Citrus Sinensis ID: 042723

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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-------200-------210-------220-------230-------240-------250-------260--
Protein Sequence
MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINRPMSIRRKSSLKILPWLQRCFFSSLHCKCTSLFVC
Secondary Structure (PSIPRED)
cccccccccccccEEcccccHHHHHHHHHHHHccccEEEEEcccccccccccccccccEEEEcccEEEEEEcccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccccccEEEEEEEEEccccEEEEEccccccccccEEEEccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccEEEEEEEcccEEEccHHHHHHHHHccHHHHHccccccccHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHccccccccccccccHHHHHHHHHHHHcccEEEEEEEcccccccEcHHHcccEEEEEccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccEccccccEcccccEEEEEEEEcccEEEEEEEcccccEEEEcEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccccccccEEEEEEccccEEccHHHHHHHHHHHHHccccccccccHHHHHHHHHcccccccEEEEc
Coil and Loop (DISEMBL)
mfftrteydrgvntfspegrlFQVEYAIEAIKLGSTAiglktkkritspllepssveKIKEIDEHIGCAMSGLIADARTLVEHARVEtqnhrfsygepmtvesTTQALCDLVLRfgegdeesmsrpfGVSLLIagsdengpslyytdpsgtfwqcnakaigsgsegadsslQEQYNKDLTLQEAETIALSILKQVMeekvtpnnvdiarvaptyhlytpseveavinrpmsirrksslkilpwlqrcffsslhckctslfvc
Flexible Loop (DISEMBL)
mfftrteydrgvntfspegrlFQVEYAIEAIKLgstaiglktkkritspllepssveKIKEIDEHIGCAMSGLIADARTLVEHARVETQnhrfsygepmtveSTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVaptyhlytpseveavinrpmsirrKSSLKILPWLQRCFFSSLHCKCTSLFVC
Low Complexity Region (SEG)
MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINRPMSIRRKSSLKILPWLQRCFFSSLHCKCTSLFVC
Disordered region (IsUnstruct)
********DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLL****VEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE*********FGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAI******************LTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINRPMSIRRKSSLKILPWLQRCFFSSLHCKCTSLFV*
Disordered Region (DISOPRED)
*****TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVI********************CFFSSLHCKCTSLFVC
Disordered Region (DISEMBL)
MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIG***********EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINRPMSIRRKSSLKILPWLQRCFFSSLHCKCTSLFVC
Disordered Region (DISPRO)
*****TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINRPMSIRRKSSLKILPWLQRCFFSSLHCKCTSLFVC
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINRPMSIRRKSSLKILPWLQRCFFSSLHCKCTSLFVC
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	262	2.2.26 [Sep-21-2011]
Q9M4T8	237	Proteasome subunit alpha	yes	no	0.870	0.962	0.932	1e-126
Q9LSU1	237	Proteasome subunit alpha	yes	no	0.870	0.962	0.915	1e-124
Q42134	237	Proteasome subunit alpha	yes	no	0.870	0.962	0.906	1e-123
O81149	237	Proteasome subunit alpha	yes	no	0.870	0.962	0.906	1e-123
Q9Z2U1	241	Proteasome subunit alpha	yes	no	0.862	0.937	0.663	2e-86
P28066	241	Proteasome subunit alpha	yes	no	0.862	0.937	0.663	2e-86
Q5E987	241	Proteasome subunit alpha	yes	no	0.862	0.937	0.663	2e-86
Q9UT97	247	Probable proteasome subun	yes	no	0.870	0.923	0.634	2e-85
P34064	241	Proteasome subunit alpha	yes	no	0.862	0.937	0.655	1e-84
Q55G04	241	Proteasome subunit alpha	yes	no	0.866	0.941	0.621	6e-83

>sp|Q9M4T8|PSA5_SOYBN Proteasome subunit alpha type-5 OS=Glycine max GN=PAE1 PE=2 SV=1

 Score =  451 bits (1159), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 220/236 (93%), Positives = 223/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCN KAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNGKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+NKDLTLQEAETIALSILKQVMEEKVTPNNVDIA+VAPTYHLYTPSEVEAVI+R
Sbjct: 181 EQFNKDLTLQEAETIALSILKQVMEEKVTPNNVDIAKVAPTYHLYTPSEVEAVISR 236

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity.
Glycine max (taxid: 3847)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|Q9LSU1|PSA5_ORYSJ Proteasome subunit alpha type-5 OS=Oryza sativa subsp. japonica GN=PAE1 PE=2 SV=1

 Score =  446 bits (1146), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 216/236 (91%), Positives = 222/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KR+TSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKDGVVLAVEKRVTSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQA+CDL 
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQAICDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQYNK+LTLQEAETIALSILKQVMEEKVTPNNVDIA+V+P YHLYTP+EVEAVI R
Sbjct: 181 EQYNKELTLQEAETIALSILKQVMEEKVTPNNVDIAKVSPNYHLYTPAEVEAVIAR 236

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|Q42134|PSA5B_ARATH Proteasome subunit alpha type-5-B OS=Arabidopsis thaliana GN=PAE2 PE=1 SV=2

 Score =  442 bits (1138), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 214/236 (90%), Positives = 222/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+KTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EID+HIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEG+EESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGEEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+NKD+TLQEAETIA+SILKQVMEEKVTPNNVDIA+VAP YHLYTP EVEAVI+R
Sbjct: 181 EQFNKDITLQEAETIAVSILKQVMEEKVTPNNVDIAKVAPAYHLYTPQEVEAVISR 236

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|O81149|PSA5A_ARATH Proteasome subunit alpha type-5-A OS=Arabidopsis thaliana GN=PAE1 PE=1 SV=1

 Score =  441 bits (1135), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 214/236 (90%), Positives = 221/236 (93%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+KTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EID+HIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEG+EESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGEEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+NKDL+LQEAETIA+SILKQVMEEKVTPNNVDIA+VAP YHLYTP EVEAVI R
Sbjct: 181 EQFNKDLSLQEAETIAVSILKQVMEEKVTPNNVDIAKVAPAYHLYTPQEVEAVIAR 236

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|Q9Z2U1|PSA5_MOUSE Proteasome subunit alpha type-5 OS=Mus musculus GN=Psma5 PE=1 SV=1

 Score =  319 bits (817), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 158/238 (66%), Positives = 190/238 (79%), Gaps = 12/238 (5%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
           MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
           LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct: 181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P28066|PSA5_HUMAN Proteasome subunit alpha type-5 OS=Homo sapiens GN=PSMA5 PE=1 SV=3

 Score =  319 bits (817), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 158/238 (66%), Positives = 190/238 (79%), Gaps = 12/238 (5%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
           MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
           LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct: 181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q5E987|PSA5_BOVIN Proteasome subunit alpha type-5 OS=Bos taurus GN=PSMA5 PE=1 SV=1

 Score =  319 bits (817), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 158/238 (66%), Positives = 190/238 (79%), Gaps = 12/238 (5%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
           MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
           LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct: 181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9UT97|PSA5_SCHPO Probable proteasome subunit alpha type-5 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pup2 PE=1 SV=1

 Score =  315 bits (808), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 153/241 (63%), Positives = 191/241 (79%), Gaps = 13/241 (5%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+KTK        KR+TSPL+E
Sbjct: 1   MFMTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKDAVVLGVEKRLTSPLME 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             SVEK+ EID HIGCA+SGL ADART++EHARV+TQNHRF+Y EP  +ESTTQ++CDL 
Sbjct: 61  SHSVEKLFEIDSHIGCAISGLTADARTIIEHARVQTQNHRFTYDEPQGIESTTQSICDLA 120

Query: 113 LRFGE---GDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADS 169
           LRFGE   G+E  MSRPFGV+LLIAG DE+GP LY+++PSGT+++  AKAIGSGSE A S
Sbjct: 121 LRFGEGEDGEERIMSRPFGVALLIAGIDEHGPQLYHSEPSGTYFRYEAKAIGSGSEPAKS 180

Query: 170 SLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVIN 227
            L ++++KD+TL+EAE + L +L+QVMEEK+   NV +A+V     +H+Y   E+   + 
Sbjct: 181 ELVKEFHKDMTLEEAEVLILKVLRQVMEEKLDSKNVQLAKVTAEGGFHIYNDEEMADAVA 240

Query: 228 R 228
           R
Sbjct: 241 R 241

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

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P34064|PSA5_RAT Proteasome subunit alpha type-5 OS=Rattus norvegicus GN=Psma5 PE=2 SV=1

 Score =  312 bits (800), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 156/238 (65%), Positives = 187/238 (78%), Gaps = 12/238 (5%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
           MF TR+EYDRGVNTFSPEGRLFQVEYAIE  KLGSTAIG++T        +KRITSPL+E
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEGHKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
           LQE Y+K  TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct: 181 LQEVYHKSTTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q55G04|PSA5_DICDI Proteasome subunit alpha type-5 OS=Dictyostelium discoideum GN=psmA5 PE=3 SV=1

 Score =  307 bits (786), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 148/238 (62%), Positives = 185/238 (77%), Gaps = 11/238 (4%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLG-----STAIGLKTKKRITSPLLEPSS 55
           MF TR+EYDRGVNTFSPEGRLFQVEYA+EAIKLG        + L  +KR+TSPLLEPSS
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYALEAIKLGIGVQCEEGVVLAVEKRLTSPLLEPSS 60

Query: 56  VEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRF 115
           ++K+ EID H+ CA+SGL+ADART+++HAR+ETQNHRF+Y EPM VES  Q++CDL LRF
Sbjct: 61  IQKVVEIDYHLICALSGLVADARTIIDHARIETQNHRFNYNEPMGVESCVQSICDLALRF 120

Query: 116 GEG---DEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           GE     EE MSRPFGV+LLIAG DE GPSLYY+DPSGTF Q +AKAIG+GSEGA ++LQ
Sbjct: 121 GENRNSGEERMSRPFGVALLIAGIDEKGPSLYYSDPSGTFTQFHAKAIGAGSEGAQTTLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT---YHLYTPSEVEAVIN 227
           E+Y+K LT+ E + +AL+ LKQVMEE +T  NV++A +      + +Y   E+  VI 
Sbjct: 181 EKYSKTLTIAECQKLALTTLKQVMEEAITTTNVELAVITKADQKFKIYNKEELATVIQ 238

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

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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	262
359806124	237	uncharacterized protein LOC100799919 [Gl	0.870	0.962	0.936	1e-125
388510594	237	unknown [Medicago truncatula] gi|3885215	0.870	0.962	0.932	1e-124
351721357	237	proteasome subunit alpha type-5 [Glycine	0.870	0.962	0.932	1e-124
225441985	237	PREDICTED: proteasome subunit alpha type	0.870	0.962	0.927	1e-124
297742930	293	unnamed protein product [Vitis vinifera]	0.870	0.778	0.927	1e-124
351726355	237	uncharacterized protein LOC100499756 [Gl	0.870	0.962	0.936	1e-124
255647525	237	unknown [Glycine max]	0.870	0.962	0.932	1e-124
388491684	237	unknown [Lotus japonicus]	0.870	0.962	0.923	1e-123
255584432	237	proteasome subunit alpha type, putative	0.870	0.962	0.919	1e-123
217071540	237	unknown [Medicago truncatula]	0.870	0.962	0.923	1e-123

>gi|359806124|ref|NP_001241191.1| uncharacterized protein LOC100799919 [Glycine max] gi|255641541|gb|ACU21044.1| unknown [Glycine max]

 Score =  452 bits (1163), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 221/236 (93%), Positives = 223/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCN KAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNGKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIA+VAPTYHLYTPSEVEAVI+R
Sbjct: 181 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIAKVAPTYHLYTPSEVEAVISR 236

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388510594|gb|AFK43363.1| unknown [Medicago truncatula] gi|388521531|gb|AFK48827.1| unknown [Medicago truncatula]

 Score =  451 bits (1159), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 220/236 (93%), Positives = 223/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EID+HIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+NKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP YHLYTPSEVEAVI+R
Sbjct: 181 EQFNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPAYHLYTPSEVEAVISR 236

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721357|ref|NP_001235159.1| proteasome subunit alpha type-5 [Glycine max] gi|12229923|sp|Q9M4T8.1|PSA5_SOYBN RecName: Full=Proteasome subunit alpha type-5; AltName: Full=20S proteasome alpha subunit E; AltName: Full=20S proteasome subunit alpha-5 gi|7839485|gb|AAF70292.1|AF255338_1 20S proteasome subunit [Glycine max]

 Score =  451 bits (1159), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 220/236 (93%), Positives = 223/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCN KAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNGKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+NKDLTLQEAETIALSILKQVMEEKVTPNNVDIA+VAPTYHLYTPSEVEAVI+R
Sbjct: 181 EQFNKDLTLQEAETIALSILKQVMEEKVTPNNVDIAKVAPTYHLYTPSEVEAVISR 236

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225441985|ref|XP_002265563.1| PREDICTED: proteasome subunit alpha type-5 isoform 1 [Vitis vinifera] gi|359482854|ref|XP_003632854.1| PREDICTED: proteasome subunit alpha type-5 [Vitis vinifera] gi|147791356|emb|CAN66160.1| hypothetical protein VITISV_007438 [Vitis vinifera]

 Score =  450 bits (1157), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 219/236 (92%), Positives = 224/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+N+DLTLQEAETIALSILKQVMEEKVTPNNVDIA+VAPTYHLYTP+EVEAVI+R
Sbjct: 181 EQFNQDLTLQEAETIALSILKQVMEEKVTPNNVDIAKVAPTYHLYTPAEVEAVISR 236

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742930|emb|CBI35797.3| unnamed protein product [Vitis vinifera]

 Score =  450 bits (1157), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 219/236 (92%), Positives = 224/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 57  MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 116

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 117 PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 176

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 177 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 236

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+N+DLTLQEAETIALSILKQVMEEKVTPNNVDIA+VAPTYHLYTP+EVEAVI+R
Sbjct: 237 EQFNQDLTLQEAETIALSILKQVMEEKVTPNNVDIAKVAPTYHLYTPAEVEAVISR 292

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726355|ref|NP_001235588.1| uncharacterized protein LOC100499756 [Glycine max] gi|255626321|gb|ACU13505.1| unknown [Glycine max]

 Score =  449 bits (1156), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 221/236 (93%), Positives = 223/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+NKDLTLQEAETIALSILKQVMEEKVTPNNVDIA+VAPTYHLYTPSEVEAVI R
Sbjct: 181 EQFNKDLTLQEAETIALSILKQVMEEKVTPNNVDIAKVAPTYHLYTPSEVEAVICR 236

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255647525|gb|ACU24226.1| unknown [Glycine max]

 Score =  449 bits (1156), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 220/236 (93%), Positives = 222/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTV STTQALCDL 
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVGSTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCN KAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNGKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIA+VAPTYHLYTPSEVEAVI+R
Sbjct: 181 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIAKVAPTYHLYTPSEVEAVISR 236

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388491684|gb|AFK33908.1| unknown [Lotus japonicus]

 Score =  447 bits (1151), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 218/236 (92%), Positives = 223/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EID HIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDAHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQYNK+LTLQEAETIALSILKQVMEEKVTPNNVDIA+V+PTYHLYTP+EVEAVI+R
Sbjct: 181 EQYNKELTLQEAETIALSILKQVMEEKVTPNNVDIAKVSPTYHLYTPAEVEAVISR 236

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255584432|ref|XP_002532947.1| proteasome subunit alpha type, putative [Ricinus communis] gi|223527276|gb|EEF29431.1| proteasome subunit alpha type, putative [Ricinus communis]

 Score =  446 bits (1146), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 217/236 (91%), Positives = 222/236 (94%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEK+ EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKVMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDE+SMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEDSMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQYNKD+TL EAETIALSILKQVMEEKVTPNNVDIARVA TYHLYTP+EVEAVI+R
Sbjct: 181 EQYNKDITLLEAETIALSILKQVMEEKVTPNNVDIARVAKTYHLYTPAEVEAVISR 236

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217071540|gb|ACJ84130.1| unknown [Medicago truncatula]

 Score =  446 bits (1146), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 218/236 (92%), Positives = 221/236 (93%), Gaps = 8/236 (3%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK        KRITSPLLE
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSSVEKI EID+HIGCAMSGLI DARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct: 61  PSSVEKIMEIDDHIGCAMSGLITDARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
           LRFGEGDEESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct: 121 LRFGEGDEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
           EQ+NKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP YHLYTP EVEAVI+R
Sbjct: 181 EQFNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPAYHLYTPFEVEAVISR 236

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	262
TAIR|locus:2091065	237	PAE2 "20S proteasome alpha sub	0.870	0.962	0.906	1e-109
TAIR|locus:2197071	237	PAE1 "20S proteasome alpha sub	0.870	0.962	0.906	3.4e-109
ZFIN|ZDB-GENE-040625-96	241	psma5 "proteasome (prosome, ma	0.862	0.937	0.672	1.8e-78
UNIPROTKB|Q5E987	241	PSMA5 "Proteasome subunit alph	0.862	0.937	0.663	4.3e-77
UNIPROTKB|P28066	241	PSMA5 "Proteasome subunit alph	0.862	0.937	0.663	4.3e-77
UNIPROTKB|F2Z5K2	241	PSMA5 "Proteasome subunit alph	0.862	0.937	0.663	4.3e-77
MGI|MGI:1347009	241	Psma5 "proteasome (prosome, ma	0.862	0.937	0.663	4.3e-77
UNIPROTKB|Q6P9V6	241	Psma5 "Proteasome subunit alph	0.862	0.937	0.663	4.3e-77
POMBASE|SPAC323.02c	247	pup2 "20S proteasome complex s	0.870	0.923	0.634	5.5e-77
RGD|61848	241	Psma5 "proteasome (prosome, ma	0.862	0.937	0.655	1.3e-75

TAIR|locus:2091065 PAE2 "20S proteasome alpha subunit E2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1084 (386.6 bits), Expect = 1.0e-109, P = 1.0e-109
 Identities = 214/236 (90%), Positives = 222/236 (94%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
             MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+KTK        KRITSPLLE
Sbjct:     1 MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLLE 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSSVEKI EID+HIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct:    61 PSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query:   113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
             LRFGEG+EESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct:   121 LRFGEGEEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query:   173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
             EQ+NKD+TLQEAETIA+SILKQVMEEKVTPNNVDIA+VAP YHLYTP EVEAVI+R
Sbjct:   181 EQFNKDITLQEAETIAVSILKQVMEEKVTPNNVDIAKVAPAYHLYTPQEVEAVISR 236

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=ISM

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

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0000502 "proteasome complex" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0004540 "ribonuclease activity" evidence=IDA

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

GO:0009853 "photorespiration" evidence=RCA

TAIR|locus:2197071 PAE1 "20S proteasome alpha subunit E1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1079 (384.9 bits), Expect = 3.4e-109, P = 3.4e-109
 Identities = 214/236 (90%), Positives = 221/236 (93%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
             MF TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+KTK        KRITSPLLE
Sbjct:     1 MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLLE 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSSVEKI EID+HIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL 
Sbjct:    61 PSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query:   113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
             LRFGEG+EESMSRPFGVSLLIAG DENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ
Sbjct:   121 LRFGEGEEESMSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 180

Query:   173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPTYHLYTPSEVEAVINR 228
             EQ+NKDL+LQEAETIA+SILKQVMEEKVTPNNVDIA+VAP YHLYTP EVEAVI R
Sbjct:   181 EQFNKDLSLQEAETIAVSILKQVMEEKVTPNNVDIAKVAPAYHLYTPQEVEAVIAR 236

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=ISM;IDA

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

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0022626 "cytosolic ribosome" evidence=IDA

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

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0000502 "proteasome complex" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0004540 "ribonuclease activity" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0006096 "glycolysis" evidence=RCA

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

GO:0009640 "photomorphogenesis" evidence=RCA

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

GO:0010388 "cullin deneddylation" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

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

ZFIN|ZDB-GENE-040625-96 psma5 "proteasome (prosome, macropain) subunit, alpha type,5" [Danio rerio (taxid:7955)]

 Score = 789 (282.8 bits), Expect = 1.8e-78, P = 1.8e-78
 Identities = 160/238 (67%), Positives = 192/238 (80%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
             MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct:    61 PSSIEKIVEIDSHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
             L+FGE D +  +MSRPFGV+LL  G DE GP LY+ DPSGTF QC+A+AIGS SEGA SS
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLYHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
             LQE Y+K +TL++A   +L+ILKQVMEEK+   N+++A V P  T+H+YT  E+E VI
Sbjct:   181 LQEVYHKSMTLKDAIKSSLTILKQVMEEKLNATNIELATVEPGKTFHMYTKEELEDVI 238

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

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

UNIPROTKB|Q5E987 PSMA5 "Proteasome subunit alpha type-5" [Bos taurus (taxid:9913)]

 Score = 776 (278.2 bits), Expect = 4.3e-77, P = 4.3e-77
 Identities = 158/238 (66%), Positives = 190/238 (79%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
             MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
             L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
             LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

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

UNIPROTKB|P28066 PSMA5 "Proteasome subunit alpha type-5" [Homo sapiens (taxid:9606)]

 Score = 776 (278.2 bits), Expect = 4.3e-77, P = 4.3e-77
 Identities = 158/238 (66%), Positives = 190/238 (79%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
             MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
             L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
             LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

GO:0004298 "threonine-type endopeptidase activity" 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:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F2Z5K2 PSMA5 "Proteasome subunit alpha type" [Sus scrofa (taxid:9823)]

 Score = 776 (278.2 bits), Expect = 4.3e-77, P = 4.3e-77
 Identities = 158/238 (66%), Positives = 190/238 (79%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
             MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
             L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
             LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

MGI|MGI:1347009 Psma5 "proteasome (prosome, macropain) subunit, alpha type 5" [Mus musculus (taxid:10090)]

 Score = 776 (278.2 bits), Expect = 4.3e-77, P = 4.3e-77
 Identities = 158/238 (66%), Positives = 190/238 (79%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
             MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
             L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
             LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

GO:0000502 "proteasome complex" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IDA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

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

UNIPROTKB|Q6P9V6 Psma5 "Proteasome subunit alpha type" [Rattus norvegicus (taxid:10116)]

 Score = 776 (278.2 bits), Expect = 4.3e-77, P = 4.3e-77
 Identities = 158/238 (66%), Positives = 190/238 (79%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
             MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
             L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
             LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

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

POMBASE|SPAC323.02c pup2 "20S proteasome complex subunit alpha 5, Pup2 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 775 (277.9 bits), Expect = 5.5e-77, P = 5.5e-77
 Identities = 153/241 (63%), Positives = 191/241 (79%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
             MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+KTK        KR+TSPL+E
Sbjct:     1 MFMTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKDAVVLGVEKRLTSPLME 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
               SVEK+ EID HIGCA+SGL ADART++EHARV+TQNHRF+Y EP  +ESTTQ++CDL 
Sbjct:    61 SHSVEKLFEIDSHIGCAISGLTADARTIIEHARVQTQNHRFTYDEPQGIESTTQSICDLA 120

Query:   113 LRFGEGD---EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADS 169
             LRFGEG+   E  MSRPFGV+LLIAG DE+GP LY+++PSGT+++  AKAIGSGSE A S
Sbjct:   121 LRFGEGEDGEERIMSRPFGVALLIAGIDEHGPQLYHSEPSGTYFRYEAKAIGSGSEPAKS 180

Query:   170 SLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVIN 227
              L ++++KD+TL+EAE + L +L+QVMEEK+   NV +A+V     +H+Y   E+   + 
Sbjct:   181 ELVKEFHKDMTLEEAEVLILKVLRQVMEEKLDSKNVQLAKVTAEGGFHIYNDEEMADAVA 240

Query:   228 R 228
             R
Sbjct:   241 R 241

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

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

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

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

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

GO:0004175 "endopeptidase activity" evidence=ISO

RGD|61848 Psma5 "proteasome (prosome, macropain) subunit, alpha type 5" [Rattus norvegicus (taxid:10116)]

 Score = 762 (273.3 bits), Expect = 1.3e-75, P = 1.3e-75
 Identities = 156/238 (65%), Positives = 187/238 (78%)

Query:     1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
             MF TR+EYDRGVNTFSPEGRLFQVEYAIE  KLGSTAIG++T        +KRITSPL+E
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEGHKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    53 PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
             L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
             LQE Y+K  TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct:   181 LQEVYHKSTTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

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

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

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

GO:0005730 "nucleolus" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q55G04	PSA5_DICDI	3, ., 4, ., 2, 5, ., 1	0.6218	0.8664	0.9419	yes	no
A6VIP0	PSA_METM7	3, ., 4, ., 2, 5, ., 1	0.4285	0.8244	0.8339	yes	no
A6URN9	PSA_METVS	3, ., 4, ., 2, 5, ., 1	0.4353	0.8282	0.8378	yes	no
P28066	PSA5_HUMAN	3, ., 4, ., 2, 5, ., 1	0.6638	0.8625	0.9377	yes	no
A4FZT6	PSA_METM5	3, ., 4, ., 2, 5, ., 1	0.4329	0.8244	0.8339	yes	no
Q42134	PSA5B_ARATH	3, ., 4, ., 2, 5, ., 1	0.9067	0.8702	0.9620	yes	no
O29760	PSA_ARCFU	3, ., 4, ., 2, 5, ., 1	0.4184	0.8549	0.9105	yes	no
Q95008	PSA5_CAEEL	3, ., 4, ., 2, 5, ., 1	0.5585	0.8129	0.8588	yes	no
P34064	PSA5_RAT	3, ., 4, ., 2, 5, ., 1	0.6554	0.8625	0.9377	yes	no
P32379	PSA5_YEAST	3, ., 4, ., 2, 5, ., 1	0.6227	0.7938	0.8	yes	no
Q97BZ8	PSA_THEVO	3, ., 4, ., 2, 5, ., 1	0.4026	0.8129	0.9141	yes	no
A5UJS2	PSA_METS3	3, ., 4, ., 2, 5, ., 1	0.4513	0.8206	0.86	yes	no
A9A846	PSA_METM6	3, ., 4, ., 2, 5, ., 1	0.4199	0.8244	0.8339	yes	no
Q94561	PSA5_ENTHI	3, ., 4, ., 2, 5, ., 1	0.6272	0.8015	0.8502	N/A	no
Q8PTU1	PSA_METMA	3, ., 4, ., 2, 5, ., 1	0.4059	0.8396	0.8835	yes	no
Q9UT97	PSA5_SCHPO	3, ., 4, ., 2, 5, ., 1	0.6348	0.8702	0.9230	yes	no
Q469M6	PSA_METBF	3, ., 4, ., 2, 5, ., 1	0.3991	0.8740	0.9196	yes	no
O81149	PSA5A_ARATH	3, ., 4, ., 2, 5, ., 1	0.9067	0.8702	0.9620	yes	no
B8GEZ3	PSA_METPE	3, ., 4, ., 2, 5, ., 1	0.4170	0.8206	0.8921	yes	no
Q5E987	PSA5_BOVIN	3, ., 4, ., 2, 5, ., 1	0.6638	0.8625	0.9377	yes	no
Q5V2X8	PSA1_HALMA	3, ., 4, ., 2, 5, ., 1	0.4078	0.8167	0.8230	yes	no
Q9LSU1	PSA5_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.9152	0.8702	0.9620	yes	no
Q9M4T8	PSA5_SOYBN	3, ., 4, ., 2, 5, ., 1	0.9322	0.8702	0.9620	yes	no
Q8TPX5	PSA_METAC	3, ., 4, ., 2, 5, ., 1	0.4181	0.8320	0.8825	yes	no
Q9XZG5	PSA5_TRYBB	3, ., 4, ., 2, 5, ., 1	0.5643	0.8702	0.9268	N/A	no
Q95083	PSA5_DROME	3, ., 4, ., 2, 5, ., 1	0.5916	0.8625	0.9262	yes	no
Q6M0L9	PSA_METMP	3, ., 4, ., 2, 5, ., 1	0.4242	0.8244	0.8339	yes	no
Q9Z2U1	PSA5_MOUSE	3, ., 4, ., 2, 5, ., 1	0.6638	0.8625	0.9377	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	0.994
3rd Layer	3.4.25	0.998

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00033998001	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) (322 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00024499001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (245 aa)			•	•	•	•	•		0.944
	GSVIVG00015420001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (191 aa)			•	•	•	•	•		0.932
	GSVIVG00014791001	SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_1, whole genome shotg [...] (309 aa)				•	•	•	•		0.911
	GSVIVG00023752001	SubName- Full=Putative uncharacterized protein (Chromosome chr7 scaffold_31, whole genome shotg [...] (205 aa)			•	•	•	•	•	•	0.887
	GSVIVG00026350001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (223 aa)			•	•	•	•	•		0.884
	GSVIVG00010470001	SubName- Full=Chromosome chr17 scaffold_263, whole genome shotgun sequence; (386 aa)				•	•	•			0.866
	GSVIVG00030725001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (250 aa)			•	•	•	•	•	•	0.831
	GSVIVG00035048001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (272 aa)			•	•	•	•	•	•	0.830
	GSVIVG00036762001	SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (440 aa)				•	•	•	•		0.801
	GSVIVG00006696001	SubName- Full=Chromosome chr2 scaffold_176, whole genome shotgun sequence; (267 aa)				•	•	•	•		0.753

---

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	262
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	1e-142
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-110
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	2e-94
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	7e-88
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	2e-85
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	3e-74
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	1e-60
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	3e-59
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	7e-59
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	2e-58
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	5e-58
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	1e-57
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	3e-55
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	1e-53
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	4e-47
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	2e-40
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	4e-27
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	5e-27
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	5e-26
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	1e-14
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	7e-13
pfam10584	23	pfam10584, Proteasome_A_N, Proteasome subunit A N-	4e-11
smart00948	23	smart00948, Proteasome_A_N, Proteasome subunit A N	5e-11
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	1e-09
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	1e-08
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	1e-08
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	3e-08
cd03760	197	cd03760, proteasome_beta_type_4, proteasome beta t	0.001

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score =  396 bits (1019), Expect = e-142
 Identities = 164/213 (76%), Positives = 188/213 (88%), Gaps = 10/213 (4%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+KTK        KRITSPL+EPSSVEKI
Sbjct: 1   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKI 60

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
            EID+HIGCAMSGLIADARTL++HARVE QNHRF+Y EPMTVES TQA+ DL L+FGEGD
Sbjct: 61  MEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGD 120

Query: 120 --EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
             +++MSRPFGV+LLIAG DENGP L++TDPSGTF +C+AKAIGSGSEGA SSLQE+Y+K
Sbjct: 121 DGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHK 180

Query: 178 DLTLQEAETIALSILKQVMEEKVTPNNVDIARV 210
           D+TL+EAE +ALSILKQVMEEK+   NV++A V
Sbjct: 181 DMTLEEAEKLALSILKQVMEEKLNSTNVELATV 213

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

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

 Score =  315 bits (809), Expect = e-110
 Identities = 119/212 (56%), Positives = 152/212 (71%), Gaps = 12/212 (5%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR + TFSPEGRLFQVEYA+EA+K GSTA+G+K K        K++TS LL+PSSVEKI
Sbjct: 1   YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKI 60

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
            +ID+HIGCA++GL ADAR LV  ARVE QN+R++YGEP+ VE   + + DL   +    
Sbjct: 61  FKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYT--- 117

Query: 120 EESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
           +    RPFGVSLLIAG DE  GP LY TDPSGT++   A AIG GS+ A + L+++Y KD
Sbjct: 118 QYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKD 177

Query: 179 LTLQEAETIALSILKQVMEEKVTPNNVDIARV 210
           LTL+EA  +AL  LK+V+EE     N++IA V
Sbjct: 178 LTLEEAIKLALKALKEVLEEDKKAKNIEIAVV 209

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

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

 Score =  277 bits (711), Expect = 2e-94
 Identities = 110/236 (46%), Positives = 155/236 (65%), Gaps = 22/236 (9%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+GRL+QVEYA EA+K G+TA+G+KTK        KRITSPL+EPSS+EKI
Sbjct: 10  YDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKI 69

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRF---- 115
            +ID+HIG A +GL+ADAR L++ ARVE Q +R +YGEP+ VE+ T+ +CD   ++    
Sbjct: 70  FKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHG 129

Query: 116 GEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQY 175
           G        RPFGV+LLIAG D+ GP L+ TDPSG + +  A AIG+G +     L++ Y
Sbjct: 130 G-------VRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNY 182

Query: 176 NKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEAVINR 228
            +DL+L+EA  +AL  L +  E K+ P NV+IA +      +   +  E+E  + +
Sbjct: 183 KEDLSLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEK 238

Length = 241

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

 Score =  259 bits (665), Expect = 7e-88
 Identities = 107/214 (50%), Positives = 147/214 (68%), Gaps = 17/214 (7%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+GRL+QVEYA EA+K G+TA+G+KTK        KRITS L+EPSS+EKI
Sbjct: 3   YDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKI 62

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV---LRFG 116
            +ID+HIG A SGL+ADAR L++ AR+E Q +R +YGEP+ VE+  + +CDL     + G
Sbjct: 63  FKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHG 122

Query: 117 EGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
                   RPFGV+LLIAG D+ GP L+ TDPSG   +  A AIG+G +     L+++Y 
Sbjct: 123 G------VRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYR 176

Query: 177 KDLTLQEAETIALSILKQVMEEKVTPNNVDIARV 210
           +DL+L EA  +AL  L   +E+K+TP NV++A +
Sbjct: 177 EDLSLDEAIELALKALYSAVEDKLTPENVEVAYI 210

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 =  253 bits (648), Expect = 2e-85
 Identities = 108/214 (50%), Positives = 144/214 (67%), Gaps = 17/214 (7%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+GRL+QVEYA EA+K G+TA+G+K K        KRITS L+EP S+EKI
Sbjct: 2   YDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKI 61

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV---LRFG 116
            +ID+H+G A SGL+ADAR L++ ARVE Q HR +YGEP+ VE   + +CDL     + G
Sbjct: 62  YKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHG 121

Query: 117 EGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
                   RPFGV+LLIAG D+ GP L+ TDPSG + +  A AIGSG +     L+++Y 
Sbjct: 122 G------VRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYK 175

Query: 177 KDLTLQEAETIALSILKQVMEEKVTPNNVDIARV 210
           +D++L+EA  +AL  L   +EE  TP NV+IA V
Sbjct: 176 EDMSLEEAIELALKALYAALEENETPENVEIAYV 209

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

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

 Score =  226 bits (577), Expect = 3e-74
 Identities = 100/235 (42%), Positives = 151/235 (64%), Gaps = 18/235 (7%)

Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGLKTK--------KRITSPLLEPSS- 55
             YDR +  FSPEGRLFQVEYA+EA+K  G+T +G+K K        KR TS LL  SS 
Sbjct: 1   AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSN 60

Query: 56  VEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRF 115
           VEKI +ID+HIG A++GL ADA+ LV +AR E Q +R  YGEP++VE+  + L +++  +
Sbjct: 61  VEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEY 120

Query: 116 GEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQY 175
            +       RP+GVSLL+AG D+ GP LY TDPSG++ +  A AIGSGS+ A   L+++Y
Sbjct: 121 TQS-----GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEY 175

Query: 176 NKDLTLQEAETIALSILKQVME-EKVTPNNVDIARVAPT--YHLYTPSEVEAVIN 227
            +DL+L+EA  +A+  L+  +E +  +   +++A +     +      E++ +++
Sbjct: 176 REDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLD 230

Length = 236

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  190 bits (485), Expect = 1e-60
 Identities = 91/219 (41%), Positives = 134/219 (61%), Gaps = 24/219 (10%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPS-SVEK 58
           YD     FSPEGRL+QVEYA+EAI    T +G+  K        K++TS LL+ S S EK
Sbjct: 3   YDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEK 62

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL---VLRF 115
           I +ID+HI CA++G+ +DA  L+ +AR+  Q + +SY EP+ VE   Q LCD+     ++
Sbjct: 63  IYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQY 122

Query: 116 GEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTF--WQCNAKAIGSGSEGADSSLQ 172
           G        RPFGVS L AG D++ G  LY +DPSG +  W+  A AIG+ ++ A S L+
Sbjct: 123 GG------LRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWK--ATAIGNNNQAAQSLLK 174

Query: 173 EQYNKDLTLQEAETIALSILKQVME-EKVTPNNVDIARV 210
           + Y  D+TL+EA  +A+ +L + M+  K+T   ++ A +
Sbjct: 175 QDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL 213

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

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

 Score =  185 bits (473), Expect = 3e-59
 Identities = 83/192 (43%), Positives = 122/192 (63%), Gaps = 16/192 (8%)

Query: 31  IKLGSTAIGLKTK--------KRIT--SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTL 80
           +K G+T +G+K K        KR T  S LL   +VEKI +ID+HIG A +GL ADA+TL
Sbjct: 1   VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60

Query: 81  VEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG 140
           V++AR E Q +R  YG P++VE   + + D +  +    + S  RP+GVSLLIAG DE+G
Sbjct: 61  VDYARAEAQLYRLRYGRPISVEL-AKRIADKLQAY---TQYSGRRPYGVSLLIAGYDEDG 116

Query: 141 -PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-E 198
            P LY  DPSG+  +  A AIGSGS+ A   L++ Y  D+TL+EA  +A+  LK+ +E +
Sbjct: 117 GPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERD 176

Query: 199 KVTPNNVDIARV 210
            ++  N+++A +
Sbjct: 177 ALSGGNIEVAVI 188

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

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  186 bits (474), Expect = 7e-59
 Identities = 87/226 (38%), Positives = 134/226 (59%), Gaps = 13/226 (5%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           Y   + TFSP G+L Q+EYA+ A+  G+ ++G+K        T+K++ SPL++ SSV K+
Sbjct: 1   YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKV 60

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           ++I  HIG   SG+  D R LV+ AR   Q +   YGEP+ V    + +  ++  +    
Sbjct: 61  EQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEY---T 117

Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RPFGVSLLIAG DE GP LY  DPSG+++   A AIG     A + L+++YN+DL
Sbjct: 118 QSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDL 177

Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVE 223
            L++A   A+  LK+  E ++T  N++I     T  + L TP+E++
Sbjct: 178 ELEDAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIK 223

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|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  183 bits (467), Expect = 2e-58
 Identities = 84/187 (44%), Positives = 118/187 (63%), Gaps = 16/187 (8%)

Query: 35  STAIGLKTK--------KRITSPLLE-PSSVEKIKEIDEHIGCAMSGLIADARTLVEHAR 85
           +T +G+K K        KR+TS LL   S+VEKI +ID+HIGCA +GL ADA+TLVE  R
Sbjct: 1   TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60

Query: 86  VETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLY 144
            E Q +R  YGEP+ VE+  + L +L+  + +       RP GVSLL+AG DE  GP LY
Sbjct: 61  KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQS-----LRPLGVSLLVAGVDEEGGPQLY 115

Query: 145 YTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPN 203
             DPSG++ +  A AIGSGS+ A   L++ Y  D+TL+EA  +AL  LK  +E  + +  
Sbjct: 116 SVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGG 175

Query: 204 NVDIARV 210
           N+++A +
Sbjct: 176 NIEVAVI 182

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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score =  183 bits (467), Expect = 5e-58
 Identities = 93/220 (42%), Positives = 131/220 (59%), Gaps = 27/220 (12%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSV-EK 58
           YD  V T+SP+GRLFQVEYA+EA+K GS  +GLK+K        KR TS L   SS  +K
Sbjct: 1   YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL---SSYQKK 57

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE- 117
           I ++D+HIG A++GL ADAR L  + R E  N+RF Y  P+ V         LV +  E 
Sbjct: 58  IFKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSR-------LVSKVAEK 110

Query: 118 ---GDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
                +    RP+GV LLIAG DE+GP L+ T PSG +++  A +IG+ S+ A + L+  
Sbjct: 111 AQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERH 170

Query: 175 YN--KDLTLQEAETIALSILKQVM--EEKVTPNNVDIARV 210
           +   +D +L+E    AL  L++ +  E+++T  NV IA V
Sbjct: 171 FEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIV 210

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

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score =  182 bits (463), Expect = 1e-57
 Identities = 82/210 (39%), Positives = 126/210 (60%), Gaps = 14/210 (6%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+G LFQVEYA EA++ G+TA+G++ K        K+  + L +P +V KI
Sbjct: 1   YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKI 60

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
             +D+H+  A +GL ADAR L+  AR+E Q+HR +  +P+TVE  T+ +  L  R+    
Sbjct: 61  CMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRY---T 117

Query: 120 EESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
           +    RPFG+S LI G D +G P LY TDPSGT+    A AIG  S+     L++ Y ++
Sbjct: 118 QSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEE 177

Query: 179 LTLQEAETIALSILKQVMEEKVTPNNVDIA 208
           +T  +   +A+  L +V++      N+++A
Sbjct: 178 MTRDDTIKLAIKALLEVVQS--GSKNIELA 205

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|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score =  176 bits (449), Expect = 3e-55
 Identities = 80/201 (39%), Positives = 116/201 (57%), Gaps = 11/201 (5%)

Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVE 57
           T YD   +TFSP+GR+FQVEYA +A++   TAIG++ K        K +TS L EP S +
Sbjct: 2   TGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNK 61

Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           +I  +D HIG A++GL+AD R LV  AR E +N+R +YG P+ V+     +   +  +  
Sbjct: 62  RIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTL 121

Query: 118 GDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
               S  RPFG S+L+ G D +GP LY  +PSG  +     AIG G + A + L++    
Sbjct: 122 Y---SSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFS 178

Query: 178 DLTLQEAETIALSILKQVMEE 198
           +LT +EA   A  I+  V +E
Sbjct: 179 ELTCREAVKEAAKIIYIVHDE 199

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|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional

 Score =  173 bits (441), Expect = 1e-53
 Identities = 90/203 (44%), Positives = 121/203 (59%), Gaps = 19/203 (9%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPS-SVEK 58
           YD    TFSPEGRL+QVEYA+EAI   S  +G+  K        K I+S LL+P    EK
Sbjct: 5   YDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEK 64

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL---VLRF 115
           I +ID HI CA++GL ADA  L+   R+  Q +R++YGEP  VE     +CDL     +F
Sbjct: 65  IYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQF 124

Query: 116 GEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
           G        RPFGVS L AG DEN G  LY+TDPSG +    A AIG  ++ A S L+++
Sbjct: 125 GG------LRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQE 178

Query: 175 YNKDLTLQEAETIALSILKQVME 197
           + +DLTL++   +A  +L + M+
Sbjct: 179 WKEDLTLEQGLLLAAKVLTKSMD 201

Length = 253

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score =  155 bits (394), Expect = 4e-47
 Identities = 71/217 (32%), Positives = 119/217 (54%), Gaps = 17/217 (7%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGLK--------TKKRITSPLLEPSSVEK 58
           +DR +  FSPEGRL+QVEYA +A+K    T++ ++        T+K++   L++PS+V  
Sbjct: 2   FDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTH 61

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           +  I + IGC M+G+IAD+R+ V+ AR E    ++ YG  M V+   + + D+   + + 
Sbjct: 62  LFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQ- 120

Query: 119 DEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
               M RP GVS+++ G D E GP LY  DP+G F    A A G   + A + L+++  K
Sbjct: 121 -HAYM-RPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKK 178

Query: 178 D----LTLQEAETIALSILKQVMEEKVTPNNVDIARV 210
                 + +E   +A+S L+ V+        +++  V
Sbjct: 179 KPDLIESYEETVELAISCLQTVLSTDFKATEIEVGVV 215

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

>gnl|CDD|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 =  136 bits (345), Expect = 2e-40
 Identities = 68/169 (40%), Positives = 98/169 (57%), Gaps = 16/169 (9%)

Query: 35  STAIGLKTK--------KRITSPLLEP-SSVEKIKEIDEHIGCAMSGLIADARTLVEHAR 85
           ST++ +K K        KR++S L    S V KI + ++ I   ++GL ADA+TLV   R
Sbjct: 1   STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60

Query: 86  VETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYY 145
              Q +R  YGEP++V +  + L  L+  + +G      RPFGV+L++AG DE G +LYY
Sbjct: 61  EALQLYRLRYGEPISVVALAKELAKLLQVYTQG------RPFGVNLIVAGVDEGGGNLYY 114

Query: 146 TDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILK 193
            DPSG   +   A A GS S+ A S L++ Y  D+TL+EA  +AL  LK
Sbjct: 115 IDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALK 163

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

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

 Score =  103 bits (258), Expect = 4e-27
 Identities = 54/185 (29%), Positives = 95/185 (51%), Gaps = 17/185 (9%)

Query: 36  TAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T +G+  K        KR +    +   +V+KI +ID+ I   ++G + DA++LV   + 
Sbjct: 2   TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKA 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYT 146
           E + +    G PM++++    L   +L        S   P+ V LLI G DE GP LY  
Sbjct: 62  EARLYELRRGRPMSIKALA-TLLSNILN------SSKYFPYIVQLLIGGVDEEGPHLYSL 114

Query: 147 DPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNV 205
           DP G+  +    A GSGS  A   L+++Y +D+T++EA+ +A+  +K  +E    + + +
Sbjct: 115 DPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGI 174

Query: 206 DIARV 210
           D+  +
Sbjct: 175 DVVVI 179

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 =  103 bits (258), Expect = 5e-27
 Identities = 56/187 (29%), Positives = 102/187 (54%), Gaps = 17/187 (9%)

Query: 34  GSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G+T +G+K K        KR +    +   + +K+ +ID++I   ++G + DA++LV   
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 85  RVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLY 144
           + E + +    G PM+V++    L ++ L        +   PF V LL+ G DE GP LY
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNI-LN------SNRFFPFIVQLLVGGVDEEGPHLY 113

Query: 145 YTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPN 203
             DP+G   + +  A GSGS  A   L+++Y +D++++EA+ +A+  +K  +E  V + N
Sbjct: 114 SLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGN 173

Query: 204 NVDIARV 210
            +D+A +
Sbjct: 174 GIDVAVI 180

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|238893 cd01912, proteasome_beta, proteasome beta subunit

 Score =  100 bits (251), Expect = 5e-26
 Identities = 40/141 (28%), Positives = 69/141 (48%), Gaps = 9/141 (6%)

Query: 54  SSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVL 113
            + +KI +I ++I    +G  AD + L    +   + +    G  ++V++    L +++ 
Sbjct: 29  RNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILY 88

Query: 114 RFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
            +          P+ VSL++ G D+  GP LYY DP G+  +    A GSGS+ A   L 
Sbjct: 89  SYRGF-------PYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILD 141

Query: 173 EQYNKDLTLQEA-ETIALSIL 192
             Y  D+TL+EA E +  +I 
Sbjct: 142 RGYKPDMTLEEAVELVKKAID 162

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

 Score = 69.9 bits (172), Expect = 1e-14
 Identities = 41/152 (26%), Positives = 68/152 (44%), Gaps = 9/152 (5%)

Query: 57  EKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFG 116
           EKI  I  +I C  +G  AD   +        + HR + G    V +    L   + R+ 
Sbjct: 32  EKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQ 91

Query: 117 EGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
                      G +L++ G D  GP LY   P G+  +     +GSGS  A S L+++Y 
Sbjct: 92  GH--------IGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYK 143

Query: 177 KDLTLQEAETIA-LSILKQVMEEKVTPNNVDI 207
            D+T +EA+ +   +I   +  +  + +NVD+
Sbjct: 144 PDMTEEEAKKLVCEAIEAGIFNDLGSGSNVDL 175

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

>gnl|CDD|239730 cd03761, proteasome_beta_type_5, proteasome beta type-5 subunit

 Score = 65.0 bits (159), Expect = 7e-13
 Identities = 38/136 (27%), Positives = 69/136 (50%), Gaps = 19/136 (13%)

Query: 55  SVEKIKEIDEHIGCAMSGLIADA----RTLVEHARVETQNHRFSYGEPMTVESTTQALCD 110
           +V+K+ EI+ ++   M+G  AD     R L    R+    +     E ++V + ++ L +
Sbjct: 30  TVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRL----YELRNKERISVAAASKLLSN 85

Query: 111 LVLRFGEGDEESMSRPFGVSL--LIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGAD 168
           ++ ++         +  G+S+  +I G D+ GP LYY D  GT  + +  ++GSGS  A 
Sbjct: 86  MLYQY---------KGMGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAY 136

Query: 169 SSLQEQYNKDLTLQEA 184
             L   Y  DL+++EA
Sbjct: 137 GVLDSGYRYDLSVEEA 152

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

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

 Score = 56.3 bits (137), Expect = 4e-11
 Identities = 17/23 (73%), Positives = 21/23 (91%)

Query: 8  YDRGVNTFSPEGRLFQVEYAIEA 30
          YDR + TFSP+GRLFQVEYA++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 = 56.0 bits (136), Expect = 5e-11
 Identities = 18/23 (78%), Positives = 21/23 (91%)

Query: 8  YDRGVNTFSPEGRLFQVEYAIEA 30
          YDR + TFSP+GRLFQVEYA+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 = 56.1 bits (136), Expect = 1e-09
 Identities = 52/178 (29%), Positives = 82/178 (46%), Gaps = 29/178 (16%)

Query: 36  TAIGLKTK---------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T IG+K K             S L+     +KI ++ +H   A SG   D     E+ + 
Sbjct: 3   TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQK 62

Query: 87  ETQNHRFSYGEPMTVES----TTQALCDLVLRFGEGDEESMSR-PFGVSLLIAGSDE-NG 140
             Q ++   G  ++ ++    T + L +  LR         SR P+ V+LL+AG D+  G
Sbjct: 63  NIQLYKMRNGYELSPKAAANFTRRELAE-SLR---------SRTPYQVNLLLAGYDKVEG 112

Query: 141 PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEE 198
           PSLYY D  GT  +    A G G+    S L   Y  D+T++E    AL ++K+ ++E
Sbjct: 113 PSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEE----ALELMKKCIKE 166

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

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

 Score = 53.8 bits (129), Expect = 1e-08
 Identities = 47/170 (27%), Positives = 76/170 (44%), Gaps = 30/170 (17%)

Query: 34  GSTAIGLK---------TKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADA----RTL 80
           G+T +  K           K    P +   SV+K+ EI+  +   M+G  AD     R L
Sbjct: 39  GTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL 98

Query: 81  VEHARV-ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSL--LIAGSD 137
               R+ E +N     GE ++V + ++ L ++V  +         +  G+S+  +I G D
Sbjct: 99  AMQCRLYELRN-----GELISVAAASKILANIVWNY---------KGMGLSMGTMICGWD 144

Query: 138 ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETI 187
           + GP L+Y D  GT    N  + GSGS  A   L   +  DL  +EA+ +
Sbjct: 145 KKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDL 194

Length = 247

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

 Score = 53.4 bits (129), Expect = 1e-08
 Identities = 35/143 (24%), Positives = 62/143 (43%), Gaps = 27/143 (18%)

Query: 66  IGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVL--RFGEGDEESM 123
           +G   SG  AD   L +  +   + +++S+ + M+ E+  Q L  ++   RF        
Sbjct: 51  LGS--SGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRF-------- 100

Query: 124 SRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGA----DSSL-----QE 173
             P+ V  ++AG DE G   +Y  DP G++ +    A GS S       D+ +       
Sbjct: 101 -FPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNN 159

Query: 174 QYNKDLTLQEAETIALSILKQVM 196
                L+L+E    A+S++K   
Sbjct: 160 VERTPLSLEE----AVSLVKDAF 178

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

 Score = 51.8 bits (125), Expect = 3e-08
 Identities = 33/141 (23%), Positives = 55/141 (39%), Gaps = 9/141 (6%)

Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           K+ ++ + I C  SG  AD + + ++ R     H    GEP  V++      +L   +  
Sbjct: 33  KLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNY-- 90

Query: 118 GDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
             E   +      +++AG DE NG  +Y     G   +      GSGS      +   Y 
Sbjct: 91  -KEMLSA-----GIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYK 144

Query: 177 KDLTLQEAETIALSILKQVME 197
             +TL+E      + L   M 
Sbjct: 145 PGMTLEECIKFVKNALSLAMS 165

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

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

 Score = 38.7 bits (91), Expect = 0.001
 Identities = 35/149 (23%), Positives = 63/149 (42%), Gaps = 17/149 (11%)

Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEH-ARVETQNHRFSYGEPMTVES----TTQALC 109
           +VE+I ++ ++     SG  AD + L     ++   +     G  ++ +      T+ L 
Sbjct: 32  NVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPKEIHSYLTRVLY 91

Query: 110 DLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGAD 168
           +   +           P   +L++ G D  G P L Y D  GT ++    A G G+  A 
Sbjct: 92  NRRSKM---------NPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLAL 142

Query: 169 SSLQEQYNKDLTLQEAETIALSILKQVME 197
             L+E + K   L E E  AL  +++ M+
Sbjct: 143 PLLREAWEKKPDLTEEEARAL--IEECMK 169

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis.Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 197

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	262
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0181	233	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0863	264	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
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	99.96
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	99.96
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.95
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.94
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.93
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.92
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	99.44
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.23
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.21
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	86.3
COG4079	293	Uncharacterized protein conserved in archaea [Func	80.83

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=2.8e-56  Score=386.75  Aligned_cols=216  Identities=40%  Similarity=0.696  Sum_probs=209.6

Q ss_pred             CCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHH
Q 042723            8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADART   79 (262)
Q Consensus         8 yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   79 (262)
                      ||+.+|+|||||||+|||||++|+++|+|+|||+++        ++.+++++.+++.+||++|+++++++++|..+|++.
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            899999999999999999999999999999999999        666678888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEE
Q 042723           80 LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKA  159 (262)
Q Consensus        80 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a  159 (262)
                      +.+.++.++..|++.++++++++.++++|++++|.|++++   +.|||+|++||||||++||+||.+||+|++.+++++|
T Consensus        81 l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~---~~rP~~v~~li~G~D~~g~~Ly~~d~~G~~~~~~~~a  157 (227)
T cd03750          81 LVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSG---GVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATA  157 (227)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCC---CCCChheEEEEEEEeCCCCEEEEECCCCCEEeeeEEE
Confidence            9999999999999999999999999999999999999998   8999999999999998899999999999999999999


Q ss_pred             ECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHH
Q 042723          160 IGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVI  226 (262)
Q Consensus       160 ~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l  226 (262)
                      +|+|+..++++||++|+++|+++||++++++||+.+.+|++++.+++|.+|+++  +++++++||++++
T Consensus       158 ~G~g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l~~~~iev~iv~~~~~~~~~~~~ei~~~~  226 (227)
T cd03750         158 IGKNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYL  226 (227)
T ss_pred             ECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCEEECCHHHHHHHh
Confidence            999999999999999999999999999999999999998889999999999995  9999999999987

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=4.4e-57  Score=368.59  Aligned_cols=229  Identities=79%  Similarity=1.178  Sum_probs=220.4

Q ss_pred             CCCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEec
Q 042723            1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSG   72 (262)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG   72 (262)
                      ||.+++.||+.+++|||||||||||||++|++.|+|.|||+.+        ||.++++..+++++||++|++||+|++||
T Consensus         1 mfltrseydrgVNTfSpEGRlfQVEYaieAikLGsTaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgca~SG   80 (241)
T KOG0176|consen    1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGCAMSG   80 (241)
T ss_pred             CcccHHHhcccccccCCCceeeehhhHHHHHhcCCceeeeeccceEEEEEeccccCcccCchhhhhheehhhceeeeccc
Confidence            8999999999999999999999999999999999999999999        89999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCC-cc-CCCccceEEEEEEEEcCCCCeEEEECCCC
Q 042723           73 LIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD-EE-SMSRPFGVSLLIAGSDENGPSLYYTDPSG  150 (262)
Q Consensus        73 ~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~-~~-~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G  150 (262)
                      +.+|++.+++..|.+++++++.|+++++++.+.+.++++...|.... .. .-.|||||++|+||+|.+||+||..||+|
T Consensus        81 l~aDarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~gpqL~h~dPSG  160 (241)
T KOG0176|consen   81 LIADARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDETGPQLYHLDPSG  160 (241)
T ss_pred             cccchHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCCCceEEEeCCCC
Confidence            99999999999999999999999999999999999999998887664 22 45699999999999999999999999999


Q ss_pred             ceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHh
Q 042723          151 TFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINR  228 (262)
Q Consensus       151 ~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~  228 (262)
                      ++.++++-|+|+|+.-+.+.|++.|+++|+++||+.+++..|+.+++..++.+|+|+.+|+++  |++++++|++.++.+
T Consensus       161 tf~~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMeeKl~~~Nvev~~vt~e~~f~~~t~EE~~~~i~~  240 (241)
T KOG0176|consen  161 TFIRYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVMEEKLNSNNVEVAVVTPEGEFHIYTPEEVEQVIKR  240 (241)
T ss_pred             ceEEecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHhcCccceEEEEEcccCceEecCHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999999999999999998  999999999999865


Q ss_pred             h
Q 042723          229 P  229 (262)
Q Consensus       229 ~  229 (262)
                      +
T Consensus       241 ~  241 (241)
T KOG0176|consen  241 L  241 (241)
T ss_pred             C
Confidence            3

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=7e-56  Score=387.46  Aligned_cols=227  Identities=48%  Similarity=0.809  Sum_probs=218.5

Q ss_pred             CCCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEec
Q 042723            1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSG   72 (262)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG   72 (262)
                      |++++++||+++|+|||||||+|||||++|+++|+|+|||+++        ++.+++++.+++.+||++|+++++++++|
T Consensus         3 ~~~~~~~y~~~~~~fsp~Gr~~Q~eya~~av~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG   82 (241)
T PRK03996          3 MQPQQMGYDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAASAG   82 (241)
T ss_pred             CCccccccCCCCceECCCCeEhHHHHHHHHHHhCCCEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEcc
Confidence            7889999999999999999999999999999999999999999        66667788788999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCce
Q 042723           73 LIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTF  152 (262)
Q Consensus        73 ~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~  152 (262)
                      ..+|++.++++++.++..|++.++++++++.+++++++.+|.|+++.   +.|||++++||||+|++||+||.+||.|++
T Consensus        83 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~---~~rP~~~~~ilaG~d~~gp~Ly~id~~G~~  159 (241)
T PRK03996         83 LVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHG---GVRPFGVALLIAGVDDGGPRLFETDPSGAY  159 (241)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCC---CccchheEEEEEEEeCCcCEEEEECCCCCe
Confidence            99999999999999999999999999999999999999999999998   899999999999999989999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC---eEEcCHhHHHHHHHhh
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT---YHLYTPSEVEAVINRP  229 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~---~~~~~~~ei~~~l~~~  229 (262)
                      .+++++|+|.|+..++++||+.|+++|+++||++++++||+.+.+++.++++++|++|+++   ++.++++|++++++++
T Consensus       160 ~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~~~~~~~i~i~ii~~~~~~~~~~~~~ei~~~~~~~  239 (241)
T PRK03996        160 LEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKL  239 (241)
T ss_pred             ecceEEEECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCcEEECCHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999887778999999999987   9999999999999876


Q ss_pred             h
Q 042723          230 M  230 (262)
Q Consensus       230 ~  230 (262)
                      .
T Consensus       240 ~  240 (241)
T PRK03996        240 L  240 (241)
T ss_pred             h
Confidence            4

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=4.5e-54  Score=378.55  Aligned_cols=226  Identities=38%  Similarity=0.627  Sum_probs=211.9

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcC-CCccCceEEEcCcEEEEEecCHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE-PSSVEKIKEIDEHIGCAMSGLIA   75 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~-~~~~~Ki~~I~~~i~~~~sG~~~   75 (262)
                      .++||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+.+++. +++.+||++|+++++++++|..+
T Consensus         2 ~~~yd~~~~~fsp~Grl~QvEYA~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   81 (253)
T PTZ00246          2 SRRYDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTA   81 (253)
T ss_pred             CCccCCCCceECCCCEEhHHHHHHHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHH
Confidence            347999999999999999999999999999999999999        666665554 45689999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceee
Q 042723           76 DARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQ  154 (262)
Q Consensus        76 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~  154 (262)
                      |++.+.+.+|.++..|++.+++++|+..+++.+++.+|.|+++.   +.|||+|++||||||+ .||+||.+||+|++.+
T Consensus        82 D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~---~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~~~  158 (253)
T PTZ00246         82 DANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFG---GLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSG  158 (253)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcccc---CcccCCEEEEEEEEeCCCCcEEEEECCCCCEec
Confidence            99999999999999999999999999999999999999999998   8999999999999995 6899999999999999


Q ss_pred             cCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-------eEEcCHhHHHHHH
Q 042723          155 CNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-------YHLYTPSEVEAVI  226 (262)
Q Consensus       155 ~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-------~~~~~~~ei~~~l  226 (262)
                      ++++|+|+|+.++.++||+.|+++|+++||++++++||+.+.+++. ++++++|++|+++       +++++++||++++
T Consensus       159 ~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l~~~ei~~~l  238 (253)
T PTZ00246        159 WKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAELL  238 (253)
T ss_pred             ceEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEECCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999886 7999999999863       8999999999999


Q ss_pred             Hhhhhhh
Q 042723          227 NRPMSIR  233 (262)
Q Consensus       227 ~~~~~~~  233 (262)
                      .++.+.-
T Consensus       239 ~~~~~~~  245 (253)
T PTZ00246        239 KKVTQEY  245 (253)
T ss_pred             HHHhhhh
Confidence            9987443

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=4.1e-53  Score=363.25  Aligned_cols=203  Identities=39%  Similarity=0.607  Sum_probs=193.9

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      +++||+.+|+|||||||+|||||++|+++|+|+|||+++        ++.++.+...++.+||++|+++++++++|..+|
T Consensus         1 ~~~yd~~~t~fsp~Grl~Qveya~~a~~~G~tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (212)
T cd03751           1 GTGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLAD   80 (212)
T ss_pred             CCCccCCCceECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEEccccccccCcchhcceeEecCcEEEEEEEChHh
Confidence            368999999999999999999999999999999999999        666667777778999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~  156 (262)
                      ++.+.++++.+++.|++.+++++|++.++++|++++|.|+++.   ++|||+|++||||+|++||+||.+||+|++.+++
T Consensus        81 ~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~---~~rP~~vs~li~G~D~~gp~Ly~~D~~Gs~~~~~  157 (212)
T cd03751          81 GRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYS---SVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYF  157 (212)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCC---CcCCceEEEEEEEEeCCcCEEEEECCCCCEEeeE
Confidence            9999999999999999999999999999999999999999998   8999999999999998899999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhcc-CCCCcEEEEEE
Q 042723          157 AKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEK-VTPNNVDIARV  210 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d-~s~~~iev~ii  210 (262)
                      ++|+|+|+..++++||+.|+++||++||+++++++|+.+.+.+ .++.+|||.++
T Consensus       158 ~~a~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         158 GCAIGKGKQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             EEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            9999999999999999999999999999999999999999865 68899999875

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=6.8e-53  Score=364.82  Aligned_cols=212  Identities=50%  Similarity=0.859  Sum_probs=202.4

Q ss_pred             CCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHH
Q 042723            7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADAR   78 (262)
Q Consensus         7 ~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~   78 (262)
                      +||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+++++.+++.+||++|++++++++||..+|++
T Consensus         2 ~~~~~~~~f~p~Grl~Qieya~~av~~G~tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   81 (224)
T TIGR03633         2 GYDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVADAR   81 (224)
T ss_pred             CCCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCccccCCCccceEEEECCCEEEEEeecHHhHH
Confidence            7999999999999999999999999999999999999        66667788788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeE
Q 042723           79 TLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAK  158 (262)
Q Consensus        79 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~  158 (262)
                      .+.+.++.++..|++.++++++++.++++|++++|.|+++.   +.|||+|++||||+|+.+|+||.+||.|++.+++++
T Consensus        82 ~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~---~~rP~~v~~ll~G~d~~~~~Ly~~D~~G~~~~~~~~  158 (224)
T TIGR03633        82 VLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHG---GVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKAT  158 (224)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCC---CccccceEEEEEEEeCCcCEEEEECCCCCeecceEE
Confidence            99999999999999999999999999999999999999987   899999999999999889999999999999999999


Q ss_pred             EECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC---eEEcCHhH
Q 042723          159 AIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT---YHLYTPSE  221 (262)
Q Consensus       159 a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~---~~~~~~~e  221 (262)
                      |+|+|+.+++++||+.|+++|+++||++++++||+.+.++..++++++|++|+++   ++.++++|
T Consensus       159 a~G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~~d~~~~~~i~i~ii~~~g~~~~~~~~~~  224 (224)
T TIGR03633       159 AIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAVEDKLTPENVEVAYITVEDKKFRKLSVEE  224 (224)
T ss_pred             EECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEEcCCCcEEECCCCC
Confidence            9999999999999999999999999999999999999883358999999999986   88888775

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=3.8e-52  Score=357.08  Aligned_cols=202  Identities=53%  Similarity=0.885  Sum_probs=195.5

Q ss_pred             CCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHH
Q 042723            7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADAR   78 (262)
Q Consensus         7 ~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~   78 (262)
                      +||+++|+|||||||+|+|||+||+++|+|+|||+++        ++.+++++.+++.+||++|+++++++++|..+|++
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            5999999999999999999999999999999999999        66667777788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeE
Q 042723           79 TLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAK  158 (262)
Q Consensus        79 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~  158 (262)
                      .+.+.++.+++.|+++++++++++.++++|++++|.|++++   +.|||++++||||+|++||+||.+||.|++.+++++
T Consensus        81 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~---~~rP~~v~~ll~G~D~~~~~ly~vd~~G~~~~~~~~  157 (211)
T cd03756          81 VLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHG---GVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKAT  157 (211)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCC---CeechhEEEEEEEEeCCCCEEEEECCCCCeeeeEEE
Confidence            99999999999999999999999999999999999999987   899999999999999989999999999999999999


Q ss_pred             EECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEe
Q 042723          159 AIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVA  211 (262)
Q Consensus       159 a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~  211 (262)
                      |+|+|+..++++||+.|+++|+++||++++++||+.+.+++.++++++|++|+
T Consensus       158 a~G~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~~~~~~~~~~~~v~ii~  210 (211)
T cd03756         158 AIGSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAALEENETPENVEIAYVT  210 (211)
T ss_pred             EECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEe
Confidence            99999999999999999999999999999999999999998899999999987

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=6.7e-52  Score=356.07  Aligned_cols=202  Identities=43%  Similarity=0.709  Sum_probs=191.6

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcC-CCccCceEEEcCcEEEEEecCHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE-PSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~-~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      ++||+.+|+|||||||+|+|||+||+++|+|+|||+++        ++.+++++. +++.+||++|+++++++++|..+|
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            47999999999999999999999999999999999999        666665554 458999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeec
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~  155 (262)
                      ++.+.++++.++..|+++++++++++.+++.|+.++|.|++..   +.|||+|++||||||+ .||+||.+||+|++.++
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~---~~RP~~v~~li~G~D~~~g~~ly~~d~~G~~~~~  157 (213)
T cd03752          81 ANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYG---GLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGW  157 (213)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCC---CcccceeEEEEEEEeCCCCCEEEEECCCCCeeee
Confidence            9999999999999999999999999999999999999999987   8999999999999996 58999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEE
Q 042723          156 NAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARV  210 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii  210 (262)
                      +++|+|+|+.+++++||+.|+++|+++||++++++||+.+.+|+. ++.++||.+|
T Consensus       158 ~~~a~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         158 KATAIGNNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             eEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            999999999999999999999999999999999999999999885 7899999875

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=7.1e-52  Score=354.45  Aligned_cols=198  Identities=41%  Similarity=0.703  Sum_probs=189.5

Q ss_pred             CCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHH
Q 042723            8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADART   79 (262)
Q Consensus         8 yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   79 (262)
                      ||+++|+|||||||+|||||++|+++|+|+|||+++        ++....++.+++.+||++|+++++++++|..+|++.
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            899999999999999999999999999999999999        555566777778999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeE
Q 042723           80 LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAK  158 (262)
Q Consensus        80 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~  158 (262)
                      +.++++.++..|++.++++++++.++++|++++|.|++++   +.|||+|++||||+|++ ||+||.+||+|++.+++++
T Consensus        81 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~---~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~  157 (207)
T cd03755          81 LINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSG---GVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKAN  157 (207)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccc---CcccceeEEEEEEEeCCCCeEEEEECCCcCEEcceEE
Confidence            9999999999999999999999999999999999999998   89999999999999975 8999999999999999999


Q ss_pred             EECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEE
Q 042723          159 AIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARV  210 (262)
Q Consensus       159 a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii  210 (262)
                      |+|+|+.+++++||+.|+++|+.+||++++++||+.+.+  .++.++||+++
T Consensus       158 a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~--~~~~~~e~~~~  207 (207)
T cd03755         158 AIGRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVVQ--SGSKNIELAVM  207 (207)
T ss_pred             EECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhC--CCCCeEEEEEC
Confidence            999999999999999999999999999999999999987  68899999875

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

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=1.4e-51  Score=353.61  Aligned_cols=199  Identities=44%  Similarity=0.681  Sum_probs=188.8

Q ss_pred             CCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHH
Q 042723            8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADART   79 (262)
Q Consensus         8 yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   79 (262)
                      ||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+..+  .++.+||++|++++++++||..+|++.
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 YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL--SSYQKKIFKVDDHIGIAIAGLTADARV   78 (211)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccCcccc--CCccccEEEeCCCEEEEEEeChHhHHH
Confidence            899999999999999999999999999999999999        5555554  346699999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEE
Q 042723           80 LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKA  159 (262)
Q Consensus        80 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a  159 (262)
                      +.++++.++..|+++++++++++.+++.+++++|.|+++.   +.|||+|++||||||++||+||++||+|++.+++++|
T Consensus        79 l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~---~~rP~~v~~ii~G~D~~gp~Ly~~Dp~G~~~~~~~~a  155 (211)
T cd03749          79 LSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRY---GRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATS  155 (211)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccc---CCCCceEEEEEEEEcCCCCeEEEECCCcCEeeeeEEE
Confidence            9999999999999999999999999999999999999987   8999999999999998899999999999999999999


Q ss_pred             ECCChhhHHHHHHhhcC--CCCCHHHHHHHHHHHHHHHhhcc--CCCCcEEEEEEe
Q 042723          160 IGSGSEGADSSLQEQYN--KDLTLQEAETIALSILKQVMEEK--VTPNNVDIARVA  211 (262)
Q Consensus       160 ~G~gs~~a~~~Le~~~~--~~ms~eea~~la~~al~~~~~~d--~s~~~iev~ii~  211 (262)
                      +|+|++.++++||+.|+  ++|+++||+++++++|+.+.++|  +++.+|||++|+
T Consensus       156 ~G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         156 IGARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             ECCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            99999999999999999  59999999999999999999876  789999999984

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=2.8e-51  Score=352.68  Aligned_cols=201  Identities=36%  Similarity=0.672  Sum_probs=191.0

Q ss_pred             CCCCCccccCCCCCchhhhhHHHHhcc-CCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHH
Q 042723            7 EYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADA   77 (262)
Q Consensus         7 ~yd~~~~~fsp~G~~~QieyA~kav~~-G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~   77 (262)
                      +||+++|+|||||||+|||||+||+++ |+|+|||+++        +|.+.+++..++.+||++|+++++++++|..+|+
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            599999999999999999999999986 7799999999        6666677666788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecC
Q 042723           78 RTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        78 ~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~  156 (262)
                      +.+.+++|.++..|+++++++++++.+|+.|++++|.|+++.   +.|||++++||||+|+ +||+||++||+|++.+++
T Consensus        81 ~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~---~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~~  157 (215)
T cd03754          81 RSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHA---YMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYK  157 (215)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCC---CCcCCeeEEEEEEEeCCCCeEEEEEcCCccEEeEE
Confidence            999999999999999999999999999999999999999998   8999999999999996 589999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCCC--C--CHHHHHHHHHHHHHHHhhccCCCCcEEEEEE
Q 042723          157 AKAIGSGSEGADSSLQEQYNKD--L--TLQEAETIALSILKQVMEEKVTPNNVDIARV  210 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~~--m--s~eea~~la~~al~~~~~~d~s~~~iev~ii  210 (262)
                      ++|+|+|+..++++||+.|+++  |  ++|||++++++||..+.+||++++++||.+|
T Consensus       158 ~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~~~~~ei~~~  215 (215)
T cd03754         158 ATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFKATEIEVGVV  215 (215)
T ss_pred             EEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            9999999999999999999995  7  9999999999999999999999999999875

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

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=6.8e-51  Score=349.79  Aligned_cols=203  Identities=81%  Similarity=1.211  Sum_probs=191.8

Q ss_pred             CCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHH
Q 042723            8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADART   79 (262)
Q Consensus         8 yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   79 (262)
                      ||+++|+||||||++|+|||++++++|+|+|||+++        ++.+++++.+++.+||++|+++++++++|..+|++.
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            899999999999999999999999999999999999        666667777888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCC-cc-CCCccceEEEEEEEEcCCCCeEEEECCCCceeecCe
Q 042723           80 LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD-EE-SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNA  157 (262)
Q Consensus        80 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~-~~-~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~  157 (262)
                      +.+.++.+++.|+++++++++++.++++|++++|.|+++. .+ +.+|||+|++||||+|+.||+||.+||.|++.++++
T Consensus        81 l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~gp~Ly~vd~~G~~~~~~~  160 (213)
T cd03753          81 LIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDA  160 (213)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCCCCEEEEECCCCCeecccE
Confidence            9999999999999999999999999999999999998763 01 246999999999999998999999999999999999


Q ss_pred             EEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEE
Q 042723          158 KAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARV  210 (262)
Q Consensus       158 ~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii  210 (262)
                      +|+|++++.+.++|++.|+++|+++||++++++||+.+.+++++++++||++|
T Consensus       161 ~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~~~~~~~ei~~~  213 (213)
T cd03753         161 KAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEKLNSTNVELATV  213 (213)
T ss_pred             EEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            99999999999999999999999999999999999999888889999999975

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

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=8.2e-51  Score=348.29  Aligned_cols=200  Identities=60%  Similarity=0.932  Sum_probs=192.4

Q ss_pred             CCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHH
Q 042723            8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADART   79 (262)
Q Consensus         8 yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   79 (262)
                      ||+++|+|||||||+|+|||++++++|+|+|||+++        ++.+.+++..++.+||++|+++++++++|..+|++.
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            899999999999999999999999999999999999        666666777788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeE
Q 042723           80 LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAK  158 (262)
Q Consensus        80 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~  158 (262)
                      +.+.++.++..|+..++++++++.+++++++++|.|+++.   ++|||+|++||||+|++ ||+||.+||.|++.+++++
T Consensus        81 l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~---~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~  157 (209)
T cd01911          81 LVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYG---GVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKAT  157 (209)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccc---CccChhheEEEEEEcCCCCcEEEEECCCCCeeeeeEE
Confidence            9999999999999999999999999999999999999988   89999999999999976 8999999999999999999


Q ss_pred             EECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEE
Q 042723          159 AIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARV  210 (262)
Q Consensus       159 a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii  210 (262)
                      ++|+|+.++.++||+.|+++|+.+||++++++||+.+.+||.++++++|+++
T Consensus       158 a~G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~~~~~~~i~i~  209 (209)
T cd01911         158 AIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDKKAKNIEIAVV  209 (209)
T ss_pred             EeCCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEEC
Confidence            9999999999999999999999999999999999999999988899999875

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.

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

Probab=100.00  E-value=8.8e-50  Score=347.44  Aligned_cols=222  Identities=44%  Similarity=0.745  Sum_probs=208.7

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccC-CcEEEEeec--------cccCCC-CcCCCccCceEEEcCcEEEEEecCHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLG-STAIGLKTK--------KRITSP-LLEPSSVEKIKEIDEHIGCAMSGLIA   75 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G-~tiVgI~~~--------~~~~~~-l~~~~~~~Ki~~I~~~i~~~~sG~~~   75 (262)
                      .+||+.+++|||+|+++|+|||.+++..| +|+|||+++        +|.+++ ++..++.+||++|+|||+++++|..+
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            36999999999999999999999999997 999999999        777765 56667799999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeec
Q 042723           76 DARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        76 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~  155 (262)
                      |++.++++++.+++.|++.++++++++.+++++++++|.|+++     +|||+|++||||+|+++|+||++||+|++.++
T Consensus        81 Da~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~-----~rP~gv~~iiaG~d~~~p~Ly~~Dp~G~~~~~  155 (236)
T COG0638          81 DAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS-----GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEY  155 (236)
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC-----cccceEEEEEEEEcCCCCeEEEECCCCceeec
Confidence            9999999999999999999999999999999999999988763     48999999999999977999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC--eEEcCHhHHHHHHHhhhhh
Q 042723          156 NAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT--YHLYTPSEVEAVINRPMSI  232 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~~~  232 (262)
                      +++|+|+|++.+.++||+.|+++|++|||++++++||+.+.+||. ++++++|++|+++  ++.++.+++..++..+..+
T Consensus       156 ~~~a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~~~~~~~~~~  235 (236)
T COG0638         156 KATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLSEK  235 (236)
T ss_pred             CEEEEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHHHHHHHHhhc
Confidence            999999999999999999999999999999999999999999997 8899999999994  9999999999999887643

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

Probab=100.00  E-value=4e-51  Score=337.35  Aligned_cols=222  Identities=38%  Similarity=0.642  Sum_probs=211.5

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADA   77 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~   77 (262)
                      +.||+.+|+|||||+|+|||||++|+.+|+|+||++++        ++...+|...+...||..+++|++++++|+.+|+
T Consensus         2 srydraltvFSPDGhL~QVEYAqEAvrkGstaVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld~hV~mafaGl~aDA   81 (249)
T KOG0183|consen    2 SRYDRALTVFSPDGHLFQVEYAQEAVRKGSTAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLDDHVVMAFAGLTADA   81 (249)
T ss_pred             CccccceEEECCCCCEEeeHhHHHHHhcCceEEEeccCceEEEEEeecchhhhhhhhhhhhheeecceeeEEecCCCccc
Confidence            46999999999999999999999999999999999999        5556788888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCceeecC
Q 042723           78 RTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCN  156 (262)
Q Consensus        78 ~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~~~  156 (262)
                      +.+++..|.+|+.|+++.+.|++++.++++|+.+.|.||+..   +.||||++.||+|+|++| |+||++||+|.+.+|+
T Consensus        82 rilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~---grRPFGvs~Li~GfD~~g~p~lyqtePsG~f~ewk  158 (249)
T KOG0183|consen   82 RILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSN---GRRPFGVSTLIGGFDPDGTPRLYQTEPSGIFSEWK  158 (249)
T ss_pred             eeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccC---CcccccceEEEEeeCCCCCeeeEeeCCCcchhhhh
Confidence            999999999999999999999999999999999999999999   999999999999999987 9999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhhhh
Q 042723          157 AKAIGSGSEGADSSLQEQYNKD--LTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINRPMSI  232 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~~--ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~~~  232 (262)
                      +.|+|.+++.++.+|||.|.+.  .+..++++|++++|.++...  .+.++|+.++++.  ++.++.++|+.++..++.+
T Consensus       159 a~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvqs--~~~nie~aVm~~~~~~~~l~~~~I~~~v~~ie~E  236 (249)
T KOG0183|consen  159 ANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQS--GGKNIEVAVMKRRKDLKMLESEEIDDIVKEIEQE  236 (249)
T ss_pred             ccccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhhc--CCCeeEEEEEecCCceeecCHHHHHHHHHHHHHH
Confidence            9999999999999999999986  78899999999999998764  6789999999988  9999999999999999865

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

Probab=100.00  E-value=1e-49  Score=324.74  Aligned_cols=223  Identities=37%  Similarity=0.635  Sum_probs=214.7

Q ss_pred             CcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHH
Q 042723            4 TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIA   75 (262)
Q Consensus         4 ~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~   75 (262)
                      ...+|.+++|+|||+||+-|||||+.|+.+|.+.|||+-.        ++..+.+.+..+++|+++|.++|+|..||..+
T Consensus         2 ~d~~y~fslTtFSpsGKL~QieyAL~Av~~G~~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~~~IG~vYSGmgp   81 (233)
T KOG0181|consen    2 GDFGYSFSLTTFSPSGKLVQIEYALTAVVNGQTSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKITPHIGCVYSGMGP   81 (233)
T ss_pred             CCcccceeeEEEcCCCceehHHHHHHHHhCCCCceeeeecCceEEEeccCCCCccchhhhhhhHhhccCCcceEEecCCC
Confidence            3457999999999999999999999999999999999988        55667888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeec
Q 042723           76 DARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        76 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~  155 (262)
                      |++.+++..|+.++.|...|++++|+..|+..++..+|+|||.+   +.||||++++|||||+.+|.||++||+|++..|
T Consensus        82 D~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsg---GvrPFGvslliaG~~~~~p~LyQvdPSGsyf~w  158 (233)
T KOG0181|consen   82 DYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSG---GVRPFGVSLLIAGWDEGGPLLYQVDPSGSYFAW  158 (233)
T ss_pred             ceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcC---CccccceEEEEeecCCCceeEEEECCccceeeh
Confidence            99999999999999999999999999999999999999999999   999999999999999999999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-eEEcCHhHHHHHHHhh
Q 042723          156 NAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-YHLYTPSEVEAVINRP  229 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~-~~~~~~~ei~~~l~~~  229 (262)
                      +++|+|.+...++++||++|+++|.+++++..|+..|++..+-..++++|||+++..+ |+++++.||+++|..+
T Consensus       159 katA~Gkn~v~aktFlEkR~~edleldd~ihtailtlkE~fege~~~~nieigv~~~~~F~~lt~~eI~d~l~~l  233 (233)
T KOG0181|consen  159 KATAMGKNYVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEGEMTAKNIEIGVCGENGFRRLTPAEIEDYLASL  233 (233)
T ss_pred             hhhhhccCcchHHHHHHHHhccccccchHHHHHHHHHHHHhccccccCceEEEEecCCceeecCHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999899999999999988 9999999999998754

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

Probab=100.00  E-value=9.1e-49  Score=324.93  Aligned_cols=222  Identities=36%  Similarity=0.558  Sum_probs=208.1

Q ss_pred             CCCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEec
Q 042723            1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSG   72 (262)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG   72 (262)
                      ||+++.+||++.++||||||++|+|||+||+.+|+|+||||++        |..+++|..+...+||+.|++||+|+.+|
T Consensus         1 MSsIGtGyDls~s~fSpdGrvfQveYA~KAven~~T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~r~iG~avaG   80 (254)
T KOG0184|consen    1 MSSIGTGYDLSASTFSPDGRVFQVEYAQKAVENSGTCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVDRHIGMAVAG   80 (254)
T ss_pred             CCcccccccccceeeCCCCceehHHHHHHHHhcCCcEEEEecCCeEEEEEeeeecccccccCCCCceEeecccccEEEec
Confidence            9999999999999999999999999999999999999999999        67789999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCce
Q 042723           73 LIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTF  152 (262)
Q Consensus        73 ~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~  152 (262)
                      +.+|.+.+.+.+|.++..|+-+|+.++|...++++++++.|.||.++   ..||||++.++++||.+||+||++||+|..
T Consensus        81 l~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~---~vRpfG~~~~~~~yd~~g~~LymiepSG~~  157 (254)
T KOG0184|consen   81 LIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYS---SVRPFGASTILGSYDDEGPQLYMIEPSGSS  157 (254)
T ss_pred             cccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhh---ccccccceEEEEEEeCCCceEEEEcCCCCc
Confidence            99999999999999999999999999999999999999999999998   999999999999999999999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC----eEEcCHhHHHHHH
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT----YHLYTPSEVEAVI  226 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~----~~~~~~~ei~~~l  226 (262)
                      +.++++|+|.|.+.|++.|||+--++|+.+|+++.+.+.|+.+-+..- +...+||.|+..+    .++++. |+-+..
T Consensus       158 ~~Y~~aaiGKgrq~aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eTnG~h~~vp~-el~~ea  235 (254)
T KOG0184|consen  158 YGYKGAAIGKGRQAAKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEETNGLHEKVPS-ELLEEA  235 (254)
T ss_pred             cceeeeeccchhHHHHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEeecCCccccCcH-HHHHHH
Confidence            999999999999999999999999999999999999999999876543 6788999999876    455555 544443

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

Probab=100.00  E-value=4e-48  Score=322.70  Aligned_cols=223  Identities=39%  Similarity=0.618  Sum_probs=208.3

Q ss_pred             CCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCH
Q 042723            3 FTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLI   74 (262)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~   74 (262)
                      +++..||.++|+|||+||++|||||++|++.|+++||+|.+        ++..+.+  ++..+||++|++|++++++|+.
T Consensus         1 Mfrnqyd~d~t~wsPqGrl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~seL--ss~QkKi~~iD~h~g~siAGLt   78 (264)
T KOG0863|consen    1 MFRNQYDNDVTTWSPQGRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSEL--SSHQKKIFKIDDHIGISIAGLT   78 (264)
T ss_pred             CCcccccCceeEECCcceehHHHHHHHHHhcccceEeecccceEEEeeeccchhHH--HHhhheeEecccccceEEeccC
Confidence            45788999999999999999999999999999999999999        4454555  4456899999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceee
Q 042723           75 ADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQ  154 (262)
Q Consensus        75 ~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~  154 (262)
                      +|++.|.++++.++..+++.+++++|+..|...|.+.+|..||+.   +.|||||.++++|||+.|||||+++|+|++.+
T Consensus        79 ~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~y---grRpYGVGllv~gYDe~G~hl~e~~Psg~v~e  155 (264)
T KOG0863|consen   79 ADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRY---GRRPYGVGLLVAGYDESGPHLYEFCPSGNVFE  155 (264)
T ss_pred             cchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhh---CCccccceEEEEeecCCCceeEEEcCCccEEE
Confidence            999999999999999999999999999999999999999999999   99999999999999999999999999999999


Q ss_pred             cCeEEECCChhhHHHHHHhhcCC--CCCHHHHHHHHHHHHHHHhhc--cCCCCcEEEEEEeCC--eEEcCHhHHHHHHHh
Q 042723          155 CNAKAIGSGSEGADSSLQEQYNK--DLTLQEAETIALSILKQVMEE--KVTPNNVDIARVAPT--YHLYTPSEVEAVINR  228 (262)
Q Consensus       155 ~~~~a~G~gs~~a~~~Le~~~~~--~ms~eea~~la~~al~~~~~~--d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~  228 (262)
                      +++.++|+.++.++++||++..+  +++.||.+..++.||+.....  ++++.+++|.|+.++  |++++.+++..++..
T Consensus       156 ~~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~~~d~~~~~k~~~~  235 (264)
T KOG0863|consen  156 CKGMSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFTILDQKDVAKYVDL  235 (264)
T ss_pred             EeeeecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceEeecHHHHHHHHHH
Confidence            99999999999999999999974  899999999999999998853  478999999999999  999999999988654


Q ss_pred             hh
Q 042723          229 PM  230 (262)
Q Consensus       229 ~~  230 (262)
                      ..
T Consensus       236 ~~  237 (264)
T KOG0863|consen  236 FK  237 (264)
T ss_pred             hh
Confidence            44

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

Probab=100.00  E-value=1.3e-47  Score=316.04  Aligned_cols=226  Identities=34%  Similarity=0.613  Sum_probs=216.9

Q ss_pred             CCcCCCCCCccccCCCCCchhhhhHHHHhcc-CCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecC
Q 042723            3 FTRTEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGL   73 (262)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~~~QieyA~kav~~-G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~   73 (262)
                      ++-.+||+-+|+|||||||+|||||.||+++ |-|+||++++        ++...+++.++.+..+|+|+.+|+|+++|.
T Consensus         4 gs~agfDrhitIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~itk~ig~v~tG~   83 (246)
T KOG0182|consen    4 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRITKKIGCVITGM   83 (246)
T ss_pred             CCcCCccceEEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEeeccceEEEecC
Confidence            3567899999999999999999999999999 7799999999        677889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCce
Q 042723           74 IADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTF  152 (262)
Q Consensus        74 ~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~  152 (262)
                      .+|++..+.++|.++.++++.||.+||++.|+++++++.|.|+|+.   .|||+||.+++.|+|++ ||.+|.+||.|-+
T Consensus        84 ~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a---~mRplg~~~~~i~~D~E~gP~vYk~DpAGyy  160 (246)
T KOG0182|consen   84 IADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNA---AMRPLGVAATLIGVDEERGPSVYKTDPAGYY  160 (246)
T ss_pred             CcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhh---hhcccceeEEEEEeccccCcceEeecCcccc
Confidence            9999999999999999999999999999999999999999999998   99999999999999986 8999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC---eEEcCHhHHHHHHH
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYNKD--LTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT---YHLYTPSEVEAVIN  227 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~~~--ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~---~~~~~~~ei~~~l~  227 (262)
                      ..++++|.|.....+.++||++++++  ++.+|++++++.||..++.-|.....+||++++++   |++++.+||++.|.
T Consensus       161 ~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~se~EVgvv~~~~p~f~~Ls~~eie~hL~  240 (246)
T KOG0182|consen  161 YGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFKSSELEVGVVTVDNPEFRILSAEEIEEHLQ  240 (246)
T ss_pred             ccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccCCcceEEEEEEcCCcceeeccHHHHHHHHH
Confidence            99999999999999999999999987  77999999999999999999999999999999988   99999999999999


Q ss_pred             hhhh
Q 042723          228 RPMS  231 (262)
Q Consensus       228 ~~~~  231 (262)
                      .|.+
T Consensus       241 ~IAE  244 (246)
T KOG0182|consen  241 AIAE  244 (246)
T ss_pred             Hhhh
Confidence            8865

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

Probab=100.00  E-value=8.3e-47  Score=311.07  Aligned_cols=227  Identities=37%  Similarity=0.635  Sum_probs=212.4

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcC-CCccCceEEEcCcEEEEEecCHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE-PSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~-~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      ..||...|+||||||++|||||++++.+.+|+|||..+        ++.+++++. +...+||++|+|+++|+.+|+.+|
T Consensus         3 r~ydsrttiFspEGRLyQVEyAmeais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~D   82 (249)
T KOG0178|consen    3 RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTSD   82 (249)
T ss_pred             cCcCCcccccCCCcchHHHHHHHHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEeccccc
Confidence            45999999999999999999999999999999999999        567777764 456799999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeec
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQC  155 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~  155 (262)
                      +..|++++|..++.|.++|++++|.+.|+..|+++.|.|||++   +.||||||+|-+|||.. |.+||+-||+|++..|
T Consensus        83 AnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQyg---G~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gW  159 (249)
T KOG0178|consen   83 ANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYG---GKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGW  159 (249)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhcc---CcCCCceeeeeeceecCcceEEEecCCCCCcccc
Confidence            9999999999999999999999999999999999999999999   99999999999999985 8999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCCCC-CHHHHHHHHHHHHHHHhhcc-CCCCcEEEEEEeCC-----eEEcCHhHHHHHHHh
Q 042723          156 NAKAIGSGSEGADSSLQEQYNKDL-TLQEAETIALSILKQVMEEK-VTPNNVDIARVAPT-----YHLYTPSEVEAVINR  228 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~~m-s~eea~~la~~al~~~~~~d-~s~~~iev~ii~k~-----~~~~~~~ei~~~l~~  228 (262)
                      ++.++|.++..+++.|++-|+++. +++||..+|++.|...++.. ++...+|+..|+++     +++..++||..++++
T Consensus       160 ka~ciG~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k~v~~i~~~~ev~kll~k  239 (249)
T KOG0178|consen  160 KATCIGANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNKTVLKILKKDEVLKLLEK  239 (249)
T ss_pred             ceeeeccchHHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCceEEEecCHHHHHHHHHH
Confidence            999999999999999999999875 59999999999999999887 58899999999987     789999999999999


Q ss_pred             hhhhhhh
Q 042723          229 PMSIRRK  235 (262)
Q Consensus       229 ~~~~~~~  235 (262)
                      ++...+.
T Consensus       240 ~~~~~~~  246 (249)
T KOG0178|consen  240 YHETQRQ  246 (249)
T ss_pred             hhhhhhh
Confidence            9854443

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=9.5e-41  Score=287.99  Aligned_cols=197  Identities=23%  Similarity=0.293  Sum_probs=181.4

Q ss_pred             cCCcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 042723           33 LGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVES  103 (262)
Q Consensus        33 ~G~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~  103 (262)
                      +|+|+|||+++        ++.+. +++.+++.+||++|+++++++++|..+|++.+.+++|.+++.|+++++++++++.
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            48999999999        66664 7888889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC--CCCeEEEECCCCc-eeecCeEEECCChhhHHHHHHhhcCCCCC
Q 042723          104 TTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NGPSLYYTDPSGT-FWQCNAKAIGSGSEGADSSLQEQYNKDLT  180 (262)
Q Consensus       104 la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~--~gp~Ly~iD~~G~-~~~~~~~a~G~gs~~a~~~Le~~~~~~ms  180 (262)
                      ++++|++++|.++..    .+|||+|++||||||+  .+|+||++||+|+ +..++++|+|+|+++++++||+.|+++||
T Consensus        81 la~~ls~~~~~~~~~----~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms  156 (219)
T TIGR03690        81 KANRLAAMVRGNLPA----AMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLD  156 (219)
T ss_pred             HHHHHHHHHHhhhhh----ccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcC
Confidence            999999999887643    6899999999999996  4699999999995 67779999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhccC-CCCc-------EEEEEEeCC-eEEcCHhHHHHHHHhhhhhh
Q 042723          181 LQEAETIALSILKQVMEEKV-TPNN-------VDIARVAPT-YHLYTPSEVEAVINRPMSIR  233 (262)
Q Consensus       181 ~eea~~la~~al~~~~~~d~-s~~~-------iev~ii~k~-~~~~~~~ei~~~l~~~~~~~  233 (262)
                      .+||++++++||..+.++|. +++.       +||++|+++ +++++++||+++++++..+|
T Consensus       157 ~eeai~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~g~~~l~~~ei~~~~~~~~~~~  218 (219)
T TIGR03690       157 EDDALRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITADGARRVPESELEELARAIVESR  218 (219)
T ss_pred             HHHHHHHHHHHHHHHHhcccccCCcccccccccEEEEEccCceEEcCHHHHHHHHHHHHhcc
Confidence            99999999999999999996 5443       399999988 99999999999999988766

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.

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=1.3e-40  Score=291.45  Aligned_cols=199  Identities=20%  Similarity=0.320  Sum_probs=184.1

Q ss_pred             HhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 042723           30 AIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMT  100 (262)
Q Consensus        30 av~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~  100 (262)
                      .+++|+|+|||+++        ++.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++
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            56789999999999        5565 57888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCC
Q 042723          101 VESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLT  180 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms  180 (262)
                      ++.++++|+++++.+  |.     .|+.+++||||||++||+||++||+|++.+++++|+|+|+.+++++||+.|+++||
T Consensus       115 v~~la~~ls~~l~~~--R~-----~~~~v~~iiaG~D~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms  187 (247)
T PTZ00488        115 VAAASKILANIVWNY--KG-----MGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLN  187 (247)
T ss_pred             HHHHHHHHHHHHHhc--CC-----CCeeEEEEEEEEeCCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCCC
Confidence            999999999999544  32     35666689999998899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhhhhhhh
Q 042723          181 LQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPMSIRRK  235 (262)
Q Consensus       181 ~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~~~~~~  235 (262)
                      .+||++++++||+.+.+||. ++++++|++|+++ ++.++++||+++++.+....+.
T Consensus       188 ~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g~~~l~~~ei~~~l~~~~~~~~~  244 (247)
T PTZ00488        188 DEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDGWKKISADDCFDLHQKYAAEKEI  244 (247)
T ss_pred             HHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCccEECCHHHHHHHHHHHhhhccc
Confidence            99999999999999999996 8999999999999 9999999999999988865543

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=5.9e-40  Score=284.16  Aligned_cols=205  Identities=20%  Similarity=0.289  Sum_probs=177.6

Q ss_pred             CCCCCchh-hhhHHHHhccCCcEEEEeec---cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHH
Q 042723           16 SPEGRLFQ-VEYAIEAIKLGSTAIGLKTK---KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNH   91 (262)
Q Consensus        16 sp~G~~~Q-ieyA~kav~~G~tiVgI~~~---~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~   91 (262)
                      +|+.-+.| -|||++|+++|+|+|||+++   ..+..+-  +++.+||++|+|+++++++|..+|++.+++..+.++..|
T Consensus         8 ~~~~~~~~~~EYA~kav~~g~T~VGIk~kdgVVLaaek~--~~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~   85 (228)
T TIGR03691         8 SPEQIMRDRAELARKGIARGRSVVVLTYADGILFVAENP--SRSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMR   85 (228)
T ss_pred             CHHHHHhhHHHHHHHHHHcCCcEEEEEeCCeEEEEEecC--CCCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHH
Confidence            34433333 58999999999999999999   1111111  356799999999999999999999999999999999999


Q ss_pred             HHHhC-CCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC--CCCeEEEECCCCceeecC-eEEECCChhhH
Q 042723           92 RFSYG-EPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NGPSLYYTDPSGTFWQCN-AKAIGSGSEGA  167 (262)
Q Consensus        92 ~~~~~-~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~--~gp~Ly~iD~~G~~~~~~-~~a~G~gs~~a  167 (262)
                      ++.++ .+++++.+++.+++.+..+. ++   +.|||+|++||||||+  .||+||.+||+|++.+++ ++|+|+|++.+
T Consensus        86 ~~~~~~~~~~v~~la~~~tq~~~~~~-~~---~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a  161 (228)
T TIGR03691        86 GYSYDRRDVTGRGLANAYAQTLGTIF-TE---QQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPI  161 (228)
T ss_pred             hhhcCCCCccHHHHHHHHHhhccccc-cc---ccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChHHH
Confidence            99998 68999999988777775555 33   6799999999999985  589999999999999976 89999999999


Q ss_pred             HHHHHhhcCCCCCHHHHHHHHHHHHHHHhh--cc-CCCCcEEEEEEeCC-----eEEcCHhHHHHHH
Q 042723          168 DSSLQEQYNKDLTLQEAETIALSILKQVME--EK-VTPNNVDIARVAPT-----YHLYTPSEVEAVI  226 (262)
Q Consensus       168 ~~~Le~~~~~~ms~eea~~la~~al~~~~~--~d-~s~~~iev~ii~k~-----~~~~~~~ei~~~l  226 (262)
                      .++||++|+++||++||++++++||+.+.+  ++ +++.++||++|+++     |++++++||++++
T Consensus       162 ~~~Lek~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~~l~~~ei~~~l  228 (228)
T TIGR03691       162 ATALKESYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRITGEALERLL  228 (228)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceEECCHHHHHhhC
Confidence            999999999999999999999999999964  44 58999999999952     9999999999874

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.

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=5.9e-40  Score=278.69  Aligned_cols=181  Identities=23%  Similarity=0.262  Sum_probs=169.3

Q ss_pred             cCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHH-HHHHHhCCCCCHH
Q 042723           33 LGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQ-NHRFSYGEPMTVE  102 (262)
Q Consensus        33 ~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~-~~~~~~~~~i~~~  102 (262)
                      .|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+++++|.++. .+++.++++++++
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            58999999999        6666 688888899999999999999999999999999999999986 5668899999999


Q ss_pred             HHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCC--CC
Q 042723          103 STTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK--DL  179 (262)
Q Consensus       103 ~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~--~m  179 (262)
                      .++++|++++  |+++.   ++|||+|++||||||+ .||+||++||+|++.+++++|+|+|+.+++++||+.|++  +|
T Consensus        81 ~la~~i~~~~--y~~~~---~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~m  155 (197)
T cd03760          81 EIHSYLTRVL--YNRRS---KMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDL  155 (197)
T ss_pred             HHHHHHHHHH--HHHhh---cCCCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCC
Confidence            9999999997  88887   8899999999999997 689999999999999999999999999999999999999  99


Q ss_pred             CHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcC
Q 042723          180 TLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYT  218 (262)
Q Consensus       180 s~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~  218 (262)
                      |+|||++++++||+.+.+||. ++++++|++|+++ +++..
T Consensus       156 s~eea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~~  196 (197)
T cd03760         156 TEEEARALIEECMKVLYYRDARSINKYQIAVVTKEGVEIEG  196 (197)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccCCceEEEEECCCCEEeCC
Confidence            999999999999999999995 8999999999999 76654

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

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=2e-39  Score=273.54  Aligned_cols=176  Identities=23%  Similarity=0.360  Sum_probs=165.7

Q ss_pred             CcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        ++.+. .++.+++.+||++|+++++++++|..+|++.+++++|.+++.|+++++++++++.++
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            589999999        66665 667778999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      ++|++++|.+++       .||+|++||||||++||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.|||+
T Consensus        81 ~~ls~~l~~~~~-------~~~~v~~li~G~D~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~  153 (188)
T cd03761          81 KLLSNMLYQYKG-------MGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAY  153 (188)
T ss_pred             HHHHHHHHhcCC-------CCeEEEEEEEEEeCCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHH
Confidence            999999987743       4899999999999889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEc
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT-YHLY  217 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~  217 (262)
                      +++++||+.+.+||. ++++++|++|+++ ++.+
T Consensus       154 ~l~~~~l~~~~~rd~~sg~~~~v~ii~~~g~~~~  187 (188)
T cd03761         154 DLARRAIYHATHRDAYSGGNVNLYHVREDGWRKI  187 (188)
T ss_pred             HHHHHHHHHHHHhcccCCCCeEEEEEcCCceEEc
Confidence            999999999999986 8999999999998 7665

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

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=2.8e-39  Score=273.79  Aligned_cols=178  Identities=26%  Similarity=0.304  Sum_probs=167.2

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.++..|++.++++++++.++
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            789999999        6665 4668888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      ++|++++|.|+++    + |||++++||||||+ .||+||++||+|++.+++++|+|+|+++++++||+.|+++||.|||
T Consensus        82 ~~l~~~~~~~~~~----~-rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eea  156 (193)
T cd03758          82 NFTRRELAESLRS----R-TPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEA  156 (193)
T ss_pred             HHHHHHHHHHhhc----C-CCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHH
Confidence            9999999888654    4 89999999999997 5899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEc
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLY  217 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~  217 (262)
                      ++++++||+.+.+||. ++++++|.+|+++ ++.+
T Consensus       157 i~l~~~a~~~~~~rd~~~~~~i~i~ii~~~g~~~~  191 (193)
T cd03758         157 LELMKKCIKELKKRFIINLPNFTVKVVDKDGIRDL  191 (193)
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEEEcCCCeEeC
Confidence            9999999999999986 8999999999999 7654

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=3.1e-39  Score=273.89  Aligned_cols=174  Identities=16%  Similarity=0.198  Sum_probs=162.3

Q ss_pred             cCCcEEEEeec--------cccCCCCcC-CCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 042723           33 LGSTAIGLKTK--------KRITSPLLE-PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVES  103 (262)
Q Consensus        33 ~G~tiVgI~~~--------~~~~~~l~~-~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~  103 (262)
                      +|+|+|||+++        ++.+.++.. +++.+||++|+++++++++|..+|++.+.+.++.++..|+++++++++++.
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            69999999999        666666544 567899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecC-eEEECCChhhHHHHHHhhcCCCCCH
Q 042723          104 TTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCN-AKAIGSGSEGADSSLQEQYNKDLTL  181 (262)
Q Consensus       104 la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~-~~a~G~gs~~a~~~Le~~~~~~ms~  181 (262)
                      ++++|++++  |++|.     +||+|++||||||++ ||+||++||+|++..++ ++|+|+|++.+.++||+.|+++|+.
T Consensus        82 la~~l~~~l--y~~r~-----~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~  154 (195)
T cd03759          82 FSSLISSLL--YEKRF-----GPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEP  154 (195)
T ss_pred             HHHHHHHHH--HHhcC-----CCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCH
Confidence            999999998  66654     799999999999975 59999999999998887 9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          182 QEAETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       182 eea~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                      +||++++++||+.+.+||. ++++++|++|+++
T Consensus       155 ~ea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~  187 (195)
T cd03759         155 DELFETISQALLSAVDRDALSGWGAVVYIITKD  187 (195)
T ss_pred             HHHHHHHHHHHHHHHhhCcccCCceEEEEEcCC
Confidence            9999999999999999986 8999999999988

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=1.5e-38  Score=267.37  Aligned_cols=173  Identities=32%  Similarity=0.555  Sum_probs=164.2

Q ss_pred             CCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           34 GSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        34 G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      |+|+|||+++        ++.+ ++++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+..++++++++.+
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            7899999999        5555 678888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      +++|++++|.+       ++|||+|++||||+|++||+||.+||+|++.+++++|+|+|+.++.++||+.|+++||++||
T Consensus        81 a~~l~~~~~~~-------~~rP~~v~~ivaG~d~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  153 (185)
T TIGR03634        81 ATLLSNILNSN-------RFFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEA  153 (185)
T ss_pred             HHHHHHHHHhc-------CCCCeEEEEEEEEEeCCCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHH
Confidence            99999999655       45899999999999998999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                      ++++++||+.+.+|+. ++++++|++|+++
T Consensus       154 ~~l~~~~l~~~~~r~~~~~~~~~v~ii~~~  183 (185)
T TIGR03634       154 KKLAVRAIKSAIERDVASGNGIDVAVITKD  183 (185)
T ss_pred             HHHHHHHHHHHHHhcccCCCCEEEEEEcCC
Confidence            9999999999999986 8999999999986

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.

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=1.5e-38  Score=275.97  Aligned_cols=207  Identities=14%  Similarity=0.175  Sum_probs=176.1

Q ss_pred             CcEEEEeec--------cccCCCCcCCCccCceEEEc----CcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCC-CCCH
Q 042723           35 STAIGLKTK--------KRITSPLLEPSSVEKIKEID----EHIGCAMSGLIADARTLVEHARVETQNHRFSYGE-PMTV  101 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~----~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~-~i~~  101 (262)
                      |.+|||+++        +|++++++..++.+||++|+    +|++++.||..+|++.+++++|.+++.|++++|+ ++|+
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            457999999        77777776666899999998    8999999999999999999999999999999999 8999


Q ss_pred             HHHHHHHHHHHHH-hcCCCccC--CCccceEEEEEEEEcC-CCCeEEEECCCCceeec----CeEEECCChhhHHHHHHh
Q 042723          102 ESTTQALCDLVLR-FGEGDEES--MSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQC----NAKAIGSGSEGADSSLQE  173 (262)
Q Consensus       102 ~~la~~ls~~l~~-~~~~~~~~--~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~----~~~a~G~gs~~a~~~Le~  173 (262)
                      +.+|+++++++++ +++....+  +.|||+|++||||||+ .||+||++||+|++.++    +++|+|. +.+++++||+
T Consensus        81 ~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek  159 (236)
T cd03765          81 FDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDR  159 (236)
T ss_pred             HHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHH
Confidence            9999999998654 44433000  1489999999999995 68999999999999998    5689996 7999999999


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEE---cCHhHHHHHHHhhhhhhhhcccccCc
Q 042723          174 QYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHL---YTPSEVEAVINRPMSIRRKSSLKILP  242 (262)
Q Consensus       174 ~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~---~~~~ei~~~l~~~~~~~~~~~~~~~~  242 (262)
                      .|+++||+|||++++++||..+++||. ++.+|+|++|+++ ++.   .--++-++++..+..+|..-.-|+++
T Consensus       160 ~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (236)
T cd03765         160 VITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERDSLQVGHYRRIEEDDPYFAMIRKAWSEALREAFD  233 (236)
T ss_pred             hcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECCCeeeeeeEEecCCCHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999996 8999999999999 433   33455678888888888444333333

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

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=3.3e-38  Score=270.88  Aligned_cols=178  Identities=21%  Similarity=0.312  Sum_probs=164.8

Q ss_pred             hccCCcEEEEeec--------cccCCCC-cCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCH
Q 042723           31 IKLGSTAIGLKTK--------KRITSPL-LEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTV  101 (262)
Q Consensus        31 v~~G~tiVgI~~~--------~~~~~~l-~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~  101 (262)
                      +++|+|+|||+++        ++.+.++ +.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.+++++++
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            5789999999999        5666544 557899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcC----
Q 042723          102 ESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN----  176 (262)
Q Consensus       102 ~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~----  176 (262)
                      +.++++|++++  |++|.     +||++++||||+|++ +|+||.+||+|++.+++++|+|+|+.++.++||+.|+    
T Consensus        85 ~~la~~ls~~l--y~~R~-----~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~  157 (212)
T cd03757          85 EAIAQLLSTIL--YSRRF-----FPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQ  157 (212)
T ss_pred             HHHHHHHHHHH--HhhcC-----CCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhcc
Confidence            99999999999  55543     799999999999975 5999999999999999999999999999999999985    


Q ss_pred             -----CCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eE
Q 042723          177 -----KDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YH  215 (262)
Q Consensus       177 -----~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~  215 (262)
                           ++||++||++++++||+.+.+||. ++++++|++|+++ ++
T Consensus       158 ~~~~~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g~~  203 (212)
T cd03757         158 NNVERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGIE  203 (212)
T ss_pred             CcCCCCCCCHHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCCEE
Confidence                 899999999999999999999996 8999999999999 44

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=8.4e-38  Score=263.46  Aligned_cols=176  Identities=30%  Similarity=0.534  Sum_probs=165.8

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        ++.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++++++++.++
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            589999999        5555 4777788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      +++++.+|.+       ++|||+|++||||+|+++|+||.+||+|++.+++++|+|+|+.+++++||+.|+++|+++||+
T Consensus        81 ~~i~~~~~~~-------~~~P~~~~~lvaG~d~~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~  153 (188)
T cd03764          81 TLLSNILNSS-------KYFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAK  153 (188)
T ss_pred             HHHHHHHHhc-------CCCCcEEEEEEEEEeCCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHH
Confidence            9999999664       458999999999999888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEc
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT-YHLY  217 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~  217 (262)
                      +++++||+.+.+||. ++++++|++|+++ ++++
T Consensus       154 ~l~~~~l~~~~~rd~~~~~~i~i~iv~~~g~~~~  187 (188)
T cd03764         154 KLAIRAIKSAIERDSASGDGIDVVVITKDGYKEL  187 (188)
T ss_pred             HHHHHHHHHHHhhcCCCCCcEEEEEECCCCeEeC
Confidence            999999999999996 8999999999999 8876

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.

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=4.1e-37  Score=259.60  Aligned_cols=177  Identities=26%  Similarity=0.408  Sum_probs=164.9

Q ss_pred             CcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        +|.+. .++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+++++++++++.++
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            589999999        66665 567778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      ++|++.++.|  +      .||+|++||||+|++||+||.+||.|++.+++++|+|+++.+++++||+.|+++||++||+
T Consensus        81 ~~l~~~l~~~--~------~p~~v~~ivaG~d~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~  152 (189)
T cd03763          81 TMLKQHLFRY--Q------GHIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAK  152 (189)
T ss_pred             HHHHHHHHHc--C------CccceeEEEEeEcCCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHH
Confidence            9999999655  2      3999999999999889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCH
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTP  219 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~  219 (262)
                      +++++||+.+.+||. ++++++|++|+++ +++..|
T Consensus       153 ~l~~~~l~~~~~rd~~~~~~~~v~ii~~~g~~~~~~  188 (189)
T cd03763         153 KLVCEAIEAGIFNDLGSGSNVDLCVITKDGVEYLRN  188 (189)
T ss_pred             HHHHHHHHHHHHhcCcCCCceEEEEEcCCcEEEecC
Confidence            999999999999996 8999999999999 776543

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=1.2e-36  Score=256.48  Aligned_cols=174  Identities=20%  Similarity=0.327  Sum_probs=162.0

Q ss_pred             CcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        ++.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+.+++++++++.++
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            589999999        55554 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      ++|++++|.+  +      |||++++||||+|+ +||+||.+||.|++.+++++++|+|+.+++++||+.|+++|+++||
T Consensus        81 ~~l~~~~~~~--~------~~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea  152 (188)
T cd03762          81 SLFKNLCYNY--K------EMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEEC  152 (188)
T ss_pred             HHHHHHHHhc--c------ccceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHH
Confidence            9999999544  2      68999999999996 6899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEE
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT-YHL  216 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~  216 (262)
                      ++++++||+.+.+||. ++++++|++|+++ ++.
T Consensus       153 ~~l~~~al~~~~~rd~~~~~~~~i~~i~~~g~~~  186 (188)
T cd03762         153 IKFVKNALSLAMSRDGSSGGVIRLVIITKDGVER  186 (188)
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEEECCCCEEE
Confidence            9999999999999996 8999999999998 553

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

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

Probab=100.00  E-value=1.3e-36  Score=255.74  Aligned_cols=177  Identities=42%  Similarity=0.715  Sum_probs=164.7

Q ss_pred             hccCCcEEEEeec--------cccC-CCCc-CCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 042723           31 IKLGSTAIGLKTK--------KRIT-SPLL-EPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMT  100 (262)
Q Consensus        31 v~~G~tiVgI~~~--------~~~~-~~l~-~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~  100 (262)
                      +++|+|+|||+++        ++.+ ++.+ .+++.+||++|+++++++++|..+|++.+.++++.++..|++.++++++
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            5799999999999        4555 4444 4444799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCceeec-CeEEECCChhhHHHHHHhhcCCC
Q 042723          101 VESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNKD  178 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~  178 (262)
                      ++.+++.+++.++.++.+.   ++||+++++|+||+|+++ |+||.+||.|++.++ +++|+|+|+.+++++||+.|+++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~---~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~  157 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRS---GRRPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPD  157 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHT---TTSTTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTT
T ss_pred             chhhhhhhHHHHhhhcccc---cccCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhccCC
Confidence            9999999999999999887   889999999999999876 999999999999999 69999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEE
Q 042723          179 LTLQEAETIALSILKQVMEEKV-TPNNVDIARV  210 (262)
Q Consensus       179 ms~eea~~la~~al~~~~~~d~-s~~~iev~ii  210 (262)
                      |+++||++++++||+.+.++|. ++++++|++|
T Consensus       158 ~~~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  158 LSLEEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            9999999999999999999985 8999999986

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 ....

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=1.3e-35  Score=249.91  Aligned_cols=175  Identities=27%  Similarity=0.457  Sum_probs=161.7

Q ss_pred             CcEEEEeec--------cccCCCCc-CCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITSPLL-EPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~~l~-~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        ++.+..+. .+++.+|||+|+++++++++|..+|++.+.++++.++..|+..++++++++.++
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            589999999        56655444 388999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      ++++++++.+++       |||++++||||+|+ ++|+||.+||.|++.+++++|+|++++++.++||+.|+++|+++||
T Consensus        81 ~~l~~~~~~~~~-------~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea  153 (189)
T cd01912          81 NLLSNILYSYRG-------FPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEA  153 (189)
T ss_pred             HHHHHHHHhcCC-------CCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHH
Confidence            999999954432       79999999999998 5899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEE
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT-YHL  216 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~  216 (262)
                      ++++++||+.+.++|. ++++++|.+|+++ ++.
T Consensus       154 ~~~~~~~l~~~~~~d~~~~~~~~v~vi~~~g~~~  187 (189)
T cd01912         154 VELVKKAIDSAIERDLSSGGGVDVAVITKDGVEE  187 (189)
T ss_pred             HHHHHHHHHHHHHhcCccCCcEEEEEECCCCEEE
Confidence            9999999999999986 7999999999998 554

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

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=9.3e-35  Score=242.86  Aligned_cols=171  Identities=49%  Similarity=0.781  Sum_probs=159.3

Q ss_pred             CcEEEEeec--------cccCCCC-cCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITSPL-LEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~~l-~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        ++.+..+ ..+++.+|||+|+++++++++|..+|++.+.+.++.++..|+++++++++++.++
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            589999999        5555444 4478899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      ++|++++|.+++.     +|||++++||||+|+ .+|+||.+||.|++.+++++|+|+|+.++.++||+.|+++||.+||
T Consensus        81 ~~l~~~~~~~~~~-----~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea  155 (182)
T cd01906          81 KLLANLLYEYTQS-----LRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEA  155 (182)
T ss_pred             HHHHHHHHHhCCC-----ccChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHH
Confidence            9999999877653     489999999999997 6899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEE
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARV  210 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii  210 (262)
                      ++++++||+.+.++|. ++++++|.+|
T Consensus       156 ~~l~~~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         156 IELALKALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             HHHHHHHHHHHHcccCCCCCCEEEEEC
Confidence            9999999999999997 7899999875

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

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

Probab=100.00  E-value=2.4e-33  Score=228.08  Aligned_cols=180  Identities=23%  Similarity=0.262  Sum_probs=167.9

Q ss_pred             CcEEEEeec---------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK---------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~---------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      .+++||++.         ..+.+.++.+++.+|+++|++++.|+++|..+|+.++.+++.++++.|+.++|.+++|+.+|
T Consensus         2 e~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aa   81 (200)
T KOG0177|consen    2 ETLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAA   81 (200)
T ss_pred             ceEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHH
Confidence            578999999         33446778899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      +++.+.+..+.+.     .+||.|++|+||+|++ ||.||++|..|+..+.+++++|.++.++.++|++.|+|+||.|||
T Consensus        82 hFtR~~La~~LRs-----r~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea  156 (200)
T KOG0177|consen   82 HFTRRELAESLRS-----RTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEA  156 (200)
T ss_pred             HHHHHHHHHHHhc-----CCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHH
Confidence            9999999888763     4899999999999985 899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCH
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTP  219 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~  219 (262)
                      +++..+|+.++.+|.. +..++.|.+|+|+ .+.++.
T Consensus       157 ~~lmkKCv~El~kRlvin~~~f~v~IVdkdGir~~~~  193 (200)
T KOG0177|consen  157 LDLMKKCVLELKKRLVINLPGFIVKIVDKDGIRKLDD  193 (200)
T ss_pred             HHHHHHHHHHHHHhcccCCCCcEEEEEcCCCceeccc
Confidence            9999999999999986 8899999999999 776643

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

Probab=100.00  E-value=4.6e-33  Score=235.79  Aligned_cols=196  Identities=23%  Similarity=0.343  Sum_probs=184.9

Q ss_pred             ccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 042723           32 KLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVE  102 (262)
Q Consensus        32 ~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~  102 (262)
                      .+|||++|.+++        +|++ ++++....++||++|+++++-+++|-++|++.+.+.+.++|++|++++++.|+|+
T Consensus        69 ~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVs  148 (285)
T KOG0175|consen   69 AHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVS  148 (285)
T ss_pred             cCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehH
Confidence            499999999999        6666 5899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHH
Q 042723          103 STTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQ  182 (262)
Q Consensus       103 ~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~e  182 (262)
                      +.++.|+++++.|...+       +.+..+|+|||+.||.||+||..|+..+-+-.++|+|+.+|.++|+..|+++|+.|
T Consensus       149 aASKllsN~~y~YkGmG-------LsmGtMi~G~Dk~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~e  221 (285)
T KOG0175|consen  149 AASKLLSNMVYQYKGMG-------LSMGTMIAGWDKKGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDE  221 (285)
T ss_pred             HHHHHHHHHHhhccCcc-------hhheeeEeeccCCCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCCHH
Confidence            99999999998887665       88999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhhhhhh
Q 042723          183 EAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPMSIRR  234 (262)
Q Consensus       183 ea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~~~~~  234 (262)
                      ||.+|+++|+..+..||. +|.-+.++.|+.+ +..++..++.++..++.+.-+
T Consensus       222 EA~~L~rrAI~hAThRDaySGG~vnlyHv~edGW~~v~~~Dv~~L~~~~~e~~~  275 (285)
T KOG0175|consen  222 EAYDLARRAIYHATHRDAYSGGVVNLYHVKEDGWVKVSNTDVSELHYHYYEVAP  275 (285)
T ss_pred             HHHHHHHHHHHHHHhcccccCceEEEEEECCccceecCCccHHHHHHHHHHhcC
Confidence            999999999999999996 9999999999999 999999999999776664433

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

Probab=99.97  E-value=2.2e-31  Score=225.14  Aligned_cols=179  Identities=28%  Similarity=0.425  Sum_probs=169.0

Q ss_pred             HHHHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCC
Q 042723           27 AIEAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGE   97 (262)
Q Consensus        27 A~kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~   97 (262)
                      +-++.+.||||+|++++        +|++ ++.+.+++.+||+.|.++|+||.+|..+|...+.+.+-.+.+.+.+..++
T Consensus        30 ~p~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R  109 (271)
T KOG0173|consen   30 APKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGR  109 (271)
T ss_pred             CCcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCC
Confidence            34678899999999999        6666 57788999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCC
Q 042723           98 PMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK  177 (262)
Q Consensus        98 ~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~  177 (262)
                      +++|-....++.+.+..|+..        .++.+||||+|++|||||.+-|.|+...-+|.+.|+|+..+.++||.+|+|
T Consensus       110 ~~rVv~A~~mlkQ~LFrYqG~--------IgA~LiiGGvD~TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k~  181 (271)
T KOG0173|consen  110 KPRVVTALRMLKQHLFRYQGH--------IGAALILGGVDPTGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWKP  181 (271)
T ss_pred             CCceeeHHHHHHHHHHHhcCc--------ccceeEEccccCCCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcCc
Confidence            999999999999999888765        699999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          178 DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       178 ~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                      +|++|||++|+.+|+...+.+|+ +|.++++++|++.
T Consensus       182 dlt~eea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~  218 (271)
T KOG0173|consen  182 DLTKEEAIKLVCEAIAAGIFNDLGSGSNVDLCVITKK  218 (271)
T ss_pred             ccCHHHHHHHHHHHHHhhhccccCCCCceeEEEEeCC
Confidence            99999999999999999999998 8999999999976

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

Probab=99.97  E-value=2.1e-31  Score=223.09  Aligned_cols=209  Identities=22%  Similarity=0.339  Sum_probs=185.0

Q ss_pred             CCccccCCCCCch------hhhhHHHHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCH
Q 042723           10 RGVNTFSPEGRLF------QVEYAIEAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLI   74 (262)
Q Consensus        10 ~~~~~fsp~G~~~------QieyA~kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~   74 (262)
                      ...++|.|.|...      .+...+.++.+||++||+||+        ...+ +++.+.++++|+++++||++++++|..
T Consensus        11 pa~~~f~~~~~~m~~a~~~~~qrt~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdi   90 (256)
T KOG0185|consen   11 PAPGTFYPSGSLMENAGDYPIQRTLNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDI   90 (256)
T ss_pred             CCCCcCcCccchhhhccCCCcccccCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccH
Confidence            4567788886432      233446778899999999999        3333 688999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH-HHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCce
Q 042723           75 ADARTLVEHARVETQNHR-FSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTF  152 (262)
Q Consensus        75 ~D~~~l~~~~r~~~~~~~-~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~  152 (262)
                      +|+|.+.+.+.+...+.. +..++.+.|+.++++|.+.|  |.+|.   ++.|++.+++|||+|++| |+|-.+|..|..
T Consensus        91 sD~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvl--Y~rRs---KmnPlwntlvVgGv~~~g~~~lg~V~~~G~~  165 (256)
T KOG0185|consen   91 SDFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVL--YARRS---KMNPLWNTLVVGGVDNTGEPFLGYVDLLGVA  165 (256)
T ss_pred             HHHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHH--HHhhh---ccCchhhheeEeeecCCCCeeEEEEeecccc
Confidence            999999999998877754 56668999999999999999  99998   999999999999999965 999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcC---CCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHH
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYN---KDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVE  223 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~---~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~  223 (262)
                      .+.+..|+|.|.+++.++|++.|.   ++++.+||..++.+||+.+.+||. +.++++|++|+++ +++-.+..|.
T Consensus       166 Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~eGv~i~~p~qv~  241 (256)
T KOG0185|consen  166 YESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDEEGVTISKPYQVK  241 (256)
T ss_pred             ccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEcccceEecCceeee
Confidence            999999999999999999999998   479999999999999999999998 6789999999999 8877776553

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

Probab=99.97  E-value=3.1e-30  Score=212.84  Aligned_cols=178  Identities=22%  Similarity=0.349  Sum_probs=165.3

Q ss_pred             HHhccCCcEEEEeec--------cccCCCC-cCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCC
Q 042723           29 EAIKLGSTAIGLKTK--------KRITSPL-LEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPM   99 (262)
Q Consensus        29 kav~~G~tiVgI~~~--------~~~~~~l-~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i   99 (262)
                      +...+|+|+|||++.        +|.++.+ +..++.+|||+++|+++++.+|+++|+..|...++..++.|+..++..|
T Consensus        24 PY~~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~m  103 (235)
T KOG0179|consen   24 PYEDNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKM  103 (235)
T ss_pred             ccccCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccc
Confidence            446799999999999        6666544 5678899999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCC-
Q 042723          100 TVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK-  177 (262)
Q Consensus       100 ~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~-  177 (262)
                      ++...|++|+.++  |.+|.     .||.+..||||+|++| +.+|..||.|++.+..+.|-|+++.+++|+|++.... 
T Consensus       104 s~~s~A~lls~~L--Y~kRF-----FPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~k  176 (235)
T KOG0179|consen  104 SIHSAAQLLSTIL--YSKRF-----FPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHK  176 (235)
T ss_pred             cHHHHHHHHHHHH--hhccc-----ccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCc
Confidence            9999999999999  88776     8999999999999987 9999999999999999999999999999999987642 


Q ss_pred             ----------CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          178 ----------DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       178 ----------~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                                .+++|+|+++++++|..+.+||+ +++.++|+|++++
T Consensus       177 n~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~  223 (235)
T KOG0179|consen  177 NQNLENAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKD  223 (235)
T ss_pred             CcccccCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecC
Confidence                      58999999999999999999998 8999999999999

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

Probab=99.96  E-value=2.8e-28  Score=195.71  Aligned_cols=174  Identities=16%  Similarity=0.219  Sum_probs=160.8

Q ss_pred             cCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 042723           33 LGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVES  103 (262)
Q Consensus        33 ~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~  103 (262)
                      +|+++||++++        +|.. ......++++|||+++|+++++.+|+..|+|.+.+.++...+.|+++.+++|.|+.
T Consensus         7 nGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~~   86 (204)
T KOG0180|consen    7 NGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPET   86 (204)
T ss_pred             cCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcHH
Confidence            57777777777        5554 35556789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCceee-cCeEEECCChhhHHHHHHhhcCCCCCH
Q 042723          104 TTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQ-CNAKAIGSGSEGADSSLQEQYNKDLTL  181 (262)
Q Consensus       104 la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~-~~~~a~G~gs~~a~~~Le~~~~~~ms~  181 (262)
                      +++++|.++  |.+|.     -||.+..+|||+|+++ |+|..+|..|+... .+|++.|.++....+..|..|+|||.+
T Consensus        87 ~s~mvS~~l--YekRf-----gpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmep  159 (204)
T KOG0180|consen   87 FSSMVSSLL--YEKRF-----GPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEP  159 (204)
T ss_pred             HHHHHHHHH--HHhhc-----CCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCH
Confidence            999999999  87765     6999999999999975 99999999999965 589999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          182 QEAETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       182 eea~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                      ||..+.+.+||.++.+||. +||+..|.+|+|+
T Consensus       160 d~LFetisQa~Lna~DRDalSGwGa~vyiI~kd  192 (204)
T KOG0180|consen  160 DELFETISQALLNAVDRDALSGWGAVVYIITKD  192 (204)
T ss_pred             HHHHHHHHHHHHhHhhhhhhccCCeEEEEEccc
Confidence            9999999999999999996 9999999999999

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

Probab=99.96  E-value=1.7e-28  Score=200.40  Aligned_cols=189  Identities=16%  Similarity=0.283  Sum_probs=172.8

Q ss_pred             HhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 042723           30 AIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMT  100 (262)
Q Consensus        30 av~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~  100 (262)
                      .+..|||++|+.++        +|++ +.++.++-.+|+.+|+|+|+||-||.++|.|.+.+.++.....|...++.+++
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            47799999999999        6665 57888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCC
Q 042723          101 VESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL  179 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~m  179 (262)
                      +...|+.++++.++|...        +.+.+||||||+. |.++|.|---|...+.+++.-|+|+.++.++++..|+|+|
T Consensus        95 v~~aA~l~r~~~Y~~re~--------L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nM  166 (224)
T KOG0174|consen   95 VHTAASLFREICYNYREM--------LSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNM  166 (224)
T ss_pred             HHHHHHHHHHHHHhCHHh--------hhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCC
Confidence            999999999999666443        7899999999985 8999999888888999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC---eEEcCHhHHHHHH
Q 042723          180 TLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT---YHLYTPSEVEAVI  226 (262)
Q Consensus       180 s~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~---~~~~~~~ei~~~l  226 (262)
                      ++||++++.++|+..++.||- +|.-|.+.+|+++   .+++..+++..+.
T Consensus       167 t~EE~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~~~~  217 (224)
T KOG0174|consen  167 TLEECVRFVKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLGQFA  217 (224)
T ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCcccccc
Confidence            999999999999999999997 6888999999999   6677777766553

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.95  E-value=2.6e-26  Score=190.49  Aligned_cols=157  Identities=22%  Similarity=0.277  Sum_probs=133.7

Q ss_pred             CCcEEEEeec--------cccC-CCCcCCCccCceEEE-cCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q 042723           34 GSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEI-DEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVES  103 (262)
Q Consensus        34 G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~  103 (262)
                      |+|+|||+++        +|++ +.++.+++.+||++| +++++++++|..+|+|.|.+.++.+++.|+.  +.   ++.
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~--~~---~~~   75 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQG--NL---LRA   75 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccC--cc---HHH
Confidence            7899999999        5655 688899999999999 9999999999999999999999999999882  22   466


Q ss_pred             HHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeec--CeEEECCChhhHHHHHHhhcC-CCCC
Q 042723          104 TTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC--NAKAIGSGSEGADSSLQEQYN-KDLT  180 (262)
Q Consensus       104 la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~--~~~a~G~gs~~a~~~Le~~~~-~~ms  180 (262)
                      .++....+. .+ +     -.+|+++++|++  |  .|+||.+||.|+..+.  ++.|+|+|+.++.++||+.|+ ++| 
T Consensus        76 ~a~l~~~l~-~~-~-----~~~~l~~~~lv~--d--~~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m-  143 (172)
T PRK05456         76 AVELAKDWR-TD-R-----YLRRLEAMLIVA--D--KEHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL-  143 (172)
T ss_pred             HHHHHHHHH-hc-c-----CCCccEEEEEEE--c--CCcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC-
Confidence            665443332 12 1     236888999994  3  3799999999999766  899999999999999999999 999 


Q ss_pred             HHHHHHHHHHHHHHHhhccC-CCCcEEEEE
Q 042723          181 LQEAETIALSILKQVMEEKV-TPNNVDIAR  209 (262)
Q Consensus       181 ~eea~~la~~al~~~~~~d~-s~~~iev~i  209 (262)
                        ||++++++|++.+.+||. ++++|+|-.
T Consensus       144 --eA~~la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        144 --SAEEIAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             --CHHHHHHHHHHHHHHhCeeCCCcEEEEE
Confidence              999999999999999997 899998864

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

Probab=99.94  E-value=1.5e-24  Score=175.82  Aligned_cols=153  Identities=44%  Similarity=0.651  Sum_probs=141.3

Q ss_pred             CcEEEEeec--------cccCCCCc-CCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITSPLL-EPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~~l~-~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        ++.+..+. ...+..|+++++++++++++|..+|++.+.++++.+++.|++.+++++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            578999988        44444443 367889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeec-CeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      +.+++.++.+++ .     ||+++++||||+|+++|+||.+||.|.+.+. .++++|.++..+.++|++.|+++|+.+|+
T Consensus        81 ~~~~~~~~~~~~-~-----~p~~~~~iiag~~~~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~  154 (164)
T cd01901          81 KELAKLLQVYTQ-G-----RPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEA  154 (164)
T ss_pred             HHHHHHHHHhcC-C-----CCcceEEEEEEEcCCCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHH
Confidence            999999988765 3     8999999999999988999999999999999 99999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 042723          185 ETIALSILK  193 (262)
Q Consensus       185 ~~la~~al~  193 (262)
                      ++++.+||+
T Consensus       155 ~~~~~~~l~  163 (164)
T cd01901         155 VELALKALK  163 (164)
T ss_pred             HHHHHHHHh
Confidence            999999986

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

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

Probab=99.93  E-value=7.5e-25  Score=180.75  Aligned_cols=155  Identities=19%  Similarity=0.189  Sum_probs=129.7

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcC-cEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDE-HIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~-~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      +|+|||+++        +|++ +.++.+++.+||++|++ +++++++|..+|++.|.++++.+++.|+.+.++     .+
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            689999999        5654 67889999999999999 999999999999999999999999999987764     33


Q ss_pred             HHHHHHHHHHhcCCCccCCCccce-EEEEEEEEcCCCCeEEEECCCCceeec--CeEEECCChhhHHHHHHhhcCCC-CC
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFG-VSLLIAGSDENGPSLYYTDPSGTFWQC--NAKAIGSGSEGADSSLQEQYNKD-LT  180 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~-vs~iiaG~d~~gp~Ly~iD~~G~~~~~--~~~a~G~gs~~a~~~Le~~~~~~-ms  180 (262)
                      ++.+..++ .|       +.+|+. +.+|++++    ++||.+||.|.+.+.  ++.|+|+|+.++.++||..|+++ |+
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 12       224554 66676644    399999999999998  49999999999999999999995 99


Q ss_pred             HHHHHHHHHHHHHHHhhccC-CCCcEEEEE
Q 042723          181 LQEAETIALSILKQVMEEKV-TPNNVDIAR  209 (262)
Q Consensus       181 ~eea~~la~~al~~~~~~d~-s~~~iev~i  209 (262)
                         +.+++++|++.+.+||. ++++|+|-.
T Consensus       144 ---~~~la~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         144 ---AEEIARKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             ---HHHHHHHHHHHHHhhCcccCCCEEEEe
Confidence               56999999999999997 899988754

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=99.92  E-value=4.7e-24  Score=176.02  Aligned_cols=156  Identities=21%  Similarity=0.261  Sum_probs=128.3

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEE-cCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEI-DEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      +|+|||+++        +|++ +.++.+++.+||++| +++++++++|..+|++.|.++++.+++.|+...     .+.+
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            689999999        5654 678899999999999 599999999999999999999999999987632     3555


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeec--CeEEECCChhhHHHHHHhhc-CCCCCH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC--NAKAIGSGSEGADSSLQEQY-NKDLTL  181 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~--~~~a~G~gs~~a~~~Le~~~-~~~ms~  181 (262)
                      ++.++++. .|  +    ..+.+.+.+|++|+    |+||.+||.|.+.++  ++.++|+|+.++.++||..| +++|+ 
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-TD--R----YLRRLEAMLIVADK----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS-  143 (171)
T ss_pred             HHHHHHHh-hc--c----cccccEEEEEEEcC----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC-
Confidence            55544421 11  1    11234577777644    499999999999996  69999999999999999999 46777 


Q ss_pred             HHHHHHHHHHHHHHhhccC-CCCcEEEEE
Q 042723          182 QEAETIALSILKQVMEEKV-TPNNVDIAR  209 (262)
Q Consensus       182 eea~~la~~al~~~~~~d~-s~~~iev~i  209 (262)
                        |+++++++++.+.+||. ++++|+|-.
T Consensus       144 --a~~la~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       144 --AEEIAREALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             --HHHHHHHHHHHHHhhCccCCCCEEEEe
Confidence              99999999999999997 899988754

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

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

Probab=99.44  E-value=5.4e-14  Score=76.67  Aligned_cols=23  Identities=74%  Similarity=1.324  Sum_probs=22.3

Q ss_pred             CCCCccccCCCCCchhhhhHHHH
Q 042723            8 YDRGVNTFSPEGRLFQVEYAIEA   30 (262)
Q Consensus         8 yd~~~~~fsp~G~~~QieyA~ka   30 (262)
                      ||+++|+|||+|||+|||||+||
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            89999999999999999999987

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=99.23  E-value=1.5e-10  Score=96.16  Aligned_cols=202  Identities=17%  Similarity=0.179  Sum_probs=148.7

Q ss_pred             CCcEEEEeec--------cccCCCCcCCCccCceEEE---cCc-EEEEEecCHHHHHHHHHHHHHHHHHHHHHhCC-CCC
Q 042723           34 GSTAIGLKTK--------KRITSPLLEPSSVEKIKEI---DEH-IGCAMSGLIADARTLVEHARVETQNHRFSYGE-PMT  100 (262)
Q Consensus        34 G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I---~~~-i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~-~i~  100 (262)
                      ++.|||++..        +|++..+-.-+.++|+|..   +++ ++++.+|..+-.|.+++.+.+..+......-. -.+
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            3668888887        5665544334566777655   333 56778999999999999998776522111111 234


Q ss_pred             HHHHHHHHHHHHHHhcCCCcc-C--CCccceEEEEEEEEcCCC-CeEEEECCCCceee----cCeEEECCChhhHHHHHH
Q 042723          101 VESTTQALCDLVLRFGEGDEE-S--MSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQ----CNAKAIGSGSEGADSSLQ  172 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~-~--~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~----~~~~a~G~gs~~a~~~Le  172 (262)
                      .-+.+..++....+-..+.+- +  .---|.|++|+||-=..+ |.||.|.|.|++.+    ..|..+|. ..+-+++|+
T Consensus        81 m~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPild  159 (255)
T COG3484          81 MYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPILD  159 (255)
T ss_pred             HHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEccc-cccCchhhh
Confidence            556667777776555544400 0  012489999999965544 89999999999974    37999998 568899999


Q ss_pred             hhcCCCCCHHHHHHHHHHHHHHHhhccCC-CCcEEEEEEeCC-eE---EcCHhHHHHHHHhhhhhhhhc
Q 042723          173 EQYNKDLTLQEAETIALSILKQVMEEKVT-PNNVDIARVAPT-YH---LYTPSEVEAVINRPMSIRRKS  236 (262)
Q Consensus       173 ~~~~~~ms~eea~~la~~al~~~~~~d~s-~~~iev~ii~k~-~~---~~~~~ei~~~l~~~~~~~~~~  236 (262)
                      +.+..++++||+.++|+-+|...++.+++ |-.+++-++.+| ++   .+.-.|=++|+..|.+.|..-
T Consensus       160 R~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds~~v~~~~ri~edd~Y~a~ir~~W~~~  228 (255)
T COG3484         160 RTITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADSFSVRHTLRIREDDPYFAKIRSLWSSY  228 (255)
T ss_pred             hhhhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccceeeeeeeEeccCChHHHHHHHHHHHH
Confidence            99999999999999999999999999985 889999999999 32   333455578999998888654

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

Probab=99.21  E-value=1.5e-10  Score=92.93  Aligned_cols=160  Identities=19%  Similarity=0.228  Sum_probs=121.1

Q ss_pred             cCCcEEEEeec---------cccCCCCcCCCccCceEEEc-CcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 042723           33 LGSTAIGLKTK---------KRITSPLLEPSSVEKIKEID-EHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVE  102 (262)
Q Consensus        33 ~G~tiVgI~~~---------~~~~~~l~~~~~~~Ki~~I~-~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~  102 (262)
                      ++||||+++.+         ..+-++.+.+.+.+|+.+|. .+++.+++|..+|+..|.+.+..+++.|.         .
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~---------g   73 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQ---------G   73 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHcc---------C
Confidence            68999999988         12225677788888877774 48999999999999999999999988875         2


Q ss_pred             HHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeec--CeEEECCChhhHHHHHHhhcCC-CC
Q 042723          103 STTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC--NAKAIGSGSEGADSSLQEQYNK-DL  179 (262)
Q Consensus       103 ~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~--~~~a~G~gs~~a~~~Le~~~~~-~m  179 (262)
                      .|.+..-++.++|....   ..|-+.+.+||+--+    +++-+...|.+.+.  ...|+|+|..++.+.....+.. ++
T Consensus        74 ~L~raavelaKdwr~Dk---~lr~LEAmllVad~~----~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~l  146 (178)
T COG5405          74 DLFRAAVELAKDWRTDK---YLRKLEAMLLVADKT----HILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTEL  146 (178)
T ss_pred             cHHHHHHHHHHhhhhhh---HHHHHhhheeEeCCC----cEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCC
Confidence            33444445555565443   567788999998443    68999999988754  5999999999999999999865 56


Q ss_pred             CHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEe
Q 042723          180 TLQEAETIALSILKQVMEEKV-TPNNVDIARVA  211 (262)
Q Consensus       180 s~eea~~la~~al~~~~~~d~-s~~~iev~ii~  211 (262)
                      |   |.+++.++|..+.+-.. +..++.|-.+.
T Consensus       147 s---A~eIa~~sl~iA~eiciyTN~ni~ve~l~  176 (178)
T COG5405         147 S---AREIAEKSLKIAGDICIYTNHNIVVEELR  176 (178)
T ss_pred             C---HHHHHHHHHhhhheEEEecCCcEEEEEee
Confidence            5   66788888888765543 56666665543

>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=86.30  E-value=2.8  Score=35.31  Aligned_cols=49  Identities=20%  Similarity=0.324  Sum_probs=43.6

Q ss_pred             hhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCC-CCcEEEEEEeCC
Q 042723          165 EGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVT-PNNVDIARVAPT  213 (262)
Q Consensus       165 ~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s-~~~iev~ii~k~  213 (262)
                      +.+...|.+.|++.|+++++..++.++|..+.....+ +..+++...++.
T Consensus       131 ~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~  180 (194)
T PF09894_consen  131 EIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKK  180 (194)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEeccc
Confidence            7888999999999999999999999999999887764 778888887765

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

>COG4079 Uncharacterized protein conserved in archaea [Function unknown]

Probab=80.83  E-value=5.2  Score=34.99  Aligned_cols=63  Identities=19%  Similarity=0.267  Sum_probs=50.9

Q ss_pred             hhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC---eEEcCHhHHHHHH
Q 042723          164 SEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT---YHLYTPSEVEAVI  226 (262)
Q Consensus       164 s~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~---~~~~~~~ei~~~l  226 (262)
                      -+.+..+|.+.|.+.++++++.+++.++|..+..-.. .+..++++.+++.   +.++-..+++.+.
T Consensus       131 Ke~aneflk~~l~~k~~lqd~~dal~elfe~vss~tpsVskeydiy~vs~~~d~~~rl~kkDie~L~  197 (293)
T COG4079         131 KEVANEFLKDNLTKKSKLQDAVDALMELFETVSSKTPSVSKEYDIYQVSSNVDPVLRLVKKDIETLR  197 (293)
T ss_pred             HHHHHHHHHhhccCCCCHHHHHHHHHHHHHHhhcCCCcccceeEEEEecCCcCHHHHHHHHHHHHHH
Confidence            3567888999999999999999999999999986666 4788999999887   5566556665543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	262
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		1e-87
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		6e-87
1vsy_E	250	Proteasome Activator Complex Length = 250		2e-74
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		3e-74
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		3e-74
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		3e-74
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		7e-70
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		1e-69
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		2e-46
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		2e-46
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		2e-46
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		3e-42
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		4e-42
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		4e-42
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		2e-41
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		1e-40
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		2e-40
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		2e-36
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		2e-36
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		7e-36
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		4e-32
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		4e-32
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		5e-32
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		2e-31
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		3e-31
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		1e-29
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		1e-29
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		1e-29
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		2e-29
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		2e-29
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		2e-29
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		2e-29
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		2e-29
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		3e-29
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		3e-29
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		3e-29
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		4e-29
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		4e-29
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		9e-29
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		1e-28
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		1e-28
1vsy_C	232	Proteasome Activator Complex Length = 232		9e-28
1vsy_D	227	Proteasome Activator Complex Length = 227		8e-27
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		5e-26
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		8e-26
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		1e-25
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		1e-25
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		1e-25
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		2e-25
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		3e-25
1vsy_B	231	Proteasome Activator Complex Length = 231		3e-25
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		3e-19
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		4e-19
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		5e-11
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		7e-10
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		6e-09
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		6e-09
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		7e-09
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		7e-09
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		3e-08
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		4e-08
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		4e-07
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		5e-06
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		5e-06
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		9e-06
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		9e-06
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		2e-05
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		3e-05
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		5e-05
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		6e-05
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		9e-05

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

Iteration: 1
 Score =  319 bits (817), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 158/238 (66%), Positives = 190/238 (79%), Gaps = 12/238 (5%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
           MF TR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG++T        +KRITSPL+E
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60
Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120
Query: 113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180
Query: 171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
           LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct: 181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

Iteration: 1
 Score =  317 bits (811), Expect = 6e-87,   Method: Compositional matrix adjust.
 Identities = 157/238 (65%), Positives = 189/238 (79%), Gaps = 12/238 (5%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKT--------KKRITSPLLE 52
           MF TR+EYDRGVNTFSPEGRLFQVEY IEAIKLGSTAIG++T        +KRITSPL+E
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60
Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120
Query: 113 LRFGEGDEE--SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           L+FGE D +  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180
Query: 171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
           LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI
Sbjct: 181 LQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVI 238

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

Iteration: 1
 Score =  275 bits (702), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 137/220 (62%), Positives = 167/220 (75%), Gaps = 12/220 (5%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TR+EYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIG+ TK        KR TSPLLE
Sbjct: 1   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 60
Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             S+EKI EID HIGCAMSGL ADAR+++EHAR     H   Y E + VES TQ++CDL 
Sbjct: 61  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 120
Query: 113 LRFGE---GDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGAD 168
           LRFGE   G+E  MSRPFGV+LLIAG D ++G  L++ +PSGTF++ NAKAIGSGSEGA 
Sbjct: 121 LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ 180
Query: 169 SSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIA 208
           + L  +++  LTL+EAE + L ILKQVMEEK+  NN  ++
Sbjct: 181 AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLS 220

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

Iteration: 1
 Score =  275 bits (702), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 137/220 (62%), Positives = 167/220 (75%), Gaps = 12/220 (5%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TR+EYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIG+ TK        KR TSPLLE
Sbjct: 2   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 61
Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             S+EKI EID HIGCAMSGL ADAR+++EHAR     H   Y E + VES TQ++CDL 
Sbjct: 62  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 121
Query: 113 LRFGE---GDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGAD 168
           LRFGE   G+E  MSRPFGV+LLIAG D ++G  L++ +PSGTF++ NAKAIGSGSEGA 
Sbjct: 122 LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ 181
Query: 169 SSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIA 208
           + L  +++  LTL+EAE + L ILKQVMEEK+  NN  ++
Sbjct: 182 AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLS 221

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

Iteration: 1
 Score =  275 bits (702), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 137/220 (62%), Positives = 167/220 (75%), Gaps = 12/220 (5%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TR+EYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIG+ TK        KR TSPLLE
Sbjct: 3   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 62
Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             S+EKI EID HIGCAMSGL ADAR+++EHAR     H   Y E + VES TQ++CDL 
Sbjct: 63  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 122
Query: 113 LRFGE---GDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGAD 168
           LRFGE   G+E  MSRPFGV+LLIAG D ++G  L++ +PSGTF++ NAKAIGSGSEGA 
Sbjct: 123 LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ 182
Query: 169 SSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIA 208
           + L  +++  LTL+EAE + L ILKQVMEEK+  NN  ++
Sbjct: 183 AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLS 222

>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 =  275 bits (702), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 137/220 (62%), Positives = 167/220 (75%), Gaps = 12/220 (5%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TR+EYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIG+ TK        KR TSPLLE
Sbjct: 1   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 60
Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             S+EKI EID HIGCAMSGL ADAR+++EHAR     H   Y E + VES TQ++CDL 
Sbjct: 61  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 120
Query: 113 LRFGE---GDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGAD 168
           LRFGE   G+E  MSRPFGV+LLIAG D ++G  L++ +PSGTF++ NAKAIGSGSEGA 
Sbjct: 121 LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ 180
Query: 169 SSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIA 208
           + L  +++  LTL+EAE + L ILKQVMEEK+  NN  ++
Sbjct: 181 AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLS 220

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

Iteration: 1
 Score =  259 bits (663), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 131/212 (61%), Positives = 160/212 (75%), Gaps = 12/212 (5%)
Query: 9   DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIK 60
           DRGV+TFSPEGRLFQVEY++EAIKLGSTAIG+ TK        KR TSPLLE  S+EKI 
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60
Query: 61  EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE--- 117
           EID HIGCAMSGL ADAR+++EHAR     H   Y E + VES TQ++CDL LRFGE   
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120
Query: 118 GDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
           G+E  MSRPFGV+LLIAG D ++G  L++ +PSGTF++ NAKAIGSGSEGA + L  +++
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH 180
Query: 177 KDLTLQEAETIALSILKQVMEEKVTPNNVDIA 208
             LTL+EAE + L ILKQVMEEK+  NN  ++
Sbjct: 181 SSLTLKEAELLVLKILKQVMEEKLDENNAQLS 212

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

Iteration: 1
 Score =  259 bits (661), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 130/217 (59%), Positives = 160/217 (73%), Gaps = 15/217 (6%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TR+EYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIG+ TK        KR TSPLLE
Sbjct: 1   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 60
Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             S+EKI EID HIGCAMSGL ADAR+++EHAR     H   Y E + VES TQ++CDL 
Sbjct: 61  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 120
Query: 113 LRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSL 171
                    +MSRPFGV+LLIAG D ++G  L++ +PSGTF++ NAKAIGSGSEGA + L
Sbjct: 121 AA------AAMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 174
Query: 172 QEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIA 208
             +++  LTL+EAE + L ILKQVMEEK+  NN  ++
Sbjct: 175 LNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLS 211

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

Iteration: 1
 Score =  182 bits (461), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 97/230 (42%), Positives = 138/230 (60%), Gaps = 15/230 (6%)
Query: 10  RGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKE 61
           R +  FSP+GRLFQVEYA EA+K G+TAIG+K K        KR+ S LLE  ++EKI +
Sbjct: 1   RAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEADTIEKIYK 60
Query: 62  IDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEE 121
           IDEHI  A SGL+ADAR L++ AR+E Q +R +Y EP+TV+   + +CD   ++    + 
Sbjct: 61  IDEHICAATSGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQY---TQY 117
Query: 122 SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTL 181
              RPFGVSLLIAG DE  P LY TDPSG   +  A AIG G        +++Y  DL+ 
Sbjct: 118 GGVRPFGVSLLIAGVDEV-PKLYETDPSGALLEYKATAIGMGRNAVTEFFEKEYRDDLSF 176
Query: 182 QEAETIALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEAVINR 228
            +A  + L  +   +E ++ P N+++  V     T+   +P E++  + R
Sbjct: 177 DDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVER 226

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

Iteration: 1
 Score =  182 bits (461), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 93/208 (44%), Positives = 134/208 (64%), Gaps = 12/208 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSPEGRL+QVEYA EA++ G+TAIG+  K        +RITS L++  S+EKI
Sbjct: 12  YDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKI 71
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
            +ID+H+  A SGL+ADAR L++ AR+E Q +R +YGE +++E   + +CD+   +    
Sbjct: 72  FQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAY---T 128
Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RPFGVSLLIAG D+N   L+ TDPSG   +  A AIGSG       L+++Y  D+
Sbjct: 129 QHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDI 188
Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDI 207
           TL E   +A++ L +  E+ + P NVD+
Sbjct: 189 TLDEGLELAITALTKANED-IKPENVDV 215

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

Iteration: 1
 Score =  182 bits (461), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 98/239 (41%), Positives = 141/239 (58%), Gaps = 15/239 (6%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           M   +  YDR +  FSP+GRLFQVEYA EA+K G+TAIG+K K        KR+ S LLE
Sbjct: 1   MHLPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLE 60
Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             ++EKI +IDEHI  A SGL+ADAR L++ AR+E Q +R +Y  P+TV+   + +CD  
Sbjct: 61  KDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFK 120
Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
            ++    +    RPFGVSLLIAG +E  P LY TDPSG   +  A AIG G        +
Sbjct: 121 QQY---TQYGGVRPFGVSLLIAGVNEV-PKLYETDPSGALLEYKATAIGMGRMAVTEFFE 176
Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEAVINR 228
           ++Y  DL+  +A  + L  +   +E ++ P N+++  V     T+   +P E++  + R
Sbjct: 177 KEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVER 235

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

Iteration: 1
 Score =  168 bits (425), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 90/226 (39%), Positives = 137/226 (60%), Gaps = 13/226 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           YDR +  FSP+GRLFQVEYA EA+K GSTA+G+K        + K++ S L+E +S+EKI
Sbjct: 8   YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 67
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           + ID+++    SGL+ADAR LV+ AR+  Q  + +YG  + +E+  + + D + ++    
Sbjct: 68  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---T 124
Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RP+GVSL+ AG D+ GP L+  DP+GT  +  A AIGSG +   S L+ +Y ++L
Sbjct: 125 QYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENL 184
Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIAR--VAPTYHLYTPSEVE 223
             +EA T+ +  LK  +EE       +IA   V   Y +Y   EV+
Sbjct: 185 PEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVK 230

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

Iteration: 1
 Score =  168 bits (425), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 90/226 (39%), Positives = 137/226 (60%), Gaps = 13/226 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           YDR +  FSP+GRLFQVEYA EA+K GSTA+G+K        + K++ S L+E +S+EKI
Sbjct: 12  YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 71
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           + ID+++    SGL+ADAR LV+ AR+  Q  + +YG  + +E+  + + D + ++    
Sbjct: 72  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---T 128
Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RP+GVSL+ AG D+ GP L+  DP+GT  +  A AIGSG +   S L+ +Y ++L
Sbjct: 129 QYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENL 188
Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIAR--VAPTYHLYTPSEVE 223
             +EA T+ +  LK  +EE       +IA   V   Y +Y   EV+
Sbjct: 189 PEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVK 234

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

Iteration: 1
 Score =  167 bits (424), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 90/226 (39%), Positives = 137/226 (60%), Gaps = 13/226 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           YDR +  FSP+GRLFQVEYA EA+K GSTA+G+K        + K++ S L+E +S+EKI
Sbjct: 2   YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 61
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           + ID+++    SGL+ADAR LV+ AR+  Q  + +YG  + +E+  + + D + ++    
Sbjct: 62  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---T 118
Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RP+GVSL+ AG D+ GP L+  DP+GT  +  A AIGSG +   S L+ +Y ++L
Sbjct: 119 QYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENL 178
Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIAR--VAPTYHLYTPSEVE 223
             +EA T+ +  LK  +EE       +IA   V   Y +Y   EV+
Sbjct: 179 PEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVK 224

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

Iteration: 1
 Score =  165 bits (418), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 89/226 (39%), Positives = 136/226 (60%), Gaps = 13/226 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           Y R +  FSP+GRLFQVEYA EA+K GSTA+G+K        + K++ S L+E +S+EKI
Sbjct: 8   YSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 67
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           + ID+++    SGL+ADAR LV+ AR+  Q  + +YG  + +E+  + + D + ++    
Sbjct: 68  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---T 124
Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RP+GVSL+ AG D+ GP L+  DP+GT  +  A AIGSG +   S L+ +Y ++L
Sbjct: 125 QYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENL 184
Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIAR--VAPTYHLYTPSEVE 223
             +EA T+ +  LK  +EE       +IA   V   Y +Y   EV+
Sbjct: 185 PEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVK 230

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

Iteration: 1
 Score =  162 bits (411), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 88/224 (39%), Positives = 135/224 (60%), Gaps = 13/224 (5%)
Query: 10  RGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKIKE 61
           R +  FSP+GRLFQVEYA EA+K GSTA+G+K        + K++ S L+E +S+EKI+ 
Sbjct: 14  RAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQL 73
Query: 62  IDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEE 121
           ID+++    SGL+ADAR LV+ AR+  Q  + +YG  + +E+  + + D + ++    + 
Sbjct: 74  IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---TQY 130
Query: 122 SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTL 181
              RP+GVSL+ AG D+ GP L+  DP+GT  +  A AIGSG +   S L+ +Y ++L  
Sbjct: 131 GGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPE 190
Query: 182 QEAETIALSILKQVMEEKVTPNNVDIAR--VAPTYHLYTPSEVE 223
           +EA T+ +  LK  +EE       +IA   V   Y +Y   EV+
Sbjct: 191 KEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVK 234

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

Iteration: 1
 Score =  162 bits (410), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 88/224 (39%), Positives = 135/224 (60%), Gaps = 13/224 (5%)
Query: 10  RGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKIKE 61
           R +  FSP+GRLFQVEYA EA+K GSTA+G+K        + K++ S L+E +S+EKI+ 
Sbjct: 10  RAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQL 69
Query: 62  IDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEE 121
           ID+++    SGL+ADAR LV+ AR+  Q  + +YG  + +E+  + + D + ++    + 
Sbjct: 70  IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---TQY 126
Query: 122 SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTL 181
              RP+GVSL+ AG D+ GP L+  DP+GT  +  A AIGSG +   S L+ +Y ++L  
Sbjct: 127 GGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPE 186
Query: 182 QEAETIALSILKQVMEEKVTPNNVDIAR--VAPTYHLYTPSEVE 223
           +EA T+ +  LK  +EE       +IA   V   Y +Y   EV+
Sbjct: 187 KEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVK 230

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

Iteration: 1
 Score =  148 bits (374), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 88/231 (38%), Positives = 133/231 (57%), Gaps = 16/231 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+G LFQVEYA EA+K GSTA+G++ K        K+  + L +  +V KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
             +D+++  A +GL ADAR ++  ARVE Q+HR +  +P+TVE  T+ +  L  R+ + +
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 120 EESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
                RPFG+S LI G D +G P LY TDPSGT+    A AIG G++     L++ Y  D
Sbjct: 123 GR---RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDD 179
Query: 179 LTLQEAETIALSILKQVME-EKVTPNNVDIA--RVAPTYHLYTPSEVEAVI 226
               +  TI L ++K ++E  +    N+++A  R      +  P E+E  +
Sbjct: 180 AIETDDLTIKL-VIKALLEVVQSGGKNIELAVMRRDQPLKILNPEEIEKYV 229

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

Iteration: 1
 Score =  148 bits (374), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 87/230 (37%), Positives = 129/230 (56%), Gaps = 14/230 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+G LFQVEYA EA+K GSTA+G++ K        K+  + L +  +V KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVAKKSVAKLQDERTVRKI 62
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
             +D+++  A +GL ADAR ++  ARVE Q+HR +  +P+TVE  T+ +  L  R+ + +
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 120 EESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
                RPFG+S LI G D +G P LY TDPSGT+    A AIG G++     L++ Y  D
Sbjct: 123 GR---RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDD 179
Query: 179 LTLQEAETIALSILKQVMEEKVTPNNVDIA--RVAPTYHLYTPSEVEAVI 226
               +  TI L I   +   +    N+++A  R      +  P E+E  +
Sbjct: 180 AIETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQPLKILNPEEIEKYV 229

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

Iteration: 1
 Score =  147 bits (370), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 86/231 (37%), Positives = 134/231 (58%), Gaps = 16/231 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+G LFQVEYA EA+K GSTA+G++ +        K+  + L +  +V KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
             +D+++  A +GL ADAR ++  ARVE Q+HR +  +P+TVE  T+ +  L  R+ + +
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 120 EESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
                RPFG+S LI G D +G P LY TDPSGT+    A AIG G++     L++ Y  +
Sbjct: 123 GR---RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDE 179
Query: 179 LTLQEAETIALSILKQVME-EKVTPNNVDIA--RVAPTYHLYTPSEVEAVI 226
               +  TI L ++K ++E  +    N+++A  R   +  +  P E+E  +
Sbjct: 180 AIETDDLTIKL-VIKALLEVVQSGGKNIELAVMRRDQSLKILNPEEIEKYV 229

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

Iteration: 1
 Score =  134 bits (338), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 80/219 (36%), Positives = 130/219 (59%), Gaps = 19/219 (8%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK-------KRITSPLLEPSSV--EK 58
           YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+K K       +R ++  L+ + +   K
Sbjct: 4   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 63
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + +ID H+  + SGL AD+R L+E ARVE Q+HR +  +P+TVE  T+ +  +  R+ + 
Sbjct: 64  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 123
Query: 119 DEESMSRPFGVSLLIAGSD--ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
                 RPFGVS LIAG D  ++ P LY T+PSG +   +A+ IG  S+     L++ Y+
Sbjct: 124 ---GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD 180
Query: 177 KD---LTLQEAETIALSILKQVMEEKVTPNNVDIARVAP 212
           +     T++E   + +  L +V++      N++I  V P
Sbjct: 181 RKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKP 217

>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 =  134 bits (338), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 80/219 (36%), Positives = 130/219 (59%), Gaps = 19/219 (8%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK-------KRITSPLLEPSSV--EK 58
           YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+K K       +R ++  L+ + +   K
Sbjct: 4   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 63
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + +ID H+  + SGL AD+R L+E ARVE Q+HR +  +P+TVE  T+ +  +  R+   
Sbjct: 64  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY--- 120
Query: 119 DEESMSRPFGVSLLIAGSD--ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
            +    RPFGVS LIAG D  ++ P LY T+PSG +   +A+ IG  S+     L++ Y+
Sbjct: 121 TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD 180
Query: 177 KD---LTLQEAETIALSILKQVMEEKVTPNNVDIARVAP 212
           +     T++E   + +  L +V++      N++I  V P
Sbjct: 181 RKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKP 217

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

Iteration: 1
 Score =  134 bits (337), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 80/219 (36%), Positives = 130/219 (59%), Gaps = 19/219 (8%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK-------KRITSPLLEPSSV--EK 58
           YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+K K       +R ++  L+ + +   K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + +ID H+  + SGL AD+R L+E ARVE Q+HR +  +P+TVE  T+ +  +  R+ + 
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 121
Query: 119 DEESMSRPFGVSLLIAGSD--ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
                 RPFGVS LIAG D  ++ P LY T+PSG +   +A+ IG  S+     L++ Y+
Sbjct: 122 ---GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD 178
Query: 177 KD---LTLQEAETIALSILKQVMEEKVTPNNVDIARVAP 212
           +     T++E   + +  L +V++      N++I  V P
Sbjct: 179 RKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKP 215

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

Iteration: 1
 Score =  132 bits (331), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 76/225 (33%), Positives = 123/225 (54%), Gaps = 12/225 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           Y   + TFSP G+L Q+EYA+ A+  G+ ++G+K        T+K+  S L +  SV K+
Sbjct: 5   YSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKV 64
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           + I +HIG   SG+  D R LV  AR   Q +   Y EP+      Q +  ++  +    
Sbjct: 65  EPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEY---T 121
Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RPFGVSLLI G +E  P L+ +DPSG ++   A A+G       + L+++YN+DL
Sbjct: 122 QSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDL 181
Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-YHLYTPSEVE 223
            L++A   A+  LK+  E ++T +N+++       +   TP+EV+
Sbjct: 182 ELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVK 226

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

Iteration: 1
 Score =  132 bits (331), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 76/224 (33%), Positives = 122/224 (54%), Gaps = 12/224 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           Y   + TFSP G+L Q+EYA+ A+  G+ ++G+K        T+K+  S L +  SV K+
Sbjct: 6   YSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKV 65
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           + I +HIG   SG+  D R LV  AR   Q +   Y EP+      Q +  ++  +    
Sbjct: 66  EPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEY---T 122
Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RPFGVSLLI G +E  P L+ +DPSG ++   A A+G       + L+++YN+DL
Sbjct: 123 QSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDL 182
Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-YHLYTPSEV 222
            L++A   A+  LK+  E ++T +N+++       +   TP+EV
Sbjct: 183 ELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEV 226

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

Iteration: 1
 Score =  126 bits (316), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 74/234 (31%), Positives = 131/234 (55%), Gaps = 22/234 (9%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGLK--------TKKRITSPLLEPSSVEK 58
           +DR +  FSPEGRL+QVEYA +AI  G  T++ ++        T+K++   LL+ S+V  
Sbjct: 9   FDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTH 68
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + +I E+IGC M+G+ AD+R+ V+ AR E  N ++ YG  + V+   + + D+   + + 
Sbjct: 69  LFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQN 128
Query: 119 DEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS--LQEQY 175
            E    RP G  +++ G D E GP +Y  DP+G +  C  KA  +G +  +S+  L+++ 
Sbjct: 129 AE---MRPLGCCMILIGIDEEQGPQVYKCDPAGYY--CGFKATAAGVKQTESTSFLEKKV 183
Query: 176 NK--DLTLQEAETIALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEA 224
            K  D T ++    A++ L  V+     P+ +++  V    P + + T +E++A
Sbjct: 184 KKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDA 237

>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 =  126 bits (316), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 113/200 (56%), Gaps = 13/200 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG--------LKTKKRITSPLLE-PSSVEK 58
           YD     FSPEGRL+QVEYA+E+I    TAIG        L  ++++TS LLE  +S EK
Sbjct: 6   YDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEK 65
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + ++++ I  A++GL ADA  L+  AR+  QN+  +Y E + VE   + L D+   +   
Sbjct: 66  LYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY--- 122
Query: 119 DEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            +    RPFGVS + AG D+  G  LY ++PSG +    A ++G+ +  A + LQ  Y  
Sbjct: 123 TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKD 182
Query: 178 DLTLQEAETIALSILKQVME 197
           D+ + +A  +AL  L +  +
Sbjct: 183 DMKVDDAIELALKTLSKTTD 202

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

Iteration: 1
 Score =  126 bits (316), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 113/200 (56%), Gaps = 13/200 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG--------LKTKKRITSPLLE-PSSVEK 58
           YD     FSPEGRL+QVEYA+E+I    TAIG        L  ++++TS LLE  +S EK
Sbjct: 6   YDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEK 65
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + ++++ I  A++GL ADA  L+  AR+  QN+  +Y E + VE   + L D+   +   
Sbjct: 66  LYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY--- 122
Query: 119 DEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            +    RPFGVS + AG D+  G  LY ++PSG +    A ++G+ +  A + LQ  Y  
Sbjct: 123 TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKD 182
Query: 178 DLTLQEAETIALSILKQVME 197
           D+ + +A  +AL  L +  +
Sbjct: 183 DMKVDDAIELALKTLSKTTD 202

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

Iteration: 1
 Score =  125 bits (315), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 113/200 (56%), Gaps = 13/200 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG--------LKTKKRITSPLLE-PSSVEK 58
           YD     FSPEGRL+QVEYA+E+I    TAIG        L  ++++TS LLE  +S EK
Sbjct: 5   YDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEK 64
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + ++++ I  A++GL ADA  L+  AR+  QN+  +Y E + VE   + L D+   +   
Sbjct: 65  LYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY--- 121
Query: 119 DEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            +    RPFGVS + AG D+  G  LY ++PSG +    A ++G+ +  A + LQ  Y  
Sbjct: 122 TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKD 181
Query: 178 DLTLQEAETIALSILKQVME 197
           D+ + +A  +AL  L +  +
Sbjct: 182 DMKVDDAIELALKTLSKTTD 201

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

Iteration: 1
 Score =  125 bits (315), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 78/214 (36%), Positives = 123/214 (57%), Gaps = 13/214 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           Y   + TFSP G+L Q++YA+ A+K G T++G+K        T+K+ +SPL    ++ K+
Sbjct: 5   YSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKV 64
Query: 60  KEIDEHIGCAMSGLIADARTLVEHAR-VETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
             +   IG   SG+  D R LV+ +R V   +++  YGE      T   + ++     E 
Sbjct: 65  SLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGE---YPPTKLLVSEVAKIMQEA 121
Query: 119 DEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            +    RPFGVSLLIAG DE NG SLY  DPSG+++   A AIG GS  A + L++++N 
Sbjct: 122 TQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWND 181
Query: 178 DLTLQEAETIALSILKQVMEEKVTPNNVDIARVA 211
           +L L++A  IAL  LK+ +E +   + +++A + 
Sbjct: 182 ELELEDAIHIALLTLKESVEGEFNGDTIELAIIG 215

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

Iteration: 1
 Score =  125 bits (315), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 76/205 (37%), Positives = 111/205 (54%), Gaps = 16/205 (7%)
Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVE 57
           T YD   + FSP+GR FQVEYA++A++ G+T+IG+K         +K ITS LL P    
Sbjct: 6   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 65
Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           KI+ +D HIGC  SGLI D R LV   R E  + +  Y  P+ +     A  D + ++ +
Sbjct: 66  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIP----AFADRLGQYVQ 121
Query: 118 GDEESMS-RPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ---E 173
                 S RPFGVS +  G D+NG  LY  +PSG++W     A G G + A + L+   +
Sbjct: 122 AHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVD 181
Query: 174 QYNKDLTLQEAETIALSILKQVMEE 198
            + + L+ +EA   A  I+    E+
Sbjct: 182 HHPEGLSAREAVKQAAKIIYLAHED 206

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

Iteration: 1
 Score =  125 bits (314), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 76/205 (37%), Positives = 111/205 (54%), Gaps = 16/205 (7%)
Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVE 57
           T YD   + FSP+GR FQVEYA++A++ G+T+IG+K         +K ITS LL P    
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61
Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           KI+ +D HIGC  SGLI D R LV   R E  + +  Y  P+ +     A  D + ++ +
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIP----AFADRLGQYVQ 117
Query: 118 GDEESMS-RPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ---E 173
                 S RPFGVS +  G D+NG  LY  +PSG++W     A G G + A + L+   +
Sbjct: 118 AHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVD 177
Query: 174 QYNKDLTLQEAETIALSILKQVMEE 198
            + + L+ +EA   A  I+    E+
Sbjct: 178 HHPEGLSAREAVKQAAKIIYLAHED 202

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

Iteration: 1
 Score =  125 bits (314), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 74/234 (31%), Positives = 130/234 (55%), Gaps = 22/234 (9%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGLK--------TKKRITSPLLEPSSVEK 58
           +DR +  FSPEGRL+QVEYA +AI  G  T++ ++        T+K++   LL+ S+V  
Sbjct: 9   FDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTH 68
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + +I E IGC M+G+ AD+R+ V+ AR E  N ++ YG  + V+   + + D+   + + 
Sbjct: 69  LFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQN 128
Query: 119 DEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS--LQEQY 175
            E    RP G  +++ G D E GP +Y  DP+G +  C  KA  +G +  +S+  L+++ 
Sbjct: 129 AE---MRPLGCCMILIGIDEEQGPQVYKCDPAGYY--CGFKATAAGVKQTESTSFLEKKV 183
Query: 176 NK--DLTLQEAETIALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEA 224
            K  D T ++    A++ L  V+     P+ +++  V    P + + T +E++A
Sbjct: 184 KKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDA 237

>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 =  125 bits (314), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 76/205 (37%), Positives = 111/205 (54%), Gaps = 16/205 (7%)
Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVE 57
           T YD   + FSP+GR FQVEYA++A++ G+T+IG+K         +K ITS LL P    
Sbjct: 5   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 64
Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           KI+ +D HIGC  SGLI D R LV   R E  + +  Y  P+ +     A  D + ++ +
Sbjct: 65  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIP----AFADRLGQYVQ 120
Query: 118 GDEESMS-RPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ---E 173
                 S RPFGVS +  G D+NG  LY  +PSG++W     A G G + A + L+   +
Sbjct: 121 AHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVD 180
Query: 174 QYNKDLTLQEAETIALSILKQVMEE 198
            + + L+ +EA   A  I+    E+
Sbjct: 181 HHPEGLSAREAVKQAAKIIYLAHED 205

>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 =  125 bits (313), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 76/205 (37%), Positives = 111/205 (54%), Gaps = 16/205 (7%)
Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVE 57
           T YD   + FSP+GR FQVEYA++A++ G+T+IG+K         +K ITS LL P    
Sbjct: 6   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 65
Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           KI+ +D HIGC  SGLI D R LV   R E  + +  Y  P+ +     A  D + ++ +
Sbjct: 66  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIP----AFADRLGQYVQ 121
Query: 118 GDEESMS-RPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ---E 173
                 S RPFGVS +  G D+NG  LY  +PSG++W     A G G + A + L+   +
Sbjct: 122 AHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVD 181
Query: 174 QYNKDLTLQEAETIALSILKQVMEE 198
            + + L+ +EA   A  I+    E+
Sbjct: 182 HHPEGLSAREAVKQAAKIIYLAHED 206

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

Iteration: 1
 Score =  125 bits (313), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 81/226 (35%), Positives = 119/226 (52%), Gaps = 31/226 (13%)
Query: 5   RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSV 56
           R +YD  V  +SP+GR+ Q+EYA+EA+K GS  +GLK+K        KR  S L   +  
Sbjct: 3   RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSEL--AAHQ 60
Query: 57  EKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVE-------STTQALC 109
           +KI  +D HIG +++GL ADAR L    R E  + RF +  P+ V        S TQ   
Sbjct: 61  KKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPT 120
Query: 110 DLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADS 169
               R+G        RP+GV LLIAG D+ GP ++ T PS  ++ C A +IG+ S+ A +
Sbjct: 121 Q---RYGR-------RPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSART 170
Query: 170 SLQEQYNK--DLTLQEAETIALSILKQVM--EEKVTPNNVDIARVA 211
            L+   ++  +  L E     L  L++ +  E+ +T  NV I  V 
Sbjct: 171 YLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVG 216

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

Iteration: 1
 Score =  124 bits (312), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 83/244 (34%), Positives = 126/244 (51%), Gaps = 33/244 (13%)
Query: 5   RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSV 56
           R +YD  V  +SP+GR+ Q+EYA+EA+K GS  +GLK+K        KR  S L   +  
Sbjct: 3   RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSEL--AAHQ 60
Query: 57  EKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVE-------STTQALC 109
           +KI  +D HIG +++GL ADAR L    R E  + RF +  P+ V        S TQ   
Sbjct: 61  KKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPT 120
Query: 110 DLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADS 169
               R+G        RP+GV LLIAG D+ GP ++ T PS  ++ C A +IG+ S+ A +
Sbjct: 121 Q---RYGR-------RPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSART 170
Query: 170 SLQEQYNK--DLTLQEAETIALSILKQVM--EEKVTPNNVDIARVAPT--YHLYTPSEVE 223
            L+   ++  +  L E     L  L++ +  E+ +T  NV I  V     + +Y   +V 
Sbjct: 171 YLERHMSEFMECNLDELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVS 230
Query: 224 AVIN 227
             ++
Sbjct: 231 PFLD 234

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

Iteration: 1
 Score =  124 bits (312), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 75/203 (36%), Positives = 110/203 (54%), Gaps = 16/203 (7%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKI 59
           YD   + FSP+GR FQVEYA++A++ G+T+IG+K         +K ITS LL P    KI
Sbjct: 2   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 61
Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           + +D HIGC  SGLI D R LV   R E  + +  Y  P+ +     A  D + ++ +  
Sbjct: 62  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIP----AFADRLGQYVQAH 117
Query: 120 EESMS-RPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ---EQY 175
               S RPFGVS +  G D+NG  LY  +PSG++W     A G G + A + L+   + +
Sbjct: 118 TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 177
Query: 176 NKDLTLQEAETIALSILKQVMEE 198
            + L+ +EA   A  I+    E+
Sbjct: 178 PEGLSAREAVKQAAKIIYLAHED 200

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

Iteration: 1
 Score =  123 bits (309), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 78/216 (36%), Positives = 117/216 (54%), Gaps = 21/216 (9%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGL---------KTKKRITSPLLEPSSVEK 58
           YD     FSPEGRL+QVEYA+EAI    T +G+           ++ I   L E    EK
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEK 64
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL---VLRF 115
           I +++E + C+++G+ +DA  L    R+  Q +   Y EP+  E    ALCD+     +F
Sbjct: 65  IYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQF 124
Query: 116 GEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
           G        RPFGVSLL  G D++ G  LY +DPSG +    A  IG+ S  A S L++ 
Sbjct: 125 GG------KRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQD 178
Query: 175 YNK-DLTLQEAETIALSILKQVME-EKVTPNNVDIA 208
           Y + ++TL+ A  +A+ +L + M+  K++   V+IA
Sbjct: 179 YKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIA 214

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

Iteration: 1
 Score =  123 bits (308), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 78/216 (36%), Positives = 117/216 (54%), Gaps = 21/216 (9%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGL---------KTKKRITSPLLEPSSVEK 58
           YD     FSPEGRL+QVEYA+EAI    T +G+           ++ I   L E    EK
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEK 64
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDL---VLRF 115
           I +++E + C+++G+ +DA  L    R+  Q +   Y EP+  E    ALCD+     +F
Sbjct: 65  IYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQF 124
Query: 116 GEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
           G        RPFGVSLL  G D++ G  LY +DPSG +    A  IG+ S  A S L++ 
Sbjct: 125 GG------KRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQD 178
Query: 175 YNK-DLTLQEAETIALSILKQVME-EKVTPNNVDIA 208
           Y + ++TL+ A  +A+ +L + M+  K++   V+IA
Sbjct: 179 YKEGEMTLKSALALAVKVLNKTMDVSKLSAEKVEIA 214

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

Iteration: 1
 Score =  123 bits (308), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 71/193 (36%), Positives = 111/193 (57%), Gaps = 13/193 (6%)
Query: 15  FSPEGRLFQVEYAIEAIKLGSTAIG--------LKTKKRITSPLLE-PSSVEKIKEIDEH 65
           FSPEGRL+QVEYA+E+I    TAIG        L  ++++TS LLE  +S EK+ ++++ 
Sbjct: 3   FSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDK 62
Query: 66  IGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSR 125
           I  A++GL ADA  L+  AR+  QN+  +Y E + VE   + L D+   +    +    R
Sbjct: 63  IAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY---TQHGGLR 119
Query: 126 PFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA 184
           PFGVS + AG D+  G  LY ++PSG +    A ++G+ +  A + LQ  Y  D+ + +A
Sbjct: 120 PFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDA 179
Query: 185 ETIALSILKQVME 197
             +AL  L +  +
Sbjct: 180 IELALKTLSKTTD 192

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

Iteration: 1
 Score =  120 bits (301), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 70/192 (36%), Positives = 110/192 (57%), Gaps = 13/192 (6%)
Query: 16  SPEGRLFQVEYAIEAIKLGSTAIG--------LKTKKRITSPLLE-PSSVEKIKEIDEHI 66
           SPEGRL+QVEYA+E+I    TAIG        L  ++++TS LLE  +S EK+ ++++ I
Sbjct: 1   SPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKI 60
Query: 67  GCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRP 126
             A++GL ADA  L+  AR+  QN+  +Y E + VE   + L D+   +    +    RP
Sbjct: 61  AVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY---TQHGGLRP 117
Query: 127 FGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE 185
           FGVS + AG D+  G  LY ++PSG +    A ++G+ +  A + LQ  Y  D+ + +A 
Sbjct: 118 FGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAI 177
Query: 186 TIALSILKQVME 197
            +AL  L +  +
Sbjct: 178 ELALKTLSKTTD 189

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

Iteration: 1
 Score =  117 bits (292), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 120/206 (58%), Gaps = 19/206 (9%)
Query: 21  LFQVEYAIEAIKLGSTAIGLKTK-------KRITSPLLEPSSV--EKIKEIDEHIGCAMS 71
           +FQVEYA+EA+K G+ A+G+K K       +R ++  L+ + +   K+ +ID H+  + S
Sbjct: 1   IFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFS 60
Query: 72  GLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSL 131
           GL AD+R L+E ARVE Q+HR +  +P+TVE  T+ +  +  R+ +       RPFGVS 
Sbjct: 61  GLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS---GGVRPFGVST 117
Query: 132 LIAGSD--ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD---LTLQEAET 186
           LIAG D  ++ P LY T+PSG +   +A+ IG  S+     L++ Y++     T++E   
Sbjct: 118 LIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVK 177
Query: 187 IALSILKQVMEEKVTPNNVDIARVAP 212
           + +  L +V++      N++I  V P
Sbjct: 178 LTVRSLLEVVQ--TGAKNIEITVVKP 201

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

Iteration: 1
 Score =  114 bits (285), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 76/224 (33%), Positives = 115/224 (51%), Gaps = 20/224 (8%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVE--- 57
           MF  R  YD    TFSP GRLFQVEYA+EAIK GS  +GL++        L+ ++ E   
Sbjct: 1   MF--RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS 58
Query: 58  ---KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
              KI + DEH+G +++GL  DAR L  + R +       +   + VE     LCD   +
Sbjct: 59  YQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCD---K 115
Query: 115 FGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
             +  + +  RP+GV LLI G D++G  L    PSG   +    AIG+ S+GA + L+  
Sbjct: 116 AQKNTQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERT 175
Query: 175 YNKDLTLQ-------EAETIALSILKQVMEEKVTPNNVDIARVA 211
            +  + +        +A   A+S  + + +E +T +N+ IA V 
Sbjct: 176 LDTFIKIDGNPDELIKAGVEAIS--QSLRDESLTVDNLSIAIVG 217

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

Iteration: 1
 Score =  113 bits (283), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 74/220 (33%), Positives = 113/220 (51%), Gaps = 18/220 (8%)
Query: 5   RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVE------K 58
           R  YD    TFSP GRLFQVEYA+EAIK GS  +GL++        L+ ++ E      K
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSYQKK 61
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I + DEH+G +++GL  DAR L  + R +       +   + VE     LCD   +  + 
Sbjct: 62  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCD---KAQKN 118
Query: 119 DEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
            + +  RP+GV LLI G D++G  L    PSG   +    AIG+ S+GA + L+   +  
Sbjct: 119 TQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTF 178
Query: 179 LTLQ-------EAETIALSILKQVMEEKVTPNNVDIARVA 211
           + +        +A   A+S  + + +E +T +N+ IA V 
Sbjct: 179 IKIDGNPDELIKAGVEAIS--QSLRDESLTVDNLSIAIVG 216

>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 (282), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 76/224 (33%), Positives = 114/224 (50%), Gaps = 20/224 (8%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVE--- 57
           MF  R  YD    TFSP GRLFQVEYA+EAIK GS  +GL++        L+ ++ E   
Sbjct: 1   MF--RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS 58
Query: 58  ---KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
              KI + DEH+G +++GL  DAR L  + R +       +   + VE     LCD   +
Sbjct: 59  YQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCD---K 115
Query: 115 FGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
             +  +    RP+GV LLI G D++G  L    PSG   +    AIG+ S+GA + L+  
Sbjct: 116 AQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERT 175
Query: 175 YNKDLTLQ-------EAETIALSILKQVMEEKVTPNNVDIARVA 211
            +  + +        +A   A+S  + + +E +T +N+ IA V 
Sbjct: 176 LDTFIKIDGNPDELIKAGVEAIS--QSLRDESLTVDNLSIAIVG 217

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

Iteration: 1
 Score =  113 bits (282), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 76/224 (33%), Positives = 114/224 (50%), Gaps = 20/224 (8%)
Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVE--- 57
           MF  R  YD    TFSP GRLFQVEYA+EAIK GS  +GL++        L+ ++ E   
Sbjct: 2   MF--RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS 59
Query: 58  ---KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
              KI + DEH+G +++GL  DAR L  + R +       +   + VE     LCD   +
Sbjct: 60  YQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCD---K 116
Query: 115 FGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
             +  +    RP+GV LLI G D++G  L    PSG   +    AIG+ S+GA + L+  
Sbjct: 117 AQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERT 176
Query: 175 YNKDLTLQ-------EAETIALSILKQVMEEKVTPNNVDIARVA 211
            +  + +        +A   A+S  + + +E +T +N+ IA V 
Sbjct: 177 LDTFIKIDGNPDELIKAGVEAIS--QSLRDESLTVDNLSIAIVG 218

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

Iteration: 1
 Score =  113 bits (282), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 70/205 (34%), Positives = 112/205 (54%), Gaps = 18/205 (8%)
Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVE 57
           T YD   +TFSP+GR+FQVEYA++A++  STAIG++ K        K + S L E  S +
Sbjct: 6   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 65
Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           ++  +D H+G A++GL+ADAR+L + AR E  N R ++G  + ++     +   V  +  
Sbjct: 66  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAY-- 123
Query: 118 GDEESMSRPFGVSLLIAG-SDENGPSLYYTDPSGT---FWQCNAKAIGSGSEGADSSLQE 173
               S  RPFG S ++   S  +G  LY  DPSG    +W C   AIG   + A + +++
Sbjct: 124 -TLYSAVRPFGCSFMLGSYSANDGAQLYMIDPSGVSYGYWGC---AIGKARQAAKTEIEK 179
Query: 174 QYNKDLTLQEAETIALSILKQVMEE 198
              K++T ++       I+  V +E
Sbjct: 180 LQMKEMTCRDVVKEVAKIIYIVHDE 204

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

Iteration: 1
 Score =  112 bits (281), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 74/220 (33%), Positives = 112/220 (50%), Gaps = 18/220 (8%)
Query: 5   RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKKRITSPLLEPSSVE------K 58
           R  YD    TFSP GRLFQVEYA+EAIK GS  +GL++        L+ ++ E      K
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSYQKK 61
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I + DEH+G +++GL  DAR L  + R +       +   + VE     LCD   +  + 
Sbjct: 62  IIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCD---KAQKN 118
Query: 119 DEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
            +    RP+GV LLI G D++G  L    PSG   +    AIG+ S+GA + L+   +  
Sbjct: 119 TQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTF 178
Query: 179 LTLQ-------EAETIALSILKQVMEEKVTPNNVDIARVA 211
           + +        +A   A+S  + + +E +T +N+ IA V 
Sbjct: 179 IKIDGNPDELIKAGVEAIS--QSLRDESLTVDNLSIAIVG 216

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

Iteration: 1
 Score =  112 bits (279), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 70/205 (34%), Positives = 112/205 (54%), Gaps = 18/205 (8%)
Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVE 57
           T YD   +TFSP+GR+FQVEYA++A++  STAIG++ K        K + S L E  S +
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64
Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           ++  +D H+G A++GL+ADAR+L + AR E  N R ++G  + ++     +   V  +  
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAY-- 122
Query: 118 GDEESMSRPFGVSLLIAG-SDENGPSLYYTDPSGT---FWQCNAKAIGSGSEGADSSLQE 173
               S  RPFG S ++   S  +G  LY  DPSG    +W C   AIG   + A + +++
Sbjct: 123 -TLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGC---AIGKARQAAKTEIEK 178
Query: 174 QYNKDLTLQEAETIALSILKQVMEE 198
              K++T ++       I+  V +E
Sbjct: 179 LQMKEMTCRDIVKEVAKIIYIVHDE 203

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

Iteration: 1
 Score =  111 bits (278), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 71/199 (35%), Positives = 114/199 (57%), Gaps = 13/199 (6%)
Query: 23  QVEYAIEAIKLGSTAIGLK--------TKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLI 74
           Q++YA+ A+K G T++G+K        T+K+ +SPL    ++ K+  +   IG   SG+ 
Sbjct: 1   QIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMG 60
Query: 75  ADARTLVEHAR-VETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLI 133
            D R LV+ +R V   +++  YGE      T   + ++     E  +    RPFGVSLLI
Sbjct: 61  PDYRVLVDKSRKVAHTSYKRIYGE---YPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLI 117
Query: 134 AGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSIL 192
           AG DE NG SLY  DPSG+++   A AIG GS  A + L++++N +L L++A  IAL  L
Sbjct: 118 AGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTL 177
Query: 193 KQVMEEKVTPNNVDIARVA 211
           K+ +E +   + +++A + 
Sbjct: 178 KESVEGEFNGDTIELAIIG 196

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

Iteration: 1
 Score = 92.0 bits (227), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 60/180 (33%), Positives = 91/180 (50%), Gaps = 13/180 (7%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIK---LGSTAIGLK------TKKRITSPLLEPSSVEK 58
           YDR +  FSPEGRL+QVEYA +A     + S A+  K      ++K++   LL+P++V  
Sbjct: 12  YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 71
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I  I   IG  ++G I DAR     A+ E    R+ YG  M  +   + + +L   +   
Sbjct: 72  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT-- 129
Query: 119 DEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            + +  RP GV L     DE  GPS+Y TDP+G +    A A G   +   ++L+  + K
Sbjct: 130 -QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKK 188

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

Iteration: 1
 Score = 91.7 bits (226), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 60/180 (33%), Positives = 91/180 (50%), Gaps = 13/180 (7%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIK---LGSTAIGLK------TKKRITSPLLEPSSVEK 58
           YDR +  FSPEGRL+QVEYA +A     + S A+  K      ++K++   LL+P++V  
Sbjct: 3   YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 62
Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I  I   IG  ++G I DAR     A+ E    R+ YG  M  +   + + +L   +   
Sbjct: 63  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT-- 120
Query: 119 DEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            + +  RP GV L     DE  GPS+Y TDP+G +    A A G   +   ++L+  + K
Sbjct: 121 -QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKK 179

>pdb|3UNF|H Chain H, Mouse 20s Immunoproteasome In Complex With Pr-957 Length = 234

Iteration: 1
 Score = 64.7 bits (156), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 74/153 (48%), Gaps = 9/153 (5%)
Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
           S EKI  I   I C  +G+ AD       A  + + H  S G    V + T+ L   + R
Sbjct: 30  SCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFR 89
Query: 115 FGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
           + +G         G SL++ G D NGP LY   P G++ +    A+GSG   A + L+++
Sbjct: 90  Y-QGH-------VGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDR 141
Query: 175 YNKDLTLQEA-ETIALSILKQVMEEKVTPNNVD 206
           +  ++TL+ A E +  +I   ++ +  +  NVD
Sbjct: 142 FQPNMTLEAAQELLVEAITAGILSDLGSGGNVD 174

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

Iteration: 1
 Score = 60.8 bits (146), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 45/193 (23%), Positives = 91/193 (47%), Gaps = 11/193 (5%)
Query: 40  LKTKKRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEP 98
           + T+KR T    +   + +KI +I + +    +G + DA+ L    ++E   +       
Sbjct: 14  MATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERK 73
Query: 99  MTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDP-SGTFWQCNA 157
            TV +      +L+  +          P+ V LLI G D  G S+Y  DP  G   + + 
Sbjct: 74  PTVRAIATLTSNLLNSY-------RYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDI 126
Query: 158 KAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-EKVTPNNVDIARVAPT-YH 215
            A GSGS  A   L++++  ++ + EA  +A+  +   M+ +  + + +D+ ++    ++
Sbjct: 127 VATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDEFY 186
Query: 216 LYTPSEVEAVINR 228
            Y+P EVE ++ +
Sbjct: 187 QYSPEEVEQILAK 199

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 48/196 (24%), Positives = 93/196 (47%), Gaps = 12/196 (6%)
Query: 37  AIGLKTKKRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSY 95
           A+ L T KR +   L+     +K+ +ID++I   ++G + DA+ +V     E + ++   
Sbjct: 12  AVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRT 71
Query: 96  GEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQ 154
           G  +   +    L +++         S   PF   ++I G D   G  L+  DP G   +
Sbjct: 72  GRNIPPLACATLLSNIL-------HSSRMFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNE 124
Query: 155 CNA-KAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-EKVTPNNVDIARVAP 212
                A GSGS  A   L+  Y++D++++E   +AL+ LK  ME +  + N + +A +  
Sbjct: 125 EKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFSGNGISLAVITK 184
Query: 213 T-YHLYTPSEVEAVIN 227
               ++   E+E +++
Sbjct: 185 DGVKIFEDEEIEKILD 200

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 43/178 (24%), Positives = 87/178 (48%), Gaps = 14/178 (7%)
Query: 37  AIGLKTKKRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSY 95
           A+ + T++R+T    +   + +K+ +ID + G  ++GL+ DA+ LV + + E + +R   
Sbjct: 11  AVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQR 70
Query: 96  GEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC 155
              M +E+    L +++        +    P+ V LL+ G D   P ++  D +G   + 
Sbjct: 71  RVNMPIEAVATLLSNML-------NQVKYMPYMVQLLVGGID-TAPHVFSIDAAGGSVED 122
Query: 156 NAKAIGSGSEGADSSLQEQYNKDLTLQEAETI---ALSILKQVMEEKVTPNNVDIARV 210
              + GSGS      L+ QY++ +T+ E   +   A+S  KQ   +  +   +D+A +
Sbjct: 123 IYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQ--RDSASGGMIDVAVI 178

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 45/194 (23%), Positives = 93/194 (47%), Gaps = 22/194 (11%)
Query: 29  EAIKLGSTAIG--------LKTKKRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
           + ++ G+T +G        + T++R+T    +   + +K+ +ID + G  ++GL+ DA+ 
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQV 62
Query: 80  LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN 139
           LV + + E + +R      M +E+    L +++        +    P+ V LL+ G D  
Sbjct: 63  LVRYMKAELELYRLQRRVNMPIEAVATLLSNML-------NQVKYMPYMVQLLVGGID-T 114
Query: 140 GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETI---ALSILKQVM 196
            P ++  D +G   +    + GSGS      L+ QY++ +T+ E   +   A+S  KQ  
Sbjct: 115 APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQ-- 172
Query: 197 EEKVTPNNVDIARV 210
            +  +   +D+A +
Sbjct: 173 RDSASGGMIDVAVI 186

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 45/194 (23%), Positives = 93/194 (47%), Gaps = 22/194 (11%)
Query: 29  EAIKLGSTAIG--------LKTKKRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
           + ++ G+T +G        + T++R+T    +   + +K+ +ID + G  ++GL+ DA+ 
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQV 62
Query: 80  LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN 139
           LV + + E + +R      M +E+    L +++        +    P+ V LL+ G D  
Sbjct: 63  LVRYMKAELELYRLQRRVNMPIEAVATLLSNML-------NQVKYMPYMVQLLVGGID-T 114
Query: 140 GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETI---ALSILKQVM 196
            P ++  D +G   +    + GSGS      L+ QY++ +T+ E   +   A+S  KQ  
Sbjct: 115 APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQ-- 172
Query: 197 EEKVTPNNVDIARV 210
            +  +   +D+A +
Sbjct: 173 RDSASGGMIDVAVI 186

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 42/151 (27%), Positives = 74/151 (49%), Gaps = 21/151 (13%)
Query: 51  LEPSSVEKIKEIDEHIGCAMSGLIADA----RTLVEHARV-ETQNHRFSYGEPMTVESTT 105
           +   +V+K+ EI+ ++   M+G  AD     R L    R+ E +N      E ++V + +
Sbjct: 26  IASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNK-----ERISVAAAS 80
Query: 106 QALCDLVLRFGEGDEESMSRPFGVSL--LIAGSDENGPSLYYTDPSGTFWQCNAKAIGSG 163
           + L ++V ++         +  G+S+  +I G D+ GP LYY D  G      A ++GSG
Sbjct: 81  KLLANMVYQY---------KGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSG 131
Query: 164 SEGADSSLQEQYNKDLTLQEAETIALSILKQ 194
           S  A   +   Y+ DL ++EA  +A   + Q
Sbjct: 132 SVYAYGVMDRGYSYDLKVEEAYDLARRAIYQ 162

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 37/135 (27%), Positives = 67/135 (49%), Gaps = 11/135 (8%)
Query: 56  VEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRF 115
           + K+ EI+ ++   MSG  AD +        E + +    GE ++V + ++ L +++L++
Sbjct: 31  MNKVIEINPYLLGTMSGCAADCQYWERLLAKECRLYYLRNGERISVSAASKLLSNMMLQY 90
Query: 116 GEGDEESMSRPFGVSL--LIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQE 173
                    R  G+S+  +I G D+ GP LYY D +GT       + GSG+  A   +  
Sbjct: 91  ---------RGMGLSMGSMICGWDKKGPGLYYVDDNGTRLSGQMFSTGSGNTYAYGVMDS 141
Query: 174 QYNKDLTLQEAETIA 188
            Y +DL+ +EA  + 
Sbjct: 142 GYRQDLSPEEAYDLG 156

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 77/172 (44%), Gaps = 21/172 (12%)
Query: 30  AIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADA----RTLVEHAR 85
           A K     I     +      +   +V+K+ EI+ ++   M+G  AD     R L    R
Sbjct: 5   AFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCR 64
Query: 86  V-ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSL--LIAGSDENGPS 142
           + E +N      E ++V + ++ L ++V ++         +  G+S+  +I G D+ GP 
Sbjct: 65  IYELRNK-----ERISVAAASKLLANMVYQY---------KGMGLSMGTMICGWDKRGPG 110
Query: 143 LYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQ 194
           LYY D  G        ++GSGS  A   +   Y+ DL +++A  +A   + Q
Sbjct: 111 LYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQ 162

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 39/164 (23%), Positives = 78/164 (47%), Gaps = 7/164 (4%)
Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
           +V+K+ EI+  +   M+G  AD +        + + H     E ++V + ++ L +LV +
Sbjct: 105 TVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQ 164
Query: 115 FGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
           + +G   SM      +++   + + GP++YY D  GT  + +   +GSG   A   L   
Sbjct: 165 Y-KGAGLSMG-----TMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSN 218
Query: 175 YNKDLTLQEAETIA-LSILKQVMEEKVTPNNVDIARVAPTYHLY 217
           Y  DL++++A  +   SIL     +  +  +V++  V     +Y
Sbjct: 219 YKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIY 262

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 39/168 (23%), Positives = 79/168 (47%), Gaps = 7/168 (4%)
Query: 51  LEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCD 110
           +   +V+K+ EI+  +   M+G  AD +        + + H     E ++V + ++ L +
Sbjct: 26  VASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSN 85
Query: 111 LVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           LV ++ +G   SM      +++   + + GP++YY D  GT  + +   +GSG   A   
Sbjct: 86  LVYQY-KGAGLSMG-----TMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGV 139
Query: 171 LQEQYNKDLTLQEAETIA-LSILKQVMEEKVTPNNVDIARVAPTYHLY 217
           L   Y  DL++++A  +   SIL     +  +  +V++  V     +Y
Sbjct: 140 LDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIY 187

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 38/168 (22%), Positives = 79/168 (47%), Gaps = 7/168 (4%)
Query: 51  LEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCD 110
           +   +V+++ EI+  +   M+G  AD +        + + H     E ++V + ++ L +
Sbjct: 26  VASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSN 85
Query: 111 LVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           LV ++ +G   SM      +++   + + GP++YY D  GT  + +   +GSG   A   
Sbjct: 86  LVYQY-KGAGLSMG-----TMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGV 139
Query: 171 LQEQYNKDLTLQEAETIA-LSILKQVMEEKVTPNNVDIARVAPTYHLY 217
           L   Y  DL++++A  +   SIL     +  +  +V++  V     +Y
Sbjct: 140 LDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIY 187

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 38/164 (23%), Positives = 78/164 (47%), Gaps = 7/164 (4%)
Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
           +V+++ EI+  +   M+G  AD +        + + H     E ++V + ++ L +LV +
Sbjct: 105 TVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQ 164
Query: 115 FGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
           + +G   SM      +++   + + GP++YY D  GT  + +   +GSG   A   L   
Sbjct: 165 Y-KGAGLSMG-----TMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSN 218
Query: 175 YNKDLTLQEAETIA-LSILKQVMEEKVTPNNVDIARVAPTYHLY 217
           Y  DL++++A  +   SIL     +  +  +V++  V     +Y
Sbjct: 219 YKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIY 262

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 36/156 (23%), Positives = 71/156 (45%), Gaps = 11/156 (7%)
Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           KI  I  +I C  +G  AD     +      + H  S G    V +  + L  ++ R+  
Sbjct: 33  KIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRY-- 90
Query: 118 GDEESMSRPF-GVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
                  R + G +L++ G D  GP LY   P G+  +     +GSGS  A +  ++++ 
Sbjct: 91  -------RGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFR 143
Query: 177 KDLTLQEAET-IALSILKQVMEEKVTPNNVDIARVA 211
            D+  +EA+  ++ +I   +  +  + +N+D+  ++
Sbjct: 144 PDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVIS 179

>pdb|3NZJ|H Chain H, Crystal Structure Of Yeast 20s Proteasome In Complex With Ligand 2a Length = 261

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 43/189 (22%), Positives = 77/189 (40%), Gaps = 18/189 (9%)
Query: 29  EAIKLGSTAIGLKTKKRIT---------SPLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
           +A   G+T +G+K    +           P++   +  K+  I   I CA +G  AD   
Sbjct: 24  KATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEA 83
Query: 80  LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN 139
           + +      + H         V S  Q L   + ++            G  L++AG D  
Sbjct: 84  VTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY--------QGHIGAYLIVAGVDPT 135
Query: 140 GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIAL-SILKQVMEE 198
           G  L+     G+       ++GSGS  A + L+  + +DLT +EA  +A  +I   +  +
Sbjct: 136 GSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWND 195
Query: 199 KVTPNNVDI 207
             + +NVD+
Sbjct: 196 LGSGSNVDV 204

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 34/155 (21%), Positives = 69/155 (44%), Gaps = 9/155 (5%)
Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           KI  I  +I C  +G  AD     +      + H  + G    V +  + L  ++ R+  
Sbjct: 33  KIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQMLFRY-- 90
Query: 118 GDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
                     G +L++ G D  GP LY   P G+  +     +GSGS  A +  ++++  
Sbjct: 91  ------QGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRP 144
Query: 178 DLTLQEAET-IALSILKQVMEEKVTPNNVDIARVA 211
           D+  +EA+  ++ +I   +  +  + +N+D+  ++
Sbjct: 145 DMEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVIS 179

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 40/181 (22%), Positives = 73/181 (40%), Gaps = 9/181 (4%)
Query: 28  IEAIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVE 87
           I  +K  +  +     +    P++   +  K+  I   I CA +G  AD   + +     
Sbjct: 3   IVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSN 62
Query: 88  TQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTD 147
            + H         V S  Q L   + ++            G  L++AG D  G  L+   
Sbjct: 63  IELHSLYTSREPRVVSALQMLKQHLFKY--------QGHIGAYLIVAGVDPTGSHLFSIH 114
Query: 148 PSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIAL-SILKQVMEEKVTPNNVD 206
             G+       ++GSGS  A + L+  + +DLT +EA  +A  +I   +  +  + +NVD
Sbjct: 115 AHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVD 174
Query: 207 I 207
           +
Sbjct: 175 V 175

>pdb|1FNT|I Chain I, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 232

Iteration: 1
 Score = 43.9 bits (102), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 40/181 (22%), Positives = 73/181 (40%), Gaps = 9/181 (4%)
Query: 28  IEAIKLGSTAIGLKTKKRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVE 87
           I  +K  +  +     +    P++   +  K+  I   I CA +G  AD   + +     
Sbjct: 3   IVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSN 62
Query: 88  TQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTD 147
            + H         V S  Q L   + ++            G  L++AG D  G  L+   
Sbjct: 63  IELHSLYTSREPRVVSALQMLKQHLFKY--------QGHIGAYLIVAGVDPTGSHLFSIH 114
Query: 148 PSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIAL-SILKQVMEEKVTPNNVD 206
             G+       ++GSGS  A + L+  + +DLT +EA  +A  +I   +  +  + +NVD
Sbjct: 115 AHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVD 174
Query: 207 I 207
           +
Sbjct: 175 V 175

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	262
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-122
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-115
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-111
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	1e-110
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	1e-110
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	1e-109
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	1e-108
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	1e-108
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-107
1iru_F	263	20S proteasome; cell cycle, immune response, prote	1e-106
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-106
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	1e-104
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	1e-104
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	1e-103
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	1e-102
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-101
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	1e-101
1iru_C	261	20S proteasome; cell cycle, immune response, prote	1e-99
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	7e-59
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	2e-58
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	2e-57
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	3e-55
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	1e-52
1iru_I	234	20S proteasome; cell cycle, immune response, prote	8e-51
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	3e-49
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	2e-40
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	2e-38
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	3e-35
1iru_L	204	20S proteasome; cell cycle, immune response, prote	5e-34
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	3e-33
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	3e-30
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	1e-28
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	2e-28
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	1e-26
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	4e-26
1iru_H	205	20S proteasome; cell cycle, immune response, prote	4e-25
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	1e-24
1iru_K	201	20S proteasome; cell cycle, immune response, prote	5e-24
1iru_N	219	20S proteasome; cell cycle, immune response, prote	2e-23
1iru_J	205	20S proteasome; cell cycle, immune response, prote	1e-22
1iru_M	213	20S proteasome; cell cycle, immune response, prote	1e-21
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	4e-21
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	1e-20
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	9e-20
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	6e-19
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	9e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04

>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 =  347 bits (892), Expect = e-122
 Identities = 157/240 (65%), Positives = 187/240 (77%), Gaps = 12/240 (5%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF TR+EYDRGVNTFSPEGRLFQVEY IEAIKLGSTAIG++T         KRITSPL+E
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           PSS+EKI EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L 
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 113 LRFGE--GDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSS 170
           L+FGE   D  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SS
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 171 LQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINR 228
           LQE Y+K +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI  
Sbjct: 181 LQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD 240

>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 =  328 bits (843), Expect = e-115
 Identities = 75/233 (32%), Positives = 122/233 (52%), Gaps = 12/233 (5%)

Query: 5   RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSV 56
              Y   + TFSP G+L Q+EYA+ A+  G+ ++G+K          K+  S L +  SV
Sbjct: 2   ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSV 61

Query: 57  EKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFG 116
            K++ I +HIG   SG+  D R LV  AR   Q +   Y EP+      Q +  ++  + 
Sbjct: 62  HKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYT 121

Query: 117 EGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
           +       RPFGVSLLI G +E  P L+ +DPSG ++   A A+G       + L+++YN
Sbjct: 122 Q---SGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYN 178

Query: 177 KDLTLQEAETIALSILKQVMEEKVTPNNVDIARV-APTYHLYTPSEVEAVINR 228
           +DL L++A   A+  LK+  E ++T +N+++       +   TP+EV+  +  
Sbjct: 179 EDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAA 231

>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 =  319 bits (819), Expect = e-111
 Identities = 73/244 (29%), Positives = 129/244 (52%), Gaps = 19/244 (7%)

Query: 1   MFF-TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGLKTK--------KRITSPL 50
           M   +   +DR +  FSPEGRL+QVEYA +AI  G  T++ ++ K        K++   L
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query: 51  LEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCD 110
           L+ S+V  + +I E+IGC M+G+ AD+R+ V+ AR E  N ++ YG  + V+   + + D
Sbjct: 61  LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query: 111 LVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADS 169
           +   +    + +  RP G  +++ G D E GP +Y  DP+G +    A A G     + S
Sbjct: 121 ISQVYT---QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTS 177

Query: 170 SLQEQYNK--DLTLQEAETIALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEA 224
            L+++  K  D T ++    A++ L  V+     P+ +++  V    P + + T +E++A
Sbjct: 178 FLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDA 237

Query: 225 VINR 228
            +  
Sbjct: 238 HLVA 241

>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 =  316 bits (811), Expect = e-110
 Identities = 89/236 (37%), Positives = 138/236 (58%), Gaps = 13/236 (5%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           M   +  Y R +  FSP+GRLFQVEYA EA+K GSTA+G+K          K++ S L+E
Sbjct: 1   MQQGQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
            +S+EKI+ ID+++    SGL+ADAR LV+ AR+  Q  + +YG  + +E+  + + D +
Sbjct: 61  QNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQM 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
            ++ +       RP+GVSL+ AG D+ GP L+  DP+GT  +  A AIGSG +   S L+
Sbjct: 121 QQYTQ---YGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLE 177

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
            +Y ++L  +EA T+ +  LK  +EE       +IA +     Y +Y   EV+  +
Sbjct: 178 REYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D* 1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D* 3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 3mg0_D* 3mg4_D* 3okj_D* 3shj_D* 3tdd_D* 2z5c_C ... Length = 242

 Score =  316 bits (811), Expect = e-110
 Identities = 131/234 (55%), Positives = 165/234 (70%), Gaps = 14/234 (5%)

Query: 9   DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIK 60
           DRGV+TFSPEGRLFQVEY++EAIKLGSTAIG+ TK        KR TSPLLE  S+EKI 
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60

Query: 61  EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRF---GE 117
           EID HIGCAMSGL ADAR+++EHAR     H   Y E + VES TQ++CDL LRF     
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

Query: 118 GDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
           G+E  MSRPFGV+LLIAG D ++G  L++ +PSGTF++ NAKAIGSGSEGA + L  +++
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH 180

Query: 177 KDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVINR 228
             LTL+EAE + L ILKQVMEEK+  NN  ++ +     + +Y   +   +I  
Sbjct: 181 SSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKE 234

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

 Score =  314 bits (806), Expect = e-109
 Identities = 98/239 (41%), Positives = 141/239 (58%), Gaps = 15/239 (6%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           M   +  YDR +  FSP+GRLFQVEYA EA+K G+TAIG+K K        KR+ S LLE
Sbjct: 1   MHLPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLE 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             ++EKI +IDEHI  A SGL+ADAR L++ AR+E Q +R +Y  P+TV+   + +CD  
Sbjct: 61  KDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFK 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
            ++    +    RPFGVSLLIAG +E  P LY TDPSG   +  A AIG G        +
Sbjct: 121 QQYT---QYGGVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYKATAIGMGRMAVTEFFE 176

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEAVINR 228
           ++Y  DL+  +A  + L  +   +E ++ P N+++  V     T+   +P E++  + R
Sbjct: 177 KEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVER 235

>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 =  313 bits (803), Expect = e-108
 Identities = 77/249 (30%), Positives = 125/249 (50%), Gaps = 30/249 (12%)

Query: 7   EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEK 58
            Y   + TFSP G+L Q++YA+ A+K G T++G+K          K+ +SPL    ++ K
Sbjct: 4   RYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSK 63

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQ-NHRFSYGEPMTVESTTQALCDLVLRFGE 117
           +  +   IG   SG+  D R LV+ +R     +++  YGE    +     +  ++    +
Sbjct: 64  VSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQ 123

Query: 118 GDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
                  RPFGVSLLIAG DE NG SLY  DPSG+++   A AIG GS  A + L++++N
Sbjct: 124 ---SGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWN 180

Query: 177 KDLTLQEAETIALSILKQVMEEKVTPNNVDIARV-----------------APTYHLYTP 219
            +L L++A  IAL  LK+ +E +   + +++A +                  P +   T 
Sbjct: 181 DELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTS 240

Query: 220 SEVEAVINR 228
            E+   +  
Sbjct: 241 QEINDRLEA 249

>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 =  312 bits (802), Expect = e-108
 Identities = 61/239 (25%), Positives = 110/239 (46%), Gaps = 21/239 (8%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIK-LGSTAIGLKTK--------KRITSPLLEPSSVEK 58
           YDR +  FSPEGRL+QVEYA +A       ++ ++ K        K++   LL+P++V  
Sbjct: 3   YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 62

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I  I   IG  ++G I DAR     A+ E    R+ YG  M  +   + + +L   +   
Sbjct: 63  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT-- 120

Query: 119 DEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            + +  RP GV L     DE  GPS+Y TDP+G +    A A G   +   ++L+  + K
Sbjct: 121 -QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKK 179

Query: 178 -------DLTLQEAETIALSILKQVMEEKVTPNNVDIARV-APTYHLYTPSEVEAVINR 228
                  + + ++    A++ +   +  + + N++++       +   +   +E  +  
Sbjct: 180 SKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLVA 238

>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 =  308 bits (792), Expect = e-107
 Identities = 84/234 (35%), Positives = 131/234 (55%), Gaps = 18/234 (7%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+G LFQVEYA EA+K GSTA+G++ +        K+  + L +  +V KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
             +D+++  A +GL ADAR ++  ARVE Q+HR +  +P+TVE  T+ +  L  R+ +  
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQS- 121

Query: 120 EESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
             +  RPFG+S LI G D +G P LY TDPSGT+    A AIG G++     L++ Y  +
Sbjct: 122 --NGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDE 179

Query: 179 LTLQEAETI--ALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINR 228
               +  TI   +  L +V++      N+++A +       +  P E+E  +  
Sbjct: 180 AIETDDLTIKLVIKALLEVVQSG--GKNIELAVMRRDQSLKILNPEEIEKYVAE 231

>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 =  308 bits (790), Expect = e-106
 Identities = 79/242 (32%), Positives = 122/242 (50%), Gaps = 21/242 (8%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           MF  R +YD  V  +SP+GR+ Q+EYA+EA+K GS  +GLK+K        KR  S L  
Sbjct: 1   MF--RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSEL-- 56

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
            +  +KI  +D HIG +++GL ADAR L    R E  + RF +  P+ V      +    
Sbjct: 57  AAHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKT 116

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
                  +    RP+GV LLIAG D+ GP ++ T PS  ++ C A +IG+ S+ A + L+
Sbjct: 117 QIP---TQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLE 173

Query: 173 EQYNK--DLTLQEAETIALSILKQVME--EKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
              ++  +  L E     L  L++ +   + +T  NV I  V     + +Y   +V   +
Sbjct: 174 RHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFL 233

Query: 227 NR 228
             
Sbjct: 234 EG 235

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

 Score =  307 bits (789), Expect = e-106
 Identities = 95/239 (39%), Positives = 143/239 (59%), Gaps = 15/239 (6%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
                + YDR +  FSPEGRL+QVEYA EA++ G+TAIG+  K        +RITS L++
Sbjct: 5   QMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVK 64

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
             S+EKI +ID+H+  A SGL+ADAR L++ AR+E Q +R +YGE +++E   + +CD+ 
Sbjct: 65  IRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIK 124

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
             +    +    RPFGVSLLIAG D+N   L+ TDPSG   +  A AIGSG       L+
Sbjct: 125 QAYT---QHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLE 181

Query: 173 EQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEAVINR 228
           ++Y  D+TL E   +A++ L +  E+ + P NVD+  +      +      E++ +I +
Sbjct: 182 KEYRDDITLDEGLELAITALTKANED-IKPENVDVCIITVKDAQFKKIPVEEIKKLIEK 239

>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 =  301 bits (772), Expect = e-104
 Identities = 78/239 (32%), Positives = 119/239 (49%), Gaps = 20/239 (8%)

Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVE 57
           T YD   + FSP+GR FQVEYA++A++ G+T+IG+K          K ITS LL P    
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61

Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           KI+ +D HIGC  SGLI D R LV   R E  + +  Y  P+ + +    L   V     
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT- 120

Query: 118 GDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ---EQ 174
               +  RPFGVS +  G D+NG  LY  +PSG++W     A G G + A + L+   + 
Sbjct: 121 --LYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDH 178

Query: 175 YNKDLTLQEAETIALSILKQVMEE-KVTPNNVDIARVAPT-----YHLYTPSEVEAVIN 227
           + + L+ +EA   A  I+    E+ K     ++I+  + +     +       ++  I+
Sbjct: 179 HPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAID 237

>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 =  302 bits (775), Expect = e-104
 Identities = 79/244 (32%), Positives = 120/244 (49%), Gaps = 20/244 (8%)

Query: 1   MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE 52
           M    T YD   + FSP+GR FQVEYA++A++ G+T+IG+K          K ITS LL 
Sbjct: 1   MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV 60

Query: 53  PSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
           P    KI+ +D HIGC  SGLI D R LV   R E  + +  Y  P+ + +    L   V
Sbjct: 61  PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYV 120

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ 172
                    +  RPFGVS +  G D+NG  LY  +PSG++W     A G G + A + L+
Sbjct: 121 QAHT---LYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELE 177

Query: 173 ---EQYNKDLTLQEAETIALSILKQVMEE-KVTPNNVDIARVAPT-----YHLYTPSEVE 223
              + + + L+ +EA   A  I+    E+ K     ++I+  + +     +       ++
Sbjct: 178 KLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQ 237

Query: 224 AVIN 227
             I+
Sbjct: 238 EAID 241

>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 =  299 bits (768), Expect = e-103
 Identities = 79/237 (33%), Positives = 113/237 (47%), Gaps = 20/237 (8%)

Query: 5   RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSV 56
           R  YD    TFSP GRLFQVEYA+EAIK GS  +GL++         KR    L   S  
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQ 59

Query: 57  EKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFG 116
           +KI + DEH+G +++GL  DAR L  + R +       +   + VE     LCD   +  
Sbjct: 60  KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT 119

Query: 117 EGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
              +    RP+GV LLI G D++G  L    PSG   +    AIG+ S+GA + L+   +
Sbjct: 120 ---QSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLD 176

Query: 177 K----DLTLQEAETIALSILKQVM-EEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
                D    E     +  + Q + +E +T +N+ IA V     + +Y    V   I
Sbjct: 177 TFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>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 =  295 bits (758), Expect = e-102
 Identities = 76/240 (31%), Positives = 128/240 (53%), Gaps = 21/240 (8%)

Query: 7   EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEP-SSVE 57
            YD     FSPEGRL+QVEYA+E+I    TAIG+           +++TS LLE  +S E
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTE 63

Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           K+ ++++ I  A++GL ADA  L+  AR+  QN+  +Y E + VE   + L D+   +  
Sbjct: 64  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT- 122

Query: 118 GDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
             +    RPFGVS + AG D+  G  LY ++PSG +    A ++G+ +  A + LQ  Y 
Sbjct: 123 --QHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK 180

Query: 177 KDLTLQEAETIALSILKQVMEE-KVTPNNVDIARV-------APTYHLYTPSEVEAVINR 228
            D+ + +A  +AL  L +  +   +T + ++ A +            ++ P E++ ++ +
Sbjct: 181 DDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVK 240

>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 =  295 bits (757), Expect = e-101
 Identities = 72/236 (30%), Positives = 120/236 (50%), Gaps = 16/236 (6%)

Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVE 57
           T YD   +TFSP+GR+FQVEYA++A++  STAIG++ K        K + S L E  S +
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64

Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           ++  +D H+G A++GL+ADAR+L + AR E  N R ++G  + ++     +   V  +  
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYT- 123

Query: 118 GDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
               S  RPFG S ++     N G  LY  DPSG  +     AIG   + A + +++   
Sbjct: 124 --LYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQM 181

Query: 177 KDLTLQEAETIALSILKQVMEE-KVTPNNVDIARV---APTYHLYTPSEVEAVINR 228
           K++T ++       I+  V +E K     ++++ V       H   P ++     +
Sbjct: 182 KEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEK 237

>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 =  293 bits (753), Expect = e-101
 Identities = 82/237 (34%), Positives = 133/237 (56%), Gaps = 21/237 (8%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPS-SVEK 58
           YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+K K        +R T  L +   +  K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + +ID H+  + SGL AD+R L+E ARVE Q+HR +  +P+TVE  T+ +  +  R+ + 
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQS 121

Query: 119 DEESMSRPFGVSLLIAGSD--ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
                 RPFGVS LIAG D  ++ P LY T+PSG +   +A+ IG  S+     L++ Y+
Sbjct: 122 ---GGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD 178

Query: 177 K---DLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINR 228
           +     T++E   + +  L +V++      N++I  V P       +  E+   + +
Sbjct: 179 RKEPPATVEECVKLTVRSLLEVVQT--GAKNIEITVVKPDSDIVALSSEEINQYVTQ 233

>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 =  290 bits (745), Expect = 1e-99
 Identities = 80/238 (33%), Positives = 124/238 (52%), Gaps = 20/238 (8%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSV-EK 58
           YD     FSPEGRL+QVEYA+EAI    T +G+           +R    LL+     EK
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEK 64

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I +++E + C+++G+ +DA  L    R+  Q +   Y EP+  E    ALCD+   + + 
Sbjct: 65  IYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQF 124

Query: 119 DEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
                 RPFGVSLL  G D++ G  LY +DPSG +    A  IG+ S  A S L++ Y +
Sbjct: 125 ---GGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE 181

Query: 178 -DLTLQEAETIALSILKQVMEE-KVTPNNVDIARV-----APTYHLYTPSEVEAVINR 228
            ++TL+ A  +A+ +L + M+  K++   V+IA +          +    EVE +I +
Sbjct: 182 GEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKK 239

>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 =  186 bits (473), Expect = 7e-59
 Identities = 43/230 (18%), Positives = 94/230 (40%), Gaps = 22/230 (9%)

Query: 16  SPEGRLFQ-VEYAIEAIKLGSTAIGLKTKKRITSPLLEPS-SVEKIKEIDEHIGCAMSGL 73
           SPE  + +  E A + I    + + L     +      PS S++KI E+ + +G A +G 
Sbjct: 8   SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENPSRSLQKISELYDRVGFAAAGK 67

Query: 74  IADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLI 133
             +   L            ++Y      + T + L ++  +         ++P+ V L +
Sbjct: 68  FNEFDNLRRGGIQFADTRGYAYDRR---DVTGRQLANVYAQTLGTIFTEQAKPYEVELCV 124

Query: 134 AG----SDENGPSLYYTDPSGTFW-QCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIA 188
           A      +   P LY     G+   + +   +G  +E   ++L+E Y ++ +L +A  IA
Sbjct: 125 AEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDALRIA 184

Query: 189 LSILKQVM-------EEKVTPNNVDIA-----RVAPTYHLYTPSEVEAVI 226
           ++ L+          +  +   ++++A     R    +   T S ++A++
Sbjct: 185 VAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALL 234

>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 =  184 bits (469), Expect = 2e-58
 Identities = 44/212 (20%), Positives = 96/212 (45%), Gaps = 20/212 (9%)

Query: 29  EAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
           + ++ G+T +G+  K        +R+T    +   + +K+ +ID + G  ++GL+ DA+ 
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQV 62

Query: 80  LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN 139
           LV + + E + +R      M +E+    L +++ +           P+ V LL+ G D  
Sbjct: 63  LVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQV-------KYMPYMVQLLVGGIDT- 114

Query: 140 GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEE- 198
            P ++  D +G   +    + GSGS      L+ QY++ +T+ E   + +  +    +  
Sbjct: 115 APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRD 174

Query: 199 KVTPNNVDIARVAP--TYHLYTPSEVEAVINR 228
             +   +D+A +     Y      ++E+ I +
Sbjct: 175 SASGGMIDVAVITRKDGYVQLPTDQIESRIRK 206

>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 =  182 bits (463), Expect = 2e-57
 Identities = 52/202 (25%), Positives = 89/202 (44%), Gaps = 23/202 (11%)

Query: 35  STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHAR 85
           +T  GL  +         R T+  ++   S EKI  I   I C  +G+ AD       A 
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60

Query: 86  VETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYY 145
            + + H  S G    V + T+ L   + R+            G SL++ G D NGP LY 
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQ--------GHVGASLVVGGVDLNGPQLYE 112

Query: 146 TDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIAL-SILKQVMEEKVTPNN 204
             P G++ +    A+GSG   A + L++++  ++TL+ A+ + + +I   ++ +  +  N
Sbjct: 113 VHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGN 172

Query: 205 VDIARVAPT-----YHLYTPSE 221
           VD   +          L TP+E
Sbjct: 173 VDACVITAGGAKLQRALSTPTE 194

>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 =  177 bits (452), Expect = 3e-55
 Identities = 45/206 (21%), Positives = 82/206 (39%), Gaps = 19/206 (9%)

Query: 14  TFSPEGRLFQVEYAI-EAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEID 63
            +     L +  +   +A   G+T +G+K           R T  P++   +  K+  I 
Sbjct: 8   NYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRIS 67

Query: 64  EHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESM 123
             I CA +G  AD   + +      + H         V S  Q L   + ++        
Sbjct: 68  PKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ------- 120

Query: 124 SRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQE 183
               G  L++AG D  G  L+     G+       ++GSGS  A + L+  + +DLT +E
Sbjct: 121 -GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEE 179

Query: 184 AETIALSILKQVMEEKV-TPNNVDIA 208
           A  +A   ++  +   + + +NVD+ 
Sbjct: 180 AIKLASDAIQAGIWNDLGSGSNVDVC 205

>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 =  170 bits (433), Expect = 1e-52
 Identities = 47/230 (20%), Positives = 89/230 (38%), Gaps = 24/230 (10%)

Query: 16  SPEGRLFQ-VEYAIEAIKLGSTAIGLKTKKRITSPLLEPS-SVEKIKEIDEHIGCAMSGL 73
           S E  +    E A + I  G + + L  +  +      PS ++ K+ E+ + +G A  G 
Sbjct: 8   SAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENPSTALHKVSELYDRLGFAAVGK 67

Query: 74  IADARTLVEHARVETQNHRFSYG-EPMTVESTTQALCD-LVLRFGEGDEESMSRPFGVSL 131
             +   L     V      +SY    +T  S   A    L   F E       +P+ V +
Sbjct: 68  YNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQ-----PKPYEVEI 122

Query: 132 LIAG----SDENGPSLYYTDPSGTFW-QCNAKAIGSGSEGADSSLQEQYNKDLTLQEAET 186
            +A          P LY     G+   + +   +G  +E   ++++E Y  DL L+ A  
Sbjct: 123 CVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVG 182

Query: 187 IALSILKQVM-----EEKVTPNNVDIA-----RVAPTYHLYTPSEVEAVI 226
           IA++ L+Q       +  V   ++++A     R    +     + +E ++
Sbjct: 183 IAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLV 232

>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 =  165 bits (419), Expect = 8e-51
 Identities = 39/186 (20%), Positives = 76/186 (40%), Gaps = 18/186 (9%)

Query: 35  STAIGLKTK--------KRITSPLLEPS-SVEKIKEIDEHIGCAMSGLIADARTLVEHAR 85
           +T  G+  K         R T  ++    +  KI  I  +I C  +G  AD     +   
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60

Query: 86  VETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYY 145
              + H  S G    V +  + L  ++ R+            G +L++ G D  GP LY 
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYR--------GYIGAALVLGGVDVTGPHLYS 112

Query: 146 TDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNN 204
             P G+  +     +GSGS  A +  ++++  D+  +EA+ +    +   +   + + +N
Sbjct: 113 IYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSN 172

Query: 205 VDIARV 210
           +D+  +
Sbjct: 173 IDLCVI 178

>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 =  160 bits (408), Expect = 3e-49
 Identities = 42/186 (22%), Positives = 76/186 (40%), Gaps = 18/186 (9%)

Query: 35  STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHAR 85
           +T +G+K           R T  P++   +  K+  I   I CA +G  AD   + +   
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60

Query: 86  VETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYY 145
              + H         V S  Q L   + ++            G  L++AG D  G  L+ 
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQ--------GHIGAYLIVAGVDPTGSHLFS 112

Query: 146 TDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNN 204
               G+       ++GSGS  A + L+  + +DLT +EA  +A   ++  +   + + +N
Sbjct: 113 IHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSN 172

Query: 205 VDIARV 210
           VD+  +
Sbjct: 173 VDVCVM 178

>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 =  140 bits (354), Expect = 2e-40
 Identities = 44/233 (18%), Positives = 95/233 (40%), Gaps = 22/233 (9%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEK 58
             + +   + + R    +     I  G+T +  + +         R T+   +   +V+K
Sbjct: 52  PQQFLRAHTDDSRNPDCK---IKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKK 108

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + EI+  +   M+G  AD +        + + H     E ++V + ++ L +LV ++   
Sbjct: 109 VIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQY--- 165

Query: 119 DEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
                     +  +I G   + GP++YY D  GT  + +   +GSG   A   L   Y  
Sbjct: 166 ----KGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW 221

Query: 178 DLTLQEAETIAL-SILKQVMEEKVTPNNVDIARVAPT-YHLYTPSEVEAVINR 228
           DL++++A  +   SIL     +  +  +V++  V    +  +   +V  +  +
Sbjct: 222 DLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWK 274

>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 =  132 bits (335), Expect = 2e-38
 Identities = 40/205 (19%), Positives = 86/205 (41%), Gaps = 19/205 (9%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T +  + +         R T+   +   +V+++ EI+  +   M+G  AD +        
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYY 145
           + + H     E ++V + ++ L +LV ++             +  +I G   + GP++YY
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQY-------KGAGLSMGTMICGYTRKEGPTIYY 114

Query: 146 TDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIAL-SILKQVMEEKVTPNN 204
            D  GT  + +   +GSG   A   L   Y  DL++++A  +   SIL     +  +  +
Sbjct: 115 VDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGS 174

Query: 205 VDIARVAPT-YHLYTPSEVEAVINR 228
           V++  V    +  +   +V  +  +
Sbjct: 175 VNLYHVTEDGWIYHGNHDVGELFWK 199

>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 =  127 bits (319), Expect = 3e-35
 Identities = 45/254 (17%), Positives = 83/254 (32%), Gaps = 30/254 (11%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEK 58
            +  +   S   R      + +    G+T + L  K        +R T   L+    VE 
Sbjct: 39  PENRIGHRSHSTRGGDGMESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEA 98

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           +   DE+    ++G    A  LV    VE +++    G P+T +     L  +V      
Sbjct: 99  VYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNL-- 156

Query: 119 DEESMSRPFGVSLLIAGSD------ENGPSLYYTDPSGTF--WQCNAKAIGSGSEGADSS 170
              +  +   V  L+ G D           +   D  G     +    A+GSGS  A S+
Sbjct: 157 --GAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSA 214

Query: 171 LQEQYNKDLTLQEAETIALSILKQVME--------EKVTPNNVDIARVAPT-YHLYTPSE 221
           L++ Y+ D   + A   A+  L    +        +           +        +   
Sbjct: 215 LKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEET 274

Query: 222 VEAVINRPMSIRRK 235
              +  R ++ R +
Sbjct: 275 TSELARRIVAERTE 288

>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 =  121 bits (305), Expect = 5e-34
 Identities = 39/185 (21%), Positives = 77/185 (41%), Gaps = 17/185 (9%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T +  K +         R T+   +   +V+K+ EI+ ++   M+G  AD          
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYT 146
           + + +     E ++V + ++ L ++V ++             +  +I G D+ GP LYY 
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQY-------KGMGLSMGTMICGWDKRGPGLYYV 114

Query: 147 DPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEE-KVTPNNV 205
           D  G        ++GSGS  A   +   Y+ DL +++A  +A   + Q       +   V
Sbjct: 115 DSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAV 174

Query: 206 DIARV 210
           ++  V
Sbjct: 175 NLYHV 179

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

 Score =  118 bits (299), Expect = 3e-33
 Identities = 48/206 (23%), Positives = 92/206 (44%), Gaps = 19/206 (9%)

Query: 35  STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHAR 85
           +T +GL  K        KR T    +   + +KI +I + +    +G + DA+ L    +
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60

Query: 86  VETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYY 145
           +E   +        TV +      +L+  +          P+ V LLI G D  G S+Y 
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYF-------PYLVQLLIGGIDSEGKSIYS 113

Query: 146 TDPSGT-FWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA-ETIALSILKQVMEEKVTPN 203
            DP G    + +  A GSGS  A   L++++  ++ + EA E    +I   +  +  + +
Sbjct: 114 IDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGD 173

Query: 204 NVDIARVAPT-YHLYTPSEVEAVINR 228
            +D+ ++    ++ Y+P EVE ++ +
Sbjct: 174 GIDVVKITEDEFYQYSPEEVEQILAK 199

>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 =  111 bits (280), Expect = 3e-30
 Identities = 43/226 (19%), Positives = 76/226 (33%), Gaps = 30/226 (13%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T + L  K        +R T   L+    VEK+   DE+    ++G    A  LV    V
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD------ENG 140
           E +++    G P+T +     L  +V         +  +   V  L+ G D         
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNL----GAAMQGLAVVPLLVGYDLDADDESRA 117

Query: 141 PSLYYTDPSGTF--WQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEE 198
             +   D  G     +    A+GSGS  A S+L++ Y+ D   + A   A+  L    ++
Sbjct: 118 GRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADD 177

Query: 199 --------KVTPNNVDIARVAPT-YHLYTPSEVEAVINRPMSIRRK 235
                              +        +      +  R ++ R +
Sbjct: 178 DSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAERTE 223

>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 =  108 bits (271), Expect = 2e-28
 Identities = 37/186 (19%), Positives = 72/186 (38%), Gaps = 21/186 (11%)

Query: 29  EAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
             +  G+T + LK          +R T   ++    V K+   D++    ++G  A A  
Sbjct: 52  AQLPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVE 111

Query: 80  LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-- 137
                 VE +++    G P+T       L  +V     G+  +  +      L+AG D  
Sbjct: 112 FARLYAVELEHYEKLEGVPLTFAGKINRLAIMV----RGNLAAAMQGLLALPLLAGYDIH 167

Query: 138 ----ENGPSLYYTDPSGT--FWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSI 191
               ++   +   D +G     +   +A+GSGS  A SS+++ Y++         +A+  
Sbjct: 168 ASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEA 227

Query: 192 LKQVME 197
           L    +
Sbjct: 228 LYDAAD 233

>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 =  101 bits (255), Expect = 1e-26
 Identities = 36/191 (18%), Positives = 69/191 (36%), Gaps = 25/191 (13%)

Query: 36  TAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
             +G++ +        K +T    +   S +K +++  H   + +G   D     E+ + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 87  ETQNHRFSYGEPMTVES----TTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NG 140
             Q +       ++ ++      Q L   +             P+ V++LI G D+  N 
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQELAKSIRSRR---------PYQVNVLIGGYDKKKNK 113

Query: 141 PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA-ETIALSILKQVMEEK 199
           P LY  D  GT  +    A G       S L   Y  D+T +E  + + L + +      
Sbjct: 114 PELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMP 173

Query: 200 VTPNNVDIARV 210
           +    V +  V
Sbjct: 174 MDFKGVIVKIV 184

>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 =  100 bits (251), Expect = 4e-26
 Identities = 30/172 (17%), Positives = 63/172 (36%), Gaps = 12/172 (6%)

Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
             +K+  + + I CA+SG  ADA+ + + A  + + H     EP  V +    + ++  +
Sbjct: 30  VFDKLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYK 89

Query: 115 FGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ 174
           + E             L++AG D+      Y    G   +      GSGS      +   
Sbjct: 90  YRE--------DLLAHLIVAGWDQREGGQVYGTMGGMLIRQPFTIGGSGSSYIYGYVDAA 141

Query: 175 YNKDLTLQEA-ETIALSILKQVMEEKVTPNNVDIARVAP---TYHLYTPSEV 222
           Y   +T +E       +I   +  +  +   + +  +      + +    E+
Sbjct: 142 YKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDEL 193

>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 = 98.1 bits (245), Expect = 4e-25
 Identities = 28/135 (20%), Positives = 49/135 (36%), Gaps = 9/135 (6%)

Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
             +K+  I + I C  SG  AD + + +    +   H     EP  V +      ++  R
Sbjct: 30  VTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYR 89

Query: 115 FGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQE 173
           + E             ++IAG D + G  +Y     G   + +    GSGS      +  
Sbjct: 90  YRE--------DLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDA 141

Query: 174 QYNKDLTLQEAETIA 188
            Y + +T +E     
Sbjct: 142 TYREGMTKEECLQFT 156

>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 = 96.5 bits (241), Expect = 1e-24
 Identities = 28/168 (16%), Positives = 63/168 (37%), Gaps = 19/168 (11%)

Query: 31  IKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLV 81
           + LG++ + +  K         R T+   +     +K+  + + I C  SG  AD + + 
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 82  EHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENG 140
           +  +   + +   YG P T  + +    +L     +             +++AG D +N 
Sbjct: 66  DIVQYHLELYTSQYGTPSTETAASV-FKELCYENKD--------NLTAGIIVAGYDDKNK 116

Query: 141 PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIA 188
             +Y     G+  +      GSGS        + + ++++ +E     
Sbjct: 117 GEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFI 164

>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 = 95.0 bits (237), Expect = 5e-24
 Identities = 35/149 (23%), Positives = 63/149 (42%), Gaps = 18/149 (12%)

Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVES----TTQALCD 110
             +K+ ++ E I     G   D     E+ +   Q ++   G  ++  +    T + L D
Sbjct: 31  DHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLAD 90

Query: 111 LVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADS 169
            +             P+ V+LL+AG DE+ GP+LYY D      +    A G G+    S
Sbjct: 91  CLRSRT---------PYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLS 141

Query: 170 SLQEQYNKDLTLQEAETIALSILKQVMEE 198
            L   Y   ++ +     A+ +L++ +EE
Sbjct: 142 ILDRYYTPTISRER----AVELLRKCLEE 166

>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 = 93.8 bits (234), Expect = 2e-23
 Identities = 32/195 (16%), Positives = 66/195 (33%), Gaps = 18/195 (9%)

Query: 29  EAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
             +  G++ +G+K +           +   L    ++ +I  ++       SG  AD + 
Sbjct: 3   NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQY 62

Query: 80  LVEHARVETQNHRF-SYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE 138
           L +       +      G   +  +    L   +         S   P   +++I G  +
Sbjct: 63  LKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSR-----RSKMNPLWNTMVIGGYAD 117

Query: 139 NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQY--NKDLTLQEAETIALSILKQVM 196
               L Y D  G  ++  + A G G+  A   L+E       L+  EA  +    ++ + 
Sbjct: 118 GESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLY 177

Query: 197 E-EKVTPNNVDIARV 210
             +  + N    A V
Sbjct: 178 YRDARSYNRFQTATV 192

>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 = 91.1 bits (227), Expect = 1e-22
 Identities = 26/169 (15%), Positives = 56/169 (33%), Gaps = 23/169 (13%)

Query: 34  GSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G   + +K K        +R      L  +  +KI  + + +   ++GL  D +T+ +  
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67

Query: 85  RVETQNHRFSYGEPMTVESTTQALCDLVL--RFGEGDEESMSRPFGVSLLIAGSDE--NG 140
           +     +    G  +   +    + +L+   RFG         P+    +IAG D     
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFG---------PYYTEPVIAGLDPKTFK 118

Query: 141 PSLYYTDPSGTFWQCNA-KAIGSGSEGADSSLQEQYNKDLTLQEAETIA 188
           P +   D  G     +     G+ +E      +  +  ++         
Sbjct: 119 PFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETI 167

>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 = 88.8 bits (221), Expect = 1e-21
 Identities = 35/176 (19%), Positives = 65/176 (36%), Gaps = 30/176 (17%)

Query: 34  GSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G T + +  +         R++    +      K  ++ +      SG   D  TL +  
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 85  RVETQNHRFSYGEPMTVESTTQALCDLVL--RFGEGDEESMSRPFGVSLLIAGSDENG-P 141
               + ++ S  + MT  +    L  ++   RF          P+ V  +I G DE G  
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFF---------PYYVYNIIGGLDEEGKG 119

Query: 142 SLYYTDPSGTFWQCNAKAIGSGSEGA---------DSSLQEQYNKDLTLQEAETIA 188
           ++Y  DP G++ + + KA GS S              ++Q   +  L+L  A  + 
Sbjct: 120 AVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLV 175

>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 = 87.3 bits (217), Expect = 4e-21
 Identities = 34/169 (20%), Positives = 60/169 (35%), Gaps = 24/169 (14%)

Query: 34  GSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G   + +  K         R+ S  L   +  EKI     H+   ++GL  D  TL E  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMF 66

Query: 85  RVETQNHRFSYGEPMTVESTTQALCDLVL--RFGEGDEESMSRPFGVSLLIAGSDENG-- 140
           R +T  ++      +  E+ TQ +   +   RFG         P+ V  ++AG +     
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFG---------PYFVGPVVAGINSKSGK 117

Query: 141 PSLYYTDPSGTFWQCNA-KAIGSGSEGADSSLQEQYNKDLTLQEAETIA 188
           P +   D  G   +       G+ S+      +  Y  +L  ++     
Sbjct: 118 PFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETI 166

>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 = 86.2 bits (214), Expect = 1e-20
 Identities = 31/176 (17%), Positives = 69/176 (39%), Gaps = 18/176 (10%)

Query: 34  GSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G T +G+  +         R  +   +      K+ +  ++I  + +G  AD   LV+  
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 85  RVETQNHRFSYGE-PMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PS 142
           +   + + F + +  +++ S  + +  L+             P+ V  +IAG DE+G  +
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFF-------PYYVHTIIAGLDEDGKGA 121

Query: 143 LYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEE 198
           +Y  DP G++ +   +A G+ +      L  Q N     +      +    + +  
Sbjct: 122 VYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSV 177

>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 = 84.3 bits (209), Expect = 9e-20
 Identities = 34/203 (16%), Positives = 80/203 (39%), Gaps = 26/203 (12%)

Query: 29  EAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
           + I  G++ I +K             +   LL  + VE++  + ++    +SG I+D + 
Sbjct: 3   QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 62

Query: 80  LVEHARVETQNHRFSY-----GEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIA 134
           +    +     + +        E +      + L  ++ +       S   P   ++++A
Sbjct: 63  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQR-----RSKMNPLWNAIIVA 117

Query: 135 GSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD-----LTLQEAETIA 188
           G   NG   L Y +  G  +     A G G+  A+  L++  +++      T+Q AE   
Sbjct: 118 GVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAI 177

Query: 189 LSILKQVME-EKVTPNNVDIARV 210
           ++ ++ +   +  +  N  +A +
Sbjct: 178 VNAMRVLYYRDARSSRNFSLAII 200

>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 = 82.8 bits (205), Expect = 6e-19
 Identities = 34/204 (16%), Positives = 81/204 (39%), Gaps = 28/204 (13%)

Query: 29  EAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
           + I  G++ I +K             +   LL  + VE++  + ++    +SG I+D + 
Sbjct: 36  QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 95

Query: 80  LVEHARVETQNHRFSY-----GEPMTVESTTQALCDLV-LRFGEGDEESMSRPFGVSLLI 133
           +    +     + +        E +      + L  ++  R  + +      P   ++++
Sbjct: 96  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMN------PLWNAIIV 149

Query: 134 AGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD-----LTLQEAETI 187
           AG   NG   L Y +  G  +     A G G+  A+  L++  +++      T+Q AE  
Sbjct: 150 AGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEA 209

Query: 188 ALSILKQVME-EKVTPNNVDIARV 210
            ++ ++ +   +  +  N  +A +
Sbjct: 210 IVNAMRVLYYRDARSSRNFSLAII 233

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A Length = 180

 Score = 41.1 bits (96), Expect = 9e-05
 Identities = 23/144 (15%), Positives = 46/144 (31%), Gaps = 21/144 (14%)

Query: 54  SSVEKIKEIDEH-IGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLV 112
            +  K++++    +    +G +ADA TL E    + + +  +        +         
Sbjct: 35  HTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAVELAK-------- 86

Query: 113 LRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTD---PSGTFWQCNAKAIGSGSEGADS 169
               E   + + R     L++   D         +   P          AIGSG   A +
Sbjct: 87  ----EWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPDDGIL-----AIGSGGNYALA 137

Query: 170 SLQEQYNKDLTLQEAETIALSILK 193
           + +           A  IA + L+
Sbjct: 138 AGRALKKHAGESMSASEIARAALE 161

>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 = 40.2 bits (93), Expect = 5e-04
 Identities = 48/363 (13%), Positives = 94/363 (25%), Gaps = 132/363 (36%)

Query: 3   FTRTEYDRGVNTFSPEG---RLF-------------------QVEYA--IEAIKLGSTAI 38
            ++ E D  + +        RLF                   ++ Y   +  IK      
Sbjct: 46  LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQP 105

Query: 39  GLKTKKRI--------TSPLLEPSSV---EKIKEIDEHI---------------GCAMSG 72
            + T+  I         + +    +V   +   ++ + +               G   + 
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW 165

Query: 73  LIADARTLVEHARVETQNHRFSYG----------EPMTVESTTQALC------------- 109
           +  D               +  +            P TV    Q L              
Sbjct: 166 VALDV------CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219

Query: 110 --DLVLRFGEGDEES----MSRPFGVSLLIAGSDENGPSLYYTDPSGTF-WQC------- 155
             ++ LR      E      S+P+   LL+         +        F   C       
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVL--LN----VQNAKAWNAFNLSCKILLTTR 273

Query: 156 ---NAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEE------KVTPNNVD 206
                  + + +    S   + ++  LT  E +++ L  L    ++         P  + 
Sbjct: 274 FKQVTDFLSAATTTHISL--DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331

Query: 207 -IA---RVAP----TYHLYTPSEVEAVINRPMSIRRKSSLKIL-PWLQRCFFSSLHCKCT 257
            IA   R        +      ++  +I        +SSL +L P   R  F  L     
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTII--------ESSLNVLEPAEYRKMFDRL----- 378

Query: 258 SLF 260
           S+F
Sbjct: 379 SVF 381

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	262
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_G	244	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
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.97
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.97
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.96

>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=1.5e-57  Score=397.78  Aligned_cols=231  Identities=42%  Similarity=0.718  Sum_probs=217.9

Q ss_pred             CCCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEec
Q 042723            1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSG   72 (262)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG   72 (262)
                      ||+++++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+++++.+++.+||++|+++++++++|
T Consensus         1 ~~~~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG   80 (246)
T 1j2p_A            1 MHLPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSG   80 (246)
T ss_dssp             ---CCTTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEE
T ss_pred             CCccccCcCCCCceECCCCeehHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCccccccCccCcEEEECCCEEEEEeE
Confidence            8888999999999999999999999999999999999999999        77777888888999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCce
Q 042723           73 LIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTF  152 (262)
Q Consensus        73 ~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~  152 (262)
                      ..+|++.+.++++.+++.|+++++++++++.+++++++++|.|+++.   +.|||++++||||+| +||+||.+||.|++
T Consensus        81 ~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~---~~rp~~v~~lvaG~D-~gp~Ly~idp~G~~  156 (246)
T 1j2p_A           81 LVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYG---GVRPFGVSLLIAGVN-EVPKLYETDPSGAL  156 (246)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBT---TBCCCCEEEEEEEES-SSEEEEEECTTCCE
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccc---CcccccEEEEEEEEC-CCCEEEEECCCceE
Confidence            99999999999999999999999999999999999999999999997   899999999999999 89999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEe-CC--eEEcCHhHHHHHHHhh
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVA-PT--YHLYTPSEVEAVINRP  229 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~-k~--~~~~~~~ei~~~l~~~  229 (262)
                      .++++.|+|+|+++++++||+.|+++|+++||++++++||..+.++..++++++|.+|+ ++  +++++++||++++..+
T Consensus       157 ~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~l~~~ei~~~~~~~  236 (246)
T 1j2p_A          157 LEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERA  236 (246)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHHHH
T ss_pred             EeeeEEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCceEECCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999985589999999999 64  9999999999999999


Q ss_pred             hhhhhh
Q 042723          230 MSIRRK  235 (262)
Q Consensus       230 ~~~~~~  235 (262)
                      .++++.
T Consensus       237 ~~~~~~  242 (246)
T 1j2p_A          237 NERIRE  242 (246)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655443

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

Probab=100.00  E-value=1.1e-57  Score=395.46  Aligned_cols=222  Identities=34%  Similarity=0.578  Sum_probs=215.5

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      +++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+++++.+++.+||++|+++++++++|..+|
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            578999999999999999999999999999999999999        777788888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~  156 (262)
                      ++.+.++++.+++.|+++++++++++.+++++++++|.|+++.   ++|||++++||||+|++||+||.+||.|++.+++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~---~~rP~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~  158 (233)
T 1iru_B           82 YRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG---GVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWK  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSB---TBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcC---CCCCcEEEEEEEEEeCCCCeEEEECCCCCEEEee
Confidence            9999999999999999999999999999999999999999997   8999999999999998899999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-eEEcCHhHHHHHHHhh
Q 042723          157 AKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-YHLYTPSEVEAVINRP  229 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~-~~~~~~~ei~~~l~~~  229 (262)
                      ++|+|+|+++++++||+.|+++||++||++++++||..+.++|.++++++|.+|+++ +++++++||+++++.+
T Consensus       159 ~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~sg~~i~v~vi~~~g~~~l~~~ei~~~~~~~  232 (233)
T 1iru_B          159 ATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI  232 (233)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETTEEEECCHHHHHHHHTTC
T ss_pred             EEEECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCCEEECCHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999988999999999999 9999999999999865

>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=7.4e-58  Score=396.65  Aligned_cols=223  Identities=40%  Similarity=0.663  Sum_probs=204.5

Q ss_pred             CCCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEec
Q 042723            1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSG   72 (262)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG   72 (262)
                      |++++++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+.+++.+++.+||++|+++++++++|
T Consensus         1 ~~m~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~~~i~~~~aG   80 (233)
T 1yar_A            1 MQQGQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSG   80 (233)
T ss_dssp             ------------CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEE
T ss_pred             CCcccccCCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEeccCCcccccccccCeEEEecCCEEEEEee
Confidence            7778889999999999999999999999999999999999999        77777888889999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCce
Q 042723           73 LIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTF  152 (262)
Q Consensus        73 ~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~  152 (262)
                      ..+|++.+.++++.+++.|+++++++++++.+++++++++|.|+++.   ++|||++++||||+|++||+||.+||.|++
T Consensus        81 ~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~---~~rp~~v~~lvaG~D~~gp~Ly~id~~G~~  157 (233)
T 1yar_A           81 LVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG---GVRPYGVSLIFAGIDQIGPRLFDCDPAGTI  157 (233)
T ss_dssp             BHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBT---TBCCCCEEEEEEEECSSCEEEEEECTTCCE
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcC---CcCcceEEEEEEEEeCCCCEEEEECCCCCE
Confidence            99999999999999999999999999999999999999999999987   889999999999999989999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHH
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVI  226 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l  226 (262)
                      .+++++|+|+|+++++++||+.|+++|+++||++++++||..+.++|+++++++|.+|+++  +++++++||+++|
T Consensus       158 ~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~s~~~i~v~vi~~~~~~~~~~~~ei~~~l  233 (233)
T 1yar_A          158 NEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL  233 (233)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             EeeeEEEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCEEECCHHHHHhhC
Confidence            9999999999999999999999999999999999999999999999988999999999998  9999999998764

>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=9.6e-58  Score=398.32  Aligned_cols=223  Identities=27%  Similarity=0.513  Sum_probs=215.7

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhcc-CCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~-G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      ++||+++|+|||||||+|||||+||+++ |+|+|||+++        +|.+++++.+++.+||++|+++++++++|..+|
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            4799999999999999999999999999 9999999999        777788888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeec
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~  155 (262)
                      ++.+++.++.+++.|+++++++++++.++++|++++|.|++++   ++|||+|++||||||+ +||+||++||+|++.++
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~---~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~~~~  157 (243)
T 1ryp_A           81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRA---YMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGY  157 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBT---TSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccC---CccccceEEEEEEEcCCCCcEEEEEcCCCCEEEE
Confidence            9999999999999999999999999999999999999999987   8899999999999997 68999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCC-------CCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-eEEcCHhHHHHHHH
Q 042723          156 NAKAIGSGSEGADSSLQEQYNK-------DLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-YHLYTPSEVEAVIN  227 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~-------~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~-~~~~~~~ei~~~l~  227 (262)
                      +++|+|+|++.++++||+.|++       +|+++||++++++||..+.++|.++++++|++|+++ +++++++||++++.
T Consensus       158 ~~~a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd~s~~~iev~vi~~~g~~~l~~~ei~~~~~  237 (243)
T 1ryp_A          158 KATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLV  237 (243)
T ss_dssp             SEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETTEEEECCHHHHHHHHH
T ss_pred             EEEEECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCeEECCHHHHHHHHH
Confidence            9999999999999999999999       999999999999999999999988999999999999 99999999999999


Q ss_pred             hhhh
Q 042723          228 RPMS  231 (262)
Q Consensus       228 ~~~~  231 (262)
                      .+.+
T Consensus       238 ~~~~  241 (243)
T 1ryp_A          238 AIAE  241 (243)
T ss_dssp             HHTT
T ss_pred             Hhhc
Confidence            8853

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D

Probab=100.00  E-value=2e-57  Score=395.79  Aligned_cols=226  Identities=69%  Similarity=1.060  Sum_probs=210.2

Q ss_pred             CCCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEec
Q 042723            1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSG   72 (262)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG   72 (262)
                      ||+++++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+.++..+++.+||++|+++++++++|
T Consensus         1 ~~m~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG   80 (241)
T 1iru_E            1 MFLTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSG   80 (241)
T ss_dssp             -------CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEE
T ss_pred             CCCccCCCCCCCceECCCCccHHHHHHHHHHHcCCcEEEEEcCCEEEEEEecccCCcCcCccccceEEEEcCCEEEEEee
Confidence            7788889999999999999999999999999999999999999        77777666688999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCC-----CccceEEEEEEEEcCCCCeEEEEC
Q 042723           73 LIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESM-----SRPFGVSLLIAGSDENGPSLYYTD  147 (262)
Q Consensus        73 ~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~-----~rP~~vs~iiaG~d~~gp~Ly~iD  147 (262)
                      ..+|++.+.++++.+++.|+++++++++++.+++++++++|.|+++.   +     .|||++++||||+|++||+||.+|
T Consensus        81 ~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~---~~~~l~~rp~~v~~lvaG~D~~gp~Ly~id  157 (241)
T 1iru_E           81 LIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEED---ADPGAMSRPFGVALLFGGVDEKGPQLFHMD  157 (241)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTT---CCSSCBSSCCCEEEEEEEEETTEEEEEEEC
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccc---cccccccccceEEEEEEEEeCCCCEEEEEC
Confidence            99999999999999999999999999999999999999999999886   6     899999999999997789999999


Q ss_pred             CCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHH
Q 042723          148 PSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAV  225 (262)
Q Consensus       148 ~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~  225 (262)
                      |.|++.++++.|+|+|+++++++||+.|+++|+++||++++++||..+.++..++++++|.+|+++  +++++++|++++
T Consensus       158 p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~l~~~ei~~~  237 (241)
T 1iru_E          158 PSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEV  237 (241)
T ss_dssp             TTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHHHH
T ss_pred             CCCcEEecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCCCeEECCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998668999999999999  899999999999


Q ss_pred             HHhh
Q 042723          226 INRP  229 (262)
Q Consensus       226 l~~~  229 (262)
                      +.++
T Consensus       238 ~~~~  241 (241)
T 1iru_E          238 IKDI  241 (241)
T ss_dssp             HTTC
T ss_pred             HHhC
Confidence            9764

>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=5.2e-57  Score=394.34  Aligned_cols=228  Identities=32%  Similarity=0.593  Sum_probs=217.2

Q ss_pred             CCCCc-CCCCCCccccCCCCCchhhhhHHHHhcc-CCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEE
Q 042723            1 MFFTR-TEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAM   70 (262)
Q Consensus         1 ~~~~~-~~yd~~~~~fsp~G~~~QieyA~kav~~-G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~   70 (262)
                      ||+++ ++||+++|+|||||||+|||||++|+++ |+|+|||+++        +|.+++++.+++.+||++|++++++++
T Consensus         1 ~~m~~~~~yd~~~t~fsp~Grl~QvEya~~av~~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~   80 (246)
T 1iru_A            1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVM   80 (246)
T ss_dssp             -CCSCCCTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEE
T ss_pred             CCCCccCCcCCCCccCCCCCeehHHHHHHHHHhcCCCCEEEEEeCCEEEEEEeecCCCcccCCCccCceEEECCCEEEEE
Confidence            66554 7899999999999999999999999999 9999999999        777788888899999999999999999


Q ss_pred             ecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCC
Q 042723           71 SGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPS  149 (262)
Q Consensus        71 sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~  149 (262)
                      +|..+|++.+.++++.+++.|+++++++++++.+++++++++|.|+++.   +.|||+|++||||+|+ +||+||.+||+
T Consensus        81 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~---~~rp~~v~~lvaG~D~~~gp~Ly~idp~  157 (246)
T 1iru_A           81 TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNA---EMRPLGCCMILIGIDEEQGPQVYKCDPA  157 (246)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBS---SBCCCSEEEEEEEEETTTEEEEEEECTT
T ss_pred             eccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCC---CCCCcceEEEEEEEeCCCCeEEEEEcCC
Confidence            9999999999999999999999999999999999999999999999887   8899999999999997 68999999999


Q ss_pred             CceeecCeEEECCChhhHHHHHHhhcCC--CCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC---eEEcCHhHHHH
Q 042723          150 GTFWQCNAKAIGSGSEGADSSLQEQYNK--DLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT---YHLYTPSEVEA  224 (262)
Q Consensus       150 G~~~~~~~~a~G~gs~~a~~~Le~~~~~--~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~---~~~~~~~ei~~  224 (262)
                      |++.+++++|+|+|+++++++||+.|++  +|+++||++++++||..+.++|.++++++|.+|+++   +++++++||++
T Consensus       158 G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~sg~~i~v~vi~~~g~~~~~l~~~ei~~  237 (246)
T 1iru_A          158 GYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDA  237 (246)
T ss_dssp             SCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHH
T ss_pred             eeEEEeeEEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCeEEECCHHHHHH
Confidence            9999999999999999999999999999  999999999999999999999988999999999999   79999999999


Q ss_pred             HHHhhhh
Q 042723          225 VINRPMS  231 (262)
Q Consensus       225 ~l~~~~~  231 (262)
                      ++..+.+
T Consensus       238 ~~~~~~~  244 (246)
T 1iru_A          238 HLVALAE  244 (246)
T ss_dssp             HHHHHHT
T ss_pred             HHHHhhc
Confidence            9998853

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

Probab=100.00  E-value=8e-58  Score=403.27  Aligned_cols=230  Identities=41%  Similarity=0.696  Sum_probs=212.2

Q ss_pred             CCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCH
Q 042723            3 FTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLI   74 (262)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~   74 (262)
                      +.+++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+++++.+++.+||++|+++++++++|..
T Consensus         7 ~~~~~yd~~~t~fSp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~d~i~~~~aG~~   86 (264)
T 3h4p_A            7 VPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLV   86 (264)
T ss_dssp             ---------CCCCCSSSSCHHHHHHHHHHHHSCCEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEETTEEEEEEECS
T ss_pred             CCccccCCCcceECCCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEecCccCCccccCccccEEEecCcEEEEeccch
Confidence            44688999999999999999999999999999999999999        7777788888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceee
Q 042723           75 ADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQ  154 (262)
Q Consensus        75 ~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~  154 (262)
                      +|++.|+++++.+++.|+++++++++++.++++|++++|.|+++.   ++|||+|++||||+|++||+||++||.|++.+
T Consensus        87 aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~---~~rP~~v~~lvaG~D~~gp~Ly~iDp~G~~~~  163 (264)
T 3h4p_A           87 ADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHG---GVRPFGVSLLIAGIDKNEARLFETDPSGALIE  163 (264)
T ss_dssp             HHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBS---SCCCCSEEEEEEEEETTEEEEEEECTTCCCEE
T ss_pred             HHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhcc---CCCCeeEEEEEEEEeCCcCEEEEECCCceEEe
Confidence            999999999999999999999999999999999999999999987   89999999999999988999999999999999


Q ss_pred             cCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC---eEEcCHhHHHHHHHhhhh
Q 042723          155 CNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT---YHLYTPSEVEAVINRPMS  231 (262)
Q Consensus       155 ~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~---~~~~~~~ei~~~l~~~~~  231 (262)
                      ++++|+|+|+.+++++||+.|+++|+++||++++++||..+.++ .++++++|++|+++   +++++++||++++..+..
T Consensus       164 ~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~-~sg~~iev~vi~~~~~~~~~l~~~ei~~~~~~~~~  242 (264)
T 3h4p_A          164 YKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED-IKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVKK  242 (264)
T ss_dssp             ESEEEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS-CCTTSEEEEEEETTTTEEEECCTTTTGGGTTTTTT
T ss_pred             cCeEEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc-cCCCeEEEEEEEeCCCcEEECCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999988 88999999999975   999999999999999986


Q ss_pred             hhhhc
Q 042723          232 IRRKS  236 (262)
Q Consensus       232 ~~~~~  236 (262)
                      ..+.+
T Consensus       243 ~~~~~  247 (264)
T 3h4p_A          243 KLNEE  247 (264)
T ss_dssp             SSSCC
T ss_pred             hhhcc
Confidence            65444

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

Probab=100.00  E-value=1.3e-55  Score=384.99  Aligned_cols=221  Identities=34%  Similarity=0.604  Sum_probs=211.7

Q ss_pred             CCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcC-CCccCceEEEcCcEEEEEecCHHHH
Q 042723            7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE-PSSVEKIKEIDEHIGCAMSGLIADA   77 (262)
Q Consensus         7 ~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~-~~~~~Ki~~I~~~i~~~~sG~~~D~   77 (262)
                      +||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+.++.. +++.+||++|+++++++++|..+|+
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~   83 (244)
T 1ryp_C            4 RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADA   83 (244)
T ss_dssp             GGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHH
T ss_pred             ccCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHHH
Confidence            7999999999999999999999999999999999999        777776665 8899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEc-CCCCeEEEECCCCceeecC
Q 042723           78 RTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        78 ~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d-~~gp~Ly~iD~~G~~~~~~  156 (262)
                      +.+.++++.+++.|+++++++++++.+++++++++|.|+++.   ++|||++++||||+| ++||+||.+||.|++.+++
T Consensus        84 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~---~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~  160 (244)
T 1ryp_C           84 EILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG---GLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWK  160 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBS---SCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccC---CccceEEEEEEEEEcCCCCCEEEEECCCccEEeee
Confidence            999999999999999999999999999999999999999987   889999999999999 6789999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEe--CC-----eEEcCHhHHHHHHHh
Q 042723          157 AKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEE-KVTPNNVDIARVA--PT-----YHLYTPSEVEAVINR  228 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-d~s~~~iev~ii~--k~-----~~~~~~~ei~~~l~~  228 (262)
                      ++|+|+|+++++++||+.|+++|+++||++++++||..+.++ +.++++++|.+|+  ++     +++++++||++++..
T Consensus       161 ~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l~~~ei~~~~~~  240 (244)
T 1ryp_C          161 AISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVK  240 (244)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHHH
T ss_pred             EEEECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEECCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999 5689999999999  76     689999999999988


Q ss_pred             hh
Q 042723          229 PM  230 (262)
Q Consensus       229 ~~  230 (262)
                      ++
T Consensus       241 ~~  242 (244)
T 1ryp_C          241 TG  242 (244)
T ss_dssp             HT
T ss_pred             hh
Confidence            75

>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=3e-55  Score=382.14  Aligned_cols=222  Identities=37%  Similarity=0.613  Sum_probs=210.7

Q ss_pred             CCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcC-CCccCceEEEcCcEEEEEecCHHHH
Q 042723            7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLE-PSSVEKIKEIDEHIGCAMSGLIADA   77 (262)
Q Consensus         7 ~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~-~~~~~Ki~~I~~~i~~~~sG~~~D~   77 (262)
                      +||+++|+|||||||+|||||+||+++|+|+|||+++        +|.+.++.. +++.+||++|+++++++++|..+|+
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            5999999999999999999999999999999999999        777765554 4489999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC--CCCeEEEECCCCceeec
Q 042723           78 RTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        78 ~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~--~gp~Ly~iD~~G~~~~~  155 (262)
                      +.+.++++.+++.|+++++++++++.++++|++++|.|+++.   ++|||++++||||+|+  +||+||.+||.|++.++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~---~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~  157 (241)
T 1ryp_D           81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG---GVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSW  157 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSST---TBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCC---CCCCcceeeEEEEEcCCCCCeeEEEECCCCCEEEe
Confidence            999999999999999999999999999999999999999987   8899999999999998  78999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhc---CCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhh
Q 042723          156 NAKAIGSGSEGADSSLQEQY---NKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINRPM  230 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~---~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~  230 (262)
                      +++|+|+|+++++++||+.|   +++|+++||++++++||..+.+  .++++++|.+|+++  +++++++||++++..+.
T Consensus       158 ~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~--~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~~~  235 (241)
T 1ryp_D          158 SAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQIE  235 (241)
T ss_dssp             SEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC--SCSTTEEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             eeEEECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc--CCCCcEEEEEEECCCcEEECCHHHHHHHHHHHh
Confidence            99999999999999999999   9999999999999999999987  78999999999998  99999999999999986


Q ss_pred             hhh
Q 042723          231 SIR  233 (262)
Q Consensus       231 ~~~  233 (262)
                      +..
T Consensus       236 ~~~  238 (241)
T 1ryp_D          236 QEK  238 (241)
T ss_dssp             HHH
T ss_pred             hhh
Confidence            443

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 4b4t_G 4g4s_G* 3bdm_F* 1fnt_G* 2zcy_F*

Probab=100.00  E-value=1.4e-55  Score=392.77  Aligned_cols=227  Identities=34%  Similarity=0.545  Sum_probs=210.0

Q ss_pred             CCCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEec
Q 042723            1 MFFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSG   72 (262)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG   72 (262)
                      |++++++||+++|+|||+|||+|||||+||+++|+|+|||+++        +|.+.++...++.+||++|+++++++++|
T Consensus         1 m~~~~~~yd~~~t~fSP~Grl~QvEYA~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~d~i~~~~aG   80 (288)
T 3nzj_F            1 MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSG   80 (288)
T ss_dssp             ----CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEETTTEEEEEEE
T ss_pred             CCCCcCCccCCcccCCCCCchHHHHHHHHHHhcCCcEEEEEECCEEEEEEcCCcccCCccccccceEEEEcCCEEEEecC
Confidence            8999999999999999999999999999999999999999999        77777776666889999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCce
Q 042723           73 LIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTF  152 (262)
Q Consensus        73 ~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~  152 (262)
                      ..+|++.|+++++.+++.|+++++++++++.++++|++++|.|+++.   ++|||+|++||||||++||+||++||.|++
T Consensus        81 ~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~---~~rP~gv~~lvaG~D~~Gp~Ly~iDp~G~~  157 (288)
T 3nzj_F           81 LIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN---SVRPFGVSTIFGGVDKNGAHLYMLEPSGSY  157 (288)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCT---TBCCCCEEEEEEEEETTEEEEEEECTTSCE
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhc---cCCCceEEEEEEEEeCCCCEEEEECCCCCE
Confidence            99999999999999999999999999999999999999999999987   899999999999999999999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhh---cCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeC-C----eEEcCHhHHH
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQ---YNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAP-T----YHLYTPSEVE  223 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~---~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k-~----~~~~~~~ei~  223 (262)
                      .+++++|+|+|+++++++||+.   |+++|+++||++++++||..+.+++. +++.+||.+|++ +    ++.++.++++
T Consensus       158 ~~~~~~aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~~~~~~~~~~vp~~~~~  237 (288)
T 3nzj_F          158 WGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQ  237 (288)
T ss_dssp             EEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEETTTSTTCCEECCHHHHH
T ss_pred             EEcCEEEEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEecCCCceEEECCHHHHH
Confidence            9999999999999999999999   99999999999999999999999976 788999999999 3    6788888877


Q ss_pred             HHHHhhh
Q 042723          224 AVINRPM  230 (262)
Q Consensus       224 ~~l~~~~  230 (262)
                      +..+.-+
T Consensus       238 ~~~~~~~  244 (288)
T 3nzj_F          238 EAIDFAQ  244 (288)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6654443

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

Probab=100.00  E-value=1.1e-55  Score=387.73  Aligned_cols=230  Identities=30%  Similarity=0.454  Sum_probs=217.2

Q ss_pred             CCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecC
Q 042723            2 FFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGL   73 (262)
Q Consensus         2 ~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~   73 (262)
                      +++.++||+++|+|||||||+|||||+||+++|+|+|||+++        +|.+.++...++.+||++|+++++++++|.
T Consensus         1 ~~~~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~   80 (254)
T 1iru_G            1 SSIGTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGL   80 (254)
T ss_dssp             CCCCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEEC
T ss_pred             CCcccccCCCCccCCcCCccHHHHhHHHHHhcCCCEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEECCCEEEEEecC
Confidence            467889999999999999999999999999999999999999        777776666688999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEc-CCCCeEEEECCCCce
Q 042723           74 IADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTF  152 (262)
Q Consensus        74 ~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d-~~gp~Ly~iD~~G~~  152 (262)
                      .+|++.|.++++.+++.|+++++++++++.+++++++++|.|+++.   ++|||+|++|||||| .+||+||++||.|++
T Consensus        81 ~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~---~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~  157 (254)
T 1iru_G           81 LADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYS---AVRPFGCSFMLGSYSVNDGAQLYMIDPSGVS  157 (254)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBS---SBCCCSEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcccc---ccccceEEEEEEEEeCCCCcEEEEEcCCCCE
Confidence            9999999999999999999999999999999999999999999987   899999999999999 668999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC----eEEcCHhHHHHHHH
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT----YHLYTPSEVEAVIN  227 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~----~~~~~~~ei~~~l~  227 (262)
                      .+++++|+|+|+++++++||+.|+++|+++||++++++||+.+.+++. ++++++|++|+++    +++++++|++++++
T Consensus       158 ~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~~~~i~~~~~  237 (254)
T 1iru_G          158 YGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEK  237 (254)
T ss_dssp             EEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHH
T ss_pred             EeeeeEEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999988876 7889999999976    99999999999999


Q ss_pred             hhhhhhh
Q 042723          228 RPMSIRR  234 (262)
Q Consensus       228 ~~~~~~~  234 (262)
                      .++..-+
T Consensus       238 ~~~~~~~  244 (254)
T 1iru_G          238 YAKESLK  244 (254)
T ss_dssp             HHHHHHC
T ss_pred             HHHHhhh
Confidence            8865444

>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=6.8e-56  Score=390.89  Aligned_cols=223  Identities=35%  Similarity=0.596  Sum_probs=212.4

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      +++||+++|+|||||||+|||||+||+++|+|+|||+++        +|.+.++.  ++.+||++|+++++++++|..+|
T Consensus         3 ~~~yd~~~t~fsP~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl~--~~~~KI~~i~~~i~~~~aG~~aD   80 (263)
T 1iru_F            3 RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--AHQKKILHVDNHIGISIAGLTAD   80 (263)
T ss_dssp             -CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHH
T ss_pred             cCCCCCCCccCCCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEecccccccc--cchhcEEEEcCCEEEEEeCCHHH
Confidence            689999999999999999999999999999999999999        67776663  47899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~  156 (262)
                      ++.|.++++.+++.|+++++++++++.+++++++++|.|+++.   ++|||+|++||||||++||+||++||+|++.+++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~---~~RP~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~  157 (263)
T 1iru_F           81 ARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRY---GRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCR  157 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBT---TCCCCCEEEEEEEEETTEEEEEEECSSSCEEEES
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhccc---ccccceEEEEEEEEcCCCCEEEEECCCCCEEEee
Confidence            9999999999999999999999999999999999999999887   8899999999999999899999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCC--CCCHHHHHHHHHHHHHHHhhcc--CCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhh
Q 042723          157 AKAIGSGSEGADSSLQEQYNK--DLTLQEAETIALSILKQVMEEK--VTPNNVDIARVAPT--YHLYTPSEVEAVINRPM  230 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~--~ms~eea~~la~~al~~~~~~d--~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~  230 (262)
                      ++|+|+|+++++++||+.|++  +|+++||++++++||..+.++|  .++++++|++|+++  +++++++||++++..+.
T Consensus       158 ~~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~~~ei~~~~~~~~  237 (263)
T 1iru_F          158 AMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLE  237 (263)
T ss_dssp             EEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTCC
T ss_pred             EEEcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECCHHHHHHHHHHHh
Confidence            999999999999999999998  9999999999999999999998  58999999999999  99999999999999986


Q ss_pred             hh
Q 042723          231 SI  232 (262)
Q Consensus       231 ~~  232 (262)
                      ..
T Consensus       238 ~~  239 (263)
T 1iru_F          238 ER  239 (263)
T ss_dssp             CC
T ss_pred             cc
Confidence            33

>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=1.4e-55  Score=385.76  Aligned_cols=224  Identities=37%  Similarity=0.632  Sum_probs=213.9

Q ss_pred             CCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHH
Q 042723            8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADART   79 (262)
Q Consensus         8 yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   79 (262)
                      ||+.+|+|||||||+|||||++|+++|+|+|||+++        +|.+.+++.+++.+||++|+++++++++|..+|++.
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~   82 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADARI   82 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHHH
T ss_pred             ccCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEcCCEEEEEeecHHHHHH
Confidence            999999999999999999999999999999999999        777777888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEc-CCCCeEEEECCCCceeecCeE
Q 042723           80 LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAK  158 (262)
Q Consensus        80 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d-~~gp~Ly~iD~~G~~~~~~~~  158 (262)
                      +.++++.+++.|+++++++++++.+++++++++|.|+++.   ++|||+|++||||+| ++||+||.+||.|++.+++++
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~---~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~  159 (248)
T 1iru_D           83 VINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN---GRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKAN  159 (248)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBT---TBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccC---CcccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeEE
Confidence            9999999999999999999999999999999999999987   889999999999999 668999999999999999999


Q ss_pred             EECCChhhHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhhhhhh
Q 042723          159 AIGSGSEGADSSLQEQYNKDL--TLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINRPMSIRR  234 (262)
Q Consensus       159 a~G~gs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~~~~~  234 (262)
                      |+|+|+++++++||+.|+++|  +++||++++++||..+.+  .++++++|.+|+++  +++++++||++++..+.....
T Consensus       160 aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~--~sg~~i~v~vi~~~g~~~~l~~~ei~~~~~~~~~~~~  237 (248)
T 1iru_D          160 AIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEKE  237 (248)
T ss_dssp             EESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC--TTSTTCCEEEEESSSCEECCCHHHHHHHTTTTTTTTT
T ss_pred             EECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc--CCCCcEEEEEEECCCcEEECCHHHHHHHHHHHHhcch
Confidence            999999999999999999999  999999999999999987  57899999999998  999999999999999976554


Q ss_pred             hc
Q 042723          235 KS  236 (262)
Q Consensus       235 ~~  236 (262)
                      .+
T Consensus       238 ~~  239 (248)
T 1iru_D          238 EN  239 (248)
T ss_dssp             TT
T ss_pred             hh
Confidence            44

>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=4.5e-55  Score=385.31  Aligned_cols=228  Identities=36%  Similarity=0.583  Sum_probs=214.1

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCc-CCCccCceEEEcCcEEEEEecCHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLL-EPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~-~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      ++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+.++. .+++.+||++|+++++++++|..+|
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            48999999999999999999999999999999999999        67766554 4555899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeec
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~  155 (262)
                      ++.|+++++.+++.|+++++++++++.+++++++++|.|+++.   ++|||+|++||||+|+ +||+||.+||+|++.++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~---~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~  159 (261)
T 1iru_C           83 ANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFG---GKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGW  159 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBS---SCCCCCEEEEEEEEETTTEEEEEEEETTTEEEEC
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcccc---CcCcceEEEEEEEEeCCCCcEEEEECCCceEEee
Confidence            9999999999999999999999999999999999999999987   8899999999999996 68999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCC-CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-----eEEcCHhHHHHHHHh
Q 042723          156 NAKAIGSGSEGADSSLQEQYNK-DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-----YHLYTPSEVEAVINR  228 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~-~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-----~~~~~~~ei~~~l~~  228 (262)
                      +++|+|+|+.+++++||+.|++ +||++||++++++||..+.++|. ++++++|.+|+++     +++++++||++++..
T Consensus       160 ~~~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~~~ei~~~l~~  239 (261)
T 1iru_C          160 KATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKK  239 (261)
T ss_dssp             SEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHHH
T ss_pred             eeEEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECCHHHHHHHHHH
Confidence            9999999999999999999999 99999999999999999999986 8899999999987     689999999999999


Q ss_pred             hhhhhhhc
Q 042723          229 PMSIRRKS  236 (262)
Q Consensus       229 ~~~~~~~~  236 (262)
                      +.+++..+
T Consensus       240 ~~~~~~~~  247 (261)
T 1iru_C          240 HEEEEAKA  247 (261)
T ss_dssp             HHTTTTTT
T ss_pred             HHhchhhh
Confidence            97655544

>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=3.5e-55  Score=381.85  Aligned_cols=222  Identities=59%  Similarity=0.941  Sum_probs=211.6

Q ss_pred             CCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHHH
Q 042723            9 DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTL   80 (262)
Q Consensus         9 d~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l   80 (262)
                      |+++|+|||||||+|||||++|+++|+|+|||+++        +|.+.++..+++.+||++|+++++++++|..+|++.+
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            78999999999999999999999999999999999        7777766668889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCC------CccceEEEEEEEEc-CCCCeEEEECCCCcee
Q 042723           81 VEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESM------SRPFGVSLLIAGSD-ENGPSLYYTDPSGTFW  153 (262)
Q Consensus        81 ~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~------~rP~~vs~iiaG~d-~~gp~Ly~iD~~G~~~  153 (262)
                      .++++.+++.|+++++++++++.+++++++++|.|+++.   +      .|||++++||||+| .+||+||.+||.|++.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~---~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~  157 (242)
T 1ryp_E           81 IEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGA---SGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFY  157 (242)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSC---TTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEE
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcccc---CcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEe
Confidence            999999999999999999999999999999999999887   6      89999999999999 5689999999999999


Q ss_pred             ecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhhh
Q 042723          154 QCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINRPMS  231 (262)
Q Consensus       154 ~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~~  231 (262)
                      ++++.|+|+|+.+++++||+.|+++||++||++++++||..+.+++.++++++|.+|+++  +++++++||++++..+.+
T Consensus       158 ~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~ei~~~~~~~~~  237 (242)
T 1ryp_E          158 RYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELKE  237 (242)
T ss_dssp             EBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHHHHHHHHHHH
T ss_pred             ccCEEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCeEECCHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999999998668999999999999  899999999999999865


Q ss_pred             hh
Q 042723          232 IR  233 (262)
Q Consensus       232 ~~  233 (262)
                      +.
T Consensus       238 ~~  239 (242)
T 1ryp_E          238 KE  239 (242)
T ss_dssp             HH
T ss_pred             hh
Confidence            44

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

Probab=100.00  E-value=1.8e-54  Score=379.15  Aligned_cols=221  Identities=34%  Similarity=0.569  Sum_probs=211.5

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADA   77 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~   77 (262)
                      ++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+++++.+++.+||++|+++++++++|..+|+
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~   82 (250)
T 1ryp_B            3 DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPDY   82 (250)
T ss_dssp             CCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHHH
T ss_pred             CcccCCceeECCCCccHHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCCccccCcccCceEEECCCEEEEeeeCHHHH
Confidence            38999999999999999999999999999999999999        7777888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH-HHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeec
Q 042723           78 RTLVEHARVETQN-HRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        78 ~~l~~~~r~~~~~-~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~  155 (262)
                      +.+.++++.+++. |+..++.+++++.+++.++++++.|++..   ++|||++++||||||+ +||+||.+||.|++.++
T Consensus        83 ~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~---~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~  159 (250)
T 1ryp_B           83 RVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSG---GVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPW  159 (250)
T ss_dssp             HHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSB---TBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcC---CcccceEEEEEEEEcCCCCcEEEEECCCCCEEee
Confidence            9999999999999 99999999999999999999999999987   8899999999999997 57999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-----------------eEEcC
Q 042723          156 NAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-----------------YHLYT  218 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~-----------------~~~~~  218 (262)
                      +++|+|+|+++++++||+.|+++|++|||++++++||..+.+++.++++++|.+|+++                 |++++
T Consensus       160 ~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~~~~~~~~~~~~l~  239 (250)
T 1ryp_B          160 KATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLT  239 (250)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEECC
T ss_pred             ceeEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhccccCCCCEEEEEEEccccccccccccccCCCCCeEECC
Confidence            9999999999999999999999999999999999999999998889999999999972                 89999


Q ss_pred             HhHHHHHHHhh
Q 042723          219 PSEVEAVINRP  229 (262)
Q Consensus       219 ~~ei~~~l~~~  229 (262)
                      ++||++++.++
T Consensus       240 ~~ei~~~l~~~  250 (250)
T 1ryp_B          240 SQEINDRLEAL  250 (250)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHHhC
Confidence            99999999754

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

Probab=100.00  E-value=1.3e-55  Score=382.54  Aligned_cols=216  Identities=36%  Similarity=0.566  Sum_probs=205.3

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      +++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+.++.  ++.+||++|+++++++++|..+|
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~--~~~~Ki~~i~~~i~~~~aG~~aD   79 (233)
T 1ryp_F            2 RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAPD   79 (233)
T ss_dssp             HHHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHHH
T ss_pred             CCcccCCCccCCCCCeehHHHHHHHHHHcCCCEEEEEcCCEEEEEEEeccccccc--cccCcEEEEcCCEEEEEEechHH
Confidence            468999999999999999999999999999999999999        67776664  47799999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~  156 (262)
                      ++.+.+.++.+++.|++++++++|++.+++++++++|.|+++.   +.|||+|++||||||++||+||++||+|++.+++
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~---~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~  156 (233)
T 1ryp_F           80 ARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSY---GGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELY  156 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBT---TCCCCCEEEEEEEEETTEEEEEEECTTSCEEEES
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccc---CCcCcceEEEEEEEeCCcCEEEEECCCCCeeeee
Confidence            9999999999999999999999999999999999999999987   8899999999999999899999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCC--CC--CHHHHHHHHHHHHHHHhhcc--CCCCcEEEEEEeCC--eEEcCHhHHHHHH
Q 042723          157 AKAIGSGSEGADSSLQEQYNK--DL--TLQEAETIALSILKQVMEEK--VTPNNVDIARVAPT--YHLYTPSEVEAVI  226 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~--~m--s~eea~~la~~al~~~~~~d--~s~~~iev~ii~k~--~~~~~~~ei~~~l  226 (262)
                      ++|+|+|+++++++||+.|++  +|  |+|||++++++||..+. +|  .++++++|.+|+++  +++++++||+++|
T Consensus       157 ~~aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~~~~~~~l~~~ei~~~l  233 (233)
T 1ryp_F          157 GTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI  233 (233)
T ss_dssp             EEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEETTEEEEEEEGGGGGGGC
T ss_pred             EEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEECCCCEEECCHHHHHhhC
Confidence            999999999999999999998  99  99999999999999999 55  48999999999999  9999999998764

>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=4.4e-54  Score=375.48  Aligned_cols=221  Identities=35%  Similarity=0.568  Sum_probs=206.1

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      +++||+++|+|||||||+|||||++|+++|+|+|||+++        +|.+.++...++.+||++|+++++++++|..+|
T Consensus         1 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD   80 (244)
T 1ryp_G            1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPD   80 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHH
T ss_pred             CCCccCCcccCCcCCchHHHHhHHHHHHCCCCEEEEEECCEEEEEEecccCCCCccccccCceEEecCCEEEEEcccHHH
Confidence            468999999999999999999999999999999999999        677766655556699999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~  156 (262)
                      ++.+.++++.+++.|++++++++++..++++|++++|.|+++.   +.|||++++||||+|++||+||.+||+|++.+++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~---~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~  157 (244)
T 1ryp_G           81 GRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN---SVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYK  157 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCT---TBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccc---CccCceEEEEEEEEeCCcCEEEEECCCCCEEEee
Confidence            9999999999999999999999999999999999999999987   8899999999999998899999999999999999


Q ss_pred             eEEECCChhhHHHHHHhh---cCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeC---C-eEEcCHhHHHHHHHh
Q 042723          157 AKAIGSGSEGADSSLQEQ---YNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAP---T-YHLYTPSEVEAVINR  228 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~---~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k---~-~~~~~~~ei~~~l~~  228 (262)
                      ++|+|+|+++++++||+.   |+++||++||++++++||..+.++|. ++++++|.+|++   + ++++.++++.+..++
T Consensus       158 ~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~~~~~~~~~~~~~  237 (244)
T 1ryp_G          158 GAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAID  237 (244)
T ss_dssp             EEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHHH
T ss_pred             EEEECCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeeeeChHHHHHHHHH
Confidence            999999999999999997   99999999999999999999999987 789999999998   6 777777666555543

>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=3.4e-46  Score=328.24  Aligned_cols=217  Identities=21%  Similarity=0.309  Sum_probs=187.6

Q ss_pred             ccCCCCCch-hhhhHHHHhccCCcEEEEeec---cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHH
Q 042723           14 TFSPEGRLF-QVEYAIEAIKLGSTAIGLKTK---KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQ   89 (262)
Q Consensus        14 ~fsp~G~~~-QieyA~kav~~G~tiVgI~~~---~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~   89 (262)
                      -|||+|++. |||||++|+++|+|+|||+++   ..+..+.  +++.+||++|+++++++++|..+|++.|++.++.+++
T Consensus         6 ~~sPe~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r--s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~   83 (259)
T 1q5q_A            6 YASAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP--STALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHAD   83 (259)
T ss_dssp             ---CHHHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS--CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC--CCCcCcEEEeCCCEEEEEccCHHHHHHHHHHHHHHHH
Confidence            479999995 999999999999999999999   1111111  4788999999999999999999999999999999999


Q ss_pred             HHHHHhC-CCCCHHHHHHHHHH-HHHHhcCCCccCCCccceEEEEEEEEc----CCCCeEEEECCCCcee-ecCeEEECC
Q 042723           90 NHRFSYG-EPMTVESTTQALCD-LVLRFGEGDEESMSRPFGVSLLIAGSD----ENGPSLYYTDPSGTFW-QCNAKAIGS  162 (262)
Q Consensus        90 ~~~~~~~-~~i~~~~la~~ls~-~l~~~~~~~~~~~~rP~~vs~iiaG~d----~~gp~Ly~iD~~G~~~-~~~~~a~G~  162 (262)
                      .+++.++ ++++++.++++|++ +.|.|+.     +.|||+|++||||||    .+||+||++||+|++. +++++|+|+
T Consensus        84 ~~~~~~~~~~i~v~~la~~l~~~l~q~yt~-----~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~~~~aiG~  158 (259)
T 1q5q_A           84 MRGYSYDRRDVTGRSLANAYAQTLGTIFTE-----QPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGG  158 (259)
T ss_dssp             HHHHHSCGGGCCHHHHHHHHHHHHHHHHHH-----SSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESS
T ss_pred             HHHHHcCCcCCCHHHHHHHHHHHHHHHhcc-----CCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCCCEEEECC
Confidence            9999988 49999999999999 6677873     569999999999999    6789999999999999 889999999


Q ss_pred             ChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHh-----hccCCCCcEEEEEEeCC-----eEEcCHhHHHHHHHhhhhh
Q 042723          163 GSEGADSSLQEQYNKDLTLQEAETIALSILKQVM-----EEKVTPNNVDIARVAPT-----YHLYTPSEVEAVINRPMSI  232 (262)
Q Consensus       163 gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~-----~~d~s~~~iev~ii~k~-----~~~~~~~ei~~~l~~~~~~  232 (262)
                      |++.++++||+.|+++|+++||++++++||..+.     ++|+++++++|++|+++     +++++++||++++..+...
T Consensus       159 gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~sg~~iev~vi~~~~~~~~~~~l~~~ei~~~~~~~~~~  238 (259)
T 1q5q_A          159 TTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAEPAA  238 (259)
T ss_dssp             SHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSCCC---
T ss_pred             ChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccCCCCcEEEEEEECCCCcCCeEECCHHHHHHHHHHhhhc
Confidence            9999999999999999999999999999999998     88888899999999986     9999999999999999877


Q ss_pred             hhhcc
Q 042723          233 RRKSS  237 (262)
Q Consensus       233 ~~~~~  237 (262)
                      +..+.
T Consensus       239 ~~~~~  243 (259)
T 1q5q_A          239 ASESA  243 (259)
T ss_dssp             -----
T ss_pred             ccccc
Confidence            66553

>3mi0_A Proteasome subunit alpha; enzyme inhibitors, lactones, proteasome endopeptidase comple mycobacterium tuberculosis, hydrolase; HET: SA6; 2.20A {Mycobacterium tuberculosis} SCOP: d.153.1.4 PDB: 3h6f_A 3krd_A* 3h6i_A* 3mka_A 2fhh_A* 2fhg_A 3hfa_D 3hf9_A 3mfe_D

Probab=100.00  E-value=1.6e-43  Score=309.17  Aligned_cols=208  Identities=20%  Similarity=0.303  Sum_probs=181.3

Q ss_pred             CCCCCch-hhhhHHHHhccCCcEEEEeec---cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHH
Q 042723           16 SPEGRLF-QVEYAIEAIKLGSTAIGLKTK---KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNH   91 (262)
Q Consensus        16 sp~G~~~-QieyA~kav~~G~tiVgI~~~---~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~   91 (262)
                      ||++-.. ++|||+||+++|+|+|||+++   ..+..+.  +++.+||++|++|++++++|..+|++.|.+.++.+++.|
T Consensus         8 ~p~~~~~~r~EYA~~av~~GtT~vgi~~kdgVVlaadkr--~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~l~   85 (248)
T 3mi0_A            8 SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENP--SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQFADTR   85 (248)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSCCEEEEEETTEEEEEEECC--CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHhcccchHHHHHHHhCCCcEEEEEeCCEEEEEEeCC--CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHHHHHHH
Confidence            5555443 689999999999999999999   1111111  468899999999999999999999999999999999999


Q ss_pred             HHHhC-CCCCHHHHHHHHH-HHHHHhcCCCccCCCccceEEEEEEEEcC----CCCeEEEECCCCceee-cCeEEECCCh
Q 042723           92 RFSYG-EPMTVESTTQALC-DLVLRFGEGDEESMSRPFGVSLLIAGSDE----NGPSLYYTDPSGTFWQ-CNAKAIGSGS  164 (262)
Q Consensus        92 ~~~~~-~~i~~~~la~~ls-~~l~~~~~~~~~~~~rP~~vs~iiaG~d~----~gp~Ly~iD~~G~~~~-~~~~a~G~gs  164 (262)
                      +++++ ++++++.|+++|+ .+.|.|+++     +|||+|++||||||+    +||+||++||+|++.+ ++++|+|+|+
T Consensus        86 ~~~~~~~~i~v~~la~~l~~~l~q~yt~~-----~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gsgs  160 (248)
T 3mi0_A           86 GYAYDRRDVTGRQLANVYAQTLGTIFTEQ-----AKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTT  160 (248)
T ss_dssp             HHHSCGGGCCHHHHHHHHHHHHHHHHHHS-----SSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEEEESSCH
T ss_pred             HHhcCCCCCCHHHHHHHHHHHHHHHhccC-----CCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEEEECccH
Confidence            99999 8999999999999 677888874     599999999999998    6899999999999995 9999999999


Q ss_pred             hhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHh-------hccCCCCcEEEEEEeCC-----eEEcCHhHHHHHHHhhh
Q 042723          165 EGADSSLQEQYNKDLTLQEAETIALSILKQVM-------EEKVTPNNVDIARVAPT-----YHLYTPSEVEAVINRPM  230 (262)
Q Consensus       165 ~~a~~~Le~~~~~~ms~eea~~la~~al~~~~-------~~d~s~~~iev~ii~k~-----~~~~~~~ei~~~l~~~~  230 (262)
                      +.++++||+.|+++|+++||++++++||..+.       +++++++++||++|+++     |++++++||++++..+.
T Consensus       161 ~~a~~~Le~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~~~~~~iev~vv~~~g~~~~f~~l~~~ei~~~l~~~~  238 (248)
T 3mi0_A          161 EPIANALKESYAENASLTDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLVDQE  238 (248)
T ss_dssp             HHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC------------CCTTEEEEEEETTSSSCCEEECCHHHHHHTC----
T ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcccCcccccCCCcEEEEEEECCCCcccEEECCHHHHHHHHHHcC
Confidence            99999999999999999999999999999998       66788999999999987     89999999999998764

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

Probab=100.00  E-value=5.1e-43  Score=300.87  Aligned_cols=199  Identities=25%  Similarity=0.403  Sum_probs=180.1

Q ss_pred             CCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           34 GSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        34 G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      |+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.+
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            7999999999        6665 457788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecC-eEEECCChhhHHHHHHhhcCCCCCHH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCN-AKAIGSGSEGADSSLQEQYNKDLTLQ  182 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~-~~a~G~gs~~a~~~Le~~~~~~ms~e  182 (262)
                      +++|++++|.+  +     .|||++++||||||+ +||+||++||+|++.+++ +.|+|+|+++++++||+.|+++|+++
T Consensus        81 a~~l~~~~~~~--~-----~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~e  153 (219)
T 3h4p_a           81 ATLLSNILHSS--R-----MFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVE  153 (219)
T ss_dssp             HHHHHHHHHHT--T-----TTTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHH
T ss_pred             HHHHHHHHHHh--c-----CCCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHH
Confidence            99999999766  2     379999999999998 689999999999999999 99999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhhhhhhhcccc
Q 042723          183 EAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPMSIRRKSSLK  239 (262)
Q Consensus       183 ea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~~~~~~~~~~  239 (262)
                      ||++++++||..+.++|. ++++++|++|+++ +++++++||+++|.++...++.++.|
T Consensus       154 ea~~la~~al~~~~~rd~~sg~~i~v~vi~~~g~~~l~~~ei~~~l~~~~~~~~~~~~~  212 (219)
T 3h4p_a          154 EGIKLALNALKSAMERDTFSGNGISLAVITKDGVKIFEDEEIEKILDSMKAKPKKKTTK  212 (219)
T ss_dssp             HHHHHHHHHHHHHHTSCSSCCSCCCEEEEETTEEEECCHHHHHHHHHHCC---------
T ss_pred             HHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCeEEcCHHHHHHHHHHhhcccccccch
Confidence            999999999999999996 7899999999999 99999999999999999888887643

>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=2.3e-42  Score=296.34  Aligned_cols=194  Identities=23%  Similarity=0.393  Sum_probs=178.6

Q ss_pred             HHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCC
Q 042723           29 EAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPM   99 (262)
Q Consensus        29 kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i   99 (262)
                      +++.+|+|+|||+++        +|.+ ++++.+++.+||++|+++++++++|..+|++.+.++++.+++.|++++++++
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            578899999999999        6665 4788889999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCC
Q 042723          100 TVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL  179 (262)
Q Consensus       100 ~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~m  179 (262)
                      +++.++++++++++.+       +.|||++++|||||| +||+||.+||+|++.+++++|+|+|+++++++||+.|+++|
T Consensus        83 ~v~~la~~l~~~~~~~-------r~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~  154 (217)
T 1yar_H           83 PIEAVATLLSNMLNQV-------KYMPYMVQLLVGGID-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKM  154 (217)
T ss_dssp             CHHHHHHHHHHHHHHT-------TTSCCCEEEEEEEES-SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTC
T ss_pred             CHHHHHHHHHHHHHhc-------CCCCceEEEEEEEEC-CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCC
Confidence            9999999999999653       348999999999999 99999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeC-C-eEEcCHhHHHHHHHhhh
Q 042723          180 TLQEAETIALSILKQVMEEKV-TPNNVDIARVAP-T-YHLYTPSEVEAVINRPM  230 (262)
Q Consensus       180 s~eea~~la~~al~~~~~~d~-s~~~iev~ii~k-~-~~~~~~~ei~~~l~~~~  230 (262)
                      |+|||++++++||..+.++|. ++++++|.+|++ + +++++++||++++..+.
T Consensus       155 s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei~~~~~~~~  208 (217)
T 1yar_H          155 TVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKLG  208 (217)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHHHHHHHHHH
Confidence            999999999999999999996 789999999999 6 99999999999998776

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

Probab=100.00  E-value=1e-41  Score=289.05  Aligned_cols=189  Identities=25%  Similarity=0.429  Sum_probs=178.9

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        +|.+ ++++.+++.+||++|+++++++++|..+|++.+.++++.+++.|++++++++|++.++
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            689999999        6665 4788889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC-eEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN-AKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~-~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      ++++++++.+       +.|||++++||||+|++||+||.+||+|++.+++ ++|+|+|+++++++||+.|+++||++||
T Consensus        81 ~~l~~~~~~~-------r~rp~~~~~lvaG~D~~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea  153 (202)
T 1j2q_H           81 TLTSNLLNSY-------RYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEA  153 (202)
T ss_dssp             HHHHHHHHHT-------TTSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHH
T ss_pred             HHHHHHHHhh-------CCCCceEEEEEEEEeCCCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHH
Confidence            9999999653       3489999999999999899999999999999999 9999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhh
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPM  230 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~  230 (262)
                      ++++++||..+.++|. ++++++|.+|+++ +++++++|+++++..+.
T Consensus       154 ~~la~~al~~~~~~d~~s~~~i~v~vi~~~g~~~l~~~ei~~~~~~~~  201 (202)
T 1j2q_H          154 VELAVRAIYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVEQILAKFR  201 (202)
T ss_dssp             HHHHHHHHHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHHHHGGGTT
T ss_pred             HHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCeEEeCHHHHHHHHHHhh
Confidence            9999999999999996 7899999999999 99999999999998874

>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-41  Score=303.36  Aligned_cols=211  Identities=20%  Similarity=0.306  Sum_probs=181.5

Q ss_pred             CCCCCchhhh------hHHHHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHH
Q 042723           16 SPEGRLFQVE------YAIEAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTL   80 (262)
Q Consensus        16 sp~G~~~Qie------yA~kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l   80 (262)
                      +|+..+.+..      ++.+++.+|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+
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            5666666553      678999999999999999        6665 577888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEc-CCCCeEEEECCCCceeecCeEE
Q 042723           81 VEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKA  159 (262)
Q Consensus        81 ~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d-~~gp~Ly~iD~~G~~~~~~~~a  159 (262)
                      .++++.+++.|+++++++++++.+++++++++|.|++       +||++++|||||| .+||+||++||.|++.++++.|
T Consensus       131 ~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~-------~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~~~~~A  203 (287)
T 3nzj_K          131 ETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG-------AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFC  203 (287)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTT-------SCCCEEEEEEEEETTTEEEEEEEETTCCEEECSEEE
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcC-------CCceEEEEEEEEcCCCCCEEEEECCCceEEEcCeEE
Confidence            9999999999999999999999999999999976643       4899999999999 4689999999999999999999


Q ss_pred             ECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhhhhh
Q 042723          160 IGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPMSIR  233 (262)
Q Consensus       160 ~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~~~~  233 (262)
                      +|+|+.+++++||+.|+++|+++||++++++||..+.+||. ++++++|++|+++ +++++++||++++.++.+..
T Consensus       204 iGsgs~~a~~~Le~~y~~dms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkdg~~~l~~~ev~~~l~~~~e~~  279 (287)
T 3nzj_K          204 VGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEE  279 (287)
T ss_dssp             ESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EecchHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCCCEEEeCHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999997 7899999999999 99999999999999988653

>1q5r_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, hydrolase; 3.10A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_H

Probab=100.00  E-value=1.3e-41  Score=303.65  Aligned_cols=206  Identities=21%  Similarity=0.223  Sum_probs=187.4

Q ss_pred             HHHHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCC
Q 042723           27 AIEAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGE   97 (262)
Q Consensus        27 A~kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~   97 (262)
                      |++|+++|+|+|||+++        +|.+ ++++.+++.+||++|+++++++++|..+|++.++++++.+++.|++++++
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            88999999999999999        6666 47888899999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-C-----CeEEEECCCCceeec--CeEEECCChhhHHH
Q 042723           98 PMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-G-----PSLYYTDPSGTFWQC--NAKAIGSGSEGADS  169 (262)
Q Consensus        98 ~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-g-----p~Ly~iD~~G~~~~~--~~~a~G~gs~~a~~  169 (262)
                      +++++.++++|++++|.++++    .+|||+|++||||||++ |     |+||++||+|++.++  ++.|+|+|+.++++
T Consensus       138 ~isv~~la~~la~~l~~~~~~----~~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~  213 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLGA----AMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKS  213 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHH----HTTTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhh----hcCCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHH
Confidence            999999999999999988765    46999999999999986 6     999999999999999  89999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCC--cE-----EEEEEeCC-eEEcCHhHHHHHHHhhhhhhhhc
Q 042723          170 SLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPN--NV-----DIARVAPT-YHLYTPSEVEAVINRPMSIRRKS  236 (262)
Q Consensus       170 ~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~--~i-----ev~ii~k~-~~~~~~~ei~~~l~~~~~~~~~~  236 (262)
                      +||+.|+++|+++||++++++||..+.++|. +++  ++     +|.+|+++ +++++++|+++++..+.+.|+..
T Consensus       214 ~Le~~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~~~g~~~l~~~ei~~~l~~i~~~~~~~  289 (294)
T 1q5r_H          214 ALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAERTEQ  289 (294)
T ss_dssp             HHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHCC-----
T ss_pred             HHHHhccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEECCCEEEcCHHHHHHHHHHHHHHhhhC
Confidence            9999999999999999999999999999997 443  26     99999999 99999999999999998777665

>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=1.8e-41  Score=302.45  Aligned_cols=227  Identities=18%  Similarity=0.156  Sum_probs=166.4

Q ss_pred             cCCCCCCccccCCCCCc-----hh--hhhHHHHhccCCcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEE
Q 042723            5 RTEYDRGVNTFSPEGRL-----FQ--VEYAIEAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGC   68 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~-----~Q--ieyA~kav~~G~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~   68 (262)
                      .++|+..+....|+.--     ++  +|||++ +++|+|+|||+++        +|.+. .++.+++.+||++|++++++
T Consensus        22 ~~~f~~~~~~~~~~~l~~~~~~~~~~~~ya~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~  100 (291)
T 2jay_A           22 LSSFTDFLRRQAPELLPASISGGAPLAGGDAQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTAT  100 (291)
T ss_dssp             -------------------------------------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEE
T ss_pred             CccHHHHhhhcChhhccccccccCcCcccccc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEE
Confidence            35677677777776422     22  689999 9999999999999        66664 57788899999999999999


Q ss_pred             EEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-C-----Ce
Q 042723           69 AMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-G-----PS  142 (262)
Q Consensus        69 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-g-----p~  142 (262)
                      +++|..+|++.++++++.+++.|++.++++++++.++++++++++.+++.    .+|||+|++||||||++ +     |+
T Consensus       101 ~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~~----~~rpf~v~~lvaG~D~~g~~~~~~p~  176 (291)
T 2jay_A          101 GIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAA----AMQGLLALPLLAGYDIHASDPQSAGR  176 (291)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHHH----HHHTCCCEEEEEEECTTCSCSTTCEE
T ss_pred             EEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhhh----hccccceeEEEEEEeCCCCcCCCCCE
Confidence            99999999999999999999999999999999999999999999877542    57899999999999986 4     89


Q ss_pred             EEEECCCCcee--ecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcE--------EEEEEeC
Q 042723          143 LYYTDPSGTFW--QCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNV--------DIARVAP  212 (262)
Q Consensus       143 Ly~iD~~G~~~--~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~i--------ev~ii~k  212 (262)
                      ||++||+|++.  ++++.|+|+|+++++++||+.|+++|+++||++++++||+.+.++|+..+++        +|.+|++
T Consensus       177 Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~v~vi~~  256 (291)
T 2jay_A          177 IVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIIDA  256 (291)
T ss_dssp             EEEECTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC----------------CCEEEEEET
T ss_pred             EEEECCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCEEEEEEC
Confidence            99999999998  8899999999999999999999999999999999999999999999843344        6999999


Q ss_pred             C-eEEcCHhHHHHHHHhhhhhhhhc
Q 042723          213 T-YHLYTPSEVEAVINRPMSIRRKS  236 (262)
Q Consensus       213 ~-~~~~~~~ei~~~l~~~~~~~~~~  236 (262)
                      + +++++++||++++..+..+|...
T Consensus       257 dg~~~l~~~ei~~~~~~~~~~~~~~  281 (291)
T 2jay_A          257 DGAVDVPESRIAELARAIIESRSGA  281 (291)
T ss_dssp             TEEEECCHHHHHHHHHHC-------
T ss_pred             CCeEEcCHHHHHHHHHHHHHhhhcc
Confidence            9 99999999999999998777655

>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=7.6e-41  Score=284.10  Aligned_cols=190  Identities=21%  Similarity=0.317  Sum_probs=179.3

Q ss_pred             CcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        +|.+. +++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999        66654 788888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      +++++++|.|++       +||++++||||||++||+||.+||+|++.++++.|+|+|+++++++||+.|+++||++||+
T Consensus        81 ~~l~~~~~~~r~-------~~~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~  153 (204)
T 1iru_L           81 KLLANMVYQYKG-------MGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAY  153 (204)
T ss_dssp             HHHHHHHHTTTT-------SCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHH
T ss_pred             HHHHHHHHHhCC-------CCeeEEEEEEEEeCCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHH
Confidence            999999976632       5899999999999989999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhhh
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPMS  231 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~~  231 (262)
                      +++++||..+.++|. ++++++|.+|+++ +++++++|+++++.++..
T Consensus       154 ~l~~~al~~~~~rd~~s~~~i~v~vi~~~g~~~l~~~ei~~~~~~~~~  201 (204)
T 1iru_L          154 DLARRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHEKYSG  201 (204)
T ss_dssp             HHHHHHHHHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCccCCCceEEEEEeCCceEEeCHHHHHHHHHHhcc
Confidence            999999999999996 8999999999999 999999999999998853

>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=1.2e-40  Score=284.62  Aligned_cols=195  Identities=19%  Similarity=0.313  Sum_probs=181.9

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        +|.+ ++++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999        6666 4788889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEc-CCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d-~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      +++++++|.|++       .||++++||||+| ++||+||.+||+|++.++++.|+|+|+++++++||+.|+++||++||
T Consensus        81 ~~l~~~~~~~~~-------~p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea  153 (212)
T 1ryp_L           81 KILSNLVYQYKG-------AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDA  153 (212)
T ss_dssp             HHHHHHHHHTTT-------SCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHH
T ss_pred             HHHHHHHHhhCC-------CCceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHH
Confidence            999999987754       3899999999999 45899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhhhhhhhc
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPMSIRRKS  236 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~~~~~~~  236 (262)
                      ++++++||..+.++|. ++++++|.+|+++ +++++++|+++++.++.+..+.+
T Consensus       154 ~~la~~al~~~~~rd~~s~~~i~v~vi~~~g~~~~~~~ei~~~~~~~~~~~~~~  207 (212)
T 1ryp_L          154 LYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEEGSF  207 (212)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEEEcCCceEEECHHHHHHHHHHHHHhhhhh
Confidence            9999999999999986 7999999999999 99999999999999986544443

>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=3e-40  Score=286.48  Aligned_cols=198  Identities=22%  Similarity=0.245  Sum_probs=184.2

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        +|.+ ++++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999        6666 4788889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-C-----CeEEEECCCCceeec--CeEEECCChhhHHHHHHhhcCC
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-G-----PSLYYTDPSGTFWQC--NAKAIGSGSEGADSSLQEQYNK  177 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-g-----p~Ly~iD~~G~~~~~--~~~a~G~gs~~a~~~Le~~~~~  177 (262)
                      +.|+++++.++++    .+|||++++||||+|++ |     |+||++||+|++.++  ++.|+|+|+.+++++||+.|++
T Consensus        81 ~~l~~~~~~~~~~----~~rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~  156 (235)
T 1q5q_H           81 NRLASMVRGNLGA----AMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSP  156 (235)
T ss_dssp             HHHHHHHHTTHHH----HTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHHHh----hhcccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCC
Confidence            9999999887654    36899999999999986 7     999999999999999  9999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhccC-CCC-c-E-----EEEEEeCC-eEEcCHhHHHHHHHhhhhhhhhc
Q 042723          178 DLTLQEAETIALSILKQVMEEKV-TPN-N-V-----DIARVAPT-YHLYTPSEVEAVINRPMSIRRKS  236 (262)
Q Consensus       178 ~ms~eea~~la~~al~~~~~~d~-s~~-~-i-----ev~ii~k~-~~~~~~~ei~~~l~~~~~~~~~~  236 (262)
                      +||++||++++++||..+.++|. +++ . +     +|.+|+++ +++++++|+++++..+.++|+.+
T Consensus       157 ~ms~eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~~~g~~~l~~~ei~~~~~~~~~~~~~~  224 (235)
T 1q5q_H          157 DSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAERTEQ  224 (235)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEeCCCeEEeCHHHHHHHHHHHHHHHhhC
Confidence            99999999999999999999997 453 2 3     99999999 99999999999999998887777

>1iru_N 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_M* 3une_M 3unf_M* 3unh_M

Probab=100.00  E-value=1.9e-41  Score=290.88  Aligned_cols=192  Identities=18%  Similarity=0.217  Sum_probs=179.8

Q ss_pred             HHHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHH-HhCC
Q 042723           28 IEAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRF-SYGE   97 (262)
Q Consensus        28 ~kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~-~~~~   97 (262)
                      ++|+++|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.|.+.++.+++.|++ ++++
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (219)
T 1iru_N            2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (219)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            3688999999999999        6665 5788889999999999999999999999999999999999999998 9999


Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCC
Q 042723           98 PMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK  177 (262)
Q Consensus        98 ~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~  177 (262)
                      +++++.+++++++++  |+++.   +.|||++++||||+|++||+||.+||+|++.++++.|+|+|+++++++||+.|++
T Consensus        82 ~~~v~~la~~l~~~l--y~~r~---~~~P~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  156 (219)
T 1iru_N           82 SYSPRAIHSWLTRAM--YSRRS---KMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEK  156 (219)
T ss_dssp             CCCHHHHHHHHHHHH--HHHHH---TTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTS
T ss_pred             CCCHHHHHHHHHHHH--HHhcc---cCCCceEEEEEEEEECCCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCC
Confidence            999999999999999  55565   6799999999999998899999999999999999999999999999999999999


Q ss_pred             --CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHH
Q 042723          178 --DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEA  224 (262)
Q Consensus       178 --~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~  224 (262)
                        +||++||++++++||..+.++|. ++++++|.+|+++ +++++++||+.
T Consensus       157 ~~~mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~i~~  207 (219)
T 1iru_N          157 QPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTET  207 (219)
T ss_dssp             CSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCCC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCEEEcCCeeccc
Confidence              99999999999999999999997 7999999999999 99999887654

>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=8.1e-41  Score=289.61  Aligned_cols=193  Identities=18%  Similarity=0.268  Sum_probs=180.5

Q ss_pred             HHHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHH-----
Q 042723           28 IEAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRF-----   93 (262)
Q Consensus        28 ~kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~-----   93 (262)
                      ++|+++|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.|.++++.+++.|++     
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (233)
T 1ryp_N            2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             cccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchh
Confidence            3688999999999999        6665 5778888999999999999999999999999999999999999999     


Q ss_pred             HhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHH
Q 042723           94 SYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ  172 (262)
Q Consensus        94 ~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le  172 (262)
                      +++++++++.+++++++++  |+++.   ++|||++++||||+|++ ||+||.+||.|++.++++.|+|+|+++++++||
T Consensus        82 ~~~~~~~v~~la~~l~~~l--y~~r~---~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le  156 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVM--YQRRS---KMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLR  156 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHH--HHHHH---TTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHT
T ss_pred             hcCCCCCHHHHHHHHHHHH--HHhcC---CCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHH
Confidence            8999999999999999999  66665   67999999999999986 899999999999999999999999999999999


Q ss_pred             hhcCC-----CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC--eEEcCHhHHHHH
Q 042723          173 EQYNK-----DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT--YHLYTPSEVEAV  225 (262)
Q Consensus       173 ~~~~~-----~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~--~~~~~~~ei~~~  225 (262)
                      +.|++     +||+|||++++++||..+.++|. ++++++|.+|+++  +++++++||+++
T Consensus       157 ~~~~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~~~~~~~~i~~~  217 (233)
T 1ryp_N          157 KVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM  217 (233)
T ss_dssp             TTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSC
T ss_pred             HhhccccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCeEEcChHhcccc
Confidence            99999     99999999999999999999997 7999999999998  999998887654

>1iru_H 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_N* 3une_N

Probab=100.00  E-value=1.7e-39  Score=276.03  Aligned_cols=186  Identities=19%  Similarity=0.291  Sum_probs=173.8

Q ss_pred             CcEEEEeec--------cccCCC-CcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITSP-LLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~~-l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|.+.+ ++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999        666654 78888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      +++++++|.|+        +||++++||||+|+ +||+||.+||.|++.+++++++|+|+++++++||+.|+++||++||
T Consensus        81 ~~l~~~~~~~~--------~p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea  152 (205)
T 1iru_H           81 SLFKEMCYRYR--------EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEEC  152 (205)
T ss_dssp             HHHHHHHHHTT--------TTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHH
T ss_pred             HHHHHHHHhcC--------cCccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHH
Confidence            99999997663        28999999999998 6899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC---eEEcCHhHHHHHHHh
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT---YHLYTPSEVEAVINR  228 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~---~~~~~~~ei~~~l~~  228 (262)
                      ++++++||..+.++|. ++++++|.+|+++   +++++++||++++.+
T Consensus       153 ~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~~~  200 (205)
T 1iru_H          153 LQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAVA  200 (205)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCCCC
T ss_pred             HHHHHHHHHHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHHhh
Confidence            9999999999999996 7999999999999   678999999877654

>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=1e-38  Score=269.65  Aligned_cols=181  Identities=19%  Similarity=0.201  Sum_probs=168.1

Q ss_pred             CCcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           34 GSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        34 G~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      ++|+|||+++        +|.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.+
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            5899999999        66654 45557799999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC--CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQ  182 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~--~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~e  182 (262)
                      +++++++++.|++.     ++||++++||||+|+  +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||++
T Consensus        81 a~~l~~~l~~~~~~-----r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~e  155 (198)
T 1ryp_K           81 SSFVRQELAKSIRS-----RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTE  155 (198)
T ss_dssp             HHHHHHHHHHHTTS-----SSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHH
T ss_pred             HHHHHHHHHHhccc-----CCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHH
Confidence            99999999887642     259999999999996  68999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCH
Q 042723          183 EAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTP  219 (262)
Q Consensus       183 ea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~  219 (262)
                      ||++++++||..+.++|. ++++++|.+|+++ ++++++
T Consensus       156 ea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~~  194 (198)
T 1ryp_K          156 EGLDLLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDD  194 (198)
T ss_dssp             HHHHHHHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECC
T ss_pred             HHHHHHHHHHHHHHHhCccCCCceEEEEEcCCCEEEecc
Confidence            999999999999999986 8999999999999 888765

>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_H* 3nzx_H* 4b4t_2

Probab=100.00  E-value=9.6e-39  Score=280.80  Aligned_cols=186  Identities=24%  Similarity=0.331  Sum_probs=166.2

Q ss_pred             HHHHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCC
Q 042723           27 AIEAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGE   97 (262)
Q Consensus        27 A~kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~   97 (262)
                      +.||+++|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++++++
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            36899999999999999        6665 46778889999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCC
Q 042723           98 PMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK  177 (262)
Q Consensus        98 ~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~  177 (262)
                      +++++.+++++++.++.|        .+||++++||||+|++||+||++||+|++.++++.|+|+|++.++++||+.|++
T Consensus       102 ~~~v~~~a~~l~~~l~~~--------~~~~gv~llvaG~D~~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  173 (261)
T 3nzj_H          102 EPRVVSALQMLKQHLFKY--------QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQ  173 (261)
T ss_dssp             CCCHHHHHHHHHHHHHHT--------TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCS
T ss_pred             CCCHHHHHHHHHHHHHHh--------cCcccEEEEEEEEeCCCCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhcc
Confidence            999999999999998544        268999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC--eEEcCHh
Q 042723          178 DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT--YHLYTPS  220 (262)
Q Consensus       178 ~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~--~~~~~~~  220 (262)
                      +|++|||++++++||..+.++|. ++++++|++|+++  ++++.+.
T Consensus       174 ~ms~eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~~~~~~~  219 (261)
T 3nzj_H          174 DLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNY  219 (261)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEE
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcEEEeccc
Confidence            99999999999999999999997 8999999999999  6665443

>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=7.1e-39  Score=272.20  Aligned_cols=177  Identities=16%  Similarity=0.288  Sum_probs=167.1

Q ss_pred             HHHhccCCcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCC
Q 042723           28 IEAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEP   98 (262)
Q Consensus        28 ~kav~~G~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~   98 (262)
                      ++|+++|+|+|||+++        +|.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|++++++ 
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            5889999999999999        66664 4778889999999999999999999999999999999999999999999 


Q ss_pred             CCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCC
Q 042723           99 MTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK  177 (262)
Q Consensus        99 i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~  177 (262)
                      ++++.+++++++++|.|++       + |++++||||+|+ +||+||.+||.|++.++++.|+|+|+++++++||+.|++
T Consensus        82 ~~v~~la~~l~~~~~~~~~-------~-~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  153 (205)
T 1ryp_H           82 PSTETAASVFKELCYENKD-------N-LTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRE  153 (205)
T ss_dssp             CCHHHHHHHHHHHHHHTTT-------T-CCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCT
T ss_pred             CCHHHHHHHHHHHHHhhhc-------C-ceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCC
Confidence            9999999999999987743       2 899999999997 689999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          178 DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       178 ~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                      +||++||++++++||..+.++|. ++++++|.+|+++
T Consensus       154 ~~s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~  190 (205)
T 1ryp_H          154 NMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAA  190 (205)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETT
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCccCCeEEEEEEcCC
Confidence            99999999999999999999997 7999999999999

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=2.7e-40  Score=291.78  Aligned_cols=198  Identities=17%  Similarity=0.260  Sum_probs=182.2

Q ss_pred             hhhhHHHHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHH
Q 042723           23 QVEYAIEAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRF   93 (262)
Q Consensus        23 QieyA~kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~   93 (262)
                      ..+.+++++++|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.|+++++.+++.|++
T Consensus        30 ~~~~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~  109 (266)
T 1g0u_M           30 PMVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAY  109 (266)
T ss_dssp             ----CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHT
T ss_pred             chhhhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhh
Confidence            356778999999999999999        6665 5678888999999999999999999999999999999999999998


Q ss_pred             -----HhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhH
Q 042723           94 -----SYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGA  167 (262)
Q Consensus        94 -----~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a  167 (262)
                           +++++++++.+++++++++  |+++.   ++|||++++||||+|++ ||+||.+||.|++.+++++|+|+|+.++
T Consensus       110 ~~~~~~~~~~~~v~~la~~l~~~l--y~~r~---~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a  184 (266)
T 1g0u_M          110 DNPLADAEEALEPSYIFEYLATVM--YQRRS---KMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMA  184 (266)
T ss_dssp             TCTTTTTTTSCCHHHHHHHHHHHH--HHHHH---TTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTH
T ss_pred             ccchhhcCCCCCHHHHHHHHHHHH--HHhcc---CCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHH
Confidence                 8999999999999999999  66665   67999999999999986 8999999999999999999999999999


Q ss_pred             HHHHHhhcCC-----CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC--eEEcCHhHHHHH
Q 042723          168 DSSLQEQYNK-----DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT--YHLYTPSEVEAV  225 (262)
Q Consensus       168 ~~~Le~~~~~-----~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~--~~~~~~~ei~~~  225 (262)
                      +++||+.|++     +||+|||++++++||..+.++|. ++++++|++|+++  +++++++||+++
T Consensus       185 ~~~Le~~~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~~~~~~~ei~~~  250 (266)
T 1g0u_M          185 NPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM  250 (266)
T ss_dssp             HHHHTTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCCC
T ss_pred             HHHHHHhhcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCeEEcCHHHhhhh
Confidence            9999999999     99999999999999999999997 7999999999998  999998887655

>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=2.3e-38  Score=270.53  Aligned_cols=179  Identities=22%  Similarity=0.280  Sum_probs=166.2

Q ss_pred             hccCCcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCH
Q 042723           31 IKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTV  101 (262)
Q Consensus        31 v~~G~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~  101 (262)
                      +++|+|+|||+++        +|.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|++++++++++
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            5789999999999        66665 44556789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCceeecCeEEECCChhhHHHHHHhh------
Q 042723          102 ESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ------  174 (262)
Q Consensus       102 ~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~------  174 (262)
                      +.++++|++++  |+++.     |||++++||||+|++| |+||.+||.|++.+++++|+|+|+++++++||+.      
T Consensus        86 ~~la~~l~~~~--y~~r~-----~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~  158 (213)
T 1iru_M           86 GAIAAMLSTIL--YSRRF-----FPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNM  158 (213)
T ss_dssp             HHHHHHHHHHH--HHTTT-----SCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSC
T ss_pred             HHHHHHHHHHH--HhhCC-----CCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhccccccc
Confidence            99999999999  76654     8999999999999765 9999999999999999999999999999999999      


Q ss_pred             ---cCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEE
Q 042723          175 ---YNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHL  216 (262)
Q Consensus       175 ---~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~  216 (262)
                         |+++||+|||++++++||..+.++|. ++++++|.+|+++ ++.
T Consensus       159 ~~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  205 (213)
T 1iru_M          159 QNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIRE  205 (213)
T ss_dssp             SSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEE
T ss_pred             cccCCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCCeEE
Confidence               88899999999999999999999997 7999999999999 543

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

Probab=100.00  E-value=7.7e-39  Score=277.41  Aligned_cols=182  Identities=26%  Similarity=0.412  Sum_probs=170.3

Q ss_pred             CcEEEEeec--------cccCCC-CcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITSP-LLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~~-l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|.+.+ ++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999        666654 46678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      ++++++++.|  +      +||++++||||+|++||+||++||+|++.++++.|+|+|+.+++++||+.|+++|++|||+
T Consensus        81 ~~l~~~l~~~--~------~p~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~  152 (234)
T 3unf_H           81 RILRQTLFRY--Q------GHVGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQ  152 (234)
T ss_dssp             HHHHHHHHHT--T------TCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHHhc--C------CCccEEEEEEEEeCCCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHH
Confidence            9999999654  2      5999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHH
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEA  224 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~  224 (262)
                      +++++||..+.++|. ++++++|++|+++ ++++++++++.
T Consensus       153 ~la~~al~~~~~~D~~sg~~iev~vi~~dg~~~l~~~~i~~  193 (234)
T 3unf_H          153 ELLVEAITAGILSDLGSGGNVDACVITAGGAKLQRALSTPT  193 (234)
T ss_dssp             HHHHHHHHHHHHHBTTCCSCEEEEEEESSCEEEEEEEECCC
T ss_pred             HHHHHHHHHHHhhcCCCCCcEEEEEEECCCEEEeCceeccc
Confidence            999999999999997 8999999999999 99998888763

>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=8e-38  Score=269.00  Aligned_cols=180  Identities=21%  Similarity=0.306  Sum_probs=166.9

Q ss_pred             HhccCCcEEEEeec--------cccCCC-CcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhC-CCC
Q 042723           30 AIKLGSTAIGLKTK--------KRITSP-LLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYG-EPM   99 (262)
Q Consensus        30 av~~G~tiVgI~~~--------~~~~~~-l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~-~~i   99 (262)
                      .+++|+|+|||+++        +|.+.+ ++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+++++ +++
T Consensus         5 ~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (222)
T 1ryp_M            5 YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKL   84 (222)
T ss_dssp             CCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             cccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            46799999999999        666654 45678999999999999999999999999999999999999999999 999


Q ss_pred             CHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCceeecCeEEECCChhhHHHHHHhh----
Q 042723          100 TVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQ----  174 (262)
Q Consensus       100 ~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~----  174 (262)
                      +++.+++++++++  |+++.     +||++++||||+|++| |+||.+||.|++.++++.|+|+|+.+++++||+.    
T Consensus        85 ~v~~la~~l~~~l--y~~r~-----~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~  157 (222)
T 1ryp_M           85 SINSAARNIQHLL--YGKRF-----FPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFK  157 (222)
T ss_dssp             CHHHHHHHHHHHH--HTTTT-----SCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCT
T ss_pred             CHHHHHHHHHHHH--HhcCC-----CCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhcccccc
Confidence            9999999999999  76654     8999999999999765 9999999999999999999999999999999998    


Q ss_pred             -------------cCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEE
Q 042723          175 -------------YNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHL  216 (262)
Q Consensus       175 -------------~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~  216 (262)
                                   |+++|++|||++++++||..+.++|+ ++++++|.+|+++ ++.
T Consensus       158 ~~~~~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi~~~g~~~  214 (222)
T 1ryp_M          158 NQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRK  214 (222)
T ss_dssp             TCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEE
T ss_pred             cccccccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEcCCCeEE
Confidence                         88999999999999999999999997 7999999999999 543

>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=1.3e-37  Score=264.36  Aligned_cols=176  Identities=14%  Similarity=0.183  Sum_probs=163.5

Q ss_pred             hccCCcEEEEeec--------cccCCCC-cCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCH
Q 042723           31 IKLGSTAIGLKTK--------KRITSPL-LEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTV  101 (262)
Q Consensus        31 v~~G~tiVgI~~~--------~~~~~~l-~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~  101 (262)
                      +.+|+|+|||+++        +|.+.++ +.+++.+||++|+++++++++|..+|++.+.++++.+++.|++++++++++
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            4689999999999        6666544 455689999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC--CCCeEEEECCCCceeec-CeEEECCChhhHHHHHHhhcCCC
Q 042723          102 ESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NGPSLYYTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNKD  178 (262)
Q Consensus       102 ~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~--~gp~Ly~iD~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~  178 (262)
                      +.+++++++++  |+++.     .||++++||||+|+  +||+||.+||.|++.++ .++|+|+|+++++++||+.|+++
T Consensus        85 ~~la~~l~~~~--y~~r~-----~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~  157 (205)
T 1iru_J           85 YTLMSMVANLL--YEKRF-----GPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPN  157 (205)
T ss_dssp             HHHHHHHHHHH--HTTTT-----SCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSS
T ss_pred             HHHHHHHHHHH--HHhcC-----CCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCC
Confidence            99999999999  88775     49999999999995  68999999999999666 67999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          179 LTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       179 ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                      ||+|||++++++||..+.++|. ++++++|.+|+++
T Consensus       158 ~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~  193 (205)
T 1iru_J          158 MDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKD  193 (205)
T ss_dssp             CCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESS
T ss_pred             CCHHHHHHHHHHHHHHHHHhCcccCCceEEEEEcCC
Confidence            9999999999999999999997 7999999999999

>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=3.4e-37  Score=261.54  Aligned_cols=176  Identities=18%  Similarity=0.171  Sum_probs=163.3

Q ss_pred             HhccCCcEEEEeec--------cccCCCC-cCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 042723           30 AIKLGSTAIGLKTK--------KRITSPL-LEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMT  100 (262)
Q Consensus        30 av~~G~tiVgI~~~--------~~~~~~l-~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~  100 (262)
                      .+.+|+|+|||+++        +|.+.++ +.+++.+||++|+ +++++++|..+|++.+.++++.+++.|+++++++++
T Consensus         4 ~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   82 (204)
T 1ryp_J            4 SSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIE   82 (204)
T ss_dssp             GGSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             cCCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCC
Confidence            45789999999999        6666544 4556899999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC--CCCeEEEECCCCceeec-CeEEECCChhhHHHHHHhhcCC
Q 042723          101 VESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NGPSLYYTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNK  177 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~--~gp~Ly~iD~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~  177 (262)
                      ++.+++++++++  |+++.     .||++++||||+|+  +||+||.+||.|++.++ .++|+|+|+++++++||+.|++
T Consensus        83 v~~la~~l~~~~--y~~~~-----~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~  155 (204)
T 1ryp_J           83 PETFTQLVSSSL--YERRF-----GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEP  155 (204)
T ss_dssp             HHHHHHHHHHHH--HTTTT-----SCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHH--HHhcC-----CCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCC
Confidence            999999999999  88875     39999999999996  67999999999999666 6799999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          178 DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       178 ~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                      +|++|||++++++||..+.++|. ++++++|.+|+++
T Consensus       156 ~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~  192 (204)
T 1ryp_J          156 NLEPEDLFETISQALLNAADRDALSGWGAVVYIIKKD  192 (204)
T ss_dssp             SCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESS
T ss_pred             CcCHHHHHHHHHHHHHHHHHhCcccCCcEEEEEEcCC
Confidence            99999999999999999999997 7999999999999

>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=2.4e-37  Score=261.97  Aligned_cols=181  Identities=19%  Similarity=0.207  Sum_probs=165.7

Q ss_pred             CCcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           34 GSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        34 G~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      ++|+|||+++        +|.+. +++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.+
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            5899999999        66664 78888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQE  183 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~ee  183 (262)
                      ++++++.+. |..+    ..|||++++||||+|+ +||+||.+||.|++.++++.|+|+|+++++++||+.|+++|+++|
T Consensus        81 a~~~~~~l~-~~~~----~~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~ee  155 (201)
T 1iru_K           81 ANFTRRNLA-DCLR----SRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRER  155 (201)
T ss_dssp             HHHHHHHHH-HHHT----SSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHH-HHHh----cCCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHH
Confidence            999987652 2222    2379999999999997 589999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCH
Q 042723          184 AETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTP  219 (262)
Q Consensus       184 a~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~  219 (262)
                      |++++++||..+.+||. ++++++|.+|+++ +++++.
T Consensus       156 a~~l~~~al~~a~~rd~~sg~~i~v~vi~~~g~~~~~~  193 (201)
T 1iru_K          156 AVELLRKCLEELQKRFILNLPTFSVRIIDKNGIHDLDN  193 (201)
T ss_dssp             HHHHHHHHHHHHHHTBCBCCCCEEEEEEETTEEECCCC
T ss_pred             HHHHHHHHHHHHHhhccccCCceEEEEEcCCCeEEeec
Confidence            99999999999999998 7999999999999 777653

>3unf_N Proteasome subunit beta type-9; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_N

Probab=100.00  E-value=9.5e-38  Score=263.91  Aligned_cols=182  Identities=18%  Similarity=0.289  Sum_probs=167.2

Q ss_pred             CcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999        66654 578889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcC-CCCeEEEECCCCceeec-CeEEECCChhhHHHHHHhhcCCCCCHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNKDLTLQE  183 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~-~gp~Ly~iD~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~ee  183 (262)
                      ++++++++.+        +|||++++||||+|+ +||+||.  |+|++.++ .++++|+|+++++++||+.|+++||+||
T Consensus        81 ~~l~~~l~~~--------~~p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~ee  150 (199)
T 3unf_N           81 NVVKNISYKY--------REDLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEE  150 (199)
T ss_dssp             HHHHHHHHHT--------TTTCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHH
T ss_pred             HHHHHHHHhc--------CCCceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHH
Confidence            9999999643        269999999999998 5799999  99997665 5667799999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCcEEEEEEeCC---eEEcCHhHHHHHH
Q 042723          184 AETIALSILKQVMEEKV-TPNNVDIARVAPT---YHLYTPSEVEAVI  226 (262)
Q Consensus       184 a~~la~~al~~~~~~d~-s~~~iev~ii~k~---~~~~~~~ei~~~l  226 (262)
                      |++++++||..+.++|. ++++++|++|+++   +++++++||++++
T Consensus       151 a~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~  197 (199)
T 3unf_N          151 CRRFTTNAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPKFY  197 (199)
T ss_dssp             HHHHHHHHHHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSCCCC
T ss_pred             HHHHHHHHHHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCcccc
Confidence            99999999999999997 7899999999998   8899999997654

>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=1.5e-36  Score=261.13  Aligned_cols=179  Identities=23%  Similarity=0.325  Sum_probs=165.3

Q ss_pred             CcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        +|.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999        66654 456677899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      +++++.++.|  +      |||++++||||+|++||+||.+||+|++.++++.|+|+|+++++++||+.|+++|+++||+
T Consensus        81 ~~l~~~l~~~--~------~p~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~  152 (222)
T 1ryp_I           81 QMLKQHLFKY--Q------GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI  152 (222)
T ss_dssp             HHHHHHHHHT--T------TCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHhhc--C------CCCCeeEEEEEEeCCCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHH
Confidence            9999999654  2      6999999999999989999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC--eEEcCHhH
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT--YHLYTPSE  221 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~--~~~~~~~e  221 (262)
                      +++++||..+.++|. ++++++|++|+++  ++++.+.+
T Consensus       153 ~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~~  191 (222)
T 1ryp_I          153 KLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYL  191 (222)
T ss_dssp             HHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEE
T ss_pred             HHHHHHHHHHHhccccCCCcEEEEEEECCCCEEEEecee
Confidence            999999999999997 7999999999998  67664433

>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=2e-36  Score=262.30  Aligned_cols=179  Identities=22%  Similarity=0.362  Sum_probs=165.9

Q ss_pred             CcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      +|+|||+++        +|.+. .++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999        66665 445667899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      +++++.++.|  +      +||++++||||+|++||+||.+||.|++.++++.|+|+|++.+.++||+.|+++|+++||+
T Consensus        81 ~~l~~~l~~~--~------~~~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~  152 (234)
T 1iru_I           81 RMLKQMLFRY--R------GYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAK  152 (234)
T ss_dssp             HHHHHHHHHT--T------TCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHH
T ss_pred             HHHHHHHHhc--C------CCCceeEEEEEEcCCCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHH
Confidence            9999999654  2      5899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhH
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSE  221 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~e  221 (262)
                      +++++||..+.++|. ++++++|++|+++ ++++.+.+
T Consensus       153 ~la~~al~~a~~~d~~sg~~i~v~vi~k~g~~~~~~~~  190 (234)
T 1iru_I          153 NLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYT  190 (234)
T ss_dssp             THHHHHHHHHHHHCTTCCSCEEEEEEETTEEECCSEEE
T ss_pred             HHHHHHHHHHHHhcccCCCCEEEEEEECCcEEEEccee
Confidence            999999999999997 7999999999999 88776544

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=99.97  E-value=2e-30  Score=216.07  Aligned_cols=161  Identities=20%  Similarity=0.271  Sum_probs=139.5

Q ss_pred             ccCCcEEEEeec--------cccC-CCC-cCCCccCceEEE-cCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 042723           32 KLGSTAIGLKTK--------KRIT-SPL-LEPSSVEKIKEI-DEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMT  100 (262)
Q Consensus        32 ~~G~tiVgI~~~--------~~~~-~~l-~~~~~~~Ki~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~  100 (262)
                      .+|+|+|||+++        +|.+ +.+ +.+++.+||++| +++++++++|..+|++.|.++++.+++.|+   +   +
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g---~   76 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G---N   76 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T---C
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C---C
Confidence            579999999999        6665 467 889999999999 999999999999999999999999999987   3   2


Q ss_pred             HHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceee--cCeEEECCChhhHHHHHHhhcCC-
Q 042723          101 VESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQ--CNAKAIGSGSEGADSSLQEQYNK-  177 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~--~~~~a~G~gs~~a~~~Le~~~~~-  177 (262)
                         +.+.++++.+.++++.   .+|||++++|||    +||+||.+||.|++.+  +++.|+|+|+++++++||+.|++ 
T Consensus        77 ---~~~~~~~l~~~~~~~~---~~rp~~~~~lva----d~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~  146 (180)
T 2z3b_A           77 ---LKRAAVELAKEWRSDK---VLRKLEAMLIVM----NQDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHA  146 (180)
T ss_dssp             ---HHHHHHHHHHHHHHCT---TGGGCCCCEEEE----CSSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHH
T ss_pred             ---hHHHHHHHHHHHHhhh---CcCcceEEEEEE----cCCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhcc
Confidence               2233333344455554   779999999999    4799999999999988  49999999999999999999998 


Q ss_pred             --CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEe
Q 042723          178 --DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVA  211 (262)
Q Consensus       178 --~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~  211 (262)
                        +|+.||   ++++||+.+.+||. ++++++|.+|+
T Consensus       147 ~~~mt~ee---l~~~al~~a~~rd~~sg~~i~v~~i~  180 (180)
T 2z3b_A          147 GESMSASE---IARAALETAGEICVYTNDQIILEELE  180 (180)
T ss_dssp             GGGCCHHH---HHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             CCCCCHHH---HHHHHHHHHHHhcCccCCeEEEEEEC
Confidence              999999   47799999999997 89999999883

>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine residue, hydrolase; 2.10A {Thermotoga maritima} SCOP: d.153.1.4

Probab=99.97  E-value=1.3e-29  Score=209.30  Aligned_cols=157  Identities=20%  Similarity=0.273  Sum_probs=135.5

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEE-cCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEI-DEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      ||+|||+++        +|.+ +.++.+++.+||++| +++++++++|..+|++.+.++++.+++.|+.+     .++.+
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            689999999        6666 478888999999999 99999999999999999999999999988744     25555


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC--eEEECCChhhHHHHHHhhcC-CCCCH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN--AKAIGSGSEGADSSLQEQYN-KDLTL  181 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~--~~a~G~gs~~a~~~Le~~~~-~~ms~  181 (262)
                      ++. ++.   +.++.   ..|||++++|+|  |  ||+||.+||.|++.+++  +.|+|+|+++++++||+.|+ ++||.
T Consensus        76 ~~l-~~~---~~~~~---~~~~~~~~~lv~--D--~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~  144 (171)
T 1m4y_A           76 VEL-AKD---WRTDR---VLRRLEALLLVA--D--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA  144 (171)
T ss_dssp             HHH-HHH---HHHCT---TGGGCCCEEEEE--C--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH
T ss_pred             HHH-HHH---HHHhC---CCCceEEEEEEE--c--CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH
Confidence            544 333   33333   567899999999  5  89999999999999987  99999999999999999999 99996


Q ss_pred             HHHHHHHHHHHHHHhhccC-CCCcEEEEEE
Q 042723          182 QEAETIALSILKQVMEEKV-TPNNVDIARV  210 (262)
Q Consensus       182 eea~~la~~al~~~~~~d~-s~~~iev~ii  210 (262)
                         ++++++||+.+.+||. ++++++|.++
T Consensus       145 ---~~l~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          145 ---REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             ---HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             ---HHHHHHHHHHHHHhCcccCCeEEEEEC
Confidence               6789999999999997 7999999764

>1g3k_A ATP-dependent protease HSLV; hydrolase; 1.90A {Haemophilus influenzae} SCOP: d.153.1.4 PDB: 1g3i_G 1jjw_A 1kyi_G* 1ofh_G* 1ofi_G* 1e94_A* 1g4a_B* 1g4b_M 1hqy_A* 1ht1_C* 1ht2_A* 1ned_A

Probab=99.96  E-value=3.4e-29  Score=207.43  Aligned_cols=158  Identities=18%  Similarity=0.188  Sum_probs=136.0

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEE-cCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEI-DEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I-~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      +|+|||+++        +|.+ +.++.+++.+||++| +++++++++|..+|++.|.++++.+++.|+.      +....
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~~~~~   74 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG------HLLKS   74 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------CHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------cHHHH
Confidence            689999999        6666 457888999999999 9999999999999999999999999999874      34444


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC---eEEECCChhhHHHHHHhhcC-CCCC
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN---AKAIGSGSEGADSSLQEQYN-KDLT  180 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~---~~a~G~gs~~a~~~Le~~~~-~~ms  180 (262)
                      +..|++.+   +++.   ..||+  +.+++|+|  +|+||.+||+|++.+++   +.|+|+|+++++++||+.|+ ++|+
T Consensus        75 ~~~l~~~~---~~~~---~~r~~--~~~l~g~d--~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt  144 (174)
T 1g3k_A           75 AVELAKDW---RTDR---ALRKL--EAMLIVAD--EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELS  144 (174)
T ss_dssp             HHHHHHHH---HHST---TGGGC--CCEEEEEC--SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHHHHH---Hhcc---CcCcc--eEEEEEEC--CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCC
Confidence            55555555   3343   56776  46777787  89999999999999988   99999999999999999999 9999


Q ss_pred             HHHHHHHHHHHHHHHhhccC-CCCcEEEEEEe
Q 042723          181 LQEAETIALSILKQVMEEKV-TPNNVDIARVA  211 (262)
Q Consensus       181 ~eea~~la~~al~~~~~~d~-s~~~iev~ii~  211 (262)
                      .+   +++++||+.+.+||. ++++++|.+|+
T Consensus       145 ~~---~l~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          145 AH---EIVEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             HH---HHHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             HH---HHHHHHHHHHHHhccccCCceEEEEec
Confidence            55   799999999999997 79999999986

---

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	262
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	6e-80
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	4e-71
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	2e-69
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-68
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	5e-68
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-67
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	4e-67
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	6e-67
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	1e-65
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	3e-65
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	3e-64
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	4e-64
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	5e-63
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	9e-63
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	9e-62
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-60
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-48
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-37
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	1e-35
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	1e-35
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-35
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	3e-35
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-34
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	4e-34
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-33
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	5e-33
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	1e-31
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-31
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	4e-29
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	5e-28
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	7e-26
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	3e-25
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	4e-25
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-20
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	1e-10
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	1e-07

>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 =  238 bits (609), Expect = 6e-80
 Identities = 152/233 (65%), Positives = 181/233 (77%), Gaps = 12/233 (5%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDRGVNTFSPEGRLFQVEY IEAIKLGSTAIG++T         KRITSPL+EPSS+EKI
Sbjct: 1   YDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKI 60

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE-- 117
            EID HIGCAMSGLIADA+TL++ ARVETQNH F+Y E MTVES TQA+ +L L+FGE  
Sbjct: 61  VEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEED 120

Query: 118 GDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            D  +MSRPFGV+LL  G DE GP L++ DPSGTF QC+A+AIGS SEGA SSLQE Y+K
Sbjct: 121 ADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHK 180

Query: 178 DLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINR 228
            +TL+EA   +L ILKQVMEEK+   N+++A V P   +H++T  E+E VI  
Sbjct: 181 SMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD 233

>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 =  216 bits (551), Expect = 4e-71
 Identities = 71/236 (30%), Positives = 119/236 (50%), Gaps = 16/236 (6%)

Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVE 57
           T YD   +TFSP+GR+FQVEYA++A++  STAIG++ K        K + S L E  S +
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64

Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           ++  +D H+G A++GL+ADAR+L + AR E  N R ++G  + ++     +   V  +  
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTL 124

Query: 118 GDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
               S  RPFG S ++     N    LY  DPSG  +     AIG   + A + +++   
Sbjct: 125 Y---SAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQM 181

Query: 177 KDLTLQEAETIALSILKQVMEE-KVTPNNVDIARV---APTYHLYTPSEVEAVINR 228
           K++T ++       I+  V +E K     ++++ V       H   P ++     +
Sbjct: 182 KEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEK 237

>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 =  211 bits (539), Expect = 2e-69
 Identities = 133/234 (56%), Positives = 167/234 (71%), Gaps = 14/234 (5%)

Query: 9   DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIK 60
           DRGV+TFSPEGRLFQVEY++EAIKLGSTAIG+ TK        KR TSPLLE  S+EKI 
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60

Query: 61  EIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG-- 118
           EID HIGCAMSGL ADAR+++EHAR     H   Y E + VES TQ++CDL LRFGEG  
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

Query: 119 -DEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
            +E  MSRPFGV+LLIAG D ++G  L++ +PSGTF++ NAKAIGSGSEGA + L  +++
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH 180

Query: 177 KDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAP--TYHLYTPSEVEAVINR 228
             LTL+EAE + L ILKQVMEEK+  NN  ++ +     + +Y   +   +I  
Sbjct: 181 SSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKE 234

>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 =  209 bits (534), Expect = 1e-68
 Identities = 96/232 (41%), Positives = 137/232 (59%), Gaps = 15/232 (6%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+GRLFQVEYA EA+K G+TAIG+K K        KR+ S LLE  ++EKI
Sbjct: 5   YDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKI 64

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
            +IDEHI  A SGL+ADAR L++ AR+E Q +R +Y  P+TV+   + +CD   ++    
Sbjct: 65  YKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQY---T 121

Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RPFGVSLLIAG     P LY TDPSG   +  A AIG G        +++Y  DL
Sbjct: 122 QYGGVRPFGVSLLIAG-VNEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDL 180

Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIARV---APTYHLYTPSEVEAVINR 228
           +  +A  + L  +   +E ++ P N+++  V     T+   +P E++  + R
Sbjct: 181 SFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVER 232

>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 =  208 bits (531), Expect = 5e-68
 Identities = 78/235 (33%), Positives = 118/235 (50%), Gaps = 19/235 (8%)

Query: 6   TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVE 57
           T YD   + FSP+GR FQVEYA++A++ G+T+IG+K          K ITS LL P    
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61

Query: 58  KIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGE 117
           KI+ +D HIGC  SGLI D R LV   R E  + +  Y  P+ + +    L   V     
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTL 121

Query: 118 GDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ---EQ 174
               +  RPFGVS +  G D+NG  LY  +PSG++W     A G G + A + L+   + 
Sbjct: 122 Y---NSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDH 178

Query: 175 YNKDLTLQEAETIALSILKQVMEE-KVTPNNVDIARVAPT----YHLYTPSEVEA 224
           + + L+ +EA   A  I+    E+ K     ++I+  + +     H +   ++  
Sbjct: 179 HPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQ 233

>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 =  207 bits (528), Expect = 1e-67
 Identities = 71/240 (29%), Positives = 127/240 (52%), Gaps = 18/240 (7%)

Query: 4   TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGLKTK--------KRITSPLLEPS 54
           +   +DR +  FSPEGRL+QVEYA +AI  G  T++ ++ K        K++   LL+ S
Sbjct: 4   SSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSS 63

Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
           +V  + +I E+IGC M+G+ AD+R+ V+ AR E  N ++ YG  + V+   + + D+   
Sbjct: 64  TVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQV 123

Query: 115 FGEGDEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQE 173
           +    + +  RP G  +++ G D E GP +Y  DP+G +    A A G     + S L++
Sbjct: 124 YT---QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEK 180

Query: 174 QYNKDLTLQEAETI--ALSILKQVMEEKVTPNNVDIARVA---PTYHLYTPSEVEAVINR 228
           +  K       +T+  A++ L  V+     P+ +++  V    P + + T +E++A +  
Sbjct: 181 KVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLVA 240

>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 =  206 bits (524), Expect = 4e-67
 Identities = 79/237 (33%), Positives = 113/237 (47%), Gaps = 20/237 (8%)

Query: 5   RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSV 56
           R  YD    TFSP GRLFQVEYA+EAIK GS  +GL++         KR    L   S  
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQ 59

Query: 57  EKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFG 116
           +KI + DEH+G +++GL  DAR L  + R +       +   + VE     LCD   +  
Sbjct: 60  KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT 119

Query: 117 EGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
           +       RP+GV LLI G D++G  L    PSG   +    AIG+ S+GA + L+   +
Sbjct: 120 QS---YGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLD 176

Query: 177 K----DLTLQEAETIALSILKQVM-EEKVTPNNVDIARVAP--TYHLYTPSEVEAVI 226
                D    E     +  + Q + +E +T +N+ IA V     + +Y    V   I
Sbjct: 177 TFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>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 =  205 bits (523), Expect = 6e-67
 Identities = 77/236 (32%), Positives = 118/236 (50%), Gaps = 19/236 (8%)

Query: 7   EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEK 58
           +YD  V  +SP+GR+ Q+EYA+EA+K GS  +GLK+K        KR  S L   +  +K
Sbjct: 2   QYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSEL--AAHQKK 59

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I  +D HIG +++GL ADAR L    R E  + RF +  P+ V      +          
Sbjct: 60  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPT-- 117

Query: 119 DEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQY--N 176
            +    RP+GV LLIAG D+ GP ++ T PS  ++ C A +IG+ S+ A + L+      
Sbjct: 118 -QRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEF 176

Query: 177 KDLTLQEAETIALSILKQVM--EEKVTPNNVDIARVAP--TYHLYTPSEVEAVINR 228
            +  L E     L  L++ +  E+ +T  NV I  V     + +Y   +V   +  
Sbjct: 177 MECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEG 232

>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 =  202 bits (515), Expect = 1e-65
 Identities = 78/248 (31%), Positives = 124/248 (50%), Gaps = 30/248 (12%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           Y   + TFSP G+L Q++YA+ A+K G T++G+K          K+ +SPL    ++ K+
Sbjct: 5   YSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKV 64

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQ-NHRFSYGEPMTVESTTQALCDLVLRFGEG 118
             +   IG   SG+  D R LV+ +R     +++  YGE    +     +        E 
Sbjct: 65  SLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAK---IMQEA 121

Query: 119 DEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            +    RPFGVSLLIAG DE NG SLY  DPSG+++   A AIG GS  A + L++++N 
Sbjct: 122 TQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWND 181

Query: 178 DLTLQEAETIALSILKQVMEEKVTPNNVDIARV-----------------APTYHLYTPS 220
           +L L++A  IAL  LK+ +E +   + +++A +                  P +   T  
Sbjct: 182 ELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTSQ 241

Query: 221 EVEAVINR 228
           E+   +  
Sbjct: 242 EINDRLEA 249

>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 =  200 bits (510), Expect = 3e-65
 Identities = 87/223 (39%), Positives = 133/223 (59%), Gaps = 13/223 (5%)

Query: 14  TFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEH 65
            FSP+GRLFQVEYA EA+K GSTA+G+K          K++ S L+E +S+EKI+ ID++
Sbjct: 2   VFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDY 61

Query: 66  IGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSR 125
           +    SGL+ADAR LV+ AR+  Q  + +YG  + +E+  + + D + ++ +       R
Sbjct: 62  VAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQ---YGGVR 118

Query: 126 PFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE 185
           P+GVSL+ AG D+ GP L+  DP+GT  +  A AIGSG +   S L+ +Y ++L  +EA 
Sbjct: 119 PYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAV 178

Query: 186 TIALSILKQVMEEKVTPNNVDIA--RVAPTYHLYTPSEVEAVI 226
           T+ +  LK  +EE       +IA   V   Y +Y   EV+  +
Sbjct: 179 TLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 221

>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 =  199 bits (506), Expect = 3e-64
 Identities = 83/232 (35%), Positives = 129/232 (55%), Gaps = 14/232 (6%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           YDR +  FSP+G LFQVEYA EA+K GSTA+G++ +        K+  + L +  +V KI
Sbjct: 2   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 61

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
             +D+++  A +GL ADAR ++  ARVE Q+HR +  +P+TVE  T+ +  L  R+    
Sbjct: 62  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRY---T 118

Query: 120 EESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKD 178
           + +  RPFG+S LI G D +  P LY TDPSGT+    A AIG G++     L++ Y  +
Sbjct: 119 QSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDE 178

Query: 179 LTLQEAETIALSILKQVMEEKVTPNNVDIARVA--PTYHLYTPSEVEAVINR 228
               +  TI L I   +   +    N+++A +    +  +  P E+E  +  
Sbjct: 179 AIETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAE 230

>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 =  199 bits (506), Expect = 4e-64
 Identities = 80/238 (33%), Positives = 123/238 (51%), Gaps = 20/238 (8%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSS-VEK 58
           YD     FSPEGRL+QVEYA+EAI    T +G+           +R    LL+     EK
Sbjct: 4   YDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEK 63

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I +++E + C+++G+ +DA  L    R+  Q +   Y EP+  E    ALCD+   +   
Sbjct: 64  IYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYT-- 121

Query: 119 DEESMSRPFGVSLLIAGSDE-NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            +    RPFGVSLL  G D+  G  LY +DPSG +    A  IG+ S  A S L++ Y +
Sbjct: 122 -QFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKE 180

Query: 178 -DLTLQEAETIALSILKQVME-EKVTPNNVDIARVA-----PTYHLYTPSEVEAVINR 228
            ++TL+ A  +A+ +L + M+  K++   V+IA +          +    EVE +I +
Sbjct: 181 GEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKK 238

>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 =  195 bits (497), Expect = 5e-63
 Identities = 61/239 (25%), Positives = 109/239 (45%), Gaps = 21/239 (8%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIK-LGSTAIGLKTK--------KRITSPLLEPSSVEK 58
           YDR +  FSPEGRL+QVEYA +A       ++ ++ K        K++   LL+P++V  
Sbjct: 3   YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 62

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           I  I   IG  ++G I DAR     A+ E    R+ YG  M  +   + + +L   +   
Sbjct: 63  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT-- 120

Query: 119 DEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            + +  RP GV L     D E GPS+Y TDP+G +    A A G   +   ++L+  + K
Sbjct: 121 -QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKK 179

Query: 178 DL-------TLQEAETIALSILKQVMEEKVTPNNVDIARV-APTYHLYTPSEVEAVINR 228
                    + ++    A++ +   +  + + N++++       +   +   +E  +  
Sbjct: 180 SKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLVA 238

>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 =  194 bits (495), Expect = 9e-63
 Identities = 75/229 (32%), Positives = 122/229 (53%), Gaps = 12/229 (5%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKI 59
           Y   + TFSP G+L Q+EYA+ A+  G+ ++G+K          K+  S L +  SV K+
Sbjct: 5   YSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKV 64

Query: 60  KEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD 119
           + I +HIG   SG+  D R LV  AR   Q +   Y EP+      Q +  ++  +    
Sbjct: 65  EPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEY---T 121

Query: 120 EESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL 179
           +    RPFGVSLLI G +E  P L+ +DPSG ++   A A+G       + L+++YN+DL
Sbjct: 122 QSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDL 181

Query: 180 TLQEAETIALSILKQVMEEKVTPNNVDIARV-APTYHLYTPSEVEAVIN 227
            L++A   A+  LK+  E ++T +N+++       +   TP+EV+  + 
Sbjct: 182 ELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLA 230

>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 =  192 bits (489), Expect = 9e-62
 Identities = 82/237 (34%), Positives = 131/237 (55%), Gaps = 21/237 (8%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPS-SVEK 58
           YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+K K        +R T  L +   +  K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + +ID H+  + SGL AD+R L+E ARVE Q+HR +  +P+TVE  T+ +  +  R+   
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY--- 118

Query: 119 DEESMSRPFGVSLLIAGSDEN--GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN 176
            +    RPFGVS LIAG D     P LY T+PSG +   +A+ IG  S+     L++ Y+
Sbjct: 119 TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD 178

Query: 177 K---DLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINR 228
           +     T++E   + +  L +V++      N++I  V P       +  E+   + +
Sbjct: 179 RKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQ 233

>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 =  189 bits (482), Expect = 1e-60
 Identities = 75/240 (31%), Positives = 126/240 (52%), Gaps = 21/240 (8%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSS-VEK 58
           YD     FSPEGRL+QVEYA+E+I    TAIG+           +++TS LLE  +  EK
Sbjct: 5   YDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEK 64

Query: 59  IKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEG 118
           + ++++ I  A++GL ADA  L+  AR+  QN+  +Y E + VE   + L D+   +   
Sbjct: 65  LYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY--- 121

Query: 119 DEESMSRPFGVSLLIAGSD-ENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK 177
            +    RPFGVS + AG D   G  LY ++PSG +    A ++G+ +  A + LQ  Y  
Sbjct: 122 TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKD 181

Query: 178 DLTLQEAETIALSILKQVMEE-KVTPNNVDIARV-------APTYHLYTPSEVEAVINRP 229
           D+ + +A  +AL  L +  +   +T + ++ A +            ++ P E++ ++ + 
Sbjct: 182 DMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVKT 241

>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 =  157 bits (398), Expect = 3e-48
 Identities = 39/228 (17%), Positives = 81/228 (35%), Gaps = 33/228 (14%)

Query: 23  QVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLI 74
           + E A + I  G + + L  +           T+       + K+ E+ + +G A  G  
Sbjct: 8   RSELARKGIARGRSVVVLTFRDGVLFVAENPSTA-------LHKVSELYDRLGFAAVGKY 60

Query: 75  ADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIA 134
            +   L     V      +SY      + T ++L +   +          +P+ V + +A
Sbjct: 61  NEFENLRRAGIVHADMRGYSYDRR---DVTGRSLANAYAQTLGTIFTEQPKPYEVEICVA 117

Query: 135 GSDE----NGPSLYYTDPSGTFWQCNAKAIG-SGSEGADSSLQEQYNKDLTLQEAETIAL 189
                     P LY     G+        +    +E   ++++E Y  DL L+ A  IA+
Sbjct: 118 EVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAV 177

Query: 190 SILKQVMEE-----KVTPNNVDIA-----RVAPTYHLYTPSEVEAVIN 227
           + L+Q          V   ++++A     R    +     + +E ++ 
Sbjct: 178 NALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP 225

>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 =  128 bits (323), Expect = 5e-37
 Identities = 36/215 (16%), Positives = 80/215 (37%), Gaps = 18/215 (8%)

Query: 29  EAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
           + I  G++ I +K             +   LL  + VE++  + ++    +SG I+D + 
Sbjct: 3   QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 62

Query: 80  LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN 139
           +    +     + +        E+   +     L        S   P   ++++AG   N
Sbjct: 63  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSN 122

Query: 140 GPS-LYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK-----DLTLQEAETIALSILK 193
           G   L Y +  G  +     A G G+  A+  L++  ++       T+Q AE   ++ ++
Sbjct: 123 GDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMR 182

Query: 194 QVME-EKVTPNNVDIARVAP--TYHLYTPSEVEAV 225
            +   +  +  N  +A +            +VE +
Sbjct: 183 VLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM 217

>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 =  124 bits (311), Expect = 1e-35
 Identities = 40/204 (19%), Positives = 82/204 (40%), Gaps = 18/204 (8%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T +  K +         R T+   +   +V+K+ EI+ ++   M+G  AD          
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYT 146
           + + +     E ++V + ++ L ++V ++             +  +I G D+ GP LYY 
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQY-------KGMGLSMGTMICGWDKRGPGLYYV 114

Query: 147 DPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEE-KVTPNNV 205
           D  G        ++GSGS  A   +   Y+ DL +++A  +A   + Q       +   V
Sbjct: 115 DSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAV 174

Query: 206 DIARVAPT-YHLYTPSEVEAVINR 228
           ++  V    +   +   V  +  +
Sbjct: 175 NLYHVREDGWIRVSSDNVADLHEK 198

>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 =  124 bits (312), Expect = 1e-35
 Identities = 43/185 (23%), Positives = 74/185 (40%), Gaps = 18/185 (9%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T +G+K           R T  P++   +  K+  I   I CA +G  AD   + +    
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYT 146
             + H         V S  Q L   + +             G  L++AG D  G  L+  
Sbjct: 62  NIELHSLYTSREPRVVSALQMLKQHLFK--------YQGHIGAYLIVAGVDPTGSHLFSI 113

Query: 147 DPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIAL-SILKQVMEEKVTPNNV 205
              G+       ++GSGS  A + L+  + +DLT +EA  +A  +I   +  +  + +NV
Sbjct: 114 HAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNV 173

Query: 206 DIARV 210
           D+  +
Sbjct: 174 DVCVM 178

>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 =  123 bits (310), Expect = 2e-35
 Identities = 47/205 (22%), Positives = 90/205 (43%), Gaps = 19/205 (9%)

Query: 36  TAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T +GL  K        KR T    +   + +KI +I + +    +G + DA+ L    ++
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYT 146
           E   +        TV +      +               P+ V LLI G D  G S+Y  
Sbjct: 62  EANLYEIRRERKPTVRAIATLTSN-------LLNSYRYFPYLVQLLIGGIDSEGKSIYSI 114

Query: 147 DPSG-TFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-EKVTPNN 204
           DP G    + +  A GSGS  A   L++++  ++ + EA  +A+  +   M+ +  + + 
Sbjct: 115 DPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDG 174

Query: 205 VDIARV-APTYHLYTPSEVEAVINR 228
           +D+ ++    ++ Y+P EVE ++ +
Sbjct: 175 IDVVKITEDEFYQYSPEEVEQILAK 199

>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 =  123 bits (310), Expect = 3e-35
 Identities = 42/199 (21%), Positives = 78/199 (39%), Gaps = 19/199 (9%)

Query: 36  TAIGLKTK--------KRITSPLLEPS-SVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T  G+  K         R T  ++    +  KI  I  +I C  +G  AD     +    
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYT 146
             + H  S G    V +  + L  ++ R             G +L++ G D  GP LY  
Sbjct: 62  NLELHSLSTGRLPRVVTANRMLKQMLFR--------YRGYIGAALVLGGVDVTGPHLYSI 113

Query: 147 DPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIAL-SILKQVMEEKVTPNNV 205
            P G+  +     +GSGS  A +  ++++  D+  +EA+ +   +I   +  +  + +N+
Sbjct: 114 YPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNI 173

Query: 206 DIARVAPT-YHLYTPSEVE 223
           D+  ++        P  V 
Sbjct: 174 DLCVISKNKLDFLRPYTVP 192

>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 =  121 bits (304), Expect = 2e-34
 Identities = 40/205 (19%), Positives = 87/205 (42%), Gaps = 19/205 (9%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T +  + +         R T+   +   +V+++ EI+  +   M+G  AD +        
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAG-SDENGPSLYY 145
           + + H     E ++V + ++ L +LV ++             +  +I G + + GP++YY
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQY-------KGAGLSMGTMICGYTRKEGPTIYY 114

Query: 146 TDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIAL-SILKQVMEEKVTPNN 204
            D  GT  + +   +GSG   A   L   Y  DL++++A  +   SIL     +  +  +
Sbjct: 115 VDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGS 174

Query: 205 VDIARVAPT-YHLYTPSEVEAVINR 228
           V++  V    +  +   +V  +  +
Sbjct: 175 VNLYHVTEDGWIYHGNHDVGELFWK 199

>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 =  120 bits (302), Expect = 4e-34
 Identities = 35/209 (16%), Positives = 70/209 (33%), Gaps = 19/209 (9%)

Query: 29  EAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADART 79
             +  G++ +G+K +           +   L    ++ +I  ++       SG  AD + 
Sbjct: 3   NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQY 62

Query: 80  LVEHARVETQNHRFSY-GEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE 138
           L +       +      G   +  +    L   +         S   P   +++I G  +
Sbjct: 63  LKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSR-----RSKMNPLWNTMVIGGYAD 117

Query: 139 NGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK--DLTLQEAETIALSILKQVM 196
               L Y D  G  ++  + A G G+  A   L+E   K   L+  EA  +    ++ + 
Sbjct: 118 GESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLY 177

Query: 197 E-EKVTPNNVDIARVAPT-YHLYTPSEVE 223
             +  + N    A V      +  P   E
Sbjct: 178 YRDARSYNRFQTATVTEKGVEIEGPLSTE 206

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 202

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  118 bits (297), Expect = 1e-33
 Identities = 35/202 (17%), Positives = 68/202 (33%), Gaps = 22/202 (10%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T + ++           R T+   +     +K+  I + I C  SG  AD + + +    
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLYY 145
           +   H     EP  V +      ++  R+               ++IAG D   G  +Y 
Sbjct: 62  QLGFHSIELNEPPLVHTAASLFKEMCYRY--------REDLMAGIIIAGWDPQEGGQVYS 113

Query: 146 TDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNN 204
               G   + +    GSGS      +   Y + +T +E      + L   ME    +   
Sbjct: 114 VPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGV 173

Query: 205 VDIARVAP---TYHLYTPSEVE 223
           + +A +A       +    ++ 
Sbjct: 174 IRLAAIAESGVERQVLLGDQIP 195

>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 =  117 bits (294), Expect = 5e-33
 Identities = 43/205 (20%), Positives = 92/205 (44%), Gaps = 20/205 (9%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T +G+  K        +R+T    +   + +K+ +ID + G  ++GL+ DA+ LV + + 
Sbjct: 2   TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYT 146
           E + +R      M +E+    L +++        +    P+ V LL+ G D   P ++  
Sbjct: 62  ELELYRLQRRVNMPIEAVATLLSNML-------NQVKYMPYMVQLLVGGID-TAPHVFSI 113

Query: 147 DPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-EKVTPNNV 205
           D +G   +    + GSGS      L+ QY++ +T+ E   + +  +    + +  +   +
Sbjct: 114 DAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMI 173

Query: 206 DIARVAPT--YHLYTPSEVEAVINR 228
           D+A +     Y      ++E+ I +
Sbjct: 174 DVAVITRKDGYVQLPTDQIESRIRK 198

>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 =  114 bits (286), Expect = 1e-31
 Identities = 35/205 (17%), Positives = 73/205 (35%), Gaps = 34/205 (16%)

Query: 34  GSTAIGLKTK--------KRITSPLL-EPSSVEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G T +G+  +         R  +          K+ +  ++I  + +G  AD   LV+  
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 85  RVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSL 143
           +   + + F + +     ++       +L            P+ V  +IAG DE+G  ++
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGK------RFFPYYVHTIIAGLDEDGKGAV 122

Query: 144 YYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNK-----------------DLTLQEAET 186
           Y  DP G++ +   +A G+ +      L  Q N                   L+++E   
Sbjct: 123 YSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIK 182

Query: 187 IALSILKQVMEEKV-TPNNVDIARV 210
           +         E  +   + ++I  V
Sbjct: 183 LVRDSFTSATERHIQVGDGLEILIV 207

>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 =  112 bits (282), Expect = 3e-31
 Identities = 32/209 (15%), Positives = 74/209 (35%), Gaps = 23/209 (11%)

Query: 31  IKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLV 81
           + LG++ + +  K         R T+   +     +K+  + + I C  SG  AD + + 
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 82  EHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NG 140
           +  +   + +   YG P T  + +                         +++AG D+ N 
Sbjct: 66  DIVQYHLELYTSQYGTPSTETAASVFKELCYENKD---------NLTAGIIVAGYDDKNK 116

Query: 141 PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV 200
             +Y     G+  +      GSGS        + + ++++ +E        L Q ++   
Sbjct: 117 GEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDG 176

Query: 201 -TPNNVDIARVAPT---YHLYTPSEVEAV 225
            +   + +  +        ++ P E E +
Sbjct: 177 SSGGVIRMVVLTAAGVERLIFYPDEYEQL 205

>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 =  107 bits (267), Expect = 4e-29
 Identities = 34/201 (16%), Positives = 74/201 (36%), Gaps = 18/201 (8%)

Query: 36  TAIGLKTK--------KRITSPLLEPS-SVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
             +G++ +        K +T  +     S +K +++  H   + +G   D     E+ + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 87  ETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NGPSLY 144
             Q +       ++ ++ +  +   + +          RP+ V++LI G D+  N P LY
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQELAKSIRSR-----RPYQVNVLIGGYDKKKNKPELY 117

Query: 145 YTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-EKVTPN 203
             D  GT  +    A G       S L   Y  D+T +E   +    ++++ +   +   
Sbjct: 118 QIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFK 177

Query: 204 NVDIARVAPT-YHLYTPSEVE 223
            V +  V           + +
Sbjct: 178 GVIVKIVDKDGIRQVDDFQAQ 198

>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 =  104 bits (259), Expect = 5e-28
 Identities = 33/188 (17%), Positives = 64/188 (34%), Gaps = 21/188 (11%)

Query: 34  GSTAIGLKTK--------KRITSPLLEPSS-VEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G   + +  K         R+ S  L  S+  EKI     H+   ++GL  D  TL E  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMF 66

Query: 85  RVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG--PS 142
           R +T  ++      +  E+ TQ +   +             P+ V  ++AG +     P 
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYER-------RFGPYFVGPVVAGINSKSGKPF 119

Query: 143 LYYTDPSGTFWQCNAK-AIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-EKV 200
           +   D  G   +       G+ S+      +  Y  +L  ++        L    + + +
Sbjct: 120 IAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDAL 179

Query: 201 TPNNVDIA 208
           +     + 
Sbjct: 180 SGWGAVVY 187

>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 = 98.8 bits (245), Expect = 7e-26
 Identities = 23/190 (12%), Positives = 61/190 (32%), Gaps = 20/190 (10%)

Query: 34  GSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G   + +K K        +R      L  +  +KI  + + +   ++GL  D +T+ +  
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 85  RVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPS-- 142
           +     +    G  +   +    + +L+             P+    +IAG D       
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEK-------RFGPYYTEPVIAGLDPKTFKPF 119

Query: 143 LYYTDPSGTFWQCNAKAIG-SGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-EKV 200
           +   D  G     +   +  + +E      +  +  ++            +   ++ + V
Sbjct: 120 ICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAV 179

Query: 201 TPNNVDIARV 210
           +   V +  +
Sbjct: 180 SGMGVIVHII 189

>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 = 97.2 bits (241), Expect = 3e-25
 Identities = 32/187 (17%), Positives = 67/187 (35%), Gaps = 16/187 (8%)

Query: 35  STAIGLKTK--------KRITSPLLEPS-SVEKIKEIDEHIGCAMSGLIADARTLVEHAR 85
              IG++          +   S +++     +K+ ++ E I     G   D     E+ +
Sbjct: 2   EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQ 61

Query: 86  VETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSD-ENGPSLY 144
              Q ++   G  ++  +        +             P+ V+LL+AG D   GP+LY
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADC-----LRSRTPYHVNLLLAGYDEHEGPALY 116

Query: 145 YTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME-EKVTPN 203
           Y D      +    A G G+    S L   Y   ++ + A  +    L+++ +   +   
Sbjct: 117 YMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLP 176

Query: 204 NVDIARV 210
              +  +
Sbjct: 177 TFSVRII 183

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]} Length = 224

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

 Score = 97.2 bits (241), Expect = 4e-25
 Identities = 41/215 (19%), Positives = 71/215 (33%), Gaps = 22/215 (10%)

Query: 36  TAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARV 86
           T + L  K        +R T   L+    VEK+   DE+    ++G    A  LV    V
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 87  ETQNHRFSYGEPMTVES-TTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE-NGPSLY 144
           E +++    G P+T +    +    +    G   +     P  V   +   DE     + 
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 145 YTDPSG--TFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVME----- 197
             D  G     +    A+GSGS  A S+L++ Y+ D   + A   A+  L    +     
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSAT 181

Query: 198 ---EKVTPNNVDIARV-APTYHLYTPSEVEAVINR 228
              +           +        +      +  R
Sbjct: 182 GGPDLTRGIYPTAVTITQAGAVHVSEETTSELARR 216

>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 = 83.8 bits (206), Expect = 3e-20
 Identities = 36/197 (18%), Positives = 64/197 (32%), Gaps = 27/197 (13%)

Query: 34  GSTAIGLKTK--------KRITSPLLEPSS-VEKIKEIDEHIGCAMSGLIADARTLVEHA 84
           G T + +  +         R++      +    K  ++ +      SG   D  TL +  
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 85  RVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLY 144
               + ++ S  + MT  +    L  ++             P+ V  +I G DE G    
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSR-------RFFPYYVYNIIGGLDEEGKGAV 121

Query: 145 YTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNK---------DLTLQEAETIALSILKQ 194
           Y+      +Q  + KA GS S      L  Q             L+L  A  +   +   
Sbjct: 122 YSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFIS 181

Query: 195 VME-EKVTPNNVDIARV 210
             E +  T + + I  V
Sbjct: 182 AAERDVYTGDALRICIV 198

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]} Length = 180

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

 Score = 57.1 bits (137), Expect = 1e-10
 Identities = 27/186 (14%), Positives = 60/186 (32%), Gaps = 26/186 (13%)

Query: 34  GSTAIGLKTK--------KRIT--SPLLEPSSVEKIKEIDEHI-GCAMSGLIADARTLVE 82
            +T   ++ K         ++T    ++   +  K++++         +G +ADA TL E
Sbjct: 5   ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

Query: 83  HARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPS 142
               + + +  +        +                   + R     L++   +++   
Sbjct: 65  KFEAKLEEYNGNLKRAAVELAKEWRSDK------------VLRKLEAMLIVM--NQDTLL 110

Query: 143 LYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-T 201
           L               AIGSG   A ++ +           A  IA + L+   E  V T
Sbjct: 111 LVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASEIARAALETAGEICVYT 170

Query: 202 PNNVDI 207
            + + +
Sbjct: 171 NDQIIL 176

>d1m4ya_ d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga maritima [TaxId: 2336]} Length = 171

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Thermotoga maritima [TaxId: 2336]

 Score = 48.2 bits (114), Expect = 1e-07
 Identities = 28/155 (18%), Positives = 46/155 (29%), Gaps = 18/155 (11%)

Query: 55  SVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLR 114
           +  K++++ E    A           +                   VE       D VLR
Sbjct: 30  NARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGNLTKAAVELAKDWRTDRVLR 89

Query: 115 FGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQ-E 173
             E              L+  +D+    +   +        +A AIGSG   A ++ +  
Sbjct: 90  RLEA-------------LLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKAL 136

Query: 174 QYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDI 207
             N DL    A  I    +    E  + T  N+ I
Sbjct: 137 LRNTDL---SAREIVEKAMTIAGEICIYTNQNIVI 168

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	262
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypd_	241	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
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.81
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.77
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.74
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	80.96

>d1irue_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4.5e-57  Score=389.96  Aligned_cols=222  Identities=68%  Similarity=1.053  Sum_probs=211.3

Q ss_pred             CCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHH
Q 042723            8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADART   79 (262)
Q Consensus         8 yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   79 (262)
                      ||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+.+++..++.+||++|+++++++++|..+|++.
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            899999999999999999999999999999999999        666677777888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCC-cc-CCCccceEEEEEEEEcCCCCeEEEECCCCceeecCe
Q 042723           80 LVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD-EE-SMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNA  157 (262)
Q Consensus        80 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~-~~-~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~  157 (262)
                      +.+.++.++..|++.++++++++.+++.|++++|.|+++. .+ ...|||+|++||||+|++||+||.+||.|++.++++
T Consensus        81 l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~gp~Ly~idp~G~~~~~~~  160 (234)
T d1irue_          81 LIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDA  160 (234)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCCCEEEEEecCcccceeee
Confidence            9999999999999999999999999999999999999886 11 347999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHhh
Q 042723          158 KAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINRP  229 (262)
Q Consensus       158 ~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~  229 (262)
                      +|+|+|++.++++||+.|+++|+++||++++++||+.+.+++.++.++||++|+++  +++++++||++++++|
T Consensus       161 ~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~~~~~~iei~ii~~~~~~k~l~~~ei~~~l~~i  234 (234)
T d1irue_         161 RAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI  234 (234)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHHHHHTTC
T ss_pred             EEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEECCCCEEECCHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999998888889999999987  9999999999999864

>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=1.1e-56  Score=389.98  Aligned_cols=226  Identities=31%  Similarity=0.601  Sum_probs=214.8

Q ss_pred             CCcCCCCCCccccCCCCCchhhhhHHHHhccCC-cEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecC
Q 042723            3 FTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGL   73 (262)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~-tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~   73 (262)
                      ++.++||+++|+|||||||+|||||+||+++|+ |+|||+++        ++.+++++.+++.+||++|+++++++++|.
T Consensus         3 ~~~~gyd~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~   82 (244)
T d1irua_           3 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGM   82 (244)
T ss_dssp             SCCCTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEEC
T ss_pred             CCCCCcCCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEecCCcEEEEecc
Confidence            567899999999999999999999999999975 89999999        677778877888999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCce
Q 042723           74 IADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTF  152 (262)
Q Consensus        74 ~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~  152 (262)
                      .+|++.+.+.++.++..|++.++++++++.+++.+++++|.++++.   +.|||+|++||||||++ ||+||.+||+|++
T Consensus        83 ~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~---~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~  159 (244)
T d1irua_          83 TADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNA---EMRPLGCCMILIGIDEEQGPQVYKCDPAGYY  159 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBS---SBCCCSEEEEEEEEETTTEEEEEEECTTSCE
T ss_pred             hHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhccc---ccCccceeeEEEEEcCCCCcEEEEEcCCccE
Confidence            9999999999999999999999999999999999999999999998   99999999999999975 7999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcCC--CCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC---eEEcCHhHHHHHHH
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYNK--DLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT---YHLYTPSEVEAVIN  227 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~~--~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~---~~~~~~~ei~~~l~  227 (262)
                      .+++++|+|+|+..+.++||+.|++  +|+++||++++++||+.+.++|.+++++||++|+++   +++++++||+++|.
T Consensus       160 ~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~~~~iev~ii~~~~~~~~~l~~~ei~~~l~  239 (244)
T d1irua_         160 CGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLV  239 (244)
T ss_dssp             EEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHHHHH
T ss_pred             EecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEeCCCcEEECCHHHHHHHHH
Confidence            9999999999999999999999954  899999999999999999999988888999999998   89999999999999


Q ss_pred             hhhh
Q 042723          228 RPMS  231 (262)
Q Consensus       228 ~~~~  231 (262)
                      .+.+
T Consensus       240 ~~~~  243 (244)
T d1irua_         240 ALAE  243 (244)
T ss_dssp             HHHT
T ss_pred             HHhc
Confidence            8875

>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=5.1e-56  Score=385.42  Aligned_cols=224  Identities=43%  Similarity=0.728  Sum_probs=213.6

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      ..+||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+.++...++.+||++|+++++++++|..+|
T Consensus         2 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   81 (243)
T d1j2pa_           2 QMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVAD   81 (243)
T ss_dssp             CTTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHH
T ss_pred             CCCcCCCCccCCCCCcchHHHHHHHHHHcCCCEEEEEECCEEEEEEecCccccCccccccccEeecCCcEEEEeeecccH
Confidence            468999999999999999999999999999999999999        667766777788899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~  156 (262)
                      ++.+.+.++.++..|++.++++++++.+++.+++++|.++++.   ++|||++++|+||+|+ +|+||.+||+|++.+++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~---~~rP~~~~~il~G~D~-~p~Ly~~Dp~G~~~~~~  157 (243)
T d1j2pa_          82 ARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYG---GVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYK  157 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBT---TBCCCCEEEEEEEESS-SEEEEEECTTCCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhc---cCCccceeEEEEEecC-CceEEEEeccCceeeee
Confidence            9999999999999999999999999999999999999999998   9999999999999985 59999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC---eEEcCHhHHHHHHHhhhhh
Q 042723          157 AKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT---YHLYTPSEVEAVINRPMSI  232 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~---~~~~~~~ei~~~l~~~~~~  232 (262)
                      ++|+|+|++.+.++||+.|+++||++||++++++||+.+.++|+++++|||++++++   +|+++++||+.+++++.++
T Consensus       158 ~~a~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~l~~~ei~~~~~~~~e~  236 (243)
T d1j2pa_         158 ATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERANER  236 (243)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHHHHHHH
T ss_pred             EEEeCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhcccCCCceEEEEEEeCCCcEEECCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999998789999999976   9999999999999988643

>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=3.3e-56  Score=388.09  Aligned_cols=228  Identities=35%  Similarity=0.573  Sum_probs=214.6

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      .+||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+. .++.+++.+||++|+++++++++|..+|
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            47999999999999999999999999999999999999        56555 4456778899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeec
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQC  155 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~  155 (262)
                      ++.+++.++.++..|++.++++++++.+++.+++++|.|+++.   ++|||++++||||+|++ ||+||.+||+|++.++
T Consensus        82 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~---~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~~~~  158 (250)
T d1iruc_          82 ANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFG---GKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGW  158 (250)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBS---SCCCCCEEEEEEEEETTTEEEEEEEETTTEEEEC
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhc---cCCcceEEEEEEEEcCCCCCEEEEEcccccEeee
Confidence            9999999999999999999999999999999999999999998   99999999999999975 7999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCC-CCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-----eEEcCHhHHHHHHHh
Q 042723          156 NAKAIGSGSEGADSSLQEQYNK-DLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-----YHLYTPSEVEAVINR  228 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~-~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-----~~~~~~~ei~~~l~~  228 (262)
                      +++|+|+|++.+.++||+.|++ +|+++||++++++||+.+.++|. +++++||++|+++     +++++++||++++++
T Consensus       159 ~~~a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~~~Ei~~~l~~  238 (250)
T d1iruc_         159 KATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKK  238 (250)
T ss_dssp             SEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHHH
T ss_pred             eEEEeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECCHHHHHHHHHH
Confidence            9999999999999999999986 89999999999999999998885 8999999999987     889999999999999


Q ss_pred             hhhhhhhc
Q 042723          229 PMSIRRKS  236 (262)
Q Consensus       229 ~~~~~~~~  236 (262)
                      +.+++..+
T Consensus       239 ~~e~~~~a  246 (250)
T d1iruc_         239 HEEEEAKA  246 (250)
T ss_dssp             HHTTTTTT
T ss_pred             HHHHhhhH
Confidence            99776654

>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=2.4e-56  Score=387.99  Aligned_cols=228  Identities=31%  Similarity=0.480  Sum_probs=212.2

Q ss_pred             CCCcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecC
Q 042723            2 FFTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGL   73 (262)
Q Consensus         2 ~~~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~   73 (262)
                      ++++++||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+.+++..++.+||++|+++++++++|.
T Consensus         1 ~~~~~~yd~~~t~Fsp~Grl~QvEYa~~av~~G~t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~~~i~~~~sG~   80 (245)
T d1irug_           1 SSIGTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGL   80 (245)
T ss_dssp             CCCCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEEC
T ss_pred             CCCccccCCCCceECCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEeccccccccccCccceEEEcCCCEEEEeccC
Confidence            578899999999999999999999999999999999999999        666777777888999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCce
Q 042723           74 IADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTF  152 (262)
Q Consensus        74 ~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~  152 (262)
                      .+|++.++++++.++..|+++++++++++.++++|++++|.|+++.   ++|||+|++||||+|++ ||+||.+||+|++
T Consensus        81 ~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~---~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~~  157 (245)
T d1irug_          81 LADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYS---AVRPFGCSFMLGSYSVNDGAQLYMIDPSGVS  157 (245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBS---SBCCCSEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             chhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccc---cccccceEEEEEEEcCCCCceEEEEcCCceE
Confidence            9999999999999999999999999999999999999999999998   99999999999999965 7999999999999


Q ss_pred             eecCeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC---eEEcCHhHHHHHHHh
Q 042723          153 WQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT---YHLYTPSEVEAVINR  228 (262)
Q Consensus       153 ~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~---~~~~~~~ei~~~l~~  228 (262)
                      .+++++|+|+|++.+.++||+.|+++||.+||++++++||+.+.+++. ++.++||.+|+++   ++++.+.|+.+.+.+
T Consensus       158 ~~~~~~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~~~~e~~~~~~~  237 (245)
T d1irug_         158 YGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEK  237 (245)
T ss_dssp             EEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHH
T ss_pred             EeeeEEEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEEChHHHHHHHHH
Confidence            999999999999999999999999999999999999999999988764 6788999999885   666667777777666


Q ss_pred             hhhh
Q 042723          229 PMSI  232 (262)
Q Consensus       229 ~~~~  232 (262)
                      +..+
T Consensus       238 ~~~~  241 (245)
T d1irug_         238 YAKE  241 (245)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.7e-55  Score=383.55  Aligned_cols=221  Identities=34%  Similarity=0.559  Sum_probs=210.0

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADA   77 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~   77 (262)
                      +.||+++|+|||||||+|||||+||+++|+|+|||+++        +|.+++++..++.+||++|+++++++++|..+|+
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            56999999999999999999999999999999999999        6777777778889999999999999999999999


Q ss_pred             HHHHHHHHHHHH-HHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeec
Q 042723           78 RTLVEHARVETQ-NHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQC  155 (262)
Q Consensus        78 ~~l~~~~r~~~~-~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~  155 (262)
                      +.+++.++.++. .|+..++++++++.+++.+++++|.|+++.   +.|||++++||||+|++ ||+||++||.|++.++
T Consensus        83 ~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~---~~rp~~v~~li~G~D~~~gp~Ly~id~~G~~~~~  159 (250)
T d1rypb_          83 RVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSG---GVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPW  159 (250)
T ss_dssp             HHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSB---TBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhc---CCcCeeEEEEEEEecCCCCCEEEEEcCcEEEEEe
Confidence            999999999986 589999999999999999999999999998   99999999999999975 7999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-----------------eEEcC
Q 042723          156 NAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-----------------YHLYT  218 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~-----------------~~~~~  218 (262)
                      +++|+|+|+.++.++||+.|+++|+++||++++++||+++.++|+++.++||++|+++                 |++++
T Consensus       160 ~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~vi~~~~~~~~~~~~v~~~~~~~fr~ls  239 (250)
T d1rypb_         160 KATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLT  239 (250)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEECC
T ss_pred             eEEecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEeCCCcccccccccccccCCceEECC
Confidence            9999999999999999999999999999999999999999999999999999999763                 78999


Q ss_pred             HhHHHHHHHhh
Q 042723          219 PSEVEAVINRP  229 (262)
Q Consensus       219 ~~ei~~~l~~~  229 (262)
                      ++||+++|+.+
T Consensus       240 ~eei~~~l~~l  250 (250)
T d1rypb_         240 SQEINDRLEAL  250 (250)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHHhC
Confidence            99999999864

>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=5.3e-56  Score=384.22  Aligned_cols=223  Identities=34%  Similarity=0.577  Sum_probs=209.7

Q ss_pred             CCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHH
Q 042723            7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADAR   78 (262)
Q Consensus         7 ~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~   78 (262)
                      .||+.+|+|||||||+|||||+||+++|+|+|||+++        ++.++.+..  +.+||++|++++++++||..+|++
T Consensus         2 ~yd~~~tiFsp~Grl~QvEYA~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~--~~~KI~~I~~~i~~~~sG~~~D~~   79 (238)
T d1iruf_           2 QYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA--HQKKILHVDNHIGISIAGLTADAR   79 (238)
T ss_dssp             TTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTBC--CCCCEEEEETTEEEEEEECHHHHH
T ss_pred             CCCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccccCCCC--ccceEEEeCCceEEEEeccchHHH
Confidence            6999999999999999999999999999999999999        666666543  458999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeE
Q 042723           79 TLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAK  158 (262)
Q Consensus        79 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~  158 (262)
                      .+++.++.++..|+++++++++++.+++.|+++.|.|+++.   ++|||++++||||+|++||+||.+||+|++.+++++
T Consensus        80 ~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~---~~rP~~v~~il~G~D~~gp~Ly~~D~~G~~~~~~~~  156 (238)
T d1iruf_          80 LLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRY---GRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAM  156 (238)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBT---TCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhcc---CCCcccceEEEEEEcCCCceEEEEcCCCCEEeeeeE
Confidence            99999999999999999999999999999999999999998   999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHhhcc--CCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhhhh
Q 042723          159 AIGSGSEGADSSLQEQYNKD--LTLQEAETIALSILKQVMEEK--VTPNNVDIARVAPT--YHLYTPSEVEAVINRPMSI  232 (262)
Q Consensus       159 a~G~gs~~a~~~Le~~~~~~--ms~eea~~la~~al~~~~~~d--~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~~~  232 (262)
                      |+|+|++.+.++||+.|+++  ++++||++++++||+.+..++  +++.+|||++|+++  +++++++||+++++++.++
T Consensus       157 a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~~~ei~~~l~~i~ek  236 (238)
T d1iruf_         157 SIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEER  236 (238)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTCCCC
T ss_pred             EECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECCHHHHHHHHHHHHhC
Confidence            99999999999999999985  499999999999999987653  57899999999998  9999999999999999875


Q ss_pred             hh
Q 042723          233 RR  234 (262)
Q Consensus       233 ~~  234 (262)
                      +|
T Consensus       237 ~~  238 (238)
T d1iruf_         237 PQ  238 (238)
T ss_dssp             CC
T ss_pred             cC
Confidence            53

>d1irub_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4.1e-55  Score=376.92  Aligned_cols=222  Identities=34%  Similarity=0.578  Sum_probs=213.9

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      ..+||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+.+++..++.+||++|+++++++++|..+|
T Consensus         2 ~~gyd~~~t~fsp~Gr~~Qveya~kav~~G~tvigik~~dgVvlaaD~r~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D   81 (233)
T d1irub_           2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPD   81 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHH
T ss_pred             CCCcCCCCCeECCCCcChHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCcccCCccccccceEEEecCceEEEEeccchH
Confidence            468999999999999999999999999999999999999        677777777889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~  156 (262)
                      ++.+.+.++.++..|+.+++++++++.+++.++++++.+++..   ..||++++++++|+|++||+||.+||.|++.+++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~~~p~~~~~li~g~d~~~~~ly~id~~G~~~~~~  158 (233)
T d1irub_          82 YRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSG---GVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWK  158 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSB---TBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcc---ccccceEEEeeeecccCCceEEEEcCCcceEecc
Confidence            9999999999999999999999999999999999999999887   8899999999999999999999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-eEEcCHhHHHHHHHhh
Q 042723          157 AKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-YHLYTPSEVEAVINRP  229 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~-~~~~~~~ei~~~l~~~  229 (262)
                      ++|+|+|+.++.++||+.|+++|+++||++++++||+.+.++|++++++||++|+++ +++++++||+++++.+
T Consensus       159 ~~a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~~~~~vev~ii~~~g~~~l~~~eI~~~l~~i  232 (233)
T d1irub_         159 ATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAGFRRLTPTEVKDYLAAI  232 (233)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETTEEEECCHHHHHHHHTTC
T ss_pred             ceecCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCCeEECCHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999988888999999999 9999999999999875

>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=3.7e-56  Score=384.05  Aligned_cols=218  Identities=36%  Similarity=0.556  Sum_probs=205.3

Q ss_pred             CcCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHH
Q 042723            4 TRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIA   75 (262)
Q Consensus         4 ~~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~   75 (262)
                      .|++||+++|+|||||||+|||||+||+++|+|+|||+++        ++.++.+  .++.+||++|+++++++++|..+
T Consensus         1 ~~~~yd~~~t~FspdGrl~QvEyA~kav~~g~t~igi~~~dgvvlaad~~~~~~l--~~~~~KI~~I~~~i~~~~sG~~~   78 (233)
T d1rypf_           1 FRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQKKIIKCDEHMGLSLAGLAP   78 (233)
T ss_dssp             CHHHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTT--BCCCCCEEEEETTEEEEEEECHH
T ss_pred             CCccccCCCceECCCCcChHHHHHHHHHHcCCCEEEEEECCeEEEEEeccccccC--CcchheEEEcCCCEEEEEeeccc
Confidence            3678999999999999999999999999999999999999        5666555  35668999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeec
Q 042723           76 DARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        76 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~  155 (262)
                      |++.++++++.+++.|++.++++++++.+++.|++++|.|++..   ++|||++++||||+|++||+||.+||+|++.++
T Consensus        79 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~---~~RP~gv~~il~G~d~~g~~Ly~idp~G~~~~~  155 (233)
T d1rypf_          79 DARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSY---GGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTEL  155 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBT---TCCCCCEEEEEEEEETTEEEEEEECTTSCEEEE
T ss_pred             cHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhccc---ccCCccceEEEEEEcCCCCEEEEEccccceecc
Confidence            99999999999999999999999999999999999999999998   999999999999999999999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhc----CCCCCHHHHHHHHHHHHHHHhhcc-CCCCcEEEEEEeCC--eEEcCHhHHHHHH
Q 042723          156 NAKAIGSGSEGADSSLQEQY----NKDLTLQEAETIALSILKQVMEEK-VTPNNVDIARVAPT--YHLYTPSEVEAVI  226 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~----~~~ms~eea~~la~~al~~~~~~d-~s~~~iev~ii~k~--~~~~~~~ei~~~l  226 (262)
                      +++|+|+|++.+.++||+.|    +++|+++||++++++||+.+.++| .+++++||++|+++  +++++++||+.++
T Consensus       156 ~~~aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l~~~ei~~~i  233 (233)
T d1rypf_         156 YGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI  233 (233)
T ss_dssp             SEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGGGGC
T ss_pred             cEEEecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEECCHHHHHhhC
Confidence            99999999999999998865    569999999999999999999887 48999999999999  9999999998763

>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=6.6e-55  Score=378.61  Aligned_cols=224  Identities=34%  Similarity=0.561  Sum_probs=209.8

Q ss_pred             cCCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            5 RTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         5 ~~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      +++||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+.++...++.+||++|+++++++++|..+|
T Consensus         1 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (244)
T d1rypg_           1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPD   80 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHH
T ss_pred             CCCcCCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCCCccccccceEEEccCceEEEEccchhh
Confidence            589999999999999999999999999999999999999        667766766777899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecC
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~  156 (262)
                      ++.+++.++.++..|++.++++++++.+++.+++++|.|+++.   ++|||++++||||||++||+||.+||+|++.+++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~---~~RP~~~~~iiaG~D~~gp~Ly~idp~Gs~~~~~  157 (244)
T d1rypg_          81 GRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYN---SVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYK  157 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCT---TBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhccc---ccCCceEEEEEEEEeCCCCEEEEEcCCccEEecC
Confidence            9999999999999999999999999999999999999999998   9999999999999999999999999999999999


Q ss_pred             eEEECCChhhHHHHHHh---hcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-----eEEcCHhHHHHHHH
Q 042723          157 AKAIGSGSEGADSSLQE---QYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-----YHLYTPSEVEAVIN  227 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~---~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-----~~~~~~~ei~~~l~  227 (262)
                      ++|+|+|+..+.++||+   .|+++||++||++++++||+.+.+++. ++.++||.+|+.+     ++.++.|+++++++
T Consensus       158 ~~a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~~~~~~~~~~~~e~~~~~~~  237 (244)
T d1rypg_         158 GAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAID  237 (244)
T ss_dssp             EEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHHH
T ss_pred             eEecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEEcCCCeEEECCHHHHHHHHH
Confidence            99999999999999996   699999999999999999999998876 6788999999742     77888888888887


Q ss_pred             hhhh
Q 042723          228 RPMS  231 (262)
Q Consensus       228 ~~~~  231 (262)
                      ..++
T Consensus       238 ~~~~  241 (244)
T d1rypg_         238 FAQK  241 (244)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7664

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.8e-55  Score=381.96  Aligned_cols=225  Identities=36%  Similarity=0.624  Sum_probs=211.9

Q ss_pred             CCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHH
Q 042723            7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADAR   78 (262)
Q Consensus         7 ~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~   78 (262)
                      +||+.+|+|||||||+|||||+||+++|+|+|||+++        ++..++++.+++.+||++|++++++++||..+|++
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            5999999999999999999999999999999999999        66678888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCe
Q 042723           79 TLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNA  157 (262)
Q Consensus        79 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~  157 (262)
                      .+++.++.++..|+++++.+++++.++++|++++|.|+++.   ++|||++++||||+|++ ||+||.+||+|++.++++
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~---~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~~  157 (243)
T d1irud_          81 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN---GRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKA  157 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBT---TBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcc---cCCccceEEEEEEEcCCCCCEEEEecCcEEEEeccE
Confidence            99999999999999999999999999999999999999998   99999999999999976 799999999999999999


Q ss_pred             EEECCChhhHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhhhhh
Q 042723          158 KAIGSGSEGADSSLQEQYNKDL--TLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINRPMSIR  233 (262)
Q Consensus       158 ~a~G~gs~~a~~~Le~~~~~~m--s~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~~~~  233 (262)
                      +|+|+|+..+.++||+.|+++|  +.++++++++++|......  ++.+++|++|+++  +++++++||++++..+.+.+
T Consensus       158 ~a~G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~~~~--~~~~vei~ii~k~~~~~~l~~~eI~~~l~~i~~~~  235 (243)
T d1irud_         158 NAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQS--GGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEK  235 (243)
T ss_dssp             EEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSCT--TSTTCCEEEEESSSCEECCCHHHHHHHTTTTTTTT
T ss_pred             EEECCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHHhcC--CCCcEEEEEEECCCCEEECCHHHHHHHHHHHHhhh
Confidence            9999999999999999999988  7777888888887765433  5778999999997  99999999999999999888


Q ss_pred             hhc
Q 042723          234 RKS  236 (262)
Q Consensus       234 ~~~  236 (262)
                      +++
T Consensus       236 ~~~  238 (243)
T d1irud_         236 EEN  238 (243)
T ss_dssp             TTT
T ss_pred             hhh
Confidence            877

>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=4.7e-55  Score=378.94  Aligned_cols=226  Identities=59%  Similarity=0.929  Sum_probs=213.2

Q ss_pred             CCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHHH
Q 042723            9 DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTL   80 (262)
Q Consensus         9 d~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l   80 (262)
                      |+++|+|||||||+|||||+||+++|+|+|||+++        +|.+.++...++.+||++|+++++++++|..+|++.+
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            78999999999999999999999999999999999        6777778888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCC-cc--CCCccceEEEEEEEEcCC-CCeEEEECCCCceeecC
Q 042723           81 VEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGD-EE--SMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCN  156 (262)
Q Consensus        81 ~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~-~~--~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~  156 (262)
                      +++++.++..|++.++++++++.++++|++++|.|+++. ..  +++|||+|++||||+|++ +|+||.+||+|++.+++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~~~  160 (242)
T d1rype_          81 IEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYN  160 (242)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceeccc
Confidence            999999999999999999999999999999999998875 11  568999999999999976 49999999999999999


Q ss_pred             eEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhhhhhh
Q 042723          157 AKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINRPMSIRR  234 (262)
Q Consensus       157 ~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~~~~~  234 (262)
                      ++|+|+|+++++++||+.|+++||++||++++++||+.+.++++++++++|.+|+++  +++++++||++++.++.++..
T Consensus       161 ~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~~~~~~v~~i~~~~g~~~l~~~~i~~~~~~i~e~~~  240 (242)
T d1rype_         161 AKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELKEKEA  240 (242)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHHHHHHHHHHHHHT
T ss_pred             eeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCceEEEEEECCCCeEECCHHHHHHHHHHHHHhhh
Confidence            999999999999999999999999999999999999999999988778999999886  999999999999999997654

>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=1.8e-54  Score=375.17  Aligned_cols=225  Identities=36%  Similarity=0.608  Sum_probs=211.1

Q ss_pred             CCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCC-cCCCccCceEEEcCcEEEEEecCHHHH
Q 042723            7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPL-LEPSSVEKIKEIDEHIGCAMSGLIADA   77 (262)
Q Consensus         7 ~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l-~~~~~~~Ki~~I~~~i~~~~sG~~~D~   77 (262)
                      +||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+.++ ..+.+.+||++|++++++++||..+|+
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            6999999999999999999999999999999999999        5666544 456788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC--CCCeEEEECCCCceeec
Q 042723           78 RTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE--NGPSLYYTDPSGTFWQC  155 (262)
Q Consensus        78 ~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~--~gp~Ly~iD~~G~~~~~  155 (262)
                      +.+++.++.++..|+++++++++++.+++++++++|.|+++.   ++|||+|++||||+|+  +||+||.+||+|++.++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~---~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~  157 (241)
T d1rypd_          81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG---GVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSW  157 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSST---TBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhcc---ccCcccceEEEEEEccccCcceEEEecCCEEEEee
Confidence            999999999999999999999999999999999999999998   9999999999999996  37999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCC---CCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHHHhhh
Q 042723          156 NAKAIGSGSEGADSSLQEQYNK---DLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVINRPM  230 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~---~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l~~~~  230 (262)
                      +++|+|+|++.+.++||+.|++   +|+.+||+++|++||+.+.++  ++.++||++++++  +++++++||+++++.+.
T Consensus       158 ~~~a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~--~~~~iei~ii~~d~~~~~l~~~ei~~~l~~i~  235 (241)
T d1rypd_         158 SAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQT--GAKNIEITVVKPDSDIVALSSEEINQYVTQIE  235 (241)
T ss_dssp             SEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCS--CSTTEEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             CeEEECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcC--CCCcEEEEEEECCCCEEECCHHHHHHHHHHHH
Confidence            9999999999999999999965   699999999999999998754  5779999999998  99999999999999999


Q ss_pred             hhhhhc
Q 042723          231 SIRRKS  236 (262)
Q Consensus       231 ~~~~~~  236 (262)
                      ++++++
T Consensus       236 ~~~~~~  241 (241)
T d1rypd_         236 QEKQEQ  241 (241)
T ss_dssp             HHHHCC
T ss_pred             HHHhcC
Confidence            887753

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.5e-55  Score=380.93  Aligned_cols=223  Identities=27%  Similarity=0.519  Sum_probs=212.4

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhcc-CCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~-G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      .+||+++|+|||||||+|||||+||+++ |+|+|||+++        +|.+++++..++.+||++|+++++++++|..+|
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            4799999999999999999999999998 5589999999        777788888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeec
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQC  155 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~  155 (262)
                      ++.+.++++.++..|++.++++++++.+++++++++|.|+++.   +.|||+|++||||+|++ ||+||.+||+|++.++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~---~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~  157 (243)
T d1rypa_          81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRA---YMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGY  157 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBT---TSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcc---cccCccceEEEEEEccCCCCeEEEEcCCEEEEec
Confidence            9999999999999999999999999999999999999999987   89999999999999975 7999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCC-------CCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-eEEcCHhHHHHHHH
Q 042723          156 NAKAIGSGSEGADSSLQEQYNK-------DLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT-YHLYTPSEVEAVIN  227 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~-------~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~-~~~~~~~ei~~~l~  227 (262)
                      +++|+|+|+..+.++||++|++       +++.+||++++++||+.+.++|.+++++||++++++ +++++++||++++.
T Consensus       158 ~~~a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~~~~~iei~iitk~g~~~l~~eeI~~~l~  237 (243)
T d1rypa_         158 KATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAENIEERLV  237 (243)
T ss_dssp             SEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETTEEEECCHHHHHHHHH
T ss_pred             ceEEeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCCceEEeCHHHHHHHHH
Confidence            9999999999999999999985       469999999999999999999998899999999999 99999999999999


Q ss_pred             hhhh
Q 042723          228 RPMS  231 (262)
Q Consensus       228 ~~~~  231 (262)
                      .+.+
T Consensus       238 ~i~e  241 (243)
T d1rypa_         238 AIAE  241 (243)
T ss_dssp             HHTT
T ss_pred             HHhc
Confidence            8864

>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=5.5e-55  Score=373.73  Aligned_cols=211  Identities=41%  Similarity=0.677  Sum_probs=204.0

Q ss_pred             cccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHH
Q 042723           13 NTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHA   84 (262)
Q Consensus        13 ~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~   84 (262)
                      |+|||||||+|||||+||+++|+|+|||+++        ++.+++++.+++.+||++|+++++++++|..+|++.+.+.+
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            7999999999999999999999999999999        67778888888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCCh
Q 042723           85 RVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGS  164 (262)
Q Consensus        85 r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs  164 (262)
                      +.++..|++.++++++++.+++.++.+++.|+++.   ++|||++++||||+|++||+||++||.|++.+++++|+|+|+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~---~~rP~~~~~li~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~  157 (221)
T d1yara1          81 RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYG---GVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGK  157 (221)
T ss_dssp             HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBT---TBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEEEESTTH
T ss_pred             HHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhc---cCCCcceEEEEEEEecCCCeEEEEcCCccEEEeeEEEECCch
Confidence            99999999999999999999999999999999998   899999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC--eEEcCHhHHHHHH
Q 042723          165 EGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKVTPNNVDIARVAPT--YHLYTPSEVEAVI  226 (262)
Q Consensus       165 ~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~ii~k~--~~~~~~~ei~~~l  226 (262)
                      ..++++||+.|+++||++||++++++||+.+.+++.++++++|++|+++  +|+++++||+++|
T Consensus       158 ~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~~~~~ei~~i~~~~~~r~l~~~ei~~~l  221 (221)
T d1yara1         158 DAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL  221 (221)
T ss_dssp             HHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             HHHHHHHHHHhhccccHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCCEEECCHHHHHHhC
Confidence            9999999999999999999999999999999988888889999999987  9999999999764

>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=2.2e-54  Score=375.18  Aligned_cols=221  Identities=33%  Similarity=0.593  Sum_probs=209.3

Q ss_pred             CCCCCCccccCCCCCchhhhhHHHHhccCCcEEEEeec--------cccCC-CCcCCCccCceEEEcCcEEEEEecCHHH
Q 042723            6 TEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTK--------KRITS-PLLEPSSVEKIKEIDEHIGCAMSGLIAD   76 (262)
Q Consensus         6 ~~yd~~~~~fsp~G~~~QieyA~kav~~G~tiVgI~~~--------~~~~~-~l~~~~~~~Ki~~I~~~i~~~~sG~~~D   76 (262)
                      ++||+++|+|||||||+|||||+||+++|+|+|||+++        ++.+. .++.+++.+||++|+++++++++|..+|
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            45999999999999999999999999999999999999        56554 4566778999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeec
Q 042723           77 ARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQC  155 (262)
Q Consensus        77 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~  155 (262)
                      ++.+.+.++.+++.|+..++++++++.+++.++++++.|+++.   ++|||++++||||+|++ ||+||.+||.|++.++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~~  159 (244)
T d1rypc_          83 AEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHG---GLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGW  159 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBS---SCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhcc---ccCccceeEEEEEEecCCCceEEEecCCCcEeee
Confidence            9999999999999999999999999999999999999999998   89999999999999975 6999999999999999


Q ss_pred             CeEEECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-------eEEcCHhHHHHHHH
Q 042723          156 NAKAIGSGSEGADSSLQEQYNKDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-------YHLYTPSEVEAVIN  227 (262)
Q Consensus       156 ~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-------~~~~~~~ei~~~l~  227 (262)
                      +++|+|+|+.++.++||+.|+++|+++||++++++||+.+.++|. +++++||++|+++       +++++++||++++.
T Consensus       160 ~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~~~~~~~~~~~~~Ei~~~l~  239 (244)
T d1rypc_         160 KAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILV  239 (244)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHH
T ss_pred             eeeeccchhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCcccceeEEECCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999986 7899999999976       78899999999987


Q ss_pred             hh
Q 042723          228 RP  229 (262)
Q Consensus       228 ~~  229 (262)
                      +.
T Consensus       240 k~  241 (244)
T d1rypc_         240 KT  241 (244)
T ss_dssp             HH
T ss_pred             Hh
Confidence            64

>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=1e-41  Score=292.24  Aligned_cols=199  Identities=20%  Similarity=0.311  Sum_probs=171.6

Q ss_pred             hhhhHHHHhccCCcEEEEeec---cccCCCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCC-C
Q 042723           23 QVEYAIEAIKLGSTAIGLKTK---KRITSPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGE-P   98 (262)
Q Consensus        23 QieyA~kav~~G~tiVgI~~~---~~~~~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~-~   98 (262)
                      |+|||+||+++|+|+|||+++   ..++.+  ..++.+||++|+|||+++++|..+|++.|+++++.++..|++.++. +
T Consensus         8 q~eyA~~av~~GtT~vgi~~~~GVvlaad~--r~~s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~~   85 (227)
T d1q5qa_           8 RSELARKGIARGRSVVVLTFRDGVLFVAEN--PSTALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRD   85 (227)
T ss_dssp             HHHHHHHHHHTSCCEEEEECSSEEEEEECC--SCSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHSCGGG
T ss_pred             HHHHHHHHHhcCCCEEEEEECCEEEEEEcc--CCCCcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence            999999999999999999999   111111  1245689999999999999999999999999999999999999984 6


Q ss_pred             CCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcC----CCCeEEEECCCCceeecC-eEEECCChhhHHHHHHh
Q 042723           99 MTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE----NGPSLYYTDPSGTFWQCN-AKAIGSGSEGADSSLQE  173 (262)
Q Consensus        99 i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~----~gp~Ly~iD~~G~~~~~~-~~a~G~gs~~a~~~Le~  173 (262)
                      ++++.+++.++++++.....    ++|||+|++||||||.    +||+||.+||+|++.+++ +++.|.++..+.++|++
T Consensus        86 ~~~~~la~~~~~~~~~~~~~----~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~Le~  161 (227)
T d1q5qa_          86 VTGRSLANAYAQTLGTIFTE----QPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRE  161 (227)
T ss_dssp             CCHHHHHHHHHHHHHHHHHH----SSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHh----cCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHHHHHHHH
Confidence            89999999999886533332    5699999999999996    369999999999988765 56778889999999999


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHHhhcc-----CCCCcEEEEEEeCC-----eEEcCHhHHHHHHH
Q 042723          174 QYNKDLTLQEAETIALSILKQVMEEK-----VTPNNVDIARVAPT-----YHLYTPSEVEAVIN  227 (262)
Q Consensus       174 ~~~~~ms~eea~~la~~al~~~~~~d-----~s~~~iev~ii~k~-----~~~~~~~ei~~~l~  227 (262)
                      .|+++||++||+++|++||+.+..+|     +++.++||.+++++     |++++++||+++|+
T Consensus       162 ~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~~~fr~l~~~ei~~~l~  225 (227)
T d1q5qa_         162 SYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP  225 (227)
T ss_dssp             HCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSC
T ss_pred             hccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCccceEEcCHHHHHHHhc
Confidence            99999999999999999999998775     35678999999976     99999999999875

>d1yarh1 d.153.1.4 (H:1-203) Proteasome beta subunit (catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=1.1e-40  Score=280.70  Aligned_cols=187  Identities=23%  Similarity=0.393  Sum_probs=175.9

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|.+ ++++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+..++++++++.++
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            789999999        5554 6788899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      ++++++++.+       +.|||++++|+||+|+ +|+||.+||+|++.+++++|+|+|++++.++||+.|+++||++||+
T Consensus        81 ~~l~~~~~~~-------~~~p~~~~~lvaG~d~-~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~  152 (203)
T d1yarh1          81 TLLSNMLNQV-------KYMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGV  152 (203)
T ss_dssp             HHHHHHHHHT-------TTSCCCEEEEEEEESS-SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHhh-------ccCCccceeEEEEEcC-CCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHHH
Confidence            9999998655       3489999999999986 5999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC--eEEcCHhHHHHHHHhh
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT--YHLYTPSEVEAVINRP  229 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~--~~~~~~~ei~~~l~~~  229 (262)
                      +++++||+.+.++|. ++++++|++|+++  +++++++||+++++++
T Consensus       153 ~l~~~~l~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei~~~~~~~  199 (203)
T d1yarh1         153 DLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKL  199 (203)
T ss_dssp             HHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEEEECCCCEEECCHHHHHHHHHHh
Confidence            999999999999996 7899999999976  9999999999999876

>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=8.6e-41  Score=281.12  Aligned_cols=189  Identities=21%  Similarity=0.318  Sum_probs=178.0

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        ++.+ ++++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+..++++++++.++
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            799999999        5544 5778888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      +++++++|.+       ..+||++++++||+|++||+||.+||+|++.+++++|+|+|++++.++||+.|+++||++||+
T Consensus        81 ~~l~~~~~~~-------~~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~  153 (201)
T d1irul_          81 KLLANMVYQY-------KGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAY  153 (201)
T ss_dssp             HHHHHHHHTT-------TTSCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHH
T ss_pred             HHHHHHhhhc-------cCCCceEEEEEEEEecCCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHH
Confidence            9999999644       347999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhh
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPM  230 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~  230 (262)
                      +++++||+.+.++|. ++++++|++|+++ +++++++||+++..++.
T Consensus       154 ~l~~~~l~~~~~~d~~sg~~~~v~~i~~~G~~~i~~~ev~~~~~~~~  200 (201)
T d1irul_         154 DLARRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHEKYS  200 (201)
T ss_dssp             HHHHHHHHHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCCCCCceEEEEEeCCceEEECHHHHHHHHHhhc
Confidence            999999999999996 8999999999999 99999999999987763

>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=7.2e-40  Score=275.05  Aligned_cols=189  Identities=25%  Similarity=0.433  Sum_probs=177.6

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|.+ ++++.+++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            799999999        5554 6788888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeec-CeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      +++++++|.|+       .|||++++|+||+|++||+||.+||+|+..++ .++|+|+|+.++.++||+.|+++|+++||
T Consensus        81 ~~~~~~~~~~~-------~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea  153 (202)
T d1j2qh_          81 TLTSNLLNSYR-------YFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEA  153 (202)
T ss_dssp             HHHHHHHHHTT-------TSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHH
T ss_pred             HHHHHHHhhhc-------ccceeeEEEEEEEcCCCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHH
Confidence            99999997663       36999999999999999999999999998765 69999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhh
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPM  230 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~  230 (262)
                      ++++++||+.+.++|. ++++++|++|+++ +++++++||++++.+++
T Consensus       154 ~~l~~~al~~~~~~d~~~g~~v~v~~i~~~g~~~~~~~ei~~~l~~~~  201 (202)
T d1j2qh_         154 VELAVRAIYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVEQILAKFR  201 (202)
T ss_dssp             HHHHHHHHHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHHHHGGGTT
T ss_pred             HHHHHHHHHHHHHhcCCCCCeEEEEEEECCCEEEeCHHHHHHHHHHhh
Confidence            9999999999999997 7889999999999 99999999999999876

>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=7.4e-40  Score=274.74  Aligned_cols=184  Identities=18%  Similarity=0.189  Sum_probs=171.8

Q ss_pred             CCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           34 GSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        34 G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      ++|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+++++++++++.+
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            5899999999        5555 566778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC--CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN--GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQ  182 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~--gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~e  182 (262)
                      ++++++.++.+.+     .+|||++++||||+|+.  ||+||.+||.|++.+++++|+|+|+.++.++||+.|+++|+++
T Consensus        81 ~~~i~~~~~~~~~-----~~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~e  155 (198)
T d1rypk_          81 SSFVRQELAKSIR-----SRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTE  155 (198)
T ss_dssp             HHHHHHHHHHHTT-----SSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHH
T ss_pred             HHHHHHHHHHHHh-----cccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHH
Confidence            9999999976655     45999999999999963  7999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHH
Q 042723          183 EAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEV  222 (262)
Q Consensus       183 ea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei  222 (262)
                      ||++++++||+.+.++|. ++++++|++|+++ +++++++|+
T Consensus       156 ea~~l~~~~l~~~~~~d~~s~~~~~v~vi~~dG~~~~~~~~~  197 (198)
T d1rypk_         156 EGLDLLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQA  197 (198)
T ss_dssp             HHHHHHHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCCSC
T ss_pred             HHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCeEEcchhcc
Confidence            999999999999999986 7899999999999 999998875

>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=1.7e-39  Score=275.35  Aligned_cols=195  Identities=19%  Similarity=0.313  Sum_probs=181.4

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.++..|++.++++++++.++
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            799999999        5554 5788889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      ++++++++.|+       ..|+++..+++|+|++ ||+||.+||.|++.+++++|+|+|++++.++||+.|+++|+++||
T Consensus        81 ~~ls~~~~~~~-------~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea  153 (212)
T d1rypl_          81 KILSNLVYQYK-------GAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDA  153 (212)
T ss_dssp             HHHHHHHHHTT-------TSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHH
T ss_pred             HHHHHHHHHhc-------cCCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHHH
Confidence            99999996552       3588899999998765 799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHHHHHHhhhhhhhhc
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVEAVINRPMSIRRKS  236 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~~~l~~~~~~~~~~  236 (262)
                      ++++++||+.+.+||. ++++++|++|+++ +++++++||.+++.++.+++..+
T Consensus       154 ~~l~~~al~~~~~rd~~sg~~v~v~vi~~~g~~~~~~~ev~~~~~~~~~~~~~~  207 (212)
T d1rypl_         154 LYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEEGSF  207 (212)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHHHhcCCCCCceEEEEEcCCceEEeCHHHHHHHHHHHHHhhccc
Confidence            9999999999999997 8999999999999 99999999999999999766554

>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=3.3e-39  Score=272.38  Aligned_cols=186  Identities=17%  Similarity=0.326  Sum_probs=170.0

Q ss_pred             HhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 042723           30 AIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMT  100 (262)
Q Consensus        30 av~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~  100 (262)
                      .+++|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++++ +
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            37899999999999        5554 577788899999999999999999999999999999999999999999976 5


Q ss_pred             HHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCC
Q 042723          101 VESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDL  179 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~m  179 (262)
                      +..+++++++++  |.++      +||++++||||+|++ +|+||.+||.|++.+++++|+|+|+.+++++||+.|+++|
T Consensus        84 ~~~~~~~~~~~~--~~~~------~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~m  155 (205)
T d1ryph_          84 TETAASVFKELC--YENK------DNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENM  155 (205)
T ss_dssp             HHHHHHHHHHHH--HHTT------TTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTC
T ss_pred             HHHHHHHHHHHH--HhCc------cCceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhccc
Confidence            788999999998  4432      699999999999975 6999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC---eEEcCHhHHHH
Q 042723          180 TLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT---YHLYTPSEVEA  224 (262)
Q Consensus       180 s~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~---~~~~~~~ei~~  224 (262)
                      |++||++++++||+.+.++|. ++++++|++|+++   .+.+.++|+++
T Consensus       156 s~~ea~~l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~~~~~e~~~  204 (205)
T d1ryph_         156 SKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQ  204 (205)
T ss_dssp             CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECHHHHTC
T ss_pred             CHHHHHHHHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEEecCcccccc
Confidence            999999999999999999997 8999999999999   44678898864

>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=1.7e-39  Score=279.08  Aligned_cols=193  Identities=18%  Similarity=0.275  Sum_probs=177.6

Q ss_pred             HHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHh----
Q 042723           29 EAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSY----   95 (262)
Q Consensus        29 kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~----   95 (262)
                      +++.+|+|+|||+++        ++.+ ++++.+++.+||++|+++++++++|..+|++.+.+.++.++..|++++    
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            678999999999999        5554 678888999999999999999999999999999999999999998876    


Q ss_pred             -CCCCCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCceeecCeEEECCChhhHHHHHHh
Q 042723           96 -GEPMTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQE  173 (262)
Q Consensus        96 -~~~i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~  173 (262)
                       +.++++..+++++++.+  |+++.   ++|||++++||||+|++| |+||.+||.|++.+++++|+|+|+++++++||+
T Consensus        83 ~~~~~~~~~~a~~l~~~~--y~~~~---~~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~  157 (233)
T d1ryp2_          83 AEEALEPSYIFEYLATVM--YQRRS---KMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRK  157 (233)
T ss_dssp             TTTSCCHHHHHHHHHHHH--HHHHH---TTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTT
T ss_pred             CCcccCHHHHHHHHHHHH--Hhhcc---ccCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHH
Confidence             56789999999999988  66665   779999999999999875 789999999999999999999999999999999


Q ss_pred             hcC-----CCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC--eEEcCHhHHHHHH
Q 042723          174 QYN-----KDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT--YHLYTPSEVEAVI  226 (262)
Q Consensus       174 ~~~-----~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~--~~~~~~~ei~~~l  226 (262)
                      .|+     |+|++|||++++++||+.+.+||. ++++|+|++|++|  ++++.+++|+++.
T Consensus       158 ~~~~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~g~~~~~~~~ie~~~  218 (233)
T d1ryp2_         158 VVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMK  218 (233)
T ss_dssp             TCCSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSCC
T ss_pred             HHhhcccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCCCEEECChhcchhhh
Confidence            998     689999999999999999999997 7999999999998  9999998887653

>d1irui_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=9.8e-38  Score=265.88  Aligned_cols=181  Identities=23%  Similarity=0.348  Sum_probs=169.2

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        ++.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++++++++++..++
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            799999999        5554 4677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      +++++++  |..+      +|+++++|+||+|++||+||.+||.|++.+++++|+|+|+++++++|++.|+++||++||+
T Consensus        81 ~~l~~~~--y~~~------~p~~~~~ivaG~D~~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~  152 (220)
T d1irui_          81 RMLKQML--FRYR------GYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAK  152 (220)
T ss_dssp             HHHHHHH--HHTT------TCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHH
T ss_pred             HHHHhhh--hhcc------cccceeEEEEEEeCCCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHH
Confidence            9999998  4332      6999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHHH
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEVE  223 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei~  223 (262)
                      +++++||+.+.++|. ++++|+|++|+++ ++++.+.+++
T Consensus       153 ~l~~~al~~~~~~D~~sg~~i~i~vitkdg~~~~~~~~~~  192 (220)
T d1irui_         153 NLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVP  192 (220)
T ss_dssp             THHHHHHHHHHHHCTTCCSCEEEEEEETTEEECCSEEECC
T ss_pred             HHHHHHHHHhhccCCCCCCcEEEEEEECCCeEEeCccccc
Confidence            999999999999996 8999999999999 9988887654

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.8e-37  Score=260.86  Aligned_cols=183  Identities=19%  Similarity=0.303  Sum_probs=170.2

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++++++++.++
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            799999999        5554 5778889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      ++++++++.+  +      +||++++|++|+|++ +|+||.+||.|++.+++++|+|+|+.+++++|++.|+++|+++||
T Consensus        81 ~~l~~~l~~~--~------~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea  152 (202)
T d1iruh_          81 SLFKEMCYRY--R------EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEEC  152 (202)
T ss_dssp             HHHHHHHHHT--T------TTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHH
T ss_pred             HHHHHHHHhh--c------cceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHH
Confidence            9999999544  2      699999999999985 699999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEEeCC---eEEcCHhHHHHH
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARVAPT---YHLYTPSEVEAV  225 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii~k~---~~~~~~~ei~~~  225 (262)
                      ++++++||+.+.++|. ++++++|++|+++   ++.++++||..+
T Consensus       153 ~~l~~~al~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~  197 (202)
T d1iruh_         153 LQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKF  197 (202)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCC
T ss_pred             HHHHHHHHHHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhh
Confidence            9999999999999997 8999999999999   556999887654

>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=1.4e-36  Score=258.67  Aligned_cols=197  Identities=22%  Similarity=0.234  Sum_probs=180.8

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        ++.+ ++++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+++++.++++..++
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            799999999        5554 5788889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcC------CCCeEEEECCCCceeec--CeEEECCChhhHHHHHHhhcCC
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDE------NGPSLYYTDPSGTFWQC--NAKAIGSGSEGADSSLQEQYNK  177 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~------~gp~Ly~iD~~G~~~~~--~~~a~G~gs~~a~~~Le~~~~~  177 (262)
                      ++++++++.|++.    .++|+++.++++|++.      .+|+||.+||.|+..++  ++.|+|+|+.+++++||+.|++
T Consensus        81 ~~~~~~~~~~~~~----~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~  156 (224)
T d1q5qh_          81 NRLASMVRGNLGA----AMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSP  156 (224)
T ss_dssp             HHHHHHHHTTHHH----HTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHhhcc----cccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcc
Confidence            9999999877654    5789999999998873      36999999999998765  7899999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhccC-CCC-------cEEEEEEeCC-eEEcCHhHHHHHHHhhhhhhhh
Q 042723          178 DLTLQEAETIALSILKQVMEEKV-TPN-------NVDIARVAPT-YHLYTPSEVEAVINRPMSIRRK  235 (262)
Q Consensus       178 ~ms~eea~~la~~al~~~~~~d~-s~~-------~iev~ii~k~-~~~~~~~ei~~~l~~~~~~~~~  235 (262)
                      +||++||++++++||+.+.++|. +|+       ++++.+++++ +++++++|++++++++..+|..
T Consensus       157 ~mt~~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~~~g~~~l~~~ei~~~~~~~~~~~~~  223 (224)
T d1q5qh_         157 DSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAERTE  223 (224)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEeCCcEEEcCHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999997 654       4899999999 9999999999999999988875

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.9e-37  Score=263.52  Aligned_cols=189  Identities=17%  Similarity=0.210  Sum_probs=172.6

Q ss_pred             HHhccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHH-HhCCC
Q 042723           29 EAIKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRF-SYGEP   98 (262)
Q Consensus        29 kav~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~-~~~~~   98 (262)
                      +++.+|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.+++++..++. .++.+
T Consensus         3 ~~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T d1iru2_           3 NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHS   82 (217)
T ss_dssp             SCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             CCcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCC
Confidence            467899999999999        5554 6788889999999999999999999999999999999999988775 56789


Q ss_pred             CCHHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcC--
Q 042723           99 MTVESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN--  176 (262)
Q Consensus        99 i~~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~--  176 (262)
                      ++++.+++++++.+  |+++.   .++|+++++|+||+|+++|+||.+||+|++.+++++|+|+|+.++.++||+.|+  
T Consensus        83 ~~v~~~a~~l~~~~--y~~~~---~~~p~~~~~li~G~d~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~  157 (217)
T d1iru2_          83 YSPRAIHSWLTRAM--YSRRS---KMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQ  157 (217)
T ss_dssp             CCHHHHHHHHHHHH--HHHHH---TTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSC
T ss_pred             CCHHHHHHHHHHHH--HHhcc---ccCcccceEEEEEEcCCCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhccc
Confidence            99999999999988  66665   779999999999999989999999999999999999999999999999999765  


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhHH
Q 042723          177 KDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSEV  222 (262)
Q Consensus       177 ~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~ei  222 (262)
                      ++|+.+||++++++||+.+.+||. ++++++|++|+++ ++++.++++
T Consensus       158 ~~lt~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G~~~~~~~~~  205 (217)
T d1iru2_         158 PVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLST  205 (217)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCCCEEEcCCeec
Confidence            799999999999999999999996 8999999999999 887776654

>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=2.2e-36  Score=258.00  Aligned_cols=176  Identities=24%  Similarity=0.332  Sum_probs=163.2

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.+.++.++..|++.++.++++..++
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            789999999        4554 5778888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEAE  185 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~  185 (262)
                      +++++.+  |..      .+|+++++|+||+|++||+||.+||.|++.+++++|+|+|+++++++||+.|+++|+++||+
T Consensus        81 ~~l~~~~--~~~------~~p~~~~~l~aG~d~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~  152 (222)
T d1rypi_          81 QMLKQHL--FKY------QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI  152 (222)
T ss_dssp             HHHHHHH--HHT------TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHH--Hhh------hhccceeEEEEEEcCCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHH
Confidence            9999988  432      36999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccC-CCCcEEEEEEeCC--eEEcC
Q 042723          186 TIALSILKQVMEEKV-TPNNVDIARVAPT--YHLYT  218 (262)
Q Consensus       186 ~la~~al~~~~~~d~-s~~~iev~ii~k~--~~~~~  218 (262)
                      +++++||+.+.+||. ++++++|++|+++  .+.+.
T Consensus       153 ~l~~~al~~a~~~D~~sg~~i~i~vi~~~~~~~~~~  188 (222)
T d1rypi_         153 KLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLR  188 (222)
T ss_dssp             HHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEE
T ss_pred             HHHHHHHHHHhcccCCCCCcEEEEEEEcCCCeEEec
Confidence            999999999999997 7899999999987  55443

>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=3e-35  Score=247.58  Aligned_cols=177  Identities=14%  Similarity=0.181  Sum_probs=162.5

Q ss_pred             ccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 042723           32 KLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVE  102 (262)
Q Consensus        32 ~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~  102 (262)
                      -+|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.+++.|++.++.+++++
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            479999999999        5554 5677789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC--CeEEEECCCCceeec-CeEEECCChhhHHHHHHhhcCCCC
Q 042723          103 STTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG--PSLYYTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNKDL  179 (262)
Q Consensus       103 ~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g--p~Ly~iD~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~m  179 (262)
                      .++++++++++.+       .++||++++||||+|+++  |.+|.+|+.|....+ .++++|+|+++++++|++.|+++|
T Consensus        85 ~~a~~l~~~~~~~-------~~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~m  157 (204)
T d1iruj_          85 TLMSMVANLLYEK-------RFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNM  157 (204)
T ss_dssp             HHHHHHHHHHHTT-------TTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSC
T ss_pred             HHHHHHHHHHHHh-------hhccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCC
Confidence            9999999999433       347999999999999864  778999999987665 689999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eE
Q 042723          180 TLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YH  215 (262)
Q Consensus       180 s~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~  215 (262)
                      +++||++++++||+.+.+||. ++++++|.+|+++ ++
T Consensus       158 s~~ea~~l~~~al~~a~~rd~~sg~~~~v~ii~k~gi~  195 (204)
T d1iruj_         158 DPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKIT  195 (204)
T ss_dssp             CHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEE
T ss_pred             CHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEeCCCEE
Confidence            999999999999999999997 7999999999999 44

>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=6.4e-35  Score=248.28  Aligned_cols=179  Identities=21%  Similarity=0.324  Sum_probs=161.6

Q ss_pred             hccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhC-CCCC
Q 042723           31 IKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYG-EPMT  100 (262)
Q Consensus        31 v~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~-~~i~  100 (262)
                      +.+|+|+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.++..|++.++ .+++
T Consensus         6 ~~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T d1ryp1_           6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             cCCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCc
Confidence            3689999999999        5554 4666788999999999999999999999999999999999999998876 5788


Q ss_pred             HHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCC-CeEEEECCCCceeecCeEEECCChhhHHHHHHhhcC---
Q 042723          101 VESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENG-PSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN---  176 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~g-p~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~---  176 (262)
                      +..++++++..+  +..     +.|||++++||+|+|++| |+||.+||+|++.+++++|+|+|++++.++||+.|+   
T Consensus        86 ~~~~~~~~~~~~--~~~-----~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~  158 (222)
T d1ryp1_          86 INSAARNIQHLL--YGK-----RFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKN  158 (222)
T ss_dssp             HHHHHHHHHHHH--HTT-----TTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTT
T ss_pred             HHHHHHHHHHHH--Hhh-----hhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhcccc
Confidence            999998888777  333     458999999999999876 789999999999999999999999999999999997   


Q ss_pred             --------------CCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEE
Q 042723          177 --------------KDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHL  216 (262)
Q Consensus       177 --------------~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~  216 (262)
                                    ++|+++||++++++||+.+.++|+ ++++++|++|++| +++
T Consensus       159 ~~~~~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~iitkdGv~~  214 (222)
T d1ryp1_         159 QYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRK  214 (222)
T ss_dssp             CBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEE
T ss_pred             ccCcccchhhhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEeCCCEEE
Confidence                          689999999999999999999998 7899999999999 543

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.4e-34  Score=241.55  Aligned_cols=175  Identities=18%  Similarity=0.196  Sum_probs=160.6

Q ss_pred             hccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCH
Q 042723           31 IKLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTV  101 (262)
Q Consensus        31 v~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~  101 (262)
                      ..+|+|+|||+++        ++.+ +.++..++.+||+++ ++++++++|..+|++.+.++++.+++.|++.+++++++
T Consensus         5 ~~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1rypj_           5 SINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEP   83 (204)
T ss_dssp             GSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             ccCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcc
Confidence            3579999999999        5554 567778889999999 59999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-C-CeEEEECCCCceeec-CeEEECCChhhHHHHHHhhcCCC
Q 042723          102 ESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-G-PSLYYTDPSGTFWQC-NAKAIGSGSEGADSSLQEQYNKD  178 (262)
Q Consensus       102 ~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-g-p~Ly~iD~~G~~~~~-~~~a~G~gs~~a~~~Le~~~~~~  178 (262)
                      +.++++|++.+  |.++     .+||++++|++|+|+. | |+||.+||+|++.++ .++++|+|+.++.++|++.|+++
T Consensus        84 ~~la~~l~~~l--~~~~-----~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~  156 (204)
T d1rypj_          84 ETFTQLVSSSL--YERR-----FGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPN  156 (204)
T ss_dssp             HHHHHHHHHHH--HTTT-----TSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSS
T ss_pred             hHHHHHHHHHH--Hhhc-----ccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccC
Confidence            99999999998  4433     3799999999999964 4 899999999999877 58899999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC
Q 042723          179 LTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT  213 (262)
Q Consensus       179 ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~  213 (262)
                      |+++||++++++||..+.++|. ++++++|++|+++
T Consensus       157 ms~~ea~~l~~~al~~a~~~d~~sg~~~~v~ii~kd  192 (204)
T d1rypj_         157 LEPEDLFETISQALLNAADRDALSGWGAVVYIIKKD  192 (204)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESS
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCccCCeEEEEEEECC
Confidence            9999999999999999999997 8999999999999

>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=3.8e-34  Score=237.46  Aligned_cols=183  Identities=18%  Similarity=0.209  Sum_probs=169.4

Q ss_pred             CCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           34 GSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        34 G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      +||+|||+++        +|.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+..++.+++++.+
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            5899999999        5655 456667888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQE  183 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~ee  183 (262)
                      ++.+++.++.+.+     ..+|++++++++|+|++ +|+||.+||.|.+.+++++|+|+|+.++.++|++.|+++|+++|
T Consensus        81 ~~~l~~~~~~~~~-----~~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~e  155 (199)
T d1iruk_          81 ANFTRRNLADCLR-----SRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRER  155 (199)
T ss_dssp             HHHHHHHHHHHHT-----SSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHHHHhh-----ccCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHH
Confidence            9999999976655     45899999999999986 69999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEEcCHhH
Q 042723          184 AETIALSILKQVMEEKV-TPNNVDIARVAPT-YHLYTPSE  221 (262)
Q Consensus       184 a~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~~~~~e  221 (262)
                      |++++++||+.+.++|. ++++++|++|+++ ++.+++..
T Consensus       156 a~~l~~~al~~~~~~d~~sg~~~~v~vv~~~g~~~~~~~~  195 (199)
T d1iruk_         156 AVELLRKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNIS  195 (199)
T ss_dssp             HHHHHHHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBC
T ss_pred             HHHHHHHHHHHHHHhcCCcCCceEEEEEcCCCeEEcCCcc
Confidence            99999999999999997 8999999999999 98877654

>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=3.5e-33  Score=235.01  Aligned_cols=178  Identities=21%  Similarity=0.248  Sum_probs=163.9

Q ss_pred             ccCCcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHH
Q 042723           32 KLGSTAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVE  102 (262)
Q Consensus        32 ~~G~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~  102 (262)
                      .+|+|+|||+++        ++.+ +.++.+++.+||++|+++++++++|..+|++.+.++++.+++.++..++.++++.
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            589999999999        5555 4667788899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCC-CCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcC-----
Q 042723          103 STTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDEN-GPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN-----  176 (262)
Q Consensus       103 ~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~-gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~-----  176 (262)
                      .+++++++.++.+       ..+|++++++++|+|.+ +|.+|.+||.|++.+++++|+|+|+.++.++||+.|+     
T Consensus        87 ~~~~~~~~~~~~~-------~~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~  159 (213)
T d1iru1_          87 AIAAMLSTILYSR-------RFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQ  159 (213)
T ss_dssp             HHHHHHHHHHHTT-------TTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCS
T ss_pred             HHHHHHHHHHHHH-------HhhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchh
Confidence            9999999999654       34699999999999986 5899999999999999999999999999999998775     


Q ss_pred             ----CCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCC-eEE
Q 042723          177 ----KDLTLQEAETIALSILKQVMEEKV-TPNNVDIARVAPT-YHL  216 (262)
Q Consensus       177 ----~~ms~eea~~la~~al~~~~~~d~-s~~~iev~ii~k~-~~~  216 (262)
                          ++||++||++++++||..+.++|. ++++++|++|+++ ++.
T Consensus       160 ~~~~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G~~~  205 (213)
T d1iru1_         160 NVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIRE  205 (213)
T ss_dssp             SCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEE
T ss_pred             cccccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCCEEE
Confidence                689999999999999999999997 7899999999999 553

>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=99.81  E-value=6e-21  Score=156.05  Aligned_cols=165  Identities=16%  Similarity=0.079  Sum_probs=120.9

Q ss_pred             ccCCcEEEEeec--------cccC-CCCcCCC-ccCceEEEcC-cEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 042723           32 KLGSTAIGLKTK--------KRIT-SPLLEPS-SVEKIKEIDE-HIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMT  100 (262)
Q Consensus        32 ~~G~tiVgI~~~--------~~~~-~~l~~~~-~~~Ki~~I~~-~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~  100 (262)
                      -+|||+|||+++        +|++ ++++..+ ..+|++.+++ .++++.+|...|.+.+.+.++.+...++......  
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            479999999999        6765 4665555 5788999977 4888889999999999998887765553222111  


Q ss_pred             HHHHHHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCC
Q 042723          101 VESTTQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLT  180 (262)
Q Consensus       101 ~~~la~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms  180 (262)
                         +.............+.   ...++......+|++..++.++..++.|      +.|+|+|+.+|.++|++.|+++|+
T Consensus        81 ---~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~a~GSGs~~A~g~l~~~~~~~~s  148 (180)
T d2z3ba1          81 ---AVELAKEWRSDKVLRK---LEAMLIVMNQDTLLLVSGTGEVIEPDDG------ILAIGSGGNYALAAGRALKKHAGE  148 (180)
T ss_dssp             ---HHHHHHHHHHCTTGGG---CCCCEEEECSSCEEEECTTCCEECCSSS------EEEESTTHHHHHHHHHHHHHHHGG
T ss_pred             ---HHHHHHHHhHHHHHHH---hhcceeeeeccccccccCCceeeccccc------EEEEcCchHHHHHHHHHHhhcCCC
Confidence               1111111111111111   2235555555666666666666666655      789999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhccC-CCCcEEEEEE
Q 042723          181 LQEAETIALSILKQVMEEKV-TPNNVDIARV  210 (262)
Q Consensus       181 ~eea~~la~~al~~~~~~d~-s~~~iev~ii  210 (262)
                      .+||++++++||+.+.++|+ ++++++|..|
T Consensus       149 ~~eA~~l~~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         149 SMSASEIARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             GCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             ccCHHHHHHHHHHHHHhhcEEcCCcEEEEEe
Confidence            99999999999999999997 8999998876

>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=99.77  E-value=1.1e-18  Score=140.86  Aligned_cols=160  Identities=16%  Similarity=0.065  Sum_probs=122.8

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTT  105 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la  105 (262)
                      ||+|||+++        +|++ ++++.+++.+|+++|+++++++.+|..+|.+.+.+.+..+...+..  +   ......
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~--~---~~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWG--G---NLTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTT--T---CHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhh--c---cchhhH
Confidence            799999999        6765 6889999999999999999999999999999888777665544321  1   112222


Q ss_pred             HHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcC-CCCCHHHH
Q 042723          106 QALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYN-KDLTLQEA  184 (262)
Q Consensus       106 ~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~-~~ms~eea  184 (262)
                      ...+..+  ....      .++....++.+.+..+|+++..|+.|......+.|+|+|+.+|.+.|+..++ ++++   |
T Consensus        76 ~~~~~~~--~~~~------~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~---a  144 (171)
T d1m4ya_          76 VELAKDW--RTDR------VLRRLEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS---A  144 (171)
T ss_dssp             HHHHHHH--HHCT------TGGGCCCEEEEECSSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC---H
T ss_pred             HHHHHHH--HHhh------hhcccccccceecCCcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCCC---H
Confidence            2222222  1111      2333445555677788999999999999999999999999999999998765 4665   7


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEE
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARV  210 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii  210 (262)
                      .+++++||+.+.++|+ ++++++|-.|
T Consensus       145 ~el~~~Ai~~A~e~dvyTg~~~~i~~~  171 (171)
T d1m4ya_         145 REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHHHHHHHHHhhceEcCCcEEEEEC
Confidence            7799999999999997 9999988643

>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=99.74  E-value=8e-18  Score=136.14  Aligned_cols=161  Identities=17%  Similarity=0.081  Sum_probs=116.1

Q ss_pred             CcEEEEeec--------cccC-CCCcCCCccCceEEEcCcEEE-EEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Q 042723           35 STAIGLKTK--------KRIT-SPLLEPSSVEKIKEIDEHIGC-AMSGLIADARTLVEHARVETQNHRFSYGEPMTVEST  104 (262)
Q Consensus        35 ~tiVgI~~~--------~~~~-~~l~~~~~~~Ki~~I~~~i~~-~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~l  104 (262)
                      ||+|||+++        +|++ ++++.+++.+||++|++++++ +.+|...+.+.+.+..+.....      .+......
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEM------HQGHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHH------TTTCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHh------hcCcchhH
Confidence            789999999        6765 688889999999999887555 5555555544444433322211      12233333


Q ss_pred             HHHHHHHHHHhcCCCccCCCccceEEEEEEEEcCCCCeEEEECCCCceeecCeEEECCChhhHHHHHHhhcCCCCCHHHH
Q 042723          105 TQALCDLVLRFGEGDEESMSRPFGVSLLIAGSDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSLQEQYNKDLTLQEA  184 (262)
Q Consensus       105 a~~ls~~l~~~~~~~~~~~~rP~~vs~iiaG~d~~gp~Ly~iD~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea  184 (262)
                      +..++..+  +..+     ..+.....++++.+..+|.++..|+.|...+..+.|+|+|+.+|.+.|+.+++  ++.+||
T Consensus        75 ~~~~~~~~--~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A  145 (173)
T d1g3ka_          75 AVELAKDW--RTDR-----ALRKLEAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSA  145 (173)
T ss_dssp             HHHHHHHH--HHST-----TGGGCCCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCH
T ss_pred             HHHHHHHH--HHhh-----hhcccccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCH
Confidence            44444444  2222     23444555555555567999999999999999999999999999999998885  345579


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEE
Q 042723          185 ETIALSILKQVMEEKV-TPNNVDIARV  210 (262)
Q Consensus       185 ~~la~~al~~~~~~d~-s~~~iev~ii  210 (262)
                      .+++++||+.+.++|+ ++++++|-.|
T Consensus       146 ~ela~~Ai~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_         146 HEIVEKSLRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             HHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHHHHHHHHhhcEEcCCcEEEEEC
Confidence            9999999999999997 8999998765

>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=80.96  E-value=0.75  Score=27.45  Aligned_cols=34  Identities=18%  Similarity=0.121  Sum_probs=29.5

Q ss_pred             EECCChhhHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 042723          159 AIGSGSEGADSSLQEQYNKDLTLQEAETIALSIL  192 (262)
Q Consensus       159 a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al  192 (262)
                      +.|+....+...+.+...++++.|+.++.+++++
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            4688999999999999999999999888887754