999999       347899999999999999999999999999999999999999


Q ss_pred             cC-CCCCHHHHHHHHH-HHHHHhcccCCCcccccceeeeeeeC--CCCCceEEEECCCCCeee-eeEEEEcCCcHhHHHH
Q 029111           99 VE-DPVTVEYITRYIA-GLQQKYTQSGGVRPFGLSTLIVGFDP--YTGVPSLYQTDPSGTFSA-WKANATGRNSNSIREF  173 (199)
Q Consensus        99 ~~-~~~~~~~la~~ls-~~~~~~~~~~~~rp~~~~~iv~G~d~--~~~~p~Ly~vd~~G~~~~-~~~~a~G~g~~~~~~~  173 (199)
                      ++ ++++++.|+++++ .+.|.|++  ++|||+|++||+|||+  +.+||+||++||+|++.+ ++++|+|+|++.++++
T Consensus        89 ~~~~~i~v~~la~~l~~~l~q~yt~--~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~~  166 (248)
T 3mi0_A           89 YDRRDVTGRQLANVYAQTLGTIFTE--QAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANA  166 (248)
T ss_dssp             SCGGGCCHHHHHHHHHHHHHHHHHH--SSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEEEESSCHHHHHHH
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhcc--CCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEEEECccHHHHHHH
Confidence            99 8999999999999 77888887  6899999999999994  138999999999999995 9999999999999999


Q ss_pred             HHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          174 LEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       174 Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      ||+.|+++|+ +||++++++||+++.
T Consensus       167 Le~~y~~~mt~eeai~la~~aL~~~~  192 (248)
T 3mi0_A          167 LKESYAENASLTDALRIAVAALRAGS  192 (248)
T ss_dssp             HHHHCCTTCCHHHHHHHHHHHHHHC-
T ss_pred             HHhhcCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999 999999999998763

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H

Probab=100.00  E-value=9.1e-43  Score=277.71  Aligned_cols=166  Identities=24%  Similarity=0.384  Sum_probs=153.7

Q ss_pred             HHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCC
Q 029111           25 EAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPV  103 (199)
Q Consensus        25 ~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~  103 (199)
                      +++++|+|+|||+++||||||+|+|.++ +++.+++.+||++|++|++++++|..+|++.++++++.+++.|++++++++
T Consensus         3 ~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T 1yar_H            3 QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNM   82 (217)
T ss_dssp             ------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CCCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            4678999999999999999999999987 688888999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc
Q 029111          104 TVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG  183 (199)
Q Consensus       104 ~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s  183 (199)
                      +++.+++++++.+|.+    +.|||++++||+|||   +||+||.+||+|++.+++++++|+|+++++++||+.|+++||
T Consensus        83 ~v~~la~~l~~~~~~~----r~rp~~v~~lvaG~D---~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s  155 (217)
T 1yar_H           83 PIEAVATLLSNMLNQV----KYMPYMVQLLVGGID---TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMT  155 (217)
T ss_dssp             CHHHHHHHHHHHHHHT----TTSCCCEEEEEEEES---SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             CHHHHHHHHHHHHHhc----CCCCceEEEEEEEEC---CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCCC
Confidence            9999999999999764    378999999999998   579999999999999999999999999999999999999999


Q ss_pred             -HHHHHHHHHHHhhc
Q 029111          184 -QETVKLAIRALLEV  197 (199)
Q Consensus       184 -~ea~~l~~~~l~~~  197 (199)
                       +||++++++||+.+
T Consensus       156 ~eea~~la~~al~~~  170 (217)
T 1yar_H          156 VDEGVDLVIRAISAA  170 (217)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence             99999999999875

>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=3e-43  Score=291.22  Aligned_cols=194  Identities=17%  Similarity=0.185  Sum_probs=150.8

Q ss_pred             CCCCCCccccCCCCcc-----hh--hhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEE
Q 029111            2 ARYDRAITVFSPDGHL-----FQ--VEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALA   73 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i-----~q--~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~   73 (199)
                      ++|+..+....||.--     ++  .|||.+ +++|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++|+
T Consensus        23 ~~f~~~~~~~~~~~l~~~~~~~~~~~~ya~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~~  101 (291)
T 2jay_A           23 SSFTDFLRRQAPELLPASISGGAPLAGGDAQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATG  101 (291)
T ss_dssp             ------------------------------------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEEE
T ss_pred             ccHHHHhhhcChhhccccccccCcCcccccc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEEE
Confidence            3566667777777432     23  589999 99999999999999999999999987 477788899999999999999


Q ss_pred             EeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCC-----ceEEE
Q 029111           74 CAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGV-----PSLYQ  148 (199)
Q Consensus        74 ~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~-----p~Ly~  148 (199)
                      ++|..+|++.++++++.+++.|++.++++++++.+++++++++|.+++ ..+|||++++||||||+ +++     |+||+
T Consensus       102 ~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~-~~~rpf~v~~lvaG~D~-~g~~~~~~p~Ly~  179 (291)
T 2jay_A          102 IAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLA-AAMQGLLALPLLAGYDI-HASDPQSAGRIVS  179 (291)
T ss_dssp             EESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHH-HHHHTCCCEEEEEEECT-TCSCSTTCEEEEE
T ss_pred             EcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhh-hhccccceeEEEEEEeC-CCCcCCCCCEEEE
Confidence            999999999999999999999999999999999999999999998865 35789999999999996 555     99999


Q ss_pred             ECCCCCee--eeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          149 TDPSGTFS--AWKANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       149 vd~~G~~~--~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +||+|++.  +++++++|+|+++++++||+.|+++|| +||++++++||+.+.
T Consensus       180 iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~  232 (291)
T 2jay_A          180 FDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAA  232 (291)
T ss_dssp             ECTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC-
T ss_pred             ECCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            99999998  889999999999999999999999999 999999999998753

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

Probab=100.00  E-value=7.3e-43  Score=278.63  Aligned_cols=164  Identities=24%  Similarity=0.345  Sum_probs=155.4

Q ss_pred             CCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      |+|+|||+++||||||+|+|.++ .++.+++.+||++|++||+|+++|..+|++.++++++.+++.|++.++++++++.+
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLAC   80 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHH
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            79999999999999999999987 56778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee-EEEEcCCcHhHHHHHHhhccCCCc-HHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK-ANATGRNSNSIREFLEKNYKETSG-QET  186 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s-~ea  186 (199)
                      ++++++++|.+    +.|||++++||+|||+ ++||+||++||+|++.+++ ++++|+|+++++++||+.|+++|| +||
T Consensus        81 a~~l~~~~~~~----~~~P~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea  155 (219)
T 3h4p_a           81 ATLLSNILHSS----RMFPFLTQIIIGGYDL-LEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEG  155 (219)
T ss_dssp             HHHHHHHHHHT----TTTTCCCCCEEEEEET-TTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHH
T ss_pred             HHHHHHHHHHh----cCCCceEEEEEEEEeC-CCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHH
Confidence            99999999876    3689999999999996 5899999999999999999 999999999999999999999999 999


Q ss_pred             HHHHHHHHhhcc
Q 029111          187 VKLAIRALLEVS  198 (199)
Q Consensus       187 ~~l~~~~l~~~~  198 (199)
                      ++++++||..+.
T Consensus       156 ~~la~~al~~~~  167 (219)
T 3h4p_a          156 IKLALNALKSAM  167 (219)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998763

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

Probab=100.00  E-value=7.2e-43  Score=275.95  Aligned_cols=167  Identities=17%  Similarity=0.262  Sum_probs=158.8

Q ss_pred             HHHHhcCCcEEEEEeCCEEEEEEeccCccc-ccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCC
Q 029111           24 LEAVRKGNAAVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDP  102 (199)
Q Consensus        24 ~~av~~g~t~vgi~~~dgVvla~d~~~~~~-l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  102 (199)
                      .+++++|+|+|||+++||||||+|+|.+++ ++.+++.+||++|++|++++++|..+|++.+.++++.+++.|++++++ 
T Consensus         3 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~-   81 (205)
T 1ryp_H            3 KGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT-   81 (205)
T ss_dssp             TTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS-
T ss_pred             CCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC-
Confidence            478899999999999999999999999885 777888999999999999999999999999999999999999999999 


Q ss_pred             CCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCC
Q 029111          103 VTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETS  182 (199)
Q Consensus       103 ~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~  182 (199)
                      ++++.+++++++.+|.|+++     |++++||+|||+ +++|+||.+||+|++.+++++++|+|+++++++||+.|+++|
T Consensus        82 ~~v~~la~~l~~~~~~~~~~-----~~~~~lvaG~D~-~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~  155 (205)
T 1ryp_H           82 PSTETAASVFKELCYENKDN-----LTAGIIVAGYDD-KNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENM  155 (205)
T ss_dssp             CCHHHHHHHHHHHHHHTTTT-----CCEEEEEEEEET-TTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTC
T ss_pred             CCHHHHHHHHHHHHHhhhcC-----ceEEEEEEEEec-CCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCC
Confidence            99999999999999988652     999999999996 578999999999999999999999999999999999999999


Q ss_pred             c-HHHHHHHHHHHhhc
Q 029111          183 G-QETVKLAIRALLEV  197 (199)
Q Consensus       183 s-~ea~~l~~~~l~~~  197 (199)
                      | +||++++++||+.+
T Consensus       156 s~eea~~l~~~al~~a  171 (205)
T 1ryp_H          156 SKEETVDFIKHSLSQA  171 (205)
T ss_dssp             CHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            9 99999999999875

>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=2.4e-43  Score=281.32  Aligned_cols=169  Identities=18%  Similarity=0.189  Sum_probs=159.9

Q ss_pred             HHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhh-hcCCC
Q 029111           25 EAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRL-TVEDP  102 (199)
Q Consensus        25 ~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-~~~~~  102 (199)
                      +|+++|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++++++|..+|++.|.++++.+++.|++ .++++
T Consensus         3 ~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (219)
T 1iru_N            3 NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHS   82 (219)
T ss_dssp             SCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             CCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            5788999999999999999999999987 777788999999999999999999999999999999999999998 89999


Q ss_pred             CCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccC--
Q 029111          103 VTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE--  180 (199)
Q Consensus       103 ~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--  180 (199)
                      ++++.+++++++.++  +++.++|||++++||+|||+  ++|+||.+||+|++.+++++++|+|+++++++||+.|++  
T Consensus        83 ~~v~~la~~l~~~ly--~~r~~~~P~~v~~lvaG~D~--~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~  158 (219)
T 1iru_N           83 YSPRAIHSWLTRAMY--SRRSKMNPLWNTMVIGGYAD--GESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQP  158 (219)
T ss_dssp             CCHHHHHHHHHHHHH--HHHHTTCCCCEEEEEEEEET--TEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCS
T ss_pred             CCHHHHHHHHHHHHH--HhcccCCCceEEEEEEEEEC--CCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCC
Confidence            999999999999995  45556899999999999994  699999999999999999999999999999999999999  


Q ss_pred             CCc-HHHHHHHHHHHhhc
Q 029111          181 TSG-QETVKLAIRALLEV  197 (199)
Q Consensus       181 ~~s-~ea~~l~~~~l~~~  197 (199)
                      +|| +||++++++||+.+
T Consensus       159 ~mt~eea~~l~~~al~~~  176 (219)
T 1iru_N          159 VLSQTEARDLVERCMRVL  176 (219)
T ss_dssp             CCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHH
Confidence            999 99999999999865

>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=1.9e-42  Score=274.98  Aligned_cols=166  Identities=17%  Similarity=0.341  Sum_probs=155.9

Q ss_pred             HhcCCcEEEEEeCCEEEEEEeccCcccc-cccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCH
Q 029111           27 VRKGNAAVGVRGTDIVVLGVEKKSAVKL-QDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTV  105 (199)
Q Consensus        27 v~~g~t~vgi~~~dgVvla~d~~~~~~l-~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~  105 (199)
                      +++|+|+|||+++||||||+|+|.++++ +.+++.+||++|++|++++++|..+|++.|+++++.+++.|++++++++++
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   85 (213)
T 1iru_M            6 VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             cCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCCH
Confidence            5789999999999999999999998854 455789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhh--------
Q 029111          106 EYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKN--------  177 (199)
Q Consensus       106 ~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~--------  177 (199)
                      +.+++++++.+  |+++  .|||++++||+|||+ +++|+||.+||+|++.+++++|+|+|+++++++||+.        
T Consensus        86 ~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~-~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~  160 (213)
T 1iru_M           86 GAIAAMLSTIL--YSRR--FFPYYVYNIIGGLDE-EGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQN  160 (213)
T ss_dssp             HHHHHHHHHHH--HHTT--TSCCCEEEEEEEECT-TSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSS
T ss_pred             HHHHHHHHHHH--HhhC--CCCceEEEEEEEEcC-CCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhccccccccc
Confidence            99999999999  5554  799999999999996 5679999999999999999999999999999999999        


Q ss_pred             -ccCCCc-HHHHHHHHHHHhhc
Q 029111          178 -YKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       178 -~~~~~s-~ea~~l~~~~l~~~  197 (199)
                       |+++|| +||++++++||..+
T Consensus       161 ~~~~~~s~eea~~l~~~al~~~  182 (213)
T 1iru_M          161 VEHVPLSLDRAMRLVKDVFISA  182 (213)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHH
T ss_pred             cCCCCCCHHHHHHHHHHHHHHH
Confidence             889999 99999999999875

>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=1e-42  Score=287.42  Aligned_cols=181  Identities=19%  Similarity=0.322  Sum_probs=155.7

Q ss_pred             CCCCcchhh------hhHHHHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHH
Q 029111           12 SPDGHLFQV------EYALEAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVL   84 (199)
Q Consensus        12 ~peG~i~q~------eya~~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l   84 (199)
                      +|+..+.+.      .++..++++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|++++++|..+|++.+
T Consensus        51 ~p~~~~~~~~~~~~~~~~~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~l  130 (287)
T 3nzj_K           51 SPQQFLRAHTDDSRNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFW  130 (287)
T ss_dssp             -------------------------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHHH
T ss_pred             CHHHHHHHhcccccccchhhheccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHHH
Confidence            455555443      36788999999999999999999999999987 77788899999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEc
Q 029111           85 VNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATG  164 (199)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G  164 (199)
                      .++++.+++.|+++++++++++.+++++++++|.+++    +||++++||+|||+ ++||+||++||+|++.+++++++|
T Consensus       131 ~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~----~p~~v~~lvaG~D~-~~gp~Ly~iDp~G~~~~~~~~AiG  205 (287)
T 3nzj_K          131 ETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTR-KEGPTIYYVDSDGTRLKGDIFCVG  205 (287)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTT----SCCCEEEEEEEEET-TTEEEEEEEETTCCEEECSEEEES
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcC----CCceEEEEEEEEcC-CCCCEEEEECCCceEEEcCeEEEe
Confidence            9999999999999999999999999999999988765    49999999999997 689999999999999999999999


Q ss_pred             CCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          165 RNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       165 ~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+++++++||+.|+++|| +||++++++||..+
T Consensus       206 sgs~~a~~~Le~~y~~dms~eEAi~la~~aL~~a  239 (287)
T 3nzj_K          206 SGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAA  239 (287)
T ss_dssp             TTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999 99999999999875

>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=6.1e-43  Score=289.63  Aligned_cols=173  Identities=20%  Similarity=0.203  Sum_probs=163.4

Q ss_pred             HHHHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCC
Q 029111           23 ALEAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVED  101 (199)
Q Consensus        23 a~~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~  101 (199)
                      |.+|+++|+|+|||+++||||||+|+|.++ +++.+++.+||++|++|++|+++|..+|++.|+++++.+++.|++.+++
T Consensus        58 a~~Av~~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g~  137 (294)
T 1q5r_H           58 SGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGV  137 (294)
T ss_dssp             --CCSCBCCCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHhcCceEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhCC
Confidence            889999999999999999999999999987 7888889999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCC-----ceEEEECCCCCeeee--eEEEEcCCcHhHHHHH
Q 029111          102 PVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGV-----PSLYQTDPSGTFSAW--KANATGRNSNSIREFL  174 (199)
Q Consensus       102 ~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~-----p~Ly~vd~~G~~~~~--~~~a~G~g~~~~~~~L  174 (199)
                      +++++.++++|++++|.++++. +|||++++||+|||+ +++     |+||++||+|++.++  +++++|+|+++++++|
T Consensus       138 ~isv~~la~~la~~l~~~~~~~-~rp~~v~lLvaG~D~-~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~L  215 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLGAA-MQGLAVVPLLVGYDL-DADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSAL  215 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHH-TTTTCEEEEEEEECT-TCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhh-cCCcceEEEEEEEeC-CCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHH
Confidence            9999999999999999988754 899999999999996 546     999999999999999  9999999999999999


Q ss_pred             HhhccCCCc-HHHHHHHHHHHhhc
Q 029111          175 EKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       175 e~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      |+.|+++|+ +||++++++||+.+
T Consensus       216 e~~y~~~ms~eEAi~la~~aL~~a  239 (294)
T 1q5r_H          216 KKIYSPDSDEETALRAAIESLYDA  239 (294)
T ss_dssp             HHHCCSSCCHHHHHHHHHHHHHHH
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHH
Confidence            999999999 99999999999865

>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=2.1e-42  Score=271.75  Aligned_cols=166  Identities=21%  Similarity=0.256  Sum_probs=154.6

Q ss_pred             CCcEEEEEeCCEEEEEEeccCccc-ccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~~-l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      ++|+|||+++||||||+|+|.+++ ++.+++.+||++|++|++++++|..+|++.++++++.+++.|+++++++++++.+
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (198)
T 1ryp_K            1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAV   80 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHH
T ss_pred             CceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            589999999999999999999874 4446789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      ++++++.++.+++.  .+||++++||+|||+++++|+||.+||+|++.+++++++|+|+++++++||+.|+++|| +||+
T Consensus        81 a~~l~~~l~~~~~~--r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~  158 (198)
T 1ryp_K           81 SSFVRQELAKSIRS--RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGL  158 (198)
T ss_dssp             HHHHHHHHHHHTTS--SSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHHHhccc--CCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHH
Confidence            99999999888742  35999999999999423789999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHhhc
Q 029111          188 KLAIRALLEV  197 (199)
Q Consensus       188 ~l~~~~l~~~  197 (199)
                      +++++||+++
T Consensus       159 ~l~~~al~~~  168 (198)
T 1ryp_K          159 DLLKLCVQEL  168 (198)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999875

>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=3.3e-43  Score=283.01  Aligned_cols=170  Identities=14%  Similarity=0.210  Sum_probs=160.5

Q ss_pred             HHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhh-----h
Q 029111           25 EAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRL-----T   98 (199)
Q Consensus        25 ~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-----~   98 (199)
                      +|+++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|++++++|..+|++.|.++++.+++.|++     +
T Consensus         3 ~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (233)
T 1ryp_N            3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLAD   82 (233)
T ss_dssp             CCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTT
T ss_pred             ccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchhh
Confidence            5788999999999999999999999986 677788999999999999999999999999999999999999999     8


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhc
Q 029111           99 VEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY  178 (199)
Q Consensus        99 ~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~  178 (199)
                      ++++++++.+++++++.++  +++.++|||++++||+|||+ +++|+||.+||+|++.+++++++|+|+++++++||+.|
T Consensus        83 ~~~~~~v~~la~~l~~~ly--~~r~~~~P~~v~~lvaG~D~-~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~  159 (233)
T 1ryp_N           83 AEEALEPSYIFEYLATVMY--QRRSKMNPLWNAIIVAGVQS-NGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTSCCHHHHHHHHHHHHH--HHHHTTCCCCEEEEEEEECT-TSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             cCCCCCHHHHHHHHHHHHH--HhcCCCCCceEEEEEEEEcC-CCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhh
Confidence            9999999999999999994  45566899999999999996 56999999999999999999999999999999999999


Q ss_pred             cC-----CCc-HHHHHHHHHHHhhc
Q 029111          179 KE-----TSG-QETVKLAIRALLEV  197 (199)
Q Consensus       179 ~~-----~~s-~ea~~l~~~~l~~~  197 (199)
                      ++     +|| +||++++++||+.+
T Consensus       160 ~~~~~~~~ms~eea~~la~~al~~~  184 (233)
T 1ryp_N          160 DRESDIPKTTVQVAEEAIVNAMRVL  184 (233)
T ss_dssp             SSGGGGGGCCHHHHHHHHHHHHHHH
T ss_pred             ccccccCCCCHHHHHHHHHHHHHHH
Confidence            99     999 99999999999875

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

Probab=100.00  E-value=6e-42  Score=270.02  Aligned_cols=161  Identities=30%  Similarity=0.410  Sum_probs=153.9

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|++|++++++|..+|++.++++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T 1j2q_H            1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEECCCcCcCCEEeeccccCEEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            6899999999999999999987 678888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee-EEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK-ANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      +++++.+|.+    +.|||++++||+|||+  +||+||.+||+|++.+++ ++++|+|+++++++||+.|+++|| +||+
T Consensus        81 ~~l~~~~~~~----r~rp~~~~~lvaG~D~--~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~  154 (202)
T 1j2q_H           81 TLTSNLLNSY----RYFPYLVQLLIGGIDS--EGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAV  154 (202)
T ss_dssp             HHHHHHHHHT----TTSCCCEEEEEEEEET--TEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHhh----CCCCceEEEEEEEEeC--CCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHH
Confidence            9999999764    3789999999999994  789999999999999999 999999999999999999999999 9999


Q ss_pred             HHHHHHHhhc
Q 029111          188 KLAIRALLEV  197 (199)
Q Consensus       188 ~l~~~~l~~~  197 (199)
                      +++++||+.+
T Consensus       155 ~la~~al~~~  164 (202)
T 1j2q_H          155 ELAVRAIYSA  164 (202)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999876

>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_H* 3nzx_H* 4b4t_2

Probab=100.00  E-value=6.5e-42  Score=279.36  Aligned_cols=168  Identities=21%  Similarity=0.247  Sum_probs=152.4

Q ss_pred             HHHHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCC
Q 029111           23 ALEAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVED  101 (199)
Q Consensus        23 a~~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~  101 (199)
                      ..||+++|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|++.+++
T Consensus        22 ~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~  101 (261)
T 3nzj_H           22 QPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSR  101 (261)
T ss_dssp             --------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             CCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhCC
Confidence            368999999999999999999999999987 6677889999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCC
Q 029111          102 PVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET  181 (199)
Q Consensus       102 ~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  181 (199)
                      +++++.+++++++.++.|     .+||++++||+|||+  +||+||++||+|++.+++++++|+|++.++++||+.|+++
T Consensus       102 ~~~v~~~a~~l~~~l~~~-----~~~~gv~llvaG~D~--~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~  174 (261)
T 3nzj_H          102 EPRVVSALQMLKQHLFKY-----QGHIGAYLIVAGVDP--TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQD  174 (261)
T ss_dssp             CCCHHHHHHHHHHHHHHT-----TTCSCEEEEEEEEET--TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSS
T ss_pred             CCCHHHHHHHHHHHHHHh-----cCcccEEEEEEEEeC--CCCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhccC
Confidence            999999999999988654     369999999999995  6899999999999999999999999999999999999999


Q ss_pred             Cc-HHHHHHHHHHHhhc
Q 029111          182 SG-QETVKLAIRALLEV  197 (199)
Q Consensus       182 ~s-~ea~~l~~~~l~~~  197 (199)
                      || |||++++++||..+
T Consensus       175 ms~eEA~~la~~al~~a  191 (261)
T 3nzj_H          175 LTKEEAIKLASDAIQAG  191 (261)
T ss_dssp             CCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHH
Confidence            99 99999999999865

>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=8.8e-42  Score=269.65  Aligned_cols=161  Identities=18%  Similarity=0.312  Sum_probs=154.4

Q ss_pred             CcEEEEEeCCEEEEEEeccCccc-ccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~-l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.+++ ++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (205)
T 1iru_H            1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (205)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEecCCcCceEEcCCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999885 77888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.+|.|++     ||++++||+|||+ +++|+||.+||+|++.+++++++|+|+++++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~~~~-----p~~~~~lvaG~D~-~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~  154 (205)
T 1iru_H           81 SLFKEMCYRYRE-----DLMAGIIIAGWDP-QEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQ  154 (205)
T ss_dssp             HHHHHHHHHTTT-----TCCEEEEEEEEET-TTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHhcCc-----CccEEEEEEEEeC-CCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHH
Confidence            999999998764     9999999999996 5899999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+++
T Consensus       155 l~~~al~~~  163 (205)
T 1iru_H          155 FTANALALA  163 (205)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999875

>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-41  Score=270.09  Aligned_cols=162  Identities=19%  Similarity=0.342  Sum_probs=155.3

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (212)
T 1ryp_L            1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCCeEecCcccceeeeCCcEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            6899999999999999999987 788888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.+|.|+++    ||++++||+|||+ +++|+||.+||+|++.+++++|+|+|+++++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~~~~~----p~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~  155 (212)
T 1ryp_L           81 KILSNLVYQYKGA----GLSMGTMICGYTR-KEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALY  155 (212)
T ss_dssp             HHHHHHHHHTTTS----CCCBEEEEEEEET-TTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHhhCCC----CceEEEEEEEEeC-CCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHH
Confidence            9999999988763    8999999999996 5799999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       156 la~~al~~~  164 (212)
T 1ryp_L          156 LGKRSILAA  164 (212)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999865

>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=1.4e-41  Score=271.62  Aligned_cols=166  Identities=23%  Similarity=0.399  Sum_probs=155.7

Q ss_pred             HhcCCcEEEEEeCCEEEEEEeccCcccc-cccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcC-CCCC
Q 029111           27 VRKGNAAVGVRGTDIVVLGVEKKSAVKL-QDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVE-DPVT  104 (199)
Q Consensus        27 v~~g~t~vgi~~~dgVvla~d~~~~~~l-~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~~~  104 (199)
                      +++|+|+|||+++||||||+|+|.++.+ +.+++.+||++|++|++++++|..+|++.|+++++.+++.|+++++ ++++
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T 1ryp_M            6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             ccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence            5799999999999999999999998854 4677899999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhh-------
Q 029111          105 VEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKN-------  177 (199)
Q Consensus       105 ~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~-------  177 (199)
                      ++.+++++++.+  |.+  +.+||++++||+|||+ +++|+||.+||.|++.+++++++|+|+.+++++||+.       
T Consensus        86 v~~la~~l~~~l--y~~--r~~P~~v~~ivaG~D~-~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~  160 (222)
T 1ryp_M           86 INSAARNIQHLL--YGK--RFFPYYVHTIIAGLDE-DGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQY  160 (222)
T ss_dssp             HHHHHHHHHHHH--HTT--TTSCCCEEEEEEEECT-TSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCB
T ss_pred             HHHHHHHHHHHH--Hhc--CCCCceEEEEEEEEcC-CCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhccccccccc
Confidence            999999999998  444  3689999999999996 6779999999999999999999999999999999998       


Q ss_pred             ----------ccCCCc-HHHHHHHHHHHhhc
Q 029111          178 ----------YKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       178 ----------~~~~~s-~ea~~l~~~~l~~~  197 (199)
                                |+++|| +||++++++||..+
T Consensus       161 ~~~~~~~~~~~~~~~s~eeA~~la~~al~~a  191 (222)
T 1ryp_M          161 EPGTNGKVKKPLKYLSVEEVIKLVRDSFTSA  191 (222)
T ss_dssp             CTTSTTCSBCCCCCCCHHHHHHHHHHHHHHH
T ss_pred             ccccccccccCCCCCCHHHHHHHHHHHHHHH
Confidence                      889999 99999999999865

>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4

Probab=100.00  E-value=9.5e-42  Score=274.84  Aligned_cols=165  Identities=21%  Similarity=0.211  Sum_probs=157.1

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|++|++++++|..+|++.|+++++.+++.|+++++++++++.++
T Consensus         1 tT~vgi~~~dgVVlaaD~r~~~g~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (235)
T 1q5q_H            1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (235)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCCcCCEEecCCcCcEEEeCCcEEEEcCCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHH
Confidence            6899999999999999999987 788888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCC-----ceEEEECCCCCeeee--eEEEEcCCcHhHHHHHHhhccCCC
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGV-----PSLYQTDPSGTFSAW--KANATGRNSNSIREFLEKNYKETS  182 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~-----p~Ly~vd~~G~~~~~--~~~a~G~g~~~~~~~Le~~~~~~~  182 (199)
                      ++|++++|.++++. +|||++++||+|||+ +++     |+||++||+|++.++  +++++|+|+++++++||+.|+++|
T Consensus        81 ~~l~~~~~~~~~~~-~rp~~v~~lvaG~D~-~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~m  158 (235)
T 1q5q_H           81 NRLASMVRGNLGAA-MQGLAVVPLLVGYDL-DADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDS  158 (235)
T ss_dssp             HHHHHHHHTTHHHH-TTTCCEEEEEEEECT-TCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTC
T ss_pred             HHHHHHHHHHHHhh-hcccceEEEEEEEEC-CCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCC
Confidence            99999999888764 899999999999996 546     999999999999999  999999999999999999999999


Q ss_pred             c-HHHHHHHHHHHhhc
Q 029111          183 G-QETVKLAIRALLEV  197 (199)
Q Consensus       183 s-~ea~~l~~~~l~~~  197 (199)
                      | +||++++++||..+
T Consensus       159 s~eeA~~la~~al~~a  174 (235)
T 1q5q_H          159 DEETALRAAIESLYDA  174 (235)
T ss_dssp             CHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            9 99999999999865

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I

Probab=100.00  E-value=1.7e-41  Score=267.94  Aligned_cols=168  Identities=17%  Similarity=0.284  Sum_probs=154.0

Q ss_pred             HhcCCcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCH
Q 029111           27 VRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTV  105 (199)
Q Consensus        27 v~~g~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~  105 (199)
                      +.+|+|+|||+++||||||+|+|.++++.. +++.+||++|++|++++++|..+|++.+.++++.+++.|++++++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   84 (205)
T 1iru_J            5 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   84 (205)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             cCCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCH
Confidence            368999999999999999999999885544 4589999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee-eEEEEcCCcHhHHHHHHhhccCCCc-
Q 029111          106 EYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW-KANATGRNSNSIREFLEKNYKETSG-  183 (199)
Q Consensus       106 ~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s-  183 (199)
                      +.+++++++.+  |+++  ..||++++||+|||+++++|+||.+||+|++.++ +++++|+|+++++++||+.|+++|| 
T Consensus        85 ~~la~~l~~~~--y~~r--~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~  160 (205)
T 1iru_J           85 YTLMSMVANLL--YEKR--FGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDP  160 (205)
T ss_dssp             HHHHHHHHHHH--HTTT--TSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHH--HHhc--CCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCH
Confidence            99999999999  6665  3499999999999942478999999999999555 7799999999999999999999999 


Q ss_pred             HHHHHHHHHHHhhcc
Q 029111          184 QETVKLAIRALLEVS  198 (199)
Q Consensus       184 ~ea~~l~~~~l~~~~  198 (199)
                      +||++++++||+++.
T Consensus       161 eea~~l~~~al~~~~  175 (205)
T 1iru_J          161 DHLFETISQAMLNAV  175 (205)
T ss_dssp             HHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999998753

>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=1.6e-42  Score=283.97  Aligned_cols=175  Identities=14%  Similarity=0.217  Sum_probs=162.3

Q ss_pred             hhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhh-
Q 029111           20 VEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRL-   97 (199)
Q Consensus        20 ~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-   97 (199)
                      .+.+.+++++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|++|+++|..+|++.|+++++.+++.|++ 
T Consensus        31 ~~~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~  110 (266)
T 1g0u_M           31 MVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYD  110 (266)
T ss_dssp             ---CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhhhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhc
Confidence            455678889999999999999999999999986 677788999999999999999999999999999999999999998 


Q ss_pred             ----hcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHH
Q 029111           98 ----TVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREF  173 (199)
Q Consensus        98 ----~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~  173 (199)
                          .++++++++.+++++++.+  |+++.++|||++++||+|||+ +++|+||.+||+|++.+++++++|+|+++++++
T Consensus       111 ~~~~~~~~~~~v~~la~~l~~~l--y~~r~~~~P~~v~~lvaG~D~-~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~  187 (266)
T 1g0u_M          111 NPLADAEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQS-NGDQFLRYVNLLGVTYSSPTLATGFGAHMANPL  187 (266)
T ss_dssp             CTTTTTTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECT-TSCEEEEEEETTCCEECCSEEECTHHHHTHHHH
T ss_pred             cchhhcCCCCCHHHHHHHHHHHH--HHhccCCCCceEEEEEEEEcC-CCCEEEEEECCCCCEEeCCEEEEccCHHHHHHH
Confidence                8999999999999999998  455556899999999999996 569999999999999999999999999999999


Q ss_pred             HHhhccC-----CCc-HHHHHHHHHHHhhc
Q 029111          174 LEKNYKE-----TSG-QETVKLAIRALLEV  197 (199)
Q Consensus       174 Le~~~~~-----~~s-~ea~~l~~~~l~~~  197 (199)
                      ||+.|++     +|| +||++++++||+.+
T Consensus       188 Le~~~~~~~~~~~ms~eeA~~la~~al~~a  217 (266)
T 1g0u_M          188 LRKVVDRESDIPKTTVQVAEEAIVNAMRVL  217 (266)
T ss_dssp             HTTTCSSGGGGGGCCHHHHHHHHHHHHHHH
T ss_pred             HHHhhcccccCCCCCHHHHHHHHHHHHHHH
Confidence            9999999     999 99999999999875

>1iru_K 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_J* 3une_J 3unf_J* 3unh_J

Probab=100.00  E-value=2.8e-41  Score=265.97  Aligned_cols=165  Identities=18%  Similarity=0.273  Sum_probs=153.4

Q ss_pred             CCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      ++|+|||+++||||||+|+|.++ .++.+++.+||++|++|++++++|..+|++.++++++.+++.|+++++++++++.+
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~   80 (201)
T 1iru_K            1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAA   80 (201)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHH
T ss_pred             CceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            58999999999999999999987 68888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      ++++++.+..+.+  ..|||++++||+|||+ +++|+||.+||+|++.+++++++|+|+++++++||+.|+++|| +||+
T Consensus        81 a~~~~~~l~~~~~--~~~p~~~~~lvaG~D~-~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~  157 (201)
T 1iru_K           81 ANFTRRNLADCLR--SRTPYHVNLLLAGYDE-HEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAV  157 (201)
T ss_dssp             HHHHHHHHHHHHT--SSSCCCEEEEEEEEET-TTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHHHHHh--cCCCccEEEEEEEEeC-CCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHH
Confidence            9999887632222  2379999999999996 5799999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHhhc
Q 029111          188 KLAIRALLEV  197 (199)
Q Consensus       188 ~l~~~~l~~~  197 (199)
                      +++++||+.+
T Consensus       158 ~l~~~al~~a  167 (201)
T 1iru_K          158 ELLRKCLEEL  167 (201)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999875

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ...

Probab=100.00  E-value=4.3e-41  Score=265.49  Aligned_cols=166  Identities=20%  Similarity=0.288  Sum_probs=153.0

Q ss_pred             HhcCCcEEEEEeCCEEEEEEeccCcccccc-cccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCH
Q 029111           27 VRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTV  105 (199)
Q Consensus        27 v~~g~t~vgi~~~dgVvla~d~~~~~~l~~-~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~  105 (199)
                      +.+|+|+|||+++||||||+|+|.++++.. +++.+||++|+ |++++++|..+|++.+.++++.+++.|++++++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   83 (204)
T 1ryp_J            5 SINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEP   83 (204)
T ss_dssp             GSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             CCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCH
Confidence            468999999999999999999999885544 45899999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee-eEEEEcCCcHhHHHHHHhhccCCCc-
Q 029111          106 EYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW-KANATGRNSNSIREFLEKNYKETSG-  183 (199)
Q Consensus       106 ~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s-  183 (199)
                      +.+++++++.+  |+++.  .||++++||+|||+++++|+||.+||+|++.++ +++++|+|+++++++||+.|+++|| 
T Consensus        84 ~~la~~l~~~~--y~~~~--~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~  159 (204)
T 1ryp_J           84 ETFTQLVSSSL--YERRF--GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEP  159 (204)
T ss_dssp             HHHHHHHHHHH--HTTTT--SCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCH
T ss_pred             HHHHHHHHHHH--HHhcC--CCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCCCcCH
Confidence            99999999999  67653  399999999999942478999999999999555 7799999999999999999999999 


Q ss_pred             HHHHHHHHHHHhhc
Q 029111          184 QETVKLAIRALLEV  197 (199)
Q Consensus       184 ~ea~~l~~~~l~~~  197 (199)
                      +||++++++||+.+
T Consensus       160 eea~~l~~~al~~~  173 (204)
T 1ryp_J          160 EDLFETISQALLNA  173 (204)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999875

>1iru_L 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_K* 3une_K 3unf_K* 3unh_K

Probab=100.00  E-value=3.7e-41  Score=265.91  Aligned_cols=161  Identities=18%  Similarity=0.301  Sum_probs=153.7

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++ .++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (204)
T 1iru_L            1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (204)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCCEEEcCcccceEEcCCCEEEEccCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            6899999999999999999987 688888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.+|.+++    +||++++||+|||  ++||+||.+||+|++.+++++|+|+|+++++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~~r~----~~~~v~~lvaG~D--~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~  154 (204)
T 1iru_L           81 KLLANMVYQYKG----MGLSMGTMICGWD--KRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYD  154 (204)
T ss_dssp             HHHHHHHHTTTT----SCCCBEEEEEEEC--SSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHH
T ss_pred             HHHHHHHHHhCC----CCeeEEEEEEEEe--CCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHH
Confidence            999999987753    4899999999999  4789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       155 l~~~al~~~  163 (204)
T 1iru_L          155 LARRAIYQA  163 (204)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999865

>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=9e-41  Score=268.85  Aligned_cols=160  Identities=22%  Similarity=0.313  Sum_probs=151.3

Q ss_pred             CcEEEEEeCCEEEEEEeccCcccc-cccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVKL-QDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~l-~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++++ +.+++.+||++|++|++|+++|..+|++.+.++++.++++|+++++++++++.++
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVT   80 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEecCCEEEEecccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHH
Confidence            689999999999999999998854 5567899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.++.|     .+||++++||||||+  +||+||++||+|++.+++++++|+|++.++++||+.|+++|+ +||++
T Consensus        81 ~~l~~~l~~~-----~~p~~v~llvaG~D~--~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~  153 (234)
T 3unf_H           81 RILRQTLFRY-----QGHVGASLVVGGVDL--NGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQE  153 (234)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEET--TEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHhc-----CCCccEEEEEEEEeC--CCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHH
Confidence            9999999765     359999999999994  789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       154 la~~al~~~  162 (234)
T 3unf_H          154 LLVEAITAG  162 (234)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999875

>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H* 1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H* 2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H* 3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ...

Probab=100.00  E-value=1.9e-40  Score=265.08  Aligned_cols=160  Identities=21%  Similarity=0.243  Sum_probs=151.3

Q ss_pred             CcEEEEEeCCEEEEEEeccCccc-ccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~-l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++. ++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEecCCEEEEecccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            68999999999999999999874 45667899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.++.|     .|||++++||||+|+  +||+||.+||+|++.+++++|+|+|++.++++||+.|+++|| +||++
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~--~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~  153 (222)
T 1ryp_I           81 QMLKQHLFKY-----QGHIGAYLIVAGVDP--TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIK  153 (222)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEET--TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHhhc-----CCCCCeeEEEEEEeC--CCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHH
Confidence            9999998765     369999999999994  789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+++
T Consensus       154 la~~al~~~  162 (222)
T 1ryp_I          154 LASDAIQAG  162 (222)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999875

>1iru_I 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_H* 3une_H

Probab=100.00  E-value=1.7e-39  Score=261.54  Aligned_cols=160  Identities=20%  Similarity=0.251  Sum_probs=150.6

Q ss_pred             CcEEEEEeCCEEEEEEeccCcccc-cccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVKL-QDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~l-~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      +|+|||+++||||||+|+|.++++ +.+++.+||++|++|++++++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 TTivgi~~~dgVVlaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 1iru_I            1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (234)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCceeccCcccceEEecCCEEEEecCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            689999999999999999998854 4557899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.++.|.     +||++++||||||+  +||+||.+||+|++.+++++++|+|++.++++||+.|+++|| +||++
T Consensus        81 ~~l~~~l~~~~-----~~~~v~llvaG~D~--~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~  153 (234)
T 1iru_I           81 RMLKQMLFRYR-----GYIGAALVLGGVDV--TGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKN  153 (234)
T ss_dssp             HHHHHHHHHTT-----TCSCEEEEEEEECS--SCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHT
T ss_pred             HHHHHHHHhcC-----CCCceeEEEEEEcC--CCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHH
Confidence            99999987653     59999999999994  789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       154 la~~al~~a  162 (234)
T 1iru_I          154 LVSEAIAAG  162 (234)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999865

>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=4.6e-39  Score=252.91  Aligned_cols=159  Identities=20%  Similarity=0.277  Sum_probs=148.2

Q ss_pred             CcEEEEEeCCEEEEEEeccCccc-ccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~~-l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|+|.+++ ++.+++.+||++|++|++++++|..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (199)
T 3unf_N            1 TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAA   80 (199)
T ss_dssp             CEEEEEECSSCEEEEECCCEEETTEEEESSCCCEEEEETTEEEEECSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             CeEEEEEeCCeEEEEECCcccCCceeEccccCceEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999874 77888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee-eEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW-KANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      ++++++++.+     .|||++++||+|||+ +++|+||+  |+|++.++ +++++|+|+++++++||+.|+++|| +||+
T Consensus        81 ~~l~~~l~~~-----~~p~~v~~lvaG~D~-~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~  152 (199)
T 3unf_N           81 NVVKNISYKY-----REDLLAHLIVAGWDQ-REGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECR  152 (199)
T ss_dssp             HHHHHHHHHT-----TTTCCCCEEEEEEET-TTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHHhc-----CCCceEEEEEEEEeC-CCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHH
Confidence            9999999754     359999999999996 58899999  99997555 5666799999999999999999999 9999


Q ss_pred             HHHHHHHhhc
Q 029111          188 KLAIRALLEV  197 (199)
Q Consensus       188 ~l~~~~l~~~  197 (199)
                      +++++||+.+
T Consensus       153 ~la~~al~~~  162 (199)
T 3unf_N          153 RFTTNAITLA  162 (199)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999865

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=100.00  E-value=1.3e-34  Score=224.39  Aligned_cols=152  Identities=15%  Similarity=0.123  Sum_probs=132.5

Q ss_pred             hcCCcEEEEEeCCEEEEEEeccCcc-cc-cccccccceEEe-cCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCC
Q 029111           28 RKGNAAVGVRGTDIVVLGVEKKSAV-KL-QDSRMVRKIVSL-DNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVT  104 (199)
Q Consensus        28 ~~g~t~vgi~~~dgVvla~d~~~~~-~l-~~~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~  104 (199)
                      .+|+|+|||+++||||||+|+|.++ .+ +.+++.+||++| ++|++++++|..+|++.|.++++.+++.|+   |    
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g----   75 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G----   75 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T----
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C----
Confidence            5799999999999999999999987 57 888999999999 999999999999999999999999999998   3    


Q ss_pred             HHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeee--eeEEEEcCCcHhHHHHHHhhccC--
Q 029111          105 VEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSA--WKANATGRNSNSIREFLEKNYKE--  180 (199)
Q Consensus       105 ~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~--~~~~a~G~g~~~~~~~Le~~~~~--  180 (199)
                        .+.+.++++.+.+++...+|||++++||+  |    +|+||.+||+|++.+  ++++|+|+|+++++++||+.|++  
T Consensus        76 --~~~~~~~~l~~~~~~~~~~rp~~~~~lva--d----~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~  147 (180)
T 2z3b_A           76 --NLKRAAVELAKEWRSDKVLRKLEAMLIVM--N----QDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAG  147 (180)
T ss_dssp             --CHHHHHHHHHHHHHHCTTGGGCCCCEEEE--C----SSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHG
T ss_pred             --ChHHHHHHHHHHHHhhhCcCcceEEEEEE--c----CCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccC
Confidence              23344445555566667789999999999  5    599999999999988  49999999999999999999998  


Q ss_pred             -CCc-HHHHHHHHHHHhhc
Q 029111          181 -TSG-QETVKLAIRALLEV  197 (199)
Q Consensus       181 -~~s-~ea~~l~~~~l~~~  197 (199)
                       +|| ||+   +++||+.+
T Consensus       148 ~~mt~eel---~~~al~~a  163 (180)
T 2z3b_A          148 ESMSASEI---ARAALETA  163 (180)
T ss_dssp             GGCCHHHH---HHHHHHHH
T ss_pred             CCCCHHHH---HHHHHHHH
Confidence             999 885   45666543

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

Probab=100.00  E-value=8.7e-34  Score=217.97  Aligned_cols=150  Identities=15%  Similarity=0.143  Sum_probs=128.2

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEe-cCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSL-DNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      +|+|||+++||||||+|+|.++ .++.+++.+||++| ++|++++++|..+|++.+.++++.+++.|+.+     .++.+
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~   75 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc-----HHHHH
Confidence            6899999999999999999987 67888899999999 99999999999999999999999999998854     14444


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee--EEEEcCCcHhHHHHHHhhcc-CCCcHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK--ANATGRNSNSIREFLEKNYK-ETSGQE  185 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~--~~a~G~g~~~~~~~Le~~~~-~~~s~e  185 (199)
                      ++.    .+.+.++...|||++++|++  |    +|+||.+||+|++.+++  +.++|+|+++++++||+.|+ ++||  
T Consensus        76 ~~l----~~~~~~~~~~~~~~~~~lv~--D----~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms--  143 (171)
T 1m4y_A           76 VEL----AKDWRTDRVLRRLEALLLVA--D----KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS--  143 (171)
T ss_dssp             HHH----HHHHHHCTTGGGCCCEEEEE--C----SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC--
T ss_pred             HHH----HHHHHHhCCCCceEEEEEEE--c----CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCC--
Confidence            443    33344455578899988888  5    69999999999999988  99999999999999999999 9999  


Q ss_pred             HHHHHHHHHhhc
Q 029111          186 TVKLAIRALLEV  197 (199)
Q Consensus       186 a~~l~~~~l~~~  197 (199)
                      +++++++||+.+
T Consensus       144 ~~~l~~~al~~a  155 (171)
T 1m4y_A          144 AREIVEKAMTIA  155 (171)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            244566666654

>1g3k_A ATP-dependent protease HSLV; hydrolase; 1.90A {Haemophilus influenzae} SCOP: d.153.1.4 PDB: 1g3i_G 1jjw_A 1kyi_G* 1ofh_G* 1ofi_G* 1e94_A* 1g4a_B* 1g4b_M 1hqy_A* 1ht1_C* 1ht2_A* 1ned_A

Probab=100.00  E-value=2.9e-33  Score=215.64  Aligned_cols=149  Identities=16%  Similarity=0.151  Sum_probs=127.8

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEe-cCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSL-DNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      +|+|||+++||||||+|+|.++ .++.+++.+||++| ++|++++++|..+|++.|.++++.+++.|+.      +.   
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~~---   71 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG------HL---   71 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------CH---
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------cH---
Confidence            6899999999999999999987 47788899999999 9999999999999999999999999999985      23   


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeee---EEEEcCCcHhHHHHHHhhcc-CCCc-
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWK---ANATGRNSNSIREFLEKNYK-ETSG-  183 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~---~~a~G~g~~~~~~~Le~~~~-~~~s-  183 (199)
                      .+.++.+.+.++++...||+  +.+++|+|    +|+||++||+|++.+++   ++|+|+|+++++++||+.|+ ++|| 
T Consensus        72 ~~~~~~l~~~~~~~~~~r~~--~~~l~g~d----~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~  145 (174)
T 1g3k_A           72 LKSAVELAKDWRTDRALRKL--EAMLIVAD----EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSA  145 (174)
T ss_dssp             HHHHHHHHHHHHHSTTGGGC--CCEEEEEC----SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCH
T ss_pred             HHHHHHHHHHHHhccCcCcc--eEEEEEEC----CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCH
Confidence            33444444555556567776  46888886    69999999999999988   99999999999999999999 9999 


Q ss_pred             HHHHHHHHHHHhhc
Q 029111          184 QETVKLAIRALLEV  197 (199)
Q Consensus       184 ~ea~~l~~~~l~~~  197 (199)
                      +   +++++||+.+
T Consensus       146 ~---~l~~~al~~a  156 (174)
T 1g3k_A          146 H---EIVEKSLRIA  156 (174)
T ss_dssp             H---HHHHHHHHHH
T ss_pred             H---HHHHHHHHHH
Confidence            6   5666666654

---

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	199
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	5e-69
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	6e-69
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	8e-68
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	3e-66
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	8e-66
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	6e-65
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-64
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	4e-64
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	7e-64
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	1e-63
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-62
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	6e-62
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	8e-61
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	1e-58
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	3e-58
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	3e-56
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-40
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-31
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-30
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	4e-29
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	3e-26
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	7e-26
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-25
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	6e-25
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	8e-25
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-24
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	5e-24
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	8e-24
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	9e-24
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	9e-24
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-23
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-21
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	3e-21
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	5e-17

>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 =  208 bits (531), Expect = 5e-69
 Identities = 73/200 (36%), Positives = 110/200 (55%), Gaps = 5/200 (2%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNA-AVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           A +DR IT+FSP+G L+QVEYA +A+ +G   +V VRG D  V+  +KK   KL DS  V
Sbjct: 6   AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV 65

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             +  +  +I     G+ AD+R  V RAR E  + +      + V+ + + IA + Q YT
Sbjct: 66  THLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYT 125

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           Q+  +RP G   +++G D   G P +Y+ DP+G +  +KA A G        FLEK  K+
Sbjct: 126 QNAEMRPLGCCMILIGIDEEQG-PQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKK 184

Query: 181 ---TSGQETVKLAIRALLEV 197
               + ++TV+ AI  L  V
Sbjct: 185 KFDWTFEQTVETAITCLSTV 204

>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 =  208 bits (531), Expect = 6e-69
 Identities = 64/197 (32%), Positives = 102/197 (51%), Gaps = 2/197 (1%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             YD + + FSPDG +FQVEYA++AV   + A+G+R  D VV GVEK    KL +    +
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           ++ ++D H+ +A AGL ADAR L + AR E  + R      + ++++   +A     YT 
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTL 124

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET 181
              VRPFG S ++  +        LY  DPSG    +   A G+   + +  +EK   + 
Sbjct: 125 YSAVRPFGCSFMLGSYS-VNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKE 183

Query: 182 -SGQETVKLAIRALLEV 197
            + ++ VK   + +  V
Sbjct: 184 MTCRDIVKEVAKIIYIV 200

>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 =  205 bits (523), Expect = 8e-68
 Identities = 142/197 (72%), Positives = 163/197 (82%), Gaps = 4/197 (2%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDGHLFQVEYA EAV+KG+ AVGVRG DIVVLGVEKKS  KLQD R VRKI
Sbjct: 2   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 61

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
            +LD+++ +A AGL ADAR+++NRAR+ECQSHRLTVEDPVTVEYITRYIA L+Q+YTQS 
Sbjct: 62  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 121

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE--- 180
           G RPFG+S LIVGFD     P LYQTDPSGT+ AWKANA GR + S+REFLEKNY +   
Sbjct: 122 GRRPFGISALIVGFDFDGT-PRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAI 180

Query: 181 TSGQETVKLAIRALLEV 197
            +   T+KL I+ALLEV
Sbjct: 181 ETDDLTIKLVIKALLEV 197

>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 =  201 bits (513), Expect = 3e-66
 Identities = 73/200 (36%), Positives = 103/200 (51%), Gaps = 6/200 (3%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVR 61
             YD + +VFSPDG  FQVEYA++AV  G  ++G++  D VV  VEK    KL   +   
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61

Query: 62  KIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQ 121
           KI  +D HI    +GL  D R LVNR R E  S +   + P+ +      +    Q +T 
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 121

Query: 122 SGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEK---NY 178
              VRPFG+ST+  G D       LY  +PSG++  +K  ATG+   S +  LEK   ++
Sbjct: 122 YNSVRPFGVSTIFGGVDK--NGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 179

Query: 179 KET-SGQETVKLAIRALLEV 197
            E  S +E VK A + +   
Sbjct: 180 PEGLSAREAVKQAAKIIYLA 199

>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 =  200 bits (510), Expect = 8e-66
 Identities = 121/199 (60%), Positives = 159/199 (79%), Gaps = 5/199 (2%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDS-RMVRK 62
           YDRA+++FSPDGH+FQVEYALEAV++G  AVGV+G + VVLG E++S +KLQD+     K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61

Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           +  +D+H+ L+ +GL AD+R+L+ +AR+E QSHRLT+EDPVTVEY+TRY+AG+QQ+YTQS
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 121

Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK--- 179
           GGVRPFG+STLI GFDP    P LYQT+PSG +S+W A   GRNS ++REFLEKNY    
Sbjct: 122 GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKE 181

Query: 180 -ETSGQETVKLAIRALLEV 197
              + +E VKL +R+LLEV
Sbjct: 182 PPATVEECVKLTVRSLLEV 200

>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 =  198 bits (504), Expect = 6e-65
 Identities = 75/198 (37%), Positives = 111/198 (56%), Gaps = 7/198 (3%)

Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
           +YD  +TV+SP G + Q+EYA+EAV++G+A VG++     VL   K++  +L      +K
Sbjct: 2   QYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAH--QKK 59

Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           I+ +DNHI ++ AGL ADAR+L N  R EC   R   + P+ V  +   I    Q  TQ 
Sbjct: 60  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQR 119

Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK--- 179
            G RP+G+  LI G+D     P ++QT PS  +   +A + G  S S R +LE++     
Sbjct: 120 YGRRPYGVGLLIAGYDDMG--PHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFM 177

Query: 180 ETSGQETVKLAIRALLEV 197
           E +  E VK  +RAL E 
Sbjct: 178 ECNLNELVKHGLRALRET 195

>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 =  197 bits (501), Expect = 2e-64
 Identities = 71/205 (34%), Positives = 105/205 (51%), Gaps = 10/205 (4%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGN-AAVGVRGTDIVVLGVEKKSAVKLQDSRMV 60
           A YDR IT+FSP+G L+QVEYA +A  + N  ++ VRG D  V+  +KK   KL D   V
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
             I  +   I +   G   DAR    RA+ E    R      +  + + + +A L Q YT
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           Q   +RP G+    V  D   G PS+Y+TDP+G +  +KA ATG     I   LE ++K+
Sbjct: 121 QRAYMRPLGVILTFVSVDEELG-PSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKK 179

Query: 181 T--------SGQETVKLAIRALLEV 197
           +        S ++ V+ AI  +++ 
Sbjct: 180 SKIDHINEESWEKVVEFAITHMIDA 204

>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 =  196 bits (498), Expect = 4e-64
 Identities = 73/200 (36%), Positives = 118/200 (59%), Gaps = 8/200 (4%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDR +  FSP+G LFQVEY +EA++ G+ A+G++ ++ V L VEK+    L +   + KI
Sbjct: 1   YDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKI 60

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
           V +D HI  A +GL ADA+ L+++AR+E Q+H  T  + +TVE +T+ ++ L  ++ +  
Sbjct: 61  VEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEED 120

Query: 124 G-----VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY 178
                  RPFG++ L  G D     P L+  DPSGTF    A A G  S   +  L++ Y
Sbjct: 121 ADPGAMSRPFGVALLFGGVDEKG--PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELY 178

Query: 179 KET-SGQETVKLAIRALLEV 197
            ++ + +E +K ++  L +V
Sbjct: 179 HKSMTLKEAIKSSLIILKQV 198

>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 =  195 bits (497), Expect = 7e-64
 Identities = 77/200 (38%), Positives = 118/200 (59%), Gaps = 4/200 (2%)

Query: 1   MA-RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRM 59
           M  RY  ++T FSP G L Q++YAL AV++G  ++G++ T+ VV+  EKKS+  L  S  
Sbjct: 1   MTDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSET 60

Query: 60  VRKIVSLDNHIALACAGLKADARVLVNRARIECQ-SHRLTVEDPVTVEYITRYIAGLQQK 118
           + K+  L   I    +G+  D RVLV+++R     S++    +    + +   +A + Q+
Sbjct: 61  LSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQE 120

Query: 119 YTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY 178
            TQSGGVRPFG+S LI G D + G  SLYQ DPSG++  WKA A G+ S + + FLEK +
Sbjct: 121 ATQSGGVRPFGVSLLIAGHDEFNG-FSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRW 179

Query: 179 K-ETSGQETVKLAIRALLEV 197
             E   ++ + +A+  L E 
Sbjct: 180 NDELELEDAIHIALLTLKES 199

>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 =  194 bits (494), Expect = 1e-63
 Identities = 69/200 (34%), Positives = 98/200 (49%), Gaps = 9/200 (4%)

Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
            YD     FSP G LFQVEYALEA+++G+  VG+R     VL   K++A +L      +K
Sbjct: 4   NYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSY--QKK 61

Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           I+  D H+ L+ AGL  DARVL N  R +C    L     + VE     +    QK TQS
Sbjct: 62  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQS 121

Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET- 181
            G RP+G+  LI+G+D       L +  PSG  +     A G  S   + +LE+      
Sbjct: 122 YGGRPYGVGLLIIGYDKSG--AHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFI 179

Query: 182 ----SGQETVKLAIRALLEV 197
               +  E +K  + A+ + 
Sbjct: 180 KIDGNPDELIKAGVEAISQS 199

>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 =  192 bits (490), Expect = 1e-62
 Identities = 75/199 (37%), Positives = 115/199 (57%), Gaps = 4/199 (2%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMV 60
            RYD   T+FSP+G L+QVEYA+EA+      +G+   D V+L  E+++  KL D     
Sbjct: 2   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 61

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
            KI  L+  +A + AG+ +DA VL N  R+  Q + L  ++P+  E +   +  ++Q YT
Sbjct: 62  EKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYT 121

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY-- 178
           Q GG RPFG+S L +G+D + G   LYQ+DPSG +  WKA   G NS +    L+++Y  
Sbjct: 122 QFGGKRPFGVSLLYIGWDKHYG-FQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE 180

Query: 179 KETSGQETVKLAIRALLEV 197
            E + +  + LAI+ L + 
Sbjct: 181 GEMTLKSALALAIKVLNKT 199

>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 =  190 bits (484), Expect = 6e-62
 Identities = 74/198 (37%), Positives = 122/198 (61%), Gaps = 3/198 (1%)

Query: 2   ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMV 60
            RYD   T+FSP+G L+QVEYALE++     A+G+  +D +VL  E+K    L +     
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 62

Query: 61  RKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYT 120
            K+  L++ IA+A AGL ADA +L+N ARI  Q++  T  + + VE + R ++ ++Q YT
Sbjct: 63  EKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT 122

Query: 121 QSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE 180
           Q GG+RPFG+S +  G+D       LY ++PSG ++ WKA + G N+++ +  L+ +YK+
Sbjct: 123 QHGGLRPFGVSFIYAGYD-DRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKD 181

Query: 181 T-SGQETVKLAIRALLEV 197
                + ++LA++ L + 
Sbjct: 182 DMKVDDAIELALKTLSKT 199

>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 =  187 bits (477), Expect = 8e-61
 Identities = 92/195 (47%), Positives = 126/195 (64%), Gaps = 4/195 (2%)

Query: 4   YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKI 63
           YDRAITVFSPDG LFQVEYA EAV++G  A+G++  + V+L  +K+   KL +   + KI
Sbjct: 5   YDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKI 64

Query: 64  VSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG 123
             +D HI  A +GL ADARVL++RARIE Q +RLT + P+TV+ + + I   +Q+YTQ G
Sbjct: 65  YKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYG 124

Query: 124 GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY-KETS 182
           GVRPFG+S LI G +     P LY+TDPSG    +KA A G    ++ EF EK Y  + S
Sbjct: 125 GVRPFGVSLLIAGVNEV---PKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLS 181

Query: 183 GQETVKLAIRALLEV 197
             + + L + A+   
Sbjct: 182 FDDAMVLGLVAMGLS 196

>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 =  181 bits (460), Expect = 1e-58
 Identities = 82/190 (43%), Positives = 119/190 (62%), Gaps = 3/190 (1%)

Query: 9   TVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDN 68
           TVFSPDG LFQVEYA EAV+KG+ A+G++  + V+L  +KK   +L +   + KI  +D+
Sbjct: 1   TVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDD 60

Query: 69  HIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPF 128
           ++A   +GL ADARVLV+ ARI  Q  ++T    V +E + + +A   Q+YTQ GGVRP+
Sbjct: 61  YVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPY 120

Query: 129 GLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETV 187
           G+S +  G D     P L+  DP+GT + +KA A G   +++  FLE+ YKE    +E V
Sbjct: 121 GVSLIFAGIDQIG--PRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAV 178

Query: 188 KLAIRALLEV 197
            L I+AL   
Sbjct: 179 TLGIKALKSS 188

>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 =  181 bits (460), Expect = 3e-58
 Identities = 71/200 (35%), Positives = 112/200 (56%), Gaps = 8/200 (4%)

Query: 5   DRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIV 64
           DR ++ FSP+G LFQVEY+LEA++ G+ A+G+   + VVLGVEK++   L +S  + KIV
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60

Query: 65  SLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGG 124
            +D HI  A +GL ADAR ++  AR    +H L  ++ + VE +T+ +  L  ++ +   
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

Query: 125 ------VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY 178
                  RPFG++ LI G D       L+  +PSGTF  + A A G  S   +  L   +
Sbjct: 121 GEERLMSRPFGVALLIAGHDADD-GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEW 179

Query: 179 KET-SGQETVKLAIRALLEV 197
             + + +E   L ++ L +V
Sbjct: 180 HSSLTLKEAELLVLKILKQV 199

>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 =  175 bits (445), Expect = 3e-56
 Identities = 85/196 (43%), Positives = 117/196 (59%), Gaps = 3/196 (1%)

Query: 3   RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRK 62
            Y  ++T FSP G L Q+EYAL AV  G  +VG++  + VVL  EKK    L D R V K
Sbjct: 4   GYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHK 63

Query: 63  IVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQS 122
           +  +  HI L  +G+  D RVLV+RAR   Q + L  ++P+    + + +A + Q+YTQS
Sbjct: 64  VEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQS 123

Query: 123 GGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETS 182
           GGVRPFG+S LI G+    G P L+Q+DPSG + AWKA A G+N  + + FLEK Y E  
Sbjct: 124 GGVRPFGVSLLICGW--NEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDL 181

Query: 183 G-QETVKLAIRALLEV 197
             ++ +  AI  L E 
Sbjct: 182 ELEDAIHTAILTLKES 197

>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 =  135 bits (342), Expect = 1e-40
 Identities = 27/184 (14%), Positives = 60/184 (32%), Gaps = 13/184 (7%)

Query: 19  QVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLK 78
           + E A + + +G + V +   D V+   E  S         + K+  L + +  A  G  
Sbjct: 8   RSELARKGIARGRSVVVLTFRDGVLFVAENPS-------TALHKVSELYDRLGFAAVGKY 60

Query: 79  ADARVLVNRARIECQSHRLTVED-PVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGF 137
            +   L     +       + +   VT   +    A        +   +P+ +   +   
Sbjct: 61  NEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLG-TIFTEQPKPYEVEICVAEV 119

Query: 138 DP--YTGVPSLYQTDPSGTFSAWKANATGR-NSNSIREFLEKNYKE-TSGQETVKLAIRA 193
                   P LY+    G+    +        +  I   + ++Y+     +  V +A+ A
Sbjct: 120 GRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNA 179

Query: 194 LLEV 197
           L + 
Sbjct: 180 LRQG 183

>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 =  111 bits (279), Expect = 2e-31
 Identities = 36/189 (19%), Positives = 70/189 (37%), Gaps = 25/189 (13%)

Query: 30  GNAAVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   +G+ G D  VL  + ++      +SR   K+    ++I ++  G  AD   LV R 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 89  RIECQSHRLT-VEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLY 147
           +   + +     +  +++    R      Q         P+ + T+I G D   G  ++Y
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARN----IQHLLYGKRFFPYYVHTIIAGLDE-DGKGAVY 123

Query: 148 QTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG------------------QETVKL 189
             DP G++   +  A G  ++ I  FL+      +                   +E +KL
Sbjct: 124 SFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKL 183

Query: 190 AIRALLEVS 198
              +    +
Sbjct: 184 VRDSFTSAT 192

>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 =  109 bits (273), Expect = 2e-30
 Identities = 26/185 (14%), Positives = 66/185 (35%), Gaps = 15/185 (8%)

Query: 25  EAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARV 83
           + +  G + + ++  + V++  +   S   L     V +++ + ++  +  +G  +D + 
Sbjct: 3   QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 62

Query: 84  LVNRARIECQSHRL-----TVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFD 138
           +    +     +         E+ +   YI  Y+A     Y +   + P   + ++ G  
Sbjct: 63  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLA--TVMYQRRSKMNPLWNAIIVAGVQ 120

Query: 139 PYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKE------TSGQETVKLAIR 192
              G   L   +  G   +    ATG  ++     L K          T+ Q   +  + 
Sbjct: 121 SN-GDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVN 179

Query: 193 ALLEV 197
           A+  +
Sbjct: 180 AMRVL 184

>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 =  105 bits (262), Expect = 4e-29
 Identities = 36/170 (21%), Positives = 67/170 (39%), Gaps = 7/170 (4%)

Query: 33  AVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            +G+R  D V+L   K     +        K   L  H  ++ AG   D        +  
Sbjct: 4   ILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQAN 63

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            Q + +  +  ++ + ++ ++     K  +S   RP+ ++ LI G+D     P LYQ D 
Sbjct: 64  IQLYSIREDYELSPQAVSSFVRQELAKSIRSR--RPYQVNVLIGGYDKKKNKPELYQIDY 121

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKET----SGQETVKLAIRALLEV 197
            GT       A G +       L+ +Y+       G + +KL ++ L + 
Sbjct: 122 LGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKR 171

>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 = 98.3 bits (244), Expect = 3e-26
 Identities = 33/167 (19%), Positives = 71/167 (42%), Gaps = 7/167 (4%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            +  R    +++ V+ + +A     S+ V++++ ++  +    AG  AD +        +
Sbjct: 3   TLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQ 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
           C+ H L  ++ ++V   ++ ++ L  +Y          + T+I G+    G P++Y  D 
Sbjct: 63  CRLHELREKERISVAAASKILSNLVYQYKG----AGLSMGTMICGYTRKEG-PTIYYVDS 117

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLEV 197
            GT         G         L+ NYK   S ++ + L  R++L  
Sbjct: 118 DGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAA 164

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 204

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 96.8 bits (240), Expect = 7e-26
 Identities = 33/172 (19%), Positives = 63/172 (36%), Gaps = 8/172 (4%)

Query: 30  GNAAVGVRGTDIVVLGVEKKSAVKLQD-SRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   V + G D V +  + +   +    S    KI     H+ L   GL  D   L    
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMF 66

Query: 89  RIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQ 148
           R +   ++L  E  +  E  T+ ++    +        P+ +  ++ G +  +G P +  
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRF----GPYFVGPVVAGINSKSGKPFIAG 122

Query: 149 TDPSGTFSAWKAN-ATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEVS 198
            D  G     K    +G  S+ +    E  Y+     ++  +   +ALL  +
Sbjct: 123 FDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAA 174

>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 = 94.8 bits (235), Expect = 5e-25
 Identities = 30/167 (17%), Positives = 63/167 (37%), Gaps = 8/167 (4%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            + V+    VVLG + + +      +R+  K+  + + I    +G  AD + + +    +
Sbjct: 3   IMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQ 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
              H + + +P  V         +  +Y +           +I G+DP  G   +Y    
Sbjct: 63  LGFHSIELNEPPLVHTAASLFKEMCYRYRE-----DLMAGIIIAGWDPQEG-GQVYSVPM 116

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLEV 197
            G          G  S+ I  +++  Y+E  + +E ++    AL   
Sbjct: 117 GGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALA 163

>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 = 94.8 bits (235), Expect = 6e-25
 Identities = 33/166 (19%), Positives = 60/166 (36%), Gaps = 9/166 (5%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            VGV+  + VV+  + + +   +   +   K+  +   I  A AG  AD   +       
Sbjct: 3   IVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSN 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            + H L       V    + +     KY         G   ++ G DP      L+    
Sbjct: 63  IELHSLYTSREPRVVSALQMLKQHLFKYQG-----HIGAYLIVAGVDP--TGSHLFSIHA 115

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLE 196
            G+       + G  S +    LE ++K+  + +E +KLA  A+  
Sbjct: 116 HGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQA 161

>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 = 94.4 bits (234), Expect = 8e-25
 Identities = 33/179 (18%), Positives = 64/179 (35%), Gaps = 9/179 (5%)

Query: 25  EAVRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARV 83
             +  G + +GV+    VV+  +   S   L   R + +I+ ++N   L  +G  AD + 
Sbjct: 3   NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQY 62

Query: 84  LVNRARIECQSH-RLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTG 142
           L             L      +   I  ++   +  Y++   + P   + +I G+    G
Sbjct: 63  LKQVLGQMVIDEELLGDGHSYSPRAIHSWLT--RAMYSRRSKMNPLWNTMVIGGYAD--G 118

Query: 143 VPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET---SGQETVKLAIRALLEVS 198
              L   D  G      + ATG  +   +  L +  ++    S  E   L  R +  + 
Sbjct: 119 ESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLY 177

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 201

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 92.9 bits (230), Expect = 2e-24
 Identities = 30/167 (17%), Positives = 69/167 (41%), Gaps = 8/167 (4%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            +  +    V++  + + +A     S+ V+K++ ++ ++    AG  AD          +
Sbjct: 3   TLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQ 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
           C+ + L  ++ ++V   ++ +A +  +Y          + T+I G+D     P LY  D 
Sbjct: 63  CRIYELRNKERISVAAASKLLANMVYQYKG----MGLSMGTMICGWDK--RGPGLYYVDS 116

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEV 197
            G   +    + G  S      +++ Y      ++   LA RA+ + 
Sbjct: 117 EGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQA 163

>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 = 92.5 bits (229), Expect = 5e-24
 Identities = 32/166 (19%), Positives = 56/166 (33%), Gaps = 9/166 (5%)

Query: 33  AVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
             GV   D +VLG + ++    +   +   KI  +  +I    AG  AD  +        
Sbjct: 3   IAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSN 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            + H L+      V    R +  +  +Y         G + ++ G D     P LY   P
Sbjct: 63  LELHSLSTGRLPRVVTANRMLKQMLFRYR-----GYIGAALVLGGVD--VTGPHLYSIYP 115

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYK-ETSGQETVKLAIRALLE 196
            G+         G  S +     E  ++ +   +E   L   A+  
Sbjct: 116 HGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAA 161

>d1iruj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 204

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 91.4 bits (226), Expect = 8e-24
 Identities = 27/172 (15%), Positives = 61/172 (35%), Gaps = 7/172 (4%)

Query: 30  GNAAVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G A + ++G + V +  +++  ++ Q  +   +KI  + + + +  AGL  D + +  R 
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 89  RIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQ 148
           +     + L     +    +   +A L  +        P+    +I G DP T  P +  
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRF----GPYYTEPVIAGLDPKTFKPFICS 122

Query: 149 TDPSGTFSAWKANATGRN-SNSIREFLEKNYKET-SGQETVKLAIRALLEVS 198
            D  G              +  +    E  ++         +   +A+L   
Sbjct: 123 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAV 174

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]} Length = 224

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

 Score = 91.8 bits (227), Expect = 9e-24
 Identities = 35/173 (20%), Positives = 66/173 (38%), Gaps = 9/173 (5%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            V +     V+L  +++ +   L  SR V K+   D + A   AG    A  LV    +E
Sbjct: 3   IVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVE 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYT----GVPSLY 147
            + +      P+T +     +A + +    +  ++   +  L+VG+D           + 
Sbjct: 63  LEHYEKIEGVPLTFDGKANRLASMVRGNLGA-AMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 148 QTDPSGTFSAWKAN--ATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEV 197
             D  G     +A   A G  S   +  L+K Y      +  ++ AI +L + 
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDA 174

>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 = 91.4 bits (226), Expect = 9e-24
 Identities = 39/167 (23%), Positives = 69/167 (41%), Gaps = 9/167 (5%)

Query: 33  AVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            VG+   D V++  E++  ++     +  +K+  +D +  +  AGL  DA+VLV   + E
Sbjct: 3   TVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAE 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
            + +RL     + +E +   +              P+ +  L+ G D    V   +  D 
Sbjct: 63  LELYRLQRRVNMPIEAVATLL----SNMLNQVKYMPYMVQLLVGGIDTAPHV---FSIDA 115

Query: 152 SGTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLEV 197
           +G        +TG  S  +   LE  Y E  +  E V L IRA+   
Sbjct: 116 AGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAA 162

>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 = 89.5 bits (221), Expect = 5e-23
 Identities = 45/168 (26%), Positives = 67/168 (39%), Gaps = 9/168 (5%)

Query: 33  AVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIE 91
            VG+   D VV+  EK+ +      S+  +KI  + + +A+  AG   DA+ L    +IE
Sbjct: 3   TVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIE 62

Query: 92  CQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDP 151
              + +  E   TV  I             S    P+ +  LI G D      S+Y  DP
Sbjct: 63  ANLYEIRRERKPTVRAIATLT----SNLLNSYRYFPYLVQLLIGGIDSEG--KSIYSIDP 116

Query: 152 SG-TFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEV 197
            G         ATG  S +    LE  +       E V+LA+RA+   
Sbjct: 117 IGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSA 164

>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 = 85.6 bits (211), Expect = 2e-21
 Identities = 31/174 (17%), Positives = 62/174 (35%), Gaps = 9/174 (5%)

Query: 27  VRKGNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLV 85
           V  G + + V   D V+LG + + +      +R+  K+  + + I    +G  AD + + 
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 86  NRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPS 145
           +  +   + +      P T    +        K              ++ G+D       
Sbjct: 66  DIVQYHLELYTSQYGTPSTETAAS------VFKELCYENKDNLTAGIIVAGYDDKNK-GE 118

Query: 146 LYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKET-SGQETVKLAIRALLEVS 198
           +Y     G+         G  S  I  + +KN++E  S +ETV     +L +  
Sbjct: 119 VYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAI 172

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 199

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 84.9 bits (209), Expect = 3e-21
 Identities = 31/167 (18%), Positives = 64/167 (38%), Gaps = 5/167 (2%)

Query: 34  VGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIEC 92
           +G++G D V++  ++ +A   +Q      K+  +   I L C G   D        +   
Sbjct: 5   IGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNV 64

Query: 93  QSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPS 152
           Q +++     ++      +         +S    P+ ++ L+ G+D + G   LY  D  
Sbjct: 65  QLYKMRNGYELSPTAAANFTRRNLADCLRSRT--PYHVNLLLAGYDEHEGPA-LYYMDYL 121

Query: 153 GTFSAWKANATGRNSNSIREFLEKNYKE-TSGQETVKLAIRALLEVS 198
              +     A G  +      L++ Y    S +  V+L  + L E+ 
Sbjct: 122 AALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQ 168

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 213

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 73.8 bits (180), Expect = 5e-17
 Identities = 27/180 (15%), Positives = 57/180 (31%), Gaps = 16/180 (8%)

Query: 30  GNAAVGVRGTDIVVLGVEKK-SAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRA 88
           G   + + G D  ++  + + S      +R   K   L +   + C+G   D   L    
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 89  RIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQ 148
               + ++ +    +T   I   ++ +           P+ +  +I G D        Y 
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRF----FPYYVYNIIGGLDEEGKGAV-YS 123

Query: 149 TDPSGTFSAWKANATGRNSNSIREFLEKNYK----------ETSGQETVKLAIRALLEVS 198
            DP G++      A G  S  ++  L+                S    ++L     +  +
Sbjct: 124 FDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAA 183

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	199
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.91
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.89
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.87
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	82.9

>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=5.1e-61  Score=387.65  Aligned_cols=195  Identities=33%  Similarity=0.494  Sum_probs=189.7

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+++|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.+++++..++.+||++|++|++|++||..+|+
T Consensus         5 ~~yd~~~t~Fsp~Grl~QvEYa~~av~~G~t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~   84 (245)
T d1irug_           5 TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLADA   84 (245)
T ss_dssp             SSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHHHH
T ss_pred             cccCCCCceECCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEeccccccccccCccceEEEcCCCEEEEeccCchhH
Confidence            68999999999999999999999999999999999999999999999988877778889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.++++++.+++.|++.+|++++++.+++++++.+|.|++++++|||++++||+|+|+ +++|+||.+||+|++.+++++
T Consensus        85 ~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~-~~gp~Ly~iDp~G~~~~~~~~  163 (245)
T d1irug_          85 RSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSV-NDGAQLYMIDPSGVSYGYWGC  163 (245)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEET-TTEEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcC-CCCceEEEEcCCceEEeeeEE
Confidence            9999999999999999999999999999999999999999999999999999999997 789999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      |+|.|++.++++||+.|+++|| +||++++.+||+.+
T Consensus       164 a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~  200 (245)
T d1irug_         164 AIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIV  200 (245)
T ss_dssp             EESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHH
T ss_pred             EECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999 99999999999865

>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=8.9e-59  Score=375.57  Aligned_cols=195  Identities=38%  Similarity=0.600  Sum_probs=187.6

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+.+|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.+++++..++.+||++|++|++|+++|..+|+
T Consensus         3 ~~yd~~~t~fsp~G~l~QvEyA~kav~~G~tvvgi~~~dgVvlaad~r~~~~~~~~~~~~ki~~I~~~i~~~~sG~~~D~   82 (250)
T d1rypb_           3 DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPDY   82 (250)
T ss_dssp             CCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHHH
T ss_pred             ccccCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCccccccccceeEeccCCEEEEeeecccHH
Confidence            35999999999999999999999999999999999999999999999988877777889999999999999999999999


Q ss_pred             HHHHHHHHHHHH-HhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           82 RVLVNRARIECQ-SHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        82 ~~l~~~~~~~~~-~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      +.++++++.++. .|+..++++++++.+++.+++++|.|+++.+.|||++++||+|+|+ ++||+||++||.|++.++++
T Consensus        83 ~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~-~~gp~Ly~id~~G~~~~~~~  161 (250)
T d1rypb_          83 RVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDE-FNGFSLYQVDPSGSYFPWKA  161 (250)
T ss_dssp             HHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEET-TTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecC-CCCCEEEEEcCcEEEEEeeE
Confidence            999999999987 4888999999999999999999999999999999999999999997 68899999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+|+|+.+++++||+.|+++|+ +||++++++||+++
T Consensus       162 ~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~  199 (250)
T d1rypb_         162 TAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKES  199 (250)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHH
T ss_pred             EecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999 99999999999875

>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=1.2e-58  Score=373.49  Aligned_cols=193  Identities=48%  Similarity=0.775  Sum_probs=187.4

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ||||+++|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.++++...++.+||++|++|+++++||..+|+
T Consensus         3 ~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   82 (243)
T d1j2pa_           3 MGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVADA   82 (243)
T ss_dssp             TTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHHH
T ss_pred             CCcCCCCccCCCCCcchHHHHHHHHHHcCCCEEEEEECCEEEEEEecCccccCccccccccEeecCCcEEEEeeecccHH
Confidence            79999999999999999999999999999999999999999999999998877777788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+.++++.++..|+++++++++++.++++++..+|.+++++++|||++++||+|+|   ++|+||.+||+|++.+++++
T Consensus        83 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D---~~p~Ly~~Dp~G~~~~~~~~  159 (243)
T d1j2pa_          83 RVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN---EVPKLYETDPSGALLEYKAT  159 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES---SSEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEec---CCceEEEEeccCceeeeeEE
Confidence            999999999999999999999999999999999999999999999999999999998   35999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      |+|+|+..++++||+.|+++|| +||++++++||+.+
T Consensus       160 a~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~  196 (243)
T d1j2pa_         160 AIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLS  196 (243)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHH
T ss_pred             EeCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999 99999999999875

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.2e-58  Score=373.56  Aligned_cols=194  Identities=37%  Similarity=0.534  Sum_probs=187.2

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+++|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.++++...++.+||++|++|++++++|..+|+
T Consensus         2 ~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   81 (244)
T d1rypg_           2 TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPDG   81 (244)
T ss_dssp             CCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHHH
T ss_pred             CCcCCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCCCccccccceEEEccCceEEEEccchhhH
Confidence            68999999999999999999999999999999999999999999999998877666678899999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+++.++.+++.|++.++++++++.+++.+++.+|.|++.++.|||++++||+|||  ++||+||.+||+|++.+++++
T Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D--~~gp~Ly~idp~Gs~~~~~~~  159 (244)
T d1rypg_          82 RHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVD--KNGAHLYMLEPSGSYWGYKGA  159 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEE--TTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEe--CCCCEEEEEcCCccEEecCeE
Confidence            999999999999999999999999999999999999999999999999999999999  579999999999999999999


Q ss_pred             EEcCCcHhHHHHHHh---hccCCCc-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEK---NYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~---~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      |+|+|+..++++||+   .|+++|| +||++++++||+.+
T Consensus       160 a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~  199 (244)
T d1rypg_         160 ATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLA  199 (244)
T ss_dssp             EESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHH
T ss_pred             ecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999996   6999999 99999999999865

>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=1e-58  Score=375.29  Aligned_cols=195  Identities=38%  Similarity=0.657  Sum_probs=187.3

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCccc-ccccccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~-l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      .+||+.+|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.+++ ++.+++.+||++|++|++++++|..+|
T Consensus         2 ~~yd~~~t~fsp~Grl~QvEyA~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   81 (250)
T d1iruc_           2 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSD   81 (250)
T ss_dssp             TTTCCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHH
T ss_pred             CccCCCCeeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccch
Confidence            5899999999999999999999999999999999999999999999999874 445677899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+++.++.++..|++.+|++++++.+++.+++.+|.+++.+++|||++++||+|+|+ ++||+||.+||+|++.++++
T Consensus        82 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~-~~gp~Ly~~Dp~G~~~~~~~  160 (250)
T d1iruc_          82 ANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDK-HYGFQLYQSDPSGNYGGWKA  160 (250)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEET-TTEEEEEEEETTTEEEECSE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcC-CCCCEEEEEcccccEeeeeE
Confidence            99999999999999999999999999999999999999999999999999999999997 68999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccC-CCc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNYKE-TSG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~-~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+|.|++.++++||+.|++ +|+ +||++++++||+.+
T Consensus       161 ~a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~  199 (250)
T d1iruc_         161 TCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKT  199 (250)
T ss_dssp             EEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHS
T ss_pred             EEeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999985 899 99999999999875

>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-58  Score=371.45  Aligned_cols=195  Identities=37%  Similarity=0.613  Sum_probs=187.0

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCC-cEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGN-AAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~-t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      .+||+++|+|||||||+|+|||+||+++|+ |+|||+++||||||+|++.++.++.+++.+||++|++|++|+++|..+|
T Consensus         6 ~gyd~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   85 (244)
T d1irua_           6 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGMTAD   85 (244)
T ss_dssp             CTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEECHHH
T ss_pred             CCcCCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEecCCcEEEEecchHH
Confidence            579999999999999999999999999875 8999999999999999999887777788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+++.++.+++.|++.++++++++.+++++++++|.+++++++|||++++||+|||+ ++||+||++||+|++.++++
T Consensus        86 ~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~-~~g~~Ly~~Dp~G~~~~~~~  164 (244)
T d1irua_          86 SRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDE-EQGPQVYKCDPAGYYCGFKA  164 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEET-TTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcC-CCCcEEEEEcCCccEEecce
Confidence            99999999999999999999999999999999999999999999999999999999997 67899999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhcc--CCCc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNYK--ETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~--~~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+|+|+..++++||++|+  ++|+ +||++++++||+++
T Consensus       165 ~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~  204 (244)
T d1irua_         165 TAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTV  204 (244)
T ss_dssp             EEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHH
T ss_pred             EeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999995  5899 99999999999875

>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=5e-58  Score=369.96  Aligned_cols=196  Identities=38%  Similarity=0.699  Sum_probs=188.7

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCccc-ccccccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVK-LQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~-l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      ++||+++|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.++. ++.+++.+||++|++|++++++|..+|
T Consensus         3 ~~yd~~~t~fsp~G~~~Qveya~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (244)
T d1rypc_           3 RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GGGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             CccCCCceeECCCCcChHHHHHHHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCc
Confidence            4799999999999999999999999999999999999999999999999884 555677899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+++.++.+++.|++.++++++++.+++.+++.++.|++++++|||++++||+|+|+ +++|+||.+||.|++.++++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~-~~gp~Ly~id~~Gs~~~~~~  161 (244)
T d1rypc_          83 AEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDD-RYGYQLYTSNPSGNYTGWKA  161 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEET-TTEEEEEEECTTCCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEec-CCCceEEEecCCCcEeeeee
Confidence            99999999999999999999999999999999999999999999999999999999997 68899999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          161 NATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +|+|+|+.+++++||+.|+++|+ +||++++++||+.+.
T Consensus       162 ~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~  200 (244)
T d1rypc_         162 ISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTT  200 (244)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHC
T ss_pred             eeccchhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999 999999999998764

>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=5.5e-58  Score=369.48  Aligned_cols=194  Identities=74%  Similarity=1.146  Sum_probs=187.4

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADAR   82 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~   82 (199)
                      .||+.+|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.+++++.+++.+||++|++|++|++||..+|++
T Consensus         1 ~yd~~~t~Fsp~Grl~QvEya~kav~~G~Tvvgik~~dgVvla~d~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   80 (243)
T d1irud_           1 SYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADAR   80 (243)
T ss_dssp             CCCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             CCCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccccCcccCCCccccEEECCCCEEEEEEEchhhHH
Confidence            59999999999999999999999999999999999999999999999877888888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEE
Q 029111           83 VLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANA  162 (199)
Q Consensus        83 ~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a  162 (199)
                      .+++.++.+++.|++.+|.+++++.+++++++++|.|++++++|||++++||+|||+ +++|+||.+||+|++.+++++|
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~-~~~p~Ly~idp~G~~~~~~~~a  159 (243)
T d1irud_          81 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDF-DGTPRLYQTDPSGTYHAWKANA  159 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECS-SSCEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcC-CCCCEEEEecCcEEEEeccEEE
Confidence            999999999999999999999999999999999999999999999999999999996 6789999999999999999999


Q ss_pred             EcCCcHhHHHHHHhhccCCC--c-HHHHHHHHHHHhhc
Q 029111          163 TGRNSNSIREFLEKNYKETS--G-QETVKLAIRALLEV  197 (199)
Q Consensus       163 ~G~g~~~~~~~Le~~~~~~~--s-~ea~~l~~~~l~~~  197 (199)
                      +|+|+..++++||+.|+++|  + ++++++++++|+++
T Consensus       160 ~G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~  197 (243)
T d1irud_         160 IGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEV  197 (243)
T ss_dssp             ESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTT
T ss_pred             ECCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHH
Confidence            99999999999999999998  5 78999999998864

>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=6e-58  Score=367.38  Aligned_cols=192  Identities=38%  Similarity=0.663  Sum_probs=185.6

Q ss_pred             CCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHH
Q 029111            4 YDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARV   83 (199)
Q Consensus         4 yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~   83 (199)
                      ||+++|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.+++++..++.+||++|++|++++++|..+|++.
T Consensus         1 yd~~~t~fsp~G~l~QvEYa~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (234)
T d1irue_           1 YDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAKT   80 (234)
T ss_dssp             CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHHH
T ss_pred             CCCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCccCCCcccCcccCEEEccCcEEEEEeeccchHHH
Confidence            99999999999999999999999999999999999999999999999887777888999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCC-----CcccccceeeeeeeCCCCCceEEEECCCCCeeee
Q 029111           84 LVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGG-----VRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW  158 (199)
Q Consensus        84 l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~-----~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~  158 (199)
                      +++.++.++..|++.+|++++++.+++++++++|.|+++.+     .|||++++||+|||  ++||+||.+||+|++.++
T Consensus        81 l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D--~~gp~Ly~idp~G~~~~~  158 (234)
T d1irue_          81 LIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVD--EKGPQLFHMDPSGTFVQC  158 (234)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEE--TTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEc--CCCCEEEEEecCccccee
Confidence            99999999999999999999999999999999999998755     79999999999999  578999999999999999


Q ss_pred             eEEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          159 KANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       159 ~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +++|+|+|++.++++||+.|+++|+ +||++++++||+++
T Consensus       159 ~~~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~  198 (234)
T d1irue_         159 DARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQV  198 (234)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHH
T ss_pred             eeEEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999 99999999999875

>d1rypd_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.9e-57  Score=365.89  Aligned_cols=195  Identities=62%  Similarity=1.066  Sum_probs=186.4

Q ss_pred             CCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCccccc-ccccccceEEecCCEEEEEeecHhhH
Q 029111            3 RYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQ-DSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         3 ~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~-~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      |||+++|+|||||||+|+|||.||+++|+|+|||+++||||||+|++.++++. ...+.+||++|++|++|++||..+|+
T Consensus         1 gyd~~~t~fsp~Grl~QvEya~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   80 (241)
T d1rypd_           1 GYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADS   80 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCCceECCCCcEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchH
Confidence            79999999999999999999999999999999999999999999999998654 45678999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+++.++.+++.|++.+|++++++.++++++.++|.|+++.++|||++++||+|+|+++++|+||.+||+|++.+++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~~~~  160 (241)
T d1rypd_          81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQ  160 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEEEEeeCeE
Confidence            99999999999999999999999999999999999999999999999999999999974578999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccC---CCc-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEKNYKE---TSG-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~---~~s-~ea~~l~~~~l~~~  197 (199)
                      |+|+|++.++++||+.|++   +|+ +|+++++++||+++
T Consensus       161 a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~  200 (241)
T d1rypd_         161 TIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEV  200 (241)
T ss_dssp             EESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHH
T ss_pred             EECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999965   699 99999999999875

>d1iruf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.3e-57  Score=364.86  Aligned_cols=192  Identities=39%  Similarity=0.625  Sum_probs=183.9

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      .+||+.+|+|||||||+|+|||.||+++|+|+|||+++||||||+|++.++.+..  +.+||++|++|++|++||..+|+
T Consensus         1 ~~yd~~~tiFsp~Grl~QvEYA~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~--~~~KI~~I~~~i~~~~sG~~~D~   78 (238)
T d1iruf_           1 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA--HQKKILHVDNHIGISIAGLTADA   78 (238)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTBC--CCCCEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccccCCCC--ccceEEEeCCceEEEEeccchHH
Confidence            3799999999999999999999999999999999999999999999999887654  46899999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+++.++.++..|++.+|++++++.+++++++..|.|+++.+.|||++++||+|||  ++||+||++||+|++.+++++
T Consensus        79 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D--~~gp~Ly~~D~~G~~~~~~~~  156 (238)
T d1iruf_          79 RLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYD--DMGPHIFQTCPSANYFDCRAM  156 (238)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEE--TTEEEEEEECSSSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEc--CCCceEEEEcCCCCEEeeeeE
Confidence            999999999999999999999999999999999999999999999999999999999  478999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCC--c-HHHHHHHHHHHhhc
Q 029111          162 ATGRNSNSIREFLEKNYKETS--G-QETVKLAIRALLEV  197 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~--s-~ea~~l~~~~l~~~  197 (199)
                      |+|+|+..++++||+.|+++|  + +||++++++||+++
T Consensus       157 a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~  195 (238)
T d1iruf_         157 SIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRET  195 (238)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT
T ss_pred             EECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999855  8 99999999999875

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.8e-57  Score=363.31  Aligned_cols=193  Identities=36%  Similarity=0.573  Sum_probs=183.7

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      ++||+.+|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.++.+.  .+.+||++|++|++|+++|..+|+
T Consensus         3 ~~yd~~~t~FspdGrl~QvEyA~kav~~g~t~igi~~~dgvvlaad~~~~~~l~--~~~~KI~~I~~~i~~~~sG~~~D~   80 (233)
T d1rypf_           3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAPDA   80 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHHH
T ss_pred             ccccCCCceECCCCcChHHHHHHHHHHcCCCEEEEEECCeEEEEEeccccccCC--cchheEEEcCCCEEEEEeeccccH
Confidence            469999999999999999999999999999999999999999999999987763  467899999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.++++++.+++.|++.++++++++.+++.|++.+|.|++..+.|||++++||+|+|  ++||+||++||+|++.+++++
T Consensus        81 ~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d--~~g~~Ly~idp~G~~~~~~~~  158 (233)
T d1rypf_          81 RVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYD--KSGAHLLEFQPSGNVTELYGT  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEE--TTEEEEEEECTTSCEEEESEE
T ss_pred             HHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEc--CCCCEEEEEccccceecccEE
Confidence            999999999999999999999999999999999999999999999999999999999  468999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhc----cCCCc-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKNY----KETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~----~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      |+|.|++.++++||+.|    +++|+ +||++++++||+++.
T Consensus       159 aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~  200 (233)
T d1rypf_         159 AIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL  200 (233)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC
T ss_pred             EecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999865    57999 999999999998753

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.9e-57  Score=366.38  Aligned_cols=195  Identities=35%  Similarity=0.550  Sum_probs=186.6

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhc-CCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhh
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRK-GNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKAD   80 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~-g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D   80 (199)
                      .|||+.+|+|||||||+|+|||+||+++ |+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|+.+|
T Consensus         1 ~gyd~~~t~fsp~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   80 (243)
T d1rypa_           1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             CGGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCCCeECCCCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccccccccCcccceEecCCCEEEEEecCcHH
Confidence            4899999999999999999999999987 558999999999999999999888888888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeE
Q 029111           81 ARVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKA  160 (199)
Q Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~  160 (199)
                      ++.+.+.++.+++.|++.++++++++.+++++++.+|.|+++.+.|||++++||+|||+ ++||+||++||+|++.++++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~-~~g~~Ly~~Dp~G~~~~~~~  159 (243)
T d1rypa_          81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDE-ELGPSIYKTDPAGYYVGYKA  159 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEET-TTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEcc-CCCCeEEEEcCCEEEEecce
Confidence            99999999999999999999999999999999999999999999999999999999997 78999999999999999999


Q ss_pred             EEEcCCcHhHHHHHHhhccC-------CCc-HHHHHHHHHHHhhc
Q 029111          161 NATGRNSNSIREFLEKNYKE-------TSG-QETVKLAIRALLEV  197 (199)
Q Consensus       161 ~a~G~g~~~~~~~Le~~~~~-------~~s-~ea~~l~~~~l~~~  197 (199)
                      +|+|+|+..++++||++|++       +++ +||++++++||+++
T Consensus       160 ~a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~  204 (243)
T d1rypa_         160 TATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDA  204 (243)
T ss_dssp             EEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHH
T ss_pred             EEeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHH
Confidence            99999999999999999985       468 99999999999865

>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=7e-57  Score=358.26  Aligned_cols=187  Identities=44%  Similarity=0.684  Sum_probs=182.1

Q ss_pred             cccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHHHHHHH
Q 029111            9 TVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRA   88 (199)
Q Consensus         9 ~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~   88 (199)
                      |+|||||||+|+|||+||+++|+|+|||+++||||||+|++.++++..+++.+||++|++|++++++|..+|++.+.+.+
T Consensus         1 t~fsp~G~l~QvEYa~~av~~G~t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~   80 (221)
T d1yara1           1 TVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFA   80 (221)
T ss_dssp             CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHH
T ss_pred             CeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCccceEEEecCCceEEeeeccchHHHHHHHH
Confidence            78999999999999999999999999999999999999999888777888899999999999999999999999999999


Q ss_pred             HHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcH
Q 029111           89 RIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSN  168 (199)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~  168 (199)
                      +.+++.|++.++++++++.++++++..+|.+++++++|||++++||+|+|  ++||+||++||+|++.+++++|+|+|+.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d--~~gp~Ly~id~~G~~~~~~~~a~G~g~~  158 (221)
T d1yara1          81 RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGID--QIGPRLFDCDPAGTINEYKATAIGSGKD  158 (221)
T ss_dssp             HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEEC--SSCEEEEEECTTCCEEEBSEEEESTTHH
T ss_pred             HHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEe--cCCCeEEEEcCCccEEEeeEEEECCchH
Confidence            99999999999999999999999999999999999999999999999999  5789999999999999999999999999


Q ss_pred             hHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          169 SIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       169 ~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      .++++||+.|+++|| +||++++++||+++
T Consensus       159 ~~~~~Le~~~~~~ms~~ea~~la~~~l~~~  188 (221)
T d1yara1         159 AVVSFLEREYKENLPEKEAVTLGIKALKSS  188 (221)
T ss_dssp             HHHHHHHHHCCTTCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhccccHHHHHHHHHHHHHHH
Confidence            999999999999999 99999999999865

>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=4.4e-57  Score=363.94  Aligned_cols=192  Identities=37%  Similarity=0.638  Sum_probs=184.7

Q ss_pred             CCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHHH
Q 029111            5 DRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVL   84 (199)
Q Consensus         5 d~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l   84 (199)
                      |+++|+|||||||+|+|||+||+++|+|+|||+++||||||+|+|.+.++...++.+||++|+++++|+++|..+|++.+
T Consensus         1 d~~~t~fsp~G~l~Qveya~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   80 (242)
T d1rype_           1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARSM   80 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHHH
T ss_pred             CCCcceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCccCcCcccCccceEEEcCCCEEEEEeecchhHHHH
Confidence            78999999999999999999999999999999999999999999998888778889999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccC------CCcccccceeeeeeeCCCCCceEEEECCCCCeeee
Q 029111           85 VNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSG------GVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW  158 (199)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~------~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~  158 (199)
                      +++++.+++.|++.++++++++.+++++++++|.|++..      ++|||++++||+|+|+ +++|+||.+||+|++.++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~-~~~p~L~~idp~G~~~~~  159 (242)
T d1rype_          81 IEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDA-DDGYQLFHAEPSGTFYRY  159 (242)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEET-TTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEecc-ccceEEEEEcCCCceecc
Confidence            999999999999999999999999999999999988764      3799999999999997 788999999999999999


Q ss_pred             eEEEEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhc
Q 029111          159 KANATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       159 ~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      +++|+|+|+..++++||+.|+++|| +||++++++||+++
T Consensus       160 ~~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~  199 (242)
T d1rype_         160 NAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQV  199 (242)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHH
T ss_pred             ceeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999 99999999999875

>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=3.7e-56  Score=356.37  Aligned_cols=195  Identities=44%  Similarity=0.701  Sum_probs=189.2

Q ss_pred             CCCCCCccccCCCCcchhhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhH
Q 029111            2 ARYDRAITVFSPDGHLFQVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADA   81 (199)
Q Consensus         2 ~~yd~~~~~f~peG~i~q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~   81 (199)
                      +|||+.+|+|||||||+|+|||+||+++|+|+|||+++||||||+|++.+++++..++.+|||+|++|++|+++|..+|+
T Consensus         3 ~gyd~~~t~fsp~Gr~~Qveya~kav~~G~tvigik~~dgVvlaaD~r~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~   82 (233)
T d1irub_           3 RGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPDY   82 (233)
T ss_dssp             CCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHHH
T ss_pred             CCcCCCCCeECCCCcChHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCcccCCccccccceEEEecCceEEEEeccchHH
Confidence            68999999999999999999999999999999999999999999999998876778889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEE
Q 029111           82 RVLVNRARIECQSHRLTVEDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKAN  161 (199)
Q Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~  161 (199)
                      +.+++.++.+++.|+..++++++++.+++.++..+|.+++...+||++++++++|+|  +++|+||.+||.|++.+++++
T Consensus        83 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d--~~~~~ly~id~~G~~~~~~~~  160 (233)
T d1irub_          83 RVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWN--EGRPYLFQSDPSGAYFAWKAT  160 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEEC--SSSEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecc--cCCceEEEEcCCcceEeccce
Confidence            999999999999999999999999999999999999999999999999999999998  689999999999999999999


Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHHhhcc
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l~~~~  198 (199)
                      ++|+|+.+++++||+.|+++|+ +||++++++||+.+.
T Consensus       161 a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~  198 (233)
T d1irub_         161 AMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESF  198 (233)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTC
T ss_pred             ecCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999 999999999998764

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=2.7e-43  Score=280.58  Aligned_cols=171  Identities=16%  Similarity=0.233  Sum_probs=154.1

Q ss_pred             hhhhHHHHHhcCCcEEEEEeCCEEEEEEeccCcccccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhh
Q 029111           19 QVEYALEAVRKGNAAVGVRGTDIVVLGVEKKSAVKLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLT   98 (199)
Q Consensus        19 q~eya~~av~~g~t~vgi~~~dgVvla~d~~~~~~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~   98 (199)
                      |+|||.||+++|+|+|||+++||||||+|+|.+       +.+||++|++||+|+++|..+|++.|+++++.+++.|++.
T Consensus         8 q~eyA~~av~~GtT~vgi~~~~GVvlaad~r~~-------s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~   80 (227)
T d1q5qa_           8 RSELARKGIARGRSVVVLTFRDGVLFVAENPST-------ALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYS   80 (227)
T ss_dssp             HHHHHHHHHHTSCCEEEEECSSEEEEEECCSCS-------SSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCEEEEEECCEEEEEEccCCC-------CcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999863       4689999999999999999999999999999999999999


Q ss_pred             cC-CCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeC--CCCCceEEEECCCCCeeeeeE-EEEcCCcHhHHHHH
Q 029111           99 VE-DPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDP--YTGVPSLYQTDPSGTFSAWKA-NATGRNSNSIREFL  174 (199)
Q Consensus        99 ~~-~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~--~~~~p~Ly~vd~~G~~~~~~~-~a~G~g~~~~~~~L  174 (199)
                      ++ .+++++.+++.+++.++... ..++|||++++||||||+  +.++|+||.+||+|++.++++ ++.|.+++.+.++|
T Consensus        81 ~~~~~~~~~~la~~~~~~~~~~~-~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~L  159 (227)
T d1q5qa_          81 YDRRDVTGRSLANAYAQTLGTIF-TEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAM  159 (227)
T ss_dssp             SCGGGCCHHHHHHHHHHHHHHHH-HHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHHH
T ss_pred             hCCCCCcHHHHHHHHHHHHHHHH-HhcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHHHHHH
Confidence            98 46899999999998865433 235799999999999995  136799999999999987764 66677889999999


Q ss_pred             HhhccCCCc-HHHHHHHHHHHhhc
Q 029111          175 EKNYKETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       175 e~~~~~~~s-~ea~~l~~~~l~~~  197 (199)
                      ++.|+++|| +||++++++||+.+
T Consensus       160 e~~y~~~ms~eea~~la~~aL~~a  183 (227)
T d1q5qa_         160 RESYRADLDLEAAVGIAVNALRQG  183 (227)
T ss_dssp             HHHCCTTCCHHHHHHHHHHHHTTC
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHH
Confidence            999999999 99999999999876

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.2e-43  Score=273.45  Aligned_cols=166  Identities=20%  Similarity=0.250  Sum_probs=156.5

Q ss_pred             CCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      ++|+|||+++||||||+|+|.+. .++..++.+||++|++|++++++|..+|++.+.+.++.+++.|+++++++++++.+
T Consensus         1 m~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
T d1rypk_           1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAV   80 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHH
T ss_pred             CeEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHH
Confidence            58999999999999999999987 55667789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      ++++++.++.+++  +.|||++++||+|||+.+++|+||.+||+|++.+++++++|+|+.++.++||+.|+++|| +||+
T Consensus        81 ~~~i~~~~~~~~~--~~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~  158 (198)
T d1rypk_          81 SSFVRQELAKSIR--SRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGL  158 (198)
T ss_dssp             HHHHHHHHHHHTT--SSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHHHHHh--cccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHHHHH
Confidence            9999999987765  469999999999999745799999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHhhc
Q 029111          188 KLAIRALLEV  197 (199)
Q Consensus       188 ~l~~~~l~~~  197 (199)
                      +++++||+.+
T Consensus       159 ~l~~~~l~~~  168 (198)
T d1rypk_         159 DLLKLCVQEL  168 (198)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999865

>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=1.3e-41  Score=266.85  Aligned_cols=165  Identities=18%  Similarity=0.281  Sum_probs=153.5

Q ss_pred             HHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCC
Q 029111           26 AVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVT  104 (199)
Q Consensus        26 av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~  104 (199)
                      .+++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++ +
T Consensus         5 ~v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~   83 (205)
T d1ryph_           5 EVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-S   83 (205)
T ss_dssp             CCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-C
T ss_pred             cccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-c
Confidence            368999999999999999999999986 66777889999999999999999999999999999999999999999965 5


Q ss_pred             HHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-
Q 029111          105 VEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-  183 (199)
Q Consensus       105 ~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-  183 (199)
                      +..++++++.+++.+     .+||++++||+|||+ +++|+||.+||.|++.+++++|+|+|+.+++++||+.|+++|| 
T Consensus        84 ~~~~~~~~~~~~~~~-----~~p~~~~~lvaG~d~-~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~  157 (205)
T d1ryph_          84 TETAASVFKELCYEN-----KDNLTAGIIVAGYDD-KNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSK  157 (205)
T ss_dssp             HHHHHHHHHHHHHHT-----TTTCCEEEEEEEEET-TTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCH
T ss_pred             HHHHHHHHHHHHHhC-----ccCceEEEEEEeecC-CCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhcccCH
Confidence            778899999988542     479999999999997 7899999999999999999999999999999999999999999 


Q ss_pred             HHHHHHHHHHHhhc
Q 029111          184 QETVKLAIRALLEV  197 (199)
Q Consensus       184 ~ea~~l~~~~l~~~  197 (199)
                      +||++++++||+.+
T Consensus       158 ~ea~~l~~~al~~a  171 (205)
T d1ryph_         158 EETVDFIKHSLSQA  171 (205)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999875

>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=1.4e-41  Score=265.88  Aligned_cols=161  Identities=18%  Similarity=0.296  Sum_probs=153.3

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|++.++ .++.+++.+|||+|+++++|+++|..+|++.+.+.++.+++.|+..++++++++.++
T Consensus         1 TT~igi~~~dgVvlaaD~~~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (201)
T d1irul_           1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (201)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCCEeecCCcccEEEeCCcEEEEEcCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHH
Confidence            7999999999999999999886 677788899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.+|.++    .+||+++++++|+|  +++|+||.+||+|++.+++++|+|+|+++++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~~~----~~p~~~~~lvaG~d--~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~  154 (201)
T d1irul_          81 KLLANMVYQYK----GMGLSMGTMICGWD--KRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYD  154 (201)
T ss_dssp             HHHHHHHHTTT----TSCCCBEEEEEEEC--SSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHH
T ss_pred             HHHHHHhhhcc----CCCceEEEEEEEEe--cCCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHH
Confidence            99999997654    47999999999999  4789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+++
T Consensus       155 l~~~~l~~~  163 (201)
T d1irul_         155 LARRAIYQA  163 (201)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999976

>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=4.3e-41  Score=263.37  Aligned_cols=160  Identities=24%  Similarity=0.375  Sum_probs=151.6

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|+|.+. +++.+++.+||++|++|++++++|..+|++.+.++++.+++.|+..++++++++.++
T Consensus         1 TT~igi~~kdgVvia~D~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (203)
T d1yarh1           1 TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVA   80 (203)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCEeecCCcccEEEecCCeeeecCCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            7999999999999999999876 677888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.++.+    +.|||++++||||+|   .+|+||.+||+|++.+++++|+|+|+..++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~~----~~~p~~~~~lvaG~d---~~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~  153 (203)
T d1yarh1          81 TLLSNMLNQV----KYMPYMVQLLVGGID---TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVD  153 (203)
T ss_dssp             HHHHHHHHHT----TTSCCCEEEEEEEES---SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHhh----ccCCccceeEEEEEc---CCCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHHHH
Confidence            9999988754    368999999999998   359999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       154 l~~~~l~~~  162 (203)
T d1yarh1         154 LVIRAISAA  162 (203)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999875

>d1rypl_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.8e-40  Score=261.51  Aligned_cols=162  Identities=19%  Similarity=0.334  Sum_probs=153.7

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|++.++ .++.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|+..++++++++.++
T Consensus         1 TT~iai~~kdgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (212)
T d1rypl_           1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            7999999999999999999987 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++++|.|.    ..|++++.+++|+|+ +++|+||.+||+|++.+++++++|+|+++++++||+.|+++|+ +||++
T Consensus        81 ~~ls~~~~~~~----~~p~~~~~~l~G~~~-~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~  155 (212)
T d1rypl_          81 KILSNLVYQYK----GAGLSMGTMICGYTR-KEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALY  155 (212)
T ss_dssp             HHHHHHHHHTT----TSCCCBEEEEEEEET-TTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHHhc----cCCcceEeeeeEeec-CCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHH
Confidence            99999998653    458899999999997 7899999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       156 l~~~al~~~  164 (212)
T d1rypl_         156 LGKRSILAA  164 (212)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999865

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4.1e-40  Score=257.65  Aligned_cols=161  Identities=18%  Similarity=0.312  Sum_probs=153.5

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|+|.++ .++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|+.+++++++++.++
T Consensus         1 TTivai~~~dgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1iruh_           1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCccccCCeeecCCcceEEEcCCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            7999999999999999999986 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.++.+.     +||++++|++|+|+ +++|+||.+||.|++.+.+++++|+|+.+++++||+.|+++|+ +||++
T Consensus        81 ~~l~~~l~~~~-----~p~~~~~lvaG~d~-~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~  154 (202)
T d1iruh_          81 SLFKEMCYRYR-----EDLMAGIIIAGWDP-QEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQ  154 (202)
T ss_dssp             HHHHHHHHHTT-----TTCCEEEEEEEEET-TTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHhhc-----cceeEEEEEEEeec-CCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHH
Confidence            99999997542     59999999999997 7899999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       155 l~~~al~~a  163 (202)
T d1iruh_         155 FTANALALA  163 (202)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999865

>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=8e-40  Score=255.57  Aligned_cols=162  Identities=29%  Similarity=0.403  Sum_probs=152.1

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|+|.+. .++.+++.+|||+|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~s~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1j2qh_           1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCeeccCccceEEEecCcEEEEecCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHH
Confidence            7999999999999999999875 677788899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee-eEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW-KANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      +++++++|.++    .|||++++||+|+|  +++|+||.+||+|+..++ +++|+|+|+.+++++||+.|+|+|| +||+
T Consensus        81 ~~~~~~~~~~~----~~p~~~~~lvaG~d--~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~  154 (202)
T d1j2qh_          81 TLTSNLLNSYR----YFPYLVQLLIGGID--SEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAV  154 (202)
T ss_dssp             HHHHHHHHHTT----TSCCCEEEEEEEEE--TTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHhhhc----ccceeeEEEEEEEc--CCCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHH
Confidence            99999998765    46999999999999  578999999999998765 5899999999999999999999999 9999


Q ss_pred             HHHHHHHhhcc
Q 029111          188 KLAIRALLEVS  198 (199)
Q Consensus       188 ~l~~~~l~~~~  198 (199)
                      +++++||+.+.
T Consensus       155 ~l~~~al~~~~  165 (202)
T d1j2qh_         155 ELAVRAIYSAM  165 (202)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998753

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.9e-41  Score=267.84  Aligned_cols=171  Identities=14%  Similarity=0.217  Sum_probs=158.0

Q ss_pred             HHHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhc----
Q 029111           25 EAVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTV----   99 (199)
Q Consensus        25 ~av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~----   99 (199)
                      +|+.+|+|+|||+++||||||+|++.+. .++.+++.+||++|++|++++++|..+|++.+.+.++.++..|++++    
T Consensus         3 ~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~   82 (233)
T d1ryp2_           3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLAD   82 (233)
T ss_dssp             CCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTT
T ss_pred             CCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCCC
Confidence            4678999999999999999999999874 67778889999999999999999999999999999999999998766    


Q ss_pred             -CCCCCHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhc
Q 029111          100 -EDPVTVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNY  178 (199)
Q Consensus       100 -~~~~~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~  178 (199)
                       +..++++.+++++++.+  |+++.++|||+++++|+|+|+ +++|+||.+||.|++.+++++|+|+|+++++++||+.|
T Consensus        83 ~~~~~~~~~~a~~l~~~~--y~~~~~~~P~~~~~liaG~d~-~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~  159 (233)
T d1ryp2_          83 AEEALEPSYIFEYLATVM--YQRRSKMNPLWNAIIVAGVQS-NGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTSCCHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEECT-TSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             CCcccCHHHHHHHHHHHH--HhhccccCCceeEEEEEEEcC-CCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHH
Confidence             56789999999999987  556667899999999999997 78899999999999999999999999999999999999


Q ss_pred             c-----CCCc-HHHHHHHHHHHhhcc
Q 029111          179 K-----ETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       179 ~-----~~~s-~ea~~l~~~~l~~~~  198 (199)
                      +     |+|+ +||++++++||+.+.
T Consensus       160 ~~~~~~~~ms~eeA~~l~~~al~~~~  185 (233)
T d1ryp2_         160 DRESDIPKTTVQVAEEAIVNAMRVLY  185 (233)
T ss_dssp             CSGGGGGGCCHHHHHHHHHHHHHHHH
T ss_pred             hhcccccccCHHHHHHHHHHHHHHHH
Confidence            8     7899 999999999998764

>d1iruj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.7e-39  Score=254.44  Aligned_cols=167  Identities=16%  Similarity=0.252  Sum_probs=154.2

Q ss_pred             hcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHH
Q 029111           28 RKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVE  106 (199)
Q Consensus        28 ~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~  106 (199)
                      -||+|+|||+++||||||+|++.+. .++..++.+||++|++|++++++|..+|++.+.++++.+++.|++.++.+++++
T Consensus         5 ~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1iruj_           5 YNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPY   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHH
T ss_pred             eCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccchH
Confidence            4799999999999999999999987 566778899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee-eEEEEcCCcHhHHHHHHhhccCCCc-H
Q 029111          107 YITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW-KANATGRNSNSIREFLEKNYKETSG-Q  184 (199)
Q Consensus       107 ~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s-~  184 (199)
                      .+++++++.++.+    +++||++++||||+|++..+|.+|.+||.|....+ +++++|+|+++++++|++.|+++|+ +
T Consensus        85 ~~a~~l~~~~~~~----~~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~  160 (204)
T d1iruj_          85 TLMSMVANLLYEK----RFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPD  160 (204)
T ss_dssp             HHHHHHHHHHHTT----TTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHH
T ss_pred             HHHHHHHHHHHHh----hhccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCCCHH
Confidence            9999999998754    35799999999999974457899999999987655 6899999999999999999999999 9


Q ss_pred             HHHHHHHHHHhhcc
Q 029111          185 ETVKLAIRALLEVS  198 (199)
Q Consensus       185 ea~~l~~~~l~~~~  198 (199)
                      ||++++++||+.+.
T Consensus       161 ea~~l~~~al~~a~  174 (204)
T d1iruj_         161 HLFETISQAMLNAV  174 (204)
T ss_dssp             HHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999864

>d1irui_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.6e-39  Score=256.19  Aligned_cols=160  Identities=20%  Similarity=0.249  Sum_probs=151.3

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|++.++ .++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|++++|++++++.++
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEecCcEEEEEccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            7999999999999999999987 566777899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      ++++++++.+     .+|+++++||+|+|  ++||+||.+||.|++.+++++|+|+|+.+++++|++.|+++|| +||++
T Consensus        81 ~~l~~~~y~~-----~~p~~~~~ivaG~D--~~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~  153 (220)
T d1irui_          81 RMLKQMLFRY-----RGYIGAALVLGGVD--VTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKN  153 (220)
T ss_dssp             HHHHHHHHHT-----TTCSCEEEEEEEEC--SSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHT
T ss_pred             HHHHhhhhhc-----ccccceeEEEEEEe--CCCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHH
Confidence            9999998642     46999999999999  5789999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       154 l~~~al~~~  162 (220)
T d1irui_         154 LVSEAIAAG  162 (220)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999875

>d1rypi_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=3.3e-39  Score=256.02  Aligned_cols=160  Identities=20%  Similarity=0.204  Sum_probs=151.1

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|+|.+. .++.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|++.++.++++..++
T Consensus         1 TTiVgik~~dGVviaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a   80 (222)
T d1rypi_           1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCceeecCCcccEEEEcCCEEEEecccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHH
Confidence            7999999999999999999986 677778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~~  188 (199)
                      +++++.++.     ..+|++++++++|+|  ++||+||.+||+|++.+++++|+|+|+++++++||+.|+++|| +||++
T Consensus        81 ~~l~~~~~~-----~~~p~~~~~l~aG~d--~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~  153 (222)
T d1rypi_          81 QMLKQHLFK-----YQGHIGAYLIVAGVD--PTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIK  153 (222)
T ss_dssp             HHHHHHHHH-----TTTCSCEEEEEEEEE--TTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHh-----hhhccceeEEEEEEc--CCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHH
Confidence            999998753     247999999999999  5899999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHhhc
Q 029111          189 LAIRALLEV  197 (199)
Q Consensus       189 l~~~~l~~~  197 (199)
                      ++++||+.+
T Consensus       154 l~~~al~~a  162 (222)
T d1rypi_         154 LASDAIQAG  162 (222)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999865

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=6.7e-39  Score=250.74  Aligned_cols=165  Identities=20%  Similarity=0.283  Sum_probs=151.9

Q ss_pred             hcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHH
Q 029111           28 RKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVE  106 (199)
Q Consensus        28 ~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~  106 (199)
                      .||+|+|||+++||||||+|++.+. .+...++.+||+++ +|++++++|..+|++.+.++++.+++.|+++++++++++
T Consensus         6 ~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1rypj_           6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPE   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             cCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcch
Confidence            4799999999999999999999987 55667789999999 599999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeee-eEEEEcCCcHhHHHHHHhhccCCCc-H
Q 029111          107 YITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAW-KANATGRNSNSIREFLEKNYKETSG-Q  184 (199)
Q Consensus       107 ~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s-~  184 (199)
                      .++++|++.+|.+    ..+|++++++++|||+.++.|+||++||+|++.++ .++++|+|+.+++++||+.|+++|| +
T Consensus        85 ~la~~l~~~l~~~----~~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~  160 (204)
T d1rypj_          85 TFTQLVSSSLYER----RFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPE  160 (204)
T ss_dssp             HHHHHHHHHHHTT----TTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHH
T ss_pred             HHHHHHHHHHHhh----cccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccCCCHH
Confidence            9999999998643    35799999999999974566999999999999877 5888999999999999999999999 9


Q ss_pred             HHHHHHHHHHhhc
Q 029111          185 ETVKLAIRALLEV  197 (199)
Q Consensus       185 ea~~l~~~~l~~~  197 (199)
                      ||++++++||+.+
T Consensus       161 ea~~l~~~al~~a  173 (204)
T d1rypj_         161 DLFETISQALLNA  173 (204)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999875

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1e-38  Score=252.87  Aligned_cols=165  Identities=22%  Similarity=0.387  Sum_probs=150.7

Q ss_pred             hcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcC-CCCCH
Q 029111           28 RKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVE-DPVTV  105 (199)
Q Consensus        28 ~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~~~~  105 (199)
                      +||+|+|||+++||||||+|++.+. .++..++.+||++|++|++++++|..+|++.+.++++.+++.|++.++ ..+++
T Consensus         7 ~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   86 (222)
T d1ryp1_           7 DNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSI   86 (222)
T ss_dssp             CCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCH
T ss_pred             CCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCcH
Confidence            6899999999999999999999987 555677899999999999999999999999999999999999998776 56788


Q ss_pred             HHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhcc------
Q 029111          106 EYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK------  179 (199)
Q Consensus       106 ~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~------  179 (199)
                      ..++++++..++    ..+.|||+++++|+|+|+ +++|+||.+||+|++.+++++++|+|+++++++||+.|+      
T Consensus        87 ~~~~~~~~~~~~----~~~~~p~~~~~li~G~d~-~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~  161 (222)
T d1ryp1_          87 NSAARNIQHLLY----GKRFFPYYVHTIIAGLDE-DGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYE  161 (222)
T ss_dssp             HHHHHHHHHHHH----TTTTSCCCEEEEEEEECT-TSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBC
T ss_pred             HHHHHHHHHHHH----hhhhhhheeeeeEEEEeC-CCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhccccccC
Confidence            888887776664    346799999999999997 778999999999999999999999999999999999997      


Q ss_pred             -----------CCCc-HHHHHHHHHHHhhc
Q 029111          180 -----------ETSG-QETVKLAIRALLEV  197 (199)
Q Consensus       180 -----------~~~s-~ea~~l~~~~l~~~  197 (199)
                                 ++|| +||++++++||+.+
T Consensus       162 ~~~~~~~~~~~~~lt~~ea~~l~~~al~~a  191 (222)
T d1ryp1_         162 PGTNGKVKKPLKYLSVEEVIKLVRDSFTSA  191 (222)
T ss_dssp             TTSTTCSBCCCCCCCHHHHHHHHHHHHHHH
T ss_pred             cccchhhhcccccccHHHHHHHHHHHHHHH
Confidence                       6899 99999999999875

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4.4e-39  Score=254.33  Aligned_cols=169  Identities=18%  Similarity=0.200  Sum_probs=155.5

Q ss_pred             HHhcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhh-hcCCCC
Q 029111           26 AVRKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRL-TVEDPV  103 (199)
Q Consensus        26 av~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-~~~~~~  103 (199)
                      ++.+|+|+|||+++||||||+|+|.+. .++..++.+||++|++|++++++|..+|++.+.+.++.++..|+. .++.++
T Consensus         4 ~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   83 (217)
T d1iru2_           4 PMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSY   83 (217)
T ss_dssp             CCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCC
T ss_pred             CcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCCC
Confidence            567899999999999999999999875 677778899999999999999999999999999999999988775 567999


Q ss_pred             CHHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhcc--CC
Q 029111          104 TVEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK--ET  181 (199)
Q Consensus       104 ~~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~--~~  181 (199)
                      +++.+++++++.+  |+++...||+++++|++|+|  +++|+||.+||+|+..+++++|+|+|+.+++++||+.|+  ++
T Consensus        84 ~v~~~a~~l~~~~--y~~~~~~~p~~~~~li~G~d--~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~  159 (217)
T d1iru2_          84 SPRAIHSWLTRAM--YSRRSKMNPLWNTMVIGGYA--DGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPV  159 (217)
T ss_dssp             CHHHHHHHHHHHH--HHHHHTTCCCCEEEEEEEEE--TTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSC
T ss_pred             CHHHHHHHHHHHH--HHhccccCcccceEEEEEEc--CCCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcccCC
Confidence            9999999999987  56666789999999999999  689999999999999999999999999999999999765  89


Q ss_pred             Cc-HHHHHHHHHHHhhcc
Q 029111          182 SG-QETVKLAIRALLEVS  198 (199)
Q Consensus       182 ~s-~ea~~l~~~~l~~~~  198 (199)
                      || +||++++++||+.+.
T Consensus       160 lt~~ea~~l~~~al~~a~  177 (217)
T d1iru2_         160 LSQTEARDLVERCMRVLY  177 (217)
T ss_dssp             CCHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHH
Confidence            99 999999999999763

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=2.3e-37  Score=245.12  Aligned_cols=166  Identities=21%  Similarity=0.210  Sum_probs=152.3

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|++.++ .++..++.+||++|++|++++++|..+|++.+.+.++.+++.|+++++.+++++.++
T Consensus         1 TTivgi~~kdgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T d1q5qh_           1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (224)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeecCCcceEEEeCCcEEEEecccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHH
Confidence            7999999999999999999887 677778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeC----CCCCceEEEECCCCCeeee--eEEEEcCCcHhHHHHHHhhccCCCc
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDP----YTGVPSLYQTDPSGTFSAW--KANATGRNSNSIREFLEKNYKETSG  183 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~----~~~~p~Ly~vd~~G~~~~~--~~~a~G~g~~~~~~~Le~~~~~~~s  183 (199)
                      +++++.+|.+++. ..+|+++.++++|++.    .+++|+||.+||+|+..++  +++|+|+|+.+|+++||+.|+++||
T Consensus        81 ~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt  159 (224)
T d1q5qh_          81 NRLASMVRGNLGA-AMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSD  159 (224)
T ss_dssp             HHHHHHHHTTHHH-HTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHhhcc-cccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCC
Confidence            9999999988753 5778888888877762    1568999999999998665  7899999999999999999999999


Q ss_pred             -HHHHHHHHHHHhhc
Q 029111          184 -QETVKLAIRALLEV  197 (199)
Q Consensus       184 -~ea~~l~~~~l~~~  197 (199)
                       +||++++++||+.+
T Consensus       160 ~~ea~~l~~~al~~a  174 (224)
T d1q5qh_         160 EETALRAAIESLYDA  174 (224)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence             99999999999875

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=5.7e-37  Score=237.21  Aligned_cols=166  Identities=18%  Similarity=0.272  Sum_probs=155.1

Q ss_pred             CCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           30 GNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        30 g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      ++++|||+++||||||+|+|.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+..++.+++++.+
T Consensus         1 Mt~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (199)
T d1iruk_           1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAA   80 (199)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHH
T ss_pred             CeEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHH
Confidence            68999999999999999999986 45556788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      ++.++..++.+.+  ..+|++++++++|+|+ +++|+||.+||.|.+.+.+++++|+|+++++++|++.|+++|+ +||+
T Consensus        81 ~~~l~~~~~~~~~--~~~~~~~~~~~aG~d~-~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~  157 (199)
T d1iruk_          81 ANFTRRNLADCLR--SRTPYHVNLLLAGYDE-HEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAV  157 (199)
T ss_dssp             HHHHHHHHHHHHT--SSSCCCEEEEEEEEET-TTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHHHHhh--ccCCcceeeeecceec-cCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHH
Confidence            9999998876554  5689999999999997 7889999999999999999999999999999999999999999 9999


Q ss_pred             HHHHHHHhhcc
Q 029111          188 KLAIRALLEVS  198 (199)
Q Consensus       188 ~l~~~~l~~~~  198 (199)
                      +++++||+.+.
T Consensus       158 ~l~~~al~~~~  168 (199)
T d1iruk_         158 ELLRKCLEELQ  168 (199)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998763

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.3e-36  Score=238.41  Aligned_cols=166  Identities=16%  Similarity=0.295  Sum_probs=154.9

Q ss_pred             hcCCcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHH
Q 029111           28 RKGNAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVE  106 (199)
Q Consensus        28 ~~g~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~  106 (199)
                      .||+|+|||+++||||||+|++.+. .++..++.+||++|++|++++++|..+|++.+.++++.+++.|++.++.++++.
T Consensus         7 ~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   86 (213)
T d1iru1_           7 FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTG   86 (213)
T ss_dssp             CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             CCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhHH
Confidence            5899999999999999999999987 566677899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhcc-------
Q 029111          107 YITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-------  179 (199)
Q Consensus       107 ~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~-------  179 (199)
                      .++++++..+|.+.    .+|++++.+++|+|+ +++|.+|.+||.|++.+++++++|+|+.+++++||+.|+       
T Consensus        87 ~~~~~~~~~~~~~~----~~~~~~~~~~~g~d~-~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~  161 (213)
T d1iru1_          87 AIAAMLSTILYSRR----FFPYYVYNIIGGLDE-EGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNV  161 (213)
T ss_dssp             HHHHHHHHHHHTTT----TSCCCEEEEEEEECT-TSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSC
T ss_pred             HHHHHHHHHHHHHH----hhhcccccceEEEec-CCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhcc
Confidence            99999999997653    569999999999998 889999999999999999999999999999999998775       


Q ss_pred             --CCCc-HHHHHHHHHHHhhcc
Q 029111          180 --ETSG-QETVKLAIRALLEVS  198 (199)
Q Consensus       180 --~~~s-~ea~~l~~~~l~~~~  198 (199)
                        ++|| +||++++++||+.+.
T Consensus       162 ~~~~~s~~ea~~~~~~~l~~~~  183 (213)
T d1iru1_         162 EHVPLSLDRAMRLVKDVFISAA  183 (213)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHH
T ss_pred             cccCCCHHHHHHHHHHHHHHHH
Confidence              6899 999999999998753

>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=99.91  E-value=3.4e-24  Score=163.43  Aligned_cols=157  Identities=12%  Similarity=-0.007  Sum_probs=113.0

Q ss_pred             hcCCcEEEEEeCCEEEEEEeccCcc-cccc-cccccceEEecCC-EEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCC
Q 029111           28 RKGNAAVGVRGTDIVVLGVEKKSAV-KLQD-SRMVRKIVSLDNH-IALACAGLKADARVLVNRARIECQSHRLTVEDPVT  104 (199)
Q Consensus        28 ~~g~t~vgi~~~dgVvla~d~~~~~-~l~~-~~~~~ki~~i~~~-i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~  104 (199)
                      -+|||+|||+++||||||+|+|++. +++. ....+|++.++++ ++++.+|...|.+.+.+..+.+.+.++......  
T Consensus         3 ~~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~--   80 (180)
T d2z3ba1           3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRA--   80 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCHHHH--
T ss_pred             CCCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhccccchh--
Confidence            3799999999999999999999986 4444 4457889999775 788889999999999888877776554322111  


Q ss_pred             HHHHHHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-
Q 029111          105 VEYITRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-  183 (199)
Q Consensus       105 ~~~la~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-  183 (199)
                         +.............+....++......+|++  ..++.++..++.|      +.++|+|+.+|++.|++.|+++|+ 
T Consensus        81 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~------~~a~GSGs~~A~g~l~~~~~~~~s~  149 (180)
T d2z3ba1          81 ---AVELAKEWRSDKVLRKLEAMLIVMNQDTLLL--VSGTGEVIEPDDG------ILAIGSGGNYALAAGRALKKHAGES  149 (180)
T ss_dssp             ---HHHHHHHHHHCTTGGGCCCCEEEECSSCEEE--ECTTCCEECCSSS------EEEESTTHHHHHHHHHHHHHHHGGG
T ss_pred             ---HHHHHHHHhHHHHHHHhhcceeeeecccccc--ccCCceeeccccc------EEEEcCchHHHHHHHHHHhhcCCCc
Confidence               1111112221111222333455555555665  3556666665554      889999999999999999999999 


Q ss_pred             HHHHHHHHHHHhhc
Q 029111          184 QETVKLAIRALLEV  197 (199)
Q Consensus       184 ~ea~~l~~~~l~~~  197 (199)
                      +||++++++||+.|
T Consensus       150 ~eA~~l~~~Al~~A  163 (180)
T d2z3ba1         150 MSASEIARAALETA  163 (180)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHH
Confidence            99999999999854

>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=99.89  E-value=8.6e-24  Score=159.67  Aligned_cols=152  Identities=11%  Similarity=-0.055  Sum_probs=114.4

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEEEeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALACAGLKADARVLVNRARIECQSHRLTVEDPVTVEYIT  109 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la  109 (199)
                      ||+|||+++||||||+|+|++. .++.+++.+|+++|+++++++.+|..+|.+.+......+...+....     .....
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~~~-----~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhhcc-----chhhH
Confidence            7999999999999999999987 77888999999999999999999999999988777665554443221     11222


Q ss_pred             HHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhcc-CCCcHHHHH
Q 029111          110 RYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYK-ETSGQETVK  188 (199)
Q Consensus       110 ~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~-~~~s~ea~~  188 (199)
                      ...+..+...     ..++....++.+.+  +++|.++..|+.|.....++.|+|+|+.+|++.|+..|+ ++++  |++
T Consensus        76 ~~~~~~~~~~-----~~~~~~~~~~~~~~--~~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~--a~e  146 (171)
T d1m4ya_          76 VELAKDWRTD-----RVLRRLEALLLVAD--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS--ARE  146 (171)
T ss_dssp             HHHHHHHHHC-----TTGGGCCCEEEEEC--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC--HHH
T ss_pred             HHHHHHHHHh-----hhhcccccccceec--CCcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCCC--HHH
Confidence            2222222211     11233334444555  689999999999999999999999999999999998765 5676  555


Q ss_pred             HHHHHHhh
Q 029111          189 LAIRALLE  196 (199)
Q Consensus       189 l~~~~l~~  196 (199)
                      ++++||+.
T Consensus       147 l~~~Ai~~  154 (171)
T d1m4ya_         147 IVEKAMTI  154 (171)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            67777764

>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=99.87  E-value=6.7e-22  Score=149.49  Aligned_cols=153  Identities=16%  Similarity=0.020  Sum_probs=107.6

Q ss_pred             CcEEEEEeCCEEEEEEeccCcc-cccccccccceEEecCCEEEE-EeecHhhHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 029111           31 NAAVGVRGTDIVVLGVEKKSAV-KLQDSRMVRKIVSLDNHIALA-CAGLKADARVLVNRARIECQSHRLTVEDPVTVEYI  108 (199)
Q Consensus        31 ~t~vgi~~~dgVvla~d~~~~~-~l~~~~~~~ki~~i~~~i~~~-~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l  108 (199)
                      ||+|||+++||||||+|+|++. .++.+++.+||++|+++++++ .+|...+.+.+.+..+.+.+.+      .......
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMH------QGHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHT------TTCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHhh------cCcchhH
Confidence            6999999999999999999987 778889999999998875554 5555444444443333222222      1122233


Q ss_pred             HHHHHHHHHHhcccCCCcccccceeeeeeeCCCCCceEEEECCCCCeeeeeEEEEcCCcHhHHHHHHhhccCCCc-HHHH
Q 029111          109 TRYIAGLQQKYTQSGGVRPFGLSTLIVGFDPYTGVPSLYQTDPSGTFSAWKANATGRNSNSIREFLEKNYKETSG-QETV  187 (199)
Q Consensus       109 a~~ls~~~~~~~~~~~~rp~~~~~iv~G~d~~~~~p~Ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s-~ea~  187 (199)
                      +..+...+...    ...+.... .+.+.+. ++++.++..|+.|...+.++.++|+|+.+|++.|+.+|+  ++ +||.
T Consensus        75 ~~~~~~~~~~~----~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~  146 (173)
T d1g3ka_          75 AVELAKDWRTD----RALRKLEA-MLIVADE-KESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAH  146 (173)
T ss_dssp             HHHHHHHHHHS----TTGGGCCC-EEEEECS-SCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHH
T ss_pred             HHHHHHHHHHh----hhhccccc-ccccccC-CCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHH
Confidence            33333333211    22333343 4445554 789999999999999999999999999999999998885  45 6788


Q ss_pred             HHHHHHHhhc
Q 029111          188 KLAIRALLEV  197 (199)
Q Consensus       188 ~l~~~~l~~~  197 (199)
                      +++++||+.|
T Consensus       147 ela~~Ai~~A  156 (173)
T d1g3ka_         147 EIVEKSLRIA  156 (173)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8999998744

>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=82.90  E-value=0.58  Score=25.91  Aligned_cols=33  Identities=18%  Similarity=0.277  Sum_probs=27.9

Q ss_pred             EEcCCcHhHHHHHHhhccCCCc-HHHHHHHHHHH
Q 029111          162 ATGRNSNSIREFLEKNYKETSG-QETVKLAIRAL  194 (199)
Q Consensus       162 a~G~g~~~~~~~Le~~~~~~~s-~ea~~l~~~~l  194 (199)
                      +.|.....+...+.+...+++| |+.|+.+.+++
T Consensus        14 ~LGY~~~ea~~av~~i~~~~~s~E~lIk~ALk~m   47 (48)
T d1cuka1          14 ALGYKPQEASRMVSKIARPDASSETLIREALRAA   47 (48)
T ss_dssp             HHTCCHHHHHHHHHHSCCSSCCHHHHHHHHHHTT
T ss_pred             HcCCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            3588889999999999999999 98888877754