Citrus Sinensis ID: 022125

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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-------270-------280-------290-------300--
Protein Sequence
MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIIQSHPVQWSKKWLKSQGHN
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccEEEEEEccEEEEEEccccccccEEEcccccEEEEEcccEEEEccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccEEEEEEEEEccccccccEEEEEEccccEEEccEEEEccHHHHHHHHHccccccccHHHHHHHHHHHHHHcccccccEEcEEEEEEcccEEEEEEEccccccccHHHHHHHHHHHcccccEEEEEEEccEEEEEEEccccHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccHHHHHHcccccEEccccccEEEEEEccEEEEEEcccEEEccEEEEcccccEEEEEccEEEEccEcHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccEEEEEEEEcccccccEEcccEEEEEEEcccccccccHHHHHHHHHHHHHHccccccccccEEEEEEEcccccEEccccHHHHHHHHHHHHHHHHHHHcccccEEEEEEEEEHccccccHHHHHHHHHHHHEEEEcccccHcHHHHHHcccc
Coil and Loop (DISEMBL)
mkldtsglestspffgsgdelcpelsaapsfslplstdfdeFQKDTKATLKHAKGTTTLAFIFKEGVMVAADsrasmggyissqSVKKIIEinpymlgtmaggaadCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTvkeggskehgsLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIIQSHPVQWSKKWLKSQGHN
Flexible Loop (DISEMBL)
mkldtsglestspffgSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATlkhakgtttlafIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIiqshpvqwSKKWLKSQGHN
Low Complexity Region (SEG)
MKLDTSGLESTSPFFGSGDELCPElsaapsfslplsTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVfcfafasliasllsclsVGCRVLGCIMWTVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIIQSHPVQWSKKWLKSQGHN
Disordered region (IsUnstruct)
***********************************************ATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIIQSHPVQWSKKWL******
Disordered Region (DISOPRED)
*KLD**********************************************KHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIIQSHPVQWSK**LK*****
Disordered Region (DISEMBL)
***********SPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIIQSHPVQWSKKWLKSQGHN
Disordered Region (DISPRO)
************************LSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIIQSHPVQWSKKWLKS****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVVLQAFIMWDQMDGRSCLVMMLESFTTIIIQSHPVQWSKKWLKSQGHN
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	302	2.2.26 [Sep-21-2011]
Q9LIP2	273	Proteasome subunit beta t	yes	no	0.536	0.593	0.841	2e-74
O23717	274	Proteasome subunit beta t	no	no	0.536	0.591	0.829	3e-74
O24361	272	Proteasome subunit beta t	N/A	no	0.536	0.595	0.839	7e-74
Q32KL2	263	Proteasome subunit beta t	yes	no	0.410	0.471	0.614	3e-41
P28075	263	Proteasome subunit beta t	yes	no	0.410	0.471	0.614	7e-41
O55234	264	Proteasome subunit beta t	yes	no	0.410	0.469	0.614	1e-40
Q5R8S2	263	Proteasome subunit beta t	yes	no	0.354	0.406	0.719	1e-40
P28074	263	Proteasome subunit beta t	no	no	0.354	0.406	0.719	1e-40
Q54BC8	272	Proteasome subunit beta t	yes	no	0.549	0.610	0.471	2e-40
P30656	287	Proteasome subunit beta t	yes	no	0.450	0.473	0.566	1e-37

>sp|Q9LIP2|PSB5B_ARATH Proteasome subunit beta type-5-B OS=Arabidopsis thaliana GN=PBE2 PE=1 SV=1

 Score =  279 bits (714), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 138/164 (84%), Positives = 145/164 (88%), Gaps = 2/164 (1%)

Query: 1   MKLDTSGLESTSPF--FGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTT 58
           MKLDTSGLE+T P   FGS  E+    S+APSF LP +TDFD FQK     +K AKGTTT
Sbjct: 1   MKLDTSGLETTMPVIGFGSNSEMLDGFSSAPSFDLPRTTDFDGFQKKAVEMVKPAKGTTT 60

Query: 59  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
           LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC
Sbjct: 61  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 120

Query: 119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDET
Sbjct: 121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDET 164

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|O23717|PSB5A_ARATH Proteasome subunit beta type-5-A OS=Arabidopsis thaliana GN=PBE1 PE=1 SV=1

 Score =  278 bits (712), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 136/164 (82%), Positives = 145/164 (88%), Gaps = 2/164 (1%)

Query: 1   MKLDTSGLESTSPF--FGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTT 58
           MKLDTSG E++ P   FGS  ++  ELS+ PSF LP + +FD FQK  K  LKHAKGTTT
Sbjct: 1   MKLDTSGFETSMPMIGFGSSSDMLDELSSVPSFDLPRTKEFDGFQKKAKDMLKHAKGTTT 60

Query: 59  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
           LAFIFK GVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC
Sbjct: 61  LAFIFKGGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 120

Query: 119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDET
Sbjct: 121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDET 164

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O24361|PSB5_SPIOL Proteasome subunit beta type-5 OS=Spinacia oleracea PE=2 SV=1

 Score =  277 bits (708), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 136/162 (83%), Positives = 141/162 (87%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDTSGLEST+P F   D +   L   PSF LP  TDFD FQK+    +K AKGTTTLA
Sbjct: 1   MKLDTSGLESTAPIFRRSDFVFDGLQMTPSFDLPNPTDFDGFQKEAVQMVKPAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFK GVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKHGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           HELANKRRISVTGASKLLANILY+YRGMGLSVGTMIAGWDET
Sbjct: 121 HELANKRRISVTGASKLLANILYNYRGMGLSVGTMIAGWDET 162

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

Spinacia oleracea (taxid: 3562)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q32KL2|PSB5_BOVIN Proteasome subunit beta type-5 OS=Bos taurus GN=PSMB5 PE=1 SV=1

 Score =  169 bits (427), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 83/135 (61%), Positives = 104/135 (77%), Gaps = 11/135 (8%)

Query: 27  AAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSV 86
           AAPS+ +P         ++ +  + H  GTTTLAF F+ GV+VAADSRA+ G YI+SQ+V
Sbjct: 42  AAPSWGVP---------EEPRIEILH--GTTTLAFKFRHGVIVAADSRATAGAYIASQTV 90

Query: 87  KKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR 146
           KK+IEINPY+LGTMAGGAADC FW R L  +CR++EL NK RISV  ASKLLAN++Y Y+
Sbjct: 91  KKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYK 150

Query: 147 GMGLSVGTMIAGWDE 161
           GMGLS+GTMI GWD+
Sbjct: 151 GMGLSMGTMICGWDK 165

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity (By similarity). This unit is responsible of the chymotrypsin-like activity of the proteasome and is one of the principal target of the proteasome inhibitor bortezomib (By similarity). Plays a role in the protection against oxidative damage through the Nrf2-ARE pathway.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P28075|PSB5_RAT Proteasome subunit beta type-5 OS=Rattus norvegicus GN=Psmb5 PE=1 SV=3

 Score =  167 bits (424), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 83/135 (61%), Positives = 104/135 (77%), Gaps = 11/135 (8%)

Query: 27  AAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSV 86
           AAPS+ +P         ++ +  + H  GTTTLAF F+ GV+VAADSRA+ G YI+SQ+V
Sbjct: 42  AAPSWGVP---------EEPRIEMLH--GTTTLAFKFQHGVIVAADSRATAGPYIASQTV 90

Query: 87  KKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR 146
           KK+IEINPY+LGTMAGGAADC FW R L  +CR++EL NK RISV  ASKLLAN++Y Y+
Sbjct: 91  KKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYK 150

Query: 147 GMGLSVGTMIAGWDE 161
           GMGLS+GTMI GWD+
Sbjct: 151 GMGLSMGTMICGWDK 165

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. This unit is responsible of the chymotrypsin-like activity of the proteasome and is one of the principal target of the proteasome inhibitor bortezomib (By similarity). Plays a role in the protection against oxidative damage through the Nrf2-ARE pathway.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O55234|PSB5_MOUSE Proteasome subunit beta type-5 OS=Mus musculus GN=Psmb5 PE=1 SV=3

 Score =  166 bits (421), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 83/135 (61%), Positives = 103/135 (76%), Gaps = 11/135 (8%)

Query: 27  AAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSV 86
           AAPS+ +P         ++ +  + H  GTTTLAF F  GV+VAADSRA+ G YI+SQ+V
Sbjct: 42  AAPSWGVP---------EEPRIEMLH--GTTTLAFKFLHGVIVAADSRATAGAYIASQTV 90

Query: 87  KKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR 146
           KK+IEINPY+LGTMAGGAADC FW R L  +CR++EL NK RISV  ASKLLAN++Y Y+
Sbjct: 91  KKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYK 150

Query: 147 GMGLSVGTMIAGWDE 161
           GMGLS+GTMI GWD+
Sbjct: 151 GMGLSMGTMICGWDK 165

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. This unit is responsible of the chymotrypsin-like activity of the proteasome and is one of the principal target of the proteasome inhibitor bortezomib (By similarity). Plays a role in the protection against oxidative damage through the Nrf2-ARE pathway.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q5R8S2|PSB5_PONAB Proteasome subunit beta type-5 OS=Pongo abelii GN=PSMB5 PE=2 SV=3

 Score =  166 bits (421), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct: 59  GTTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
             +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct: 119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity (By similarity). This unit is responsible of the chymotrypsin-like activity of the proteasome and is one of the principal target of the proteasome inhibitor bortezomib (By similarity). Plays a role in the protection against oxidative damage through the Nrf2-ARE pathway.

Pongo abelii (taxid: 9601)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P28074|PSB5_HUMAN Proteasome subunit beta type-5 OS=Homo sapiens GN=PSMB5 PE=1 SV=3

 Score =  166 bits (421), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct: 59  GTTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
             +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct: 119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity. This unit is responsible of the chymotrypsin-like activity of the proteasome and is one of the principal target of the proteasome inhibitor bortezomib. May catalyze basal processing of intracellular antigens. Plays a role in the protection against oxidative damage through the Nrf2-ARE pathway.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q54BC8|PSB5_DICDI Proteasome subunit beta type-5 OS=Dictyostelium discoideum GN=psmB5 PE=1 SV=1

 Score =  166 bits (419), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 83/176 (47%), Positives = 117/176 (66%), Gaps = 10/176 (5%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELS--AAPSFSLPLSTDFDEFQKDT------KATLKH 52
           + +D   +E + P     D L  ++     P F LP + +  +F ++T         L+ 
Sbjct: 2   INIDFDNIEQSQPTLY--DTLASDVKFLNTPHFELPPNANPGDFLRETFDHPSAPKALEF 59

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           A GTTTLAF++  G++V+ DS+++ G Y++S+SVKK+IEI P +LGTMAGGAADC FW R
Sbjct: 60  AHGTTTLAFVYGGGIIVSVDSKSTQGPYVASRSVKKVIEITPTLLGTMAGGAADCSFWER 119

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMF 168
            LG +CRL+EL NK  ISV  ASK+LANI+YSY+G GLS+GTMI GWD+T  +  +
Sbjct: 120 ELGRRCRLYELRNKELISVAAASKILANIVYSYKGYGLSMGTMITGWDKTGPQLYY 175

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

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P30656|PSB5_YEAST Proteasome subunit beta type-5 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PRE2 PE=1 SV=3

 Score =  157 bits (397), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 81/143 (56%), Positives = 103/143 (72%), Gaps = 7/143 (4%)

Query: 21  LCPELS----AAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRAS 76
           L P L+    A+P   L   TD D    D K  + H  GTTTLAF F+ G++VA DSRA+
Sbjct: 40  LAPSLTVPPIASPQQFLRAHTD-DSRNPDCKIKIAH--GTTTLAFRFQGGIIVAVDSRAT 96

Query: 77  MGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASK 136
            G +++SQ+VKK+IEINP++LGTMAGGAADCQFW   LG +CRLHEL  K RISV  ASK
Sbjct: 97  AGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASK 156

Query: 137 LLANILYSYRGMGLSVGTMIAGW 159
           +L+N++Y Y+G GLS+GTMI G+
Sbjct: 157 ILSNLVYQYKGAGLSMGTMICGY 179

This subunit is necessary for chymotryptic activity and degradation of ubiquitinated proteins.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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	302
227937349	272	20S proteasome beta subunit 5 [Citrus ma	0.536	0.595	1.0	3e-90
225425821	272	PREDICTED: proteasome subunit beta type-	0.536	0.595	0.882	9e-77
255547772	249	proteasome subunit beta type 5,8, putati	0.536	0.650	0.847	5e-75
224102305	265	predicted protein [Populus trichocarpa]	0.536	0.611	0.846	2e-73
449452891	272	PREDICTED: proteasome subunit beta type-	0.536	0.595	0.833	4e-73
297844202	274	hypothetical protein ARALYDRAFT_471459 [	0.536	0.591	0.829	9e-73
15231544	273	proteasome subunit beta type-5-B [Arabid	0.536	0.593	0.841	1e-72
15222152	274	proteasome subunit beta type-5-A [Arabid	0.536	0.591	0.829	2e-72
15292875	274	putative proteasome epsilon chain precur	0.536	0.591	0.829	2e-72
3914430	272	RecName: Full=Proteasome subunit beta ty	0.536	0.595	0.839	4e-72

>gi|227937349|gb|ACP43315.1| 20S proteasome beta subunit 5 [Citrus maxima]

 Score =  337 bits (865), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 162/162 (100%), Positives = 162/162 (100%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA
Sbjct: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET
Sbjct: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162

Source: Citrus maxima

Species: Citrus maxima

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225425821|ref|XP_002264828.1| PREDICTED: proteasome subunit beta type-5 [Vitis vinifera] gi|297738390|emb|CBI27591.3| unnamed protein product [Vitis vinifera]

 Score =  293 bits (749), Expect = 9e-77,   Method: Compositional matrix adjust.
 Identities = 143/162 (88%), Positives = 146/162 (90%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDTSGLEST P FG+  EL    SAAPSF LP +TDFD FQKD    +K AKGTTTLA
Sbjct: 1   MKLDTSGLESTVPLFGANSELLGGFSAAPSFELPNTTDFDGFQKDAIQMVKPAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET
Sbjct: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547772|ref|XP_002514943.1| proteasome subunit beta type 5,8, putative [Ricinus communis] gi|223545994|gb|EEF47497.1| proteasome subunit beta type 5,8, putative [Ricinus communis]

 Score =  286 bits (733), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 139/164 (84%), Positives = 147/164 (89%), Gaps = 2/164 (1%)

Query: 1   MKLDTSGLESTSPFFG--SGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTT 58
           MKLDTSG EST+P FG  S  E+    SA  SF LP+++DFD FQ + K TLKHAKGTTT
Sbjct: 1   MKLDTSGFESTAPLFGASSSSEMVNGFSAPASFELPVTSDFDGFQSEAKQTLKHAKGTTT 60

Query: 59  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
           LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC
Sbjct: 61  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 120

Query: 119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           RLHELANKRRISVTGASKLLANILY+YRGMGLSVGTM+AGWDET
Sbjct: 121 RLHELANKRRISVTGASKLLANILYNYRGMGLSVGTMVAGWDET 164

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102305|ref|XP_002312631.1| predicted protein [Populus trichocarpa] gi|222852451|gb|EEE89998.1| predicted protein [Populus trichocarpa]

 Score =  281 bits (720), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 138/163 (84%), Positives = 146/163 (89%), Gaps = 1/163 (0%)

Query: 1   MKLDTSGLESTSPFFGS-GDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTL 59
           MK DTSGLEST+  FG+ G EL    SAAP+F LP +TDFD FQK+    +K AKGTTTL
Sbjct: 1   MKFDTSGLESTASVFGTAGSELVDGFSAAPAFELPTTTDFDGFQKEAVQMVKPAKGTTTL 60

Query: 60  AFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCR 119
           AFIFK+GV+VAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCR
Sbjct: 61  AFIFKDGVIVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCR 120

Query: 120 LHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           LHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET
Sbjct: 121 LHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 163

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452891|ref|XP_004144192.1| PREDICTED: proteasome subunit beta type-5-like [Cucumis sativus] gi|449529978|ref|XP_004171974.1| PREDICTED: proteasome subunit beta type-5-like [Cucumis sativus]

 Score =  281 bits (718), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 135/162 (83%), Positives = 144/162 (88%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDTSGL++T+P FG   E     +AAPSF +P S+DFD FQKD    +K AKGTTTLA
Sbjct: 1   MKLDTSGLQTTAPLFGPTMEAMEGFAAAPSFEIPNSSDFDGFQKDAIQMVKPAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG+KCRL
Sbjct: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGVKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           H+LANKRRISV GASKLLANILYSYRGMGLSVGTMIAGWDET
Sbjct: 121 HKLANKRRISVAGASKLLANILYSYRGMGLSVGTMIAGWDET 162

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297844202|ref|XP_002889982.1| hypothetical protein ARALYDRAFT_471459 [Arabidopsis lyrata subsp. lyrata] gi|297335824|gb|EFH66241.1| hypothetical protein ARALYDRAFT_471459 [Arabidopsis lyrata subsp. lyrata]

 Score =  279 bits (714), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 136/164 (82%), Positives = 146/164 (89%), Gaps = 2/164 (1%)

Query: 1   MKLDTSGLESTSPF--FGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTT 58
           MKLDTSG E++ P   FGS  ++  ELS+ PSF LP + +FD FQK+ K  LKHAKGTTT
Sbjct: 1   MKLDTSGFETSMPMIGFGSSSDMLDELSSVPSFDLPRTKEFDGFQKEAKDMLKHAKGTTT 60

Query: 59  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
           LAFIFK GVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC
Sbjct: 61  LAFIFKGGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 120

Query: 119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDET
Sbjct: 121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDET 164

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15231544|ref|NP_189265.1| proteasome subunit beta type-5-B [Arabidopsis thaliana] gi|75273433|sp|Q9LIP2.1|PSB5B_ARATH RecName: Full=Proteasome subunit beta type-5-B; AltName: Full=20S proteasome beta subunit E-2; AltName: Full=Proteasome epsilon-2 chain; Flags: Precursor gi|16612308|gb|AAL27514.1|AF439846_1 AT3g26340/F20C19_6 [Arabidopsis thaliana] gi|9294292|dbj|BAB02194.1| proteasome epsilon chain precursor [Arabidopsis thaliana] gi|21553804|gb|AAM62897.1| 26S proteasome beta subunit, putative [Arabidopsis thaliana] gi|21928101|gb|AAM78079.1| AT3g26340/F20C19_6 [Arabidopsis thaliana] gi|332643626|gb|AEE77147.1| proteasome subunit beta type-5-B [Arabidopsis thaliana]

 Score =  279 bits (714), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 138/164 (84%), Positives = 145/164 (88%), Gaps = 2/164 (1%)

Query: 1   MKLDTSGLESTSPF--FGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTT 58
           MKLDTSGLE+T P   FGS  E+    S+APSF LP +TDFD FQK     +K AKGTTT
Sbjct: 1   MKLDTSGLETTMPVIGFGSNSEMLDGFSSAPSFDLPRTTDFDGFQKKAVEMVKPAKGTTT 60

Query: 59  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
           LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC
Sbjct: 61  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 120

Query: 119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDET
Sbjct: 121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDET 164

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222152|ref|NP_172765.1| proteasome subunit beta type-5-A [Arabidopsis thaliana] gi|3914425|sp|O23717.1|PSB5A_ARATH RecName: Full=Proteasome subunit beta type-5-A; AltName: Full=20S proteasome beta subunit E-1; AltName: Full=Proteasome component E; AltName: Full=Proteasome epsilon-1 chain; Flags: Precursor gi|4850389|gb|AAD31059.1|AC007357_8 Identical to gb|Y13695 multicatalytic endopeptidase complex, proteasome precursor, beta subunit (prce) from Arabidopsis thaliana. ESTs gb|Y09360, gb|F13852, gb|T20555, gb|T44620, gb|AI099779 and gb|AA586183 come from this gene [Arabidopsis thaliana] gi|13194776|gb|AAK15550.1|AF348579_1 putative proteasome epsilon chain precursor [Arabidopsis thaliana] gi|2511596|emb|CAA74029.1| multicatalytic endopeptidase complex, proteasome precursor, beta subunit [Arabidopsis thaliana] gi|3421117|gb|AAC32072.1| 20S proteasome beta subunit PBE1 [Arabidopsis thaliana] gi|23297641|gb|AAN12998.1| proteasome epsilon chain precursor [Arabidopsis thaliana] gi|332190844|gb|AEE28965.1| proteasome subunit beta type-5-A [Arabidopsis thaliana]

 Score =  278 bits (712), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 136/164 (82%), Positives = 145/164 (88%), Gaps = 2/164 (1%)

Query: 1   MKLDTSGLESTSPF--FGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTT 58
           MKLDTSG E++ P   FGS  ++  ELS+ PSF LP + +FD FQK  K  LKHAKGTTT
Sbjct: 1   MKLDTSGFETSMPMIGFGSSSDMLDELSSVPSFDLPRTKEFDGFQKKAKDMLKHAKGTTT 60

Query: 59  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
           LAFIFK GVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC
Sbjct: 61  LAFIFKGGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 120

Query: 119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDET
Sbjct: 121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDET 164

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15292875|gb|AAK92808.1| putative proteasome epsilon chain precursor [Arabidopsis thaliana]

 Score =  278 bits (711), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 136/164 (82%), Positives = 145/164 (88%), Gaps = 2/164 (1%)

Query: 1   MKLDTSGLESTSPF--FGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTT 58
           MKLDTSG E++ P   FGS  ++  ELS+ PSF LP + +FD FQK  K  LKHAKGTTT
Sbjct: 1   MKLDTSGFETSMPMIGFGSSSDVLDELSSVPSFDLPRTKEFDGFQKKAKDMLKHAKGTTT 60

Query: 59  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
           LAFIFK GVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC
Sbjct: 61  LAFIFKGGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 120

Query: 119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDET
Sbjct: 121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDET 164

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3914430|sp|O24361.1|PSB5_SPIOL RecName: Full=Proteasome subunit beta type-5; AltName: Full=20S proteasome subunit E; AltName: Full=Proteasome epsilon chain; Flags: Precursor gi|2285800|dbj|BAA21650.1| 26S proteasome beta subunit [Spinacia oleracea]

 Score =  277 bits (708), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 136/162 (83%), Positives = 141/162 (87%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDTSGLEST+P F   D +   L   PSF LP  TDFD FQK+    +K AKGTTTLA
Sbjct: 1   MKLDTSGLESTAPIFRRSDFVFDGLQMTPSFDLPNPTDFDGFQKEAVQMVKPAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFK GVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKHGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           HELANKRRISVTGASKLLANILY+YRGMGLSVGTMIAGWDET
Sbjct: 121 HELANKRRISVTGASKLLANILYNYRGMGLSVGTMIAGWDET 162

Source: Spinacia oleracea

Species: Spinacia oleracea

Genus: Spinacia

Family: Amaranthaceae

Order: Caryophyllales

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	302
TAIR|locus:2079241	273	AT3G26340 [Arabidopsis thalian	0.536	0.593	0.798	1.6e-63
UNIPROTKB|Q32KL2	263	PSMB5 "Proteasome subunit beta	0.354	0.406	0.719	7.8e-39
UNIPROTKB|H0YJM8	118	PSMB5 "Proteasome subunit beta	0.354	0.906	0.719	7.8e-39
UNIPROTKB|P28074	263	PSMB5 "Proteasome subunit beta	0.354	0.406	0.719	7.8e-39
UNIPROTKB|Q5R8S2	263	PSMB5 "Proteasome subunit beta	0.354	0.406	0.719	7.8e-39
UNIPROTKB|E2R3R2	263	PSMB5 "Proteasome subunit beta	0.354	0.406	0.719	9.9e-39
RGD|61879	263	Psmb5 "proteasome (prosome, ma	0.354	0.406	0.719	1.6e-38
UNIPROTKB|P28075	263	Psmb5 "Proteasome subunit beta	0.354	0.406	0.719	1.6e-38
UNIPROTKB|F1S9C9	263	LOC100155139 "Proteasome subun	0.354	0.406	0.719	2.1e-38
MGI|MGI:1194513	264	Psmb5 "proteasome (prosome, ma	0.354	0.405	0.719	2.1e-38

TAIR|locus:2079241 AT3G26340 [Arabidopsis thaliana (taxid:3702)]

 Score = 648 (233.2 bits), Expect = 1.6e-63, P = 1.6e-63
 Identities = 131/164 (79%), Positives = 136/164 (82%)

Query:     1 MKLDTSGLESTSPF--FGSGDELCPEXXXXXXXXXXXXTDFDEFQKDTKATLKHAKGTTT 58
             MKLDTSGLE+T P   FGS  E+               TDFD FQK     +K AKGTTT
Sbjct:     1 MKLDTSGLETTMPVIGFGSNSEMLDGFSSAPSFDLPRTTDFDGFQKKAVEMVKPAKGTTT 60

Query:    59 LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
             LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC
Sbjct:    61 LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 120

Query:   119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
             RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDET
Sbjct:   121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDET 164

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

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

GO:0005634 "nucleus" evidence=ISM

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

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

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

GO:0000502 "proteasome complex" evidence=IDA

UNIPROTKB|Q32KL2 PSMB5 "Proteasome subunit beta type-5" [Bos taurus (taxid:9913)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:    59 GTTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0006979 "response to oxidative stress" evidence=IEA

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

UNIPROTKB|H0YJM8 PSMB5 "Proteasome subunit beta type-5" [Homo sapiens (taxid:9606)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:     8 GTTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 67

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:    68 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 114

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

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|P28074 PSMB5 "Proteasome subunit beta type-5" [Homo sapiens (taxid:9606)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:    59 GTTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

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

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

GO:0006979 "response to oxidative stress" evidence=IEA

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:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q5R8S2 PSMB5 "Proteasome subunit beta type-5" [Pongo abelii (taxid:9601)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:    59 GTTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

GO:0005839 "proteasome core complex" evidence=ISS

UNIPROTKB|E2R3R2 PSMB5 "Proteasome subunit beta type" [Canis lupus familiaris (taxid:9615)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:    59 GTTTLAFKFQHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0006979 "response to oxidative stress" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

RGD|61879 Psmb5 "proteasome (prosome, macropain) subunit, beta type 5" [Rattus norvegicus (taxid:10116)]

 Score = 412 (150.1 bits), Expect = 1.6e-38, P = 1.6e-38
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:    59 GTTTLAFKFQHGVIVAADSRATAGPYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0006979 "response to oxidative stress" evidence=IEA;ISO

GO:0008233 "peptidase activity" evidence=ISO

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IEA;ISO

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

UNIPROTKB|P28075 Psmb5 "Proteasome subunit beta type-5" [Rattus norvegicus (taxid:10116)]

 Score = 412 (150.1 bits), Expect = 1.6e-38, P = 1.6e-38
 Identities = 77/107 (71%), Positives = 92/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:    59 GTTTLAFKFQHGVIVAADSRATAGPYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|F1S9C9 LOC100155139 "Proteasome subunit beta type" [Sus scrofa (taxid:9823)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 77/107 (71%), Positives = 91/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F  GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:    59 GTTTLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

GO:0005839 "proteasome core complex" evidence=IEA

MGI|MGI:1194513 Psmb5 "proteasome (prosome, macropain) subunit, beta type 5" [Mus musculus (taxid:10090)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 77/107 (71%), Positives = 91/107 (85%)

Query:    55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
             GTTTLAF F  GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L
Sbjct:    59 GTTTLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 118

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 165

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:0006979 "response to oxidative stress" evidence=IDA

GO:0008233 "peptidase activity" evidence=IDA

GO:0016787 "hydrolase activity" evidence=IEA

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

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q5R8S2	PSB5_PONAB	3, ., 4, ., 2, 5, ., 1	0.7196	0.3543	0.4068	yes	no
Q9LIP2	PSB5B_ARATH	3, ., 4, ., 2, 5, ., 1	0.8414	0.5364	0.5934	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	0.946
3rd Layer	3.4.25	0.963

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00035048001	RecName- Full=Proteasome subunit beta 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) (272 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00010470001	SubName- Full=Chromosome chr17 scaffold_263, whole genome shotgun sequence; (386 aa)				•	•	•			0.974
	GSVIVG00014791001	SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_1, whole genome shotg [...] (309 aa)				•	•	•	•		0.972
	GSVIVG00015420001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (191 aa)				•	•	•	•	•	0.969
	GSVIVG00024499001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (245 aa)			•	•	•	•	•	•	0.968
	GSVIVG00036762001	SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (440 aa)				•	•	•	•		0.966
	GSVIVG00023752001	SubName- Full=Putative uncharacterized protein (Chromosome chr7 scaffold_31, whole genome shotg [...] (205 aa)			•	•	•	•	•	•	0.959
	GSVIVG00030725001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (250 aa)			•	•	•	•	•	•	0.940
	GSVIVG00026350001	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (223 aa)				•	•	•	•	•	0.928
	GSVIVG00007080001	RecName- Full=Proteasome subunit alpha type; EC=3.4.25.1;; The proteasome is a multicatalytic p [...] (250 aa)			•	•	•	•	•	•	0.889
	GSVIVG00023345001	RecName- Full=Proteasome subunit alpha type; EC=3.4.25.1;; The proteasome is a multicatalytic p [...] (249 aa)			•	•	•	•	•		0.888

---

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	302
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	3e-74
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	1e-56
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	2e-45
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	4e-37
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	1e-35
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	4e-32
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	4e-31
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	9e-31
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	2e-26
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	5e-16
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	2e-14
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	4e-11
cd03760	197	cd03760, proteasome_beta_type_4, proteasome beta t	7e-09
cd03759	195	cd03759, proteasome_beta_type_3, proteasome beta t	1e-06
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	3e-06
TIGR03690	219	TIGR03690, 20S_bact_beta, proteasome, beta subunit	5e-06
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	3e-04
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	0.002

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

 Score =  225 bits (576), Expect = 3e-74
 Identities = 79/107 (73%), Positives = 94/107 (87%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAFIF+ GV+VA DSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADCQ+W R LG
Sbjct: 1   TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLG 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
            +CRL+EL NK RISV  ASKLL+N+LY Y+GMGLS+GTMI GWD+T
Sbjct: 61  RECRLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDKT 107

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

 Score =  182 bits (464), Expect = 1e-56
 Identities = 72/118 (61%), Positives = 93/118 (78%)

Query: 45  DTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGA 104
           D    ++ A GTTTLAF +  G+++A DS+A+ G YI+SQSVKK+IEINP +LGTMAGGA
Sbjct: 29  DANKAIEFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGA 88

Query: 105 ADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           ADC FW R L ++CRL+EL N   ISV  ASK+LANI+++Y+GMGLS+GTMI GWD+ 
Sbjct: 89  ADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKK 146

Length = 247

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

 Score =  151 bits (385), Expect = 2e-45
 Identities = 47/106 (44%), Positives = 66/106 (62%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +    K+GV++AAD+RAS G  ++S++  KI +I+  +L   AG AAD Q   R L 
Sbjct: 1   TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLK 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
              RL+EL N R +SV  A+ LL+NILYSYRG    V  ++ G D+
Sbjct: 61  RNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDK 106

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  130 bits (329), Expect = 4e-37
 Identities = 41/117 (35%), Positives = 63/117 (53%), Gaps = 2/117 (1%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +    K+GV++AAD R + G  ++S +V+KI +I+ ++    AG AAD Q     L 
Sbjct: 1   TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDETVREFMFQV 170
            + +L+ L     I V   +KLLAN+LY Y      L V  ++AG DE     ++ V
Sbjct: 61  KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSV 117

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

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

 Score =  126 bits (319), Expect = 1e-35
 Identities = 42/122 (34%), Positives = 62/122 (50%), Gaps = 6/122 (4%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYI-SSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
            GTT +    K+GV++AAD RA+ G  + S  +V+KI +I+ ++    AG AAD Q    
Sbjct: 3   TGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLVD 62

Query: 113 NLGIKCRLHELANKRRISVTG----ASKLLANILYSYRGMGLSVGTMIAGWDETVREFMF 168
               + +L+ L   R ISV      A KL A   YS R     V  +IAG+DE     ++
Sbjct: 63  YARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRP-YGVSLLIAGYDEDGGPHLY 121

Query: 169 QV 170
            +
Sbjct: 122 SI 123

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

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

 Score =  118 bits (299), Expect = 4e-32
 Identities = 42/110 (38%), Positives = 63/110 (57%), Gaps = 2/110 (1%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            GTTT+    K+GV++AAD RA+ G  I+S +V+KI +I+ ++   +AG AAD Q   R 
Sbjct: 29  GGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRY 88

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRG--MGLSVGTMIAGWDE 161
              + +L+ L     ISV   +KLL+NIL  Y        V  ++AG D+
Sbjct: 89  ARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDD 138

Length = 236

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

 Score =  114 bits (288), Expect = 4e-31
 Identities = 44/108 (40%), Positives = 66/108 (61%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTTT+    K+GV++AAD RASMG +++S++ KK+ +I+ Y+  T+AG   D Q   R L
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
             + +L+EL   R +SV   + LL+NIL S R     V  ++ G DE 
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVDEE 108

This protein family describes the archaeal proteasome beta subunit, homologous to both the alpha subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 185

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

 Score =  113 bits (286), Expect = 9e-31
 Identities = 45/107 (42%), Positives = 66/107 (61%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTT+  + K+GV++AAD RASMG +I+S++VKKI +I+  +  T+AG   D Q   R L 
Sbjct: 1   TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILK 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
            + RL+EL   R +S+   + LL+NIL S +     V  +I G DE 
Sbjct: 61  AEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQLLIGGVDEE 107

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|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 =  102 bits (255), Expect = 2e-26
 Identities = 37/108 (34%), Positives = 53/108 (49%), Gaps = 1/108 (0%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           +T++A   K GV++AAD R S G  ++   V KI +    +   +AG AAD Q   R L 
Sbjct: 1   STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMG-LSVGTMIAGWDET 162
              +L+ L     ISV   +K LA +L  Y       V  ++AG DE 
Sbjct: 61  EALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEG 108

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

 Score = 74.2 bits (183), Expect = 5e-16
 Identities = 35/111 (31%), Positives = 58/111 (52%), Gaps = 9/111 (8%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  +  GV++ ADSR S G Y++++   K+ +++  +    +G AAD Q     + 
Sbjct: 1   TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQ----AIA 56

Query: 116 IKCR----LHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
              R    +H +       V  A+ L  N+ Y+Y+ M LS G ++AGWDE 
Sbjct: 57  DYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYKEM-LSAGIIVAGWDEQ 106

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

 Score = 70.3 bits (173), Expect = 2e-14
 Identities = 35/109 (32%), Positives = 56/109 (51%), Gaps = 5/109 (4%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINP--YMLGTMAGGAADCQFWHRN 113
           TT +  +FK+GV++ AD+RA+ G  ++ ++ +KI  I P  Y  G  AG AAD +     
Sbjct: 1   TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCG--AGTAADTEAVTNM 58

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           +     LH L   R+  V  A  +L   L+ Y+G  +    ++ G D T
Sbjct: 59  ISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQGH-IGAALVLGGVDYT 106

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

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

 Score = 61.1 bits (149), Expect = 4e-11
 Identities = 30/107 (28%), Positives = 54/107 (50%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G T LA    +  ++A D+R S G  I S+   KI ++    +   +G  AD     + L
Sbjct: 8   GGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL 67

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
             + ++++ ++ + +S    ++LL+ ILYS R     V  ++AG DE
Sbjct: 68  KARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGIDE 114

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|239729 cd03760, proteasome_beta_type_4, proteasome beta type-4 subunit

 Score = 54.1 bits (131), Expect = 7e-09
 Identities = 27/93 (29%), Positives = 46/93 (49%), Gaps = 1/93 (1%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GT+ +A  +K+GV++AAD+  S G     ++V++I ++    L   +G  AD Q+  R L
Sbjct: 2   GTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLL 61

Query: 115 GIKCRLHE-LANKRRISVTGASKLLANILYSYR 146
                  E L +   +S       L  +LY+ R
Sbjct: 62  DQLVIDDECLDDGHSLSPKEIHSYLTRVLYNRR 94

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

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

 Score = 48.0 bits (115), Expect = 1e-06
 Identities = 30/112 (26%), Positives = 50/112 (44%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G   +A   K+ V +A+D R  +     S   +K+  I   +   +AG A D Q   + L
Sbjct: 3   GGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKL 62

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREF 166
             +  L+ L  +R I     S L++++LY  R     V  ++AG D   + F
Sbjct: 63  RFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPF 114

The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each. Length = 195

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

 Score = 46.7 bits (112), Expect = 3e-06
 Identities = 31/127 (24%), Positives = 56/127 (44%), Gaps = 17/127 (13%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G+T +    K+GV++A + + +    +   SV+KI +I+ ++   +AG  AD     R 
Sbjct: 26  NGSTAVGIKGKDGVVLAVEKKVT-SKLLDPSSVEKIFKIDDHIGCAVAGLTADA----RV 80

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETV 163
           L  + R+    +       I V    K +A++          R  G  V  +IAG+DE  
Sbjct: 81  LVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFG--VSLLIAGYDEEG 138

Query: 164 REFMFQV 170
              ++Q 
Sbjct: 139 GPQLYQT 145

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

 Score = 46.2 bits (110), Expect = 5e-06
 Identities = 35/122 (28%), Positives = 58/122 (47%), Gaps = 19/122 (15%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTT +A  +  GV++A D RA+ G  I+S+ V+K+   + Y    +AG A         L
Sbjct: 2   GTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAG--------L 53

Query: 115 GIK-CRLH--ELANKRRI-----SVTGASKLLANILYSYRGM---GLSVGTMIAGWDETV 163
            I+  RL   EL +  +I     ++ G +  LA ++         GL+V  ++AG+D   
Sbjct: 54  AIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDA 113

Query: 164 RE 165
             
Sbjct: 114 GA 115

Members of this family are the beta subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In Streptomyces, maturation during proteasome assembly was shown to remove a 53-amino acid propeptide. Most of the length of the propeptide is not included in this model [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 219

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

 Score = 41.1 bits (97), Expect = 3e-04
 Identities = 32/125 (25%), Positives = 58/125 (46%), Gaps = 18/125 (14%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +GTT +    K+GV++A D R +    +   S++KI +I+ ++    +G  AD     R 
Sbjct: 28  RGTTAVGIKTKDGVVLAVDKRIT-SKLVEPSSIEKIFKIDDHIGAATSGLVADA----RV 82

Query: 114 LGIKCRLHELANKRR----ISVTGASKLLANILYSY------RGMGLSVGTMIAGWDETV 163
           L  + R+    N+      I V   +K + ++   Y      R  G+++  +IAG D+  
Sbjct: 83  LIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVAL--LIAGVDDGG 140

Query: 164 -REFM 167
            R F 
Sbjct: 141 PRLFE 145

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 = 38.5 bits (90), Expect = 0.002
 Identities = 31/120 (25%), Positives = 56/120 (46%), Gaps = 17/120 (14%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +GTT L    KEGV++A D R +    +  +S++KI +I+ ++    +G  AD     R 
Sbjct: 27  RGTTALGIKCKEGVVLAVDKRIT-SKLVEPESIEKIYKIDDHVGAATSGLVADA----RV 81

Query: 114 LGIKCRLHELANKRR----ISVTGASKLLANILYSY------RGMGLSVGTMIAGWDETV 163
           L  + R+    ++      I V    K + ++   Y      R  G+++  +IAG D+  
Sbjct: 82  LIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVAL--LIAGVDDGG 139

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	302
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	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
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	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
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	99.98
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	99.96
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	99.96
KOG0178	249	consensus 20S proteasome, regulatory subunit alpha	99.95
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	99.95
KOG0181	233	consensus 20S proteasome, regulatory subunit alpha	99.95
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.95
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.94
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	99.94
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.94
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	99.94
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.93
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	99.92
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	99.9
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.08
COG3484	255	Predicted proteasome-type protease [Posttranslatio	98.41
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	89.02

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

Probab=100.00  E-value=4.5e-42  Score=313.02  Aligned_cols=198  Identities=47%  Similarity=0.705  Sum_probs=185.4

Q ss_pred             CCCCCCCCcchhHhhh------hhhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecCh
Q 022125           31 FSLPLSTDFDEFQKDT------KATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGA  104 (302)
Q Consensus        31 ~~~p~~~~~~~~~~~~------~~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~  104 (302)
                      +++|+..+|.+|++..      .....+.+|||++|+||++|||+|+|+|+|.|++|.+++++||++||++++.++||.+
T Consensus        41 ~~~P~~~~p~~~l~~~~~~~~~~~~i~~~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgA  120 (285)
T KOG0175|consen   41 LALPPGESPQTFLFAITDDETAGVLIKFAHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGA  120 (285)
T ss_pred             ccCCCCCCchhhhhhccCCCcccceeeecCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcc
Confidence            8899999999999742      2255789999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccc-cc-ce
Q 022125          105 ADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASL-IA-SL  182 (302)
Q Consensus       105 aD~q~l~~~lr~e~~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~-~~-~~  182 (302)
                      ||||+|.+.|.++|++|+++|++.|+|.+++++|||++|+||++.+.++++|||||+.||+|||+|    +-|+ .. +.
T Consensus       121 ADCqfWer~L~kecRL~eLRnkeriSVsaASKllsN~~y~YkGmGLsmGtMi~G~Dk~GP~lyYVD----seG~Rl~G~~  196 (285)
T KOG0175|consen  121 ADCQFWERVLAKECRLHELRNKERISVSAASKLLSNMVYQYKGMGLSMGTMIAGWDKKGPGLYYVD----SEGTRLSGDL  196 (285)
T ss_pred             hhhHHHHHHHHHHHHHHHHhcCcceehHHHHHHHHHHHhhccCcchhheeeEeeccCCCCceEEEc----CCCCEecCce
Confidence            999999999999999999999999999999999999999999999999999999999999999985    4444 43 89


Q ss_pred             eEecchhhhHHHHHHhhccCCCCHHHHhhhh------------------hhhccccccccccchhhHH
Q 022125          183 LSCLSVGCRVLGCIMWTVKEGGSKEHGSLWD------------------QVHHMLMVYWTAGTSLTCL  232 (302)
Q Consensus       183 ~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l~------------------~~~~~~~~~w~~~~~~~~l  232 (302)
                      .+.|||+.+++|+|+..||+|||.+||..|.                  .|+|+.+.+|....-.||-
T Consensus       197 FSVGSGs~yAYGVLDsgYr~dls~eEA~~L~rrAI~hAThRDaySGG~vnlyHv~edGW~~v~~~Dv~  264 (285)
T KOG0175|consen  197 FSVGSGSTYAYGVLDSGYRYDLSDEEAYDLARRAIYHATHRDAYSGGVVNLYHVKEDGWVKVSNTDVS  264 (285)
T ss_pred             EeecCCCceeEEeeccCCCCCCCHHHHHHHHHHHHHHHHhcccccCceEEEEEECCccceecCCccHH
Confidence            9999999999999999999999999999997                  6899999999998888886

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=1.5e-37  Score=274.89  Aligned_cols=154  Identities=55%  Similarity=0.834  Sum_probs=146.6

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.+.+.++.+++.+|||+|++|+++++||+.+|++.+++++|.+++.|+++++++|+++.+|
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            69999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +++++++|.+|++||+|++||||||++||+||++|   +.|+... ++.++|+|+.+++++||+.|+|+||.+||+.+
T Consensus        81 ~~ls~~l~~~~~~~~~v~~li~G~D~~g~~L~~~d---p~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  155 (188)
T cd03761          81 KLLSNMLYQYKGMGLSMGTMICGWDKTGPGLYYVD---SDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDL  155 (188)
T ss_pred             HHHHHHHHhcCCCCeEEEEEEEEEeCCCCEEEEEc---CCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHH
Confidence            99999999999999999999999999999999986   3555554 89999999999999999999999999999833

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

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=3.8e-37  Score=284.50  Aligned_cols=182  Identities=44%  Similarity=0.713  Sum_probs=166.2

Q ss_pred             CCCCCCCCCCCcchhHhhhh----h---hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEE
Q 022125           28 APSFSLPLSTDFDEFQKDTK----A---TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTM  100 (302)
Q Consensus        28 ~~~~~~p~~~~~~~~~~~~~----~---~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~  100 (302)
                      +-.|+.|+...|.+|+.+..    +   ...+.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~   84 (247)
T PTZ00488          5 PEHFEHPPGAHPGDFLAEYTFDHGDANKAIEFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTM   84 (247)
T ss_pred             ccccccCCCCCHHHHHHHhhhccccCCcccccCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEe
Confidence            34688888888988887521    1   3378899999999999999999999999999999999999999999999999


Q ss_pred             ecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc
Q 022125          101 AGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA  180 (302)
Q Consensus       101 SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~  180 (302)
                      ||+.+|++.+++++|.+++.|++++|++|+++.+|++|++++|.+|..|+.+++||||||++||+||++|   +.|+...
T Consensus        85 sG~~aD~~~l~~~lr~~~~~y~~~~g~~isv~~la~~ls~~l~~~R~~~~~v~~iiaG~D~~gp~Ly~vD---p~Gs~~~  161 (247)
T PTZ00488         85 AGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKGPGLFYVD---NDGTRLH  161 (247)
T ss_pred             CcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeeEEEEEEEEeCCCCEEEEEc---CCcceee
Confidence            9999999999999999999999999999999999999999999999888999999999999999999986   3555554


Q ss_pred             -ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          181 -SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       181 -~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                       +++++|+|+.+++++||+.|++|||.+||+.+
T Consensus       162 ~~~~a~G~gs~~~~~~Le~~~k~dms~eEai~l  194 (247)
T PTZ00488        162 GNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDL  194 (247)
T ss_pred             cCCEEEccCHHHHHHHHHhcCcCCCCHHHHHHH
Confidence             89999999999999999999999999999843

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=1.7e-37  Score=279.71  Aligned_cols=161  Identities=22%  Similarity=0.193  Sum_probs=151.0

Q ss_pred             cchhHhhhhhhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHH
Q 022125           39 FDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC  118 (302)
Q Consensus        39 ~~~~~~~~~~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~  118 (302)
                      |+||.         ++|+|+|||+++||||||+|+|.+++.++.+++.+||++|++++++++||..+|++.+.+.++.++
T Consensus         1 ~~~~~---------~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~   71 (212)
T cd03757           1 FSPYT---------DNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARI   71 (212)
T ss_pred             CCCcc---------CCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHH
Confidence            78888         899999999999999999999999999898999999999999999999999999999999999999


Q ss_pred             HHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHH
Q 022125          119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCI  196 (302)
Q Consensus       119 ~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~L  196 (302)
                      +.|++++|++|+++.+|+++++++|.+|.+||++++||||||++ ||+||++|   ++|.... +++++|+|+.+++++|
T Consensus        72 ~~~~~~~g~~i~~~~la~~ls~~ly~~R~~P~~~~~iiaG~D~~~~p~Ly~~D---~~G~~~~~~~~a~G~g~~~~~~~L  148 (212)
T cd03757          72 KMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSYD---PVGSYERETYSAGGSASSLIQPLL  148 (212)
T ss_pred             HHHhHHhCCCCCHHHHHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCEEEEEEc---CccCeeecCEEEEeecHHHHHHHH
Confidence            99999999999999999999999999988999999999999975 69999986   3454444 9999999999999999


Q ss_pred             Hhhcc---------CCCCHHHHhh
Q 022125          197 MWTVK---------EGGSKEHGSL  211 (302)
Q Consensus       197 e~~yk---------~dmS~eEAi~  211 (302)
                      |+.|+         |+||++||+.
T Consensus       149 e~~~~~~~~~~~~~~~ms~eea~~  172 (212)
T cd03757         149 DNQVGRKNQNNVERTPLSLEEAVS  172 (212)
T ss_pred             HHHHHhhccCcCCCCCCCHHHHHH
Confidence            99986         9999999983

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

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

Probab=100.00  E-value=2.5e-37  Score=283.80  Aligned_cols=162  Identities=30%  Similarity=0.260  Sum_probs=152.6

Q ss_pred             hcccccC-ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC
Q 022125           49 TLKHAKG-TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR  127 (302)
Q Consensus        49 ~~av~~G-tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~  127 (302)
                      .+++.+| +|+|||+++||||||+|+|.+++.++.+++++|||+|+|||+|++||+.+|+|.++++++.+++.|++++|+
T Consensus        23 ~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~aDa~~lv~~~r~~a~~~~~~~~~  102 (236)
T COG0638          23 LEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGE  102 (236)
T ss_pred             HHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcHhHHHHHHHHHHHHHHHHHHhCC
Confidence            4566665 999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHccC--CCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCC
Q 022125          128 RISVTGASKLLANILYSYRG--MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGG  204 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~R~--rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dm  204 (302)
                      +|+++.+++++++++|.+++  |||+|++||||+|++||+||.+|   |+|+... ++.++|+|+.+++++||+.|+++|
T Consensus       103 ~i~v~~la~~ls~~l~~~~~~~rP~gv~~iiaG~d~~~p~Ly~~D---p~G~~~~~~~~a~Gsgs~~a~~~Le~~y~~~m  179 (236)
T COG0638         103 PISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDDGGPRLYSTD---PSGSYNEYKATAIGSGSQFAYGFLEKEYREDL  179 (236)
T ss_pred             CCCHHHHHHHHHHHHHHhccCcccceEEEEEEEEcCCCCeEEEEC---CCCceeecCEEEEcCCcHHHHHHHHhhccCCC
Confidence            99999999999999999999  99999999999999889999997   4566665 799999999999999999999999


Q ss_pred             CHHHHhhhh
Q 022125          205 SKEHGSLWD  213 (302)
Q Consensus       205 S~eEAi~l~  213 (302)
                      +.+||+.+.
T Consensus       180 ~~eeai~la  188 (236)
T COG0638         180 SLEEAIELA  188 (236)
T ss_pred             CHHHHHHHH
Confidence            999999665

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=4.9e-37  Score=272.99  Aligned_cols=156  Identities=19%  Similarity=0.156  Sum_probs=145.4

Q ss_pred             cCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHH
Q 022125           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (302)
Q Consensus        54 ~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~  133 (302)
                      +|+|+|||+++||||||+|+|.+.+.++.+++.+|||+|++|+++++||..+|++.+++++|.+++.|+++++++|+++.
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            69999999999999999999999888777888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHccCCCceeeEeEEEEcCC-CceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          134 ASKLLANILYSYRGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       134 lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +|++|++++|.+|.+||+|++||||||++ ||+||++|   ++|+...  +++++|+|+.+++++||+.|+|+||.+||+
T Consensus        82 la~~l~~~ly~~r~~P~~v~~ii~G~D~~~~p~Ly~~D---~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~  158 (195)
T cd03759          82 FSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMD---LIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELF  158 (195)
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEEEEcCCCCEEEEEEc---CCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHHH
Confidence            99999999999999999999999999965 69999986   3555443  599999999999999999999999999998


Q ss_pred             hh
Q 022125          211 LW  212 (302)
Q Consensus       211 ~l  212 (302)
                      .+
T Consensus       159 ~l  160 (195)
T cd03759         159 ET  160 (195)
T ss_pred             HH
Confidence            43

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=9.8e-37  Score=267.69  Aligned_cols=155  Identities=32%  Similarity=0.387  Sum_probs=147.8

Q ss_pred             CceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHH
Q 022125           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (302)
Q Consensus        55 GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~l  134 (302)
                      |+|+|||+++||||||+|+|.++|+++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+.+++++++++.+
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          135 SKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       135 Ak~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      |++|++++|.++.|||+|++||||||++||+||++|   +.|.... ++.++|+++.+++++||+.|+|+||++||+.+
T Consensus        81 a~~l~~~~~~~~~rP~~v~~ivaG~d~~g~~Ly~~d---~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l  156 (185)
T TIGR03634        81 ATLLSNILNSNRFFPFIVQLLVGGVDEEGPHLYSLD---PAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKL  156 (185)
T ss_pred             HHHHHHHHHhcCCCCeEEEEEEEEEeCCCCEEEEEC---CCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHH
Confidence            999999999999999999999999999999999986   3555554 89999999999999999999999999999833

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.

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=2.9e-36  Score=274.07  Aligned_cols=158  Identities=17%  Similarity=0.166  Sum_probs=148.9

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+ ++++.+++.+||++|++|+++++||..+|++.+++.+|.+++.|++++|++
T Consensus        21 ~~av~~G~t~igik~~dgVvlaad~~~~-~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~   99 (227)
T cd03750          21 LAAVSSGAPSVGIKAANGVVLATEKKVP-SPLIDESSVHKVEQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEP   99 (227)
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEeecCC-ccccCCCCcceEEEEcCCEEEEEeEcHHhHHHHHHHHHHHHHHHHHHHCCC
Confidence            7899999999999999999999999998 788999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHc--c--CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSY--R--GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~--R--~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      |+++.++++|++++|.+  +  .|||+|++||+|||++||+||.+|   +.|+... +++++|+|+.+++++||+.|+++
T Consensus       100 ~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~g~~Ly~~d---~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  176 (227)
T cd03750         100 IPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVD---PSGSYFTWKATAIGKNYSNAKTFLEKRYNED  176 (227)
T ss_pred             CCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCCCCEEEEEC---CCCCEEeeeEEEECCCCHHHHHHHHhhccCC
Confidence            99999999999999765  3  489999999999998899999986   3555554 89999999999999999999999


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      ||++||+
T Consensus       177 ms~eeai  183 (227)
T cd03750         177 LELEDAI  183 (227)
T ss_pred             CCHHHHH
Confidence            9999998

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=4.3e-36  Score=270.32  Aligned_cols=160  Identities=16%  Similarity=0.130  Sum_probs=148.6

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+.+.++.+++.+||++|++++++++||..+|++.+.+++|.+++.|+++++++
T Consensus        23 ~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~  102 (213)
T cd03752          23 MEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEP  102 (213)
T ss_pred             HHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHhHHHHHHHHHHHHHHHHHHHCCC
Confidence            67999999999999999999999999998877777899999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHc----cCCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSY----RGMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~----R~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      |+++.+|++|+.+++.+    +.|||+|++||+|||+ .||+||.+|   +.|.... +++++|+++.+++++||+.|+|
T Consensus       103 i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d---~~G~~~~~~~~a~G~gs~~~~~~Le~~y~~  179 (213)
T cd03752         103 IPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSD---PSGNYSGWKATAIGNNNQAAQSLLKQDYKD  179 (213)
T ss_pred             CCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEEC---CCCCeeeeeEEEECCCcHHHHHHHHHhccC
Confidence            99999999999998776    3489999999999995 699999986   3555544 8999999999999999999999


Q ss_pred             CCCHHHHhh
Q 022125          203 GGSKEHGSL  211 (302)
Q Consensus       203 dmS~eEAi~  211 (302)
                      |||++||++
T Consensus       180 ~ms~eea~~  188 (213)
T cd03752         180 DMTLEEALA  188 (213)
T ss_pred             CCCHHHHHH
Confidence            999999983

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

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=3.8e-36  Score=271.41  Aligned_cols=158  Identities=11%  Similarity=0.015  Sum_probs=148.1

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..+|++.+.+++|.+++.|++++|++
T Consensus        24 ~~a~~~G~tvIgik~kdgVvla~d~r~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~  102 (212)
T cd03751          24 NKAVENSGTAIGIRCKDGVVLAVEKLVT-SKLYEPGSNKRIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTP  102 (212)
T ss_pred             HHHHhcCCCEEEEEeCCEEEEEEEcccc-ccccCcchhcceeEecCcEEEEEEEChHhHHHHHHHHHHHHHHHHHHHCCC
Confidence            7899999999999999999999999998 577777899999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.++++|+++++.++    .|||+|++||||+|++||+||.+|   +.|+... ++.++|+++.+++++||+.|++|
T Consensus       103 ~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~gp~Ly~~D---~~Gs~~~~~~~a~G~g~~~a~~~Lek~~~~d  179 (212)
T cd03751         103 IPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIE---PSGVSYGYFGCAIGKGKQAAKTELEKLKFSE  179 (212)
T ss_pred             CCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCCcCEEEEEC---CCCCEEeeEEEEECCCCHHHHHHHHHhccCC
Confidence            999999999999998863    489999999999998899999986   3566555 89999999999999999999999


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      ||++||+
T Consensus       180 ms~eeai  186 (212)
T cd03751         180 LTCREAV  186 (212)
T ss_pred             CCHHHHH
Confidence            9999998

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

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=7.3e-36  Score=265.61  Aligned_cols=155  Identities=20%  Similarity=0.210  Sum_probs=144.2

Q ss_pred             cCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHH-HhhHhhCCcCCHH
Q 022125           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCR-LHELANKRRISVT  132 (302)
Q Consensus        54 ~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~-~y~l~~g~~isv~  132 (302)
                      .|+|+|||+++||||||+|+|.+++.++.+++.+|||+|+++++++++|..+|++.+++++|.+++ .|+++++++|+++
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            489999999999999999999998999999999999999999999999999999999999999987 5668899999999


Q ss_pred             HHHHHHHHHHHHcc--CCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC--CCCH
Q 022125          133 GASKLLANILYSYR--GMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE--GGSK  206 (302)
Q Consensus       133 ~lAk~Ls~~ly~~R--~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~--dmS~  206 (302)
                      .+|+++++++|.+|  .|||+|++||||||+ .||+||++|   ++|.... ++.++|+++.+++++||+.|++  +||+
T Consensus        81 ~la~~i~~~~y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D---~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~  157 (197)
T cd03760          81 EIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEGEPFLGYVD---LLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTE  157 (197)
T ss_pred             HHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCEEEEEEc---CCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCH
Confidence            99999999999886  589999999999997 689999986   3455444 8999999999999999999999  9999


Q ss_pred             HHHhh
Q 022125          207 EHGSL  211 (302)
Q Consensus       207 eEAi~  211 (302)
                      +||+.
T Consensus       158 eea~~  162 (197)
T cd03760         158 EEARA  162 (197)
T ss_pred             HHHHH
Confidence            99983

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=5.3e-36  Score=268.62  Aligned_cols=159  Identities=17%  Similarity=0.197  Sum_probs=147.2

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||+.+|++.+.+++|.+++.|+++++++
T Consensus        21 ~~av~~G~t~Igik~~dgVvlaad~~~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~   99 (207)
T cd03755          21 QEAVRKGTTAVGVRGKDCVVLGVEKKSV-AKLQDPRTVRKICMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDP   99 (207)
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEecCCC-CcccCCCccCcEEEECCCEEEEEecchhhHHHHHHHHHHHHHHHHHHHCCC
Confidence            7899999999999999999999999976 567888889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      |+++.+++++++++|.++    .|||+|++||||||++ ||+||++|   +.|+... +++++|+++.+++++||+.|+|
T Consensus       100 i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD---~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~  176 (207)
T cd03755         100 VTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTD---PSGTYSAWKANAIGRNSKTVREFLEKNYKE  176 (207)
T ss_pred             CCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEEC---CCcCEEcceEEEECCCCHHHHHHHHhhccC
Confidence            999999999999997662    4799999999999975 99999986   3555554 8999999999999999999999


Q ss_pred             CCCHHHHhh
Q 022125          203 GGSKEHGSL  211 (302)
Q Consensus       203 dmS~eEAi~  211 (302)
                      +||.+||+.
T Consensus       177 ~ms~eeai~  185 (207)
T cd03755         177 EMTRDDTIK  185 (207)
T ss_pred             CCCHHHHHH
Confidence            999999993

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=2e-35  Score=260.26  Aligned_cols=154  Identities=34%  Similarity=0.387  Sum_probs=146.2

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.++|+++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+++++++++++.++
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +++++++|.++.|||+|++||||+|++||+||.+|   +.|+... ++.++|+|+.+++++|++.|+++||.+||+++
T Consensus        81 ~~i~~~~~~~~~~P~~~~~lvaG~d~~~~~ly~~D---~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l  155 (188)
T cd03764          81 TLLSNILNSSKYFPYIVQLLIGGVDEEGPHLYSLD---PLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKL  155 (188)
T ss_pred             HHHHHHHHhcCCCCcEEEEEEEEEeCCCCEEEEEC---CCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHH
Confidence            99999999999999999999999999899999986   3555554 89999999999999999999999999999833

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.

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=1.1e-35  Score=267.13  Aligned_cols=158  Identities=22%  Similarity=0.217  Sum_probs=148.4

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..+|++.+.+.++.+++.|+++++++
T Consensus        22 ~~av~~G~t~igik~~dgvvla~d~~~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~  100 (211)
T cd03756          22 REAVKRGTTALGIKCKEGVVLAVDKRIT-SKLVEPESIEKIYKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEP  100 (211)
T ss_pred             HHHHHcCCCEEEEEECCEEEEEEeccCC-CcccCCCccceEEEEcCCEEEEEecCHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            7789999999999999999999999998 678888899999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHc----cCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSY----RGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~----R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.++++++++++.+    +.|||++++||||+|+.||+||.+|   +.|.+.. +++++|+++.+++++|++.|+|+
T Consensus       101 ~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~~~ly~vd---~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  177 (211)
T cd03756         101 IDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETD---PSGAYNEYKATAIGSGRQAVTEFLEKEYKED  177 (211)
T ss_pred             CCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCCCCEEEEEC---CCCCeeeeEEEEECCCCHHHHHHHHhhccCC
Confidence            99999999999999776    3489999999999999999999986   3555554 89999999999999999999999


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      |+.+||+
T Consensus       178 m~~~ea~  184 (211)
T cd03756         178 MSLEEAI  184 (211)
T ss_pred             CCHHHHH
Confidence            9999998

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=2.1e-35  Score=262.36  Aligned_cols=153  Identities=18%  Similarity=0.147  Sum_probs=143.1

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.+.|.++.+++++|||+|++++++++||..||++.++++++.+++.|++.++++++++.++
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            79999999999999999999989999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHc-cC-CCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhh
Q 022125          136 KLLANILYSY-RG-MGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSL  211 (302)
Q Consensus       136 k~Ls~~ly~~-R~-rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~  211 (302)
                      +++++++|.+ |. |||++++||||||+ .||+||++|   ++|.... ++.++|+|+.+++++||+.|+|+||.+||+.
T Consensus        82 ~~l~~~~~~~~~~~rP~~~~~li~G~d~~~~p~Ly~~d---~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~  158 (193)
T cd03758          82 NFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYID---YLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALE  158 (193)
T ss_pred             HHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCcEEEEEC---CCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHH
Confidence            9999999765 33 69999999999996 689999986   3555554 8999999999999999999999999999993

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.

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=5.5e-35  Score=264.73  Aligned_cols=155  Identities=21%  Similarity=0.221  Sum_probs=145.1

Q ss_pred             cCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHH
Q 022125           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (302)
Q Consensus        54 ~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~  133 (302)
                      +|+|+|||+++||||||+|+|.+.|+++.+++.+|||+|++|+++++||..+|++.+.+++|.+++.|+++++++|+++.
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            49999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcc---CCCceeeEeEEEEcC--CCceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCH
Q 022125          134 ASKLLANILYSYR---GMGLSVGTMIAGWDE--TVREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSK  206 (302)
Q Consensus       134 lAk~Ls~~ly~~R---~rP~~vs~IIaG~D~--~Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~  206 (302)
                      +|++|++++|.++   .|||+|++||||||+  .||+||.+|   ++|+.+.  +++++|+|+.+++++||+.|+++||.
T Consensus        81 la~~ls~~~~~~~~~~~rp~~v~~iiaG~D~~~~~~~Ly~~D---p~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~  157 (219)
T TIGR03690        81 KANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAGRIFSYD---VTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDE  157 (219)
T ss_pred             HHHHHHHHHHhhhhhccCCceEEEEEEEECCCCCCcEEEEEe---CCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCH
Confidence            9999999998763   589999999999996  479999987   4565563  79999999999999999999999999


Q ss_pred             HHHhh
Q 022125          207 EHGSL  211 (302)
Q Consensus       207 eEAi~  211 (302)
                      +||+.
T Consensus       158 eeai~  162 (219)
T TIGR03690       158 DDALR  162 (219)
T ss_pred             HHHHH
Confidence            99983

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.

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=7.3e-35  Score=257.42  Aligned_cols=152  Identities=24%  Similarity=0.309  Sum_probs=143.5

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.+.|.++.+++.+|||+|+++++++++|..+|++.+.+.++.+++.|+++++++++++.+|
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSL  211 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~  211 (302)
                      ++|++++|.++. ||+|++||||||++||+||.+|   +.|+... ++.++|+++.+++++|++.|+|+||++||+.
T Consensus        81 ~~l~~~l~~~~~-p~~v~~ivaG~d~~g~~ly~~d---~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~  153 (189)
T cd03763          81 TMLKQHLFRYQG-HIGAALVLGGVDYTGPHLYSIY---PHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKK  153 (189)
T ss_pred             HHHHHHHHHcCC-ccceeEEEEeEcCCCCEEEEEC---CCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHH
Confidence            999999998765 9999999999999899999986   3455554 8999999999999999999999999999983

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=7.6e-35  Score=256.58  Aligned_cols=153  Identities=26%  Similarity=0.339  Sum_probs=143.1

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++++++++||..+|++.+.+.++.+++.|+++++++++++.+|
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +++++++|.+| +||+|++||||+|+ +||+||++|   +.|.... ++++.|+++.+++++|++.|+|+||++||+.+
T Consensus        81 ~~l~~~~~~~~-~~~~~~~ii~G~d~~~gp~ly~~d---~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l  155 (188)
T cd03762          81 SLFKNLCYNYK-EMLSAGIIVAGWDEQNGGQVYSIP---LGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKF  155 (188)
T ss_pred             HHHHHHHHhcc-ccceeeEEEEEEcCCCCcEEEEEC---CCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHH
Confidence            99999999987 68999999999996 689999985   3444444 89999999999999999999999999999943

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=4.9e-35  Score=263.19  Aligned_cols=160  Identities=18%  Similarity=0.216  Sum_probs=148.2

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..+|++.+.+.++.+++.|+++++++
T Consensus        21 ~~a~~~G~t~igik~~dgVvlaad~r~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~   99 (213)
T cd03753          21 IEAIKLGSTAIGIKTKEGVVLAVEKRIT-SPLMEPSSVEKIMEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEP   99 (213)
T ss_pred             HHHHhcCCCEEEEEeCCEEEEEEecccC-CcCcCCCccceEEEEcCCEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            7899999999999999999999999998 467778889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc---------CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHh
Q 022125          129 ISVTGASKLLANILYSYR---------GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMW  198 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R---------~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~  198 (302)
                      |+++.+++++++++|.++         .|||+|++||||||++||+||.+|   +.|.... ++.++|++++++.++|++
T Consensus       100 i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~gp~Ly~vd---~~G~~~~~~~~a~G~~~~~~~~~L~~  176 (213)
T cd03753         100 MTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTD---PSGTFTRCDAKAIGSGSEGAQSSLQE  176 (213)
T ss_pred             CCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCCCCEEEEEC---CCCCeecccEEEECCCcHHHHHHHHh
Confidence            999999999999998753         389999999999999999999986   3455444 899999999999999999


Q ss_pred             hccCCCCHHHHhhh
Q 022125          199 TVKEGGSKEHGSLW  212 (302)
Q Consensus       199 ~yk~dmS~eEAi~l  212 (302)
                      .|+++||++||+++
T Consensus       177 ~~~~~ls~eeai~l  190 (213)
T cd03753         177 KYHKDMTLEEAEKL  190 (213)
T ss_pred             hccCCCCHHHHHHH
Confidence            99999999999944

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=8.9e-35  Score=261.81  Aligned_cols=158  Identities=19%  Similarity=0.140  Sum_probs=143.8

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+.+ +  .++.+||++|++++++++||+.+|++.+.++++.+++.|+++++++
T Consensus        21 ~~av~~G~t~IgIk~~dgVvlaad~r~~~~-l--~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~   97 (211)
T cd03749          21 MEAVKQGSATVGLKSKTHAVLVALKRATSE-L--SSYQKKIFKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSP   97 (211)
T ss_pred             HHHHhcCCCEEEEEeCCEEEEEEeccCccc-c--CCccccEEEeCCCEEEEEEeChHhHHHHHHHHHHHHHHHHHHhCCC
Confidence            689999999999999999999999998744 3  4567999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHc----cCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc--
Q 022125          129 ISVTGASKLLANILYSY----RGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK--  201 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~----R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk--  201 (302)
                      |+++.+|+.+++++|.+    +.|||+|++||+|||++||+||++|   +.|.... ++.++|+++.+++++||+.|+  
T Consensus        98 ~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~gp~Ly~~D---p~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~  174 (211)
T cd03749          98 IPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTC---PSGNYFEYKATSIGARSQSARTYLERHFEEF  174 (211)
T ss_pred             CCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCCCeEEEEC---CCcCEeeeeEEEECCCcHHHHHHHHHhhccc
Confidence            99999999999998865    3589999999999998899999986   3455544 899999999999999999999  


Q ss_pred             CCCCHHHHhhh
Q 022125          202 EGGSKEHGSLW  212 (302)
Q Consensus       202 ~dmS~eEAi~l  212 (302)
                      ++||++|++++
T Consensus       175 ~~ms~ee~i~~  185 (211)
T cd03749         175 EDCSLEELIKH  185 (211)
T ss_pred             cCCCHHHHHHH
Confidence            69999999843

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

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=1.2e-34  Score=262.58  Aligned_cols=158  Identities=20%  Similarity=0.226  Sum_probs=148.4

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..+|++.+.+.++.++..|+++++++
T Consensus        23 ~~av~~G~tvigi~~~dgvvlaad~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  101 (224)
T TIGR03633        23 REAVKRGTTAVGIKTKDGVVLAVDKRIT-SKLVEPSSIEKIFKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEP  101 (224)
T ss_pred             HHHHHcCCCEEEEEECCEEEEEEeccCC-ccccCCCccceEEEECCCEEEEEeecHHhHHHHHHHHHHHHHHHHHHHCCC
Confidence            6799999999999999999999999998 778888999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+|++|++++|.++    .|||+|++||||+|+.||+||.+|   +.|+... +++++|+++.+++++|++.|+|+
T Consensus       102 ~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~~~~~Ly~~D---~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~  178 (224)
T TIGR03633       102 IDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETD---PSGALLEYKATAIGAGRQAVTEFLEKEYRED  178 (224)
T ss_pred             CCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeCCcCEEEEEC---CCCCeecceEEEECCCCHHHHHHHHHhccCC
Confidence            999999999999997763    479999999999998899999986   3555554 89999999999999999999999


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      |+.+||+
T Consensus       179 ~~~eeai  185 (224)
T TIGR03633       179 LSLDEAI  185 (224)
T ss_pred             CCHHHHH
Confidence            9999998

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.

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=1.7e-34  Score=258.76  Aligned_cols=158  Identities=18%  Similarity=0.168  Sum_probs=146.3

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+++++|+|+|||+++||||+|+|+|.+. .++..++.+||++|+++++++++|..+|++.+.+.++.+++.|++++|++
T Consensus        21 ~~~~~~G~tvigi~~~dgVvlaaD~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~g~~   99 (209)
T cd01911          21 LEAVKNGSTAVGIKGKDGVVLAVEKKVTS-KLLDPSSVEKIFKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEP   99 (209)
T ss_pred             HHHHHcCCCEEEEEECCEEEEEEEecCCc-cccCCcccceEEEecCCeEEEeccCcHhHHHHHHHHHHHHHHHHHHhCCC
Confidence            67899999999999999999999999995 56777899999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHc----cCCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSY----RGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~----R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      |+++.+|++++++++.+    +.|||+|++||+|+|++ ||+||.+|   +.|+... +++++|+++.+++++|++.|+|
T Consensus       100 ~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD---~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~  176 (209)
T cd01911         100 IPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTD---PSGTYFGYKATAIGKGSQEAKTFLEKRYKK  176 (209)
T ss_pred             CCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEEC---CCCCeeeeeEEEeCCCcHHHHHHHHHhccc
Confidence            99999999999999765    24799999999999976 99999986   3555554 8999999999999999999999


Q ss_pred             CCCHHHHh
Q 022125          203 GGSKEHGS  210 (302)
Q Consensus       203 dmS~eEAi  210 (302)
                      +||.+||+
T Consensus       177 ~ms~~ea~  184 (209)
T cd01911         177 DLTLEEAI  184 (209)
T ss_pred             CCCHHHHH
Confidence            99999998

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=2e-34  Score=263.95  Aligned_cols=160  Identities=21%  Similarity=0.208  Sum_probs=149.6

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..+|++.++++++.+++.|+++++++
T Consensus        30 ~~av~~G~t~igik~~dgVvlaad~r~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  108 (241)
T PRK03996         30 REAVKRGTTAVGVKTKDGVVLAVDKRIT-SPLIEPSSIEKIFKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEP  108 (241)
T ss_pred             HHHHHhCCCEEEEEeCCEEEEEEeccCC-CcccCCCccceEEEEcCCEEEEEcccHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            6899999999999999999999999999 778888999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+|+++++++|.++    .|||+|++||||+|++||+||.+|   +.|.... +++++|+++.+++++|++.|+++
T Consensus       109 i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~gp~Ly~id---~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  185 (241)
T PRK03996        109 IGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETD---PSGAYLEYKATAIGAGRDTVMEFLEKNYKED  185 (241)
T ss_pred             CCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCCcCEEEEEC---CCCCeecceEEEECCCcHHHHHHHHHhcccC
Confidence            999999999999998763    479999999999999899999986   3555554 89999999999999999999999


Q ss_pred             CCHHHHhhh
Q 022125          204 GSKEHGSLW  212 (302)
Q Consensus       204 mS~eEAi~l  212 (302)
                      |+++||+.+
T Consensus       186 ~s~eeai~l  194 (241)
T PRK03996        186 LSLEEAIEL  194 (241)
T ss_pred             CCHHHHHHH
Confidence            999999833

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=1e-33  Score=248.42  Aligned_cols=154  Identities=35%  Similarity=0.413  Sum_probs=145.5

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.+.+..+.+++.+|||+|++++++++||+.+|++.+.++++.+++.|+++++++++++.++
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            68999999999999999999999888899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +++++++|.++++||++++||||+|+ +||+||.+|   +.|.... ++.++|+++.+++++|++.|+|+||.+||+++
T Consensus        81 ~~l~~~~~~~~~~P~~~~~iv~G~d~~~~~~l~~id---~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~  156 (189)
T cd01912          81 NLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVD---PLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVEL  156 (189)
T ss_pred             HHHHHHHHhcCCCCeEEEEEEEEEcCCCCeEEEEEC---CCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHH
Confidence            99999999999999999999999998 689999986   3555554 89999999999999999999999999999833

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

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=4.4e-34  Score=263.78  Aligned_cols=162  Identities=17%  Similarity=0.133  Sum_probs=149.9

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+.++.+++.+||++|+++++++++|..+|++.+.+.+|.+++.|+++++++
T Consensus        25 ~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~  104 (253)
T PTZ00246         25 LEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEP  104 (253)
T ss_pred             HHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            78999999999999999999999999998888878889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      ++++.+++.++++++.++    .|||+|++||||||+ .||+||++|   +.|.+.. +++++|+++.+++++|++.|++
T Consensus       105 ~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D---~~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~  181 (253)
T PTZ00246        105 QPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTD---PSGNYSGWKATAIGQNNQTAQSILKQEWKE  181 (253)
T ss_pred             CCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEEC---CCCCEecceEEEECCCcHHHHHHHHHhccC
Confidence            999999999999988763    489999999999995 689999986   3455554 8999999999999999999999


Q ss_pred             CCCHHHHhhhh
Q 022125          203 GGSKEHGSLWD  213 (302)
Q Consensus       203 dmS~eEAi~l~  213 (302)
                      +||++||+.+.
T Consensus       182 ~ms~eeai~l~  192 (253)
T PTZ00246        182 DLTLEQGLLLA  192 (253)
T ss_pred             CCCHHHHHHHH
Confidence            99999999554

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=6.4e-34  Score=257.13  Aligned_cols=158  Identities=16%  Similarity=0.078  Sum_probs=142.6

Q ss_pred             hccccc-CceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC
Q 022125           49 TLKHAK-GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR  127 (302)
Q Consensus        49 ~~av~~-GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~  127 (302)
                      ++|+++ |+|+|||+++||||||+|+|.+. .++.+++.+||++|++++++++||+.+|++.+.+++|.+++.|++++++
T Consensus        22 ~~a~~~~g~t~igi~~~d~Vvlaad~r~~~-~~i~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~  100 (215)
T cd03754          22 FKAVKNAGLTSVAVRGKDCAVVVTQKKVPD-KLIDPSTVTHLFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGY  100 (215)
T ss_pred             HHHHhcCCccEEEEEeCCEEEEEEeccccc-cccCCcccCceEEEcCCEEEEEEechhhHHHHHHHHHHHHHHHHHHHCC
Confidence            778875 78999999999999999999984 5666668999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHc--c--CCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc
Q 022125          128 RISVTGASKLLANILYSY--R--GMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK  201 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~--R--~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk  201 (302)
                      +|+++.+|++++++++.+  +  .|||+|++||||||+ +||+||.+|   +.|.... +++++|+++.+++++||+.|+
T Consensus       101 ~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~D---p~Gs~~~~~~~a~G~gs~~~~~~Le~~~~  177 (215)
T cd03754         101 EMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCD---PAGYFAGYKATAAGVKEQEATNFLEKKLK  177 (215)
T ss_pred             CCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEc---CCccEEeEEEEEECCCcHHHHHHHHHHhc
Confidence            999999999999986554  3  379999999999996 699999986   3455554 899999999999999999999


Q ss_pred             CC--C--CHHHHh
Q 022125          202 EG--G--SKEHGS  210 (302)
Q Consensus       202 ~d--m--S~eEAi  210 (302)
                      ++  |  |.+||+
T Consensus       178 ~~~~~~~s~eeai  190 (215)
T cd03754         178 KKPDLIESYEETV  190 (215)
T ss_pred             cccccCCCHHHHH
Confidence            95  7  999998

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=4.7e-33  Score=241.63  Aligned_cols=154  Identities=31%  Similarity=0.298  Sum_probs=145.4

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.+.+..+.+++.+|||+|+++++++++|..+|++.+.+.++.++..|+++++++++++.++
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            68999999999999999999988888899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccC--CCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhh
Q 022125          136 KLLANILYSYRG--MGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSL  211 (302)
Q Consensus       136 k~Ls~~ly~~R~--rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~  211 (302)
                      +++++++|.+|.  +||++++||||+|+ .||+||.+|   +.|.... ++.++|+++.+++++|++.|+++||.+||+.
T Consensus        81 ~~l~~~~~~~~~~~~p~~~~~lv~G~d~~~~~~Ly~id---~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~  157 (182)
T cd01906          81 KLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVD---PSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIE  157 (182)
T ss_pred             HHHHHHHHHhCCCccChheEEEEEEEeCCCCcEEEEEC---CCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHH
Confidence            999999999987  99999999999997 799999986   3555554 8999999999999999999999999999984


Q ss_pred             h
Q 022125          212 W  212 (302)
Q Consensus       212 l  212 (302)
                      +
T Consensus       158 l  158 (182)
T cd01906         158 L  158 (182)
T ss_pred             H
Confidence            3

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

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

Probab=100.00  E-value=1e-33  Score=250.50  Aligned_cols=179  Identities=21%  Similarity=0.223  Sum_probs=162.5

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|++.|+|+|||+.++|||||+++|.+ +++..+.+++||++|++||+|++||+.||+++++++.|.+|++|.+.||++
T Consensus        28 ieAikLGsTaIGv~TkEgVvL~vEKrit-SpLm~p~sveKi~eid~HIgca~SGl~aDarTlve~arv~~qnh~f~Y~e~  106 (241)
T KOG0176|consen   28 IEAIKLGSTAIGVKTKEGVVLAVEKRIT-SPLMEPSSVEKIVEIDDHIGCAMSGLIADARTLVERARVETQNHWFTYGEP  106 (241)
T ss_pred             HHHHhcCCceeeeeccceEEEEEecccc-CcccCchhhhhheehhhceeeeccccccchHHHHHHHHHHhhhceeecCCc
Confidence            8899999999999999999999999999 889999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc---------CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHh
Q 022125          129 ISVTGASKLLANILYSYR---------GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMW  198 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R---------~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~  198 (302)
                      |+++.+.+.++++...+.         .|||||+++|||+|++||+||+.|   |+|.++. ++-++|+|+.-+.+.|++
T Consensus       107 i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~gpqL~h~d---PSGtf~~~~AKAIGSgsEga~~~L~~  183 (241)
T KOG0176|consen  107 ISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDETGPQLYHLD---PSGTFIRYKAKAIGSGSEGAESSLQE  183 (241)
T ss_pred             ccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCCCceEEEeC---CCCceEEecceeccccchHHHHHHHH
Confidence            999999999999887652         289999999999999999999986   4555555 899999999999999999


Q ss_pred             hccCCCCHHHHhhhhhhhccccccccccchhhHHHHHHHHHHHHhhhhcccC
Q 022125          199 TVKEGGSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSE  250 (302)
Q Consensus       199 ~yk~dmS~eEAi~l~~~~~~~~~~w~~~~~~~~l~~~~r~~l~~~~~~~~~~  250 (302)
                      .|+++||++||+             +.      .++.|+.+.|+-...+.-|
T Consensus       184 e~~~~ltL~ea~-------------~~------~L~iLkqVMeeKl~~~Nve  216 (241)
T KOG0176|consen  184 EYHKDLTLKEAE-------------KI------VLKILKQVMEEKLNSNNVE  216 (241)
T ss_pred             HHhhcccHHHHH-------------HH------HHHHHHHHHHHhcCccceE
Confidence            999999999998             22      4567788888877666544

>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=2.1e-32  Score=239.07  Aligned_cols=158  Identities=26%  Similarity=0.225  Sum_probs=141.4

Q ss_pred             cccCceEEEEEeCCeEEEEEeCccCCCCeeeccc-cceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCC
Q 022125           52 HAKGTTTLAFIFKEGVMVAADSRASMGGYISSQS-VKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRIS  130 (302)
Q Consensus        52 v~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~-~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~is  130 (302)
                      |++|+|+|||+++|||+||+|+|.++|+.+..++ .+|||+|++++++++||..+|++.+.+.++.+++.|++.++++++
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            5789999999999999999999999998886665 799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH----HccCCCceeeEeEEEEcCCC-ceeEEEeeecCccccc-c-ceeEecchhhhHHHHHHhhccCC
Q 022125          131 VTGASKLLANILY----SYRGMGLSVGTMIAGWDETV-REFMFQVFCFAFASLI-A-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       131 v~~lAk~Ls~~ly----~~R~rP~~vs~IIaG~D~~G-p~LY~idyS~D~Gg~~-~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++.+++.+++.++    ..+.+|+++++|+||||++| |+||.+|   +.|... . ++.++|+|+.+++++|++.|+++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd---~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~  157 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVD---PSGSYIECKRFAAIGSGSQFAQPILEKLYKPD  157 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEE---TTSEEEEBSSEEEESTTHHHHHHHHHHHHTTT
T ss_pred             chhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeec---cccccccccccccchhcchhhhHHHHhhccCC
Confidence            9966666665554    44568999999999999875 9999986   456665 3 59999999999999999999999


Q ss_pred             CCHHHHhhh
Q 022125          204 GSKEHGSLW  212 (302)
Q Consensus       204 mS~eEAi~l  212 (302)
                      ||.+||+.+
T Consensus       158 ~~~~ea~~~  166 (190)
T PF00227_consen  158 LSLEEAIEL  166 (190)
T ss_dssp             SSHHHHHHH
T ss_pred             CCHHHHHHH
Confidence            999999833

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 ....

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=9.6e-32  Score=247.25  Aligned_cols=153  Identities=17%  Similarity=0.132  Sum_probs=134.5

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEec----CcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC-cCC
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEIN----PYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR-RIS  130 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~----~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~-~is  130 (302)
                      |-+|||+++||||||+|+|.+.+ ++..++.+||++|+    +|++|++||..||++.+++.+|.+++.|++++|+ +++
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~-l~~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~   79 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAG-VDNISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPT   79 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCC-CccccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCC
Confidence            45899999999999999998855 44445799999998    9999999999999999999999999999999999 799


Q ss_pred             HHHHHHHHHHHHHH----cc------CCCceeeEeEEEEc-CCCceeEEEeeecCcccccc-----ceeEecchhhhHHH
Q 022125          131 VTGASKLLANILYS----YR------GMGLSVGTMIAGWD-ETVREFMFQVFCFAFASLIA-----SLLSCLSVGCRVLG  194 (302)
Q Consensus       131 v~~lAk~Ls~~ly~----~R------~rP~~vs~IIaG~D-~~Gp~LY~idyS~D~Gg~~~-----~~~a~Gsgs~~a~g  194 (302)
                      ++.+|+++++++++    +.      .|||+|++|||||| +.||+||.+|   |+|+...     +|.++|. +.++++
T Consensus        80 v~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~id---psG~~~e~~a~~~~~AiG~-~~~a~~  155 (236)
T cd03765          80 MFDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIY---PQGNFIEATPDTPFLQIGE-TKYGKP  155 (236)
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEEC---CCCCEEeecCCCceeeeCC-chhhHH
Confidence            99999999998765    22      47999999999999 4699999996   3455443     5789996 799999


Q ss_pred             HHHhhccCCCCHHHHhhhh
Q 022125          195 CIMWTVKEGGSKEHGSLWD  213 (302)
Q Consensus       195 ~Le~~yk~dmS~eEAi~l~  213 (302)
                      +||+.|+++||++||+++.
T Consensus       156 ~Lek~yk~~ms~eeai~la  174 (236)
T cd03765         156 ILDRVITPDTSLEDAAKCA  174 (236)
T ss_pred             HHHHhcCCCCCHHHHHHHH
Confidence            9999999999999999554

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

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=9.9e-32  Score=245.79  Aligned_cols=164  Identities=13%  Similarity=0.123  Sum_probs=142.7

Q ss_pred             CcchhHhhhhh--hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHH
Q 022125           38 DFDEFQKDTKA--TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG  115 (302)
Q Consensus        38 ~~~~~~~~~~~--~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr  115 (302)
                      .|+....+.++  ++||++|+|+|||+++||||||+|++.        ++.+||++|++|++|++||+.+|++.++++++
T Consensus         8 ~~~~~~~~~~EYA~kav~~g~T~VGIk~kdgVVLaaek~~--------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r   79 (228)
T TIGR03691         8 SPEQIMRDRAELARKGIARGRSVVVLTYADGILFVAENPS--------RSLHKISELYDRIGFAAVGKYNEFENLRRAGI   79 (228)
T ss_pred             CHHHHHhhHHHHHHHHHHcCCcEEEEEeCCeEEEEEecCC--------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHH
Confidence            34444443333  789999999999999999999999972        46899999999999999999999999999999


Q ss_pred             HHHHHhhHhhC-CcCCHHHHHHHHHHHHHHc---cCCCceeeEeEEEEcC--CCceeEEEeeecCcccccc-c-eeEecc
Q 022125          116 IKCRLHELANK-RRISVTGASKLLANILYSY---RGMGLSVGTMIAGWDE--TVREFMFQVFCFAFASLIA-S-LLSCLS  187 (302)
Q Consensus       116 ~e~~~y~l~~g-~~isv~~lAk~Ls~~ly~~---R~rP~~vs~IIaG~D~--~Gp~LY~idyS~D~Gg~~~-~-~~a~Gs  187 (302)
                      .+++.|++.++ .+++++.+|+.+++.++.+   +.|||+|++||+|||+  +||+||.+|   |+|+... . ++++|+
T Consensus        80 ~~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~~~~~RP~gvs~Li~G~d~~~~gp~Ly~vD---psG~~~~~~~~~aiG~  156 (228)
T TIGR03691        80 RYADMRGYSYDRRDVTGRGLANAYAQTLGTIFTEQQKPYEVEICVAEVGETPDQDQLYRIT---FDGSIVDERGFVVMGG  156 (228)
T ss_pred             HHHHHHhhhcCCCCccHHHHHHHHHhhcccccccccCcceEEEEEEEEcCCCCCCEEEEEC---CCCCceeccceEEECC
Confidence            99999999998 6899999999888877643   4589999999999984  689999997   3555554 4 899999


Q ss_pred             hhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          188 VGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       188 gs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      ++..++++||+.|+++||.+||+.+
T Consensus       157 gs~~a~~~Lek~y~~~ms~eeai~l  181 (228)
T TIGR03691       157 TTEPIATALKESYRDGLSLADALGL  181 (228)
T ss_pred             ChHHHHHHHHHhcCCCCCHHHHHHH
Confidence            9999999999999999999999944

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.

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

Probab=99.98  E-value=2e-32  Score=241.62  Aligned_cols=159  Identities=25%  Similarity=0.332  Sum_probs=150.5

Q ss_pred             cccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcC
Q 022125           50 LKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRI  129 (302)
Q Consensus        50 ~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~i  129 (302)
                      +.+..|||++|++|+|||||++|+|.|.|.+|.++..+|+.+|+|+|+|+-||.+||.|.+.+.+++++..|..++++++
T Consensus        14 ~evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p   93 (224)
T KOG0174|consen   14 EEVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPP   93 (224)
T ss_pred             cccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCc
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHccCCCceeeEeEEEEcCC-CceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCH
Q 022125          130 SVTGASKLLANILYSYRGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSK  206 (302)
Q Consensus       130 sv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~  206 (302)
                      ++...|+.+++++|+||.. +..++|+||||+. |.+.|.|    |.||+..  +++..||||.|++|+++..|||+||+
T Consensus        94 ~v~~aA~l~r~~~Y~~re~-L~AgliVAGwD~~~gGqVY~i----plGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~  168 (224)
T KOG0174|consen   94 LVHTAASLFREICYNYREM-LSAGLIVAGWDEKEGGQVYSI----PLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTL  168 (224)
T ss_pred             hHHHHHHHHHHHHHhCHHh-hhcceEEeecccccCceEEEe----ecCceEeecceeeccCCceeeeeeehhhcCCCCCH
Confidence            9999999999999999976 8899999999985 8887665    8999985  99999999999999999999999999


Q ss_pred             HHHhhhh
Q 022125          207 EHGSLWD  213 (302)
Q Consensus       207 eEAi~l~  213 (302)
                      ||++.+-
T Consensus       169 EE~~~fv  175 (224)
T KOG0174|consen  169 EECVRFV  175 (224)
T ss_pred             HHHHHHH
Confidence            9998544

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

Probab=99.97  E-value=1.2e-31  Score=235.68  Aligned_cols=169  Identities=18%  Similarity=0.175  Sum_probs=154.2

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      .|++||++.|+|++|+||..+.|.++.+++.+|+++|+++++++++|..+|+.++.+++.+++++|+++||.++||+++|
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            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHc-c-CCCceeeEeEEEEcCC-CceeEEEeeecCccccc-cceeEecchhhhHHHHHHhhccCCCCHHHHhh
Q 022125          136 KLLANILYSY-R-GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLI-ASLLSCLSVGCRVLGCIMWTVKEGGSKEHGSL  211 (302)
Q Consensus       136 k~Ls~~ly~~-R-~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~-~~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~  211 (302)
                      +++++.+..+ | .+||.|++++||||++ ||.||++||   .|... .||+++|.++.|++++|++.|+||||.+||+.
T Consensus        82 hFtR~~La~~LRsr~~yqV~~LvaGYd~~~gp~L~~iDy---la~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~  158 (200)
T KOG0177|consen   82 HFTRRELAESLRSRTPYQVNILVAGYDPEEGPELYYIDY---LATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALD  158 (200)
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEeccCCCCCCceeeehh---hhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHH
Confidence            9999999876 6 5799999999999975 999999976   45544 39999999999999999999999999999983


Q ss_pred             hhhhhccccccccccchhhHHHHHHHHHHHH
Q 022125          212 WDQVHHMLMVYWTAGTSLTCLLKKLRSWLEE  242 (302)
Q Consensus       212 l~~~~~~~~~~w~~~~~~~~l~~~~r~~l~~  242 (302)
                                     .-+.|..|..+|+.-+
T Consensus       159 ---------------lmkKCv~El~kRlvin  174 (200)
T KOG0177|consen  159 ---------------LMKKCVLELKKRLVIN  174 (200)
T ss_pred             ---------------HHHHHHHHHHHhcccC
Confidence                           2347888877776543

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

Probab=99.97  E-value=8.3e-31  Score=233.56  Aligned_cols=165  Identities=22%  Similarity=0.226  Sum_probs=153.0

Q ss_pred             CCCCCCCCCcchhHhhhhhhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHH
Q 022125           30 SFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF  109 (302)
Q Consensus        30 ~~~~p~~~~~~~~~~~~~~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~  109 (302)
                      .-..|..++|+||.         .||+|++||++.|+.|||+|||.+.|..|.+++.+|||+++|+++++.+|+.||+..
T Consensus        13 ~s~~~~~~~f~PY~---------~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~   83 (235)
T KOG0179|consen   13 SSKTMDHERFSPYE---------DNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLA   83 (235)
T ss_pred             ccCccccccCCccc---------cCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHH
Confidence            33455677999999         999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc--ceeEecc
Q 022125          110 WHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA--SLLSCLS  187 (302)
Q Consensus       110 l~~~lr~e~~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~--~~~a~Gs  187 (302)
                      +.+.++.+.+.|+..+++.|++..+|++|+++||.+|++||++..||||+|++|.+   .+||||+-|.++  .+.+.|+
T Consensus        84 L~k~i~~r~~~Y~~~h~k~ms~~s~A~lls~~LY~kRFFPYYv~~ilaGiDeeGKG---~VySyDPvGsyer~~~~AgGs  160 (235)
T KOG0179|consen   84 LVKVIKSRIKQYEHDHNKKMSIHSAAQLLSTILYSKRFFPYYVFNILAGIDEEGKG---AVYSYDPVGSYERVTCRAGGS  160 (235)
T ss_pred             HHHHHHHHHHHHhhcccccccHHHHHHHHHHHHhhcccccceeeeeeecccccCce---eEEeecCCcceeeeeeecCCc
Confidence            99999999999999999999999999999999999999999999999999999988   468899988885  7999999


Q ss_pred             hhhhHHHHHHhhcc-CCCCH
Q 022125          188 VGCRVLGCIMWTVK-EGGSK  206 (302)
Q Consensus       188 gs~~a~g~Le~~yk-~dmS~  206 (302)
                      ++.+++.+|+...+ +++.+
T Consensus       161 a~~mI~PfLDnQi~~kn~~~  180 (235)
T KOG0179|consen  161 AASMIQPFLDNQIGHKNQNL  180 (235)
T ss_pred             chhhhhhhhhhhccCcCccc
Confidence            99999999998765 34443

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

Probab=99.96  E-value=2.9e-28  Score=218.95  Aligned_cols=161  Identities=9%  Similarity=-0.005  Sum_probs=152.5

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+||.+|+|+||||||||||+++++-.+ +++..++..+||+.|++||+++++|+.+|.+.+++++|.++..|+-+|+.+
T Consensus        28 ~KAven~~T~IGIk~kdGVVl~vEKli~-SkLy~p~sn~ri~~V~r~iG~avaGl~~Dg~~l~~~ar~ea~~~~~~y~~p  106 (254)
T KOG0184|consen   28 QKAVENSGTCIGIKCKDGVVLAVEKLIT-SKLYEPGSNERIFSVDRHIGMAVAGLIPDGRHLVNRARDEAASWRKNYGDP  106 (254)
T ss_pred             HHHHhcCCcEEEEecCCeEEEEEeeeec-ccccccCCCCceEeecccccEEEeccccchHHHHHHHHHHHHHHHHhcCCC
Confidence            6799999999999999999999999988 788889999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      +|...+|.+++++.|.++.    ||||+++++++||.+||+||.++   |+|..+. ..+++|.+.+.+..-||+.--++
T Consensus       107 iP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~~g~~Lymie---pSG~~~~Y~~aaiGKgrq~aKtElEKL~~~~  183 (254)
T KOG0184|consen  107 IPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDDEGPQLYMIE---PSGSSYGYKGAAIGKGRQAAKTELEKLKIDE  183 (254)
T ss_pred             CchHHHHHHHHhhhheeehhhccccccceEEEEEEeCCCceEEEEc---CCCCccceeeeeccchhHHHHHHHHhccccc
Confidence            9999999999999999863    89999999999999999999998   5777776 78999999999999999999999


Q ss_pred             CCHHHHhhhh
Q 022125          204 GSKEHGSLWD  213 (302)
Q Consensus       204 mS~eEAi~l~  213 (302)
                      |+.+|+++-.
T Consensus       184 mt~~e~Vkea  193 (254)
T KOG0184|consen  184 MTCKELVKEA  193 (254)
T ss_pred             ccHHHHHHHH
Confidence            9999998766

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

Probab=99.96  E-value=1.9e-28  Score=223.30  Aligned_cols=172  Identities=26%  Similarity=0.335  Sum_probs=160.4

Q ss_pred             CcchhHhhhh-------hhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHH
Q 022125           38 DFDEFQKDTK-------ATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFW  110 (302)
Q Consensus        38 ~~~~~~~~~~-------~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l  110 (302)
                      +|..|.++..       +.++-+.|||++||++|||||+++|+|++.|+.+..++.+||+.|.++|+|+.+|-++|...+
T Consensus        13 sf~nc~rn~~l~~~g~k~p~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~v   92 (271)
T KOG0173|consen   13 SFDNCQRNAALLKKGLKAPKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMV   92 (271)
T ss_pred             ChhhhhhHHHHHhcCCCCCcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHH
Confidence            6777877632       255778999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchh
Q 022125          111 HRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVG  189 (302)
Q Consensus       111 ~~~lr~e~~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs  189 (302)
                      .+.+..+.++|++..++++.|-.+-+++.+.|+.|.+. .+..+||+|+|..||+||.+-   +-|++.. ||.+.|||+
T Consensus        93 t~m~ss~l~Lh~l~t~R~~rVv~A~~mlkQ~LFrYqG~-IgA~LiiGGvD~TGpHLy~i~---phGStd~~Pf~alGSGs  168 (271)
T KOG0173|consen   93 TRMISSNLELHRLNTGRKPRVVTALRMLKQHLFRYQGH-IGAALILGGVDPTGPHLYSIH---PHGSTDKLPFTALGSGS  168 (271)
T ss_pred             HHHHHHHHHHHHhccCCCCceeeHHHHHHHHHHHhcCc-ccceeEEccccCCCCceEEEc---CCCCcCccceeeeccch
Confidence            99999999999999999999999999999999998776 889999999999999999984   6788876 999999999


Q ss_pred             hhHHHHHHhhccCCCCHHHHhhhh
Q 022125          190 CRVLGCIMWTVKEGGSKEHGSLWD  213 (302)
Q Consensus       190 ~~a~g~Le~~yk~dmS~eEAi~l~  213 (302)
                      ..++.+||..|+|||++|||++|.
T Consensus       169 laAmsvlEsr~k~dlt~eea~~Lv  192 (271)
T KOG0173|consen  169 LAAMSVLESRWKPDLTKEEAIKLV  192 (271)
T ss_pred             HHHHHHHHHhcCcccCHHHHHHHH
Confidence            999999999999999999999887

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

Probab=99.95  E-value=6e-28  Score=215.60  Aligned_cols=163  Identities=14%  Similarity=0.152  Sum_probs=151.1

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++++.+.+|+|||-.+||||||+++|.+..-+-.+...+||++|+|+|.|+++|+.+|+..+++.+|..++.|.+++|++
T Consensus        25 meais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~DAnvL~n~aRi~AQ~yl~~y~e~  104 (249)
T KOG0178|consen   25 MEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTSDANVLKNYARIIAQRYLFRYGEE  104 (249)
T ss_pred             HHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccccHHHHHHHHHHHHHHHHHHhCCC
Confidence            89999999999999999999999999984444456789999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCC-CceeEEEeeecCccccccceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDET-VREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ||++.|++.++++.+.|+.    ||||||++.+|||.. |.+||..|+|.++||+  ++.++|.++..++..|++.|++|
T Consensus       105 iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gW--ka~ciG~N~~Aa~s~Lkqdykdd  182 (249)
T KOG0178|consen  105 IPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGW--KATCIGANSGAAQSMLKQDYKDD  182 (249)
T ss_pred             CcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCcccc--ceeeeccchHHHHHHHHhhhccc
Confidence            9999999999999998863    899999999999986 9999999877777777  88999999999999999999998


Q ss_pred             CC-HHHHhhhh
Q 022125          204 GS-KEHGSLWD  213 (302)
Q Consensus       204 mS-~eEAi~l~  213 (302)
                      .. ++||+.+.
T Consensus       183 ~~~~~eA~~la  193 (249)
T KOG0178|consen  183 ENDLEEAKALA  193 (249)
T ss_pred             cccHHHHHHHH
Confidence            87 99998777

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

Probab=99.95  E-value=1.6e-27  Score=207.41  Aligned_cols=171  Identities=19%  Similarity=0.166  Sum_probs=155.0

Q ss_pred             ccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHH
Q 022125           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (302)
Q Consensus        53 ~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~  132 (302)
                      .+|++++|+++||||.||+|.|........+.+.+|||+|+|++++|.+|++.|.|.+.++++...++|+++.++.|-|+
T Consensus         6 ynGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~   85 (204)
T KOG0180|consen    6 YNGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPE   85 (204)
T ss_pred             ecCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcH
Confidence            58999999999999999999999888888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHccCCCceeeEeEEEEcCCC-ceeEEEeeecCcccccc---ceeEecchhhhHHHHHHhhccCCCCHHH
Q 022125          133 GASKLLANILYSYRGMGLSVGTMIAGWDETV-REFMFQVFCFAFASLIA---SLLSCLSVGCRVLGCIMWTVKEGGSKEH  208 (302)
Q Consensus       133 ~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~G-p~LY~idyS~D~Gg~~~---~~~a~Gsgs~~a~g~Le~~yk~dmS~eE  208 (302)
                      .+++++|+++|++|+-||.+..+|||+|+++ |.+    ..+|..|...   +|.+.|.++...+|++|..|+|||..+|
T Consensus        86 ~~s~mvS~~lYekRfgpYf~~PvVAGl~~~~kPfI----c~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~  161 (204)
T KOG0180|consen   86 TFSSMVSSLLYEKRFGPYFTEPVVAGLDDDNKPFI----CGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDE  161 (204)
T ss_pred             HHHHHHHHHHHHhhcCCcccceeEeccCCCCCeeE----eecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHH
Confidence            9999999999999999999999999999975 443    3468988873   8999999999999999999999999998


Q ss_pred             Hhhhh------hhhccccccccccc
Q 022125          209 GSLWD------QVHHMLMVYWTAGT  227 (302)
Q Consensus       209 Ai~l~------~~~~~~~~~w~~~~  227 (302)
                      .++-.      .+.+-.-++|...+
T Consensus       162 LFetisQa~Lna~DRDalSGwGa~v  186 (204)
T KOG0180|consen  162 LFETISQALLNAVDRDALSGWGAVV  186 (204)
T ss_pred             HHHHHHHHHHhHhhhhhhccCCeEE
Confidence            87544      44555566887743

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

Probab=99.95  E-value=2.8e-28  Score=215.63  Aligned_cols=158  Identities=16%  Similarity=0.149  Sum_probs=150.4

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      +.||.+|.|.|||+-.||||||++++.. +.++...+++||++|.++|+|.+||+.+|++.+++..|+.++.|..-|+++
T Consensus        26 L~Av~~G~~SvGi~A~nGvVlatekk~~-s~L~~~~sv~KV~~i~~~IG~vYSGmgpD~RvlV~~~rkiAe~Yy~vY~e~  104 (233)
T KOG0181|consen   26 LTAVVNGQTSVGIKAANGVVLATEKKDV-SPLVDEESVRKVEKITPHIGCVYSGMGPDYRVLVHKSRKIAEQYYRVYGEP  104 (233)
T ss_pred             HHHHhCCCCceeeeecCceEEEeccCCC-CccchhhhhhhHhhccCCcceEEecCCCceeehhhHHHHHHHHHHHHhcCC
Confidence            7799999999999999999999999877 789999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      |++..+.+.++..+|+|+.    ||||++++|||||+.+|.||++|   |+|..+. ++.+.|.+...+..+||++|.++
T Consensus       105 ~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~~p~LyQvd---PSGsyf~wkatA~Gkn~v~aktFlEkR~~ed  181 (233)
T KOG0181|consen  105 IPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEGGPLLYQVD---PSGSYFAWKATAMGKNYVNAKTFLEKRYNED  181 (233)
T ss_pred             CCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCCceeEEEEC---CccceeehhhhhhccCcchHHHHHHHHhccc
Confidence            9999999999999999963    89999999999999999999997   5666665 99999999999999999999999


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      +.+++++
T Consensus       182 leldd~i  188 (233)
T KOG0181|consen  182 LELDDAI  188 (233)
T ss_pred             cccchHH
Confidence            9999998

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.95  E-value=1.5e-26  Score=203.69  Aligned_cols=142  Identities=20%  Similarity=0.183  Sum_probs=121.5

Q ss_pred             CceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHH
Q 022125           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (302)
Q Consensus        55 GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I-~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~  133 (302)
                      |+|++||+++||||||+|+|+|.|.++.+++.+||++| ++++++++||..||+|.|.+.++.++++|+.  +.   ++.
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            79999999999999999999999999999999999999 9999999999999999999999999999983  22   577


Q ss_pred             HHHHHHHHHHHccC-CCceeeEeEEEEcCCCceeEEEeeecCcccccc---ceeEecchhhhHHHHHHhhcc-CCCCHHH
Q 022125          134 ASKLLANILYSYRG-MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA---SLLSCLSVGCRVLGCIMWTVK-EGGSKEH  208 (302)
Q Consensus       134 lAk~Ls~~ly~~R~-rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~---~~~a~Gsgs~~a~g~Le~~yk-~dmS~eE  208 (302)
                      +|+++..+ ..+++ +|+.+++|++  |+  |+||.+|+   .|+.+.   ++.++|||+.+++|+|++.|| |||   |
T Consensus        76 ~a~l~~~l-~~~~~~~~l~~~~lv~--d~--~~ly~id~---~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---e  144 (172)
T PRK05456         76 AVELAKDW-RTDRYLRRLEAMLIVA--DK--EHSLIISG---NGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---S  144 (172)
T ss_pred             HHHHHHHH-HhccCCCccEEEEEEE--cC--CcEEEECC---CCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---C
Confidence            77666443 44455 6888999994  44  69998852   455542   699999999999999999999 999   7


Q ss_pred             Hhhh
Q 022125          209 GSLW  212 (302)
Q Consensus       209 Ai~l  212 (302)
                      |+++
T Consensus       145 A~~l  148 (172)
T PRK05456        145 AEEI  148 (172)
T ss_pred             HHHH
Confidence            7633

>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-25  Score=186.71  Aligned_cols=155  Identities=27%  Similarity=0.211  Sum_probs=144.6

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+||++++|||++|+|++.+.+......+.+||++++++++++++|..+|++.+.+.++.+++.|+++++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            58999999999999999999988888788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccC-CCceeeEeEEEEcCCCceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          136 KLLANILYSYRG-MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       136 k~Ls~~ly~~R~-rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +.+++.++.++. +|+++++||||+|++||+||++|   +.|....  .+.++|.++.++.++|++.|+++|+.+|++.+
T Consensus        81 ~~~~~~~~~~~~~~p~~~~~iiag~~~~~~~l~~id---~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~  157 (164)
T cd01901          81 KELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYID---PSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVEL  157 (164)
T ss_pred             HHHHHHHHHhcCCCCcceEEEEEEEcCCCCEEEEEC---CCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHH
Confidence            999999999886 99999999999999889999986   3455553  69999999999999999999999999999854


Q ss_pred             h
Q 022125          213 D  213 (302)
Q Consensus       213 ~  213 (302)
                      .
T Consensus       158 ~  158 (164)
T cd01901         158 A  158 (164)
T ss_pred             H
Confidence            3

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

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

Probab=99.94  E-value=4.1e-27  Score=210.68  Aligned_cols=161  Identities=16%  Similarity=0.178  Sum_probs=147.7

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      -+||.+|+|++|++++|+|+|+.+++.. ..+...++..||..+++|+++++||+.||++.++++.|.+|+.|++..+.+
T Consensus        24 qEAvrkGstaVgvrg~~~vvlgvEkkSv-~~Lq~~r~~rkI~~ld~hV~mafaGl~aDArilinrArvecqShrlt~edp  102 (249)
T KOG0183|consen   24 QEAVRKGSTAVGVRGNNCVVLGVEKKSV-PKLQDERTVRKISMLDDHVVMAFAGLTADARILINRARVECQSHRLTLEDP  102 (249)
T ss_pred             HHHHhcCceEEEeccCceEEEEEeecch-hhhhhhhhhhhheeecceeeEEecCCCccceeehhhHhHhhhhhhcccCCC
Confidence            5789999999999999999999999876 889999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCCC-ceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETV-REFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~G-p~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      ++++.++++|+.+.+.|+.    ||||++++|+|+|++| |.||.++   |+|.+.. .+.++|+++..+..+||++|++
T Consensus       103 vtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqte---PsG~f~ewka~aiGr~sk~VrEflEK~y~e  179 (249)
T KOG0183|consen  103 VTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTE---PSGIFSEWKANAIGRSSKTVREFLEKNYKE  179 (249)
T ss_pred             cHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeC---CCcchhhhhccccccccHHHHHHHHHhccc
Confidence            9999999999999998863    8999999999999986 9999996   3444445 8899999999999999999999


Q ss_pred             C--CCHHHHhhhh
Q 022125          203 G--GSKEHGSLWD  213 (302)
Q Consensus       203 d--mS~eEAi~l~  213 (302)
                      +  .+..++++|.
T Consensus       180 ~~~~~~~~~ikL~  192 (249)
T KOG0183|consen  180 EAIATEGETIKLA  192 (249)
T ss_pred             ccccccccHHHHH
Confidence            8  5667777666

>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=99.94  E-value=4.6e-26  Score=200.47  Aligned_cols=139  Identities=19%  Similarity=0.139  Sum_probs=117.9

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecC-cEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINP-YMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~-~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~l  134 (302)
                      +|+|||+++||||||+|+|+++|.++.+++.+||++|++ +++|++||..||+|.+.++++.++++|+++.++     .+
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            699999999999999999999999999999999999999 999999999999999999999999999998773     55


Q ss_pred             HHHHHHHHHHccCCCce-eeEeEEEEcCCCceeEEEeeecCcccccc---ceeEecchhhhHHHHHHhhccCC-CCHH
Q 022125          135 SKLLANILYSYRGMGLS-VGTMIAGWDETVREFMFQVFCFAFASLIA---SLLSCLSVGCRVLGCIMWTVKEG-GSKE  207 (302)
Q Consensus       135 Ak~Ls~~ly~~R~rP~~-vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~---~~~a~Gsgs~~a~g~Le~~yk~d-mS~e  207 (302)
                      +++ ++.+..++++|+. +.++++++|    +||.++   +.|+.+.   ++.++||||.+++|+||..||++ ||.+
T Consensus        76 a~l-~~~l~~~~~~~~l~a~~iv~~~~----~ly~id---~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms~~  145 (171)
T cd01913          76 VEL-AKDWRTDRYLRRLEAMLIVADKE----HTLLIS---GNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLSAE  145 (171)
T ss_pred             HHH-HHHHHhccCcCceEEEEEEeCCC----cEEEEC---CCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCCHH
Confidence            555 4444555666766 666665443    898885   3444554   39999999999999999999995 9954

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.

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

Probab=99.94  E-value=1.1e-25  Score=201.28  Aligned_cols=184  Identities=16%  Similarity=0.082  Sum_probs=166.1

Q ss_pred             hccccc-CceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC
Q 022125           49 TLKHAK-GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR  127 (302)
Q Consensus        49 ~~av~~-GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~  127 (302)
                      .+|+++ |-|+||++++|++|+++.++.. .+++.++++..+|+|+.+++|+++|..+|++..++++|.++..+++.||+
T Consensus        29 fkAin~~gltsVavrgkDcavvvsqKkvp-DKLld~~tvt~~f~itk~ig~v~tG~~aDar~~v~rar~eAa~~~yk~Gy  107 (246)
T KOG0182|consen   29 FKAINQAGLTSVAVRGKDCAVVVTQKKVP-DKLLDSSTVTHLFRITKKIGCVITGMIADARSQVQRARYEAAEFRYKYGY  107 (246)
T ss_pred             HHHhhcCCCceEEEcCCceEEEEecccCc-ccccccccceeEEEeeccceEEEecCCcchHHHHHHHHHHHHhhhhhcCC
Confidence            678888 8999999999999999999988 89999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCC-CceeEEEeeecCccccc-c-ceeEecchhhhHHHHHHhhc
Q 022125          128 RISVTGASKLLANILYSYRG----MGLSVGTMIAGWDET-VREFMFQVFCFAFASLI-A-SLLSCLSVGCRVLGCIMWTV  200 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~-~-~~~a~Gsgs~~a~g~Le~~y  200 (302)
                      +||++.||++++++.|.|+.    ||+||.+++.|+|++ ||.+|.+|    +.|.+ . .+.+.|....-+..+||+.|
T Consensus       108 emp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~vYk~D----pAGyy~g~kAtaaG~Kq~e~tsfLEKk~  183 (246)
T KOG0182|consen  108 EMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSVYKTD----PAGYYYGFKATAAGVKQQEATSFLEKKY  183 (246)
T ss_pred             CCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcceEeec----CccccccceeeecccchhhHHHHHHHhh
Confidence            99999999999999988853    899999999999986 99999985    56665 4 78999999999999999999


Q ss_pred             cCC--CCHHHHhhhhhhhccccccccccchhhHHHHHHHHHHHHhhhhcccCccchhh
Q 022125          201 KEG--GSKEHGSLWDQVHHMLMVYWTAGTSLTCLLKKLRSWLEELFIMRHSEMQPVVV  256 (302)
Q Consensus       201 k~d--mS~eEAi~l~~~~~~~~~~w~~~~~~~~l~~~~r~~l~~~~~~~~~~~~~~~~  256 (302)
                      |++  .|.+|++               .+.+.||    .+.|..||+.+|-|.--|-+
T Consensus       184 Kk~~~~t~~e~v---------------e~ai~al----~~sl~~Dfk~se~EVgvv~~  222 (246)
T KOG0182|consen  184 KKDIDLTFEETV---------------ETAISAL----QSSLGIDFKSSELEVGVVTV  222 (246)
T ss_pred             ccCccchHHHHH---------------HHHHHHH----HHHHhcccCCcceEEEEEEc
Confidence            998  5688887               3566777    88999999999988654433

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.93  E-value=2.9e-25  Score=195.43  Aligned_cols=137  Identities=18%  Similarity=0.142  Sum_probs=116.0

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I-~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~l  134 (302)
                      ||+|||+++||||||+|+|.|+|.++.+++.+||++| +++++|++||..||+|.+.+.++.++++|+++.     .+.+
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            6999999999999999999999999999999999999 599999999999999999999999999998743     4777


Q ss_pred             HHHHHHHHHHccCCCce-eeEeEEEEcCCCceeEEEeeecCcccccc---ceeEecchhhhHHHHHHhhc-cCCCC
Q 022125          135 SKLLANILYSYRGMGLS-VGTMIAGWDETVREFMFQVFCFAFASLIA---SLLSCLSVGCRVLGCIMWTV-KEGGS  205 (302)
Q Consensus       135 Ak~Ls~~ly~~R~rP~~-vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~---~~~a~Gsgs~~a~g~Le~~y-k~dmS  205 (302)
                      ++++++ +..++++|+. +.+|++|+    ++||.++   +.|+.+.   ++.++||||.+++|+||..| +++|+
T Consensus        76 a~l~~~-~~~~~~~~~l~a~~iv~~~----~~ly~i~---~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s  143 (171)
T TIGR03692        76 VELAKD-WRTDRYLRRLEAMLIVADK----ETSLLIS---GTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS  143 (171)
T ss_pred             HHHHHH-HhhcccccccEEEEEEEcC----CCEEEEc---CCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC
Confidence            887777 4345555444 66666644    3898875   3444455   59999999999999999999 58888

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

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

Probab=99.92  E-value=1.8e-24  Score=195.80  Aligned_cols=158  Identities=21%  Similarity=0.239  Sum_probs=141.9

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhh-HhhCC
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE-LANKR  127 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~-l~~g~  127 (302)
                      +.++.+||++||+||+||||||+|++.|+|++...++++||++|++++++|++|..+|+|.+.+.|.....+.. +..|+
T Consensus        35 ~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~  114 (256)
T KOG0185|consen   35 LNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQ  114 (256)
T ss_pred             cCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHHHHHHHHHHHHHHhccccccccc
Confidence            55778999999999999999999999999999999999999999999999999999999999999988776644 66779


Q ss_pred             cCCHHHHHHHHHHHHHHccC--CCceeeEeEEEEcCCC-ceeEEEeeecCc-ccccc-ceeEecchhhhHHHHHHhhcc-
Q 022125          128 RISVTGASKLLANILYSYRG--MGLSVGTMIAGWDETV-REFMFQVFCFAF-ASLIA-SLLSCLSVGCRVLGCIMWTVK-  201 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~R~--rP~~vs~IIaG~D~~G-p~LY~idyS~D~-Gg~~~-~~~a~Gsgs~~a~g~Le~~yk-  201 (302)
                      .+.|+.++++|.++||++|.  .|++..++|||+|++| |-|-++    |. |-++. +..|.|.|.+.++.+|++.|. 
T Consensus       115 ~l~Pk~ih~yltrvlY~rRsKmnPlwntlvVgGv~~~g~~~lg~V----~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~  190 (256)
T KOG0185|consen  115 SLGPKAIHSYLTRVLYARRSKMNPLWNTLVVGGVDNTGEPFLGYV----DLLGVAYESPVVATGFGAHLALPLLRDEWEK  190 (256)
T ss_pred             ccChHHHHHHHHHHHHHhhhccCchhhheeEeeecCCCCeeEEEE----eeccccccCchhhhhhHHHhhhHHHHHhhhc
Confidence            99999999999999999975  7999999999999965 666665    55 44455 899999999999999999998 


Q ss_pred             --CCCCHHHHh
Q 022125          202 --EGGSKEHGS  210 (302)
Q Consensus       202 --~dmS~eEAi  210 (302)
                        +++|.+||.
T Consensus       191 k~~~~s~eeA~  201 (256)
T KOG0185|consen  191 KGEDLSREEAE  201 (256)
T ss_pred             cchhhHHHHHH
Confidence              677888887

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

Probab=99.90  E-value=3.1e-23  Score=187.47  Aligned_cols=159  Identities=19%  Similarity=0.161  Sum_probs=143.9

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|++.|+++||+|.++-.||++-+|.. +.  .+...+|||+|++|+++++||+.+|++.+.++++.+|..+++.++++
T Consensus        26 ~EavkqGsatVGLks~thaVLvAl~r~~-se--Lss~QkKi~~iD~h~g~siAGLt~Darvl~~Ylr~ec~~~~~~~~r~  102 (264)
T KOG0863|consen   26 MEAVKQGSATVGLKSRTHAVLVALKRAQ-SE--LSSHQKKIFKIDDHIGISIAGLTADARVLSRYLRQECLNSRFIYGRP  102 (264)
T ss_pred             HHHHhcccceEeecccceEEEeeeccch-hH--HHHhhheeEecccccceEEeccCcchHHHHHHHHHHHhhhhhccCCc
Confidence            8999999999999999999999988876 33  34567999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc--
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK--  201 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk--  201 (302)
                      +++.-+...|.+-++..+    .|||||+++++|||+.||+||...   |+|..+. ...++|+.|+.+..+||++..  
T Consensus       103 ~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~G~hl~e~~---Psg~v~e~~g~sIGsRSQsARTyLEr~~e~f  179 (264)
T KOG0863|consen  103 LPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDESGPHLYEFC---PSGNVFECKGMSIGSRSQSARTYLERNLEEF  179 (264)
T ss_pred             ccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCCCceeEEEc---CCccEEEEeeeecccchhhHHHHHHHHHHHH
Confidence            999999999999998764    389999999999999999999875   6777776 789999999999999999877  


Q ss_pred             CCCCHHHHhhhh
Q 022125          202 EGGSKEHGSLWD  213 (302)
Q Consensus       202 ~dmS~eEAi~l~  213 (302)
                      ++++.+|.++.+
T Consensus       180 ~~~~~eELI~~g  191 (264)
T KOG0863|consen  180 EDSSPEELIKHG  191 (264)
T ss_pred             hcCCHHHHHHHH
Confidence            599999998554

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

Probab=99.08  E-value=4.4e-10  Score=97.78  Aligned_cols=145  Identities=18%  Similarity=0.139  Sum_probs=113.0

Q ss_pred             ccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecC-cEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCH
Q 022125           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINP-YMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISV  131 (302)
Q Consensus        53 ~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~-~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv  131 (302)
                      .++||+++++-++-|+||+|.+.|.|+.+.+.+.+|+.+|.. .++.|++|..||+.++.+.+..+++.|.-.      +
T Consensus         2 ~h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g~------L   75 (178)
T COG5405           2 FHMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQGD------L   75 (178)
T ss_pred             ceeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccCc------H
Confidence            468999999999999999999999999999999999988865 899999999999999999999999988621      1


Q ss_pred             HHHHHHHHHHHHHccC-CCceeeEeEEEEcCCCceeEEEeeecCcccccc---ceeEecchhhhHHHHHHhhccC-CCCH
Q 022125          132 TGASKLLANILYSYRG-MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA---SLLSCLSVGCRVLGCIMWTVKE-GGSK  206 (302)
Q Consensus       132 ~~lAk~Ls~~ly~~R~-rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~---~~~a~Gsgs~~a~g~Le~~yk~-dmS~  206 (302)
                      .-.|..++.-++.-|. |-+..-++++  |++  .+|.+ +  -.|-.++   ++.++|||+.++++.-+..++. ++|.
T Consensus        76 ~raavelaKdwr~Dk~lr~LEAmllVa--d~~--~il~i-s--G~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~lsA  148 (178)
T COG5405          76 FRAAVELAKDWRTDKYLRKLEAMLLVA--DKT--HILII-T--GNGDVIEPEDDIIAIGSGGNYALSAARALMENTELSA  148 (178)
T ss_pred             HHHHHHHHHhhhhhhHHHHHhhheeEe--CCC--cEEEE-e--cCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCCH
Confidence            1244455555554332 4466666666  553  45544 2  3455554   5999999999999998888875 8888


Q ss_pred             HHHh
Q 022125          207 EHGS  210 (302)
Q Consensus       207 eEAi  210 (302)
                      +|-.
T Consensus       149 ~eIa  152 (178)
T COG5405         149 REIA  152 (178)
T ss_pred             HHHH
Confidence            7764

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

Probab=98.41  E-value=2.6e-06  Score=77.03  Aligned_cols=164  Identities=15%  Similarity=0.110  Sum_probs=119.0

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEe----cCcEEEEEecChhhHHHHHHHHHHHHHHhhHh-hCCcCC
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI----NPYMLGTMAGGAADCQFWHRNLGIKCRLHELA-NKRRIS  130 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I----~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~-~g~~is  130 (302)
                      |-|+|++-..|.|+++|+|...|.- .-...+|+|..    +.-+++..+|..|=.|.+...+.+..+.-..+ .-.-++
T Consensus         2 TYCv~l~l~~GlVf~sDsRTNAGvD-~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~s   80 (255)
T COG3484           2 TYCVGLILDFGLVFGSDSRTNAGVD-YISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPS   80 (255)
T ss_pred             ceEEEEEeccceEEecccccccCch-HHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcchh
Confidence            5689999999999999999886631 12356777655    33567789999999999999998877622211 123456


Q ss_pred             HHHHHHHHHHHHHH---c-c------CCCceeeEeEEEEcCCC-ceeEEEeeecCcccccc-----ceeEecchhhhHHH
Q 022125          131 VTGASKLLANILYS---Y-R------GMGLSVGTMIAGWDETV-REFMFQVFCFAFASLIA-----SLLSCLSVGCRVLG  194 (302)
Q Consensus       131 v~~lAk~Ls~~ly~---~-R------~rP~~vs~IIaG~D~~G-p~LY~idyS~D~Gg~~~-----~~~a~Gsgs~~a~g  194 (302)
                      +-.++.++.....+   + +      .--|.|++|++|-=..+ |.||.| |  |.|.++.     +|.-+|. +.+-..
T Consensus        81 m~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~I-Y--pqGNFIqaT~etpf~QiGE-tKYGKP  156 (255)
T COG3484          81 MYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLI-Y--PQGNFIQATPETPFLQIGE-TKYGKP  156 (255)
T ss_pred             HHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEE-c--cCCCeeecCCCCceeEccc-cccCch
Confidence            67777777765543   2 1      23599999999965543 779987 4  8899873     7899988 455678


Q ss_pred             HHHhhccCCCCHHHHhhhh--hhhcccccccc
Q 022125          195 CIMWTVKEGGSKEHGSLWD--QVHHMLMVYWT  224 (302)
Q Consensus       195 ~Le~~yk~dmS~eEAi~l~--~~~~~~~~~w~  224 (302)
                      +|++.+.-++.++|+.++.  ....+-|+|..
T Consensus       157 ildR~i~~~~pLeea~kcaLvS~DSTlkSNiS  188 (255)
T COG3484         157 ILDRTITYDTPLEEAAKCALVSFDSTLKSNIS  188 (255)
T ss_pred             hhhhhhhccCCHHHHhhheEEecchhhhcccc
Confidence            9999999999999999877  33444444443

>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=89.02  E-value=7.8  Score=35.26  Aligned_cols=121  Identities=14%  Similarity=-0.013  Sum_probs=67.7

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +-+||..+++|.|+|.|+|.                      +++-|.-.....|-+.         +..|+=-+=++|.
T Consensus         2 SLII~y~GknGaViaGDkR~----------------------I~F~G~~~~re~LEee---------LYsG~IktdeEL~   50 (194)
T PF09894_consen    2 SLIIAYYGKNGAVIAGDKRN----------------------IAFRGDEEKREKLEEE---------LYSGKIKTDEELL   50 (194)
T ss_pred             eEEEEEecCCCcEEecccee----------------------eeecCCHHHHHHHHHH---------HhCCccCCHHHHH
Confidence            46899999999999999984                      3566766665544442         2334333455666


Q ss_pred             HHHHHHH---H--HccC--CCceeeEe------EEEEcCCCceeEEEeeecCccccc-c-------ceeEecchh-----
Q 022125          136 KLLANIL---Y--SYRG--MGLSVGTM------IAGWDETVREFMFQVFCFAFASLI-A-------SLLSCLSVG-----  189 (302)
Q Consensus       136 k~Ls~~l---y--~~R~--rP~~vs~I------IaG~D~~Gp~LY~idyS~D~Gg~~-~-------~~~a~Gsgs-----  189 (302)
                      +....+=   +  ..|.  +-.+- ++      +.|.|..-..+|.+     .|++. .       .-...|.++     
T Consensus        51 kkA~Elgv~i~I~D~r~KV~~~~~-vlvGEV~s~~g~~skRRRiY~t-----~g~~~Ivei~~~~i~~~~~g~~sgiIVf  124 (194)
T PF09894_consen   51 KKAEELGVKIKITDDREKVRKIGD-VLVGEVTSISGKDSKRRRIYAT-----KGKYAIVEIENDEITNKSRGEGSGIIVF  124 (194)
T ss_pred             HHHHHcCCEEEEecCchheEEeCC-EEEEEEEEEcCccceeeEEEec-----CCCEEEEEecCCeEEEEecCCceeEEEE
Confidence            6555421   1  1111  11111 11      22444444566653     23331 1       122233332     


Q ss_pred             ------hhHHHHHHhhccCCCCHHHHhhhh
Q 022125          190 ------CRVLGCIMWTVKEGGSKEHGSLWD  213 (302)
Q Consensus       190 ------~~a~g~Le~~yk~dmS~eEAi~l~  213 (302)
                            ..+...|.+.|+|.|+++++..+.
T Consensus       125 GNk~~K~ia~~~lkk~~~~k~~l~~i~~i~  154 (194)
T PF09894_consen  125 GNKFTKEIANKELKKYWKPKMSLKDIENIF  154 (194)
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence                  456667999999999999887544

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	302
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		3e-41
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		1e-40
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		7e-38
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		1e-37
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		6e-36
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		1e-35
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		4e-35
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		6e-15
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		2e-11
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		1e-09
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		2e-08
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		3e-08
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		3e-08
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		3e-08
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		4e-08
3unb_N	205	Mouse Constitutive 20s Proteasome In Complex With P		4e-08
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		4e-08
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		1e-07
1iru_H	205	Crystal Structure Of The Mammalian 20s Proteasome A		1e-07
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		2e-07
3nzj_N	215	Crystal Structure Of Yeast 20s Proteasome In Comple		2e-05
2h6j_H	294	Crystal Structure Of The Beta F145a Rhodococcus Pro		3e-05
1iru_J	205	Crystal Structure Of The Mammalian 20s Proteasome A		5e-05
1g65_N	196	Crystal Structure Of Epoxomicin:20s Proteasome Reve		5e-05
1ryp_H	205	Crystal Structure Of The 20s Proteasome From Yeast		5e-05
3unb_I	205	Mouse Constitutive 20s Proteasome In Complex With P		6e-05
1q5q_H	235	The Rhodococcus 20s Proteasome Length = 235		1e-04
1q5r_H	294	The Rhodococcus 20s Proteasome With Unprocessed Pro		1e-04
1vsy_H	196	Proteasome Activator Complex Length = 196		2e-04
3unf_N	199	Mouse 20s Immunoproteasome In Complex With Pr-957 L		2e-04
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		2e-04
1iru_M	213	Crystal Structure Of The Mammalian 20s Proteasome A		7e-04
3unb_L	213	Mouse Constitutive 20s Proteasome In Complex With P		8e-04

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

Iteration: 1
 Score =  165 bits (417), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 76/106 (71%), Positives = 91/106 (85%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L 
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
            +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 106

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

Iteration: 1
 Score =  163 bits (413), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 76/106 (71%), Positives = 90/106 (84%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F  GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L 
Sbjct: 1   TTTLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
            +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDK 106

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

Iteration: 1
 Score =  154 bits (388), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 71/116 (61%), Positives = 93/116 (80%)
Query: 44  KDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGG 103
           ++    +K A GTTTLAF F+ G++VA DSRA+ G +++SQ+VKK+IEINP++LGTMAGG
Sbjct: 64  RNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGG 123
Query: 104 AADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGW 159
           AADCQFW   LG +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+
Sbjct: 124 AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGY 179

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

Iteration: 1
 Score =  153 bits (386), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 70/116 (60%), Positives = 93/116 (80%)
Query: 44  KDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGG 103
           ++    +K A GTTTLAF F+ G++VA DSRA+ G +++SQ+VK++IEINP++LGTMAGG
Sbjct: 64  RNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGG 123
Query: 104 AADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGW 159
           AADCQFW   LG +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+
Sbjct: 124 AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGY 179

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

Iteration: 1
 Score =  147 bits (372), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 68/104 (65%), Positives = 87/104 (83%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ G++VA DSRA+ G +++SQ+VKK+IEINP++LGTMAGGAADCQFW   LG
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGW 159
            +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGY 104

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

Iteration: 1
 Score =  146 bits (369), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 67/104 (64%), Positives = 87/104 (83%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ G++VA DSRA+ G +++SQ+VK++IEINP++LGTMAGGAADCQFW   LG
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGW 159
            +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGY 104

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

Iteration: 1
 Score =  144 bits (364), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 68/106 (64%), Positives = 85/106 (80%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ GV+VA DSRA+ G YISS  + K+IEINPY+LGTM+G AADCQ+W R L 
Sbjct: 1   TTTLAFKFQHGVIVAVDSRATAGSYISSLRMNKVIEINPYLLGTMSGCAADCQYWERLLA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
            +CRL+ L N  RISV+ ASKLL+N++  YRGMGLS+G+MI GWD+
Sbjct: 61  KECRLYYLRNGERISVSAASKLLSNMMLQYRGMGLSMGSMICGWDK 106

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 40/105 (38%), Positives = 63/105 (60%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTT+  + K+GV++A + RA+MG +I+S++ KKI +I   M  T AG   D QF  R + 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD 160
           I+  L+E+  +R+ +V   + L +N+L SYR     V  +I G D
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGID 105

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

Iteration: 1
 Score = 66.2 bits (160), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 35/105 (33%), Positives = 58/105 (55%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTT+  I  + V++A D RAS+G  ++ +  KK+ +I+ Y+  T+AG   D Q   R L 
Sbjct: 2   TTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLI 61
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD 160
            + +L+++   R I     + LL+NIL+S R        +I G+D
Sbjct: 62  AEAKLYKMRTGRNIPPLACATLLSNILHSSRMFPFLTQIIIGGYD 106

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 67/134 (50%), Gaps = 14/134 (10%)
Query: 39  FDEFQKDT----------KATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKK 88
           FD +Q++           KAT   + GTT +   F  GV++AAD+R++ G  ++ ++  K
Sbjct: 6   FDNYQRNNFLAENSHTQPKAT---STGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAK 62
Query: 89  IIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGM 148
           +  I+P +    AG AAD +   + +G    LH L   R   V  A ++L   L+ Y+G 
Sbjct: 63  LHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGH 122
Query: 149 GLSVGTMIAGWDET 162
            +    ++AG D T
Sbjct: 123 -IGAYLIVAGVDPT 135

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

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 57/107 (53%), Gaps = 1/107 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    ++K+G+++ AD+RA+ G  ++ ++  KI  I+P +    AG AAD     + + 
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
               LH L+  R   V  A+++L  +L+ YRG  +    ++ G D T
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGY-IGAALVLGGVDVT 106

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 34/106 (32%), Positives = 57/106 (53%), Gaps = 3/106 (2%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    +F++GV++ AD+RA+    ++ +S +KI  I P +    AG AAD +   R   
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRG-MGLSVGTMIAGWD 160
            K  LH L+  R   V   +++L   L+ Y+G +G S+  ++ G D
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASL--VVGGVD 104

>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 = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/107 (30%), Positives = 56/107 (52%), Gaps = 1/107 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +   F  GV++AAD+R++ G  ++ ++  K+  I+P +    AG AAD +   + +G
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
               LH L   R   V  A ++L   L+ Y+G  +    ++AG D T
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGH-IGAYLIVAGVDPT 106

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/107 (30%), Positives = 56/107 (52%), Gaps = 1/107 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +   F  GV++AAD+R++ G  ++ ++  K+  I+P +    AG AAD +   + +G
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
               LH L   R   V  A ++L   L+ Y+G  +    ++AG D T
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGH-IGAYLIVAGVDPT 106

>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 = 55.5 bits (132), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 30/106 (28%), Positives = 55/106 (51%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTTT+    K+ V++A + R +M  +I  ++ KK+ +I+ Y   T+AG   D Q   R +
Sbjct: 8   GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYM 67
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD 160
             +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D
Sbjct: 68  KAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID 113

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 34/105 (32%), Positives = 52/105 (49%), Gaps = 1/105 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV++ ADSR + G YI+++   K+  I+ ++    +G AAD Q     + 
Sbjct: 1   TTIMAVQFNGGVVLGADSRTTTGSYIANRVTDKLTPIHDHIFCCRSGSAADTQAVADAVT 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD 160
            +   H +       V  A+ L   + Y YR   L  G +IAGWD
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYR-EDLMAGIIIAGWD 104

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 30/106 (28%), Positives = 55/106 (51%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTTT+    K+ V++A + R +M  +I  ++ KK+ +I+ Y   T+AG   D Q   R +
Sbjct: 8   GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYM 67
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD 160
             +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D
Sbjct: 68  KAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID 113

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 31/107 (28%), Positives = 56/107 (52%), Gaps = 1/107 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    ++K+G+++ AD+RA+ G  ++ ++  KI  I+P +    AG AAD     + + 
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
               LH L   R   V  A+++L  +L+ Y+G  +    ++ G D T
Sbjct: 61  SNLELHSLTTGRLPRVVTANRMLKQMLFRYQGY-IGAALVLGGVDVT 106

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 34/105 (32%), Positives = 51/105 (48%), Gaps = 1/105 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV++ ADSR + G YI+++   K+  I+  +    +G AAD Q     + 
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD 160
            +   H +       V  A+ L   + Y YR   L  G +IAGWD
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYR-EDLMAGIIIAGWD 104

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

Iteration: 1
 Score = 53.1 bits (126), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/105 (27%), Positives = 54/105 (51%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTT+    K+ V++A + R +M  +I  ++ KK+ +I+ Y   T+AG   D Q   R + 
Sbjct: 1   TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMK 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD 160
            +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D
Sbjct: 61  AELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID 105

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 29/116 (25%), Positives = 59/116 (50%), Gaps = 2/116 (1%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GT+ +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     +
Sbjct: 19  GTSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 78
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQV 170
                L+  +     S   A+ +   + Y  +   L+ G ++AG+D+  +  ++ +
Sbjct: 79  QYHLELY-TSQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTI 132

>pdb|2H6J|H Chain H, Crystal Structure Of The Beta F145a Rhodococcus Proteasome (Casp Target) Length = 294

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 55/109 (50%), Gaps = 3/109 (2%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTT +A  +K GV++A D RA+ G  I+S+ V+K+   + Y    +AG A       R  
Sbjct: 65  GTTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLF 124
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRG---MGLSVGTMIAGWD 160
            ++   +E      ++  G +  LA+++    G    GL+V  ++ G+D
Sbjct: 125 AVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYD 173

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 52/115 (45%), Gaps = 1/115 (0%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G   +A   K  V +AAD R  +   + +   +KI  +   +   +AG A D Q   + 
Sbjct: 7   NGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQR 66
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ETVREFM 167
           L  +  L+EL   R+I       ++AN+LY  R        +IAG D +T + F+
Sbjct: 67  LKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFI 121

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 28/115 (24%), Positives = 58/115 (50%), Gaps = 2/115 (1%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           T+ +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     + 
Sbjct: 1   TSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQ 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQV 170
               L+  +     S   A+ +   + Y  +   L+ G ++AG+D+  +  ++ +
Sbjct: 61  YHLELY-TSQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTI 113

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 28/116 (24%), Positives = 58/116 (50%), Gaps = 2/116 (1%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G + +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     +
Sbjct: 9   GASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQV 170
                L+  +     S   A+ +   + Y  +   L+ G ++AG+D+  +  ++ +
Sbjct: 69  QYHLELY-TSQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTI 122

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 52/115 (45%), Gaps = 1/115 (0%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G   +A   K  V +AAD R  +   + +   +KI  +   +   +AG A D Q   + 
Sbjct: 7   NGGAVMAMKGKNCVAIAADRRFGIQAQMVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQR 66
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ETVREFM 167
           L  +  L+EL   R+I       ++AN+LY  R        +IAG D +T + F+
Sbjct: 67  LKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFI 121

>pdb|1Q5Q|H Chain H, The Rhodococcus 20s Proteasome Length = 235

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/108 (27%), Positives = 54/108 (50%), Gaps = 3/108 (2%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  +K GV++A D RA+ G  I+S+ V+K+   + Y    +AG A       R   
Sbjct: 1   TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRG---MGLSVGTMIAGWD 160
           ++   +E      ++  G +  LA+++    G    GL+V  ++ G+D
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYD 108

>pdb|1Q5R|H Chain H, The Rhodococcus 20s Proteasome With Unprocessed Pro-Peptides Length = 294

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 54/109 (49%), Gaps = 3/109 (2%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTT +A  +K GV++A D RA+ G  I+S+ V+ +   + Y    +AG A       R  
Sbjct: 65  GTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLF 124
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRG---MGLSVGTMIAGWD 160
            ++   +E      ++  G +  LA+++    G    GL+V  ++ G+D
Sbjct: 125 AVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYD 173

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/112 (24%), Positives = 56/112 (50%), Gaps = 2/112 (1%)
Query: 59  LAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKC 118
           +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     +    
Sbjct: 4   MAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHL 63
Query: 119 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQV 170
            L+  +     S   A+ +   + Y  +   L+ G ++AG+D+  +  ++ +
Sbjct: 64  ELY-TSQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTI 113

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 33/106 (31%), Positives = 53/106 (50%), Gaps = 1/106 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV+V +DSR S G  + ++   K+  ++  +   ++G AAD Q       
Sbjct: 1   TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
            +  LH L  +    V  A+ ++ NI Y YR   L    ++AGWD+
Sbjct: 61  YQLELHGLELEEPPLVLAAANVVKNISYKYR-EDLLAHLIVAGWDQ 105

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/113 (24%), Positives = 56/113 (49%), Gaps = 5/113 (4%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +GTT +    K+GV++A D R +    +  +S++KI +I+ ++    +G  AD +     
Sbjct: 37  RGTTAIGIACKDGVVLAVDRRIT-SKLVKIRSIEKIFQIDDHVAAATSGLVADARVLIDR 95
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDET 162
             ++ +++ L     IS+   +K + +I  +Y   G      V  +IAG D+ 
Sbjct: 96  ARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKN 148

>pdb|1IRU|M Chain M, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 213

Iteration: 1
 Score = 41.2 bits (95), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 27/108 (25%), Positives = 53/108 (49%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G T LA   ++  +VA+D+R S G  I ++   K  ++    +   +G   DC    + 
Sbjct: 8   NGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKI 67
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
           +  + ++++ +N + ++    + +L+ ILYS R     V  +I G DE
Sbjct: 68  IEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDE 115

>pdb|3UNB|L Chain L, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 213

Iteration: 1
 Score = 41.2 bits (95), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 27/108 (25%), Positives = 53/108 (49%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G T LA   ++  +VA+D+R S G  I ++   K  ++    +   +G   DC    + 
Sbjct: 8   NGGTVLAIAGEDFSIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKI 67
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
           +  + ++++ +N + ++    + +L+ ILYS R     V  +I G DE
Sbjct: 68  IEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDE 115

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	302
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	1e-61
1iru_L	204	20S proteasome; cell cycle, immune response, prote	1e-58
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	4e-57
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	7e-57
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	3e-56
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	8e-56
1iru_J	205	20S proteasome; cell cycle, immune response, prote	9e-54
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	2e-53
1iru_M	213	20S proteasome; cell cycle, immune response, prote	8e-53
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	3e-52
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	1e-51
1iru_H	205	20S proteasome; cell cycle, immune response, prote	2e-51
1iru_I	234	20S proteasome; cell cycle, immune response, prote	2e-51
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	4e-51
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	6e-51
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	5e-50
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	9e-50
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	1e-49
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	4e-48
1iru_N	219	20S proteasome; cell cycle, immune response, prote	1e-47
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	5e-47
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	4e-46
1iru_K	201	20S proteasome; cell cycle, immune response, prote	3e-45
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	6e-44
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	3e-42
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-17
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	2e-10
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	2e-10
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	3e-10
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	1e-09
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	2e-09
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	3e-09
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	4e-09
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	4e-09
1iru_B	233	20S proteasome; cell cycle, immune response, prote	5e-09
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	7e-09
1iru_G	254	20S proteasome; cell cycle, immune response, prote	7e-09
1iru_D	248	20S proteasome; cell cycle, immune response, prote	8e-09
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	1e-08
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	3e-08
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	3e-08
1iru_C	261	20S proteasome; cell cycle, immune response, prote	3e-08
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	4e-08
1iru_E	241	20S proteasome; cell cycle, immune response, prote	6e-08
1iru_A	246	20S proteasome; cell cycle, immune response, prote	8e-08
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	1e-07
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	1e-07
1iru_F	263	20S proteasome; cell cycle, immune response, prote	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06

>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 =  196 bits (499), Expect = 1e-61
 Identities = 76/141 (53%), Positives = 101/141 (71%), Gaps = 7/141 (4%)

Query: 28  APSFSLPLSTDFDEFQ-------KDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGY 80
           APS ++P      +F        ++    +K A GTTTLAF F+ G++VA DSRA+ G +
Sbjct: 41  APSLTVPPIASPQQFLRAHTDDSRNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNW 100

Query: 81  ISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLAN 140
           ++SQ+VKK+IEINP++LGTMAGGAADCQFW   LG +CRLHEL  K RISV  ASK+L+N
Sbjct: 101 VASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSN 160

Query: 141 ILYSYRGMGLSVGTMIAGWDE 161
           ++Y Y+G GLS+GTMI G+  
Sbjct: 161 LVYQYKGAGLSMGTMICGYTR 181

>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 =  185 bits (473), Expect = 1e-58
 Identities = 76/107 (71%), Positives = 91/107 (85%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L 
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
            +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ 
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKR 107

>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 =  182 bits (464), Expect = 4e-57
 Identities = 31/112 (27%), Positives = 57/112 (50%), Gaps = 2/112 (1%)

Query: 50  LKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF 109
           L+   GTTT+    K+ V++A + R +M  +I  ++ KK+ +I+ Y   T+AG   D Q 
Sbjct: 5   LET--GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQV 62

Query: 110 WHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
             R +  +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D 
Sbjct: 63  LVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGIDT 114

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

 Score =  181 bits (461), Expect = 7e-57
 Identities = 40/107 (37%), Positives = 63/107 (58%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTT+  + K+GV++A + RA+MG +I+S++ KKI +I   M  T AG   D QF  R + 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
           I+  L+E+  +R+ +V   + L +N+L SYR     V  +I G D  
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSE 107

>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 =  179 bits (457), Expect = 3e-56
 Identities = 67/106 (63%), Positives = 87/106 (82%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ G++VA DSRA+ G +++SQ+VK++IEINP++LGTMAGGAADCQFW   LG
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
            +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+  
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTR 106

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

 Score =  178 bits (455), Expect = 8e-56
 Identities = 4/106 (3%), Positives = 13/106 (12%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           +                       Y    + + +      +      G            
Sbjct: 2   SHMQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSK 61

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE 161
           +          +      A+                +   I     
Sbjct: 62  LVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTY 107

>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 =  173 bits (440), Expect = 9e-54
 Identities = 30/112 (26%), Positives = 47/112 (41%)

Query: 51  KHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFW 110
               G   +A   K  V +AAD R  +   + +   +KI  +   +   +AG A D Q  
Sbjct: 4   MSYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTV 63

Query: 111 HRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
            + L  +  L+EL   R+I       ++AN+LY  R        +IAG D  
Sbjct: 64  AQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPK 115

>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 =  173 bits (440), Expect = 2e-53
 Identities = 32/107 (29%), Positives = 54/107 (50%), Gaps = 1/107 (0%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    +F++GV++ AD+RA+    ++ +S +KI  I P +    AG AAD +   R   
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
            K  LH L+  R   V   +++L   L+ Y+G  +    ++ G D  
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGH-VGASLVVGGVDLN 106

>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 =  171 bits (435), Expect = 8e-53
 Identities = 27/108 (25%), Positives = 53/108 (49%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G T LA   ++  +VA+D+R S G  I ++   K  ++    +   +G   DC    + +
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
             + ++++ +N + ++    + +L+ ILYS R     V  +I G DE 
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEE 116

>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 =  171 bits (435), Expect = 3e-52
 Identities = 37/132 (28%), Positives = 64/132 (48%), Gaps = 8/132 (6%)

Query: 38  DFDEFQKDT-------KATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKII 90
            FD +Q++              + GTT +   F  GV++AAD+R++ G  ++ ++  K+ 
Sbjct: 5   SFDNYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLH 64

Query: 91  EINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGL 150
            I+P +    AG AAD +   + +G    LH L   R   V  A ++L   L+ Y+G  +
Sbjct: 65  RISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGH-I 123

Query: 151 SVGTMIAGWDET 162
               ++AG D T
Sbjct: 124 GAYLIVAGVDPT 135

>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 =  167 bits (425), Expect = 1e-51
 Identities = 33/107 (30%), Positives = 53/107 (49%), Gaps = 1/107 (0%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV+V +DSR S G  + ++   K+  ++  +   ++G AAD Q       
Sbjct: 1   TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAA 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
            +  LH L  +    V  A+ ++ NI Y YR   L    ++AGWD+ 
Sbjct: 61  YQLELHGLELEEPPLVLAAANVVKNISYKYRE-DLLAHLIVAGWDQR 106

>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 =  167 bits (425), Expect = 2e-51
 Identities = 34/107 (31%), Positives = 51/107 (47%), Gaps = 1/107 (0%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV++ ADSR + G YI+++   K+  I+  +    +G AAD Q     + 
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
            +   H +       V  A+ L   + Y YR   L  G +IAGWD  
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYRE-DLMAGIIIAGWDPQ 106

>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 =  168 bits (427), Expect = 2e-51
 Identities = 32/107 (29%), Positives = 57/107 (53%), Gaps = 1/107 (0%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    ++K+G+++ AD+RA+ G  ++ ++  KI  I+P +    AG AAD     + + 
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
               LH L+  R   V  A+++L  +L+ YRG  +    ++ G D T
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGY-IGAALVLGGVDVT 106

>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 =  167 bits (424), Expect = 4e-51
 Identities = 33/107 (30%), Positives = 56/107 (52%), Gaps = 1/107 (0%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +   F  GV++AAD+R++ G  ++ ++  K+  I+P +    AG AAD +   + +G
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
               LH L   R   V  A ++L   L+ Y+G  +    ++AG D T
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGH-IGAYLIVAGVDPT 106

>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 =  169 bits (428), Expect = 6e-51
 Identities = 39/168 (23%), Positives = 67/168 (39%), Gaps = 13/168 (7%)

Query: 6   SGLESTSPFFGSG--------DELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTT 57
           +G   T   FGS             PEL           +       ++     H  GTT
Sbjct: 10  TGDRDTRLSFGSNLSSFTDYLRGHAPELLPENRIGHRSHSTRGGDGMESGDLAPH--GTT 67

Query: 58  TLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIK 117
            +A  +K GV++A D RA+ G  I+S+ V+ +   + Y    +AG A       R   ++
Sbjct: 68  IVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVE 127

Query: 118 CRLHELANKRRISVTGASKLLANILYSYRGM---GLSVGTMIAGWDET 162
              +E      ++  G +  LA+++    G    GL+V  ++ G+D  
Sbjct: 128 LEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLD 175

>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 =  163 bits (415), Expect = 5e-50
 Identities = 29/112 (25%), Positives = 56/112 (50%), Gaps = 2/112 (1%)

Query: 51  KHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFW 110
           + + G + +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q  
Sbjct: 5   EVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAI 64

Query: 111 HRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
              +     L+        + T AS +   + Y  +   L+ G ++AG+D+ 
Sbjct: 65  ADIVQYHLELYTSQYGTPSTETAAS-VFKELCYENKDN-LTAGIIVAGYDDK 114

>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 =  165 bits (420), Expect = 9e-50
 Identities = 36/139 (25%), Positives = 58/139 (41%), Gaps = 5/139 (3%)

Query: 25  LSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQ 84
           L       LP S           A L H  GTT +A  +  GV++A D R++ G  IS +
Sbjct: 29  LRRQAPELLPASISGGAPLAGGDAQLPH--GTTIVALKYPGGVVMAGDRRSTQGNMISGR 86

Query: 85  SVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYS 144
            V+K+   + Y    +AG AA    + R   ++   +E      ++  G    LA ++  
Sbjct: 87  DVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRG 146

Query: 145 ---YRGMGLSVGTMIAGWD 160
                  GL    ++AG+D
Sbjct: 147 NLAAAMQGLLALPLLAGYD 165

>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 =  162 bits (413), Expect = 1e-49
 Identities = 28/108 (25%), Positives = 45/108 (41%), Gaps = 1/108 (0%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G   +A   K+ V +A D R        S   +KI       LG + G A D    +   
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLG-ITGLATDVTTLNEMF 66

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
             K  L++L  +R I     ++L+++ LY  R     VG ++AG +  
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSK 114

>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 =  159 bits (404), Expect = 4e-48
 Identities = 26/117 (22%), Positives = 54/117 (46%), Gaps = 1/117 (0%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G T L    ++  ++A D+R      I+S+   K+ +    ++ +  G AAD     +  
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 115 GIKCRLHELA-NKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQV 170
               + +    N +++S+  A++ + ++LY  R     V T+IAG DE  +  ++  
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSF 125

>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 =  158 bits (401), Expect = 1e-47
 Identities = 29/114 (25%), Positives = 48/114 (42%), Gaps = 3/114 (2%)

Query: 52  HAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWH 111
              GT+ L   F+ GV++AAD   S G     +++ +I+ +N   +   +G  AD Q+  
Sbjct: 5   MVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLK 64

Query: 112 RNLGIKCRLHELA-NKRRISVTGASKLLANILYSYRG--MGLSVGTMIAGWDET 162
           + LG      EL  +    S       L   +YS R     L    +I G+ + 
Sbjct: 65  QVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADG 118

>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 =  155 bits (394), Expect = 5e-47
 Identities = 20/108 (18%), Positives = 42/108 (38%), Gaps = 2/108 (1%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
              L    ++ V++A+    + G  +   S  K  +++P+ L + AG A D   +   + 
Sbjct: 2   DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQ 61

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSY--RGMGLSVGTMIAGWDE 161
              +L+ +     +S    S  +   L           V  +I G+D+
Sbjct: 62  ANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDK 109

>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 =  154 bits (391), Expect = 4e-46
 Identities = 30/110 (27%), Positives = 54/110 (49%), Gaps = 3/110 (2%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  +K GV++A D RA+ G  I+S+ V+K+   + Y    +AG A       R   
Sbjct: 1   TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFA 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGM---GLSVGTMIAGWDET 162
           ++   +E      ++  G +  LA+++    G    GL+V  ++ G+D  
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLD 110

>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 =  151 bits (383), Expect = 3e-45
 Identities = 21/108 (19%), Positives = 42/108 (38%), Gaps = 2/108 (1%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
              +     + V+VA+D  A+           K+ +++  +L    G A D   +   + 
Sbjct: 2   EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQ 61

Query: 116 IKCRLHELANKRRISVTGASKLLANILYS--YRGMGLSVGTMIAGWDE 161
              +L+++ N   +S T A+      L           V  ++AG+DE
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDE 109

>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 =  149 bits (377), Expect = 6e-44
 Identities = 26/126 (20%), Positives = 53/126 (42%), Gaps = 7/126 (5%)

Query: 52  HAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWH 111
              GT+ ++  +  GV++AAD+  S G  +    V+++I +    +  ++G  +D Q   
Sbjct: 5   IVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIE 64

Query: 112 RNLGIKCRLHELAN-----KRRISVTGASKLLANILYSYRGMG--LSVGTMIAGWDETVR 164
           R L      +   N     +  +  +   + LA ++Y  R     L    ++AG      
Sbjct: 65  RLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGD 124

Query: 165 EFMFQV 170
           +F+  V
Sbjct: 125 QFLRYV 130

>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 =  145 bits (367), Expect = 3e-42
 Identities = 26/125 (20%), Positives = 53/125 (42%), Gaps = 7/125 (5%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
             GT+ ++  +  GV++AAD+  S G  +    V+++I +    +  ++G  +D Q   R
Sbjct: 39  VTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIER 98

Query: 113 NLGIKCRLHELAN-----KRRISVTGASKLLANILYSYRGMG--LSVGTMIAGWDETVRE 165
            L      +   N     +  +  +   + LA ++Y  R     L    ++AG      +
Sbjct: 99  LLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQ 158

Query: 166 FMFQV 170
           F+  V
Sbjct: 159 FLRYV 163

>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 = 79.7 bits (196), Expect = 2e-17
 Identities = 17/148 (11%), Positives = 54/148 (36%), Gaps = 14/148 (9%)

Query: 32  SLPLSTDFDEFQKDTKATLKHA--KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKI 89
           ++P     ++  +D     +    +G + +   F++GV+  A++ ++        ++ K+
Sbjct: 2   TMPYYASAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENPST--------ALHKV 53

Query: 90  IEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELA-NKRRISVTGASKLLANIL---YSY 145
            E+   +     G   + +   R   +   +   + ++R ++    +   A  L   ++ 
Sbjct: 54  SELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE 113

Query: 146 RGMGLSVGTMIAGWDETVREFMFQVFCF 173
           +     V   +A           Q++  
Sbjct: 114 QPKPYEVEICVAEVGRVGSPKAPQLYRI 141

>1g3k_A ATP-dependent protease HSLV; hydrolase; 1.90A {Haemophilus influenzae} SCOP: d.153.1.4 PDB: 1g3i_G 1jjw_A 1kyi_G* 1ofh_G* 1ofi_G* 1e94_A* 1g4a_B* 1g4b_M 1hqy_A* 1ht1_C* 1ht2_A* 1ned_A Length = 174

 Score = 58.1 bits (140), Expect = 2e-10
 Identities = 20/104 (19%), Positives = 39/104 (37%), Gaps = 7/104 (6%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINP-YMLGTMAGGAADCQFWHRNL 114
           TT ++      V+V  D + S+G  +   + +K+  +    +L   AGG AD        
Sbjct: 1   TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELF 60

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAG 158
             K  +H+    +      ++  LA    + R +      +I  
Sbjct: 61  ERKLEMHQGHLLK------SAVELAKDWRTDRALRKLEAMLIVA 98

>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine residue, hydrolase; 2.10A {Thermotoga maritima} SCOP: d.153.1.4 Length = 171

 Score = 57.7 bits (139), Expect = 2e-10
 Identities = 15/99 (15%), Positives = 29/99 (29%), Gaps = 1/99 (1%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINP-YMLGTMAGGAADCQFWHRNL 114
           TT L        ++  D + + G  +   + +K+ ++    +L   AG  AD        
Sbjct: 1   TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF 60

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVG 153
             K R       +             +L     + L   
Sbjct: 61  EAKLREWGGNLTKAAVELAKDWRTDRVLRRLEALLLVAD 99

>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 = 57.3 bits (138), Expect = 3e-10
 Identities = 17/102 (16%), Positives = 33/102 (32%), Gaps = 2/102 (1%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQ-SVKKIIEINP-YMLGTMAGGAADCQFWH 111
             TT  A   K    ++ D + + G  +  + + +K+ ++    +L   AG  AD     
Sbjct: 4   HATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLF 63

Query: 112 RNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVG 153
                K   +    KR             +L     M + + 
Sbjct: 64  EKFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMN 105

>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 = 56.5 bits (136), Expect = 1e-09
 Identities = 18/128 (14%), Positives = 45/128 (35%), Gaps = 12/128 (9%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           A+  + +A  +  GV+  A++ +         S++KI E+   +    AG   +     R
Sbjct: 25  ARAKSVVALAYAGGVLFVAENPSR--------SLQKISELYDRVGFAAAGKFNEFDNLRR 76

Query: 113 NLGIKCRLHELA-NKRRISVTGASKLLANIL---YSYRGMGLSVGTMIAGWDETVREFMF 168
                      A ++R ++    + + A  L   ++ +     V   +A           
Sbjct: 77  GGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRP 136

Query: 169 QVFCFAFA 176
           +++   + 
Sbjct: 137 ELYRITYD 144

>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 = 56.1 bits (136), Expect = 2e-09
 Identities = 27/130 (20%), Positives = 59/130 (45%), Gaps = 18/130 (13%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +GT  +    K  V++  + R+++    +  +  K+ +I+ +++ + +G  AD     R 
Sbjct: 27  RGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADS----RI 82

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETV 163
           L  K R+    H L  +  ++V   ++ +A +          R  G  V T+IAG+D   
Sbjct: 83  LIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFG--VSTLIAGFDP-- 138

Query: 164 REFMFQVFCF 173
           R+   +++  
Sbjct: 139 RDDEPKLYQT 148

>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 = 55.4 bits (134), Expect = 3e-09
 Identities = 23/118 (19%), Positives = 46/118 (38%), Gaps = 16/118 (13%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
              T +  +  +G+++AA+ + +        S +K+ ++N  +   +AG  AD       
Sbjct: 30  HAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADA----EI 85

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDE 161
           L    R+    +       I V    + L++I          R  G  V  + AG+D+
Sbjct: 86  LINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFG--VSFIYAGYDD 141

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

 Score = 55.0 bits (133), Expect = 4e-09
 Identities = 29/126 (23%), Positives = 53/126 (42%), Gaps = 17/126 (13%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G T +    KEGV++ AD R      +   +++KI +I+ ++    +G  AD     R 
Sbjct: 33  RGATAIGIKCKEGVILIADKRVG-SKLLEKDTIEKIYKIDEHICAATSGLVADA----RV 87

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETV 163
           L  + R+    + L     I+V   +K + +           R  G  V  +IAG +E  
Sbjct: 88  LIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFG--VSLLIAGVNEVP 145

Query: 164 REFMFQ 169
           + +   
Sbjct: 146 KLYETD 151

>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 = 54.5 bits (132), Expect = 5e-09
 Identities = 23/119 (19%), Positives = 44/119 (36%), Gaps = 17/119 (14%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G  ++      GV++A + +         +SV K+  I  ++    +G   D     R 
Sbjct: 30  GGAPSVGIKAANGVVLATEKKQK-SILYDERSVHKVEPITKHIGLVYSGMGPDY----RV 84

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDET 162
           L  + R     + L  +  I      + +A+++         R  G  V  +I GW+E 
Sbjct: 85  LVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFG--VSLLICGWNEG 141

>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 = 54.2 bits (131), Expect = 7e-09
 Identities = 28/119 (23%), Positives = 49/119 (41%), Gaps = 17/119 (14%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T L   F  GV++ +D +      I   S++KI  I+ Y+    +G  AD     R 
Sbjct: 33  KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADA----RV 87

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDET 162
           L    R+     ++     +++    K +A+ +         R  G  V  + AG D+ 
Sbjct: 88  LVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYG--VSLIFAGIDQI 144

>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 = 54.7 bits (132), Expect = 7e-09
 Identities = 19/118 (16%), Positives = 39/118 (33%), Gaps = 17/118 (14%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
             +T +    K+GV+   +       Y    S K++  ++ ++   +AG  AD     R+
Sbjct: 32  NSSTAIGIRCKDGVVFGVEKLVLSKLYEEG-SNKRLFNVDRHVGMAVAGLLADA----RS 86

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDE 161
           L    R             I +   +  +A  +       + R  G     M+  +  
Sbjct: 87  LADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFG--CSFMLGSYSV 142

>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 = 54.2 bits (131), Expect = 8e-09
 Identities = 22/130 (16%), Positives = 55/130 (42%), Gaps = 20/130 (15%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T +    ++ V++  + ++        ++V+KI  ++  +    AG  AD     R 
Sbjct: 28  KGSTAVGVRGRDIVVLGVEKKSV-AKLQDERTVRKICALDDNVCMAFAGLTADA----RI 82

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETV 163
           +  + R+    H L  +  ++V   ++ +A++          R  G  +  +I G+D   
Sbjct: 83  VINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFG--ISALIVGFDF-- 138

Query: 164 REFMFQVFCF 173
            +   +++  
Sbjct: 139 -DGTPRLYQT 147

>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 = 53.8 bits (130), Expect = 1e-08
 Identities = 20/129 (15%), Positives = 40/129 (31%), Gaps = 20/129 (15%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
              +LA   K+  +V +  +        + +V  I  I+  +   + G   D     RN 
Sbjct: 30  NINSLAVRGKDCTVVISQKKVPDKLLDPT-TVSYIFCISRTIGMVVNGPIPDA----RNA 84

Query: 115 GIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETVR 164
            ++ +             +     +K +AN+          R +G  V       DE   
Sbjct: 85  ALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLG--VILTFVSVDE--- 139

Query: 165 EFMFQVFCF 173
           E    ++  
Sbjct: 140 ELGPSIYKT 148

>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 = 52.6 bits (127), Expect = 3e-08
 Identities = 24/118 (20%), Positives = 44/118 (37%), Gaps = 17/118 (14%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            GTT++     +GV+ A +   +    +  Q   KI  ++ ++    +G   D     R+
Sbjct: 29  NGTTSIGIKCNDGVVFAVEKLIT-SKLLVPQKNVKIQVVDRHIGCVYSGLIPDG----RH 83

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDE 161
           L  + R      +   K  I +   +  L   +       S R  G  V T+  G D+
Sbjct: 84  LVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFG--VSTIFGGVDK 139

>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 = 53.1 bits (128), Expect = 3e-08
 Identities = 24/118 (20%), Positives = 44/118 (37%), Gaps = 17/118 (14%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            GTT++     +GV+ A +   +    +  Q   KI  ++ ++    +G   D     R+
Sbjct: 33  NGTTSIGIKCNDGVVFAVEKLIT-SKLLVPQKNVKIQVVDRHIGCVYSGLIPDG----RH 87

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDE 161
           L  + R      +   K  I +   +  L   +       S R  G  V T+  G D+
Sbjct: 88  LVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFG--VSTIFGGVDK 143

>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 = 52.7 bits (127), Expect = 3e-08
 Identities = 27/118 (22%), Positives = 44/118 (37%), Gaps = 16/118 (13%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
              T L  +  +GV++AA+ R            +KI ++N  M  ++AG  +D       
Sbjct: 30  HAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDA----NV 85

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDE 161
           L  + RL    + L  +  I        L +I          R  G  V  +  GWD+
Sbjct: 86  LTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFG--VSLLYIGWDK 141

>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 = 51.9 bits (125), Expect = 4e-08
 Identities = 27/119 (22%), Positives = 46/119 (38%), Gaps = 18/119 (15%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G T+L      GV++A + ++S    +S  ++ K+  + P +    +G   D     R 
Sbjct: 30  QGVTSLGIKATNGVVIATEKKSSSPLAMSE-TLSKVSLLTPDIGAVYSGMGPDY----RV 84

Query: 114 LGIKCRLHELANKRR-----ISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDE 161
           L  K R     + +R              +A I+         R  G  V  +IAG DE
Sbjct: 85  LVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFG--VSLLIAGHDE 141

>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 = 51.4 bits (124), Expect = 6e-08
 Identities = 28/121 (23%), Positives = 51/121 (42%), Gaps = 18/121 (14%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G+T +     EGV +A + R +      S S++KI+EI+ ++   M+G  AD     + 
Sbjct: 33  LGSTAIGIQTSEGVCLAVEKRITSPLMEPS-SIEKIVEIDAHIGCAMSGLIADA----KT 87

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANI-----LYSYRGMGLS----VGTMIAGWD 160
           L  K R+    H       ++V   ++ ++N+             +S    V  +  G D
Sbjct: 88  LIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVD 147

Query: 161 E 161
           E
Sbjct: 148 E 148

>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 = 51.0 bits (123), Expect = 8e-08
 Identities = 27/129 (20%), Positives = 46/129 (35%), Gaps = 20/129 (15%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G T++A   K+  ++    +       SS +V  + +I   +   M G  AD     R+ 
Sbjct: 36  GLTSVAVRGKDCAVIVTQKKVPDKLLDSS-TVTHLFKITENIGCVMTGMTADS----RSQ 90

Query: 115 GIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETVR 164
             + R      +      I V    K +A+I          R +G     ++ G DE   
Sbjct: 91  VQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLG--CCMILIGIDE--- 145

Query: 165 EFMFQVFCF 173
           E   QV+  
Sbjct: 146 EQGPQVYKC 154

>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 = 50.7 bits (122), Expect = 1e-07
 Identities = 30/122 (24%), Positives = 50/122 (40%), Gaps = 25/122 (20%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQ---SVKKIIEINPYMLGTMAGGAADCQFW 110
           +G+ T+        ++ A  R       + +     KKII+ + +M  ++AG A D    
Sbjct: 30  QGSVTVGLRSNTHAVLVALKR------NADELSSYQKKIIKCDEHMGLSLAGLAPDA--- 80

Query: 111 HRNLGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWD 160
            R L    R       L   R+++V  A  LL +        Y  R  G  VG +I G+D
Sbjct: 81  -RVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYG--VGLLIIGYD 137

Query: 161 ET 162
           ++
Sbjct: 138 KS 139

>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 = 50.4 bits (121), Expect = 1e-07
 Identities = 32/134 (23%), Positives = 58/134 (43%), Gaps = 22/134 (16%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G+T +    KEGV++  + RA+     S  S++KI+EI+ ++   M+G  AD     R+
Sbjct: 25  LGSTAIGIATKEGVVLGVEKRATSPLLESD-SIEKIVEIDRHIGCAMSGLTADA----RS 79

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANI-----LYSYRGMGLS-----VGTMIAGW 159
           +    R     H L     I+V   ++ + ++       +     L      V  +IAG 
Sbjct: 80  MIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGH 139

Query: 160 DETVREFMFQVFCF 173
           D    +  +Q+F  
Sbjct: 140 DA---DDGYQLFHA 150

>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 = 50.4 bits (121), Expect = 2e-07
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 25/122 (20%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQ---SVKKIIEINPYMLGTMAGGAADCQFW 110
           +G+ T+    K   ++ A  R        S+     KKI+ ++ ++  ++AG  AD    
Sbjct: 31  QGSATVGLKSKTHAVLVALKR------AQSELAAHQKKILHVDNHIGISIAGLTADA--- 81

Query: 111 HRNLGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWD 160
            R L    R           R + V+    L+ +        Y  R  G  VG +IAG+D
Sbjct: 82  -RLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYG--VGLLIAGYD 138

Query: 161 ET 162
           + 
Sbjct: 139 DM 140

>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 = 47.9 bits (113), Expect = 3e-06
 Identities = 31/200 (15%), Positives = 61/200 (30%), Gaps = 53/200 (26%)

Query: 110 WHRN----LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGW--DETV 163
            +        + C+         I +T   K + + L +     +S+         DE  
Sbjct: 254 QNAKAWNAFNLSCK---------ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304

Query: 164 REFMFQVFCFAFASLIASLLSC---------LSVGCRVLGCIMWTVKEGGS-KEHGSLWD 213
                        SL+   L C         L+   R L  I        S ++  + WD
Sbjct: 305 -------------SLLLKYLDCRPQDLPREVLTTNPRRLSII------AESIRDGLATWD 345

Query: 214 QVHHMLMVYWTAGTSLTCLLKKL-----RSWLEELFIMRHSEMQPVVVLQAFIMWDQMDG 268
              H+        T +   L  L     R   + L +   S   P ++L   ++W  +  
Sbjct: 346 NWKHVN--CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS--LIWFDVIK 401

Query: 269 RSCLVMMLESFTTIIIQSHP 288
              +V++ +     +++  P
Sbjct: 402 SDVMVVVNKLHKYSLVEKQP 421

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	302
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	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_K	201	20S proteasome; cell cycle, immune response, prote	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.96
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.96
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.96

>3nzj_K Proteasome component PRE2; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_K* 3nzx_K* 4b4t_5

Probab=100.00  E-value=2.3e-39  Score=303.74  Aligned_cols=186  Identities=44%  Similarity=0.700  Sum_probs=147.2

Q ss_pred             cccC-CCCCCCCCCCCcchhHhhhhh-------hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCc
Q 022125           24 ELSA-APSFSLPLSTDFDEFQKDTKA-------TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPY   95 (302)
Q Consensus        24 ~~~~-~~~~~~p~~~~~~~~~~~~~~-------~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~   95 (302)
                      .+.. ++.|++|+..+|..|++...+       ..+|.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|+++
T Consensus        36 ~~~~~~~~~~~p~~~~p~~~~~~~~~~~~~~~~~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~  115 (287)
T 3nzj_K           36 QFQRLAPSLTVPPIASPQQFLRAHTDDSRNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPF  115 (287)
T ss_dssp             ----------------------------------------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETT
T ss_pred             CCCCCCcccccCCCCCHHHHHHHhcccccccchhhheccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCc
Confidence            3344 679999999999999987543       67999999999999999999999999999999999999999999999


Q ss_pred             EEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEc-CCCceeEEEeeecC
Q 022125           96 MLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ETVREFMFQVFCFA  174 (302)
Q Consensus        96 i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D-~~Gp~LY~idyS~D  174 (302)
                      +++++||..||++.+.++++.+++.|+++++++++++.+|+++++++|.+|.+||++++|||||| ++||+||++|   +
T Consensus       116 i~~~~aG~~AD~~~l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~~p~~v~~lvaG~D~~~gp~Ly~iD---p  192 (287)
T 3nzj_K          116 LLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVD---S  192 (287)
T ss_dssp             EEEECEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETTTEEEEEEEE---T
T ss_pred             EEEEecCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCCEEEEEC---C
Confidence            99999999999999999999999999999999999999999999999999999999999999999 5789999997   4


Q ss_pred             cccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          175 FASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       175 ~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      .|..+. ++.++|+|+.+++++||+.|+++||++||+++
T Consensus       193 ~G~~~~~~~~AiGsgs~~a~~~Le~~y~~dms~eEAi~l  231 (287)
T 3nzj_K          193 DGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  231 (287)
T ss_dssp             TCCEEECSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHH
T ss_pred             CceEEEcCeEEEecchHHHHHHHHHhhcCCCCHHHHHHH
Confidence            566665 99999999999999999999999999999843

>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=7.1e-38  Score=280.82  Aligned_cols=157  Identities=24%  Similarity=0.294  Sum_probs=145.7

Q ss_pred             cccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcC
Q 022125           50 LKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRI  129 (302)
Q Consensus        50 ~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~i  129 (302)
                      +++.+|+|+|||+++||||||+|+|.+.|+++.+++.+||++|++++++++||..+|++.+.++++.+++.|++++++++
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            35689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHH
Q 022125          130 SVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEH  208 (302)
Q Consensus       130 sv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eE  208 (302)
                      +++.+|+++++++|.+|.|||++++|||||| +||+||++|   +.|..+. ++.++|+|+.+++++||+.|+++||.+|
T Consensus        83 ~v~~la~~l~~~~~~~r~rp~~v~~lvaG~D-~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~ee  158 (217)
T 1yar_H           83 PIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSID---AAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDE  158 (217)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCCCEEEEEEEES-SSEEEEEEC---TTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHH
T ss_pred             CHHHHHHHHHHHHHhcCCCCceEEEEEEEEC-CCCEEEEEC---CCCCeEecCEEEEcCCHHHHHHHHHhhcccCCCHHH
Confidence            9999999999999999999999999999999 999999986   4566655 8999999999999999999999999999


Q ss_pred             Hh
Q 022125          209 GS  210 (302)
Q Consensus       209 Ai  210 (302)
                      |+
T Consensus       159 a~  160 (217)
T 1yar_H          159 GV  160 (217)
T ss_dssp             HH
T ss_pred             HH
Confidence            98

>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=2e-37  Score=276.10  Aligned_cols=161  Identities=20%  Similarity=0.176  Sum_probs=151.4

Q ss_pred             CcchhHhhhhhhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHH
Q 022125           38 DFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIK  117 (302)
Q Consensus        38 ~~~~~~~~~~~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e  117 (302)
                      +|+||.         ++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..||++.+.++++.+
T Consensus         1 ~~~p~v---------~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~   71 (213)
T 1iru_M            1 RFSPYV---------FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEAR   71 (213)
T ss_dssp             CCCSCC---------CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCCcc---------CCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHH
Confidence            367777         89999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCCC-ceeEEEeeecCcccccc-ceeEecchhhhHHHH
Q 022125          118 CRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETV-REFMFQVFCFAFASLIA-SLLSCLSVGCRVLGC  195 (302)
Q Consensus       118 ~~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~G-p~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~  195 (302)
                      ++.|+++++++++++.+|+++++++|.+|.+||++++||||||++| |+||.+|   +.|.... ++.++|+|+.+++++
T Consensus        72 ~~~~~~~~~~~~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~g~p~Ly~id---~~G~~~~~~~~aiGsg~~~a~~~  148 (213)
T 1iru_M           72 LKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFD---PVGSYQRDSFKAGGSASAMLQPL  148 (213)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEECTTSCEEEEEEC---TTSCEEEESEEEEETTHHHHHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEcCCCCEEEEEEC---CCCCEEECCEEEEeeCHHHHHHH
Confidence            9999999999999999999999999998899999999999999765 9999986   3555444 899999999999999


Q ss_pred             HHhh---------ccCCCCHHHHh
Q 022125          196 IMWT---------VKEGGSKEHGS  210 (302)
Q Consensus       196 Le~~---------yk~dmS~eEAi  210 (302)
                      ||+.         |+++||++||+
T Consensus       149 Le~~~~~~~~~~~~~~~~s~eea~  172 (213)
T 1iru_M          149 LDNQVGFKNMQNVEHVPLSLDRAM  172 (213)
T ss_dssp             HHHHTTCCSCSSCCCCCCCHHHHH
T ss_pred             HhhccccccccccCCCCCCHHHHH
Confidence            9999         88999999998

>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=4.5e-37  Score=276.46  Aligned_cols=155  Identities=18%  Similarity=0.137  Sum_probs=147.3

Q ss_pred             ccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhC-CcCCH
Q 022125           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANK-RRISV  131 (302)
Q Consensus        53 ~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g-~~isv  131 (302)
                      ++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..||++.+.+.++.+++.|+++++ +++++
T Consensus         7 ~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v   86 (222)
T 1ryp_M            7 DNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSI   86 (222)
T ss_dssp             CCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCH
T ss_pred             cCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCCH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999 99999


Q ss_pred             HHHHHHHHHHHHHccCCCceeeEeEEEEcCCC-ceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhh----------
Q 022125          132 TGASKLLANILYSYRGMGLSVGTMIAGWDETV-REFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWT----------  199 (302)
Q Consensus       132 ~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~G-p~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~----------  199 (302)
                      +.+|+++++++|.+|++||++++||||||++| |+||.+|   +.|.... ++.++|+++.+++++||+.          
T Consensus        87 ~~la~~l~~~ly~~r~~P~~v~~ivaG~D~~g~p~Ly~~d---p~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~~~  163 (222)
T 1ryp_M           87 NSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFD---PVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPG  163 (222)
T ss_dssp             HHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEEC---TTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTT
T ss_pred             HHHHHHHHHHHHhcCCCCceEEEEEEEEcCCCCeEEEEEC---CCcCEEecCEEEEcCcHHHHHHHHhcccccccccccc
Confidence            99999999999999999999999999999765 9999986   3555544 8999999999999999998          


Q ss_pred             -------ccCCCCHHHHh
Q 022125          200 -------VKEGGSKEHGS  210 (302)
Q Consensus       200 -------yk~dmS~eEAi  210 (302)
                             |+++||++||+
T Consensus       164 ~~~~~~~~~~~~s~eeA~  181 (222)
T 1ryp_M          164 TNGKVKKPLKYLSVEEVI  181 (222)
T ss_dssp             STTCSBCCCCCCCHHHHH
T ss_pred             cccccccCCCCCCHHHHH
Confidence                   89999999998

>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_H* 3nzx_H* 4b4t_2

Probab=100.00  E-value=6.7e-37  Score=283.30  Aligned_cols=169  Identities=26%  Similarity=0.330  Sum_probs=144.4

Q ss_pred             CcchhHhhhh-------hhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHH
Q 022125           38 DFDEFQKDTK-------ATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFW  110 (302)
Q Consensus        38 ~~~~~~~~~~-------~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l  110 (302)
                      +|+++.|+..       .++|+++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..||++.+
T Consensus         5 ~~~~~~rn~~~~~~~~~~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l   84 (261)
T 3nzj_H            5 SFDNYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAV   84 (261)
T ss_dssp             -------------------------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHH
T ss_pred             CchhhhhHHHHHhcCCCCCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHH
Confidence            5666666542       378999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchh
Q 022125          111 HRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVG  189 (302)
Q Consensus       111 ~~~lr~e~~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs  189 (302)
                      .+.++.+++.|+++++++++++.+++++++.+|.++ +||++++||||||++||+||++|   +.|.... ++.++|+|+
T Consensus        85 ~~~lr~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~-~~~gv~llvaG~D~~Gp~Ly~iD---p~G~~~~~~~~aiGsgs  160 (261)
T 3nzj_H           85 TQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ-GHIGAYLIVAGVDPTGSHLFSIH---AHGSTDVGYYLSLGSGS  160 (261)
T ss_dssp             HHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTT-TCSCEEEEEEEEETTEEEEEEEC---TTSCEEECSEEEESTTH
T ss_pred             HHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHHhc-CcccEEEEEEEEeCCCCEEEEEC---CCccEEecCeEEeccch
Confidence            999999999999999999999999999999999875 58999999999999999999986   4566555 999999999


Q ss_pred             hhHHHHHHhhccCCCCHHHHh
Q 022125          190 CRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       190 ~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      .+++++||+.|+++||++||+
T Consensus       161 ~~a~~~Le~~~~~~ms~eEA~  181 (261)
T 3nzj_H          161 LAAMAVLESHWKQDLTKEEAI  181 (261)
T ss_dssp             HHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHHHHhccCCCHHHHH
Confidence            999999999999999999998

>1iru_N 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_M* 3une_M 3unf_M* 3unh_M

Probab=100.00  E-value=2.7e-37  Score=276.56  Aligned_cols=159  Identities=19%  Similarity=0.189  Sum_probs=151.0

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhH-hhCC
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHEL-ANKR  127 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l-~~g~  127 (302)
                      .+||.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..+|++.+.++++.+++.|++ ++++
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            368999999999999999999999999999999999999999999999999999999999999999999999998 9999


Q ss_pred             cCCHHHHHHHHHHHHHHcc--CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC--
Q 022125          128 RISVTGASKLLANILYSYR--GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE--  202 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~R--~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~--  202 (302)
                      +++++.+|+++++++|.+|  .+||++++||||||++||+||++|   +.|.... ++.++|+|+.+++++||+.|++  
T Consensus        82 ~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~gp~Ly~id---~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~  158 (219)
T 1iru_N           82 SYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYVD---MLGVAYEAPSLATGYGAYLAQPLLREVLEKQP  158 (219)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEEEC---SSCCEEECSEEECTTHHHHTHHHHHHHHTSCS
T ss_pred             CCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEECCCCEEEEEC---CCCCeEECCeEEECccHHHHHHHHHhhcCCCC
Confidence            9999999999999999887  789999999999999899999986   3555554 8999999999999999999999  


Q ss_pred             CCCHHHHh
Q 022125          203 GGSKEHGS  210 (302)
Q Consensus       203 dmS~eEAi  210 (302)
                      +||.+||+
T Consensus       159 ~mt~eea~  166 (219)
T 1iru_N          159 VLSQTEAR  166 (219)
T ss_dssp             CCCHHHHH
T ss_pred             CCCHHHHH
Confidence            99999998

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

Probab=100.00  E-value=7.4e-37  Score=270.32  Aligned_cols=154  Identities=28%  Similarity=0.371  Sum_probs=146.9

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|+++.+++.+||++|++|+++++||..+|++.+.++++.+++.|+++++++|+++.+|
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-c-eeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-S-LLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~-~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +++++++|.+|.|||++++||||||++||+||++|   +.|..+. + +.++|+|+.+++++||+.|+++||++||+++
T Consensus        81 ~~l~~~~~~~r~rp~~~~~lvaG~D~~gp~Ly~id---~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l  156 (202)
T 1j2q_H           81 TLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSID---PIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL  156 (202)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEEETTEEEEEEEC---TTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhCCCCceEEEEEEEEeCCCCEEEEEC---CCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHH
Confidence            99999999999999999999999999999999986   4566665 7 9999999999999999999999999999833

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

Probab=100.00  E-value=1.4e-36  Score=269.41  Aligned_cols=157  Identities=23%  Similarity=0.278  Sum_probs=149.3

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++++++ 
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            5789999999999999999999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             CCHHHHHHHHHHHHHHccCCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCH
Q 022125          129 ISVTGASKLLANILYSYRGMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSK  206 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~  206 (302)
                      ++++.+|+++++++|.+|.+ |++++||||||+ +||+||.+|   +.|.... ++.++|+|+.+++++||+.|+++||.
T Consensus        82 ~~v~~la~~l~~~~~~~~~~-~~~~~lvaG~D~~~gp~Ly~id---~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~  157 (205)
T 1ryp_H           82 PSTETAASVFKELCYENKDN-LTAGIIVAGYDDKNKGEVYTIP---LGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSK  157 (205)
T ss_dssp             CCHHHHHHHHHHHHHHTTTT-CCEEEEEEEEETTTEEEEEEEC---TTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCH
T ss_pred             CCHHHHHHHHHHHHHhhhcC-ceEEEEEEEEecCCCcEEEEEC---CCccEEecCEEEEEecHHHHHHHHHhccCCCCCH
Confidence            99999999999999999887 999999999997 689999986   3555554 89999999999999999999999999


Q ss_pred             HHHh
Q 022125          207 EHGS  210 (302)
Q Consensus       207 eEAi  210 (302)
                      +||+
T Consensus       158 eea~  161 (205)
T 1ryp_H          158 EETV  161 (205)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9998

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

Probab=100.00  E-value=6.4e-37  Score=275.21  Aligned_cols=156  Identities=26%  Similarity=0.307  Sum_probs=147.8

Q ss_pred             CceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHH
Q 022125           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (302)
Q Consensus        55 GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~l  134 (302)
                      |+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.++++++.+++.|+++++++++++.+
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            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccCCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-c-eeEecchhhhHHHHHHhhccCCCCHHHHhh
Q 022125          135 SKLLANILYSYRGMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-S-LLSCLSVGCRVLGCIMWTVKEGGSKEHGSL  211 (302)
Q Consensus       135 Ak~Ls~~ly~~R~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~-~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~  211 (302)
                      |+++++++|.+|.+||++++||||||+ +||+||++|   +.|+.+. + +.++|+++.+++++||+.|+++||++||+.
T Consensus        81 a~~l~~~~~~~~~~P~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~  157 (219)
T 3h4p_a           81 ATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLD---PLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIK  157 (219)
T ss_dssp             HHHHHHHHHHTTTTTCCCCCEEEEEETTTEEEEEEEC---SSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHHH
T ss_pred             HHHHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEEEC---CCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHHH
Confidence            999999999999999999999999998 799999986   4666664 6 999999999999999999999999999984


Q ss_pred             hh
Q 022125          212 WD  213 (302)
Q Consensus       212 l~  213 (302)
                      +.
T Consensus       158 la  159 (219)
T 3h4p_a          158 LA  159 (219)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>1iru_L 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_K* 3une_K 3unf_K* 3unh_K

Probab=100.00  E-value=2.3e-36  Score=267.61  Aligned_cols=152  Identities=53%  Similarity=0.818  Sum_probs=146.4

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|+++.+++.+||++|++|+++++||..||++.+.+.++.+++.|+++++++++++.+|
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.+|.+||++++||||||++||+||++|   +.|..+. ++.++|+|+.+++++||+.|+++||.+||+
T Consensus        81 ~~l~~~~~~~r~~~~~v~~lvaG~D~~gp~Ly~id---p~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~  153 (204)
T 1iru_L           81 KLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVD---SEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAY  153 (204)
T ss_dssp             HHHHHHHHTTTTSCCCBEEEEEEECSSSEEEEEEE---SSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHH
T ss_pred             HHHHHHHHHhCCCCeeEEEEEEEEeCCCCEEEEEC---CCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHH
Confidence            99999999999999999999999999999999997   4666665 899999999999999999999999999998

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A

Probab=100.00  E-value=1.7e-36  Score=274.00  Aligned_cols=160  Identities=18%  Similarity=0.197  Sum_probs=150.2

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+ ++.+++.+||++|++++++++||..+|++.+.++++.+++.|+++++++
T Consensus        28 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  106 (233)
T 1yar_A           28 REAVKKGSTALGMKFANGVLLISDKKVRSR-LIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSL  106 (233)
T ss_dssp             HHHHTTSCCEEEEEETTEEEEEECCCCCCT-TBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCcEEEEEECCEEEEEEeccCCcc-cccccccCeEEEecCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            689999999999999999999999999975 7888999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+|+++++++|.++.    |||++++||||||++||+||.+|   +.|.... ++.++|+|+.+++++||+.|+++
T Consensus       107 ~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~gp~Ly~id---~~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~  183 (233)
T 1yar_A          107 VNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCD---PAGTINEYKATAIGSGKDAVVSFLEREYKEN  183 (233)
T ss_dssp             CCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEEC---TTCCEEEBSEEEESTTHHHHHHHHHHHCCTT
T ss_pred             CCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeCCCCEEEEEC---CCCCEEeeeEEEEcCCcHHHHHHHHHHhccC
Confidence            9999999999999998753    79999999999999999999986   4566554 89999999999999999999999


Q ss_pred             CCHHHHhhh
Q 022125          204 GSKEHGSLW  212 (302)
Q Consensus       204 mS~eEAi~l  212 (302)
                      ||++||+++
T Consensus       184 ~s~eea~~l  192 (233)
T 1yar_A          184 LPEKEAVTL  192 (233)
T ss_dssp             CCHHHHHHH
T ss_pred             CCHHHHHHH
Confidence            999999843

>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=1.2e-36  Score=269.46  Aligned_cols=157  Identities=20%  Similarity=0.159  Sum_probs=148.5

Q ss_pred             ccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHH
Q 022125           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (302)
Q Consensus        53 ~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~  132 (302)
                      .+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..||++.+.++++.+++.|+++++++++++
T Consensus         6 ~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~   85 (205)
T 1iru_J            6 YNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPY   85 (205)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHH
T ss_pred             CCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHccCCCceeeEeEEEEcC--CCceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCHHH
Q 022125          133 GASKLLANILYSYRGMGLSVGTMIAGWDE--TVREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSKEH  208 (302)
Q Consensus       133 ~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~--~Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~eE  208 (302)
                      .+|+++++++|.+|+.||++++||||||+  +||+||++|   +.|+.+.  +|.++|+|+.+++++||+.|+++||++|
T Consensus        86 ~la~~l~~~~y~~r~~P~~v~~lvaG~D~~~~~p~Ly~id---p~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~ee  162 (205)
T 1iru_J           86 TLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLD---LIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDH  162 (205)
T ss_dssp             HHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEEC---TTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHH
T ss_pred             HHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCCeEEEEEC---CCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCHHH
Confidence            99999999999988889999999999995  689999986   4666643  7899999999999999999999999999


Q ss_pred             Hhhh
Q 022125          209 GSLW  212 (302)
Q Consensus       209 Ai~l  212 (302)
                      |+++
T Consensus       163 a~~l  166 (205)
T 1iru_J          163 LFET  166 (205)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9843

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

Probab=100.00  E-value=1.1e-36  Score=277.19  Aligned_cols=159  Identities=13%  Similarity=0.015  Sum_probs=149.4

Q ss_pred             hccccc-CceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC
Q 022125           49 TLKHAK-GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR  127 (302)
Q Consensus        49 ~~av~~-GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~  127 (302)
                      ++||++ |+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||+.+|++.+++.++.+++.|++++++
T Consensus        23 ~~av~~~Gtt~vgi~~~dgVvlaad~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~r~~~~~~~~~~~~  101 (243)
T 1ryp_A           23 FKATNQTNINSLAVRGKDCTVVISQKKVP-DKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGY  101 (243)
T ss_dssp             HHHTTTTCCCEEEEECSSEEEEEEECCCC-CTTBCGGGCCSEEECSSSCEEEEESCHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHhcCCCcEEEEEeCCEEEEEEEecCC-ccccCCCcCCceEEECCCEEEEEEecHHHHHHHHHHHHHHHHHHHHHHCC
Confidence            789999 9999999999999999999999 89999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHH--HHcc--CCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc
Q 022125          128 RISVTGASKLLANIL--YSYR--GMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK  201 (302)
Q Consensus       128 ~isv~~lAk~Ls~~l--y~~R--~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk  201 (302)
                      +|+++.+|+++++++  |.+|  .|||+|++||||||+ .||+||++|   +.|.... ++.++|+++..++++||+.|+
T Consensus       102 ~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~d---p~G~~~~~~~~a~G~gs~~a~~~Le~~~~  178 (243)
T 1ryp_A          102 DMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTD---PAGYYVGYKATATGPKQQEITTNLENHFK  178 (243)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEc---CCCCEEEEEEEEECCCcHHHHHHHHHHhh
Confidence            999999999999999  5545  589999999999997 799999986   4555554 899999999999999999999


Q ss_pred             C-------CCCHHHHhh
Q 022125          202 E-------GGSKEHGSL  211 (302)
Q Consensus       202 ~-------dmS~eEAi~  211 (302)
                      +       +||++||++
T Consensus       179 ~~~~~~~~~ms~eea~~  195 (243)
T 1ryp_A          179 KSKIDHINEESWEKVVE  195 (243)
T ss_dssp             HHCSSSCCCSSHHHHHH
T ss_pred             hcccccccCCCHHHHHH
Confidence            9       999999983

>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=1.6e-36  Score=274.44  Aligned_cols=159  Identities=16%  Similarity=0.170  Sum_probs=150.7

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhH-----
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHEL-----  123 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l-----  123 (302)
                      .+||++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..||++.+.++++.+++.|++     
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            368999999999999999999999999999999999999999999999999999999999999999999999999     


Q ss_pred             hhCCcCCHHHHHHHHHHHHHHcc--CCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhh
Q 022125          124 ANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWT  199 (302)
Q Consensus       124 ~~g~~isv~~lAk~Ls~~ly~~R--~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~  199 (302)
                      +++++++++.+|+++++++|.+|  .+||++++||||||++ ||+||++|   +.|.... ++.++|+|+.+++++||+.
T Consensus        82 ~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id---~~G~~~~~~~~aiGsgs~~a~~~Le~~  158 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVN---LLGVTYSSPTLATGFGAHMANPLLRKV  158 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEE---TTCCEECCSEEECTHHHHHHHHHHTTT
T ss_pred             hcCCCCCHHHHHHHHHHHHHHhcCCCCCceEEEEEEEEcCCCCEEEEEEC---CCcCeEEcCEEEECcCHHHHHHHHHHh
Confidence            99999999999999999999987  6899999999999986 99999987   4566554 8999999999999999999


Q ss_pred             ccC-----CCCHHHHh
Q 022125          200 VKE-----GGSKEHGS  210 (302)
Q Consensus       200 yk~-----dmS~eEAi  210 (302)
                      |++     +||++||+
T Consensus       159 ~~~~~~~~~ms~eea~  174 (233)
T 1ryp_N          159 VDRESDIPKTTVQVAE  174 (233)
T ss_dssp             CSSGGGGGGCCHHHHH
T ss_pred             hccccccCCCCHHHHH
Confidence            999     99999998

>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=4e-36  Score=266.01  Aligned_cols=155  Identities=18%  Similarity=0.126  Sum_probs=147.1

Q ss_pred             ccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHH
Q 022125           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (302)
Q Consensus        53 ~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~  132 (302)
                      .+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|+ ++++++||..+|++.+.++++.+++.|+++++++++++
T Consensus         6 ~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~   84 (204)
T 1ryp_J            6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPE   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             CCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCHH
Confidence            89999999999999999999999999999999999999999 99999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHccCCCceeeEeEEEEcC--CCceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCHHH
Q 022125          133 GASKLLANILYSYRGMGLSVGTMIAGWDE--TVREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSKEH  208 (302)
Q Consensus       133 ~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~--~Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~eE  208 (302)
                      .+|+++++++|.+|+.||++++||||||+  +||+||.+|   +.|+.+.  +|.++|+|+.+++++||+.|+++||++|
T Consensus        85 ~la~~l~~~~y~~~~~P~~v~~lvaG~D~~~~gp~Ly~id---p~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~ee  161 (204)
T 1ryp_J           85 TFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFD---LIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPED  161 (204)
T ss_dssp             HHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEEC---TTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHH
T ss_pred             HHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCceEEEEEC---CCCCccccCceeEeccCHHHHHHHHhhhcCCCcCHHH
Confidence            99999999999988889999999999996  689999986   4666544  7899999999999999999999999999


Q ss_pred             Hhh
Q 022125          209 GSL  211 (302)
Q Consensus       209 Ai~  211 (302)
                      |++
T Consensus       162 a~~  164 (204)
T 1ryp_J          162 LFE  164 (204)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            983

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

Probab=100.00  E-value=2.6e-36  Score=272.78  Aligned_cols=161  Identities=14%  Similarity=0.098  Sum_probs=150.9

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..+|++.+.++++.+++.|+++++++
T Consensus        25 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  103 (233)
T 1iru_B           25 LAAVAGGAPSVGIKAANGVVLATEKKQK-SILYDERSVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEP  103 (233)
T ss_dssp             HHHHHTSCCEEEEECSSCEEEEEECCCC-CSSBCSTTCCSSEESSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCcEEEEEeCCEEEEEEEecCC-ccccccccCCeEEEECCCEEEEEEEccHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            7789999999999999999999999999 789999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+|++++++++.|+    .|||++++||||||++||+||.+|   +.|.... ++.++|+++.+++++||+.|+++
T Consensus       104 ~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~gp~Ly~id---~~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~  180 (233)
T 1iru_B          104 IPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSD---PSGAYFAWKATAMGKNYVNGKTFLEKRYNED  180 (233)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHCCTT
T ss_pred             CCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCCCCeEEEEC---CCCCEEEeeEEEECCCCHHHHHHHHHHhccC
Confidence            999999999999998774    479999999999998899999986   4566554 89999999999999999999999


Q ss_pred             CCHHHHhhhh
Q 022125          204 GSKEHGSLWD  213 (302)
Q Consensus       204 mS~eEAi~l~  213 (302)
                      ||.+||+++.
T Consensus       181 ms~eea~~la  190 (233)
T 1iru_B          181 LELEDAIHTA  190 (233)
T ss_dssp             CCHHHHHHHH
T ss_pred             CCHHHHHHHH
Confidence            9999998444

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

Probab=100.00  E-value=3.8e-36  Score=273.45  Aligned_cols=162  Identities=14%  Similarity=0.121  Sum_probs=150.8

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..+|++.+.+.++.+++.|+++++++
T Consensus        25 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  104 (244)
T 1ryp_C           25 LESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNED  104 (244)
T ss_dssp             HHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            78999999999999999999999999998877779999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHc----cCCCceeeEeEEEEc-CCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSY----RGMGLSVGTMIAGWD-ETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~----R~rP~~vs~IIaG~D-~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      ++++.+|+++++++|.+    +.|||++++|||||| ++||+||++|   +.|.... ++.++|+|+.+++++||+.|++
T Consensus       105 ~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  181 (244)
T 1ryp_C          105 IPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSN---PSGNYTGWKAISVGANTSAAQTLLQMDYKD  181 (244)
T ss_dssp             CCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEEC---TTCCEEEBSEEEESTTHHHHHHHHHHHCCT
T ss_pred             CCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEEC---CCccEEeeeEEEECCCcHHHHHHHHHhhhc
Confidence            99999999999999876    358999999999999 7799999986   4566554 8999999999999999999999


Q ss_pred             CCCHHHHhhhh
Q 022125          203 GGSKEHGSLWD  213 (302)
Q Consensus       203 dmS~eEAi~l~  213 (302)
                      +||++||+++.
T Consensus       182 ~ms~eea~~la  192 (244)
T 1ryp_C          182 DMKVDDAIELA  192 (244)
T ss_dssp             TCCHHHHHHHH
T ss_pred             CCCHHHHHHHH
Confidence            99999998443

>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L 1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K* 2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K* 3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ...

Probab=100.00  E-value=1.1e-35  Score=264.86  Aligned_cols=154  Identities=47%  Similarity=0.747  Sum_probs=146.4

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|+++.+++.+||++|++|+++++||..+|++.+.++++.+++.|+++++++++++.+|
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEc-CCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWD-ETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D-~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +++++++|.+|..||++++|||||| ++||+||++|   +.|..+. ++.++|+|+.+++++||+.|+++||++||+++
T Consensus        81 ~~l~~~~~~~~~~p~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l  156 (212)
T 1ryp_L           81 KILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVD---SDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  156 (212)
T ss_dssp             HHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEE---TTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhCCCCceEEEEEEEEeCCCCCEEEEEc---CCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHH
Confidence            9999999999999999999999999 5699999997   4566665 89999999999999999999999999999833

>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C* 1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C* 3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C* 3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ...

Probab=100.00  E-value=7.8e-36  Score=271.20  Aligned_cols=161  Identities=15%  Similarity=0.134  Sum_probs=151.0

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..||++.+.++++.+++.|+++++++
T Consensus        22 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  101 (241)
T 1ryp_D           22 LEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDP  101 (241)
T ss_dssp             HHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            78999999999999999999999999999988888899999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcC--CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhc-
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE--TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTV-  200 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~--~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~y-  200 (302)
                      |+++.+|+++++++|.++    .|||++++||||||+  .||+||++|   +.|..+. ++.++|+++.+++++||+.| 
T Consensus       102 ~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~id---p~G~~~~~~~~aiG~gs~~a~~~Le~~~~  178 (241)
T 1ryp_D          102 VTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTE---PSGIYSSWSAQTIGRNSKTVREFLEKNYD  178 (241)
T ss_dssp             CCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEEC---CCCCEEEeeeEEECCCcHHHHHHHHHhhh
Confidence            999999999999999874    279999999999998  799999986   4566665 89999999999999999999 


Q ss_pred             --cCCCCHHHHhhh
Q 022125          201 --KEGGSKEHGSLW  212 (302)
Q Consensus       201 --k~dmS~eEAi~l  212 (302)
                        +++||++||+++
T Consensus       179 ~~~~~ms~eea~~l  192 (241)
T 1ryp_D          179 RKEPPATVEECVKL  192 (241)
T ss_dssp             TTSCCCSHHHHHHH
T ss_pred             cccCCCCHHHHHHH
Confidence              999999999843

>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-35  Score=262.12  Aligned_cols=151  Identities=28%  Similarity=0.372  Sum_probs=143.4

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|+++++++++++.+|
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            69999999999999999999999899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.+|+ ||++++||||||+ +||+||.+|   +.|.... ++.++|+|+.+++++||+.|+++||.+||+
T Consensus        81 ~~l~~~~~~~~~-p~~~~~lvaG~D~~~gp~ly~~d---~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~  153 (205)
T 1iru_H           81 SLFKEMCYRYRE-DLMAGIIIAGWDPQEGGQVYSVP---MGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECL  153 (205)
T ss_dssp             HHHHHHHHHTTT-TCCEEEEEEEEETTTEEEEEEEC---TTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHhcCc-CccEEEEEEEEeCCCCCEEEEEC---CCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHH
Confidence            999999999987 9999999999998 689999985   3444444 899999999999999999999999999998

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

Probab=100.00  E-value=2.5e-36  Score=279.45  Aligned_cols=161  Identities=20%  Similarity=0.237  Sum_probs=150.2

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++||++|+|+|||+++||||||+|+|.+.+ ++.+++.+||++|++|+++++||..||++.++++++.+++.|+++++++
T Consensus        32 ~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~-li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~~~~  110 (264)
T 3h4p_A           32 REAVRRGTTAIGIACKDGVVLAVDRRITSK-LVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEE  110 (264)
T ss_dssp             HHHHHHSCCEEEECCSSEEEEEEECCCCST-TBCTTTCCCEEEEETTEEEEEEECSHHHHHHHTTHHHHHHHHHHTTCSC
T ss_pred             HHHHhcCCcEEEEEECCEEEEEEecCccCC-ccccCccccEEEecCcEEEEeccchHHHHHHHHHHHHHHHhhHHhcCCC
Confidence            689999999999999999999999999975 7889999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+|+++++++|.++    .|||+|++||||||++||+||++|   +.|+.+. ++.++|+++.+++++|++.|+++
T Consensus       111 i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~gp~Ly~iD---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~  187 (264)
T 3h4p_A          111 ISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETD---PSGALIEYKATAIGSGRPVVMELLEKEYRDD  187 (264)
T ss_dssp             CCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETTEEEEEEEC---TTCCCEEESEEEESTTHHHHTTTHHHHCCTT
T ss_pred             CCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCCcCEEEEEC---CCceEEecCeEEECCCHHHHHHHHHHhccCC
Confidence            999999999999998874    379999999999999999999986   4555555 99999999999999999999999


Q ss_pred             CCHHHHhhhh
Q 022125          204 GSKEHGSLWD  213 (302)
Q Consensus       204 mS~eEAi~l~  213 (302)
                      ||++||+.+.
T Consensus       188 ms~eea~~la  197 (264)
T 3h4p_A          188 ITLDEGLELA  197 (264)
T ss_dssp             CCSHHHHHHH
T ss_pred             CCHHHHHHHH
Confidence            9999998443

>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=5.9e-36  Score=274.66  Aligned_cols=161  Identities=10%  Similarity=-0.040  Sum_probs=150.7

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++||++|+|+|||+++||||||+|+|.+.|.++. ++.+||++|++|+++++||..||++.++++++.+++.|+++++++
T Consensus        27 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~-~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  105 (254)
T 1iru_G           27 MKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEE-GSNKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYN  105 (254)
T ss_dssp             HHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCT-TTTCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCCEEEEEECCEEEEEEecccCCCCcCc-CcCCcEEEECCCEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            7899999999999999999999999999888874 789999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEc-CCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWD-ETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D-~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      |+++.+|+++++++|.++    .|||+|++|||||| ++||+||++|   +.|..+. ++.++|+++.+++++|++.|++
T Consensus       106 ~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  182 (254)
T 1iru_G          106 IPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMID---PSGVSYGYWGCAIGKARQAAKTEIEKLQMK  182 (254)
T ss_dssp             CCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEEC---TTCCEEEBSEEEESTTHHHHHHHHTTSCGG
T ss_pred             CCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEc---CCCCEEeeeeEEecCccHHHHHHHHHhccC
Confidence            999999999999999886    48999999999999 6799999986   3555555 8999999999999999999999


Q ss_pred             CCCHHHHhhhh
Q 022125          203 GGSKEHGSLWD  213 (302)
Q Consensus       203 dmS~eEAi~l~  213 (302)
                      +||++||+++.
T Consensus       183 ~ms~eea~~la  193 (254)
T 1iru_G          183 EMTCRDIVKEV  193 (254)
T ss_dssp             GCCHHHHHHHH
T ss_pred             CCCHHHHHHHH
Confidence            99999999654

>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=5.6e-36  Score=272.06  Aligned_cols=161  Identities=18%  Similarity=0.183  Sum_probs=150.0

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.|.++ +++.+||++|++++++++||..+|++.+.++++.+++.|+++++++
T Consensus        20 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   98 (242)
T 1ryp_E           20 LEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE-SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDED   98 (242)
T ss_dssp             HHHHTTSCCEEEEECSSCEEEEEECCCSSTTBC-GGGCCCEEEEETTEEEEEEESGGGHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCCEEEEEECCEEEEEEeecCCCcCcc-CccCCceEEEcCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            789999999999999999999999999988777 8999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----------CCCceeeEeEEEEc-CCCceeEEEeeecCcccccc-ceeEecchhhhHHHHH
Q 022125          129 ISVTGASKLLANILYSYR----------GMGLSVGTMIAGWD-ETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCI  196 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----------~rP~~vs~IIaG~D-~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~L  196 (302)
                      ++++.+|+++++++|.++          .|||++++|||||| ++||+||++|   +.|..+. ++.++|+|+.+++++|
T Consensus        99 ~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~L  175 (242)
T 1ryp_E           99 INVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAE---PSGTFYRYNAKAIGSGSEGAQAEL  175 (242)
T ss_dssp             CCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEEC---CCCCEeccCEEEECCCCHHHHHHH
Confidence            999999999999998853          56999999999999 6799999986   4566665 8999999999999999


Q ss_pred             HhhccCCCCHHHHhhhh
Q 022125          197 MWTVKEGGSKEHGSLWD  213 (302)
Q Consensus       197 e~~yk~dmS~eEAi~l~  213 (302)
                      |+.|+++||++||+++.
T Consensus       176 e~~~~~~ms~eea~~la  192 (242)
T 1ryp_E          176 LNEWHSSLTLKEAELLV  192 (242)
T ss_dssp             HHHCCTTCCHHHHHHHH
T ss_pred             HHhhccCCCHHHHHHHH
Confidence            99999999999998554

>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=7e-36  Score=271.51  Aligned_cols=161  Identities=15%  Similarity=0.161  Sum_probs=150.0

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.|.++ +++.+||++|++++++++||..||++.+.++++.+++.|+++++++
T Consensus        28 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  106 (241)
T 1iru_E           28 IEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME-PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNET  106 (241)
T ss_dssp             HHHHTTSCCEEEEEETTEEEEEEECCCCCTTBC-TTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCcEEEEEcCCEEEEEEecccCCcCcC-ccccceEEEEcCCEEEEEeeChHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            789999999999999999999999999988877 8999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc---------CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHh
Q 022125          129 ISVTGASKLLANILYSYR---------GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMW  198 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R---------~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~  198 (302)
                      ++++.+|++++++++.++         .|||++++||||||++||+||.+|   +.|..+. ++.++|+|+.+++++||+
T Consensus       107 ~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~  183 (241)
T 1iru_E          107 MTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMD---PSGTFVQCDARAIGSASEGAQSSLQE  183 (241)
T ss_dssp             CCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCCCCEEEEEC---CCCcEEecceEEECCCcHHHHHHHHH
Confidence            999999999999997663         469999999999998899999986   4566665 899999999999999999


Q ss_pred             hccCCCCHHHHhhhh
Q 022125          199 TVKEGGSKEHGSLWD  213 (302)
Q Consensus       199 ~yk~dmS~eEAi~l~  213 (302)
                      .|+++||++||+++.
T Consensus       184 ~~~~~ms~eea~~la  198 (241)
T 1iru_E          184 LYHKSMTLKEAIKSS  198 (241)
T ss_dssp             HCCTTCCHHHHHHHH
T ss_pred             HhccCCCHHHHHHHH
Confidence            999999999998443

>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=9.5e-36  Score=275.37  Aligned_cols=160  Identities=16%  Similarity=0.171  Sum_probs=151.2

Q ss_pred             hhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhH----
Q 022125           48 ATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHEL----  123 (302)
Q Consensus        48 ~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l----  123 (302)
                      ..+++.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..+|++.++++++.+++.|++    
T Consensus        34 ~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~  113 (266)
T 1g0u_M           34 TQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPL  113 (266)
T ss_dssp             CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTT
T ss_pred             hccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhccch
Confidence            3678999999999999999999999999999999999999999999999999999999999999999999999998    


Q ss_pred             -hhCCcCCHHHHHHHHHHHHHHcc--CCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHh
Q 022125          124 -ANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMW  198 (302)
Q Consensus       124 -~~g~~isv~~lAk~Ls~~ly~~R--~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~  198 (302)
                       +++++++++.+|+++++++|.+|  .+||++++||||||++ ||+||++|   +.|.... ++.++|+|+.+++++||+
T Consensus       114 ~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~  190 (266)
T 1g0u_M          114 ADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVN---LLGVTYSSPTLATGFGAHMANPLLRK  190 (266)
T ss_dssp             TTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEE---TTCCEECCSEEECTHHHHTHHHHHTT
T ss_pred             hhcCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCEEEEEEC---CCCCEEeCCEEEEccCHHHHHHHHHH
Confidence             99999999999999999999887  5899999999999986 99999986   4566554 899999999999999999


Q ss_pred             hccC-----CCCHHHHh
Q 022125          199 TVKE-----GGSKEHGS  210 (302)
Q Consensus       199 ~yk~-----dmS~eEAi  210 (302)
                      .|++     +||++||+
T Consensus       191 ~~~~~~~~~~ms~eeA~  207 (266)
T 1g0u_M          191 VVDRESDIPKTTVQVAE  207 (266)
T ss_dssp             TCSSGGGGGGCCHHHHH
T ss_pred             hhcccccCCCCCHHHHH
Confidence            9999     99999998

>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=2.1e-35  Score=269.56  Aligned_cols=160  Identities=13%  Similarity=0.036  Sum_probs=148.5

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.|.++.++ .+||++|++++++++||..+|++.+.++++.+++.|+++++++
T Consensus        24 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~-~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  102 (244)
T 1ryp_G           24 VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQK-NVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTP  102 (244)
T ss_dssp             HHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTT-SCCCEEETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHCCCCEEEEEECCEEEEEEecccCCCCccccc-cCceEEecCCEEEEEcccHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            789999999999999999999999999988877655 5999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhh---c
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWT---V  200 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~---y  200 (302)
                      ++++.+|+++++++|.++    .+||++++||||||++||+||++|   +.|..+. ++.++|+|+.+++++||+.   |
T Consensus       103 ~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~id---p~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~  179 (244)
T 1ryp_G          103 IPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLE---PSGSYWGYKGAATGKGRQSAKAELEKLVDHH  179 (244)
T ss_dssp             CCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeCCcCEEEEEC---CCCCEEEeeEEEECCChHHHHHHHHHhHhhc
Confidence            999999999999998873    389999999999999999999986   4566665 8999999999999999997   9


Q ss_pred             cCCCCHHHHhhh
Q 022125          201 KEGGSKEHGSLW  212 (302)
Q Consensus       201 k~dmS~eEAi~l  212 (302)
                      +++||++||+++
T Consensus       180 ~~~ms~eea~~l  191 (244)
T 1ryp_G          180 PEGLSAREAVKQ  191 (244)
T ss_dssp             TTCCCHHHHHHH
T ss_pred             CCCCCHHHHHHH
Confidence            999999999843

>1iru_C 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_B* 3une_B 3unf_B* 3unh_B

Probab=100.00  E-value=1.6e-35  Score=272.69  Aligned_cols=162  Identities=16%  Similarity=0.129  Sum_probs=153.0

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..+|++.++++++.+++.|+++++++
T Consensus        25 ~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  104 (261)
T 1iru_C           25 MEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEP  104 (261)
T ss_dssp             HHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            78999999999999999999999999999999988889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      ++++.+|+++++++|.++    .|||+|++||||||+ +||+||.+|   +.|..+. ++.++|+|+.+++++|++.|++
T Consensus       105 ~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  181 (261)
T 1iru_C          105 IPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSD---PSGNYGGWKATCIGNNSAAAVSMLKQDYKE  181 (261)
T ss_dssp             CCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEE---TTTEEEECSEEEESTTTTHHHHHHHHHCCT
T ss_pred             CCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEEC---CCceEEeeeeEEeCcccHHHHHHHHHhhcc
Confidence            999999999999999885    479999999999995 789999987   4566665 8999999999999999999999


Q ss_pred             -CCCHHHHhhhh
Q 022125          203 -GGSKEHGSLWD  213 (302)
Q Consensus       203 -dmS~eEAi~l~  213 (302)
                       +||++||+.+.
T Consensus       182 ~~ms~eeA~~la  193 (261)
T 1iru_C          182 GEMTLKSALALA  193 (261)
T ss_dssp             TCCCHHHHHHHH
T ss_pred             CCCCHHHHHHHH
Confidence             99999999776

>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=3.7e-35  Score=258.42  Aligned_cols=152  Identities=16%  Similarity=0.181  Sum_probs=143.4

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|+++++++++++.+|
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   81 (198)
T 1ryp_K            2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVS   81 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             ceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcc-C-CCceeeEeEEEEcC--CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYR-G-MGLSVGTMIAGWDE--TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R-~-rP~~vs~IIaG~D~--~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.++ . +||++++||||||+  +||+||.+|   +.|.... ++.++|+|+.+++++||+.|+++||++||+
T Consensus        82 ~~l~~~l~~~~~~r~p~~v~~lvaG~D~~~~~p~Ly~id---p~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~  158 (198)
T 1ryp_K           82 SFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQID---YLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGL  158 (198)
T ss_dssp             HHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEEC---TTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHHhcccCCCceEEEEEEEEeCCCCCcEEEEEC---CCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHH
Confidence            99999999975 3 49999999999996  699999986   4566554 899999999999999999999999999998

>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=1.6e-35  Score=270.72  Aligned_cols=161  Identities=14%  Similarity=0.175  Sum_probs=150.4

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+ ++.+++.+||++|++++++++||..+|++.+.++++.+++.|+++++++
T Consensus        23 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  101 (248)
T 1iru_D           23 QEAVKKGSTAVGVRGRDIVVLGVEKKSVAK-LQDERTVRKICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDP  101 (248)
T ss_dssp             HHHHHTSCCEEEECCSSEEEEEECCCCCCS-SSCGGGGCSEEESSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEeeccccc-CccCCCCCcEEEEcCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            789999999999999999999999999977 6888999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEc-CCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWD-ETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D-~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      |+++.+|+++++++|.++    .|||+|++|||||| ++||+||.+|   +.|.... ++.++|+++.+++++||+.|++
T Consensus       102 ~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiG~gs~~a~~~Le~~~~~  178 (248)
T 1iru_D          102 VTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTD---PSGTYHAWKANAIGRGAKSVREFLEKNYTD  178 (248)
T ss_dssp             CCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHTTTCCS
T ss_pred             CCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEc---CCCcEEEeeEEEECCCcHHHHHHHHHhhcc
Confidence            999999999999999875    27999999999999 6799999986   4566554 8999999999999999999999


Q ss_pred             CC--CHHHHhhhh
Q 022125          203 GG--SKEHGSLWD  213 (302)
Q Consensus       203 dm--S~eEAi~l~  213 (302)
                      +|  |++||+++.
T Consensus       179 ~m~~s~eea~~la  191 (248)
T 1iru_D          179 EAIETDDLTIKLV  191 (248)
T ss_dssp             STTCSHHHHHHHH
T ss_pred             cccCCHHHHHHHH
Confidence            99  999998555

>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=2.1e-35  Score=269.10  Aligned_cols=160  Identities=15%  Similarity=0.068  Sum_probs=148.9

Q ss_pred             hccccc-CceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC
Q 022125           49 TLKHAK-GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR  127 (302)
Q Consensus        49 ~~av~~-GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~  127 (302)
                      ++||++ |+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..||++.+.++++.+++.|++++++
T Consensus        29 ~~av~~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~  107 (246)
T 1iru_A           29 FKAINQGGLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGY  107 (246)
T ss_dssp             HHHHHTTCCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHhcCCCCEEEEEeCCEEEEEEeecCC-CcccCCCccCceEEECCCEEEEEeccHHHHHHHHHHHHHHHHHHHHHHCC
Confidence            678999 9999999999999999999999 79999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHc--c--CCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc
Q 022125          128 RISVTGASKLLANILYSY--R--GMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK  201 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~--R--~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk  201 (302)
                      +++++.+|++++++++.+  +  .|||+|++||||||+ +||+||++|   +.|..+. ++.++|+|+.+++++||+.|+
T Consensus       108 ~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiG~gs~~a~~~Le~~~~  184 (246)
T 1iru_A          108 EIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCD---PAGYYCGFKATAAGVKQTESTSFLEKKVK  184 (246)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEEC---TTSCEEEBSEEEEETTHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEc---CCeeEEEeeEEEECCCcHHHHHHHHHhhc
Confidence            999999999999997544  3  589999999999997 799999986   4566555 899999999999999999999


Q ss_pred             C--CCCHHHHhhh
Q 022125          202 E--GGSKEHGSLW  212 (302)
Q Consensus       202 ~--dmS~eEAi~l  212 (302)
                      +  +||++||+++
T Consensus       185 ~~~~ms~eea~~l  197 (246)
T 1iru_A          185 KKFDWTFEQTVET  197 (246)
T ss_dssp             SCCCCCHHHHHHH
T ss_pred             ccCCCCHHHHHHH
Confidence            9  9999999844

>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=2.1e-35  Score=276.91  Aligned_cols=161  Identities=13%  Similarity=0.032  Sum_probs=150.2

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++||++|+|+|||+++||||||+|+|.+.|.++.+ +.+||++|++|+++++||+.+|++.++++++.+++.|+++++++
T Consensus        28 ~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~-~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~e~~~y~~~~~~~  106 (288)
T 3nzj_F           28 VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQ-KNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTP  106 (288)
T ss_dssp             HHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTT-CSCCCEEETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCcEEEEEECCEEEEEEcCCcccCCcccc-ccceEEEEcCCEEEEecCcHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence            78999999999999999999999999998877665 77999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhh---c
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWT---V  200 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~---y  200 (302)
                      |+++.+|+++++++|.|+    .|||+|++||||||++||+||++|   +.|..+. ++.++|+++.+++++|++.   |
T Consensus       107 i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~Gp~Ly~iD---p~G~~~~~~~~aiGsgs~~a~~~Lek~~~~~  183 (288)
T 3nzj_F          107 IPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLE---PSGSYWGYKGAATGKGRQSAKAELEKLVDHH  183 (288)
T ss_dssp             CCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCCCEEEEEC---CCCCEEEcCEEEEcCcHHHHHHHHHHhcccc
Confidence            999999999999999874    479999999999999999999986   4565554 9999999999999999999   9


Q ss_pred             cCCCCHHHHhhhh
Q 022125          201 KEGGSKEHGSLWD  213 (302)
Q Consensus       201 k~dmS~eEAi~l~  213 (302)
                      +++||++||+++.
T Consensus       184 ~~~ms~eEAv~la  196 (288)
T 3nzj_F          184 PEGLSAREAVKQA  196 (288)
T ss_dssp             TTCCCHHHHHHHH
T ss_pred             CCCCCHHHHHHHH
Confidence            9999999999655

>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=7.9e-35  Score=265.15  Aligned_cols=151  Identities=23%  Similarity=0.270  Sum_probs=143.8

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..||++.+.++++.+++.|+++++++++++.+|
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.++ +||++++||||||++||+||++|   +.|.... ++.++|+|+.+++++||+.|+++||++||+
T Consensus        81 ~~l~~~l~~~~-~p~~v~llvaG~D~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~  152 (234)
T 3unf_H           81 RILRQTLFRYQ-GHVGASLVVGGVDLNGPQLYEVH---PHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQ  152 (234)
T ss_dssp             HHHHHHHHHTT-TCSCEEEEEEEEETTEEEEEEEC---TTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHHhcC-CCccEEEEEEEEeCCCCEEEEEC---CCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHH
Confidence            99999999874 59999999999999999999986   4555555 999999999999999999999999999998

>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=2.8e-35  Score=266.35  Aligned_cols=159  Identities=18%  Similarity=0.129  Sum_probs=146.9

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+..   ++.+||++|++++++++||..||++.+++.++.+++.|+++++++
T Consensus        25 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~---~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  101 (233)
T 1ryp_F           25 LEAIKQGSVTVGLRSNTHAVLVALKRNADELS---SYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRK  101 (233)
T ss_dssp             HHHHHTSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHcCCCEEEEEcCCEEEEEEEeccccccc---cccCcEEEEcCCEEEEEEechHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            78999999999999999999999999997732   478999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHc----cCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC-
Q 022125          129 ISVTGASKLLANILYSY----RGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE-  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~----R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~-  202 (302)
                      |+++.+|++++++++.+    ..|||++++||||||++||+||++|   +.|..+. ++.++|+++.+++++||+.|++ 
T Consensus       102 ~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~id---p~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~  178 (233)
T 1ryp_F          102 LAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQ---PSGNVTELYGTAIGARSQGAKTYLERTLDTF  178 (233)
T ss_dssp             CCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEEC---TTSCEEEESEEEESTTHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCCcCEEEEEC---CCCCeeeeeEEEECCCcHHHHHHHHHHhccc
Confidence            99999999999999765    3479999999999999999999986   4566555 8999999999999999999999 


Q ss_pred             -CC--CHHHHhhhh
Q 022125          203 -GG--SKEHGSLWD  213 (302)
Q Consensus       203 -dm--S~eEAi~l~  213 (302)
                       +|  |++||+++.
T Consensus       179 ~~m~~s~eea~~~a  192 (233)
T 1ryp_F          179 IKIDGNPDELIKAG  192 (233)
T ss_dssp             TTCCSCHHHHHHHH
T ss_pred             cccCCCHHHHHHHH
Confidence             99  999998544

>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=6.8e-35  Score=262.53  Aligned_cols=151  Identities=26%  Similarity=0.307  Sum_probs=143.9

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..||++.+.++++.+++.|+++++++++++.++
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++.+|.++ +||++++||||+|++||+||++|   +.|.... ++.++|+|+.+++++||+.|+++||++||+
T Consensus        81 ~~l~~~l~~~~-~p~~v~~lvaG~D~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~  152 (222)
T 1ryp_I           81 QMLKQHLFKYQ-GHIGAYLIVAGVDPTGSHLFSIH---AHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI  152 (222)
T ss_dssp             HHHHHHHHHTT-TCSCEEEEEEEEETTEEEEEEEC---TTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHhhcC-CCCCeeEEEEEEeCCCCEEEEEC---CCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHH
Confidence            99999999875 69999999999999999999986   4566554 899999999999999999999999999998

>3unf_N Proteasome subunit beta type-9; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_N

Probab=100.00  E-value=9.1e-35  Score=256.08  Aligned_cols=149  Identities=26%  Similarity=0.349  Sum_probs=142.0

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|+++++++++++.+|
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcC-CCceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.+|. ||++++||||||+ .||+||.     |+|+.+.  +++++|+|+.+++++||+.|+++||++||+
T Consensus        81 ~~l~~~l~~~~~-p~~v~~lvaG~D~~~~p~ly~-----p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~  152 (199)
T 3unf_N           81 NVVKNISYKYRE-DLLAHLIVAGWDQREGGQVYG-----TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECR  152 (199)
T ss_dssp             HHHHHHHHHTTT-TCCCCEEEEEEETTTEEEEEE-----CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHHhcCC-CceEEEEEEEEeCCCCcEEEE-----ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHH
Confidence            999999998864 9999999999998 5899886     5788764  788899999999999999999999999998

>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=5.5e-35  Score=266.59  Aligned_cols=160  Identities=18%  Similarity=0.216  Sum_probs=148.5

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+ ++.+++.+||++|++++++++||..+|++.+.+.++.+++.|+++++++
T Consensus        28 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  106 (246)
T 1j2p_A           28 REAVKRGATAIGIKCKEGVILIADKRVGSK-LLEKDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIP  106 (246)
T ss_dssp             HHHHHTSCCEEEEEETTEEEEEEECCCSCT-TBCGGGCCSEEECSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHcCCcEEEEEECCEEEEEEeccCCcc-ccccCccCcEEEECCCEEEEEeEccHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            679999999999999999999999999965 5668899999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+|+++++++|.|+    .|||++++|||||| +||+||.+|   +.|..+. ++.++|+|+.+++++|++.|+++
T Consensus       107 ~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~  182 (246)
T 1j2p_A          107 ITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLYETD---PSGALLEYKATAIGMGRMAVTEFFEKEYRDD  182 (246)
T ss_dssp             CCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-SSEEEEEEC---TTCCEEEBSEEEESTTHHHHHHHHHHHCCTT
T ss_pred             CCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-CCCEEEEEC---CCceEEeeeEEEECCCcHHHHHHHHHHhccC
Confidence            999999999999998774    36999999999999 999999986   4566655 89999999999999999999999


Q ss_pred             CCHHHHhhhh
Q 022125          204 GSKEHGSLWD  213 (302)
Q Consensus       204 mS~eEAi~l~  213 (302)
                      ||++||+.+.
T Consensus       183 ms~eea~~la  192 (246)
T 1j2p_A          183 LSFDDAMVLG  192 (246)
T ss_dssp             CCHHHHHHHH
T ss_pred             CCHHHHHHHH
Confidence            9999998544

>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=7.5e-35  Score=273.87  Aligned_cols=160  Identities=20%  Similarity=0.226  Sum_probs=150.2

Q ss_pred             hhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC
Q 022125           48 ATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR  127 (302)
Q Consensus        48 ~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~  127 (302)
                      .++|+++|+|+|||+++||||||+|+|.+.|+++.+++.+||++|++++++++||..+|++.++++++.+++.|++++++
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            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHccC---CCceeeEeEEEEcCC-C-----ceeEEEeeecCccccc-c--ceeEecchhhhHHHH
Q 022125          128 RISVTGASKLLANILYSYRG---MGLSVGTMIAGWDET-V-----REFMFQVFCFAFASLI-A--SLLSCLSVGCRVLGC  195 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~R~---rP~~vs~IIaG~D~~-G-----p~LY~idyS~D~Gg~~-~--~~~a~Gsgs~~a~g~  195 (302)
                      +++++.+|++|++++|.++.   +||+|++||||||++ |     |+||++|   +.|+.+ .  ++.++|+|+.+++++
T Consensus       138 ~isv~~la~~la~~l~~~~~~~~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iD---p~G~~~e~~~~~~AiGsgs~~a~~~  214 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYD---VVGGRYEERAGYHAVGSGSLFAKSA  214 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHTTTTCEEEEEEEECTTCSCTTSCEEEEEEC---SSSCEEECCSSEEEESTTHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhhcCCcceEEEEEEEeCCCCcCCCCCEEEEEC---CCCeEEecCCCeEEEecCcHHHHHH
Confidence            99999999999999998764   899999999999986 7     8999986   456665 4  799999999999999


Q ss_pred             HHhhccCCCCHHHHh
Q 022125          196 IMWTVKEGGSKEHGS  210 (302)
Q Consensus       196 Le~~yk~dmS~eEAi  210 (302)
                      ||+.|+++||++||+
T Consensus       215 Le~~y~~~ms~eEAi  229 (294)
T 1q5r_H          215 LKKIYSPDSDEETAL  229 (294)
T ss_dssp             HHHHCCSSCCHHHHH
T ss_pred             HHHhccCCCCHHHHH
Confidence            999999999999998

>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=4.5e-35  Score=274.96  Aligned_cols=157  Identities=20%  Similarity=0.200  Sum_probs=137.4

Q ss_pred             cccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCH
Q 022125           52 HAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISV  131 (302)
Q Consensus        52 v~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv  131 (302)
                      +.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.++++++.+++.|++.+++++++
T Consensus        54 v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v  133 (291)
T 2jay_A           54 LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTF  133 (291)
T ss_dssp             ----CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEEEEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHccC---CCceeeEeEEEEcCC-C-----ceeEEEeeecCccccc--c-ceeEecchhhhHHHHHHhh
Q 022125          132 TGASKLLANILYSYRG---MGLSVGTMIAGWDET-V-----REFMFQVFCFAFASLI--A-SLLSCLSVGCRVLGCIMWT  199 (302)
Q Consensus       132 ~~lAk~Ls~~ly~~R~---rP~~vs~IIaG~D~~-G-----p~LY~idyS~D~Gg~~--~-~~~a~Gsgs~~a~g~Le~~  199 (302)
                      +.+|+++++++|.++.   +||+|++||||||++ |     |+||++|   +.|+.+  . ++.++|+|+.+++++|++.
T Consensus       134 ~~la~~la~~l~~~~~~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~iD---p~G~~~e~~~~~~aiGsgs~~a~~~Le~~  210 (291)
T 2jay_A          134 AGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASDPQSAGRIVSFD---AAGGWNIEEEGYQAVGSGSLFAKSSMKKL  210 (291)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHTCCCEEEEEEECTTCSCSTTCEEEEEEC---TTSCEEECSSSEEEESTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhccccceeEEEEEEeCCCCcCCCCCEEEEEC---CCCcEEecCCCEEEEecCHHHHHHHHHHh
Confidence            9999999999999864   699999999999986 4     8999986   467777  4 8999999999999999999


Q ss_pred             ccCCCCHHHHhh
Q 022125          200 VKEGGSKEHGSL  211 (302)
Q Consensus       200 yk~dmS~eEAi~  211 (302)
                      |+++||.+||++
T Consensus       211 ~~~~ms~eEAi~  222 (291)
T 2jay_A          211 YSQVTDGDSGLR  222 (291)
T ss_dssp             GGGCCSHHHHHH
T ss_pred             cCCCCCHHHHHH
Confidence            999999999983

>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=1.5e-34  Score=255.29  Aligned_cols=152  Identities=18%  Similarity=0.145  Sum_probs=141.9

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.+.|+++.+++.+||++|++|+++++||..||++.+.++++.+++.|+++++++++++.+|
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   81 (201)
T 1iru_K            2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAA   81 (201)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHH-HHccC-CCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANIL-YSYRG-MGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~l-y~~R~-rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++.+ |.++. +||++++||||||+ +||+||.+|   +.|.... ++.++|+|+.+++++||+.|+++||++||+
T Consensus        82 ~~~~~~l~~~~~~~~p~~~~~lvaG~D~~~gp~Ly~id---~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~  157 (201)
T 1iru_K           82 NFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMD---YLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAV  157 (201)
T ss_dssp             HHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEEC---TTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHHHHhcCCCccEEEEEEEEeCCCCeEEEEEC---CCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHH
Confidence            9999876 55443 69999999999997 689999986   4566554 899999999999999999999999999998

>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-34  Score=265.65  Aligned_cols=168  Identities=14%  Similarity=0.076  Sum_probs=146.3

Q ss_pred             CCCCCcchhHhhhhh--hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHH
Q 022125           34 PLSTDFDEFQKDTKA--TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWH  111 (302)
Q Consensus        34 p~~~~~~~~~~~~~~--~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~  111 (302)
                      |-...|..+.++..+  ++||++|+|+|||+++||||||+|+|        +++.+||++|++|+++++||+.+|++.+.
T Consensus         4 ~~~~~p~~~~~~r~EYA~~av~~GtT~vgi~~kdgVVlaadkr--------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~   75 (248)
T 3mi0_A            4 PYFISPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENP--------SRSLQKISELYDRVGFAAAGKFNEFDNLR   75 (248)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHTSCCEEEEEETTEEEEEEECC--------CSSSCSEEEEETTEEEEEEECHHHHHHHH
T ss_pred             CccCCHHHhcccchHHHHHHHhCCCcEEEEEeCCEEEEEEeCC--------CCCCCCeEEECCCEEEEEccCHHHHHHHH
Confidence            444455556654333  78999999999999999999999999        45889999999999999999999999999


Q ss_pred             HHHHHHHHHhhHhhC-CcCCHHHHHHHHHHH-HHHc--cCCCceeeEeEEEEcC----CCceeEEEeeecCccccc-c-c
Q 022125          112 RNLGIKCRLHELANK-RRISVTGASKLLANI-LYSY--RGMGLSVGTMIAGWDE----TVREFMFQVFCFAFASLI-A-S  181 (302)
Q Consensus       112 ~~lr~e~~~y~l~~g-~~isv~~lAk~Ls~~-ly~~--R~rP~~vs~IIaG~D~----~Gp~LY~idyS~D~Gg~~-~-~  181 (302)
                      +.++.+++.|+++++ ++++++.+++++++. .+.|  +.|||+|++||||||+    .||+||++|   ++|+.. . +
T Consensus        76 ~~~~~~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~gv~~liaG~D~~~~~~gp~Ly~~D---p~G~~~~e~~  152 (248)
T 3mi0_A           76 RGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRPELYRIT---YDGSIADEPH  152 (248)
T ss_dssp             HHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCTTCCCCCEEEEEC---TTSCEEEESS
T ss_pred             HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCCCCCEEEEEC---CCeEEeeccc
Confidence            999999999999999 999999999999944 3333  5789999999999998    799999997   467777 3 8


Q ss_pred             eeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          182 LLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       182 ~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +.++|+++.+++++||+.|+++||++||+.+
T Consensus       153 ~~a~Gsgs~~a~~~Le~~y~~~mt~eeai~l  183 (248)
T 3mi0_A          153 FVVMGGTTEPIANALKESYAENASLTDALRI  183 (248)
T ss_dssp             EEEESSCHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             EEEECccHHHHHHHHHhhcCCCCCHHHHHHH
Confidence            9999999999999999999999999999944

>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=1.7e-34  Score=263.88  Aligned_cols=160  Identities=14%  Similarity=0.055  Sum_probs=148.6

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHH-hhHhhCC
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL-HELANKR  127 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~-y~l~~g~  127 (302)
                      ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..||++.+.++++.+++. |+..++.
T Consensus        25 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  103 (250)
T 1ryp_B           25 LTAVKQGVTSLGIKATNGVVIATEKKSS-SPLAMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGE  103 (250)
T ss_dssp             HHHHHTSCCEEEEEETTEEEEEEECCCS-CSSBCGGGCCSSEEEETTEEEEEEECHHHHHHHHHHHHHHHHHTTHHHHSS
T ss_pred             HHHHHcCCcEEEEEECCEEEEEEeccCC-CccccCcccCceEEECCCEEEEeeeCHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            7899999999999999999999999998 8999999999999999999999999999999999999999999 9999999


Q ss_pred             cCCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc
Q 022125          128 RISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK  201 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk  201 (302)
                      +++++.+++.++++++.++    .|||++++||||||+ .||+||++|   +.|.... ++.++|+|+.+++++||+.|+
T Consensus       104 ~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~  180 (250)
T 1ryp_B          104 YPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVD---PSGSYFPWKATAIGKGSVAAKTFLEKRWN  180 (250)
T ss_dssp             CCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHCC
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEEC---CCCCEEeeceeEecCccHHHHHHHHHHhc
Confidence            9999999999999887653    479999999999997 589999986   4566554 899999999999999999999


Q ss_pred             CCCCHHHHhhh
Q 022125          202 EGGSKEHGSLW  212 (302)
Q Consensus       202 ~dmS~eEAi~l  212 (302)
                      ++||++||+++
T Consensus       181 ~~ms~eea~~l  191 (250)
T 1ryp_B          181 DELELEDAIHI  191 (250)
T ss_dssp             TTCCHHHHHHH
T ss_pred             cCCCHHHHHHH
Confidence            99999999844

>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=4.4e-34  Score=259.54  Aligned_cols=151  Identities=23%  Similarity=0.289  Sum_probs=143.6

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||..||++.+.++++.+++.|+++++++++++.++
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++.+|.++ +||++++||||||++||+||.+|   +.|.... ++.++|+|+++++++||+.|+++||++||+
T Consensus        81 ~~l~~~l~~~~-~~~~v~llvaG~D~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~  152 (234)
T 1iru_I           81 RMLKQMLFRYR-GYIGAALVLGGVDVTGPHLYSIY---PHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAK  152 (234)
T ss_dssp             HHHHHHHHHTT-TCSCEEEEEEEECSSCEEEEEEC---TTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHH
T ss_pred             HHHHHHHHhcC-CCCceeEEEEEEcCCCCEEEEEC---CCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHH
Confidence            99999999876 58999999999999999999986   4566554 899999999999999999999999999998

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

Probab=100.00  E-value=1.1e-34  Score=267.75  Aligned_cols=159  Identities=16%  Similarity=0.130  Sum_probs=147.5

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+.   .++.+||++|++++++++||..+|++.++++++.+++.|+++++++
T Consensus        26 ~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl---~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~  102 (263)
T 1iru_F           26 MEAVKQGSATVGLKSKTHAVLVALKRAQSEL---AAHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRP  102 (263)
T ss_dssp             HHHHHHSCCEEEEECSSEEEEEEECCCSSTT---BCCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCcEEEEEeCCEEEEEEeccccccc---ccchhcEEEEcCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            7899999999999999999999999999774   2588999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC-
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE-  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~-  202 (302)
                      |+++.+|+++++++|.++    .|||+|++||||||++||+||++|   +.|..+. ++.++|+++.+++++||+.|++ 
T Consensus       103 i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~~gp~Ly~id---p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~  179 (263)
T 1iru_F          103 LPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTC---PSANYFDCRAMSIGARSQSARTYLERHMSEF  179 (263)
T ss_dssp             CCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEEC---SSSCEEEESEEEESTTHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcCCCCEEEEEC---CCCCEEEeeEEEcCcccHHHHHHHHHHhccc
Confidence            999999999999998763    479999999999999999999986   3566555 8999999999999999999998 


Q ss_pred             -CCCHHHHhhhh
Q 022125          203 -GGSKEHGSLWD  213 (302)
Q Consensus       203 -dmS~eEAi~l~  213 (302)
                       +||++||+++.
T Consensus       180 ~~ms~eea~~la  191 (263)
T 1iru_F          180 MECNLNELVKHG  191 (263)
T ss_dssp             TTCCHHHHHHHH
T ss_pred             CCCCHHHHHHHH
Confidence             99999999665

>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=4.9e-34  Score=258.92  Aligned_cols=152  Identities=20%  Similarity=0.223  Sum_probs=144.2

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|+++.+++.+||++|++++++++||..||++.+.++++.+++.|+++++++++++.+|
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcc---CCCceeeEeEEEEcCC-C-----ceeEEEeeecCccccc-c--ceeEecchhhhHHHHHHhhccCC
Q 022125          136 KLLANILYSYR---GMGLSVGTMIAGWDET-V-----REFMFQVFCFAFASLI-A--SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       136 k~Ls~~ly~~R---~rP~~vs~IIaG~D~~-G-----p~LY~idyS~D~Gg~~-~--~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++|++++|.++   .+||+|++||||||++ |     |+||++|   +.|+.+ .  ++.++|+|+.+++++||+.|+++
T Consensus        81 ~~l~~~~~~~~~~~~rp~~v~~lvaG~D~~~g~~~~~p~Ly~id---p~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~  157 (235)
T 1q5q_H           81 NRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYD---VVGGRYEERAGYHAVGSGSLFAKSALKKIYSPD  157 (235)
T ss_dssp             HHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCEEEEEEC---TTSCEEECCSSEEEESTTHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHHHHhhhcccceEEEEEEEECCCCccCCCCEEEEEC---CCCceEEeCCCeEEECCCHHHHHHHHHhhcCCC
Confidence            99999999875   5899999999999987 7     8999986   456665 4  79999999999999999999999


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      ||++||+
T Consensus       158 ms~eeA~  164 (235)
T 1q5q_H          158 SDEETAL  164 (235)
T ss_dssp             CCHHHHH
T ss_pred             CCHHHHH
Confidence            9999998

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A

Probab=100.00  E-value=4.6e-34  Score=263.30  Aligned_cols=170  Identities=12%  Similarity=0.141  Sum_probs=147.5

Q ss_pred             CCCCCCcchhHhh--hhhhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHH
Q 022125           33 LPLSTDFDEFQKD--TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFW  110 (302)
Q Consensus        33 ~p~~~~~~~~~~~--~~~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l  110 (302)
                      .|..-+|..+.+.  .-.++||++|+|+|||+++||||||+|+|        +++.+||++|++|+++++||..+|++.+
T Consensus         3 ~p~~~sPe~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r--------s~~~~KI~~I~d~i~~~~aG~~aD~~~l   74 (259)
T 1q5q_A            3 MPYYASAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP--------STALHKVSELYDRLGFAAVGKYNEFENL   74 (259)
T ss_dssp             ------CHHHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS--------CSSSCSEEEEETTEEEEEEECHHHHHHH
T ss_pred             CCcccCHHHHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC--------CCCcCcEEEeCCCEEEEEccCHHHHHHH
Confidence            4666677777742  22378999999999999999999999999        3678999999999999999999999999


Q ss_pred             HHHHHHHHHHhhHhhC-CcCCHHHHHHHHHHHH---HHccCCCceeeEeEEEEc----CCCceeEEEeeecCccccc-c-
Q 022125          111 HRNLGIKCRLHELANK-RRISVTGASKLLANIL---YSYRGMGLSVGTMIAGWD----ETVREFMFQVFCFAFASLI-A-  180 (302)
Q Consensus       111 ~~~lr~e~~~y~l~~g-~~isv~~lAk~Ls~~l---y~~R~rP~~vs~IIaG~D----~~Gp~LY~idyS~D~Gg~~-~-  180 (302)
                      +++++.+++.|++.++ ++|+++.+|+++++++   |.++.+||+|++||||||    +.||+||++|   +.|+.+ . 
T Consensus        75 ~~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~~v~~lvaG~D~~~~~~gp~Ly~id---p~G~~~~~~  151 (259)
T 1q5q_A           75 RRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRIT---YDGSIVDEQ  151 (259)
T ss_dssp             HHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEE---TTSCEEEES
T ss_pred             HHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcccCCCCCCEEEEEC---CCCceeeCC
Confidence            9999999999999988 4999999999999953   555789999999999999    6799999997   467777 4 


Q ss_pred             ceeEecchhhhHHHHHHhhccCCCCHHHHhhhh
Q 022125          181 SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLWD  213 (302)
Q Consensus       181 ~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l~  213 (302)
                      ++.++|++++.++++|++.|+++||++||+.+.
T Consensus       152 ~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la  184 (259)
T 1q5q_A          152 HFVVMGGTTEPIATAMRESYRADLDLEAAVGIA  184 (259)
T ss_dssp             SEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             CEEEECCChHHHHHHHHhhccCCCCHHHHHHHH
Confidence            799999999999999999999999999999554

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=99.96  E-value=2.3e-29  Score=219.92  Aligned_cols=145  Identities=18%  Similarity=0.123  Sum_probs=128.7

Q ss_pred             ccCceEEEEEeCCeEEEEEeCccCCCCe-eeccccceEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCC
Q 022125           53 AKGTTTLAFIFKEGVMVAADSRASMGGY-ISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRIS  130 (302)
Q Consensus        53 ~~GtTvIgIk~kDGVVLAaDtr~s~g~l-i~s~~~~KI~~I-~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~is  130 (302)
                      .+|+|+|||+++||||||+|+|.+.|.+ +.+++.+||++| ++|+++++||..||++.+.++++.+++.|+   |  ..
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g--~~   77 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G--NL   77 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T--CH
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C--Ch
Confidence            6799999999999999999999999988 999999999999 999999999999999999999999999998   3  33


Q ss_pred             HHHHHHHHHHHHHHccC-CCceeeEeEEEEcCCCceeEEEeeecCcccccc---ceeEecchhhhHHHHHHhhccC---C
Q 022125          131 VTGASKLLANILYSYRG-MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA---SLLSCLSVGCRVLGCIMWTVKE---G  203 (302)
Q Consensus       131 v~~lAk~Ls~~ly~~R~-rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~---~~~a~Gsgs~~a~g~Le~~yk~---d  203 (302)
                      ++.++ .+++.++.+++ |||++++|||    +||+||++|   +.|..+.   ++.++|+|+.+++++||+.|++   +
T Consensus        78 ~~~~~-~l~~~~~~~~~~rp~~~~~lva----d~p~ly~~d---~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~  149 (180)
T 2z3b_A           78 KRAAV-ELAKEWRSDKVLRKLEAMLIVM----NQDTLLLVS---GTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGES  149 (180)
T ss_dssp             HHHHH-HHHHHHHHCTTGGGCCCCEEEE----CSSCEEEEC---TTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGG
T ss_pred             HHHHH-HHHHHHHhhhCcCcceEEEEEE----cCCeEEEEC---CCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCC
Confidence            44444 46777877776 6999999999    479999986   4566554   8999999999999999999998   9


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      ||.+|++
T Consensus       150 mt~eel~  156 (180)
T 2z3b_A          150 MSASEIA  156 (180)
T ss_dssp             CCHHHHH
T ss_pred             CCHHHHH
Confidence            9999954

>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine residue, hydrolase; 2.10A {Thermotoga maritima} SCOP: d.153.1.4

Probab=99.96  E-value=8e-29  Score=213.99  Aligned_cols=141  Identities=17%  Similarity=0.119  Sum_probs=124.6

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I-~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~l  134 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++| ++++++++||..||++.+.++++.+++.|+++     .++.+
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            6999999999999999999999999999999999999 99999999999999999999999999999855     26777


Q ss_pred             HHHHHHHHHHccC-CCceeeEeEEEEcCCCceeEEEeeecCcccccc-c--eeEecchhhhHHHHHHhhcc-CCCCHHHH
Q 022125          135 SKLLANILYSYRG-MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-S--LLSCLSVGCRVLGCIMWTVK-EGGSKEHG  209 (302)
Q Consensus       135 Ak~Ls~~ly~~R~-rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~--~~a~Gsgs~~a~g~Le~~yk-~dmS~eEA  209 (302)
                      +++. +.++++++ +||++++|++  |  ||+||++|   +.|..+. +  +.++|+|+.+++++||+.|+ ++||.+|.
T Consensus        76 ~~l~-~~~~~~~~~~~~~~~~lv~--D--~p~Ly~~d---~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~~~l  147 (171)
T 1m4y_A           76 VELA-KDWRTDRVLRRLEALLLVA--D--KENIFIIS---GNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSAREI  147 (171)
T ss_dssp             HHHH-HHHHHCTTGGGCCCEEEEE--C--SSCEEEEC---TTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCHHHH
T ss_pred             HHHH-HHHHHhCCCCceEEEEEEE--c--CCEEEEEC---CCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCHHHH
Confidence            7764 47777776 5699998888  5  89999986   4565554 5  99999999999999999999 99997543

>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=8.4e-29  Score=214.67  Aligned_cols=142  Identities=20%  Similarity=0.207  Sum_probs=126.1

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEe-cCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I-~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~l  134 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++| ++|+++++||..||++.+.++++.+++.|++      ++...
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            6999999999999999999999999999999999999 9999999999999999999999999999985      45667


Q ss_pred             HHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-c---eeEecchhhhHHHHHHhhcc-CCCCHHHH
Q 022125          135 SKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-S---LLSCLSVGCRVLGCIMWTVK-EGGSKEHG  209 (302)
Q Consensus       135 Ak~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~---~~a~Gsgs~~a~g~Le~~yk-~dmS~eEA  209 (302)
                      +..|++.++.+|+.| .++++|+|+|  ||+||++|   +.|.... +   +.++|+|+.+++++||+.|+ ++||.+|.
T Consensus        75 ~~~l~~~~~~~~~~r-~~~~~l~g~d--~p~Ly~~d---~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~~~l  148 (174)
T 1g3k_A           75 AVELAKDWRTDRALR-KLEAMLIVAD--EKESLIIT---GIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAHEI  148 (174)
T ss_dssp             HHHHHHHHHHSTTGG-GCCCEEEEEC--SSCEEEEE---TTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHHHH
T ss_pred             HHHHHHHHHhccCcC-cceEEEEEEC--CCEEEEEc---CCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHHHH
Confidence            778889998887744 2568888998  79999987   4555554 5   99999999999999999999 99996643

---

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	302
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	7e-29
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	1e-27
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-26
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	4e-25
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-25
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	6e-25
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-24
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	4e-24
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-23
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-23
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	9e-23
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-22
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-22
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	3e-22
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	7e-22
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	9e-22
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	9e-22
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	1e-21
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-21
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	8e-21
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	1e-20
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-20
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-20
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	9e-20
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-19
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	2e-19
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-19
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-19
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	7e-19
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	8e-19
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-17
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-17
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-17
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-17
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	6e-17
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-16
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-16

>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 =  107 bits (268), Expect = 7e-29
 Identities = 76/113 (67%), Positives = 92/113 (81%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L 
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMF 168
            +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+      +
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYY 113

>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 =  104 bits (260), Expect = 1e-27
 Identities = 68/117 (58%), Positives = 90/117 (76%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ G++VA DSRA+ G +++SQ+VK++IEINP++LGTMAGGAADCQFW   LG
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFC 172
            +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+       ++ V  
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDS 117

>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 =  100 bits (249), Expect = 5e-26
 Identities = 34/114 (29%), Positives = 53/114 (46%), Gaps = 1/114 (0%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV++ ADSR + G YI+++   K+  I+  +    +G AAD Q     + 
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQ 169
            +   H +       V  A+ L   + Y YR   L  G +IAGWD      ++ 
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYRED-LMAGIIIAGWDPQEGGQVYS 113

>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 = 98.3 bits (244), Expect = 4e-25
 Identities = 25/125 (20%), Positives = 51/125 (40%), Gaps = 7/125 (5%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
             GT+ ++  +  GV++AAD+  S G  +    V+++I +    +  ++G  +D Q   R
Sbjct: 6   VTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIER 65

Query: 113 NLGIKCRLHELANKR-----RISVTGASKLLANILYSYRGMGL--SVGTMIAGWDETVRE 165
            L      +   N        +  +   + LA ++Y  R          ++AG      +
Sbjct: 66  LLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQ 125

Query: 166 FMFQV 170
           F+  V
Sbjct: 126 FLRYV 130

>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 = 97.5 bits (242), Expect = 5e-25
 Identities = 28/119 (23%), Positives = 58/119 (48%), Gaps = 2/119 (1%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G + +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     
Sbjct: 8   LGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADI 67

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFC 172
           +     L+        + T A+ +   + Y  +   L+ G ++AG+D+  +  ++ +  
Sbjct: 68  VQYHLELYTSQYGTPSTET-AASVFKELCYENKDN-LTAGIIVAGYDDKNKGEVYTIPL 124

>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 = 97.2 bits (241), Expect = 6e-25
 Identities = 30/108 (27%), Positives = 47/108 (43%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G   +A   K  V +AAD R  +   + +   +KI  +   +   +AG A D Q   + L
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
             +  L+EL   R+I       ++AN+LY  R        +IAG D  
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPK 114

>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 = 96.0 bits (238), Expect = 2e-24
 Identities = 32/113 (28%), Positives = 57/113 (50%), Gaps = 1/113 (0%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    ++K+G+++ AD+RA+ G  ++ ++  KI  I+P +    AG AAD     + + 
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMF 168
               LH L+  R   V  A+++L  +L+ YRG  +    ++ G D T      
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGY-IGAALVLGGVDVTGPHLYS 112

>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 = 94.9 bits (235), Expect = 4e-24
 Identities = 30/113 (26%), Positives = 55/113 (48%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTT+    K+ V++A + R +M  +I  ++ KK+ +I+ Y   T+AG   D Q   R + 
Sbjct: 1   TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMK 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMF 168
            +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D     F  
Sbjct: 61  AELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGIDTAPHVFSI 113

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 198

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 92.9 bits (230), Expect = 2e-23
 Identities = 20/113 (17%), Positives = 43/113 (38%), Gaps = 2/113 (1%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
              L    ++ V++A+    + G  +   S  K  +++P+ L + AG A D   +   + 
Sbjct: 2   DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQ 61

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDETVREF 166
              +L+ +     +S    S  +   L           V  +I G+D+   + 
Sbjct: 62  ANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKP 114

>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 = 92.6 bits (229), Expect = 5e-23
 Identities = 30/108 (27%), Positives = 54/108 (50%), Gaps = 3/108 (2%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  +K GV++A D RA+ G  I+S+ V+K+   + Y    +AG A       R   
Sbjct: 1   TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFA 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRG---MGLSVGTMIAGWD 160
           ++   +E      ++  G +  LA+++    G    GL+V  ++ G+D
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYD 108

>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 = 92.0 bits (228), Expect = 9e-23
 Identities = 15/129 (11%), Positives = 48/129 (37%), Gaps = 12/129 (9%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           A+G + +   F++GV+  A++ ++        ++ K+ E+   +     G   + +   R
Sbjct: 17  ARGRSVVVLTFRDGVLFVAENPST--------ALHKVSELYDRLGFAAVGKYNEFENLRR 68

Query: 113 NLGIKCRLHELA-NKRRISVTGASKLLANI---LYSYRGMGLSVGTMIAGWDETVREFMF 168
              +   +   + ++R ++    +   A     +++ +     V   +A           
Sbjct: 69  AGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAP 128

Query: 169 QVFCFAFAS 177
           Q++   +  
Sbjct: 129 QLYRITYDG 137

>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 = 91.4 bits (226), Expect = 1e-22
 Identities = 28/108 (25%), Positives = 45/108 (41%), Gaps = 1/108 (0%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G   +A   K+ V +A D R        S   +KI       LG + G A D    +   
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLG-ITGLATDVTTLNEMF 66

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET 162
             K  L++L  +R I     ++L+++ LY  R     VG ++AG +  
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSK 114

>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 = 91.0 bits (225), Expect = 2e-22
 Identities = 25/117 (21%), Positives = 54/117 (46%), Gaps = 1/117 (0%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G T L    ++  ++A D+R      I+S+   K+ +    ++ +  G AAD     +  
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 115 GIKCRLHELANK-RRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQV 170
               + +   +  +++S+  A++ + ++LY  R     V T+IAG DE  +  ++  
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSF 125

>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 = 90.6 bits (224), Expect = 3e-22
 Identities = 28/113 (24%), Positives = 46/113 (40%), Gaps = 3/113 (2%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
             GT+ L   F+ GV++AAD   S G     +++ +I+ +N   +   +G  AD Q+  +
Sbjct: 6   VTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQ 65

Query: 113 NLGIKCRLHELAN-KRRISVTGASKLLANILYSYRGMGL--SVGTMIAGWDET 162
            LG      EL       S       L   +YS R          +I G+ + 
Sbjct: 66  VLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADG 118

>d1j2qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 202

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score = 89.1 bits (220), Expect = 7e-22
 Identities = 40/115 (34%), Positives = 64/115 (55%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTT+  + K+GV++A + RA+MG +I+S++ KKI +I   M  T AG   D QF  R + 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQV 170
           I+  L+E+  +R+ +V   + L +N+L SYR     V  +I G D   +      
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSID 115

>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 = 89.3 bits (221), Expect = 9e-22
 Identities = 24/131 (18%), Positives = 52/131 (39%), Gaps = 11/131 (8%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
             G+T +     EGV +A + R +    +   S++KI+EI+ ++   M+G  AD +    
Sbjct: 25  KLGSTAIGIQTSEGVCLAVEKRITSP-LMEPSSIEKIVEIDAHIGCAMSGLIADAKTLID 83

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSY---------RGMGLSVGTMIAGWDETV 163
              ++ + H       ++V   ++ ++N+   +               V  +  G DE  
Sbjct: 84  KARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK- 142

Query: 164 REFMFQVFCFA 174
              +F +    
Sbjct: 143 GPQLFHMDPSG 153

>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 = 89.7 bits (222), Expect = 9e-22
 Identities = 26/125 (20%), Positives = 47/125 (37%), Gaps = 4/125 (3%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
              T L  +  +GV++AA+ R            +KI ++N  M  ++AG  +D       
Sbjct: 29  HAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNE 88

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETVREFMFQ 169
           L +  + + L  +  I        L +I  +Y   G      V  +  GWD+     ++Q
Sbjct: 89  LRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQ 148

Query: 170 VFCFA 174
                
Sbjct: 149 SDPSG 153

>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 = 89.1 bits (220), Expect = 1e-21
 Identities = 34/117 (29%), Positives = 58/117 (49%), Gaps = 2/117 (1%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +   F  GV++AAD+R++ G  ++ ++  K+  I+P +    AG AAD +   + +G
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFC 172
               LH L   R   V  A ++L   L+ Y+G       ++AG D T    +F +  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHI-GAYLIVAGVDPT-GSHLFSIHA 115

>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 = 89.0 bits (220), Expect = 1e-21
 Identities = 22/126 (17%), Positives = 49/126 (38%), Gaps = 4/126 (3%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           +   T +  +  +G+++AA+ + +        S +K+ ++N  +   +AG  AD +    
Sbjct: 29  SHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILIN 88

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETVREFMF 168
              I  + +       I V    + L++I   Y   G      V  + AG+D+     ++
Sbjct: 89  TARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLY 148

Query: 169 QVFCFA 174
                 
Sbjct: 149 TSNPSG 154

>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 = 87.1 bits (215), Expect = 8e-21
 Identities = 28/131 (21%), Positives = 53/131 (40%), Gaps = 11/131 (8%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G+T +    KEGV++  + RA+    + S S++KI+EI+ ++   M+G  AD +    +
Sbjct: 25  LGSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADARSMIEH 83

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----------LSVGTMIAGWDETV 163
                  H L     I+V   ++ + ++   +                V  +IAG D   
Sbjct: 84  ARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADD 143

Query: 164 REFMFQVFCFA 174
              +F      
Sbjct: 144 GYQLFHAEPSG 154

>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 = 85.9 bits (212), Expect = 1e-20
 Identities = 26/113 (23%), Positives = 48/113 (42%), Gaps = 5/113 (4%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T L   F  GV++ +D +      I   S++KI  I+ Y+    +G  AD +     
Sbjct: 21  KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF 79

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDET 162
             I  +  ++     +++    K +A+ +  Y   G      V  + AG D+ 
Sbjct: 80  ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQI 132

>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 = 85.3 bits (210), Expect = 2e-20
 Identities = 27/119 (22%), Positives = 56/119 (47%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G T LA   ++  +VA+D+R S G  I ++   K  ++    +   +G   DC    + +
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCF 173
             + ++++ +N + ++    + +L+ ILYS R     V  +I G DE  +  ++     
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPV 127

>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 = 85.5 bits (211), Expect = 2e-20
 Identities = 23/117 (19%), Positives = 54/117 (46%), Gaps = 4/117 (3%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +GT  +    K  V++  + R+++    +  +  K+ +I+ +++ + +G  AD +     
Sbjct: 27  RGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEK 86

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETVREF 166
             ++ + H L  +  ++V   ++ +A +   Y   G      V T+IAG+D    E 
Sbjct: 87  ARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEP 143

>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 = 84.3 bits (208), Expect = 9e-20
 Identities = 18/113 (15%), Positives = 40/113 (35%), Gaps = 5/113 (4%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            GTT++     +GV+ A +   +    +  Q   KI  ++ ++    +G   D +     
Sbjct: 29  NGTTSIGIKCNDGVVFAVEKLITSK-LLVPQKNVKIQVVDRHIGCVYSGLIPDGRHLVNR 87

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDET 162
              +    +   K  I +   +  L   + ++          V T+  G D+ 
Sbjct: 88  GREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKN 140

>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 = 83.9 bits (207), Expect = 1e-19
 Identities = 15/121 (12%), Positives = 40/121 (33%), Gaps = 5/121 (4%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
             +T +    K+GV+   +       Y    S K++  ++ ++   +AG  AD +     
Sbjct: 32  NSSTAIGIRCKDGVVFGVEKLVLSKLYEEG-SNKRLFNVDRHVGMAVAGLLADARSLADI 90

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETVREFMFQ 169
              +           I +   +  +A  +++Y             M+  +       ++ 
Sbjct: 91  AREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYM 150

Query: 170 V 170
           +
Sbjct: 151 I 151

>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 = 81.8 bits (201), Expect = 2e-19
 Identities = 19/112 (16%), Positives = 33/112 (29%), Gaps = 3/112 (2%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYI-SSQSVKKIIEINP-YMLGTMAGGAADCQFWH 111
             TT  A   K    ++ D + + G  +    + +K+ ++    +L   AG  AD     
Sbjct: 4   HATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLF 63

Query: 112 RNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETV 163
                K   +    KR             +L     M L V         + 
Sbjct: 64  EKFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAM-LIVMNQDTLLLVSG 114

>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 = 82.8 bits (204), Expect = 2e-19
 Identities = 30/113 (26%), Positives = 50/113 (44%), Gaps = 7/113 (6%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
            +G+ T+        ++ A  R +      S   KKII+ + +M  ++AG A D +    
Sbjct: 29  KQGSVTVGLRSNTHAVLVALKRNADE---LSSYQKKIIKCDEHMGLSLAGLAPDARVLSN 85

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILY----SYRGMGLSVGTMIAGWDE 161
            L  +C    L   R+++V  A  LL +       SY G    VG +I G+D+
Sbjct: 86  YLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDK 138

>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 = 82.8 bits (204), Expect = 2e-19
 Identities = 27/113 (23%), Positives = 51/113 (45%), Gaps = 5/113 (4%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
            +G T +    KEGV++ AD R      +   +++KI +I+ ++    +G  AD +    
Sbjct: 29  KRGATAIGIKCKEGVILIADKRVGSK-LLEKDTIEKIYKIDEHICAATSGLVADARVLID 87

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDE 161
              I+ +++ L     I+V   +K + +    Y   G      V  +IAG +E
Sbjct: 88  RARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE 140

>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 = 80.2 bits (197), Expect = 7e-19
 Identities = 15/121 (12%), Positives = 35/121 (28%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT L        ++  D + + G  +   + +K+ ++    +     G+        +  
Sbjct: 1   TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAF 175
                    N  + +V  A     + +       L V      +  +    + Q    A 
Sbjct: 61  EAKLREWGGNLTKAAVELAKDWRTDRVLRRLEALLLVADKENIFIISGNGEVIQPDDDAA 120

Query: 176 A 176
           A
Sbjct: 121 A 121

>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 = 81.6 bits (201), Expect = 8e-19
 Identities = 22/125 (17%), Positives = 54/125 (43%), Gaps = 5/125 (4%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T +    ++ V++  + + S+      ++V+KI  ++  +    AG  AD +     
Sbjct: 27  KGSTAVGVRGRDIVVLGVEKK-SVAKLQDERTVRKICALDDNVCMAFAGLTADARIVINR 85

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETVREFMFQ 169
             ++C+ H L  +  ++V   ++ +A++   Y          +  +I G+D      ++Q
Sbjct: 86  ARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQ 145

Query: 170 VFCFA 174
                
Sbjct: 146 TDPSG 150

>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 = 78.1 bits (192), Expect = 1e-17
 Identities = 21/110 (19%), Positives = 39/110 (35%), Gaps = 5/110 (4%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G T++A   K+  ++    +       SS +V  + +I   +   M G  AD +   +  
Sbjct: 35  GLTSVAVRGKDCAVIVTQKKVPDKLLDSS-TVTHLFKITENIGCVMTGMTADSRSQVQRA 93

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSY----RGMGLSVGTMIAGWD 160
             +    +      I V    K +A+I   Y        L    ++ G D
Sbjct: 94  RYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGID 143

>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 = 77.8 bits (191), Expect = 2e-17
 Identities = 21/113 (18%), Positives = 41/113 (36%), Gaps = 6/113 (5%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G T+L      GV++A + ++S      S+++ K+  + P +    +G   D +     
Sbjct: 30  QGVTSLGIKATNGVVIATEKKSSS-PLAMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDK 88

Query: 114 LGIKCRL-HELANKRRISVTGASKLLANIL----YSYRGMGLSVGTMIAGWDE 161
                   ++               +A I+     S       V  +IAG DE
Sbjct: 89  SRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDE 141

>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 = 76.8 bits (188), Expect = 2e-17
 Identities = 21/120 (17%), Positives = 45/120 (37%), Gaps = 2/120 (1%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
              +     + V+VA+D  A+           K+ +++  +L    G A D   +   + 
Sbjct: 2   EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQ 61

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDETVREFMFQVFCF 173
              +L+++ N   +S T A+      L           V  ++AG+DE     ++ +   
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYL 121

>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 = 77.4 bits (190), Expect = 2e-17
 Identities = 23/113 (20%), Positives = 46/113 (40%), Gaps = 7/113 (6%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G+ T+    K   ++ A  RA       +   KKI+ ++ ++  ++AG  AD +     
Sbjct: 28  QGSATVGLKSKTHAVLVALKRAQSE---LAAHQKKILHVDNHIGISIAGLTADARLLCNF 84

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDET 162
           +  +C        R + V+    L+ +               VG +IAG+D+ 
Sbjct: 85  MRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDM 137

>d1g3ka_ d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus influenzae [TaxId: 727]} Length = 173

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Haemophilus influenzae [TaxId: 727]

 Score = 74.8 bits (183), Expect = 6e-17
 Identities = 17/105 (16%), Positives = 35/105 (33%), Gaps = 3/105 (2%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPY-MLGTMAGGAADCQFWHRNL 114
           TT ++      V+V  D + S+G  +   + +K+  +    +L   AGG AD        
Sbjct: 1   TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELF 60

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGW 159
             K  +H+    +       +K         +   + +       
Sbjct: 61  ERKLEMHQGHLLKSAVE--LAKDWRTDRALRKLEAMLIVADEKES 103

>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 = 74.8 bits (183), Expect = 2e-16
 Identities = 18/126 (14%), Positives = 44/126 (34%), Gaps = 4/126 (3%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           A G  ++      GV++A + +         +SV K+  I  ++    +G   D +    
Sbjct: 29  AGGAPSVGIKAANGVVLATEKKQKS-ILYDERSVHKVEPITKHIGLVYSGMGPDYRVLVH 87

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRG---MGLSVGTMIAGWDETVREFMFQ 169
                 + + L  +  I      + +A+++  Y     +     +++       R ++FQ
Sbjct: 88  RARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQ 147

Query: 170 VFCFAF 175
                 
Sbjct: 148 SDPSGA 153

>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 = 74.4 bits (182), Expect = 3e-16
 Identities = 16/110 (14%), Positives = 32/110 (29%), Gaps = 5/110 (4%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
              +LA   K+  +V +  +      +   +V  I  I+  +   + G   D +      
Sbjct: 30  NINSLAVRGKDCTVVISQKKVPDK-LLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRA 88

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWD 160
             +           +     +K +AN+   Y        L V       D
Sbjct: 89  KAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVD 138

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	302
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.97
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.87
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.82
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.8

>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=6.4e-37  Score=268.43  Aligned_cols=152  Identities=53%  Similarity=0.818  Sum_probs=146.8

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.++|.++.+++.+|||+|++++++++||..+|++.+.+.++.+++.|+++++++++++.+|
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.+|.+||++++++||+|++||+||++|   +.|+... ++.++|+|+.+++++|++.|+||||.+||+
T Consensus        81 ~~l~~~~~~~~~~p~~~~~lvaG~d~~~~~l~~~d---~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~  153 (201)
T d1irul_          81 KLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVD---SEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAY  153 (201)
T ss_dssp             HHHHHHHHTTTTSCCCBEEEEEEECSSSEEEEEEE---SSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHH
T ss_pred             HHHHHHhhhccCCCceEEEEEEEEecCCceEEEEc---cCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHH
Confidence            99999999999999999999999999999999987   4666665 899999999999999999999999999998

>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=6.4e-36  Score=266.15  Aligned_cols=158  Identities=18%  Similarity=0.203  Sum_probs=148.6

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++++
T Consensus        16 ~~av~~G~t~vgi~~~dgVvlaad~r~~-~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~   94 (221)
T d1yara1          16 REAVKKGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSL   94 (221)
T ss_dssp             HHHHTTSCCEEEEEETTEEEEEECCCCC-CTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCcEEEEEeCCEEEEEEecccC-CcccccCccceEEEecCCceEEeeeccchHHHHHHHHHHHHHHHHHHcCCc
Confidence            6789999999999999999999999988 788889999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+++.++++++.++    .|||++++||||+|++||+||.+|   +.|.... +++++|+|+..++++|++.|+||
T Consensus        95 ~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~gp~Ly~id---~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  171 (221)
T d1yara1          95 VNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCD---PAGTINEYKATAIGSGKDAVVSFLEREYKEN  171 (221)
T ss_dssp             CCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEEC---TTCCEEEBSEEEESTTHHHHHHHHHHHCCTT
T ss_pred             chHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecCCCeEEEEc---CCccEEEeeEEEECCchHHHHHHHHHHhhcc
Confidence            999999999999999874    379999999999999999999986   3455544 89999999999999999999999


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      ||++||+
T Consensus       172 ms~~ea~  178 (221)
T d1yara1         172 LPEKEAV  178 (221)
T ss_dssp             CCHHHHH
T ss_pred             ccHHHHH
Confidence            9999998

>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=7.1e-36  Score=260.32  Aligned_cols=152  Identities=28%  Similarity=0.384  Sum_probs=146.6

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|+++.+++.+|||+|++++++++||..+|++.+.+.++.+++.|++.++.+++++.++
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.+|++||++++|+||+|++||+||.+|   +.|+.+.  +++++|+|+.+++++|++.|+|+||.+||+
T Consensus        81 ~~~~~~~~~~~~~p~~~~~lvaG~d~~~~~l~~~d---~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~  154 (202)
T d1j2qh_          81 TLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSID---PIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAV  154 (202)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEEETTEEEEEEEC---TTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHhhhcccceeeEEEEEEEcCCCceEEEEe---CCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHH
Confidence            99999999999999999999999999999999987   4677664  689999999999999999999999999998

>d1ryph_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.3e-35  Score=261.65  Aligned_cols=155  Identities=23%  Similarity=0.292  Sum_probs=144.5

Q ss_pred             ccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCC
Q 022125           51 KHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRIS  130 (302)
Q Consensus        51 av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~is  130 (302)
                      .|++|+|+|||+|+||||||+|+|.+.|.++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|+++++++ +
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            489999999999999999999999999999999999999999999999999999999999999999999999999965 5


Q ss_pred             HHHHHHHHHHHHHHccCCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHH
Q 022125          131 VTGASKLLANILYSYRGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEH  208 (302)
Q Consensus       131 v~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eE  208 (302)
                      +..+++.+++++|.++ +||++++||||+|++ ||+||++|   +.|+... ++.++|+|+.+++++|++.|+|+||++|
T Consensus        84 ~~~~~~~~~~~~~~~~-~p~~~~~lvaG~d~~~~p~Ly~~d---~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~e  159 (205)
T d1ryph_          84 TETAASVFKELCYENK-DNLTAGIIVAGYDDKNKGEVYTIP---LGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEE  159 (205)
T ss_dssp             HHHHHHHHHHHHHHTT-TTCCEEEEEEEEETTTEEEEEEEC---TTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHHHHHHhCc-cCceEEEEEEeecCCCCcEEEEEC---CCCcEEecCeEEeecCcHHHHHHHHhhhhcccCHHH
Confidence            8899999999999876 699999999999975 79999986   3455444 8999999999999999999999999999


Q ss_pred             Hh
Q 022125          209 GS  210 (302)
Q Consensus       209 Ai  210 (302)
                      |+
T Consensus       160 a~  161 (205)
T d1ryph_         160 TV  161 (205)
T ss_dssp             HH
T ss_pred             HH
Confidence            98

>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-35  Score=260.48  Aligned_cols=151  Identities=24%  Similarity=0.292  Sum_probs=144.5

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|+++.+++.+|||+|++++++++||..+|++.+.+.++.+++.|++.++++++++.++
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.+|.+||++++|+||+|+ +|+||.+|   +.|+.+. ++.++|+|+.+++++|++.|+|+||.+||+
T Consensus        81 ~~l~~~~~~~~~~p~~~~~lvaG~d~-~p~l~~~d---~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~  152 (203)
T d1yarh1          81 TLLSNMLNQVKYMPYMVQLLVGGIDT-APHVFSID---AAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGV  152 (203)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEESS-SEEEEEEC---TTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHhhccCCccceeEEEEEcC-CCeeEecC---CccceecccccccCCCcHHHHHHHHHhccCCCCHHHHH
Confidence            99999999999999999999999986 58999886   4565554 899999999999999999999999999998

>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=5.6e-36  Score=268.91  Aligned_cols=158  Identities=15%  Similarity=0.195  Sum_probs=147.2

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|++.+.+ ++..++.+||++|++++++++||..+|++.+++.++.++..|++++|++
T Consensus        21 ~kav~~G~t~vgik~~dgVvlaad~~~~~~-~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~   99 (234)
T d1irue_          21 IEAIKLGSTAIGIQTSEGVCLAVEKRITSP-LMEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNET   99 (234)
T ss_dssp             HHHHTTSCCEEEEEETTEEEEEEECCCCCT-TBCTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEecCccCC-CcccCcccCEEEccCcEEEEEeeccchHHHHHHHHHHHHHHHHHhhCCC
Confidence            789999999999999999999999999855 5668889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc---------CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHh
Q 022125          129 ISVTGASKLLANILYSYR---------GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMW  198 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R---------~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~  198 (302)
                      ++++.+++++++++|.++         .|||+|++||||||++||+||.+|   +.|+... +++++|+|+.+++++||+
T Consensus       100 i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~gp~Ly~id---p~G~~~~~~~~a~G~gs~~~~~~Le~  176 (234)
T d1irue_         100 MTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMD---PSGTFVQCDARAIGSASEGAQSSLQE  176 (234)
T ss_dssp             CCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCCCEEEEEe---cCcccceeeeEEeCCchHHHHHHHHH
Confidence            999999999999998752         489999999999999999999986   4565554 899999999999999999


Q ss_pred             hccCCCCHHHHh
Q 022125          199 TVKEGGSKEHGS  210 (302)
Q Consensus       199 ~yk~dmS~eEAi  210 (302)
                      .|+++||++||+
T Consensus       177 ~~~~~~~~eeai  188 (234)
T d1irue_         177 LYHKSMTLKEAI  188 (234)
T ss_dssp             HCCTTCCHHHHH
T ss_pred             hhccCCCHHHHH
Confidence            999999999998

>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=2.8e-35  Score=260.18  Aligned_cols=153  Identities=47%  Similarity=0.752  Sum_probs=145.6

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+|+||||||+|+|.++|.++.+++++|||+|++++++++||..+|++.+++.++.+++.|++.++++++++.++
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSL  211 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~  211 (302)
                      +++++++|.++++|++++.+++|+|++ ||+||.+|   +.|.... ++.++|+|+.+++++|++.|+|+||++||+.
T Consensus        81 ~~ls~~~~~~~~~p~~~~~~l~G~~~~~g~~Ly~id---~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~  155 (212)
T d1rypl_          81 KILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVD---SDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALY  155 (212)
T ss_dssp             HHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEE---TTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHHhccCCcceEeeeeEeecCCCCEEEEEC---CCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHH
Confidence            999999999999999999999999875 89999987   4566555 8999999999999999999999999999983

>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=9e-36  Score=270.33  Aligned_cols=161  Identities=9%  Similarity=-0.051  Sum_probs=148.1

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++||++|+|+|||+++||||||+|+|.+.+ ++.+++.+||++|++|+++++||..+|++.++++++.+++.|++++|++
T Consensus        27 ~~av~~G~t~VGik~~dgVvlaad~~~~~~-~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~g~~  105 (245)
T d1irug_          27 MKAVENSSTAIGIRCKDGVVFGVEKLVLSK-LYEEGSNKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYN  105 (245)
T ss_dssp             HHHHHTSCCEEEEECSSBEEEEEEEECSCT-TBCTTTTCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCcEEEEEeCCEEEEEEecccccc-ccccCccceEEEcCCCEEEEeccCchhHHHHHHHHHHHHHHHHHHhCCC
Confidence            689999999999999999999999998854 5568889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      ++++.+|+++++++|.++.    |||+|++||||+|+ +||+||++|   +.|.... +++++|+++..++++||+.|++
T Consensus       106 i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iD---p~G~~~~~~~~a~G~gs~~a~~~Le~~~~~  182 (245)
T d1irug_         106 IPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMID---PSGVSYGYWGCAIGKARQAAKTEIEKLQMK  182 (245)
T ss_dssp             CCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEEC---TTCCEEEBSEEEESTTHHHHHHHHTTSCGG
T ss_pred             CCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEc---CCceEEeeeEEEECCccHHHHHHHHhhcCC
Confidence            9999999999999988753    79999999999996 489999996   3555554 8999999999999999999999


Q ss_pred             CCCHHHHhhhh
Q 022125          203 GGSKEHGSLWD  213 (302)
Q Consensus       203 dmS~eEAi~l~  213 (302)
                      |||.+||+.+.
T Consensus       183 dmt~eea~~l~  193 (245)
T d1irug_         183 EMTCRDIVKEV  193 (245)
T ss_dssp             GCCHHHHHHHH
T ss_pred             CCCHHHHHHHH
Confidence            99999998544

>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=3e-35  Score=266.80  Aligned_cols=162  Identities=16%  Similarity=0.132  Sum_probs=151.9

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++||++|+|+|||+++||||||+|+|.+.+.++.+++.+|||+|++++++++||..+|++.+++.++.+++.|++.+|++
T Consensus        24 ~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~  103 (250)
T d1iruc_          24 MEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEP  103 (250)
T ss_dssp             HHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccchHHHHHHHHHHHHHHHHHHcCCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      ++++.+++.+++++|.++.    |||++++||+|+|++ ||+||.+|   |.|+... ++.++|+|+.+++++|++.|++
T Consensus       104 i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~D---p~G~~~~~~~~a~G~gs~~a~~~Le~~y~~  180 (250)
T d1iruc_         104 IPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSD---PSGNYGGWKATCIGNNSAAAVSMLKQDYKE  180 (250)
T ss_dssp             CCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEE---TTTEEEECSEEEESTTTTHHHHHHHHHCCT
T ss_pred             cchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEc---ccccEeeeeEEEeCcChHHHHHHHHhhccc
Confidence            9999999999999998853    799999999999975 89999987   4565554 8999999999999999999995


Q ss_pred             -CCCHHHHhhhh
Q 022125          203 -GGSKEHGSLWD  213 (302)
Q Consensus       203 -dmS~eEAi~l~  213 (302)
                       +||++||+.+.
T Consensus       181 ~~ms~eeai~la  192 (250)
T d1iruc_         181 GEMTLKSALALA  192 (250)
T ss_dssp             TCCCHHHHHHHH
T ss_pred             CCCCHHHHHHHH
Confidence             89999999766

>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=7.8e-35  Score=258.65  Aligned_cols=151  Identities=23%  Similarity=0.289  Sum_probs=143.5

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+|+||||||+|+|.++|.++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|++++|++++++.++
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++++|.++ +|+++++||||+|++||+||++|   +.|.... ++.++|+|+.+++++|++.|+++||.+||+
T Consensus        81 ~~l~~~~y~~~-~p~~~~~ivaG~D~~g~~L~~id---~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~  152 (220)
T d1irui_          81 RMLKQMLFRYR-GYIGAALVLGGVDVTGPHLYSIY---PHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAK  152 (220)
T ss_dssp             HHHHHHHHHTT-TCSCEEEEEEEECSSCEEEEEEC---TTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHH
T ss_pred             HHHHhhhhhcc-cccceeEEEEEEeCCCcEEEEEe---CCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHH
Confidence            99999999876 69999999999999999999986   3454444 899999999999999999999999999998

>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=3.2e-35  Score=258.13  Aligned_cols=157  Identities=20%  Similarity=0.174  Sum_probs=145.6

Q ss_pred             cccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCH
Q 022125           52 HAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISV  131 (302)
Q Consensus        52 v~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv  131 (302)
                      -.||+|+|||+++||||||+|+|.++|.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++.++++
T Consensus         4 ~~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1iruj_           4 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   83 (204)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             eeCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccch
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHccCCCceeeEeEEEEcCCC--ceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCHH
Q 022125          132 TGASKLLANILYSYRGMGLSVGTMIAGWDETV--REFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSKE  207 (302)
Q Consensus       132 ~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~G--p~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~e  207 (302)
                      +.+|+++++++|.++.+||++++||||+|+++  |.+|++|   +.|+...  ++++.|+|+.+++++|++.|+++||.+
T Consensus        84 ~~~a~~l~~~~~~~~~~p~~~~~lvaG~D~~~~~~~~~~~d---~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~  160 (204)
T d1iruj_          84 YTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLD---LIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPD  160 (204)
T ss_dssp             HHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEEC---TTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHH
T ss_pred             HHHHHHHHHHHHHhhhccceeEEEEEEEcCCCCceEEEEec---CCCceeeecceEEechhHHHHHHHHHhccccCCCHH
Confidence            99999999999999999999999999999865  4556654   3455543  789999999999999999999999999


Q ss_pred             HHhh
Q 022125          208 HGSL  211 (302)
Q Consensus       208 EAi~  211 (302)
                      ||+.
T Consensus       161 ea~~  164 (204)
T d1iruj_         161 HLFE  164 (204)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9983

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.4e-35  Score=255.55  Aligned_cols=153  Identities=16%  Similarity=0.173  Sum_probs=143.5

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      +|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..||++.+.+.++.+++.|+++++++++++.++
T Consensus         2 ~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   81 (198)
T d1rypk_           2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVS   81 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             eEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHc--cCCCceeeEeEEEEcC--CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          136 KLLANILYSY--RGMGLSVGTMIAGWDE--TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       136 k~Ls~~ly~~--R~rP~~vs~IIaG~D~--~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +++++.+|.+  +.+||++++||||||+  +||+||.+|   +.|.... +++++|+|+.++.++|++.|+|+||.+||+
T Consensus        82 ~~i~~~~~~~~~~~~P~~~~~liaG~D~~~~~p~L~~id---~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~  158 (198)
T d1rypk_          82 SFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQID---YLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGL  158 (198)
T ss_dssp             HHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEEC---TTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             HHHHHHHHHHHhcccccceEEEEEEEecCCCceEEEEec---ccccEEecceEEEeccchhhHHHHHhcccccCCHHHHH
Confidence            9999999985  3589999999999996  389999986   3455554 899999999999999999999999999998


Q ss_pred             h
Q 022125          211 L  211 (302)
Q Consensus       211 ~  211 (302)
                      .
T Consensus       159 ~  159 (198)
T d1rypk_         159 D  159 (198)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=5.6e-35  Score=264.53  Aligned_cols=161  Identities=14%  Similarity=0.037  Sum_probs=147.6

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+.+.++ .++.+||++|+++++++++|..+|++.++++++.+++.|++.++++
T Consensus        24 ~kav~~G~t~igik~~dgVvlaad~~~~~~~~~-~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  102 (244)
T d1rypg_          24 VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV-PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTP  102 (244)
T ss_dssp             HHHHHTSCCEEEEEETTEEEEEEEEECCCTTBC-TTTSCCCEEETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEecccCCCCcc-ccccceEEEccCceEEEEccchhhHHHHHHHHHHHHHHHHHhcCCC
Confidence            789999999999999999999999999977555 5667899999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHh---hc
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMW---TV  200 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~---~y  200 (302)
                      ++++.+++.+++++|.++.    |||++++||||||++||+||++|   |.|.... +++++|+|+..++++||+   .|
T Consensus       103 ~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~gp~Ly~id---p~Gs~~~~~~~a~G~gs~~~~~~Lek~~~~~  179 (244)
T d1rypg_         103 IPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLE---PSGSYWGYKGAATGKGRQSAKAELEKLVDHH  179 (244)
T ss_dssp             CCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCCCCEEEEEc---CCccEEecCeEecCCccHHHHHHHHHHHhhC
Confidence            9999999999999998853    79999999999999999999986   3455444 899999999999999995   79


Q ss_pred             cCCCCHHHHhhhh
Q 022125          201 KEGGSKEHGSLWD  213 (302)
Q Consensus       201 k~dmS~eEAi~l~  213 (302)
                      +++||++||+.+.
T Consensus       180 ~~~mt~eeai~la  192 (244)
T d1rypg_         180 PEGLSAREAVKQA  192 (244)
T ss_dssp             TTCCCHHHHHHHH
T ss_pred             CCCCCHHHHHHHH
Confidence            9999999999443

>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=1.4e-34  Score=253.71  Aligned_cols=152  Identities=28%  Similarity=0.395  Sum_probs=143.6

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+++++++++++.++
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCC-CceeEEEeeecCccccc-c-ceeEecchhhhHHHHHHhhccCCCCHHHHhhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLI-A-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSLW  212 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~-~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~l  212 (302)
                      +++++++|.+| +||++++|++|+|++ ||+||.+    |++|.. . +|.++|+|+.+++++|++.|+++||.+||+++
T Consensus        81 ~~l~~~l~~~~-~p~~~~~lvaG~d~~~~~~l~~~----d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l  155 (202)
T d1iruh_          81 SLFKEMCYRYR-EDLMAGIIIAGWDPQEGGQVYSV----PMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQF  155 (202)
T ss_dssp             HHHHHHHHHTT-TTCCEEEEEEEEETTTEEEEEEE----CTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhc-cceeEEEEEEEeecCCCcEEEEE----CCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHH
Confidence            99999999987 699999999999974 7899876    456665 3 89999999999999999999999999999843

>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=8.4e-35  Score=262.68  Aligned_cols=161  Identities=14%  Similarity=0.132  Sum_probs=150.1

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+.+.++.+++.+||++|+++++++++|..+|++.+++.++.+++.|++.++++
T Consensus        25 ~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  104 (244)
T d1rypc_          25 LESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNED  104 (244)
T ss_dssp             HHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCcHHHHHHHHHHHHHHHHHHhCCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      ++++.+++.++++++.++    .|||++++||||+|++ ||+||.+|   +.|.... ++.++|+|+.+++++|++.|+|
T Consensus       105 ~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id---~~Gs~~~~~~~a~G~g~~~a~~~Le~~~~~  181 (244)
T d1rypc_         105 IPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSN---PSGNYTGWKAISVGANTSAAQTLLQMDYKD  181 (244)
T ss_dssp             CCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEEC---TTCCEEEBSEEEESTTHHHHHHHHHHHCCT
T ss_pred             CCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEec---CCCcEeeeeeeeccchhHHHHHHHHhcccC
Confidence            999999999999998763    5899999999999975 79999986   3455554 8999999999999999999999


Q ss_pred             CCCHHHHhhh
Q 022125          203 GGSKEHGSLW  212 (302)
Q Consensus       203 dmS~eEAi~l  212 (302)
                      +||++||+.+
T Consensus       182 ~ms~eeai~l  191 (244)
T d1rypc_         182 DMKVDDAIEL  191 (244)
T ss_dssp             TCCHHHHHHH
T ss_pred             CCCHHHHHHH
Confidence            9999999844

>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=1e-34  Score=262.94  Aligned_cols=159  Identities=14%  Similarity=0.056  Sum_probs=145.5

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHH-hhHhhCC
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL-HELANKR  127 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~-y~l~~g~  127 (302)
                      ++||++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|+++++||..+|++.++++++.+++. |+..+++
T Consensus        25 ~kav~~G~tvvgi~~~dgVvlaad~r~~~-~~~~~~~~~ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~y~~~~~~  103 (250)
T d1rypb_          25 LTAVKQGVTSLGIKATNGVVIATEKKSSS-PLAMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGE  103 (250)
T ss_dssp             HHHHHTSCCEEEEEETTEEEEEEECCCSC-SSBCGGGCCSSEEEETTEEEEEEECHHHHHHHHHHHHHHHHHTTHHHHSS
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEecccCC-ccccccccceeEeccCCEEEEeeecccHHHHHHHHHHHHHHHHHHHhcCC
Confidence            68999999999999999999999999884 456788899999999999999999999999999999999874 8999999


Q ss_pred             cCCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcC-CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc
Q 022125          128 RISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK  201 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~-~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk  201 (302)
                      +++++.+++.++++++.++    .|||++++||||+|+ +||+||++|   +.|+... +++++|+|+.+++++||+.|+
T Consensus       104 ~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id---~~G~~~~~~~~a~G~gs~~a~~~Le~~~~  180 (250)
T d1rypb_         104 YPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVD---PSGSYFPWKATAIGKGSVAAKTFLEKRWN  180 (250)
T ss_dssp             CCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHCC
T ss_pred             CCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEc---CcEEEEEeeEEecCcchHHHHHHHHHhcc
Confidence            9999999999999998763    389999999999997 589999986   3555554 899999999999999999999


Q ss_pred             CCCCHHHHhh
Q 022125          202 EGGSKEHGSL  211 (302)
Q Consensus       202 ~dmS~eEAi~  211 (302)
                      |+||++||+.
T Consensus       181 ~~ms~eea~~  190 (250)
T d1rypb_         181 DELELEDAIH  190 (250)
T ss_dssp             TTCCHHHHHH
T ss_pred             cCCCHHHHHH
Confidence            9999999983

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.9e-34  Score=254.13  Aligned_cols=161  Identities=19%  Similarity=0.177  Sum_probs=148.7

Q ss_pred             CcchhHhhhhhhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHH
Q 022125           38 DFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIK  117 (302)
Q Consensus        38 ~~~~~~~~~~~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e  117 (302)
                      +|+||.         +||||+|||+++||||||+|+|.+.+.++.+++.+||++|++++++++||..+|++.+.++++.+
T Consensus         1 ~~~py~---------~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~   71 (222)
T d1ryp1_           1 QFNPYG---------DNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNS   71 (222)
T ss_dssp             CCCCCC---------CCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHH
T ss_pred             CCCCcc---------CCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHH
Confidence            588898         89999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhHhhC-CcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCCC-ceeEEEeeecCcccccc-ceeEecchhhhHHH
Q 022125          118 CRLHELANK-RRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETV-REFMFQVFCFAFASLIA-SLLSCLSVGCRVLG  194 (302)
Q Consensus       118 ~~~y~l~~g-~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~G-p~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g  194 (302)
                      ++.|++.++ .++++..++++++..+|.++.+||+++++|+|+|++| |.||.+|   +.|.... ++.++|+|+.++++
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~Ly~~D---~~G~~~~~~~~a~G~g~~~a~~  148 (222)
T d1ryp1_          72 VKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFD---PVGSYEREQCRAGGAAASLIMP  148 (222)
T ss_dssp             HHHHHHHTTTCCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEEC---TTSCEEEESEEEEETTHHHHHH
T ss_pred             hhhhhhhcCCCCCcHHHHHHHHHHHHHhhhhhhheeeeeEEEEeCCCCeEEEEEC---CCcEEEEeceEEEcccHHHHHH
Confidence            999998865 6789999999999999999999999999999999875 6799886   3455444 89999999999999


Q ss_pred             HHHhhcc-----------------CCCCHHHHh
Q 022125          195 CIMWTVK-----------------EGGSKEHGS  210 (302)
Q Consensus       195 ~Le~~yk-----------------~dmS~eEAi  210 (302)
                      +||+.|+                 ++||.+||+
T Consensus       149 ~Le~~~~~~~~~~~~~~~~~~~~~~~lt~~ea~  181 (222)
T d1ryp1_         149 FLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVI  181 (222)
T ss_dssp             HHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHH
T ss_pred             HHHHhhccccccCcccchhhhcccccccHHHHH
Confidence            9999998                 689999998

>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=3e-34  Score=255.98  Aligned_cols=152  Identities=26%  Similarity=0.301  Sum_probs=143.9

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++.++++..++
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhh
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSL  211 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~  211 (302)
                      +++++.+|.++ +||++++++||+|++||+||.+|   +.|.... ++.++|+|+.+++++|++.|+|+||++||+.
T Consensus        81 ~~l~~~~~~~~-~p~~~~~l~aG~d~~g~~Ly~id---~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~  153 (222)
T d1rypi_          81 QMLKQHLFKYQ-GHIGAYLIVAGVDPTGSHLFSIH---AHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIK  153 (222)
T ss_dssp             HHHHHHHHHTT-TCSCEEEEEEEEETTEEEEEEEC---TTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHhhh-hccceeEEEEEEcCCCcEEEEEe---cCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHH
Confidence            99999998765 69999999999999999999986   3455554 8999999999999999999999999999983

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=2.5e-34  Score=259.85  Aligned_cols=159  Identities=19%  Similarity=0.215  Sum_probs=146.6

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+.+ .+++.+||++|++++++++||..+|++.+.+.++.+++.|+++++++
T Consensus        25 ~kav~~G~t~Igik~~dgVvlaad~r~~~~~~-~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  103 (243)
T d1j2pa_          25 REAVKRGATAIGIKCKEGVILIADKRVGSKLL-EKDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIP  103 (243)
T ss_dssp             HHHHHTSCCEEEEEETTEEEEEEECCCSCTTB-CGGGCCSEEECSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHcCCCEEEEEECCEEEEEEecCccccCc-cccccccEeecCCcEEEEeeecccHHHHHHHHHHHHHHHHHHhhCCC
Confidence            77899999999999999999999999997764 56789999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHccC----CCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R~----rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+++.+++++|.++.    |||+|++|+||+|+ +|+||.+|   +.|+... +++++|+|+.+++++|++.|+|+
T Consensus       104 ~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~-~p~Ly~~D---p~G~~~~~~~~a~G~g~~~a~~~Le~~y~~~  179 (243)
T d1j2pa_         104 ITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE-VPKLYETD---PSGALLEYKATAIGMGRMAVTEFFEKEYRDD  179 (243)
T ss_dssp             CCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS-SEEEEEEC---TTCCEEEBSEEEESTTHHHHHHHHHHHCCTT
T ss_pred             CcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC-CceEEEEe---ccCceeeeeEEEeCCCcHHHHHHHHhhcccC
Confidence            9999999999999998753    79999999999986 69999986   3555554 89999999999999999999999


Q ss_pred             CCHHHHhhh
Q 022125          204 GSKEHGSLW  212 (302)
Q Consensus       204 mS~eEAi~l  212 (302)
                      ||++||+.+
T Consensus       180 ms~eeai~l  188 (243)
T d1j2pa_         180 LSFDDAMVL  188 (243)
T ss_dssp             CCHHHHHHH
T ss_pred             CCHHHHHHH
Confidence            999999833

>d1rype_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.1e-34  Score=261.37  Aligned_cols=161  Identities=18%  Similarity=0.198  Sum_probs=147.8

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+ ++..++.+||++|++++++++||..+|++.+++.++.+++.|+++++++
T Consensus        20 ~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~-~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~   98 (242)
T d1rype_          20 LEAIKLGSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDED   98 (242)
T ss_dssp             HHHHTTSCCEEEEECSSCEEEEEECCCSST-TBCGGGCCCEEEEETTEEEEEEESGGGHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEeCCccCc-CcccCccceEEEcCCCEEEEEeecchhHHHHHHHHHHHHHHHHHHcCCC
Confidence            778999999999999999999999999866 7788889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----------CCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHH
Q 022125          129 ISVTGASKLLANILYSYR----------GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCI  196 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----------~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~L  196 (302)
                      ++++.+++++++++|.++          .|||+|++||||+|++ ||+||.+|   +.|.... +++++|+|+.+++++|
T Consensus        99 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~id---p~G~~~~~~~~a~G~gs~~~~~~L  175 (242)
T d1rype_          99 INVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAE---PSGTFYRYNAKAIGSGSEGAQAEL  175 (242)
T ss_dssp             CCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEc---CCCceeccceeecccchHHHHHHH
Confidence            999999999999998652          3799999999999975 59999986   3555554 8999999999999999


Q ss_pred             HhhccCCCCHHHHhhhh
Q 022125          197 MWTVKEGGSKEHGSLWD  213 (302)
Q Consensus       197 e~~yk~dmS~eEAi~l~  213 (302)
                      ++.|+|+||++||+.+.
T Consensus       176 e~~~~~~ms~~ea~~la  192 (242)
T d1rype_         176 LNEWHSSLTLKEAELLV  192 (242)
T ss_dssp             HHHCCTTCCHHHHHHHH
T ss_pred             HHhccCCCCHHHHHHHH
Confidence            99999999999998443

>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=5e-34  Score=249.20  Aligned_cols=154  Identities=18%  Similarity=0.130  Sum_probs=144.7

Q ss_pred             ccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHH
Q 022125           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (302)
Q Consensus        53 ~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~  132 (302)
                      .+|+|+|||+++||||||+|+|.+++.++.+++.+|||++ ++++++++|..+|++.+.+.++.+++.|+++++.+++++
T Consensus         6 ~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1rypj_           6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPE   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             cCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcch
Confidence            7899999999999999999999999999999999999999 599999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHccCCCceeeEeEEEEcC-CC-ceeEEEeeecCcccccc--ceeEecchhhhHHHHHHhhccCCCCHHH
Q 022125          133 GASKLLANILYSYRGMGLSVGTMIAGWDE-TV-REFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMWTVKEGGSKEH  208 (302)
Q Consensus       133 ~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~-~G-p~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~~yk~dmS~eE  208 (302)
                      .+++++++.+|.++.+||+++++++|||+ +| |+||++|   +.|+...  .+++.|+|+.+++++|++.|+|+||++|
T Consensus        85 ~la~~l~~~l~~~~~~p~~v~~li~G~d~~~g~~~L~~~D---~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~e  161 (204)
T d1rypj_          85 TFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFD---LIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPED  161 (204)
T ss_dssp             HHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEEC---TTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHH
T ss_pred             HHHHHHHHHHHhhcccceeeeEEEEEEecCCCcceEEEeC---CCCccccccCcEEeecchHHHHHHHHhccccCCCHHH
Confidence            99999999999999999999999999996 44 7899886   3565543  6899999999999999999999999999


Q ss_pred             Hh
Q 022125          209 GS  210 (302)
Q Consensus       209 Ai  210 (302)
                      |+
T Consensus       162 a~  163 (204)
T d1rypj_         162 LF  163 (204)
T ss_dssp             HH
T ss_pred             HH
Confidence            98

>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=2.5e-34  Score=259.68  Aligned_cols=160  Identities=14%  Similarity=0.173  Sum_probs=146.5

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..+|++.+++.++.+++.|++++|.+
T Consensus        22 ~kav~~G~Tvvgik~~dgVvla~d~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  100 (243)
T d1irud_          22 QEAVKKGSTAVGVRGRDIVVLGVEKKSV-AKLQDERTVRKICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDP  100 (243)
T ss_dssp             HHHHHTSCCEEEECCSSEEEEEECCCCC-CSSSCGGGGCSEEESSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHhcCCCEEEEEeCCEEEEEEecccc-CcccCCCccccEEECCCCEEEEEEEchhhHHHHHHHHHHHHHHHHHhcCCC
Confidence            6789999999999999999999999976 899999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKE  202 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~  202 (302)
                      |+++.+|+++++++|.++    .|||++++||+|+|++ ||+||.+|   +.|+... +++++|+|+..++++|++.|++
T Consensus       101 i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~id---p~G~~~~~~~~a~G~gs~~a~~~Lek~~~~  177 (243)
T d1irud_         101 VTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTD---PSGTYHAWKANAIGRGAKSVREFLEKNYTD  177 (243)
T ss_dssp             CCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHTTTCCS
T ss_pred             ccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEec---CcEEEEeccEEEECCChHHHHHHHHHhccc
Confidence            999999999999998873    3899999999999976 79999986   3555554 8999999999999999999999


Q ss_pred             CC--CHHHHhhh
Q 022125          203 GG--SKEHGSLW  212 (302)
Q Consensus       203 dm--S~eEAi~l  212 (302)
                      +|  +.++++++
T Consensus       178 ~~~~~~~~~i~~  189 (243)
T d1irud_         178 EAIETDDLTIKL  189 (243)
T ss_dssp             STTCSHHHHHHH
T ss_pred             CCCccHHHHHHH
Confidence            99  44555543

>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=8.5e-34  Score=255.86  Aligned_cols=161  Identities=15%  Similarity=0.135  Sum_probs=148.7

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+.++.+.+.+||++|++|+++++||..+|++.+++.++.+++.|+++++++
T Consensus        22 ~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  101 (241)
T d1rypd_          22 LEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDP  101 (241)
T ss_dssp             HHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchHHHHHHHHHHHHHHHHHHcCCC
Confidence            77899999999999999999999999999988888999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcC--CCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE--TVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK  201 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~--~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk  201 (302)
                      ++++.+++.+++++|.++    .|||+|++||||+|+  +||+||.+|   |.|.... +++++|+|+..++++|++.|+
T Consensus       102 i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~id---p~G~~~~~~~~a~G~gs~~~~~~Le~~~~  178 (241)
T d1rypd_         102 VTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTE---PSGIYSSWSAQTIGRNSKTVREFLEKNYD  178 (241)
T ss_dssp             CCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEec---CCEEEEeeCeEEECcCHHHHHHHHHHhhh
Confidence            999999999999999884    379999999999996  489999986   3454444 899999999999999999996


Q ss_pred             C---CCCHHHHhhh
Q 022125          202 E---GGSKEHGSLW  212 (302)
Q Consensus       202 ~---dmS~eEAi~l  212 (302)
                      +   +||.+|++.+
T Consensus       179 ~~~~~~t~~e~i~l  192 (241)
T d1rypd_         179 RKEPPATVEECVKL  192 (241)
T ss_dssp             TTSCCCSHHHHHHH
T ss_pred             cccCCCCHHHHHHH
Confidence            5   6999999844

>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=7.1e-34  Score=253.60  Aligned_cols=161  Identities=14%  Similarity=0.085  Sum_probs=148.7

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      ++|+++|+|+|||+++||||||+|+|.+.+. +..++.+|||+|+++++++++|..+|++.+++.++.+++.|+.+++++
T Consensus        25 ~kav~~G~tvigik~~dgVvlaaD~r~~~~~-~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  103 (233)
T d1irub_          25 LAAVAGGAPSVGIKAANGVVLATEKKQKSIL-YDERSVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEP  103 (233)
T ss_dssp             HHHHHTSCCEEEEECSSCEEEEEECCCCCSS-BCSTTCCSSEESSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCCCEEEEEeCCEEEEEEeCCcccCC-ccccccceEEEecCceEEEEeccchHHHHHHHHHHHHHHHHHHHhCCC
Confidence            6899999999999999999999999999776 468889999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+++.++++++.++    .+||+++++++|+|++||+||.+|   +.|.... ++.++|+++.+++++|++.|+++
T Consensus       104 ~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~~~~ly~id---~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~  180 (233)
T d1irub_         104 IPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSD---PSGAYFAWKATAMGKNYVNGKTFLEKRYNED  180 (233)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHCCTT
T ss_pred             CCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccCCceEEEEc---CCcceEeccceecCCcHHHHHHHHHhhcccC
Confidence            999999999999998764    379999999999999999999986   3455554 89999999999999999999999


Q ss_pred             CCHHHHhhhh
Q 022125          204 GSKEHGSLWD  213 (302)
Q Consensus       204 mS~eEAi~l~  213 (302)
                      ||++||+.+.
T Consensus       181 ms~eea~~l~  190 (233)
T d1irub_         181 LELEDAIHTA  190 (233)
T ss_dssp             CCHHHHHHHH
T ss_pred             ccHHHHHHHH
Confidence            9999998443

>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=6.5e-34  Score=257.29  Aligned_cols=159  Identities=15%  Similarity=0.065  Sum_probs=145.3

Q ss_pred             hcccccCc-eEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC
Q 022125           49 TLKHAKGT-TTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR  127 (302)
Q Consensus        49 ~~av~~Gt-TvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~  127 (302)
                      ++||++|+ |+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||..+|++.+++.++.+++.|++.+++
T Consensus        28 ~kav~~gg~t~igIk~~dgVVlaad~r~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~  106 (244)
T d1irua_          28 FKAINQGGLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGY  106 (244)
T ss_dssp             HHHHHTTCCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHhCCccEEEEEcCCEEEEEEecccc-cccccCCccceEEEecCCcEEEEecchHHHHHHHHHHHHHHHHHHHHcCC
Confidence            68899875 89999999999999999998 67777888999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHc----cCCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhc-
Q 022125          128 RISVTGASKLLANILYSY----RGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTV-  200 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~----R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~y-  200 (302)
                      +++++.+|+.+++++|.+    +.|||+|++||||||++ ||+||.+|   +.|+... +++++|+++..++++||+.| 
T Consensus       107 ~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~D---p~G~~~~~~~~a~G~gs~~~~~~Le~~~~  183 (244)
T d1irua_         107 EIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCD---PAGYYCGFKATAAGVKQTESTSFLEKKVK  183 (244)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEEC---TTSCEEEBSEEEEETTHHHHHHHHHHHTT
T ss_pred             CCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEc---CCccEEecceEeccCchhHHHHHHHhccc
Confidence            999999999999999875    45899999999999975 79999986   4565554 89999999999999999999 


Q ss_pred             -cCCCCHHHHhh
Q 022125          201 -KEGGSKEHGSL  211 (302)
Q Consensus       201 -k~dmS~eEAi~  211 (302)
                       +++||++||+.
T Consensus       184 ~~~d~t~eeai~  195 (244)
T d1irua_         184 KKFDWTFEQTVE  195 (244)
T ss_dssp             SCCCCCHHHHHH
T ss_pred             cccCCCHHHHHH
Confidence             55899999983

>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=4.3e-34  Score=257.84  Aligned_cols=158  Identities=13%  Similarity=0.008  Sum_probs=142.9

Q ss_pred             hccccc-CceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCC
Q 022125           49 TLKHAK-GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR  127 (302)
Q Consensus        49 ~~av~~-GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~  127 (302)
                      ++|+++ |+|+|||+++||||||+|+|.+ ++++..++.+||++|++++++++||+.+|++.+.+.++.+++.|++.+++
T Consensus        23 ~~av~~~g~T~igik~~dgVvlaad~r~~-~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~  101 (243)
T d1rypa_          23 FKATNQTNINSLAVRGKDCTVVISQKKVP-DKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGY  101 (243)
T ss_dssp             HHHTTTTCCCEEEEECSSEEEEEEECCCC-CTTBCGGGCCSEEECSSSCEEEEESCHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHccCceEEEEEcCCEEEEEEecccc-ccccccCcccceEecCCCEEEEEecCcHHHHHHHHHHHHHHHHHHHHhCC
Confidence            568887 5589999999999999999988 57888999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc
Q 022125          128 RISVTGASKLLANILYSYR----GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK  201 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk  201 (302)
                      +++++.+++.+++++|.++    .|||+|++||||||++ ||+||.+|   +.|+... +++++|+|+.+++++||+.|+
T Consensus       102 ~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~D---p~G~~~~~~~~a~G~gs~~~~~~Le~~~~  178 (243)
T d1rypa_         102 DMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTD---PAGYYVGYKATATGPKQQEITTNLENHFK  178 (243)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEEC---TTSCEEEBSEEEESTTHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEc---CCEEEEecceEEeCccHHHHHHHHHHHhh
Confidence            9999999999999998764    5899999999999975 89999986   3455444 899999999999999999999


Q ss_pred             CCC-------CHHHHh
Q 022125          202 EGG-------SKEHGS  210 (302)
Q Consensus       202 ~dm-------S~eEAi  210 (302)
                      ++|       |.+||+
T Consensus       179 ~~~~~~~~~~s~eeav  194 (243)
T d1rypa_         179 KSKIDHINEESWEKVV  194 (243)
T ss_dssp             HHCSSSCCCSSHHHHH
T ss_pred             cccccccccccHHHHH
Confidence            765       667776

>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=1.4e-33  Score=252.20  Aligned_cols=158  Identities=16%  Similarity=0.173  Sum_probs=144.3

Q ss_pred             cccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhh----
Q 022125           50 LKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELAN----  125 (302)
Q Consensus        50 ~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~----  125 (302)
                      .++.+|+|+|||+++||||||+|+|.+.|+++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|++++    
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            5788999999999999999999999999999999999999999999999999999999999999999999999876    


Q ss_pred             -CCcCCHHHHHHHHHHHHHHc--cCCCceeeEeEEEEcCCC-ceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhc
Q 022125          126 -KRRISVTGASKLLANILYSY--RGMGLSVGTMIAGWDETV-REFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTV  200 (302)
Q Consensus       126 -g~~isv~~lAk~Ls~~ly~~--R~rP~~vs~IIaG~D~~G-p~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~y  200 (302)
                       +.+++++.+++++++++|.+  +.+||+++++|+|+|++| |.||.+|   +.|.... ++.++|+|+.+++++|++.|
T Consensus        83 ~~~~~~~~~~a~~l~~~~y~~~~~~~P~~~~~liaG~d~~g~~~ly~~d---~~G~~~~~~~~a~G~g~~~a~~~Le~~~  159 (233)
T d1ryp2_          83 AEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVN---LLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEE---TTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             CCcccCHHHHHHHHHHHHHhhccccCCceeEEEEEEEcCCCCeEEEEEc---CCCcEEeeeeEEecCccHHHHHHHHHHH
Confidence             57789999999999999886  468999999999999876 5577775   2444444 89999999999999999999


Q ss_pred             c-----CCCCHHHHh
Q 022125          201 K-----EGGSKEHGS  210 (302)
Q Consensus       201 k-----~dmS~eEAi  210 (302)
                      +     |+||++||+
T Consensus       160 ~~~~~~~~ms~eeA~  174 (233)
T d1ryp2_         160 DRESDIPKTTVQVAE  174 (233)
T ss_dssp             CSGGGGGGCCHHHHH
T ss_pred             hhcccccccCHHHHH
Confidence            8     899999998

>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=1e-33  Score=255.13  Aligned_cols=159  Identities=16%  Similarity=0.111  Sum_probs=144.1

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+++..   .+.+||++|++++++++||..+|++.+++.++.+++.|++++|++
T Consensus        23 ~kav~~G~t~vgik~~dgVvlaad~~~~~~~~---~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~   99 (238)
T d1iruf_          23 MEAVKQGSATVGLKSKTHAVLVALKRAQSELA---AHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRP   99 (238)
T ss_dssp             HHHHHHSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHhcCCCEEEEEeCCEEEEEEecccccCCC---CccceEEEeCCceEEEEeccchHHHHHHHHHHHHHHHHHHHcCCC
Confidence            77899999999999999999999999996654   346899999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCC
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      ++++.+++.++++.+.++    .|||++++||||||++||+||.+|   +.|+... +++++|+++..++++|++.|+++
T Consensus       100 i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~gp~Ly~~D---~~G~~~~~~~~a~G~g~~~~~~~Lek~~~~~  176 (238)
T d1iruf_         100 LPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTC---PSANYFDCRAMSIGARSQSARTYLERHMSEF  176 (238)
T ss_dssp             CCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEEC---SSSCEEEESEEEESTTHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCCCceEEEEc---CCCCEEeeeeEEECCCchhhHHHHHhhcccc
Confidence            999999999999987663    389999999999999999999986   3455554 89999999999999999999997


Q ss_pred             C--CHHHHhhhh
Q 022125          204 G--SKEHGSLWD  213 (302)
Q Consensus       204 m--S~eEAi~l~  213 (302)
                      |  |.+||+++.
T Consensus       177 ~~~~~~eav~la  188 (238)
T d1iruf_         177 MECNLNELVKHG  188 (238)
T ss_dssp             TTCCHHHHHHHH
T ss_pred             cCCCHHHHHHHH
Confidence            6  889998543

>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=7.7e-33  Score=241.00  Aligned_cols=160  Identities=20%  Similarity=0.179  Sum_probs=148.6

Q ss_pred             CcchhHhhhhhhcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHH
Q 022125           38 DFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIK  117 (302)
Q Consensus        38 ~~~~~~~~~~~~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e  117 (302)
                      .|+||.         .||||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|++.+.++++.+
T Consensus         1 ~f~p~~---------~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~   71 (213)
T d1iru1_           1 RFSPYV---------FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEAR   71 (213)
T ss_dssp             CCCSCC---------CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCCcc---------CCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHH
Confidence            377888         89999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhHhhCCcCCHHHHHHHHHHHHHHccCCCceeeEeEEEEcCC-CceeEEEeeecCccccc-c-ceeEecchhhhHHH
Q 022125          118 CRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET-VREFMFQVFCFAFASLI-A-SLLSCLSVGCRVLG  194 (302)
Q Consensus       118 ~~~y~l~~g~~isv~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~-~-~~~a~Gsgs~~a~g  194 (302)
                      ++.|+++++.++++..+++++++.+|.++.+|++++.+++|+|.+ +|.+|.+    |++|.+ . ++.++|+|+.++++
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~d~~~~~~l~~~----d~~g~~~~~~~~a~G~g~~~a~~  147 (213)
T d1iru1_          72 LKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSF----DPVGSYQRDSFKAGGSASAMLQP  147 (213)
T ss_dssp             HHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEE----CTTSCEEEESEEEEETTHHHHHH
T ss_pred             HHHHHHhhCCchhHHHHHHHHHHHHHHHHhhhcccccceEEEecCCCcEEEec----CCcceeeecCeeeecCccHHHHH
Confidence            999999999999999999999999999999999999999999986 4677776    455554 3 89999999999999


Q ss_pred             HHHhhcc---------CCCCHHHHh
Q 022125          195 CIMWTVK---------EGGSKEHGS  210 (302)
Q Consensus       195 ~Le~~yk---------~dmS~eEAi  210 (302)
                      +|++.|+         ++||++||+
T Consensus       148 ~l~~~~~~~~~~~~~~~~~s~~ea~  172 (213)
T d1iru1_         148 LLDNQVGFKNMQNVEHVPLSLDRAM  172 (213)
T ss_dssp             HHHHHTTCCSCSSCCCCCCCHHHHH
T ss_pred             HHHHhhcccchhcccccCCCHHHHH
Confidence            9998765         789999998

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.7e-33  Score=252.91  Aligned_cols=159  Identities=19%  Similarity=0.168  Sum_probs=143.8

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCc
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~  128 (302)
                      .+|+++|+|+|||+++||||||+|+|.+.+.   ..+.+||++|+++++|++||..+|++.++++++.+++.|++.++++
T Consensus        25 ~kav~~g~t~igi~~~dgvvlaad~~~~~~l---~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~  101 (233)
T d1rypf_          25 LEAIKQGSVTVGLRSNTHAVLVALKRNADEL---SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRK  101 (233)
T ss_dssp             HHHHHTSCCEEEEECSSEEEEEEECCCSSTT---BCCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHcCCCEEEEEECCeEEEEEeccccccC---CcchheEEEcCCCEEEEEeeccccHHHHHHHHHHHHHhhhhhcCCC
Confidence            6899999999999999999999999998553   4667999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHcc----CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhh----
Q 022125          129 ISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWT----  199 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R----~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~----  199 (302)
                      |+++.+|+.+++++|.++    .|||++++||||+|++||+||.+|   |+|.... ++.++|+|+..++++|++.    
T Consensus       102 i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~g~~Ly~id---p~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~  178 (233)
T d1rypf_         102 LAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQ---PSGNVTELYGTAIGARSQGAKTYLERTLDTF  178 (233)
T ss_dssp             CCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEEC---TTSCEEEESEEEESTTHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCCCCEEEEEc---cccceecccEEEecCchHHHHHHHHHHHhhc
Confidence            999999999999998763    489999999999999999999986   3455444 8999999999999998864    


Q ss_pred             ccCCCCHHHHhhhh
Q 022125          200 VKEGGSKEHGSLWD  213 (302)
Q Consensus       200 yk~dmS~eEAi~l~  213 (302)
                      |+++|+++||+++.
T Consensus       179 ~~~dms~eeai~l~  192 (233)
T d1rypf_         179 IKIDGNPDELIKAG  192 (233)
T ss_dssp             TTCCSCHHHHHHHH
T ss_pred             cccCCCHHHHHHHH
Confidence            57899999998554

>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=3.6e-33  Score=247.07  Aligned_cols=158  Identities=20%  Similarity=0.186  Sum_probs=145.2

Q ss_pred             cccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhH-hhCCc
Q 022125           50 LKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHEL-ANKRR  128 (302)
Q Consensus        50 ~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l-~~g~~  128 (302)
                      .++.+|||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|++.+.+.++.++..|+. .++.+
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            46789999999999999999999999999999999999999999999999999999999999999999988775 56799


Q ss_pred             CCHHHHHHHHHHHHHHcc--CCCceeeEeEEEEcCCCceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhcc--CC
Q 022125          129 ISVTGASKLLANILYSYR--GMGLSVGTMIAGWDETVREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVK--EG  203 (302)
Q Consensus       129 isv~~lAk~Ls~~ly~~R--~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk--~d  203 (302)
                      ++++.+++++++.+|.++  .+||++++||+|+|+++|+||.+|   +.|.... ++.++|+|+.+++++|++.|+  |+
T Consensus        83 ~~v~~~a~~l~~~~y~~~~~~~p~~~~~li~G~d~~~~~l~~~D---~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~  159 (217)
T d1iru2_          83 YSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYVD---MLGVAYEAPSLATGYGAYLAQPLLREVLEKQPV  159 (217)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEEEC---SSCCEEECSEEECTTHHHHTHHHHHHHHTSCSC
T ss_pred             CCHHHHHHHHHHHHHHhccccCcccceEEEEEEcCCCcEEEEEe---cCceeEeeeEEeccCcHHHHHHHHHHHhcccCC
Confidence            999999999999999875  589999999999999999999986   3455444 899999999999999999765  89


Q ss_pred             CCHHHHh
Q 022125          204 GSKEHGS  210 (302)
Q Consensus       204 mS~eEAi  210 (302)
                      ||.+||+
T Consensus       160 lt~~ea~  166 (217)
T d1iru2_         160 LSQTEAR  166 (217)
T ss_dssp             CCHHHHH
T ss_pred             CCHHHHH
Confidence            9999998

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=2.4e-32  Score=245.08  Aligned_cols=154  Identities=11%  Similarity=0.096  Sum_probs=136.8

Q ss_pred             hcccccCceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhC-C
Q 022125           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANK-R  127 (302)
Q Consensus        49 ~~av~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g-~  127 (302)
                      .+|+++|+|+|||+++||||||+|+|.+        +.+||++|++||++++||..+|++.++++++.+++.|+++++ .
T Consensus        13 ~~av~~GtT~vgi~~~~GVvlaad~r~~--------s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~   84 (227)
T d1q5qa_          13 RKGIARGRSVVVLTFRDGVLFVAENPST--------ALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRR   84 (227)
T ss_dssp             HHHHHTSCCEEEEECSSEEEEEECCSCS--------SSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHSCGG
T ss_pred             HHHHhcCCCEEEEEECCEEEEEEccCCC--------CcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            6899999999999999999999999965        368999999999999999999999999999999999999998 4


Q ss_pred             cCCHHHHHHHHHHHHH---HccCCCceeeEeEEEEcC----CCceeEEEeeecCcccccc--ceeEecchhhhHHHHHHh
Q 022125          128 RISVTGASKLLANILY---SYRGMGLSVGTMIAGWDE----TVREFMFQVFCFAFASLIA--SLLSCLSVGCRVLGCIMW  198 (302)
Q Consensus       128 ~isv~~lAk~Ls~~ly---~~R~rP~~vs~IIaG~D~----~Gp~LY~idyS~D~Gg~~~--~~~a~Gsgs~~a~g~Le~  198 (302)
                      +++++.+++.++++++   .++.|||+|++||||||.    +||+||.+|   |+|+...  .+++.|.++.+++++|++
T Consensus        85 ~~~~~~la~~~~~~~~~~~~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vD---psG~~~~~~~~~~~g~~s~~~~~~Le~  161 (227)
T d1q5qa_          85 DVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRIT---YDGSIVDEQHFVVMGGTTEPIATAMRE  161 (227)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEE---TTSCEEEESSEEEESSSHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEecCCCCCCCEEEEEc---cccceeeecccccCCCchHHHHHHHHH
Confidence            6899999999998853   345689999999999996    479999987   4565553  567888889999999999


Q ss_pred             hccCCCCHHHHhhhh
Q 022125          199 TVKEGGSKEHGSLWD  213 (302)
Q Consensus       199 ~yk~dmS~eEAi~l~  213 (302)
                      .|+|+||++||+.+.
T Consensus       162 ~y~~~ms~eea~~la  176 (227)
T d1q5qa_         162 SYRADLDLEAAVGIA  176 (227)
T ss_dssp             HCCTTCCHHHHHHHH
T ss_pred             hccCCCCHHHHHHHH
Confidence            999999999999554

>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=6.3e-32  Score=238.63  Aligned_cols=155  Identities=21%  Similarity=0.216  Sum_probs=142.5

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|+++.+++++||++|+++++++++|..+|++.+.+.++.+++.|+++++.++++..++
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcc---CCCceeeEeEEEEcC------CCceeEEEeeecCccccc---cceeEecchhhhHHHHHHhhccCC
Q 022125          136 KLLANILYSYR---GMGLSVGTMIAGWDE------TVREFMFQVFCFAFASLI---ASLLSCLSVGCRVLGCIMWTVKEG  203 (302)
Q Consensus       136 k~Ls~~ly~~R---~rP~~vs~IIaG~D~------~Gp~LY~idyS~D~Gg~~---~~~~a~Gsgs~~a~g~Le~~yk~d  203 (302)
                      +++++++|.++   .+|+++.++++|+|.      .||+||++|+   .|+.+   .+|.++|+|+.+++++|++.|+|+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~---~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~  157 (224)
T d1q5qh_          81 NRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDV---VGGRYEERAGYHAVGSGSLFAKSALKKIYSPD  157 (224)
T ss_dssp             HHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCEEEEEECT---TSCEEECCSSEEEESTTHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHhhcccccCccceeeEEEeecccccccCCceEEEEEc---cCcEEEeccceeeecCccHHHHHHHHHhhccc
Confidence            99999999874   478888888888763      4789999873   45543   278999999999999999999999


Q ss_pred             CCHHHHhhhh
Q 022125          204 GSKEHGSLWD  213 (302)
Q Consensus       204 mS~eEAi~l~  213 (302)
                      ||++||+.+.
T Consensus       158 mt~~ea~~l~  167 (224)
T d1q5qh_         158 SDEETALRAA  167 (224)
T ss_dssp             CCHHHHHHHH
T ss_pred             CCHHHHHHHH
Confidence            9999998666

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.97  E-value=5e-31  Score=225.22  Aligned_cols=155  Identities=17%  Similarity=0.109  Sum_probs=142.4

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|+.+++.+++++.++
T Consensus         2 t~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   81 (199)
T d1iruk_           2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAA   81 (199)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             eEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcc--CCCceeeEeEEEEcCC-CceeEEEeeecCcccccc-ceeEecchhhhHHHHHHhhccCCCCHHHHhh
Q 022125          136 KLLANILYSYR--GMGLSVGTMIAGWDET-VREFMFQVFCFAFASLIA-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGSL  211 (302)
Q Consensus       136 k~Ls~~ly~~R--~rP~~vs~IIaG~D~~-Gp~LY~idyS~D~Gg~~~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi~  211 (302)
                      +.+++.+|.++  .+|++++++++|+|++ ||.||.++   +.|.... ++.++|+|+.+++++|++.|+++||++||+.
T Consensus        82 ~~l~~~~~~~~~~~~~~~~~~~~aG~d~~~~~~l~~~~---~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~  158 (199)
T d1iruk_          82 NFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMD---YLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVE  158 (199)
T ss_dssp             HHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEEC---TTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHH
T ss_pred             HHHHHHHHHHhhccCCcceeeeecceeccCCceEEeec---ccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHH
Confidence            99999998763  4799999999999986 68888875   3444444 8999999999999999999999999999984


Q ss_pred             hh
Q 022125          212 WD  213 (302)
Q Consensus       212 l~  213 (302)
                      +.
T Consensus       159 l~  160 (199)
T d1iruk_         159 LL  160 (199)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>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=99.87  E-value=2.5e-23  Score=177.47  Aligned_cols=152  Identities=16%  Similarity=0.026  Sum_probs=116.0

Q ss_pred             ccCceEEEEEeCCeEEEEEeCccCCCCeeecc-ccceEEEecCc-EEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCC
Q 022125           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQ-SVKKIIEINPY-MLGTMAGGAADCQFWHRNLGIKCRLHELANKRRIS  130 (302)
Q Consensus        53 ~~GtTvIgIk~kDGVVLAaDtr~s~g~li~s~-~~~KI~~I~~~-i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~is  130 (302)
                      -||||+|||+|+||||||+|+|+|+|+++..+ ..+|+++++++ ++++.+|..+|.+.+.+.++.+.+.++........
T Consensus         3 ~~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (180)
T d2z3ba1           3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAV   82 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             CCCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhccccchhHH
Confidence            47999999999999999999999999877765 57899999774 88888999999999999998888776544433322


Q ss_pred             HHHHHHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCccccccceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          131 VTGASKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLIASLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       131 v~~lAk~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~~~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      ....... ....+.++..++......+|++..|+.++..+.  +      +|.+.|+|+.+++|.|+..||++||.+||+
T Consensus        83 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~------~~~a~GSGs~~A~g~l~~~~~~~~s~~eA~  153 (180)
T d2z3ba1          83 ELAKEWR-SDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPD--D------GILAIGSGGNYALAAGRALKKHAGESMSAS  153 (180)
T ss_dssp             HHHHHHH-HCTTGGGCCCCEEEECSSCEEEECTTCCEECCS--S------SEEEESTTHHHHHHHHHHHHHHHGGGCCHH
T ss_pred             HHHHHHh-HHHHHHHhhcceeeeeccccccccCCceeeccc--c------cEEEEcCchHHHHHHHHHHhhcCCCccCHH
Confidence            2222222 222222334556666777788877777765432  2      589999999999999999999999999998


Q ss_pred             hhh
Q 022125          211 LWD  213 (302)
Q Consensus       211 ~l~  213 (302)
                      +|.
T Consensus       154 ~l~  156 (180)
T d2z3ba1         154 EIA  156 (180)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=99.82  E-value=7.3e-20  Score=153.84  Aligned_cols=144  Identities=13%  Similarity=-0.054  Sum_probs=106.8

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcEEEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~lA  135 (302)
                      ||+|||+|+||||||+|+|.|.|+++.+++.+||++|+++++++.+|..+|.+.+.+.+..+...+.....     ....
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~~~~-----~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGNL-----TKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTCH-----HHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhhccc-----hhhH
Confidence            79999999999999999999999999999999999999999999999999999988877766554433221     2222


Q ss_pred             HHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCccccc--cceeEecchhhhHHHHHHhhcc-CCCCHHHH
Q 022125          136 KLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLI--ASLLSCLSVGCRVLGCIMWTVK-EGGSKEHG  209 (302)
Q Consensus       136 k~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~--~~~~a~Gsgs~~a~g~Le~~yk-~dmS~eEA  209 (302)
                      ...+..+..++ .++....++.+.+..+|.++..    |.++..  .+|.+.|+|+.+++|.|+..|+ ++|+.+|.
T Consensus        76 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~----d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~a~el  147 (171)
T d1m4ya_          76 VELAKDWRTDR-VLRRLEALLLVADKENIFIISG----NGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSAREI  147 (171)
T ss_dssp             HHHHHHHHHCT-TGGGCCCEEEEECSSCEEEECT----TSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCHHHH
T ss_pred             HHHHHHHHHhh-hhcccccccceecCCcceEEec----CCceeeecCCEEEEcchHHHHHHHHHhhccCCCCCHHHH
Confidence            22222222222 2233334445566667776543    566664  3899999999999999998765 68877663

>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=99.80  E-value=2.4e-19  Score=151.09  Aligned_cols=143  Identities=17%  Similarity=0.118  Sum_probs=97.7

Q ss_pred             ceEEEEEeCCeEEEEEeCccCCCCeeeccccceEEEecCcE-EEEEecChhhHHHHHHHHHHHHHHhhHhhCCcCCHHHH
Q 022125           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYM-LGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (302)
Q Consensus        56 tTvIgIk~kDGVVLAaDtr~s~g~li~s~~~~KI~~I~~~i-~ia~SG~~aD~q~l~~~lr~e~~~y~l~~g~~isv~~l  134 (302)
                      ||+|||+|+||||||+|+|+|+|+++.+++.+||++|++++ +++.+|...+.+.+.+..+.+.+.+      +......
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMH------QGHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHT------TTCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHhh------cCcchhH
Confidence            79999999999999999999999999999999999998875 4455666655555554443332222      2233344


Q ss_pred             HHHHHHHHHHccCCCceeeEeEEEEcCCCceeEEEeeecCccccc-c-ceeEecchhhhHHHHHHhhccCCCCHHHHh
Q 022125          135 SKLLANILYSYRGMGLSVGTMIAGWDETVREFMFQVFCFAFASLI-A-SLLSCLSVGCRVLGCIMWTVKEGGSKEHGS  210 (302)
Q Consensus       135 Ak~Ls~~ly~~R~rP~~vs~IIaG~D~~Gp~LY~idyS~D~Gg~~-~-~~~a~Gsgs~~a~g~Le~~yk~dmS~eEAi  210 (302)
                      +..++..++..+..+.....++++.+..|+.++.    +|..+.. . ++.+.|+|+.++++.|+..|+  ++.+||.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~  146 (173)
T d1g3ka_          75 AVELAKDWRTDRALRKLEAMLIVADEKESLIITG----IGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAH  146 (173)
T ss_dssp             HHHHHHHHHHSTTGGGCCCEEEEECSSCEEEEET----TTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHH
T ss_pred             HHHHHHHHHHhhhhcccccccccccCCCcceecc----cCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHH
Confidence            5555555555555444444555544444555544    3544444 3 899999999999999998886  3344454