Citrus Sinensis ID: 024133

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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--
Protein Sequence
MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccEEEEEEccEEEEEEccccccccEEEcccccEEEEEcccEEEEccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccccEEEEEEEEEcccccEEEEEEccccEEEcccEEEcccHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccccccEEEEEEccccEEEcccccccccccccccccccccEEEEEEcccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccHHHHHHcccccEEccccccEEEEEEccEEEEEEcccEEEccEEEEcccccEEEEEccEEEEccEcHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccEEEEEEEEEccEEEEEEEcccccEEEccEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEEccEEEEEEEEEHHHHHHHcccccccEEEEEEEEcccc
Coil and Loop (DISEMBL)
mkldtsglestspffgsgdelcpelsaapsfslplstdfdeFQKDTKATLKHAKGTTTLAFIFKEGVMVAADsrasmggyissqSVKKIIEinpymlgtmaggaadCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMiagwdetgpglyyvdseggrlkgtrfsvgsgspyaygvldsgykfdMSIEEAAELARRAIYHATfrdaasggvasvyyvgpngwkklsgddvgelhyhyypvtpstvEQEMAEVAGA
Flexible Loop (DISEMBL)
mkldtsglestspffgSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATlkhakgtttlafIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGtrfsvgsgspyaYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA
Low Complexity Region (SEG)
MKLDTSGLESTSPFFGSGDELCPElsaapsfslplsTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIeeaaelarraIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA
Disordered region (IsUnstruct)
***********************************************ATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVT**************
Disordered Region (DISOPRED)
*K********************************L**************LKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVEQE*AE****
Disordered Region (DISEMBL)
***********SPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA
Disordered Region (DISPRO)
********************LCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVEQEMAEVAG*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA
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	272	2.2.26 [Sep-21-2011]
O24361	272	Proteasome subunit beta t	N/A	no	1.0	1.0	0.830	1e-132
O23717	274	Proteasome subunit beta t	yes	no	0.985	0.978	0.840	1e-132
Q9LIP2	273	Proteasome subunit beta t	no	no	0.992	0.989	0.845	1e-132
Q54BC8	272	Proteasome subunit beta t	yes	no	0.944	0.944	0.539	4e-78
Q32KL2	263	Proteasome subunit beta t	yes	no	0.797	0.825	0.618	8e-78
O55234	264	Proteasome subunit beta t	yes	no	0.812	0.837	0.612	9e-78
P28075	263	Proteasome subunit beta t	yes	no	0.816	0.844	0.605	1e-77
Q5R8S2	263	Proteasome subunit beta t	yes	no	0.753	0.779	0.658	3e-77
P28074	263	Proteasome subunit beta t	yes	no	0.753	0.779	0.658	3e-77
P34065	256	Proteasome subunit beta t	yes	no	0.753	0.800	0.643	4e-72

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

 Score =  471 bits (1213), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 226/272 (83%), Positives = 244/272 (89%)

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 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           HELANKRRISVTGASKLLANILY+YRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG R
Sbjct: 121 HELANKRRISVTGASKLLANILYNYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGMR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLD+GYK+DM++EEA+ELARRAIYHAT+RD ASGGV SVY+VGP+GWK
Sbjct: 181 FSVGSGSPYAYGVLDNGYKYDMTVEEASELARRAIYHATYRDGASGGVVSVYHVGPDGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272
           K++GDDVG+LH+ YYPV P+TVEQEM EV GA
Sbjct: 241 KVTGDDVGDLHFQYYPVVPATVEQEMVEVVGA 272

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: 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 =  471 bits (1211), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 227/270 (84%), Positives = 243/270 (90%), Gaps = 2/270 (0%)

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 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG 178
           RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDETGPGLYYVD+EGGRLKG
Sbjct: 121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDETGPGLYYVDNEGGRLKG 180

Query: 179 TRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG 238
            RFSVGSGSPYAYGVLDSGYK+DMS+EEA+ELARR+IYHATFRD ASGGVASVY+VGP G
Sbjct: 181 DRFSVGSGSPYAYGVLDSGYKYDMSVEEASELARRSIYHATFRDGASGGVASVYHVGPEG 240

Query: 239 WKKLSGDDVGELHYHYYPVTPSTVEQEMAE 268
           W KLSGDDVGELHYHYYPV P+T EQ M E
Sbjct: 241 WTKLSGDDVGELHYHYYPVAPATAEQVMEE 270

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

 Score =  470 bits (1210), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 230/272 (84%), Positives = 242/272 (88%), Gaps = 2/272 (0%)

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 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG 178
           RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDETGPGLYYVD+EGGRLKG
Sbjct: 121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDETGPGLYYVDNEGGRLKG 180

Query: 179 TRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG 238
            RFSVGSGSPYAYGVLDSGYKFDMS+EEA+ELARR+IYHATFRD ASGGVASVY+VGP G
Sbjct: 181 DRFSVGSGSPYAYGVLDSGYKFDMSVEEASELARRSIYHATFRDGASGGVASVYHVGPQG 240

Query: 239 WKKLSGDDVGELHYHYYPVTPSTVEQEMAEVA 270
           W KLSGDDVGELHYHYYPV P T E  M E A
Sbjct: 241 WTKLSGDDVGELHYHYYPVAPITAEHVMEEAA 272

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

 Score =  291 bits (745), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 144/267 (53%), Positives = 190/267 (71%), Gaps = 10/267 (3%)

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 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSE 172
            LG +CRL+EL NK  ISV  ASK+LANI+YSY+G GLS+GTMI GWD+TGP LYYVD++
Sbjct: 120 ELGRRCRLYELRNKELISVAAASKILANIVYSYKGYGLSMGTMITGWDKTGPQLYYVDND 179

Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVY 232
           G RL G RFS GSGS YAYGVLD+G+K+DM+ EEA EL RRA+YHAT RDA SGG  +VY
Sbjct: 180 GTRLHGQRFSCGSGSTYAYGVLDTGFKWDMNDEEAYELGRRAVYHATHRDAYSGGAINVY 239

Query: 233 YVGPNGWKKLSGDDVGELHYHYYPVTP 259
           +V  +GWKK+S DD  +L+  YY + P
Sbjct: 240 HVQKDGWKKISSDDCFKLYQKYYNIVP 266

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

 Score =  290 bits (742), Expect = 8e-78,   Method: Compositional matrix adjust.
 Identities = 141/228 (61%), Positives = 176/228 (77%), Gaps = 11/228 (4%)

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 GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEE 206
           GMGLS+GTMI GWD+ GPGLYYVDSEG R+ G  FSVGSGS YAYGV+D GY +D+ +EE
Sbjct: 151 GMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEE 210

Query: 207 AAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHY 254
           A +LARRAIY AT+RDA SGG  S+Y+V  +GW ++S D+V +LH  Y
Sbjct: 211 AYDLARRAIYQATYRDAYSGGSVSLYHVREDGWIRVSSDNVADLHDKY 258

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

 Score =  290 bits (741), Expect = 9e-78,   Method: Compositional matrix adjust.
 Identities = 142/232 (61%), Positives = 178/232 (76%), Gaps = 11/232 (4%)

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 GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEE 206
           GMGLS+GTMI GWD+ GPGLYYVDSEG R+ GT FSVGSGS YAYGV+D GY +D+ +EE
Sbjct: 151 GMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAYGVMDRGYSYDLKVEE 210

Query: 207 AAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVT 258
           A +LARRAIY AT+RDA SGG  ++Y+V  +GW ++S D+V +LH  Y  V+
Sbjct: 211 AYDLARRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHDKYSSVS 262

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

 Score =  290 bits (741), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 141/233 (60%), Positives = 178/233 (76%), Gaps = 11/233 (4%)

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 GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEE 206
           GMGLS+GTMI GWD+ GPGLYYVDSEG R+ GT FSVGSGS YA+GV+D GY +D+ +EE
Sbjct: 151 GMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAFGVMDRGYSYDLQVEE 210

Query: 207 AAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTP 259
           A +LARRAIY AT+RDA SGG  ++Y+V  +GW ++S D+V +LH  Y    P
Sbjct: 211 AYDLARRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHDKYTSSIP 263

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

 Score =  288 bits (737), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 135/205 (65%), Positives = 166/205 (80%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct: 119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
           R+ G  FSVGSGS YAYGV+D GY +D+ +E+A +LARRAIY AT+RDA SGG  ++Y+V
Sbjct: 179 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHV 238

Query: 235 GPNGWKKLSGDDVGELHYHYYPVTP 259
             +GW ++S D+V +LH  Y   TP
Sbjct: 239 REDGWIRVSSDNVADLHEKYSGSTP 263

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 =  288 bits (737), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 135/205 (65%), Positives = 166/205 (80%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct: 119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
           R+ G  FSVGSGS YAYGV+D GY +D+ +E+A +LARRAIY AT+RDA SGG  ++Y+V
Sbjct: 179 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHV 238

Query: 235 GPNGWKKLSGDDVGELHYHYYPVTP 259
             +GW ++S D+V +LH  Y   TP
Sbjct: 239 REDGWIRVSSDNVADLHEKYSGSTP 263

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|P34065|PSB5_CHICK Proteasome subunit beta type-5 (Fragment) OS=Gallus gallus GN=PSMB5 PE=2 SV=2

 Score =  271 bits (693), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 132/205 (64%), Positives = 159/205 (77%)

Query: 50  LKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF 109
           L+   GTTTLAF F  GV+VA DSRA+ G YI+SQ+V+K+IEINP +LGTMAGGAADC F
Sbjct: 50  LQLLHGTTTLAFKFAHGVVVAVDSRATAGSYIASQTVQKVIEINPSLLGTMAGGAADCSF 109

Query: 110 WHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYV 169
           W R L  +CR++EL NK  ISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYV
Sbjct: 110 WERLLARQCRVYELRNKEPISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYV 169

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVA 229
           DSEG R+ G  F+VGSGS YAYGVLD G + DM+ +EA ELARRAI+ A  RDA SGG  
Sbjct: 170 DSEGTRIPGEAFAVGSGSSYAYGVLDGGRRPDMATDEALELARRAIFQAARRDAYSGGSV 229

Query: 230 SVYYVGPNGWKKLSGDDVGELHYHY 254
           +VY+VGP GW+++S  DV  LH  Y
Sbjct: 230 TVYHVGPRGWRRVSSHDVAGLHDGY 254

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.

Gallus gallus (taxid: 9031)

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	272
227937349	272	20S proteasome beta subunit 5 [Citrus ma	1.0	1.0	1.0	1e-157
225425821	272	PREDICTED: proteasome subunit beta type-	1.0	1.0	0.897	1e-140
356516569	272	PREDICTED: proteasome subunit beta type-	1.0	1.0	0.875	1e-136
255646634	272	unknown [Glycine max]	1.0	1.0	0.871	1e-135
449452891	272	PREDICTED: proteasome subunit beta type-	1.0	1.0	0.856	1e-135
356508794	272	PREDICTED: proteasome subunit beta type-	1.0	1.0	0.871	1e-135
388515987	270	unknown [Lotus japonicus]	0.992	1.0	0.859	1e-132
357463621	271	Proteasome subunit beta type [Medicago t	0.988	0.992	0.866	1e-132
388492526	271	unknown [Medicago truncatula]	0.988	0.992	0.862	1e-131
3914430	272	RecName: Full=Proteasome subunit beta ty	1.0	1.0	0.830	1e-130

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

 Score =  560 bits (1442), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 272/272 (100%), Positives = 272/272 (100%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA
Sbjct: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR
Sbjct: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK
Sbjct: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272
           KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA
Sbjct: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272

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 =  502 bits (1292), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 244/272 (89%), Positives = 252/272 (92%)

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 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR
Sbjct: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLD+GY++DMS+EEAAELARR+IYHATFRD ASGGVASVYYVGPNGWK
Sbjct: 181 FSVGSGSPYAYGVLDNGYRYDMSVEEAAELARRSIYHATFRDGASGGVASVYYVGPNGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272
           KLSGDDVGELHY YYPV PSTVEQEM EVAGA
Sbjct: 241 KLSGDDVGELHYKYYPVMPSTVEQEMVEVAGA 272

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516569|ref|XP_003526966.1| PREDICTED: proteasome subunit beta type-5-like [Glycine max]

 Score =  489 bits (1260), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 238/272 (87%), Positives = 248/272 (91%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDT+GLES        +++  ELSAAPSF LP S DFD F K+    +K AKGTTTLA
Sbjct: 1   MKLDTTGLESFPTLLAPQNDVVGELSAAPSFDLPNSNDFDGFVKEAIQMVKPAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR
Sbjct: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLDSGY++D+S+EEAAELARRAIYHATFRD ASGGVASVYYVGPNGWK
Sbjct: 181 FSVGSGSPYAYGVLDSGYRYDLSVEEAAELARRAIYHATFRDGASGGVASVYYVGPNGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272
           KLSGDDVGELHYHYYPVTPSTVEQEM E  GA
Sbjct: 241 KLSGDDVGELHYHYYPVTPSTVEQEMVEATGA 272

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255646634|gb|ACU23791.1| unknown [Glycine max]

 Score =  488 bits (1255), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 237/272 (87%), Positives = 248/272 (91%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDT+GLES        +++  ELSAAPSF LP S DFD F K+    +K AKGTTTLA
Sbjct: 1   MKLDTTGLESFPTLLAPQNDVVGELSAAPSFDLPNSNDFDGFVKEAIQMVKPAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGT+AGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTVAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR
Sbjct: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLDSGY++D+S+EEAAELARRAIYHATFRD ASGGVASVYYVGPNGWK
Sbjct: 181 FSVGSGSPYAYGVLDSGYRYDLSVEEAAELARRAIYHATFRDGASGGVASVYYVGPNGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272
           KLSGDDVGELHYHYYPVTPSTVEQEM E  GA
Sbjct: 241 KLSGDDVGELHYHYYPVTPSTVEQEMVEATGA 272

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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 =  486 bits (1252), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 233/272 (85%), Positives = 250/272 (91%)

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 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           H+LANKRRISV GASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR
Sbjct: 121 HKLANKRRISVAGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLD+GY++D+S+EEAAELARRAIYHATFRD ASGGVASVYYVGPNGWK
Sbjct: 181 FSVGSGSPYAYGVLDNGYRYDLSVEEAAELARRAIYHATFRDGASGGVASVYYVGPNGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272
           KLSGDDVGELHY+YYPVTP+TV+QEM EV  A
Sbjct: 241 KLSGDDVGELHYNYYPVTPTTVDQEMTEVTAA 272

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508794|ref|XP_003523139.1| PREDICTED: proteasome subunit beta type-5-like [Glycine max]

 Score =  486 bits (1251), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 237/272 (87%), Positives = 246/272 (90%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDT+ LES        +++  ELSAAP F LP S DFD F KD    +K AKGTTTLA
Sbjct: 1   MKLDTTSLESFPTLIAPQNDVAGELSAAPFFDLPNSNDFDGFLKDAIQMVKPAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR
Sbjct: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLDSGY++D+S+EEAAELARRAIYHATFRD ASGGVASVYYVGPNGWK
Sbjct: 181 FSVGSGSPYAYGVLDSGYRYDLSVEEAAELARRAIYHATFRDGASGGVASVYYVGPNGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272
           KLSGDDVGELHYHYYPVTPSTVEQEM E  GA
Sbjct: 241 KLSGDDVGELHYHYYPVTPSTVEQEMVEATGA 272

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388515987|gb|AFK46055.1| unknown [Lotus japonicus]

 Score =  478 bits (1230), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 232/270 (85%), Positives = 244/270 (90%)

Query: 1   MKLDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLA 60
           MKLDT+GLES       G+++  E +A PSF LP S DFD F K+    +K AKGTTTLA
Sbjct: 1   MKLDTTGLESFPKLVAPGNDVVGEFTAPPSFELPNSNDFDGFVKEAIQMVKPAKGTTTLA 60

Query: 61  FIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120
           FIFK+GVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL
Sbjct: 61  FIFKDGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRL 120

Query: 121 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           HELANKRRISVTGASK+LANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR
Sbjct: 121 HELANKRRISVTGASKMLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLDSGYK+DMS+EEAAELARRAIYHATFRD ASGGVASVY+VGPNGWK
Sbjct: 181 FSVGSGSPYAYGVLDSGYKYDMSVEEAAELARRAIYHATFRDGASGGVASVYHVGPNGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVA 270
           KLSGDDVGELHYHY PV PSTVEQEM E A
Sbjct: 241 KLSGDDVGELHYHYNPVVPSTVEQEMVEAA 270

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357463621|ref|XP_003602092.1| Proteasome subunit beta type [Medicago truncatula] gi|355491140|gb|AES72343.1| Proteasome subunit beta type [Medicago truncatula]

 Score =  476 bits (1226), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 233/269 (86%), Positives = 241/269 (89%)

Query: 3   LDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFI 62
           LDT+ LES       G  +  E+SA PSF LP S DFD F K+T   +K AKGTTTLAFI
Sbjct: 2   LDTTALESFPSLISHGINVAGEISAPPSFQLPNSNDFDGFVKETIQMVKPAKGTTTLAFI 61

Query: 63  FKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE 122
           FKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE
Sbjct: 62  FKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE 121

Query: 123 LANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFS 182
           LANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG RFS
Sbjct: 122 LANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGNRFS 181

Query: 183 VGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKL 242
           VGSGSPYAYGVLDSGYK+DMS+EEA+ELARRAIYHATFRD ASGGVASVYYVGP GWKKL
Sbjct: 182 VGSGSPYAYGVLDSGYKYDMSVEEASELARRAIYHATFRDGASGGVASVYYVGPTGWKKL 241

Query: 243 SGDDVGELHYHYYPVTPSTVEQEMAEVAG 271
           SGDDVGELHYHY PVTPSTVEQEM E AG
Sbjct: 242 SGDDVGELHYHYNPVTPSTVEQEMVEAAG 270

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388492526|gb|AFK34329.1| unknown [Medicago truncatula]

 Score =  474 bits (1219), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 232/269 (86%), Positives = 240/269 (89%)

Query: 3   LDTSGLESTSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFI 62
           LDT+ LES       G  +  E+SA PSF LP S DFD F K+T   +K AKGTTTLAFI
Sbjct: 2   LDTTALESFPSLISHGINVAGEISAPPSFQLPNSNDFDGFVKETIQMVKPAKGTTTLAFI 61

Query: 63  FKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE 122
           FKEGVMVAADSRASMGGYISS SVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE
Sbjct: 62  FKEGVMVAADSRASMGGYISSHSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE 121

Query: 123 LANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFS 182
           LANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG RFS
Sbjct: 122 LANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGNRFS 181

Query: 183 VGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKL 242
           VGSGSPYAYGVLDSGYK+DMS+EEA+ELARRAIYHATFRD ASGGVASVYYVGP GWKKL
Sbjct: 182 VGSGSPYAYGVLDSGYKYDMSVEEASELARRAIYHATFRDGASGGVASVYYVGPTGWKKL 241

Query: 243 SGDDVGELHYHYYPVTPSTVEQEMAEVAG 271
           SGDDVGELHYHY PVTPSTVEQEM E AG
Sbjct: 242 SGDDVGELHYHYNPVTPSTVEQEMVEAAG 270

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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 =  471 bits (1213), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 226/272 (83%), Positives = 244/272 (89%)

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 HELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTR 180
           HELANKRRISVTGASKLLANILY+YRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG R
Sbjct: 121 HELANKRRISVTGASKLLANILYNYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGMR 180

Query: 181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK 240
           FSVGSGSPYAYGVLD+GYK+DM++EEA+ELARRAIYHAT+RD ASGGV SVY+VGP+GWK
Sbjct: 181 FSVGSGSPYAYGVLDNGYKYDMTVEEASELARRAIYHATYRDGASGGVVSVYHVGPDGWK 240

Query: 241 KLSGDDVGELHYHYYPVTPSTVEQEMAEVAGA 272
           K++GDDVG+LH+ YYPV P+TVEQEM EV GA
Sbjct: 241 KVTGDDVGDLHFQYYPVVPATVEQEMVEVVGA 272

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	272
TAIR|locus:2079241	273	AT3G26340 [Arabidopsis thalian	0.992	0.989	0.790	9.7e-112
UNIPROTKB|P28074	263	PSMB5 "Proteasome subunit beta	0.753	0.779	0.624	1.3e-68
UNIPROTKB|Q5R8S2	263	PSMB5 "Proteasome subunit beta	0.753	0.779	0.624	1.3e-68
UNIPROTKB|E2R3R2	263	PSMB5 "Proteasome subunit beta	0.753	0.779	0.624	2.1e-68
MGI|MGI:1194513	264	Psmb5 "proteasome (prosome, ma	0.75	0.772	0.627	3.5e-68
UNIPROTKB|Q32KL2	263	PSMB5 "Proteasome subunit beta	0.735	0.760	0.635	5.6e-68
UNIPROTKB|F1S9C9	263	LOC100155139 "Proteasome subun	0.753	0.779	0.624	5.6e-68
RGD|61879	263	Psmb5 "proteasome (prosome, ma	0.753	0.779	0.619	9.2e-68
UNIPROTKB|P28075	263	Psmb5 "Proteasome subunit beta	0.753	0.779	0.619	9.2e-68
DICTYBASE|DDB_G0293784	272	psmB5 "proteasome subunit beta	0.772	0.772	0.595	5.1e-67

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

 Score = 1103 (393.3 bits), Expect = 9.7e-112, P = 9.7e-112
 Identities = 215/272 (79%), Positives = 223/272 (81%)

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 RLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG 178
             RLHELANKRRISV+GASKLLAN+LYSYRGMGLSVGTMIAGWDETGPGLYYVD+EGGRLKG
Sbjct:   121 RLHELANKRRISVSGASKLLANMLYSYRGMGLSVGTMIAGWDETGPGLYYVDNEGGRLKG 180

Query:   179 TRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYVGPNG 238
              RFSVGSGSPYAYGVLDSGYKFDMS+          IYHATFRD ASGGVASVY+VGP G
Sbjct:   181 DRFSVGSGSPYAYGVLDSGYKFDMSVEEASELARRSIYHATFRDGASGGVASVYHVGPQG 240

Query:   239 WKKLSGDDVGELHYHYYPVTPSTVEQEMAEVA 270
             W KLSGDDVGELHYHYYPV P T E  M E A
Sbjct:   241 WTKLSGDDVGELHYHYYPVAPITAEHVMEEAA 272

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

 Score = 696 (250.1 bits), Expect = 1.3e-68, P = 1.3e-68
 Identities = 128/205 (62%), Positives = 157/205 (76%)

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

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query:   175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             R+ G  FSVGSGS YAYGV+D GY +D+ +          IY AT+RDA SGG  ++Y+V
Sbjct:   179 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHV 238

Query:   235 GPNGWKKLSGDDVGELHYHYYPVTP 259
               +GW ++S D+V +LH  Y   TP
Sbjct:   239 REDGWIRVSSDNVADLHEKYSGSTP 263

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 = 696 (250.1 bits), Expect = 1.3e-68, P = 1.3e-68
 Identities = 128/205 (62%), Positives = 157/205 (76%)

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

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query:   175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             R+ G  FSVGSGS YAYGV+D GY +D+ +          IY AT+RDA SGG  ++Y+V
Sbjct:   179 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHV 238

Query:   235 GPNGWKKLSGDDVGELHYHYYPVTP 259
               +GW ++S D+V +LH  Y   TP
Sbjct:   239 REDGWIRVSSDNVADLHEKYSGSTP 263

GO:0005839 "proteasome core complex" evidence=ISS

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

 Score = 694 (249.4 bits), Expect = 2.1e-68, P = 2.1e-68
 Identities = 128/205 (62%), Positives = 157/205 (76%)

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

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query:   175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             R+ G  FSVGSGS YAYGV+D GY +D+ +          IY AT+RDA SGG  ++Y+V
Sbjct:   179 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHV 238

Query:   235 GPNGWKKLSGDDVGELHYHYYPVTP 259
               +GW ++S D+V +LH  Y   TP
Sbjct:   239 REDGWIRVSSDNVADLHDKYSGSTP 263

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

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

 Score = 692 (248.7 bits), Expect = 3.5e-68, P = 3.5e-68
 Identities = 128/204 (62%), Positives = 157/204 (76%)

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

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query:   175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             R+ GT FSVGSGS YAYGV+D GY +D+ +          IY AT+RDA SGG  ++Y+V
Sbjct:   179 RISGTAFSVGSGSVYAYGVMDRGYSYDLKVEEAYDLARRAIYQATYRDAYSGGAVNLYHV 238

Query:   235 GPNGWKKLSGDDVGELHYHYYPVT 258
               +GW ++S D+V +LH  Y  V+
Sbjct:   239 REDGWIRVSSDNVADLHDKYSSVS 262

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

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

 Score = 690 (248.0 bits), Expect = 5.6e-68, P = 5.6e-68
 Identities = 127/200 (63%), Positives = 155/200 (77%)

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

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query:   175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             R+ G  FSVGSGS YAYGV+D GY +D+ +          IY AT+RDA SGG  S+Y+V
Sbjct:   179 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEEAYDLARRAIYQATYRDAYSGGSVSLYHV 238

Query:   235 GPNGWKKLSGDDVGELHYHY 254
               +GW ++S D+V +LH  Y
Sbjct:   239 REDGWIRVSSDNVADLHDKY 258

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

 Score = 690 (248.0 bits), Expect = 5.6e-68, P = 5.6e-68
 Identities = 128/205 (62%), Positives = 156/205 (76%)

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

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query:   175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             R+ G  FSVGSGS YAYGV+D GY +D+ +          IY AT+RDA SGG  ++Y+V
Sbjct:   179 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGSVNLYHV 238

Query:   235 GPNGWKKLSGDDVGELHYHYYPVTP 259
               +GW ++S D+V +LH  Y   TP
Sbjct:   239 REDGWIRVSSDNVADLHDKYSESTP 263

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

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

 Score = 688 (247.2 bits), Expect = 9.2e-68, P = 9.2e-68
 Identities = 127/205 (61%), Positives = 157/205 (76%)

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

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query:   175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             R+ GT FSVGSGS YA+GV+D GY +D+ +          IY AT+RDA SGG  ++Y+V
Sbjct:   179 RISGTAFSVGSGSVYAFGVMDRGYSYDLQVEEAYDLARRAIYQATYRDAYSGGAVNLYHV 238

Query:   235 GPNGWKKLSGDDVGELHYHYYPVTP 259
               +GW ++S D+V +LH  Y    P
Sbjct:   239 REDGWIRVSSDNVADLHDKYTSSIP 263

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 = 688 (247.2 bits), Expect = 9.2e-68, P = 9.2e-68
 Identities = 127/205 (61%), Positives = 157/205 (76%)

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

Query:   115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
               +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG 
Sbjct:   119 ARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGN 178

Query:   175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             R+ GT FSVGSGS YA+GV+D GY +D+ +          IY AT+RDA SGG  ++Y+V
Sbjct:   179 RISGTAFSVGSGSVYAFGVMDRGYSYDLQVEEAYDLARRAIYQATYRDAYSGGAVNLYHV 238

Query:   235 GPNGWKKLSGDDVGELHYHYYPVTP 259
               +GW ++S D+V +LH  Y    P
Sbjct:   239 REDGWIRVSSDNVADLHDKYTSSIP 263

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

DICTYBASE|DDB_G0293784 psmB5 "proteasome subunit beta type 5" [Dictyostelium discoideum (taxid:44689)]

 Score = 681 (244.8 bits), Expect = 5.1e-67, P = 5.1e-67
 Identities = 125/210 (59%), Positives = 160/210 (76%)

Query:    50 LKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF 109
             L+ A GTTTLAF++  G++V+ DS+++ G Y++S+SVKK+IEI P +LGTMAGGAADC F
Sbjct:    57 LEFAHGTTTLAFVYGGGIIVSVDSKSTQGPYVASRSVKKVIEITPTLLGTMAGGAADCSF 116

Query:   110 WHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYV 169
             W R LG +CRL+EL NK  ISV  ASK+LANI+YSY+G GLS+GTMI GWD+TGP LYYV
Sbjct:   117 WERELGRRCRLYELRNKELISVAAASKILANIVYSYKGYGLSMGTMITGWDKTGPQLYYV 176

Query:   170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVA 229
             D++G RL G RFS GSGS YAYGVLD+G+K+DM+           +YHAT RDA SGG  
Sbjct:   177 DNDGTRLHGQRFSCGSGSTYAYGVLDTGFKWDMNDEEAYELGRRAVYHATHRDAYSGGAI 236

Query:   230 SVYYVGPNGWKKLSGDDVGELHYHYYPVTP 259
             +VY+V  +GWKK+S DD  +L+  YY + P
Sbjct:   237 NVYHVQKDGWKKISSDDCFKLYQKYYNIVP 266

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

GO:0006508 "proteolysis" evidence=IEA;IDA

GO:0005737 "cytoplasm" evidence=IEA;IPI

GO:0005634 "nucleus" evidence=IEA;IPI

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

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" 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)
Q54BC8	PSB5_DICDI	3, ., 4, ., 2, 5, ., 1	0.5393	0.9448	0.9448	yes	no
P30655	PSB5_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5638	0.8308	0.8308	yes	no
P30656	PSB5_YEAST	3, ., 4, ., 2, 5, ., 1	0.5462	0.8455	0.8013	yes	no
P34065	PSB5_CHICK	3, ., 4, ., 2, 5, ., 1	0.6439	0.7536	0.8007	yes	no
Q32KL2	PSB5_BOVIN	3, ., 4, ., 2, 5, ., 1	0.6184	0.7977	0.8250	yes	no
O24361	PSB5_SPIOL	3, ., 4, ., 2, 5, ., 1	0.8308	1.0	1.0	N/A	no
Q5R8S2	PSB5_PONAB	3, ., 4, ., 2, 5, ., 1	0.6585	0.7536	0.7794	yes	no
O55234	PSB5_MOUSE	3, ., 4, ., 2, 5, ., 1	0.6120	0.8125	0.8371	yes	no
P28075	PSB5_RAT	3, ., 4, ., 2, 5, ., 1	0.6051	0.8161	0.8441	yes	no
P28074	PSB5_HUMAN	3, ., 4, ., 2, 5, ., 1	0.6585	0.7536	0.7794	yes	no
O23717	PSB5A_ARATH	3, ., 4, ., 2, 5, ., 1	0.8407	0.9852	0.9781	yes	no
Q9LIP2	PSB5B_ARATH	3, ., 4, ., 2, 5, ., 1	0.8455	0.9926	0.9890	no	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.994
3rd Layer	3.4.25	0.998

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	272
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	1e-131
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	1e-108
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	3e-84
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	6e-66
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	4e-63
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	4e-59
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	9e-59
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	1e-58
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	2e-45
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	3e-36
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	4e-34
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	2e-18
TIGR03690	219	TIGR03690, 20S_bact_beta, proteasome, beta subunit	3e-17
cd03759	195	cd03759, proteasome_beta_type_3, proteasome beta t	5e-17
cd03760	197	cd03760, proteasome_beta_type_4, proteasome beta t	2e-16
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	4e-15
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	2e-14
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	2e-14
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	1e-13
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	7e-13
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	2e-12
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	1e-06
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	2e-06
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	2e-05
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	6e-05
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	2e-04
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	6e-04

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

 Score =  367 bits (945), Expect = e-131
 Identities = 137/188 (72%), Positives = 164/188 (87%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +CRL+EL NK RISV  ASKLL+N+LY Y+GMGLS+GTMI GWD+TGPGLYYVDS+G R
Sbjct: 61  RECRLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDKTGPGLYYVDSDGTR 120

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
           LKG  FSVGSGS YAYGVLDSGY++D+S+EEA +LARRAIYHAT RDA SGG  ++Y+V 
Sbjct: 121 LKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVNLYHVR 180

Query: 236 PNGWKKLS 243
            +GW+K+S
Sbjct: 181 EDGWRKIS 188

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

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

 Score =  312 bits (801), Expect = e-108
 Identities = 129/217 (59%), Positives = 166/217 (76%)

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

Query: 105 ADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGP 164
           ADC FW R L ++CRL+EL N   ISV  ASK+LANI+++Y+GMGLS+GTMI GWD+ GP
Sbjct: 89  ADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKGP 148

Query: 165 GLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAA 224
           GL+YVD++G RL G  FS GSGS YAYGVLD+G+K+D++ EEA +L RRAIYHATFRDA 
Sbjct: 149 GLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAY 208

Query: 225 SGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPST 261
           SGG  ++Y++  +GWKK+S DD  +LH  Y       
Sbjct: 209 SGGAINLYHMQKDGWKKISADDCFDLHQKYAAEKEIN 245

Length = 247

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

 Score =  250 bits (640), Expect = 3e-84
 Identities = 86/188 (45%), Positives = 118/188 (62%), Gaps = 1/188 (0%)

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-TGPGLYYVDSEGG 174
              RL+EL N R +SV  A+ LL+NILYSYRG    V  ++ G D+  GP LYYVD  G 
Sbjct: 61  RNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGS 120

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
            ++    + GSGS YAYG+LD GYK DM++EEA EL ++AI  A  RD +SGG   V  +
Sbjct: 121 LIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVDVAVI 180

Query: 235 GPNGWKKL 242
             +G ++L
Sbjct: 181 TKDGVEEL 188

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  203 bits (518), Expect = 6e-66
 Identities = 73/182 (40%), Positives = 104/182 (57%), Gaps = 3/182 (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--GMGLSVGTMIAGWDE-TGPGLYYVDSE 172
            + +L+ L     I V   +KLLAN+LY Y      L V  ++AG DE  GP LY VD  
Sbjct: 61  KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPS 120

Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVY 232
           G  ++    ++GSGS YA G+L+  YK DM++EEA ELA +A+  A  RD  SGG   V 
Sbjct: 121 GSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIEVA 180

Query: 233 YV 234
            +
Sbjct: 181 VI 182

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

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

 Score =  196 bits (500), Expect = 4e-63
 Identities = 76/187 (40%), Positives = 104/187 (55%), Gaps = 7/187 (3%)

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----ASKLLANILYSYRGMGLSVGTMIAGWDETG-PGLY 167
               + +L+ L   R ISV      A KL A   YS R     V  +IAG+DE G P LY
Sbjct: 63  YARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRP-YGVSLLIAGYDEDGGPHLY 121

Query: 168 YVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGG 227
            +D  G  ++    ++GSGS YAYG L+  YK DM++EEA ELA +A+  A  RDA SGG
Sbjct: 122 SIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDALSGG 181

Query: 228 VASVYYV 234
              V  +
Sbjct: 182 NIEVAVI 188

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

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

 Score =  187 bits (477), Expect = 4e-59
 Identities = 80/200 (40%), Positives = 118/200 (59%), Gaps = 3/200 (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--MGLSVGTMIAGWDETGPGLYYVDS 171
              + +L+ L     ISV   +KLL+NIL  Y        V  ++AG D+ GP LY  D 
Sbjct: 89  ARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDDGGPRLYSTDP 148

Query: 172 EGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASV 231
            G   +    ++GSGS +AYG L+  Y+ D+S+EEA ELA +A+  A  RDAASGG   V
Sbjct: 149 SGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEV 208

Query: 232 YYVGP-NGWKKLSGDDVGEL 250
             +    G++KL G+++ +L
Sbjct: 209 AVITKDEGFRKLDGEEIKKL 228

Length = 236

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

 Score =  185 bits (471), Expect = 9e-59
 Identities = 84/188 (44%), Positives = 118/188 (62%)

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 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            + RL+EL   R +S+   + LL+NIL S +     V  +I G DE GP LY +D  G  
Sbjct: 61  AEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQLLIGGVDEEGPHLYSLDPLGSI 120

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
           ++    + GSGSPYAYGVL+  YK DM++EEA +LA RAI  A  RD+ASG    V  + 
Sbjct: 121 IEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGIDVVVIT 180

Query: 236 PNGWKKLS 243
            +G+K+L 
Sbjct: 181 KDGYKELE 188

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

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

 Score =  184 bits (470), Expect = 1e-58
 Identities = 81/184 (44%), Positives = 113/184 (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 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             + +L+EL   R +SV   + LL+NIL S R     V  ++ G DE GP LY +D  GG
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVDEEGPHLYSLDPAGG 120

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
            ++    + GSGSP AYGVL+  Y+ DMS+EEA +LA RAI  A  RD ASG    V  +
Sbjct: 121 IIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNGIDVAVI 180

Query: 235 GPNG 238
             +G
Sbjct: 181 TKDG 184

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|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 =  149 bits (379), Expect = 2e-45
 Identities = 59/164 (35%), Positives = 85/164 (51%), Gaps = 2/164 (1%)

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-LSVGTMIAGWDETGPGLYYVDSEGG 174
              +L+ L     ISV   +K LA +L  Y       V  ++AG DE G  LYY+D  G 
Sbjct: 61  EALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSGP 120

Query: 175 RLKGTRF-SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYH 217
            ++     + GS S  A  +L+  YK DM++EEA ELA +A+  
Sbjct: 121 VIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALKS 164

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

>gnl|CDD|239731 cd03762, proteasome_beta_type_6, proteasome beta type-6 subunit

 Score =  127 bits (321), Expect = 3e-36
 Identities = 62/179 (34%), Positives = 97/179 (54%), Gaps = 12/179 (6%)

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

Query: 116 IKCR----LHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET-GPGLYYVD 170
              R    +H +       V  A+ L  N+ Y+Y+ M LS G ++AGWDE  G  +Y + 
Sbjct: 57  DYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYKEM-LSAGIIVAGWDEQNGGQVYSI- 114

Query: 171 SEGGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGV 228
             GG L    F++ GSGS Y YG +D+ YK  M++EE  +  + A+  A  RD +SGGV
Sbjct: 115 PLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSGGV 173

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

>gnl|CDD|239732 cd03763, proteasome_beta_type_7, proteasome beta type-7 subunit

 Score =  121 bits (307), Expect = 4e-34
 Identities = 63/185 (34%), Positives = 93/185 (50%), Gaps = 5/185 (2%)

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 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEG 173
           +     LH L   R+  V  A  +L   L+ Y+G  +    ++ G D TGP LY +   G
Sbjct: 59  ISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQGH-IGAALVLGGVDYTGPHLYSIYPHG 117

Query: 174 GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYY 233
              K    ++GSGS  A  VL+  YK DM+ EEA +L   AI    F D  SG    +  
Sbjct: 118 STDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGSNVDLCV 177

Query: 234 VGPNG 238
           +  +G
Sbjct: 178 ITKDG 182

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 = 80.8 bits (200), Expect = 2e-18
 Identities = 52/194 (26%), Positives = 88/194 (45%), Gaps = 10/194 (5%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPG-LYYVDSEG 173
             + ++++ ++ + +S    ++LL+ ILYS R     V  ++AG DE G G +Y  D  G
Sbjct: 68  KARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSYDPVG 127

Query: 174 GRLKGTRFSVGSGSPYAYGVLDSGYKF---------DMSIEEAAELARRAIYHATFRDAA 224
              + T  + GS S     +LD+              +S+EEA  L + A   A  RD  
Sbjct: 128 SYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFTSAAERDIY 187

Query: 225 SGGVASVYYVGPNG 238
           +G    +  +  +G
Sbjct: 188 TGDSLEIVIITKDG 201

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

 Score = 78.2 bits (193), Expect = 3e-17
 Identities = 59/209 (28%), Positives = 104/209 (49%), Gaps = 13/209 (6%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GTT +A  +  GV++A D RA+ G  I+S+ V+K+   + Y    +AG A       R  
Sbjct: 2   GTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLF 61

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGM---GLSVGTMIAGWDE-TGPG-LYYV 169
            ++   +E      +++ G +  LA ++         GL+V  ++AG+D   G G ++  
Sbjct: 62  QVELEHYEKIEGVPLTLDGKANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAGRIFSY 121

Query: 170 DSEGGRLKGTRF-SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGG- 227
           D  GGR +   + +VGSGS +A G L   Y  D+  ++A  +A  A+Y A   D+A+GG 
Sbjct: 122 DVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRVAVEALYDAADDDSATGGP 181

Query: 228 ------VASVYYVGPNGWKKLSGDDVGEL 250
                   +V  +  +G +++   ++ EL
Sbjct: 182 DLVRGIYPTVVVITADGARRVPESELEEL 210

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|239728 cd03759, proteasome_beta_type_3, proteasome beta type-3 subunit

 Score = 76.5 bits (189), Expect = 5e-17
 Identities = 54/186 (29%), Positives = 86/186 (46%), Gaps = 2/186 (1%)

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 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETG-PGLYYVDSEG 173
             +  L+ L  +R I     S L++++LY  R     V  ++AG D  G P +  +D  G
Sbjct: 63  RFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMDLIG 122

Query: 174 GRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVY 232
                + F V G+ S   YG+ +S ++ DM  +E  E   +A+  A  RDA SG  A VY
Sbjct: 123 CPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVDRDALSGWGAVVY 182

Query: 233 YVGPNG 238
            +  + 
Sbjct: 183 IITKDK 188

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

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

 Score = 74.9 bits (185), Expect = 2e-16
 Identities = 55/195 (28%), Positives = 85/195 (43%), Gaps = 16/195 (8%)

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-LANKRRISVTGASKLLANILYSYRGMG--LSVGTMIAGWDETG-PGLYYVD 170
                  E L +   +S       L  +LY+ R     L    ++ G D  G P L YVD
Sbjct: 62  DQLVIDDECLDDGHSLSPKEIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEGEPFLGYVD 121

Query: 171 SEGGRLKGTRFSV-----GSGSPYAYGVLDSGY--KFDMSIEEAAELARRAIYHATFRDA 223
                L GT +       G G+  A  +L   +  K D++ EEA  L    +    +RDA
Sbjct: 122 -----LLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVLYYRDA 176

Query: 224 ASGGVASVYYVGPNG 238
            S     +  V   G
Sbjct: 177 RSINKYQIAVVTKEG 191

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

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

 Score = 72.3 bits (178), Expect = 4e-15
 Identities = 50/176 (28%), Positives = 88/176 (50%), Gaps = 17/176 (9%)

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------RGMGLSVGTMIAGWDETG 163
           L  + R+    N+      I V   +K + ++   Y      R  G+++  +IAG D+ G
Sbjct: 83  LIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVAL--LIAGVDDGG 140

Query: 164 PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHAT 219
           P L+  D  G  L+    ++G+G       L+  Y+ D+S++EA ELA +A+Y A 
Sbjct: 141 PRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAV 196

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|238892 cd01911, proteasome_alpha, proteasome alpha subunit

 Score = 70.2 bits (173), Expect = 2e-14
 Identities = 52/178 (29%), Positives = 84/178 (47%), Gaps = 22/178 (12%)

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------YSYRGMGLSVGTMIAGWDE-T 162
           L  + R+    +       I V    K +A++          R  G  V  +IAG+DE  
Sbjct: 81  LVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFG--VSLLIAGYDEEG 138

Query: 163 GPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHA 218
           GP LY  D  G     K T  ++G GS  A   L+  YK D+++EEA +LA +A+   
Sbjct: 139 GPQLYQTDPSGTYFGYKAT--AIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEV 194

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

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 69.7 bits (171), Expect = 2e-14
 Identities = 56/189 (29%), Positives = 89/189 (47%), Gaps = 14/189 (7%)

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----ISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPG 165
           L  + R+    ++      I V    K + ++   Y   G      V  +IAG D+ GP 
Sbjct: 82  LIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPR 141

Query: 166 LYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAAS 225
           L+  D  G   +    ++GSG       L+  YK DMS+EEA ELA +A+Y A   +  +
Sbjct: 142 LFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKALY-AALEENET 200

Query: 226 GGVASVYYV 234
                + YV
Sbjct: 201 PENVEIAYV 209

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

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

 Score = 67.2 bits (165), Expect = 1e-13
 Identities = 45/166 (27%), Positives = 80/166 (48%), Gaps = 11/166 (6%)

Query: 57  TTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQ----FWHR 112
           T +    K+ V++AAD+ A+    +      KI +++ + L   +G A D      +  +
Sbjct: 3   TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQK 62

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSY--RGMGLSVGTMIAGWDE-TGPGLYYV 169
           N+    +L+++ N   +S   A+      L           V  ++AG+D+  GP LYY+
Sbjct: 63  NI----QLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYI 118

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI 215
           D  G  +K    + G G+ +   +LD  YK DM++EEA EL ++ I
Sbjct: 119 DYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKCI 164

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

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 65.8 bits (161), Expect = 7e-13
 Identities = 45/166 (27%), Positives = 80/166 (48%), Gaps = 10/166 (6%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +    KEGV++A + R +    +   SV+KI+EI+ ++   M+G  AD +    + 
Sbjct: 27  GSTAIGIKTKEGVVLAVEKRIT-SPLMEPSSVEKIMEIDDHIGCAMSGLIADARTLIDHA 85

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTM---------IAGWDETGPG 165
            ++ + H       ++V   ++ ++++   +         M         IAG DE GP 
Sbjct: 86  RVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQ 145

Query: 166 LYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELA 211
           L++ D  G   +    ++GSGS  A   L   Y  DM++EEA +LA
Sbjct: 146 LFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLA 191

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

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

 Score = 64.9 bits (159), Expect = 2e-12
 Identities = 53/176 (30%), Positives = 86/176 (48%), Gaps = 17/176 (9%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +GTT +    K+GV++A D R +    I   S++KI +I+ ++    AG  AD     R 
Sbjct: 35  RGTTAVGVKTKDGVVLAVDKRIT-SPLIEPSSIEKIFKIDDHIGAASAGLVADA----RV 89

Query: 114 LGIKCRLHELANKRR----ISVTGASKLLANILYSY------RGMGLSVGTMIAGWDETG 163
           L  + R+    N+      I V   +K + +    Y      R  G+++  +IAG D+ G
Sbjct: 90  LIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVAL--LIAGVDDGG 147

Query: 164 PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHAT 219
           P L+  D  G  L+    ++G+G       L+  YK D+S+EEA ELA +A+  A 
Sbjct: 148 PRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKAN 203

Length = 241

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score = 47.7 bits (114), Expect = 1e-06
 Identities = 42/169 (24%), Positives = 80/169 (47%), Gaps = 10/169 (5%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KGTT +    K+ V++  + + S+      ++V+KI  ++ ++    AG  AD +     
Sbjct: 26  KGTTAVGVRGKDCVVLGVE-KKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADARVLINR 84

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSY------RGMGLSVGTMIAGWDETG-PGL 166
             ++C+ H L  +  ++V   ++ +A +   Y      R  G+S  T+I G+D  G P L
Sbjct: 85  ARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGIS--TLIVGFDPDGTPRL 142

Query: 167 YYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI 215
           Y  D  G        ++G  S      L+  YK +M+ ++  +LA +A+
Sbjct: 143 YQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIKAL 191

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

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score = 46.9 bits (112), Expect = 2e-06
 Identities = 44/165 (26%), Positives = 72/165 (43%), Gaps = 17/165 (10%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           + G  ++      GV++A + +      I   SV K+ +I P++    +G   D     R
Sbjct: 25  SSGAPSVGIKAANGVVLATEKKVP-SPLIDESSVHKVEQITPHIGMVYSGMGPDF----R 79

Query: 113 NLGIKCR----LHELANKRRISVTGASKLLANILYSY------RGMGLSVGTMIAGWDET 162
            L  K R     + L     I V+   + +A+++  Y      R  G+S+  +IAGWDE 
Sbjct: 80  VLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSL--LIAGWDEG 137

Query: 163 GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEA 207
           GP LY VD  G        ++G     A   L+  Y  D+ +E+A
Sbjct: 138 GPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDA 182

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

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score = 44.3 bits (105), Expect = 2e-05
 Identities = 45/164 (27%), Positives = 77/164 (46%), Gaps = 13/164 (7%)

Query: 57  TTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGI 116
           T L  + K+G+++AA+ + +      S S +KI +I+ ++   +AG  +D         +
Sbjct: 31  TCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANILINYARL 90

Query: 117 KCRLHELANKRRISVTGASKLLANILYSY------RGMGLSVGTMIAGWDET-GPGLYYV 169
             + +  + +  I V    + L +I   Y      R  G+S   + AGWD+  G  LY  
Sbjct: 91  IAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSF--LYAGWDKHYGFQLYQS 148

Query: 170 DSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELA 211
           D  G     K T  ++G+ +  A  +L   YK DM++EEA  LA
Sbjct: 149 DPSGNYSGWKAT--AIGNNNQAAQSLLKQDYKDDMTLEEALALA 190

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

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

 Score = 42.9 bits (101), Expect = 6e-05
 Identities = 42/172 (24%), Positives = 74/172 (43%), Gaps = 15/172 (8%)

Query: 58  TLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGI- 116
           T+  + KEGV++ AD   S       +  +KI +I+ ++   +AG  AD      N+ I 
Sbjct: 34  TVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADA-----NILIN 88

Query: 117 KCRL----HELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDET-GPGLY 167
           +CRL    +         V      + ++  SY   G      V  + AG+DE  G  LY
Sbjct: 89  QCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLY 148

Query: 168 YVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHAT 219
           + D  G        ++G  +  A  +L   +K D+++E+   LA + +  + 
Sbjct: 149 HTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSM 200

Length = 253

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score = 40.7 bits (96), Expect = 2e-04
 Identities = 31/107 (28%), Positives = 49/107 (45%), Gaps = 8/107 (7%)

Query: 87  KKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG-----ASKLLANI 141
           KKI +++ ++   +AG  AD +   R +  +C  +       I V+      A K   N 
Sbjct: 56  KKIFKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINT 115

Query: 142 -LYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGS 187
             Y  R  G  VG +IAG+DE+GP L+     G   +    S+G+ S
Sbjct: 116 QRYGRRPYG--VGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGARS 160

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

>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score = 40.0 bits (94), Expect = 6e-04
 Identities = 47/194 (24%), Positives = 81/194 (41%), Gaps = 36/194 (18%)

Query: 42  FQKD--TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQ-----SVKKIIEINP 94
           FQ +   KA        T +    K+GV++A +        ++S+     S K+I  ++ 
Sbjct: 18  FQVEYANKAVENSG---TAIGIRCKDGVVLAVEK------LVTSKLYEPGSNKRIFNVDR 68

Query: 95  YMLGTMAGGAADCQF-----------WHRNLGIKCRLHELANKRRISVTGASKLLANILY 143
           ++   +AG  AD +            +  N G    +  LA+  R+    A  + A  LY
Sbjct: 69  HIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLAD--RV----AMYMHAYTLY 122

Query: 144 -SYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM 202
            S R  G SV  ++ G+D  GP LY ++  G        ++G G   A   L+     ++
Sbjct: 123 SSVRPFGCSV--LLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSEL 180

Query: 203 SIEEAAELARRAIY 216
           +  EA + A + IY
Sbjct: 181 TCREAVKEAAKIIY 194

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	272
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	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
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
KOG0181	233	consensus 20S proteasome, regulatory subunit alpha	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0178	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	100.0
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	100.0
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	100.0
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	100.0
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	100.0
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.97
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.63
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.4
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	97.06
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	96.84
COG4079	293	Uncharacterized protein conserved in archaea [Func	95.53

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

Probab=100.00  E-value=5.2e-56  Score=379.37  Aligned_cols=238  Identities=66%  Similarity=1.098  Sum_probs=224.7

Q ss_pred             CCCCCCCCcchhhH-----h-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCCh
Q 024133           31 FSLPLSTDFDEFQK-----D-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGA  104 (272)
Q Consensus        31 ~~~p~~~~g~~~q~-----e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~  104 (272)
                      ..+|++.++..|..     + +...+++.||||++|++|++|||+|+|+|++.|++|.++.++||++||++++.+++|.+
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            55777654433322     2 56678899999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEc
Q 024133          105 ADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVG  184 (272)
Q Consensus       105 aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG  184 (272)
                      +||++|.+.+.++|++|++++++.|+|.++++.|+|++|+||.+|++++++|||||+.||.||+||..|+....+.|++|
T Consensus       121 ADCqfWer~L~kecRL~eLRnkeriSVsaASKllsN~~y~YkGmGLsmGtMi~G~Dk~GP~lyYVDseG~Rl~G~~FSVG  200 (285)
T KOG0175|consen  121 ADCQFWERVLAKECRLHELRNKERISVSAASKLLSNMVYQYKGMGLSMGTMIAGWDKKGPGLYYVDSEGTRLSGDLFSVG  200 (285)
T ss_pred             hhhHHHHHHHHHHHHHHHHhcCcceehHHHHHHHHHHHhhccCcchhheeeEeeccCCCCceEEEcCCCCEecCceEeec
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCCCCCchhHH
Q 024133          185 SGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVEQ  264 (272)
Q Consensus       185 ~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~~~~~~~~~  264 (272)
                      ||+.+|+++||+.|++|||.+||.+|++++|.+|.+||.+||+.|++++|+++||.+++..|+.+++++|.+..+++.|.
T Consensus       201 SGs~yAYGVLDsgYr~dls~eEA~~L~rrAI~hAThRDaySGG~vnlyHv~edGW~~v~~~Dv~~L~~~~~e~~~~~~~~  280 (285)
T KOG0175|consen  201 SGSTYAYGVLDSGYRYDLSDEEAYDLARRAIYHATHRDAYSGGVVNLYHVKEDGWVKVSNTDVSELHYHYYEVAPPEAEK  280 (285)
T ss_pred             CCCceeEEeeccCCCCCCCHHHHHHHHHHHHHHHHhcccccCceEEEEEECCccceecCCccHHHHHHHHHHhcCccchh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999888887


Q ss_pred             HHHH
Q 024133          265 EMAE  268 (272)
Q Consensus       265 ~~~~  268 (272)
                      .|.+
T Consensus       281 ~~~~  284 (285)
T KOG0175|consen  281 DMEN  284 (285)
T ss_pred             hccC
Confidence            6653

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=4.3e-51  Score=361.51  Aligned_cols=233  Identities=56%  Similarity=0.989  Sum_probs=219.0

Q ss_pred             ccCCCCCCCCCCCCcchhhHh-------HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEE
Q 024133           25 LSAAPSFSLPLSTDFDEFQKD-------TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYML   97 (272)
Q Consensus        25 ~~~~~~~~~p~~~~g~~~q~e-------a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~   97 (272)
                      |+...+|+-|+...+.-|..|       +-++..+.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|+++++
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~   81 (247)
T PTZ00488          2 FCGPEHFEHPPGAHPGDFLAEYTFDHGDANKAIEFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLL   81 (247)
T ss_pred             CCCccccccCCCCCHHHHHHHhhhccccCCcccccCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEE
Confidence            455678888888666666666       3345556799999999999999999999999999999999999999999999


Q ss_pred             EEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceee
Q 024133           98 GTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLK  177 (272)
Q Consensus        98 ~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~  177 (272)
                      +++||..+|++.+.++++.+++.|+++++++|+++.+|++|++++|.+|++|+.+++||||||++||+||++||+|++.+
T Consensus        82 ~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~isv~~la~~ls~~l~~~R~~~~~v~~iiaG~D~~gp~Ly~vDp~Gs~~~  161 (247)
T PTZ00488         82 GTMAGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKGPGLFYVDNDGTRLH  161 (247)
T ss_pred             EEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeeEEEEEEEEeCCCCEEEEEcCCcceee
Confidence            99999999999999999999999999999999999999999999999999999999999999988999999999999999


Q ss_pred             cCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCCC
Q 024133          178 GTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPV  257 (272)
Q Consensus       178 ~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~~  257 (272)
                      ++++|+|+|+.+++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|++.++++||++++++++..
T Consensus       162 ~~~~a~G~gs~~~~~~Le~~~k~dms~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g~~~l~~~ei~~~l~~~~~~  241 (247)
T PTZ00488        162 GNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDGWKKISADDCFDLHQKYAAE  241 (247)
T ss_pred             cCCEEEccCHHHHHHHHHhcCcCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCccEECCHHHHHHHHHHHhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999988843

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

Probab=100.00  E-value=3.6e-51  Score=360.00  Aligned_cols=219  Identities=38%  Similarity=0.507  Sum_probs=211.1

Q ss_pred             CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHH
Q 024133           37 TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG  115 (272)
Q Consensus        37 ~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~  115 (272)
                      |+|+++|+| ++++++ ..|+|+|||+++||||||+|+|.++|.++..++++|||+|+|||+|++||+.+|++.|+++++
T Consensus        12 p~g~l~q~e~a~~a~~-~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~aDa~~lv~~~r   90 (236)
T COG0638          12 PEGRLFQVEYALEAVK-RGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYAR   90 (236)
T ss_pred             CCCchHHHHHHHHHHH-cCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcHhHHHHHHHHH
Confidence            699999999 999998 445999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC--CcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHH
Q 024133          116 IKCRLHELANKRRISVTGASKLLANILYSYRG--MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGV  193 (272)
Q Consensus       116 ~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~--~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~  193 (272)
                      .+++.|++.++++++++.+++++++++|.+|.  +||+|++||+|+|+++|+||++||+|++.+++++|+|+|+..++++
T Consensus        91 ~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~~rP~gv~~iiaG~d~~~p~Ly~~Dp~G~~~~~~~~a~Gsgs~~a~~~  170 (236)
T COG0638          91 AEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGF  170 (236)
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCcccceEEEEEEEEcCCCCeEEEECCCCceeecCEEEEcCCcHHHHHH
Confidence            99999999999999999999999999999998  8999999999999877999999999999999999999999999999


Q ss_pred             HHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcC-CCeEEcCcchHHHHHHhhCC
Q 024133          194 LDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP-NGWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       194 Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~k-dg~~~l~~~ei~~~~~~~~~  256 (272)
                      ||+.|+++|+.|||++++++||+.+.+||..++++++|+++++ +|++.++++++..++..++.
T Consensus       171 Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~~~~~~~~~  234 (236)
T COG0638         171 LEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLSE  234 (236)
T ss_pred             HHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999 79999999999999887764

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=5.1e-51  Score=362.93  Aligned_cols=229  Identities=19%  Similarity=0.201  Sum_probs=213.8

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+..+.| ||||+||+| |++||+  +|+|+|||+++||||||+|+|.+++.++.+++.+|||+|+++++++++|..+
T Consensus         4 ~yd~~~~~fsp~Grl~QvEYA~~av~--~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   81 (253)
T PTZ00246          4 RYDSRTTTFSPEGRLYQVEYALEAIN--NASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTA   81 (253)
T ss_pred             ccCCCCceECCCCEEhHHHHHHHHHH--hCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHH
Confidence            455666667 899999999 999998  9999999999999999999999998777777899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCc
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTR  180 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~  180 (272)
                      |++.+.+.++.+++.|++.+++++++..+++.+++.+|.++    .+|++|++||+|||+ .||+||++||+|++.++++
T Consensus        82 D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~~~~~~  161 (253)
T PTZ00246         82 DANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKA  161 (253)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECCCCCEecceE
Confidence            99999999999999999999999999999999999988763    347889999999995 7899999999999999999


Q ss_pred             eEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC------eEEcCcchHHHHHHhh
Q 024133          181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG------WKKLSGDDVGELHYHY  254 (272)
Q Consensus       181 ~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg------~~~l~~~ei~~~~~~~  254 (272)
                      +|+|+|+.+++++||+.|+++||++||++++++||..+..||..++++++|++++++|      |++++++||++++.++
T Consensus       162 ~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l~~~ei~~~l~~~  241 (253)
T PTZ00246        162 TAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAELLKKV  241 (253)
T ss_pred             EEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEECCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999875      8999999999999998


Q ss_pred             CCCC
Q 024133          255 YPVT  258 (272)
Q Consensus       255 ~~~~  258 (272)
                      +...
T Consensus       242 ~~~~  245 (253)
T PTZ00246        242 TQEY  245 (253)
T ss_pred             hhhh
Confidence            7544

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=5.4e-51  Score=357.35  Aligned_cols=216  Identities=21%  Similarity=0.300  Sum_probs=203.6

Q ss_pred             CCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHH
Q 024133           32 SLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF  109 (272)
Q Consensus        32 ~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~  109 (272)
                      .+..| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|++|++||..+|++.
T Consensus         4 ~~t~fsp~Grl~QveyA~~av~--~G~t~igik~~dgVvlaad~~~~-~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (227)
T cd03750           4 SLTTFSPSGKLVQIEYALAAVS--SGAPSVGIKAANGVVLATEKKVP-SPLIDESSVHKVEQITPHIGMVYSGMGPDFRV   80 (227)
T ss_pred             CCceECCCCeEhHHHHHHHHHH--cCCCEEEEEeCCEEEEEEeecCC-ccccCCCCcceEEEEcCCEEEEEeEcHHhHHH
Confidence            34455 799999999 999998  99999999999999999999998 58888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhc--c--CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEcc
Q 024133          110 WHRNLGIKCRLHELANKRRISVTGASKLLANILYSY--R--GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGS  185 (272)
Q Consensus       110 l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~--R--~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~  185 (272)
                      +.++++.+++.|++.++++++++.++++|++++|.+  |  ..|+++++||+|||++||+||++||+|++.+++++|+|+
T Consensus        81 l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~g~~Ly~~d~~G~~~~~~~~a~G~  160 (227)
T cd03750          81 LVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGK  160 (227)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCCCCEEEEECCCCCEEeeeEEEECC
Confidence            999999999999999999999999999999999765  2  347889999999998899999999999999999999999


Q ss_pred             ChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHH
Q 024133          186 GSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELH  251 (272)
Q Consensus       186 gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~  251 (272)
                      |+.+++++||++|+++||++||++++++||+.+.+||. ++.+++|++++++ |+++++++||++++
T Consensus       161 g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l-~~~~iev~iv~~~~~~~~~~~~ei~~~~  226 (227)
T cd03750         161 NYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQM-TEKNIEIGICGETKGFRLLTPAEIKDYL  226 (227)
T ss_pred             CCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEECCCCEEECCHHHHHHHh
Confidence            99999999999999999999999999999999998874 8899999999995 89999999999986

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

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

Probab=100.00  E-value=1.6e-49  Score=328.02  Aligned_cols=214  Identities=25%  Similarity=0.376  Sum_probs=202.5

Q ss_pred             CCCCCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHH
Q 024133           34 PLSTDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR  112 (272)
Q Consensus        34 p~~~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~  112 (272)
                      +..|+||+||+| |++|+|  .|+|.|||+.++|||||+++|+++ .+..++++.||++|++||+|++||+.+|++.+++
T Consensus        14 TfSpEGRlfQVEYaieAik--LGsTaIGv~TkEgVvL~vEKritS-pLm~p~sveKi~eid~HIgca~SGl~aDarTlve   90 (241)
T KOG0176|consen   14 TFSPEGRLFQVEYAIEAIK--LGSTAIGVKTKEGVVLAVEKRITS-PLMEPSSVEKIVEIDDHIGCAMSGLIADARTLVE   90 (241)
T ss_pred             ccCCCceeeehhhHHHHHh--cCCceeeeeccceEEEEEeccccC-cccCchhhhhheehhhceeeeccccccchHHHHH
Confidence            344799999999 999999  999999999999999999999997 9999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhc-----------cCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          113 NLGIKCRLHELANKRRISVTGASKLLANILYSY-----------RGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       113 ~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~-----------R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      ++|.+|+.|.+.|+++|+++.+.+.+|++...+           ||  ++|++|+||+|++||+||+.||+|+++.|++-
T Consensus        91 ~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRP--FGValliAG~D~~gpqL~h~dPSGtf~~~~AK  168 (241)
T KOG0176|consen   91 RARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRP--FGVALLIAGHDETGPQLYHLDPSGTFIRYKAK  168 (241)
T ss_pred             HHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCC--cceEEEEeeccCCCceEEEeCCCCceEEecce
Confidence            999999999999999999999999999988654           55  55999999999999999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHHHh
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELHYH  253 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~  253 (272)
                      |||+|+.-+.+.|.+.|+++|+++||+.+++..|+..++ +..+..|++|.+++++ +++.++++|+++.+..
T Consensus       169 AIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMe-eKl~~~Nvev~~vt~e~~f~~~t~EE~~~~i~~  240 (241)
T KOG0176|consen  169 AIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVME-EKLNSNNVEVAVVTPEGEFHIYTPEEVEQVIKR  240 (241)
T ss_pred             eccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHH-HhcCccceEEEEEcccCceEecCHHHHHHHHhc
Confidence            999999999999999999999999999999999999887 6678889999999997 7999999999998754

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1.3e-48  Score=345.07  Aligned_cols=222  Identities=25%  Similarity=0.370  Sum_probs=206.5

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.++...| ||||++|+| |.+|++  +|+|+|||+++||||||+|+|.+ +.++..++.+||++|++++++++||..+|
T Consensus        10 y~~~~~~fsp~Gr~~Q~eya~~av~--~G~t~igik~~dgVvlaad~r~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   86 (241)
T PRK03996         10 YDRAITIFSPDGRLYQVEYAREAVK--RGTTAVGVKTKDGVVLAVDKRIT-SPLIEPSSIEKIFKIDDHIGAASAGLVAD   86 (241)
T ss_pred             cCCCCceECCCCeEhHHHHHHHHHH--hCCCEEEEEeCCEEEEEEeccCC-CcccCCCccceEEEEcCCEEEEEcccHHH
Confidence            34444555 799999999 999998  99999999999999999999999 57788889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceE
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      ++.+.++++.+++.|++.++++++++.+++++++.+|.++    ..|+++++||+|||++||+||++||+|++.+++++|
T Consensus        87 ~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~gp~Ly~id~~G~~~~~~~~a  166 (241)
T PRK03996         87 ARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATA  166 (241)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCCcCEEEEECCCCCeecceEEE
Confidence            9999999999999999999999999999999999998663    237889999999998899999999999999999999


Q ss_pred             EccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC--eEEcCcchHHHHHHhh
Q 024133          183 VGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG--WKKLSGDDVGELHYHY  254 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg--~~~l~~~ei~~~~~~~  254 (272)
                      +|+|+..++++|++.|+++||++||++++++||..+.++ ..++++++|++++++|  ++.++++|+++++.++
T Consensus       167 ~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~-~~~~~~i~i~ii~~~~~~~~~~~~~ei~~~~~~~  239 (241)
T PRK03996        167 IGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEG-KLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKL  239 (241)
T ss_pred             ECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEECCCCcEEECCHHHHHHHHHHh
Confidence            999999999999999999999999999999999999875 6688999999999986  9999999999998775

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=1.2e-48  Score=341.75  Aligned_cols=214  Identities=26%  Similarity=0.409  Sum_probs=200.7

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.+..+.| ||||++|+| |++|++  +|+|+|||+++||||||+|+|.+ +.++..++.+||++|++++++++||..+|
T Consensus         3 ~~~~~~~f~p~Grl~Qieya~~av~--~G~tvigi~~~dgvvlaad~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   79 (224)
T TIGR03633         3 YDRAITVFSPDGRLYQVEYAREAVK--RGTTAVGIKTKDGVVLAVDKRIT-SKLVEPSSIEKIFKIDDHIGAATSGLVAD   79 (224)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHH--cCCCEEEEEECCEEEEEEeccCC-ccccCCCccceEEEECCCEEEEEeecHHh
Confidence            44556666 799999999 999998  99999999999999999999998 57788899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceE
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      ++.+.+.++.+++.|++.++++++++.+++++++++|.+.    ..|+++++||+|+|+++|+||.+||.|++.+++++|
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~~~~~Ly~~D~~G~~~~~~~~a  159 (224)
T TIGR03633        80 ARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATA  159 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeCCcCEEEEECCCCCeecceEEE
Confidence            9999999999999999999999999999999999997662    237889999999998899999999999999999999


Q ss_pred             EccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC--eEEcCcch
Q 024133          183 VGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG--WKKLSGDD  246 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg--~~~l~~~e  246 (272)
                      +|+|+.+++++|++.|+++|+.+||++++++||..+.+ |..+++.++|++++++|  |++++++|
T Consensus       160 ~G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~~-d~~~~~~i~i~ii~~~g~~~~~~~~~~  224 (224)
T TIGR03633       160 IGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAVE-DKLTPENVEVAYITVEDKKFRKLSVEE  224 (224)
T ss_pred             ECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEEEEEEEcCCCcEEECCCCC
Confidence            99999999999999999999999999999999999887 88999999999999987  99999876

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.

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=1.4e-47  Score=326.72  Aligned_cols=188  Identities=73%  Similarity=1.222  Sum_probs=184.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      +|+|||+++||||||+|+|.++|.++.+++.+|||+|++|+++++||..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++++|.+|.+|+++++||+|||++||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++.+||
T Consensus        81 ~~ls~~l~~~~~~~~~v~~li~G~D~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~~~~l  160 (188)
T cd03761          81 KLLSNMLYQYKGMGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAI  160 (188)
T ss_pred             HHHHHHHHhcCCCCeEEEEEEEEEeCCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999998899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCCeEEcC
Q 024133          216 YHATFRDAASGGVASVYYVGPNGWKKLS  243 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg~~~l~  243 (272)
                      ..+.+||..++++++|++|+++|+++++
T Consensus       161 ~~~~~rd~~sg~~~~v~ii~~~g~~~~~  188 (188)
T cd03761         161 YHATHRDAYSGGNVNLYHVREDGWRKIS  188 (188)
T ss_pred             HHHHHhcccCCCCeEEEEEcCCceEEcC
Confidence            9999999999999999999999998864

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=1.7e-47  Score=332.08  Aligned_cols=203  Identities=21%  Similarity=0.245  Sum_probs=189.3

Q ss_pred             CCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhH
Q 024133           30 SFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADC  107 (272)
Q Consensus        30 ~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~  107 (272)
                      .+.+..| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.+++.++.+++.+||++|+++|+|++||..+|+
T Consensus         4 d~~~~~fsp~Grl~Qveya~~a~~--~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   81 (213)
T cd03752           4 DSRTTIFSPEGRLYQVEYAMEAIS--HAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDA   81 (213)
T ss_pred             CCCCceECCCCEEhHHHhHHHHHh--cCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHhH
Confidence            3444455 799999999 999998  999999999999999999999998777777799999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhc----cCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceE
Q 024133          108 QFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSY----RGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~----R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      +.+.++++.+++.|+++++++|+++.+++.|+.++|.+    +..|+++++||+|||+ .||+||.+||+|++.+++++|
T Consensus        82 ~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d~~G~~~~~~~~a  161 (213)
T cd03752          82 NILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATA  161 (213)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEECCCCCeeeeeEEE
Confidence            99999999999999999999999999999999998766    2237889999999995 689999999999999999999


Q ss_pred             EccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEE
Q 024133          183 VGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      +|+|+.+++++||+.|+++||.+||++++++||..+.+||..++.+++|.++
T Consensus       162 ~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         162 IGNNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             ECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            9999999999999999999999999999999999999999999999999874

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=4.4e-47  Score=329.35  Aligned_cols=203  Identities=18%  Similarity=0.187  Sum_probs=188.4

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.+.++.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.++ .++.+++++|||+|++++++++||..+|
T Consensus         4 yd~~~t~fsp~Grl~Qveya~~a~~--~G~tvIgik~kdgVvla~d~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (212)
T cd03751           4 YDLSASTFSPDGRVFQVEYANKAVE--NSGTAIGIRCKDGVVLAVEKLVTS-KLYEPGSNKRIFNVDRHIGIAVAGLLAD   80 (212)
T ss_pred             ccCCCceECCCCcchHHHHHHHHHh--cCCCEEEEEeCCEEEEEEEccccc-cccCcchhcceeEecCcEEEEEEEChHh
Confidence            45556666 799999999 999998  999999999999999999999986 7777788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCceE
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      ++.+.++++.+++.|++.++++++++.++++|++++|.++.    .|+++++||+|||++||+||++||+|++.+++++|
T Consensus        81 ~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~gp~Ly~~D~~Gs~~~~~~~a  160 (212)
T cd03751          81 GRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCA  160 (212)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCCcCEEEEECCCCCEEeeEEEE
Confidence            99999999999999999999999999999999999887632    37889999999998899999999999999999999


Q ss_pred             EccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEE
Q 024133          183 VGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      +|+|+..++++||+.|+++||++||+++++++|+.+.+.+.....+|+|.++
T Consensus       161 ~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         161 IGKGKQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             ECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            9999999999999999999999999999999999999866677788998764

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=1e-46  Score=326.88  Aligned_cols=199  Identities=24%  Similarity=0.265  Sum_probs=184.4

Q ss_pred             CCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHH
Q 024133           32 SLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF  109 (272)
Q Consensus        32 ~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~  109 (272)
                      ..+.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.+.+ +  .++.+||++|++++++++||..+|++.
T Consensus         4 ~~t~fsp~Grl~Qveya~~av~--~G~t~IgIk~~dgVvlaad~r~~~~-l--~~~~~KI~~I~~~i~~~~sG~~~D~~~   78 (211)
T cd03749           4 DVTTWSPQGRLFQVEYAMEAVK--QGSATVGLKSKTHAVLVALKRATSE-L--SSYQKKIFKVDDHIGIAIAGLTADARV   78 (211)
T ss_pred             CCceECCCCeEeHHHHHHHHHh--cCCCEEEEEeCCEEEEEEeccCccc-c--CCccccEEEeCCCEEEEEEeChHhHHH
Confidence            34445 799999999 999998  9999999999999999999998764 3  456799999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhc----cCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEcc
Q 024133          110 WHRNLGIKCRLHELANKRRISVTGASKLLANILYSY----RGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGS  185 (272)
Q Consensus       110 l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~----R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~  185 (272)
                      +.++++.+++.|+++++++++++.+++.+++++|.+    +..|++|++||+|||++||+||++||+|++.+++++|+|+
T Consensus        79 l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~gp~Ly~~Dp~G~~~~~~~~a~G~  158 (211)
T cd03749          79 LSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGA  158 (211)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCCCeEEEECCCcCEeeeeEEEECC
Confidence            999999999999999999999999999999988763    2337889999999998899999999999999999999999


Q ss_pred             ChhHHHHHHHccCC--CCCCHHHHHHHHHHHHHHHHhhcc-cCCCcEEEEEEc
Q 024133          186 GSPYAYGVLDSGYK--FDMSIEEAAELARRAIYHATFRDA-ASGGVASVYYVG  235 (272)
Q Consensus       186 gs~~a~~~Le~~~~--~~ms~eeai~l~~~al~~a~~rd~-~sg~~v~v~ii~  235 (272)
                      |+.+++++||++|+  ++||.+||+++++++|+.++.+|. .++.+|+|++++
T Consensus       159 g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         159 RSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             CcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            99999999999999  599999999999999999999887 899999999984

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

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=2e-46  Score=325.00  Aligned_cols=202  Identities=28%  Similarity=0.407  Sum_probs=189.0

Q ss_pred             CCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhH
Q 024133           30 SFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADC  107 (272)
Q Consensus        30 ~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~  107 (272)
                      .+++..| ||||++|+| |.+|++  +|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++++++++||..+|+
T Consensus         3 ~~~~~~fsp~G~l~Q~eya~~av~--~G~t~igik~~dgvvla~d~~~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   79 (211)
T cd03756           3 DRAITVFSPDGRLYQVEYAREAVK--RGTTALGIKCKEGVVLAVDKRIT-SKLVEPESIEKIYKIDDHVGAATSGLVADA   79 (211)
T ss_pred             CCCCceECCCCeEhHHHHHHHHHH--cCCCEEEEEECCEEEEEEeccCC-CcccCCCccceEEEEcCCEEEEEecCHHHH
Confidence            3445555 799999999 999998  99999999999999999999998 577778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEE
Q 024133          108 QFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSV  183 (272)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~Ai  183 (272)
                      +.+.+.++.+++.|++.++++++++.+++++++++|.++    ..|+++++||+|||++||+||++||+|++.+++++|+
T Consensus        80 ~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~~~ly~vd~~G~~~~~~~~a~  159 (211)
T cd03756          80 RVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAI  159 (211)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCCCCEEEEECCCCCeeeeEEEEE
Confidence            999999999999999999999999999999999998762    2478899999999998999999999999999999999


Q ss_pred             ccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEc
Q 024133          184 GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG  235 (272)
Q Consensus       184 G~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~  235 (272)
                      |+|+..++++||+.|+++|+.+||++++++||..+.++|. ++.+++|++++
T Consensus       160 G~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~~~~~~-~~~~~~v~ii~  210 (211)
T cd03756         160 GSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAALEENE-TPENVEIAYVT  210 (211)
T ss_pred             CCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEe
Confidence            9999999999999999999999999999999999988775 99999999986

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=3.4e-46  Score=322.62  Aligned_cols=198  Identities=20%  Similarity=0.313  Sum_probs=183.7

Q ss_pred             CCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHH
Q 024133           31 FSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQ  108 (272)
Q Consensus        31 ~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~  108 (272)
                      +..+.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.+. .++.+++.+||++|++++++++||..+|++
T Consensus         3 ~~~~~fsp~Gr~~Qveya~~av~--~G~t~Igik~~dgVvlaad~~~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (207)
T cd03755           3 RAITVFSPDGHLFQVEYAQEAVR--KGTTAVGVRGKDCVVLGVEKKSVA-KLQDPRTVRKICMLDDHVCLAFAGLTADAR   79 (207)
T ss_pred             CCCceECCCCeEeHHHHHHHHHH--cCCCEEEEEeCCEEEEEEecCCCC-cccCCCccCcEEEECCCEEEEEecchhhHH
Confidence            344555 799999999 999998  999999999999999999999875 677778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEE
Q 024133          109 FWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSV  183 (272)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~Ai  183 (272)
                      .+.++++.+++.|++.++++++++.+++++++++|.+.    ..|+++++||+|||+ +||+||++||+|++.+++++|+
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~a~  159 (207)
T cd03755          80 VLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAI  159 (207)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCcCEEcceEEEE
Confidence            99999999999999999999999999999999997662    347889999999996 5899999999999999999999


Q ss_pred             ccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEE
Q 024133          184 GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       184 G~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      |+|+.+++++||++|+++||.+||++++++||..+.+   .++.+++|+++
T Consensus       160 G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~---~~~~~~e~~~~  207 (207)
T cd03755         160 GRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVVQ---SGSKNIELAVM  207 (207)
T ss_pred             CCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhC---CCCCeEEEEEC
Confidence            9999999999999999999999999999999999986   68889999874

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

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=6.8e-46  Score=322.08  Aligned_cols=200  Identities=25%  Similarity=0.341  Sum_probs=186.1

Q ss_pred             CCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHH
Q 024133           31 FSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQ  108 (272)
Q Consensus        31 ~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~  108 (272)
                      ++.+.| ||||++|+| |++|++  +|+|+|||+++||||||+|+|.+. .++..++.+||++|++++++++||..+|++
T Consensus         3 ~~~~~f~p~G~~~Q~eya~~a~~--~G~t~igik~~dgVvlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (213)
T cd03753           3 RGVNTFSPEGRLFQVEYAIEAIK--LGSTAIGIKTKEGVVLAVEKRITS-PLMEPSSVEKIMEIDDHIGCAMSGLIADAR   79 (213)
T ss_pred             CCCccCCCCCeEhHHHHHHHHHh--cCCCEEEEEeCCEEEEEEecccCC-cCcCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            445555 799999999 999998  999999999999999999999985 667778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc---------CCcceeEEEEEEEcCCCCeeEEEeCCCceeecC
Q 024133          109 FWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR---------GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGT  179 (272)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R---------~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~  179 (272)
                      .+.+.++.+++.|++.++++++++.+++++++++|.+.         ..|+++++||+|||++||+||.+||+|++.+++
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~gp~Ly~vd~~G~~~~~~  159 (213)
T cd03753          80 TLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCD  159 (213)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCCCCEEEEECCCCCeeccc
Confidence            99999999999999999999999999999999998752         247889999999999899999999999999999


Q ss_pred             ceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEE
Q 024133          180 RFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       180 ~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      ++|+|+++.+++++|++.|+++||.+||++++++||+.+.+++ .++.+++|+++
T Consensus       160 ~~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~-~~~~~~ei~~~  213 (213)
T cd03753         160 AKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEK-LNSTNVELATV  213 (213)
T ss_pred             EEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEC
Confidence            9999999999999999999999999999999999999987754 78889999874

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

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=9.5e-46  Score=317.09  Aligned_cols=188  Identities=27%  Similarity=0.295  Sum_probs=179.8

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      +|+|+|||+++||||||+|+|.+++.++.+++++|||+|++|+++++||..+|++.+.++++.+++.|+++++++++++.
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            79999999999999999999999877777788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecC-ceEEccChhHHHHHHHccCCCCCCHHHHHHHH
Q 024133          134 ASKLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGT-RFSVGSGSPYAYGVLDSGYKFDMSIEEAAELA  211 (272)
Q Consensus       134 la~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~-~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~  211 (272)
                      +|++|++++|.+|..|+++++||+|||+ .||+||++||+|++..+. +.|+|+|+.+++++||+.|+++||.+||++++
T Consensus        82 la~~l~~~ly~~r~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~  161 (195)
T cd03759          82 FSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETI  161 (195)
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHH
Confidence            9999999999988889999999999996 469999999999998888 67999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcccCCCcEEEEEEcCCCeEE
Q 024133          212 RRAIYHATFRDAASGGVASVYYVGPNGWKK  241 (272)
Q Consensus       212 ~~al~~a~~rd~~sg~~v~v~ii~kdg~~~  241 (272)
                      ++||+.+.+||..++++++|++|+++|+++
T Consensus       162 ~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~  191 (195)
T cd03759         162 SQALLSAVDRDALSGWGAVVYIITKDKVTT  191 (195)
T ss_pred             HHHHHHHHhhCcccCCceEEEEEcCCcEEE
Confidence            999999999999999999999999999854

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=2.5e-45  Score=319.82  Aligned_cols=204  Identities=27%  Similarity=0.400  Sum_probs=190.4

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      +|+|+|||+++||||||+|+|.++|.++.+++.+|||+|++|++|++||..+|++.+.++++.+++.|++.++++++++.
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            59999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccC---CcceeEEEEEEEcC--CCCeeEEEeCCCc-eeecCceEEccChhHHHHHHHccCCCCCCHHHH
Q 024133          134 ASKLLANILYSYRG---MGLSVGTMIAGWDE--TGPGLYYVDSEGG-RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEA  207 (272)
Q Consensus       134 la~~ls~~l~~~R~---~p~~v~~iiaG~D~--~gp~Ly~iDp~G~-~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eea  207 (272)
                      ++++|++++|.++.   .|+++++||+|||+  ++|+||++||+|+ +..++++|+|+|+.+++++||+.|+++||.+||
T Consensus        81 la~~ls~~~~~~~~~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eea  160 (219)
T TIGR03690        81 KANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDA  160 (219)
T ss_pred             HHHHHHHHHHhhhhhccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHHH
Confidence            99999999987532   36889999999995  4699999999995 666688999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcccCCCc-------EEEEEEcCCCeEEcCcchHHHHHHhhCCC
Q 024133          208 AELARRAIYHATFRDAASGGV-------ASVYYVGPNGWKKLSGDDVGELHYHYYPV  257 (272)
Q Consensus       208 i~l~~~al~~a~~rd~~sg~~-------v~v~ii~kdg~~~l~~~ei~~~~~~~~~~  257 (272)
                      ++++++||..+.+||..+++.       ++|++++++||++++++||++++.++...
T Consensus       161 i~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~g~~~l~~~ei~~~~~~~~~~  217 (219)
T TIGR03690       161 LRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITADGARRVPESELEELARAIVES  217 (219)
T ss_pred             HHHHHHHHHHHHhcccccCCcccccccccEEEEEccCceEEcCHHHHHHHHHHHHhc
Confidence            999999999999999887774       39999999999999999999999887654

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.

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=1.2e-45  Score=321.05  Aligned_cols=200  Identities=22%  Similarity=0.208  Sum_probs=182.3

Q ss_pred             CCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHH
Q 024133           32 SLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF  109 (272)
Q Consensus        32 ~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~  109 (272)
                      ++..| ||||+||+| |++|++ .+|+|+|||+++||||||+|+|.+. .++..++.+|||+|+++++|++||+.+|++.
T Consensus         5 ~~~~fsp~Grl~Qveya~~a~~-~~g~t~igi~~~d~Vvlaad~r~~~-~~i~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   82 (215)
T cd03754           5 HITIFSPEGRLYQVEYAFKAVK-NAGLTSVAVRGKDCAVVVTQKKVPD-KLIDPSTVTHLFRITDEIGCVMTGMIADSRS   82 (215)
T ss_pred             CCeeECCCCeEeHHHhHHHHHh-cCCccEEEEEeCCEEEEEEeccccc-cccCCcccCceEEEcCCEEEEEEechhhHHH
Confidence            33444 799999999 999997 3588999999999999999999986 5666668999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhc--cC--CcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEc
Q 024133          110 WHRNLGIKCRLHELANKRRISVTGASKLLANILYSY--RG--MGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVG  184 (272)
Q Consensus       110 l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~--R~--~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG  184 (272)
                      +.+++|.+++.|+++++++|+++.+|+++++++|.+  |.  .|+++++||+|||+ +||+||++||+|++.+++++|+|
T Consensus        83 l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~~~~a~G  162 (215)
T cd03754          83 QVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAG  162 (215)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCccEEeEEEEEEC
Confidence            999999999999999999999999999999986554  32  27889999999995 68999999999999999999999


Q ss_pred             cChhHHHHHHHccCCCC--C--CHHHHHHHHHHHHHHHHhhcccCCCcEEEEEE
Q 024133          185 SGSPYAYGVLDSGYKFD--M--SIEEAAELARRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       185 ~gs~~a~~~Le~~~~~~--m--s~eeai~l~~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      +|+..++++||+.|+++  |  |.|||++++++||..+.+||. ++.+++|.++
T Consensus       163 ~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~-~~~~~ei~~~  215 (215)
T cd03754         163 VKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDF-KATEIEVGVV  215 (215)
T ss_pred             CCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEC
Confidence            99999999999999995  7  999999999999999999995 4889999875

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

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=1.8e-45  Score=318.54  Aligned_cols=200  Identities=26%  Similarity=0.341  Sum_probs=186.7

Q ss_pred             CCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHH
Q 024133           31 FSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQ  108 (272)
Q Consensus        31 ~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~  108 (272)
                      +.+..| ||||++|+| |+++++  +|+|+|||+++||||||+|+|.+. .++..++.+||++|++++++++||..+|++
T Consensus         3 ~~~~~f~~~G~~~q~eya~~~~~--~G~tvigi~~~dgVvlaaD~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   79 (209)
T cd01911           3 RSITTFSPEGRLFQVEYALEAVK--NGSTAVGIKGKDGVVLAVEKKVTS-KLLDPSSVEKIFKIDDHIGCAVAGLTADAR   79 (209)
T ss_pred             CCCccCCCCCEEeHHHHHHHHHH--cCCCEEEEEECCEEEEEEEecCCc-cccCCcccceEEEecCCeEEEeccCcHhHH
Confidence            445556 799999999 999998  999999999999999999999996 566778999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcCC-CCeeEEEeCCCceeecCceEE
Q 024133          109 FWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTRFSV  183 (272)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~~Ai  183 (272)
                      .+.+.++..++.|++.++++++++.+|++++++++.+.    ..|+.+++||+|||++ ||+||.+||.|++.+++++++
T Consensus        80 ~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~a~  159 (209)
T cd01911          80 VLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAI  159 (209)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCCCeeeeeEEEe
Confidence            99999999999999999999999999999999997552    2378899999999975 899999999999999999999


Q ss_pred             ccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEE
Q 024133          184 GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       184 G~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      |+|+.+++++|++.|+++||.+||++++++||..+..||. ++..++|+++
T Consensus       160 G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~-~~~~~~i~i~  209 (209)
T cd01911         160 GKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDK-KAKNIEIAVV  209 (209)
T ss_pred             CCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHhccC-CCCcEEEEEC
Confidence            9999999999999999999999999999999999999998 9999999874

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.

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=5.4e-45  Score=311.97  Aligned_cols=187  Identities=27%  Similarity=0.331  Sum_probs=179.5

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      +|+|||+++||||||+|+|.++|.++.+++++|||+|++++++++||..+|++.+.++++.+++.|++.++++++++.++
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            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc-cC-CcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHH
Q 024133          136 KLLANILYSY-RG-MGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELAR  212 (272)
Q Consensus       136 ~~ls~~l~~~-R~-~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~  212 (272)
                      +++++++|.+ |. .|+++++||+|||+ .||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.|||++++.
T Consensus        82 ~~l~~~~~~~~~~~rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~  161 (193)
T cd03758          82 NFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMK  161 (193)
T ss_pred             HHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHHHH
Confidence            9999999765 32 48999999999996 689999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcccCCCcEEEEEEcCCCeEEc
Q 024133          213 RAIYHATFRDAASGGVASVYYVGPNGWKKL  242 (272)
Q Consensus       213 ~al~~a~~rd~~sg~~v~v~ii~kdg~~~l  242 (272)
                      +|+..+.+||..++++++|++|+++|++++
T Consensus       162 ~a~~~~~~rd~~~~~~i~i~ii~~~g~~~~  191 (193)
T cd03758         162 KCIKELKKRFIINLPNFTVKVVDKDGIRDL  191 (193)
T ss_pred             HHHHHHHHhccccCCceEEEEEcCCCeEeC
Confidence            999999999999999999999999999864

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=7.8e-45  Score=308.64  Aligned_cols=185  Identities=44%  Similarity=0.626  Sum_probs=180.9

Q ss_pred             CceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        55 Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      |+|+|||+++||||||+|+|.+.|.++.+++++|||+|+++++++++|..+|++.+.++++.+++.|++.++++++++.+
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             HHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          135 SKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       135 a~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      ++++++++|.+|..|+.+++||+|||++||+||++||+|++.++++.|+|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 a~~l~~~~~~~~~rP~~v~~ivaG~d~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~  160 (185)
T TIGR03634        81 ATLLSNILNSNRFFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRA  160 (185)
T ss_pred             HHHHHHHHHhcCCCCeEEEEEEEEEeCCCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            99999999998777899999999999989999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCe
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGW  239 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~  239 (272)
                      |..+.+||..++++++|++++++|+
T Consensus       161 l~~~~~r~~~~~~~~~v~ii~~~g~  185 (185)
T TIGR03634       161 IKSAIERDVASGNGIDVAVITKDGV  185 (185)
T ss_pred             HHHHHHhcccCCCCEEEEEEcCCCC
Confidence            9999999999999999999999985

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

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=5.9e-45  Score=316.05  Aligned_cols=188  Identities=27%  Similarity=0.306  Sum_probs=181.5

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      +|+|+|||+++||||||+|+|.++|.++.+++.+||++|++++++++||..+|++.+.++++.+++.|++.++++++++.
T Consensus         7 ~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~~~   86 (212)
T cd03757           7 NGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEA   86 (212)
T ss_pred             CCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCHHH
Confidence            89999999999999999999999998888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCcceeEEEEEEEcCC-CCeeEEEeCCCceeecCceEEccChhHHHHHHHccCC---------CCCC
Q 024133          134 ASKLLANILYSYRGMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK---------FDMS  203 (272)
Q Consensus       134 la~~ls~~l~~~R~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~---------~~ms  203 (272)
                      +++++++++|.+|.+|+++++||||||++ +|+||++||+|++.+++++|+|+|+.+++++||+.|+         ++||
T Consensus        87 la~~ls~~ly~~R~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~~~~ms  166 (212)
T cd03757          87 IAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLS  166 (212)
T ss_pred             HHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcCCCCCCC
Confidence            99999999999887789999999999964 5999999999999999999999999999999999985         8999


Q ss_pred             HHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEE
Q 024133          204 IEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKK  241 (272)
Q Consensus       204 ~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~  241 (272)
                      .+||++++++||+.+.+||..++++++|++|+++|++.
T Consensus       167 ~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g~~~  204 (212)
T cd03757         167 LEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGIEE  204 (212)
T ss_pred             HHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCCEEE
Confidence            99999999999999999999999999999999999865

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

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=1.5e-44  Score=307.81  Aligned_cols=188  Identities=45%  Similarity=0.633  Sum_probs=183.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++++|.+|.+|+.+++||||||+++|+||.+||+|++.++++.|+|+|+.+++++|++.|+++||.+||++++++||
T Consensus        81 ~~i~~~~~~~~~~P~~~~~lvaG~d~~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~~~~l  160 (188)
T cd03764          81 TLLSNILNSSKYFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAI  160 (188)
T ss_pred             HHHHHHHHhcCCCCcEEEEEEEEEeCCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence            99999999998889999999999998889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCCeEEcC
Q 024133          216 YHATFRDAASGGVASVYYVGPNGWKKLS  243 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg~~~l~  243 (272)
                      +.+.+||..++++++|++++++|+++++
T Consensus       161 ~~~~~rd~~~~~~i~i~iv~~~g~~~~~  188 (188)
T cd03764         161 KSAIERDSASGDGIDVVVITKDGYKELE  188 (188)
T ss_pred             HHHHhhcCCCCCcEEEEEECCCCeEeCC
Confidence            9999999999999999999999998763

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.

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=1.4e-44  Score=310.31  Aligned_cols=190  Identities=26%  Similarity=0.322  Sum_probs=180.7

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHH-HHHHhhCCcCCHh
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCR-LHELANKRRISVT  132 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~-~~~~~~~~~i~v~  132 (272)
                      .|+|+|||+++||||||+|+|.++|.++.+++++|||+|+++++++++|..+|++.+.++++.+++ .|++.++++++++
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            589999999999999999999998899999999999999999999999999999999999999987 5778899999999


Q ss_pred             HHHHHHHHHHHhcc--CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCC--CCCHHHH
Q 024133          133 GASKLLANILYSYR--GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKF--DMSIEEA  207 (272)
Q Consensus       133 ~la~~ls~~l~~~R--~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~--~ms~eea  207 (272)
                      .+++++++++|.+|  ..||++++||||||+ +||+||++||+|++.++++.|+|+|+.+++++||+.|++  +||.+||
T Consensus        81 ~la~~i~~~~y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea  160 (197)
T cd03760          81 EIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEA  160 (197)
T ss_pred             HHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHH
Confidence            99999999998876  358899999999996 689999999999999999999999999999999999999  9999999


Q ss_pred             HHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcC
Q 024133          208 AELARRAIYHATFRDAASGGVASVYYVGPNGWKKLS  243 (272)
Q Consensus       208 i~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~  243 (272)
                      ++++++||..+.+||..++++++|++|+++|+++-.
T Consensus       161 ~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~~  196 (197)
T cd03760         161 RALIEECMKVLYYRDARSINKYQIAVVTKEGVEIEG  196 (197)
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEEECCCCEEeCC
Confidence            999999999999999999999999999999987654

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

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=1.9e-44  Score=307.51  Aligned_cols=188  Identities=33%  Similarity=0.466  Sum_probs=182.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++++|||+|+++++++++|..+|++.+.+.++.+++.|+++++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++.+|.++. |+++++||||||++||+||.+||+|++.++++.|+|+|+.+++++|+++|+++||.+||++++++||
T Consensus        81 ~~l~~~l~~~~~-p~~v~~ivaG~d~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l~~~~l  159 (189)
T cd03763          81 TMLKQHLFRYQG-HIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAI  159 (189)
T ss_pred             HHHHHHHHHcCC-ccceeEEEEeEcCCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Confidence            999999998865 7889999999998899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCCeEEcCc
Q 024133          216 YHATFRDAASGGVASVYYVGPNGWKKLSG  244 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg~~~l~~  244 (272)
                      +.+.+||..++++++|++|+++|++...|
T Consensus       160 ~~~~~rd~~~~~~~~v~ii~~~g~~~~~~  188 (189)
T cd03763         160 EAGIFNDLGSGSNVDLCVITKDGVEYLRN  188 (189)
T ss_pred             HHHHHhcCcCCCceEEEEEcCCcEEEecC
Confidence            99999999999999999999999987755

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=1.5e-43  Score=301.50  Aligned_cols=185  Identities=31%  Similarity=0.514  Sum_probs=178.5

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      +|+|||+++||||||+|+|.++|.++.+++++||++|++++++++||..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +++++++|.+|. |+++++||||||+ +||+||++||+|++.++++.++|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 ~~l~~~~~~~~~-~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~a  159 (188)
T cd03762          81 SLFKNLCYNYKE-MLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNA  159 (188)
T ss_pred             HHHHHHHHhccc-cceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            999999999874 4889999999996 78999999999999999888889999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCeEE
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGWKK  241 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~~~  241 (272)
                      |+.+.+||+.++++++|++|+++|+++
T Consensus       160 l~~~~~rd~~~~~~~~i~~i~~~g~~~  186 (188)
T cd03762         160 LSLAMSRDGSSGGVIRLVIITKDGVER  186 (188)
T ss_pred             HHHHHHhccccCCCEEEEEECCCCEEE
Confidence            999999999999999999999999975

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=2.5e-42  Score=293.83  Aligned_cols=187  Identities=46%  Similarity=0.660  Sum_probs=181.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+|||+|++++++++||..+|++.+.++++.+++.|++.++++++++.++
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-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +++++++|.+|..|+.+++||||||+ ++|+||.+||+|++.+++++|+|+++.+++++|++.|+++||.+||++++.+|
T Consensus        81 ~~l~~~~~~~~~~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~~~~~  160 (189)
T cd01912          81 NLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKA  160 (189)
T ss_pred             HHHHHHHHhcCCCCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHH
Confidence            99999999998888999999999997 68999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCeEEc
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGWKKL  242 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~~~l  242 (272)
                      |..+.+||..++++++|++++++|++..
T Consensus       161 l~~~~~~d~~~~~~~~v~vi~~~g~~~~  188 (189)
T cd01912         161 IDSAIERDLSSGGGVDVAVITKDGVEEL  188 (189)
T ss_pred             HHHHHHhcCccCCcEEEEEECCCCEEEc
Confidence            9999999999999999999999998754

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.

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

Probab=100.00  E-value=1.8e-43  Score=291.44  Aligned_cols=222  Identities=21%  Similarity=0.284  Sum_probs=209.1

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .++|+++.| |+|+|.|+| |+.||+  +|.+.|||+-.||||||++++..+ .+....++.||++|.++|+|.+||+.+
T Consensus         5 ~y~fslTtFSpsGKL~QieyAL~Av~--~G~~SvGi~A~nGvVlatekk~~s-~L~~~~sv~KV~~i~~~IG~vYSGmgp   81 (233)
T KOG0181|consen    5 GYSFSLTTFSPSGKLVQIEYALTAVV--NGQTSVGIKAANGVVLATEKKDVS-PLVDEESVRKVEKITPHIGCVYSGMGP   81 (233)
T ss_pred             ccceeeEEEcCCCceehHHHHHHHHh--CCCCceeeeecCceEEEeccCCCC-ccchhhhhhhHhhccCCcceEEecCCC
Confidence            578999888 699999999 999998  999999999999999999998775 888899999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCC----cceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGM----GLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~----p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.+++..|+.++.|...|++++|+..+.+.++.++|+|+..    |+++++++||||+++|.||.+||+|+++.|++.
T Consensus        82 D~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~~p~LyQvdPSGsyf~wkat  161 (233)
T KOG0181|consen   82 DYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEGGPLLYQVDPSGSYFAWKAT  161 (233)
T ss_pred             ceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCCceeEEEECCccceeehhhh
Confidence            9999999999999999999999999999999999999998321    456999999999999999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHh
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYH  253 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~  253 (272)
                      |+|.+...++.+||++|+++|.+++++..++..|++..+- ..+.++++|.++..++|++++++||++++..
T Consensus       162 A~Gkn~v~aktFlEkR~~edleldd~ihtailtlkE~feg-e~~~~nieigv~~~~~F~~lt~~eI~d~l~~  232 (233)
T KOG0181|consen  162 AMGKNYVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEG-EMTAKNIEIGVCGENGFRRLTPAEIEDYLAS  232 (233)
T ss_pred             hhccCcchHHHHHHHHhccccccchHHHHHHHHHHHHhcc-ccccCceEEEEecCCceeecCHHHHHHHHhc
Confidence            9999999999999999999999999999999999998874 4688899999999999999999999999864

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=4.7e-42  Score=301.20  Aligned_cols=197  Identities=20%  Similarity=0.253  Sum_probs=176.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEec----CcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCC-cCC
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEIN----PYMLGTMAGGAADCQFWHRNLGIKCRLHELANKR-RIS  130 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~----~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~-~i~  130 (272)
                      |.+|||+++||||||+|+|.+.+ ++..++.+||++|+    +||+|++||..+|++.+++++|.+++.|++++++ +++
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            56899999999999999999875 44445799999998    8999999999999999999999999999999999 799


Q ss_pred             HhHHHHHHHHHHHhc----c------CCcceeEEEEEEEc-CCCCeeEEEeCCCceeecCc----eEEccChhHHHHHHH
Q 024133          131 VTGASKLLANILYSY----R------GMGLSVGTMIAGWD-ETGPGLYYVDSEGGRLKGTR----FSVGSGSPYAYGVLD  195 (272)
Q Consensus       131 v~~la~~ls~~l~~~----R------~~p~~v~~iiaG~D-~~gp~Ly~iDp~G~~~~~~~----~AiG~gs~~a~~~Le  195 (272)
                      ++.+|++++++++..    .      ..|++|++||+||| +.||+||++||+|++.++++    +|+|. +.+++++||
T Consensus        80 v~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Le  158 (236)
T cd03765          80 MFDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILD  158 (236)
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHH
Confidence            999999999987651    2      34678999999999 57899999999999999954    79996 699999999


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEE-----cCcch--HHHHHHhh
Q 024133          196 SGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKK-----LSGDD--VGELHYHY  254 (272)
Q Consensus       196 ~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~-----l~~~e--i~~~~~~~  254 (272)
                      ++|+++||+|||++++++||..++.||..++++|+|++|+++|++.     ++.+|  ..++-+.|
T Consensus       159 k~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~G~~~~~~~~~~~~~~~~~~~~~~~  224 (236)
T cd03765         159 RVITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERDSLQVGHYRRIEEDDPYFAMIRKAW  224 (236)
T ss_pred             HhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECCCeeeeeeEEecCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999865     66666  55555555

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=5.1e-42  Score=300.29  Aligned_cols=196  Identities=15%  Similarity=0.232  Sum_probs=178.8

Q ss_pred             HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhh
Q 024133           46 TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELAN  125 (272)
Q Consensus        46 a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~  125 (272)
                      |++|++  +|+|+|||+++||||||+|++.        ++.+|||+|+|||+|+++|+.+|++.++++++.+++.|++.+
T Consensus        20 A~kav~--~g~T~VGIk~kdgVVLaaek~~--------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~~~   89 (228)
T TIGR03691        20 ARKGIA--RGRSVVVLTYADGILFVAENPS--------RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMRGYSY   89 (228)
T ss_pred             HHHHHH--cCCcEEEEEeCCeEEEEEecCC--------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhhhc
Confidence            999998  8999999999999999999972        468999999999999999999999999999999999999999


Q ss_pred             C-CcCCHhHHHHHHHHHHHhc---cCCcceeEEEEEEEcC--CCCeeEEEeCCCceeecC-ceEEccChhHHHHHHHccC
Q 024133          126 K-RRISVTGASKLLANILYSY---RGMGLSVGTMIAGWDE--TGPGLYYVDSEGGRLKGT-RFSVGSGSPYAYGVLDSGY  198 (272)
Q Consensus       126 ~-~~i~v~~la~~ls~~l~~~---R~~p~~v~~iiaG~D~--~gp~Ly~iDp~G~~~~~~-~~AiG~gs~~a~~~Le~~~  198 (272)
                      + .+++++.+|+++++.++.+   |..||+|++|++|||+  +||+||++||+|++.+++ ++|+|+|+..++++||++|
T Consensus        90 ~~~~~~v~~la~~~tq~~~~~~~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~Lek~y  169 (228)
T TIGR03691        90 DRRDVTGRGLANAYAQTLGTIFTEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESY  169 (228)
T ss_pred             CCCCccHHHHHHHHHhhcccccccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChHHHHHHHHHhc
Confidence            8 6899999999888877642   2345679999999984  689999999999999976 6999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHH--hhcccCCCcEEEEEEcCCC----eEEcCcchHHHHH
Q 024133          199 KFDMSIEEAAELARRAIYHAT--FRDAASGGVASVYYVGPNG----WKKLSGDDVGELH  251 (272)
Q Consensus       199 ~~~ms~eeai~l~~~al~~a~--~rd~~sg~~v~v~ii~kdg----~~~l~~~ei~~~~  251 (272)
                      +++||.+||++++++||..+.  +||..++.+++|.++++++    |++++++||++++
T Consensus       170 ~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~~l~~~ei~~~l  228 (228)
T TIGR03691       170 RDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRITGEALERLL  228 (228)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceEECCHHHHHhhC
Confidence            999999999999999999995  4677899999999999754    9999999999874

Members of this family are the alpha subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In most Actinobacteria (an exception is Propionibacterium acnes), the proteasome is accompanied by a system of tagging proteins for degradation with Pup.

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

Probab=100.00  E-value=6.7e-43  Score=291.95  Aligned_cols=223  Identities=20%  Similarity=0.295  Sum_probs=205.0

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +...++.| |||+|||+| |++||+  +|+|+||++++++|||+.+++... .|...+...||..+++|+++++||+.+|
T Consensus         4 ydraltvFSPDGhL~QVEYAqEAvr--kGstaVgvrg~~~vvlgvEkkSv~-~Lq~~r~~rkI~~ld~hV~mafaGl~aD   80 (249)
T KOG0183|consen    4 YDRALTVFSPDGHLFQVEYAQEAVR--KGSTAVGVRGNNCVVLGVEKKSVP-KLQDERTVRKISMLDDHVVMAFAGLTAD   80 (249)
T ss_pred             cccceEEECCCCCEEeeHhHHHHHh--cCceEEEeccCceEEEEEeecchh-hhhhhhhhhhheeecceeeEEecCCCcc
Confidence            45566777 799999999 999999  999999999999999999998774 8889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCC-CeeEEEeCCCceeecCce
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETG-PGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~~~~  181 (272)
                      ++.+++++|-+|+.|++....+++++.++++|+.+.|.|+.    .|+++++||+|+|++| |.||.+||+|.+.+|++.
T Consensus        81 ArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePsG~f~ewka~  160 (249)
T KOG0183|consen   81 ARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPSGIFSEWKAN  160 (249)
T ss_pred             ceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCCcchhhhhcc
Confidence            99999999999999999999999999999999999998722    1455889999999876 999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCC--CCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC-eEEcCcchHHHHHHhhCCC
Q 024133          182 SVGSGSPYAYGVLDSGYKFD--MSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG-WKKLSGDDVGELHYHYYPV  257 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~--ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~~ei~~~~~~~~~~  257 (272)
                      |+|.++..+..+||++|.++  .+..++++|++++|.+...   ..+.++++.++++++ ++.++.++|+.+...++.+
T Consensus       161 aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvq---s~~~nie~aVm~~~~~~~~l~~~~I~~~v~~ie~E  236 (249)
T KOG0183|consen  161 AIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQ---SGGKNIEVAVMKRRKDLKMLESEEIDDIVKEIEQE  236 (249)
T ss_pred             ccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhh---cCCCeeEEEEEecCCceeecCHHHHHHHHHHHHHH
Confidence            99999999999999999876  7889999999999999875   456799999999987 9999999999999988854

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

Probab=100.00  E-value=7.3e-42  Score=285.06  Aligned_cols=223  Identities=21%  Similarity=0.259  Sum_probs=205.1

Q ss_pred             CCCCCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHH
Q 024133           34 PLSTDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR  112 (272)
Q Consensus        34 p~~~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~  112 (272)
                      -..|+||+|||| |++++.  +.+|+|||..+||||||++++.++..+-.+...+||++|||+|.|+.+|+.+|+..+++
T Consensus        11 iFspEGRLyQVEyAmeais--~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~DAnvL~n   88 (249)
T KOG0178|consen   11 IFSPEGRLYQVEYAMEAIS--HAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTSDANVLKN   88 (249)
T ss_pred             ccCCCcchHHHHHHHHHHh--hhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccccHHHHHH
Confidence            344799999999 999998  99999999999999999999999755556678999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCC----cceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccCh
Q 024133          113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGM----GLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGS  187 (272)
Q Consensus       113 ~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~----p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs  187 (272)
                      ++|..+|.|.++|+++||++.|++.++++.|.|+.+    |++||+|.+|||+ .|.+||..||+|++-.|++.++|.++
T Consensus        89 ~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gWka~ciG~N~  168 (249)
T KOG0178|consen   89 YARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGWKATCIGANS  168 (249)
T ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCccccceeeeccch
Confidence            999999999999999999999999999999988433    5669999999997 47999999999999999999999999


Q ss_pred             hHHHHHHHccCCCCC-CHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC----eEEcCcchHHHHHHhhCCCC
Q 024133          188 PYAYGVLDSGYKFDM-SIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG----WKKLSGDDVGELHYHYYPVT  258 (272)
Q Consensus       188 ~~a~~~Le~~~~~~m-s~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg----~~~l~~~ei~~~~~~~~~~~  258 (272)
                      ..++.+|.+.|+.+. +.+||..++++.|..+.+.+..+...+++..+++++    ++.+.++||.+++.++....
T Consensus       169 ~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k~v~~i~~~~ev~kll~k~~~~~  244 (249)
T KOG0178|consen  169 GAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNKTVLKILKKDEVLKLLEKYHETQ  244 (249)
T ss_pred             HHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCceEEEecCHHHHHHHHHHhhhhh
Confidence            999999999999875 599999999999999999888899999999999874    56799999999999998654

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

Probab=100.00  E-value=2.5e-41  Score=283.85  Aligned_cols=221  Identities=17%  Similarity=0.214  Sum_probs=200.6

Q ss_pred             CCCCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHH
Q 024133           35 LSTDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN  113 (272)
Q Consensus        35 ~~~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~  113 (272)
                      ..||||+||+| |.|||+  +|+|+||||||||||+++++.+++ +|..++...|||.|++||+|+++|+.+|.+.+..+
T Consensus        15 fSpdGrvfQveYA~KAve--n~~T~IGIk~kdGVVl~vEKli~S-kLy~p~sn~ri~~V~r~iG~avaGl~~Dg~~l~~~   91 (254)
T KOG0184|consen   15 FSPDGRVFQVEYAQKAVE--NSGTCIGIKCKDGVVLAVEKLITS-KLYEPGSNERIFSVDRHIGMAVAGLIPDGRHLVNR   91 (254)
T ss_pred             eCCCCceehHHHHHHHHh--cCCcEEEEecCCeEEEEEeeeecc-cccccCCCCceEeecccccEEEeccccchHHHHHH
Confidence            34799999999 999999  999999999999999999999996 88899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCC----cceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhH
Q 024133          114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGM----GLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPY  189 (272)
Q Consensus       114 l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~----p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~  189 (272)
                      +|.++..|+-.|+.++|...++..++++.|.++.+    |++++.++++||++||+||.++|+|..+.++++|+|.|.+.
T Consensus        92 ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~~g~~LymiepSG~~~~Y~~aaiGKgrq~  171 (254)
T KOG0184|consen   92 ARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDDEGPQLYMIEPSGSSYGYKGAAIGKGRQA  171 (254)
T ss_pred             HHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeCCCceEEEEcCCCCccceeeeeccchhHH
Confidence            99999999999999999999999999999876321    45588999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcC--CCeEEcCcchHHHHHHhhCCCC
Q 024133          190 AYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP--NGWKKLSGDDVGELHYHYYPVT  258 (272)
Q Consensus       190 a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~k--dg~~~l~~~ei~~~~~~~~~~~  258 (272)
                      +++-||+.--.+|+.+|+++.+.+.|+.+.+......-.+++.|+..  +|..+.-|.|+.+..++|+...
T Consensus       172 aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eTnG~h~~vp~el~~ea~~~a~~s  242 (254)
T KOG0184|consen  172 AKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEETNGLHEKVPSELLEEAEKYAKAS  242 (254)
T ss_pred             HHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEeecCCccccCcHHHHHHHHHHHHhh
Confidence            99999999888999999999999999998765444555688888765  5777777779999998888654

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

Probab=100.00  E-value=8.3e-40  Score=277.95  Aligned_cols=181  Identities=36%  Similarity=0.469  Sum_probs=167.9

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccc-cceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHh
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQS-VKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~-~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~  132 (272)
                      +|+|+|||+++||||||+|+|.++|+.+..++ .+|||+|++++++++||..+|++.+.++++.+++.|++.++++++++
T Consensus         3 ~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~   82 (190)
T PF00227_consen    3 NGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPISPE   82 (190)
T ss_dssp             TSBEEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTCHH
T ss_pred             CCeEEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCccccch
Confidence            99999999999999999999999888885555 79999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH----hccCCcceeEEEEEEEcCCC-CeeEEEeCCCceeec-CceEEccChhHHHHHHHccCCCCCCHHH
Q 024133          133 GASKLLANILY----SYRGMGLSVGTMIAGWDETG-PGLYYVDSEGGRLKG-TRFSVGSGSPYAYGVLDSGYKFDMSIEE  206 (272)
Q Consensus       133 ~la~~ls~~l~----~~R~~p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~-~~~AiG~gs~~a~~~Le~~~~~~ms~ee  206 (272)
                      .+++.+++.++    ..+..|+++++|++|||+++ |+||.+||+|++.++ +++|+|+|+.+++++|++.|+++||.+|
T Consensus        83 ~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~~e  162 (190)
T PF00227_consen   83 YLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLSLEE  162 (190)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSSHHH
T ss_pred             hhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhccCCCCHHH
Confidence            66666655554    34556889999999999766 999999999999999 6999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcccCCCcEEEEEE
Q 024133          207 AAELARRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       207 ai~l~~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      |++++++||+.+.++|..++++++|++|
T Consensus       163 a~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  163 AIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             HHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             HHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            9999999999999999999999999986

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

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=1.4e-39  Score=274.77  Aligned_cols=179  Identities=41%  Similarity=0.540  Sum_probs=173.0

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|..+.+++.+|||+|+++++++++|..+|++.+.++++.++..|++.++++++++.++
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            68999999999999999999998887789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccC--CcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHH
Q 024133          136 KLLANILYSYRG--MGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELAR  212 (272)
Q Consensus       136 ~~ls~~l~~~R~--~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~  212 (272)
                      +++++++|.+|.  .|+++++|++|||+ .+|+||.+||+|++.+++++|+|+|+.+++++|++.|+++||.+||+++++
T Consensus        81 ~~l~~~~~~~~~~~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l~~  160 (182)
T cd01906          81 KLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELAL  160 (182)
T ss_pred             HHHHHHHHHhCCCccChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHHHH
Confidence            999999999987  78999999999997 789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcccCCCcEEEEEE
Q 024133          213 RAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       213 ~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      +||..+.++|..++.+++|.++
T Consensus       161 ~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         161 KALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             HHHHHHHcccCCCCCCEEEEEC
Confidence            9999999999999999999875

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

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

Probab=100.00  E-value=6.5e-39  Score=270.62  Aligned_cols=222  Identities=24%  Similarity=0.262  Sum_probs=201.4

Q ss_pred             CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHH
Q 024133           37 TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG  115 (272)
Q Consensus        37 ~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~  115 (272)
                      |+||+||+| |++|+|  +|+++||+|.++..||++-+|..+   -.++.++|||+||+|++++++|+++|.+.+.++++
T Consensus        15 PqGrl~QvEya~Eavk--qGsatVGLks~thaVLvAl~r~~s---eLss~QkKi~~iD~h~g~siAGLt~Darvl~~Ylr   89 (264)
T KOG0863|consen   15 PQGRLHQVEYAMEAVK--QGSATVGLKSRTHAVLVALKRAQS---ELSSHQKKIFKIDDHIGISIAGLTADARVLSRYLR   89 (264)
T ss_pred             CcceehHHHHHHHHHh--cccceEeecccceEEEeeeccchh---HHHHhhheeEecccccceEEeccCcchHHHHHHHH
Confidence            689999999 999999  999999999999999999888765   33667899999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCcCCHhHHHHHHHHHHHhc----cCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHH
Q 024133          116 IKCRLHELANKRRISVTGASKLLANILYSY----RGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAY  191 (272)
Q Consensus       116 ~~~~~~~~~~~~~i~v~~la~~ls~~l~~~----R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~  191 (272)
                      .+|..+++.+++++++..|...|.+.+|..    -..||+|+++++|||+.||+||.+.|+|.++++++++||+.++.+.
T Consensus        90 ~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~G~hl~e~~Psg~v~e~~g~sIGsRSQsAR  169 (264)
T KOG0863|consen   90 QECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDESGPHLYEFCPSGNVFECKGMSIGSRSQSAR  169 (264)
T ss_pred             HHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCCCceeEEEcCCccEEEEeeeecccchhhHH
Confidence            999999999999999999999998888653    1125668999999999999999999999999999999999999999


Q ss_pred             HHHHccCC--CCCCHHHHHHHHHHHHHHHHhhc-ccCCCcEEEEEEcCC-CeEEcCcchHHHHHHhhCCCCCchhH
Q 024133          192 GVLDSGYK--FDMSIEEAAELARRAIYHATFRD-AASGGVASVYYVGPN-GWKKLSGDDVGELHYHYYPVTPSTVE  263 (272)
Q Consensus       192 ~~Le~~~~--~~ms~eeai~l~~~al~~a~~rd-~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~~~~~~~~~~  263 (272)
                      ++||++..  ++++.||.++.+++||+.+...| ..++.+++|+|+.+| .|..++.+++.+++......+++..+
T Consensus       170 TyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~~~d~~~~~k~~~~~~~~~~p~~~  245 (264)
T KOG0863|consen  170 TYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFTILDQKDVAKYVDLFKKVDEPRED  245 (264)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceEeecHHHHHHHHHHhhcCCCcccc
Confidence            99999887  48999999999999999998855 678899999999998 69999999999999888776644333

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

Probab=100.00  E-value=2e-38  Score=264.71  Aligned_cols=218  Identities=20%  Similarity=0.192  Sum_probs=202.1

Q ss_pred             CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHH
Q 024133           37 TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG  115 (272)
Q Consensus        37 ~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~  115 (272)
                      |+|||||+| |+||++ ..|-|.||+++||++|+++.++.+. +|+.++.+..+|+|+.+|+|+++|..+|.+..+.+++
T Consensus        18 peGrLyQVEYafkAin-~~gltsVavrgkDcavvvsqKkvpD-KLld~~tvt~~f~itk~ig~v~tG~~aDar~~v~rar   95 (246)
T KOG0182|consen   18 PEGRLYQVEYAFKAIN-QAGLTSVAVRGKDCAVVVTQKKVPD-KLLDSSTVTHLFRITKKIGCVITGMIADARSQVQRAR   95 (246)
T ss_pred             CCceEEeeehHHHHhh-cCCCceEEEcCCceEEEEecccCcc-cccccccceeEEEeeccceEEEecCCcchHHHHHHHH
Confidence            699999999 999998 4488999999999999999999995 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHH
Q 024133          116 IKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYA  190 (272)
Q Consensus       116 ~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a  190 (272)
                      .++..+++.||.+||++.||++++++.|.|..    .|++|.+++.|+|+ .||.+|.+||.|.+..+++.|.|.....+
T Consensus        96 ~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~vYk~DpAGyy~g~kAtaaG~Kq~e~  175 (246)
T KOG0182|consen   96 YEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSVYKTDPAGYYYGFKATAAGVKQQEA  175 (246)
T ss_pred             HHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcceEeecCccccccceeeecccchhhH
Confidence            99999999999999999999999999998732    15779999999996 58999999999999999999999999999


Q ss_pred             HHHHHccCCCC--CCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC--eEEcCcchHHHHHHhhCCC
Q 024133          191 YGVLDSGYKFD--MSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG--WKKLSGDDVGELHYHYYPV  257 (272)
Q Consensus       191 ~~~Le~~~~~~--ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg--~~~l~~~ei~~~~~~~~~~  257 (272)
                      ..+||++|+++  +|.+|++++++.||..++.-|..+ ..++|.+++++.  |+.|+.+||++.|..++..
T Consensus       176 tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~-se~EVgvv~~~~p~f~~Ls~~eie~hL~~IAEk  245 (246)
T KOG0182|consen  176 TSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFKS-SELEVGVVTVDNPEFRILSAEEIEEHLQAIAEK  245 (246)
T ss_pred             HHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccCC-cceEEEEEEcCCcceeeccHHHHHHHHHHhhhc
Confidence            99999999987  779999999999999999888644 579999999874  9999999999999988753

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

Probab=100.00  E-value=1.6e-38  Score=262.06  Aligned_cols=198  Identities=32%  Similarity=0.555  Sum_probs=183.9

Q ss_pred             CCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHh
Q 024133           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (272)
Q Consensus        53 ~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~  132 (272)
                      +.|||++|++|++||||++|+|.+.|.++.++-.+|+.+|.|+|+||.||.++|.|.+.+.++.....|...+++++++.
T Consensus        17 stGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v~   96 (224)
T KOG0174|consen   17 STGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPLVH   96 (224)
T ss_pred             ccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCchHH
Confidence            59999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEE-ccChhHHHHHHHccCCCCCCHHHHHHH
Q 024133          133 GASKLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIEEAAEL  210 (272)
Q Consensus       133 ~la~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~Ai-G~gs~~a~~~Le~~~~~~ms~eeai~l  210 (272)
                      ..|+.+++++|++|.. +.+++||+|||+ .|.++|.+---|+. ....+|| ||||.++++++|.+|+++||+||++++
T Consensus        97 ~aA~l~r~~~Y~~re~-L~AgliVAGwD~~~gGqVY~iplGG~l-~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE~~~f  174 (224)
T KOG0174|consen   97 TAASLFREICYNYREM-LSAGLIVAGWDEKEGGQVYSIPLGGSL-TRQPFAIGGSGSTFIYGFCDANWRPNMTLEECVRF  174 (224)
T ss_pred             HHHHHHHHHHHhCHHh-hhcceEEeecccccCceEEEeecCceE-eecceeeccCCceeeeeeehhhcCCCCCHHHHHHH
Confidence            9999999999999987 889999999997 57889998555555 4456666 999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEEEcCCCeE--EcCcchHHHHHH
Q 024133          211 ARRAIYHATFRDAASGGVASVYYVGPNGWK--KLSGDDVGELHY  252 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~ii~kdg~~--~l~~~ei~~~~~  252 (272)
                      .++++..|+.||..||+.|++.+|+++|+.  .+.++++..+..
T Consensus       175 vk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~~~~v  218 (224)
T KOG0174|consen  175 VKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLGQFAV  218 (224)
T ss_pred             HHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCccccccc
Confidence            999999999999999999999999999975  478888776543

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

Probab=100.00  E-value=2.9e-37  Score=257.37  Aligned_cols=188  Identities=27%  Similarity=0.311  Sum_probs=180.8

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      +|+|+|||++.|++|+|+|+|.+.|..|.++...|||+++|+++++.+|..+|+..+...++...+.|+..+++.|++..
T Consensus        28 NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~s  107 (235)
T KOG0179|consen   28 NGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSIHS  107 (235)
T ss_pred             CCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCcceeEEEEEEEcCCC-CeeEEEeCCCceeecCceEEccChhHHHHHHHccCC-----------CC
Q 024133          134 ASKLLANILYSYRGMGLSVGTMIAGWDETG-PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK-----------FD  201 (272)
Q Consensus       134 la~~ls~~l~~~R~~p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~-----------~~  201 (272)
                      +|++|+.+||.+|.|||++..+|+|+|++| +.+|..||.|++....+.|-|+++.+++++||+..+           ..
T Consensus       108 ~A~lls~~LY~kRFFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e~~~~~~  187 (235)
T KOG0179|consen  108 AAQLLSTILYSKRFFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLENAERTP  187 (235)
T ss_pred             HHHHHHHHHhhcccccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCcCcccccCcccc
Confidence            999999999999999999999999999866 889999999999999999999999999999998653           25


Q ss_pred             CCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEE
Q 024133          202 MSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKK  241 (272)
Q Consensus       202 ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~  241 (272)
                      ||+|+|++|++.++..|.+||..+|+.++|++++++|++.
T Consensus       188 Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~gV~~  227 (235)
T KOG0179|consen  188 LSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKDGVEV  227 (235)
T ss_pred             cCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecCCEEE
Confidence            8999999999999999999999999999999999999864

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

Probab=100.00  E-value=3.1e-37  Score=263.54  Aligned_cols=191  Identities=34%  Similarity=0.488  Sum_probs=183.0

Q ss_pred             HhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhC
Q 024133           47 KATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANK  126 (272)
Q Consensus        47 ~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~  126 (272)
                      -++.+  .|||++|+.+|||||+++|+|+|.|.++..++..||+.|.++|+||.+|.++|...+.+.+..+.++|++..+
T Consensus        31 p~~tk--TGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~  108 (271)
T KOG0173|consen   31 PKATK--TGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTG  108 (271)
T ss_pred             Ccccc--cCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccC
Confidence            34565  9999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcCCHhHHHHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHH
Q 024133          127 RRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEE  206 (272)
Q Consensus       127 ~~i~v~~la~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~ee  206 (272)
                      +.+.|-.+-+++.+.|+.|..+ .++.+|++|+|..||+||.+.|.|+.-..++.++|||+..++++||..|++||+.||
T Consensus       109 R~~rVv~A~~mlkQ~LFrYqG~-IgA~LiiGGvD~TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k~dlt~ee  187 (271)
T KOG0173|consen  109 RKPRVVTALRMLKQHLFRYQGH-IGAALILGGVDPTGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWKPDLTKEE  187 (271)
T ss_pred             CCCceeeHHHHHHHHHHHhcCc-ccceeEEccccCCCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcCcccCHHH
Confidence            9999999999999999999886 678899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeE
Q 024133          207 AAELARRAIYHATFRDAASGGVASVYYVGPNGWK  240 (272)
Q Consensus       207 ai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~  240 (272)
                      |.+|+.+|+...+..|..||++|++++|++.+..
T Consensus       188 a~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~~~  221 (271)
T KOG0173|consen  188 AIKLVCEAIAAGIFNDLGSGSNVDLCVITKKGVE  221 (271)
T ss_pred             HHHHHHHHHHhhhccccCCCCceeEEEEeCCCcc
Confidence            9999999999999999999999999999987754

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

Probab=100.00  E-value=1.6e-36  Score=249.45  Aligned_cols=189  Identities=25%  Similarity=0.311  Sum_probs=180.7

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      -+++||++.|+|++|+|+....+.++..++.+|++.|+++++++++|..+|+..+.+++.+.+++|++++|.+++++.+|
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            37899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc-c-CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHH
Q 024133          136 KLLANILYSY-R-GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELAR  212 (272)
Q Consensus       136 ~~ls~~l~~~-R-~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~  212 (272)
                      +++++.+..+ | ..||.|++|+||+|+ .||.||++|..|+..+.++++.|.++.++.++||++|+||||.+||+++..
T Consensus        82 hFtR~~La~~LRsr~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lmk  161 (200)
T KOG0177|consen   82 HFTRRELAESLRSRTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLMK  161 (200)
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHHH
Confidence            9999999865 5 458999999999996 579999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcccCCCcEEEEEEcCCCeEEcCc
Q 024133          213 RAIYHATFRDAASGGVASVYYVGPNGWKKLSG  244 (272)
Q Consensus       213 ~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~  244 (272)
                      +|+.++.+|-...-.++.|.+|+|||+++++.
T Consensus       162 KCv~El~kRlvin~~~f~v~IVdkdGir~~~~  193 (200)
T KOG0177|consen  162 KCVLELKKRLVINLPGFIVKIVDKDGIRKLDD  193 (200)
T ss_pred             HHHHHHHHhcccCCCCcEEEEEcCCCceeccc
Confidence            99999999999999999999999999998764

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=100.00  E-value=6.1e-34  Score=238.70  Aligned_cols=166  Identities=22%  Similarity=0.243  Sum_probs=146.6

Q ss_pred             CceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEe-cCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        55 Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      |||+|||+++||||||+|+|++.|.++.+++.+||++| +++++|++||..+|+|.|.+.++.+++.|+...     ++.
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~~~-----~~~   75 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQGNL-----LRA   75 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccCcc-----HHH
Confidence            79999999999999999999999999999999999999 999999999999999999999999999998322     466


Q ss_pred             HHHHHHHHHHhccC-CcceeEEEEEEEcCCCCeeEEEeCCCceeec--CceEEccChhHHHHHHHccCC-CCCCHHHHHH
Q 024133          134 ASKLLANILYSYRG-MGLSVGTMIAGWDETGPGLYYVDSEGGRLKG--TRFSVGSGSPYAYGVLDSGYK-FDMSIEEAAE  209 (272)
Q Consensus       134 la~~ls~~l~~~R~-~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~--~~~AiG~gs~~a~~~Le~~~~-~~ms~eeai~  209 (272)
                      +++.+..+. .++. .|+.+++|++  |.  |+||++||.|++.+.  +++|+|||+.+++++||++|+ ++|   ||++
T Consensus        76 ~a~l~~~l~-~~~~~~~l~~~~lv~--d~--~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---eA~~  147 (172)
T PRK05456         76 AVELAKDWR-TDRYLRRLEAMLIVA--DK--EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---SAEE  147 (172)
T ss_pred             HHHHHHHHH-hccCCCccEEEEEEE--cC--CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---CHHH
Confidence            666554442 2222 2466888884  43  799999999999877  799999999999999999999 999   9999


Q ss_pred             HHHHHHHHHHhhcccCCCcEEEEE
Q 024133          210 LARRAIYHATFRDAASGGVASVYY  233 (272)
Q Consensus       210 l~~~al~~a~~rd~~sg~~v~v~i  233 (272)
                      ++++|+..+.+||..|+++++|-.
T Consensus       148 la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        148 IAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             HHHHHHHHHHHhCeeCCCcEEEEE
Confidence            999999999999999999998854

>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=100.00  E-value=1.1e-33  Score=235.86  Aligned_cols=165  Identities=21%  Similarity=0.200  Sum_probs=146.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecC-cEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINP-YMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~-~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      ||+|||+++||||||+|+|++.|.++.+++.+||++|++ +++|++||..+|++.+.++++.+++.|+++.++     .+
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            699999999999999999999999999999999999998 999999999999999999999999999988774     44


Q ss_pred             HHHHHHHH-HhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecC--ceEEccChhHHHHHHHccCCCC-CCHHHHHHH
Q 024133          135 SKLLANIL-YSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGT--RFSVGSGSPYAYGVLDSGYKFD-MSIEEAAEL  210 (272)
Q Consensus       135 a~~ls~~l-~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~--~~AiG~gs~~a~~~Le~~~~~~-ms~eeai~l  210 (272)
                      ++.+++++ +.++++ +.+.+++++|    ++||.+||.|++.+.+  +.++|||+.+++++||.+|+++ ||   +.++
T Consensus        76 a~l~~~l~~~~~~~~-l~a~~iv~~~----~~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms---~~~l  147 (171)
T cd01913          76 VELAKDWRTDRYLRR-LEAMLIVADK----EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLS---AEEI  147 (171)
T ss_pred             HHHHHHHHhccCcCc-eEEEEEEeCC----CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC---HHHH
Confidence            55555553 455554 4566666644    4999999999999995  8899999999999999999995 99   5599


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEE
Q 024133          211 ARRAIYHATFRDAASGGVASVYY  233 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~i  233 (272)
                      ++++++.|.+||..||++|+|-.
T Consensus       148 a~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         148 ARKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             HHHHHHHHHhhCcccCCCEEEEe
Confidence            99999999999999999998754

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.

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

Probab=100.00  E-value=3.2e-33  Score=226.75  Aligned_cols=188  Identities=27%  Similarity=0.291  Sum_probs=178.8

Q ss_pred             CCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHh
Q 024133           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (272)
Q Consensus        53 ~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~  132 (272)
                      .+|+++||+++|+||.||+|.|...-....+.+.+|||+|.|+++++.+|++.|+|.+.++++....+|+++.++.|.++
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            48999999999999999999999876777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCcceeEEEEEEEcCC-CCeeEEEeCCCceeecCce-EEccChhHHHHHHHccCCCCCCHHHHHHH
Q 024133          133 GASKLLANILYSYRGMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTRF-SVGSGSPYAYGVLDSGYKFDMSIEEAAEL  210 (272)
Q Consensus       133 ~la~~ls~~l~~~R~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~~-AiG~gs~~a~~~Le~~~~~~ms~eeai~l  210 (272)
                      .+++++|+++|++|.-||.+..+|||+|++ .|++..+|..|.....+.| +.|.++...++++|..|+|||..|+..+.
T Consensus        86 ~~s~mvS~~lYekRfgpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~LFet  165 (204)
T KOG0180|consen   86 TFSSMVSSLLYEKRFGPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDELFET  165 (204)
T ss_pred             HHHHHHHHHHHHhhcCCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            999999999999999999999999999974 5999999999999777666 56999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEEEcCCCeE
Q 024133          211 ARRAIYHATFRDAASGGVASVYYVGPNGWK  240 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~ii~kdg~~  240 (272)
                      +.++|..+.+||+.||+...|++|+||.+.
T Consensus       166 isQa~Lna~DRDalSGwGa~vyiI~kdkv~  195 (204)
T KOG0180|consen  166 ISQALLNAVDRDALSGWGAVVYIITKDKVT  195 (204)
T ss_pred             HHHHHHhHhhhhhhccCCeEEEEEccchhh
Confidence            999999999999999999999999999764

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

Probab=100.00  E-value=1e-33  Score=239.74  Aligned_cols=200  Identities=27%  Similarity=0.338  Sum_probs=187.3

Q ss_pred             CCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHH-HhhCCcCCH
Q 024133           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE-LANKRRISV  131 (272)
Q Consensus        53 ~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~-~~~~~~i~v  131 (272)
                      .+||++||+||++|||||+|+..++|++...+++++|++|+|++++++||..+|+|.+.+.|.....+.. +..++.+.|
T Consensus        39 vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l~P  118 (256)
T KOG0185|consen   39 VTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQSLGP  118 (256)
T ss_pred             eccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHHHHHHHHHHHHHHhcccccccccccCh
Confidence            4999999999999999999999999999999999999999999999999999999999999988876633 556689999


Q ss_pred             hHHHHHHHHHHHhccCC--cceeEEEEEEEcCCC-CeeEEEeCCCceeecCceEEccChhHHHHHHHccCC---CCCCHH
Q 024133          132 TGASKLLANILYSYRGM--GLSVGTMIAGWDETG-PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK---FDMSIE  205 (272)
Q Consensus       132 ~~la~~ls~~l~~~R~~--p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~---~~ms~e  205 (272)
                      +.++++|+++||.+|..  |++..++|+|+|++| |+|-++|-.|..++.+..|+|.|.+.+.++|++.|+   ++++.+
T Consensus       119 k~ih~yltrvlY~rRsKmnPlwntlvVgGv~~~g~~~lg~V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~e  198 (256)
T KOG0185|consen  119 KAIHSYLTRVLYARRSKMNPLWNTLVVGGVDNTGEPFLGYVDLLGVAYESPVVATGFGAHLALPLLRDEWEKKGEDLSRE  198 (256)
T ss_pred             HHHHHHHHHHHHHhhhccCchhhheeEeeecCCCCeeEEEEeeccccccCchhhhhhHHHhhhHHHHHhhhccchhhHHH
Confidence            99999999999999874  999999999999855 999999999999999999999999999999999998   579999


Q ss_pred             HHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHH
Q 024133          206 EAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHY  252 (272)
Q Consensus       206 eai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~  252 (272)
                      ||.+++.+|++...+||+.+...++|.+|+++|+..-.+..|+.-|.
T Consensus       199 eA~~li~~cMrVL~YRD~ra~n~fqva~v~~eGv~i~~p~qv~~~W~  245 (256)
T KOG0185|consen  199 EAEALIEKCMRVLYYRDARASNEFQVATVDEEGVTISKPYQVKTNWD  245 (256)
T ss_pred             HHHHHHHHHHHHHhccccccccceEEEEEcccceEecCceeeeecch
Confidence            99999999999999999999999999999999999888888876664

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=100.00  E-value=6.2e-33  Score=231.35  Aligned_cols=165  Identities=21%  Similarity=0.206  Sum_probs=145.4

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEe-cCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      ||+|||+++||||||+|+|++.|.++.+++.+||++| +++++|++||..+|++.+.++++.++++|++..     .+.+
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     4677


Q ss_pred             HHHHHHH-HHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeec--CceEEccChhHHHHHHHccC-CCCCCHHHHHHH
Q 024133          135 SKLLANI-LYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG--TRFSVGSGSPYAYGVLDSGY-KFDMSIEEAAEL  210 (272)
Q Consensus       135 a~~ls~~-l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~--~~~AiG~gs~~a~~~Le~~~-~~~ms~eeai~l  210 (272)
                      ++.+++. .+.++++ +.+.+|++||    ++||.+||.|.+.+.  ++.++|||+.+++++||.+| +++|+   |+++
T Consensus        76 a~l~~~~~~~~~~~~-l~a~~iv~~~----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s---a~~l  147 (171)
T TIGR03692        76 VELAKDWRTDRYLRR-LEAMLIVADK----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS---AEEI  147 (171)
T ss_pred             HHHHHHHhhcccccc-cEEEEEEEcC----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC---HHHH
Confidence            7777774 2344433 5566666644    499999999999997  58899999999999999999 47777   9999


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEE
Q 024133          211 ARRAIYHATFRDAASGGVASVYY  233 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~i  233 (272)
                      +.+++..|++||..||++|+|-.
T Consensus       148 a~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       148 AREALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             HHHHHHHHHhhCccCCCCEEEEe
Confidence            99999999999999999998864

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

>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=99.97  E-value=1.7e-28  Score=200.87  Aligned_cols=161  Identities=37%  Similarity=0.417  Sum_probs=153.7

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      +|+||+++++|||+|+|++.+.+........+||++++++++++++|..+|++.+.++++.+++.|++.++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            58999999999999999999998877788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccC-CcceeEEEEEEEcCCCCeeEEEeCCCceeec-CceEEccChhHHHHHHHccCCCCCCHHHHHHHHHH
Q 024133          136 KLLANILYSYRG-MGLSVGTMIAGWDETGPGLYYVDSEGGRLKG-TRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARR  213 (272)
Q Consensus       136 ~~ls~~l~~~R~-~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~-~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~  213 (272)
                      +.+++.++.+|. .|+.+++|++|+|+++|+||++||+|.+.++ .++++|+++..+.++|++.|+++|+.+|+++++.+
T Consensus        81 ~~~~~~~~~~~~~~p~~~~~iiag~~~~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  160 (164)
T cd01901          81 KELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALK  160 (164)
T ss_pred             HHHHHHHHHhcCCCCcceEEEEEEEcCCCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            999999999865 5677999999999888999999999999999 88999999999999999999999999999999999


Q ss_pred             HHH
Q 024133          214 AIY  216 (272)
Q Consensus       214 al~  216 (272)
                      ||.
T Consensus       161 ~l~  163 (164)
T cd01901         161 ALK  163 (164)
T ss_pred             HHh
Confidence            985

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

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

Probab=99.63  E-value=4.1e-15  Score=120.35  Aligned_cols=170  Identities=19%  Similarity=0.188  Sum_probs=134.2

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEec-CcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHh
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEIN-PYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~-~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~  132 (272)
                      ++||||+++-++-|+||+|.+.|.|+.+...+..||.+|. ..++.+++|.++|+..+.+.+..+++.|.-..-+  ..-
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g~L~r--aav   80 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQGDLFR--AAV   80 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccCcHHH--HHH
Confidence            8999999999999999999999999999999999988885 4899999999999999999999999988522222  233


Q ss_pred             HHHHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecC--ceEEccChhHHHHHHHccCCC-CCCHHHHHH
Q 024133          133 GASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGT--RFSVGSGSPYAYGVLDSGYKF-DMSIEEAAE  209 (272)
Q Consensus       133 ~la~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~--~~AiG~gs~~a~~~Le~~~~~-~ms~eeai~  209 (272)
                      .+++..+.--+-+|   +.+-++++  |  .-.+|-+...|..++..  ..|||||..++++.....++. ++|   |.+
T Consensus        81 elaKdwr~Dk~lr~---LEAmllVa--d--~~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~ls---A~e  150 (178)
T COG5405          81 ELAKDWRTDKYLRK---LEAMLLVA--D--KTHILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELS---ARE  150 (178)
T ss_pred             HHHHhhhhhhHHHH---HhhheeEe--C--CCcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCC---HHH
Confidence            34443333223223   33445554  4  35778888999988775  468999999999998888864 666   667


Q ss_pred             HHHHHHHHHHhhcccCCCcEEEEEEc
Q 024133          210 LARRAIYHATFRDAASGGVASVYYVG  235 (272)
Q Consensus       210 l~~~al~~a~~rd~~sg~~v~v~ii~  235 (272)
                      ++.++|..+.+-+.++++++.|..+.
T Consensus       151 Ia~~sl~iA~eiciyTN~ni~ve~l~  176 (178)
T COG5405         151 IAEKSLKIAGDICIYTNHNIVVEELR  176 (178)
T ss_pred             HHHHHHhhhheEEEecCCcEEEEEee
Confidence            88889999999899999999887664

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

Probab=99.40  E-value=4.1e-12  Score=106.57  Aligned_cols=183  Identities=18%  Similarity=0.231  Sum_probs=138.4

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEe----cCcEEEEecCChhhHHHHHHHHHHHHHHHHHhh-CCcCC
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI----NPYMLGTMAGGAADCQFWHRNLGIKCRLHELAN-KRRIS  130 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I----~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~-~~~i~  130 (272)
                      |.|||++...|.|+++|+|.+.|. -.....+|.|..    +.-++++.+|..+-.|.+++.+.+..+.-.-.. -.-.+
T Consensus         2 TYCv~l~l~~GlVf~sDsRTNAGv-D~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~s   80 (255)
T COG3484           2 TYCVGLILDFGLVFGSDSRTNAGV-DYISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPS   80 (255)
T ss_pred             ceEEEEEeccceEEecccccccCc-hHHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcchh
Confidence            679999999999999999999862 122345565544    334567789999999999998877665211111 11223


Q ss_pred             HhHHHHHHHHHHH----hccC------CcceeEEEEEEEcCCC-CeeEEEeCCCceeec----CceEEccChhHHHHHHH
Q 024133          131 VTGASKLLANILY----SYRG------MGLSVGTMIAGWDETG-PGLYYVDSEGGRLKG----TRFSVGSGSPYAYGVLD  195 (272)
Q Consensus       131 v~~la~~ls~~l~----~~R~------~p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~----~~~AiG~gs~~a~~~Le  195 (272)
                      +-.++..+.....    .-++      .-++|++|++|.-..+ |.||.+.|.|++++.    .++-||. +.+-+++|+
T Consensus        81 m~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPild  159 (255)
T COG3484          81 MYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPILD  159 (255)
T ss_pred             HHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEccc-cccCchhhh
Confidence            4444444443332    2232      2478999999987544 899999999999876    4668898 568999999


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeE
Q 024133          196 SGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWK  240 (272)
Q Consensus       196 ~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~  240 (272)
                      +.+..+++++|+.+.++-++.+..+.+.+.|-++++.++.+|.++
T Consensus       160 R~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds~~  204 (255)
T COG3484         160 RTITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADSFS  204 (255)
T ss_pred             hhhhccCCHHHHhhheEEecchhhhccccccCCceeEEEecccee
Confidence            999999999999999999999999999999999999999999653

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

Probab=97.06  E-value=0.00048  Score=38.17  Aligned_cols=19  Identities=21%  Similarity=0.079  Sum_probs=14.7

Q ss_pred             CCCCCC-CCcchhhHh-HHhh
Q 024133           31 FSLPLS-TDFDEFQKD-TKAT   49 (272)
Q Consensus        31 ~~~p~~-~~g~~~q~e-a~~a   49 (272)
                      .+++.| |+||+||+| |++|
T Consensus         3 ~~~t~FSp~Grl~QVEYA~~A   23 (23)
T PF10584_consen    3 RSITTFSPDGRLFQVEYAMKA   23 (23)
T ss_dssp             SSTTSBBTTSSBHHHHHHHHH
T ss_pred             CCceeECCCCeEEeeEeeecC
Confidence            344445 799999999 9886

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

>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=96.84  E-value=0.088  Score=44.67  Aligned_cols=149  Identities=17%  Similarity=0.221  Sum_probs=90.1

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      +.+||..+++|.|+|.|+|.                      +++-|.-.....|-+.|         ..|+=-+=+.|.
T Consensus         2 SLII~y~GknGaViaGDkR~----------------------I~F~G~~~~re~LEeeL---------YsG~IktdeEL~   50 (194)
T PF09894_consen    2 SLIIAYYGKNGAVIAGDKRN----------------------IAFRGDEEKREKLEEEL---------YSGKIKTDEELL   50 (194)
T ss_pred             eEEEEEecCCCcEEecccee----------------------eeecCCHHHHHHHHHHH---------hCCccCCHHHHH
Confidence            56899999999999999984                      24667666665555433         234333445555


Q ss_pred             HHHHHHHHh-----ccCCcceeE-EEEE------EEcCCCCeeEEE-------eCCCceeecCceEEccCh---------
Q 024133          136 KLLANILYS-----YRGMGLSVG-TMIA------GWDETGPGLYYV-------DSEGGRLKGTRFSVGSGS---------  187 (272)
Q Consensus       136 ~~ls~~l~~-----~R~~p~~v~-~iia------G~D~~gp~Ly~i-------Dp~G~~~~~~~~AiG~gs---------  187 (272)
                      +....+=-.     -|..-...+ +++|      |.|...-++|-+       |-.|.-....  ..|.++         
T Consensus        51 kkA~Elgv~i~I~D~r~KV~~~~~vlvGEV~s~~g~~skRRRiY~t~g~~~Ivei~~~~i~~~--~~g~~sgiIVfGNk~  128 (194)
T PF09894_consen   51 KKAEELGVKIKITDDREKVRKIGDVLVGEVTSISGKDSKRRRIYATKGKYAIVEIENDEITNK--SRGEGSGIIVFGNKF  128 (194)
T ss_pred             HHHHHcCCEEEEecCchheEEeCCEEEEEEEEEcCccceeeEEEecCCCEEEEEecCCeEEEE--ecCCceeEEEECCHH
Confidence            554432110     011100111 2333      223222345532       3333332221  223332         


Q ss_pred             --hHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC
Q 024133          188 --PYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN  237 (272)
Q Consensus       188 --~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd  237 (272)
                        +.+...|.++|++.|+++++..+...+|..+...-+..+..+++.+.++.
T Consensus       129 ~K~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~  180 (194)
T PF09894_consen  129 TKEIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKK  180 (194)
T ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEeccc
Confidence              56777899999999999999999999999998777777778998887664

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

>COG4079 Uncharacterized protein conserved in archaea [Function unknown]

Probab=95.53  E-value=0.41  Score=42.12  Aligned_cols=166  Identities=16%  Similarity=0.199  Sum_probs=101.7

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      |.+|+..+++|.|+|.|+|.-                      ++-|.-.|...+.+.|         ..|+--+-+.|+
T Consensus         2 tLviay~gknGaviaGDrR~i----------------------~frgdee~re~lEekL---------YsGeIkteEEL~   50 (293)
T COG4079           2 TLVIAYIGKNGAVIAGDRREI----------------------TFRGDEEDREKLEEKL---------YSGEIKTEEELA   50 (293)
T ss_pred             eEEEEEecCCCcEEeccceEE----------------------EEecChhHHHHHHHHh---------hcCccccHHHHH
Confidence            578999999999999999742                      3556666766555443         355555666677


Q ss_pred             HHHHHHHHhc-----cCC--cceeEEEEEEEcCCCC------eeEE-------EeCCCceeec----CceE-EccCh---
Q 024133          136 KLLANILYSY-----RGM--GLSVGTMIAGWDETGP------GLYY-------VDSEGGRLKG----TRFS-VGSGS---  187 (272)
Q Consensus       136 ~~ls~~l~~~-----R~~--p~~v~~iiaG~D~~gp------~Ly~-------iDp~G~~~~~----~~~A-iG~gs---  187 (272)
                      ++...+--..     |..  -.+-+.+++-+...+|      ++|-       ++-.|+-.-.    ..++ |=.|.   
T Consensus        51 r~aeel~Vki~vtDdr~KVrk~~d~VvvGEV~s~~~~~vkRRRvYAT~Ga~aIvel~gs~vts~~~g~g~aiIv~Gnk~~  130 (293)
T COG4079          51 RKAEELGVKITVTDDRNKVRKRNDGVVVGEVSSVERGIVKRRRVYATAGAYAIVELRGSEVTSTSQGKGSAIIVFGNKFT  130 (293)
T ss_pred             HHHHHcCCEEEEEcchHhhhcccCcEEEEEeecccccceeeeEEeecCCceEEEEecCCeeEeeecCCCceEEEECcHHH
Confidence            7665432111     110  0111223333322221      2332       1233332111    1122 12233   


Q ss_pred             -hHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC--CeEEcCcchHHHHHH
Q 024133          188 -PYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN--GWKKLSGDDVGELHY  252 (272)
Q Consensus       188 -~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd--g~~~l~~~ei~~~~~  252 (272)
                       +.+..+|.++|.+.++++++.++...+|..+...-...+..++++.++++  .+.++-.+||+.+..
T Consensus       131 Ke~aneflk~~l~~k~~lqd~~dal~elfe~vss~tpsVskeydiy~vs~~~d~~~rl~kkDie~L~k  198 (293)
T COG4079         131 KEVANEFLKDNLTKKSKLQDAVDALMELFETVSSKTPSVSKEYDIYQVSSNVDPVLRLVKKDIETLRK  198 (293)
T ss_pred             HHHHHHHHHhhccCCCCHHHHHHHHHHHHHHhhcCCCcccceeEEEEecCCcCHHHHHHHHHHHHHHH
Confidence             34566788999999999999999999999988766777778999988874  566777788877653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	272
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		3e-73
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		1e-72
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		2e-62
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		4e-62
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		5e-62
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		2e-60
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		3e-60
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		2e-25
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		1e-22
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		1e-22
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		1e-22
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		6e-22
3unb_N	205	Mouse Constitutive 20s Proteasome In Complex With P		9e-17
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		1e-16
1iru_H	205	Crystal Structure Of The Mammalian 20s Proteasome A		1e-16
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		1e-15
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		2e-15
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		2e-15
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		6e-15
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		8e-15
3nzj_N	215	Crystal Structure Of Yeast 20s Proteasome In Comple		1e-12
3unf_N	199	Mouse 20s Immunoproteasome In Complex With Pr-957 L		3e-12
1g65_N	196	Crystal Structure Of Epoxomicin:20s Proteasome Reve		4e-12
1ryp_H	205	Crystal Structure Of The 20s Proteasome From Yeast		4e-12
1vsy_H	196	Proteasome Activator Complex Length = 196		1e-11
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		1e-10
2h6j_H	294	Crystal Structure Of The Beta F145a Rhodococcus Pro		6e-08
1q5r_H	294	The Rhodococcus 20s Proteasome With Unprocessed Pro		7e-08
1q5q_H	235	The Rhodococcus 20s Proteasome Length = 235		7e-08
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		8e-08
3unb_I	205	Mouse Constitutive 20s Proteasome In Complex With P		2e-07
1iru_J	205	Crystal Structure Of The Mammalian 20s Proteasome A		5e-07
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		1e-06
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		2e-06
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		2e-06
1iru_M	213	Crystal Structure Of The Mammalian 20s Proteasome A		7e-06
3unb_L	213	Mouse Constitutive 20s Proteasome In Complex With P		7e-06
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		1e-05
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		2e-05
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		2e-05
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		2e-05
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		2e-05
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		2e-05
1ryp_J	204	Crystal Structure Of The 20s Proteasome From Yeast		4e-04
1g0u_I	205	A Gated Channel Into The Proteasome Core Particle L		4e-04
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		6e-04
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		6e-04
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		7e-04
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		7e-04
1vsy_E	250	Proteasome Activator Complex Length = 250		7e-04
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		8e-04
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		9e-04

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

Iteration: 1
 Score =  271 bits (693), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 127/204 (62%), Positives = 156/204 (76%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L 
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG R
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120
Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYVG 235
           + G  FSVGSGS YAYGV+D GY +D+ +          IY AT+RDA SGG  ++Y+V 
Sbjct: 121 ISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVR 180
Query: 236 PNGWKKLSGDDVGELHYHYYPVTP 259
            +GW ++S D+V +LH  Y   TP
Sbjct: 181 EDGWIRVSSDNVADLHEKYSGSTP 204

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

Iteration: 1
 Score =  269 bits (688), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 127/203 (62%), Positives = 156/203 (76%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F  GV+VAADSRA+ G YI+SQ+VKK+IEINPY+LGTMAGGAADC FW R L 
Sbjct: 1   TTTLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG R
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120
Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYVG 235
           + GT FSVGSGS YAYGV+D GY +D+ +          IY AT+RDA SGG  ++Y+V 
Sbjct: 121 ISGTAFSVGSGSVYAYGVMDRGYSYDLKVEEAYDLARRAIYQATYRDAYSGGAVNLYHVR 180
Query: 236 PNGWKKLSGDDVGELHYHYYPVT 258
            +GW ++S D+V +LH  Y  V+
Sbjct: 181 EDGWIRVSSDNVADLHDKYSSVS 203

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

Iteration: 1
 Score =  235 bits (599), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 116/210 (55%), Positives = 150/210 (71%), Gaps = 1/210 (0%)
Query: 44  KDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGG 103
           ++    +K A GTTTLAF F+ G++VA DSRA+ G +++SQ+VKK+IEINP++LGTMAGG
Sbjct: 64  RNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGG 123
Query: 104 AADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ET 162
           AADCQFW   LG +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+  + 
Sbjct: 124 AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 183
Query: 163 GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRD 222
           GP +YYVDS+G RLKG  F VGSG  +AYGVLDS YK+D+S+          I  A  RD
Sbjct: 184 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 243
Query: 223 AASGGVASVYYVGPNGWKKLSGDDVGELHY 252
           A SGG  ++Y+V  +GW      DVGEL +
Sbjct: 244 AYSGGSVNLYHVTEDGWIYHGNHDVGELFW 273

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

Iteration: 1
 Score =  234 bits (597), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 115/210 (54%), Positives = 150/210 (71%), Gaps = 1/210 (0%)
Query: 44  KDTKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGG 103
           ++    +K A GTTTLAF F+ G++VA DSRA+ G +++SQ+VK++IEINP++LGTMAGG
Sbjct: 64  RNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGG 123
Query: 104 AADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ET 162
           AADCQFW   LG +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+  + 
Sbjct: 124 AADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKE 183
Query: 163 GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRD 222
           GP +YYVDS+G RLKG  F VGSG  +AYGVLDS YK+D+S+          I  A  RD
Sbjct: 184 GPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRD 243
Query: 223 AASGGVASVYYVGPNGWKKLSGDDVGELHY 252
           A SGG  ++Y+V  +GW      DVGEL +
Sbjct: 244 AYSGGSVNLYHVTEDGWIYHGNHDVGELFW 273

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

Iteration: 1
 Score =  234 bits (596), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 114/199 (57%), Positives = 143/199 (71%)
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 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +CRL+ L N  RISV+ ASKLL+N++  YRGMGLS+G+MI GWD+ GPGLYYVD  G R
Sbjct: 61  KECRLYYLRNGERISVSAASKLLSNMMLQYRGMGLSMGSMICGWDKKGPGLYYVDDNGTR 120
Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYVG 235
           L G  FS GSG+ YAYGV+DSGY+ D+S           I +AT RD  SGGV ++Y++ 
Sbjct: 121 LSGQMFSTGSGNTYAYGVMDSGYRQDLSPEEAYDLGRRAIAYATHRDNYSGGVVNMYHMK 180
Query: 236 PNGWKKLSGDDVGELHYHY 254
            +GW K+   DV +L Y Y
Sbjct: 181 EDGWVKVESSDVSDLLYKY 199

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

Iteration: 1
 Score =  229 bits (583), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 113/198 (57%), Positives = 144/198 (72%), Gaps = 1/198 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ G++VA DSRA+ G +++SQ+VKK+IEINP++LGTMAGGAADCQFW   LG
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ETGPGLYYVDSEGG 174
            +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+  + GP +YYVDS+G 
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120
Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
           RLKG  F VGSG  +AYGVLDS YK+D+S+          I  A  RDA SGG  ++Y+V
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV 180
Query: 235 GPNGWKKLSGDDVGELHY 252
             +GW      DVGEL +
Sbjct: 181 TEDGWIYHGNHDVGELFW 198

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

Iteration: 1
 Score =  228 bits (580), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 112/198 (56%), Positives = 144/198 (72%), Gaps = 1/198 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TTTLAF F+ G++VA DSRA+ G +++SQ+VK++IEINP++LGTMAGGAADCQFW   LG
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ETGPGLYYVDSEGG 174
            +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+  + GP +YYVDS+G 
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120
Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
           RLKG  F VGSG  +AYGVLDS YK+D+S+          I  A  RDA SGG  ++Y+V
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV 180
Query: 235 GPNGWKKLSGDDVGELHY 252
             +GW      DVGEL +
Sbjct: 181 TEDGWIYHGNHDVGELFW 198

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

Iteration: 1
 Score =  112 bits (280), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 72/215 (33%), Positives = 114/215 (53%), Gaps = 18/215 (8%)
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 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
           I+  L+E+  +R+ +V   + L +N+L SYR     V  +I G D  G  +Y +D  GG 
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGA 120
Query: 176 LKGTRF-SVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASG-GVASVYY 233
           ++     + GSGS  AYGVL+  +  ++ +          IY A  RD+ASG G+  V  
Sbjct: 121 IEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVV-- 178
Query: 234 VGPNGWKKLSGDDVGELHYHYYPVTPSTVEQEMAE 268
                  K++ D+       +Y  +P  VEQ +A+
Sbjct: 179 -------KITEDE-------FYQYSPEEVEQILAK 199

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

Iteration: 1
 Score =  103 bits (256), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 64/197 (32%), Positives = 103/197 (52%), Gaps = 2/197 (1%)
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 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET-GPGLYYVDSEGG 174
            + +L+++   R I     + LL+NIL+S R        +I G+D   G  L+ +D  GG
Sbjct: 62  AEAKLYKMRTGRNIPPLACATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLDPLGG 121
Query: 175 RLKGTRFS-VGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYY 233
             +   F+  GSGSP AYGVL++GY  DMS+          +  A  RD  SG   S+  
Sbjct: 122 MNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFSGNGISLAV 181
Query: 234 VGPNGWKKLSGDDVGEL 250
           +  +G K    +++ ++
Sbjct: 182 ITKDGVKIFEDEEIEKI 198

>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 =  103 bits (256), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 60/194 (30%), Positives = 102/194 (52%), Gaps = 2/194 (1%)
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 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D T P ++ +D+ GG
Sbjct: 68  KAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSIDAAGG 126
Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
            ++    S GSGSP+ YGVL+S Y   M++          I  A  RD+ASGG+  V  +
Sbjct: 127 SVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVI 186
Query: 235 G-PNGWKKLSGDDV 247
              +G+ +L  D +
Sbjct: 187 TRKDGYVQLPTDQI 200

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

Iteration: 1
 Score =  103 bits (256), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 60/194 (30%), Positives = 102/194 (52%), Gaps = 2/194 (1%)
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 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D T P ++ +D+ GG
Sbjct: 68  KAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSIDAAGG 126
Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
            ++    S GSGSP+ YGVL+S Y   M++          I  A  RD+ASGG+  V  +
Sbjct: 127 SVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVI 186
Query: 235 G-PNGWKKLSGDDV 247
              +G+ +L  D +
Sbjct: 187 TRKDGYVQLPTDQI 200

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

Iteration: 1
 Score =  100 bits (250), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 59/193 (30%), Positives = 101/193 (52%), Gaps = 2/193 (1%)
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 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D T P ++ +D+ GG 
Sbjct: 61  AELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSIDAAGGS 119
Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYVG 235
           ++    S GSGSP+ YGVL+S Y   M++          I  A  RD+ASGG+  V  + 
Sbjct: 120 VEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVIT 179
Query: 236 -PNGWKKLSGDDV 247
             +G+ +L  D +
Sbjct: 180 RKDGYVQLPTDQI 192

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

Iteration: 1
 Score = 84.0 bits (206), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 61/204 (29%), Positives = 95/204 (46%), Gaps = 4/204 (1%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV++ ADSR + G YI+++   K+  I+ ++    +G AAD Q     + 
Sbjct: 1   TTIMAVQFNGGVVLGADSRTTTGSYIANRVTDKLTPIHDHIFCCRSGSAADTQAVADAVT 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +   H +       V  A+ L   + Y YR   L  G +IAGWD    G  Y    GG 
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYR-EDLMAGIIIAGWDPQEGGQVYSVPMGGM 119
Query: 176 LKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
           +    F++ GSGS Y YG +D+ Y+  M+           +  A  RD +SGGV  +  +
Sbjct: 120 MVRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTANALALAMERDGSSGGVIRLAAI 179
Query: 235 GPNGWKK--LSGDDVGELHYHYYP 256
             +G ++  L GD + +      P
Sbjct: 180 QESGVERQVLLGDQIPKFTIATLP 203

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

Iteration: 1
 Score = 83.6 bits (205), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 60/203 (29%), Positives = 96/203 (47%), Gaps = 14/203 (6%)
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 GLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXX 208
            +    ++AG D TG  L+ + + G    G   S+GSGS  A  VL+S +K D++     
Sbjct: 123 -IGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI 181
Query: 209 XXXXXXIYHATFRDAASGGVASV 231
                 I    + D  SG    V
Sbjct: 182 KLASDAIQAGIWNDLGSGSNVDV 204

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

Iteration: 1
 Score = 83.2 bits (204), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 61/204 (29%), Positives = 94/204 (46%), Gaps = 4/204 (1%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV++ ADSR + G YI+++   K+  I+  +    +G AAD Q     + 
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +   H +       V  A+ L   + Y YR   L  G +IAGWD    G  Y    GG 
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYR-EDLMAGIIIAGWDPQEGGQVYSVPMGGM 119
Query: 176 LKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
           +    F++ GSGS Y YG +D+ Y+  M+           +  A  RD +SGGV  +  +
Sbjct: 120 MVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAI 179
Query: 235 GPNGWKK--LSGDDVGELHYHYYP 256
             +G ++  L GD + +      P
Sbjct: 180 AESGVERQVLLGDQIPKFAVATLP 203

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

Iteration: 1
 Score = 80.1 bits (196), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 85/182 (46%), Gaps = 1/182 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    ++K+G+++ AD+RA+ G  ++ ++  KI  I+P +    AG AAD     + + 
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               LH L+  R   V  A+++L  +L+ YRG  +    ++ G D TGP LY +   G  
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGY-IGAALVLGGVDVTGPHLYSIYPHGST 119
Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYVG 235
            K    ++GSGS  A  V +  ++ DM            I    F D  SG    +  + 
Sbjct: 120 DKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVIS 179
Query: 236 PN 237
            N
Sbjct: 180 KN 181

>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 = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/176 (30%), Positives = 85/176 (48%), Gaps = 1/176 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +   F  GV++AAD+R++ G  ++ ++  K+  I+P +    AG AAD +   + +G
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               LH L   R   V  A ++L   L+ Y+G  +    ++AG D TG  L+ + + G  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGH-IGAYLIVAGVDPTGSHLFSIHAHGST 119
Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASV 231
             G   S+GSGS  A  VL+S +K D++           I    + D  SG    V
Sbjct: 120 DVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDV 175

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

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/176 (30%), Positives = 85/176 (48%), Gaps = 1/176 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +   F  GV++AAD+R++ G  ++ ++  K+  I+P +    AG AAD +   + +G
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               LH L   R   V  A ++L   L+ Y+G  +    ++AG D TG  L+ + + G  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGH-IGAYLIVAGVDPTGSHLFSIHAHGST 119
Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASV 231
             G   S+GSGS  A  VL+S +K D++           I    + D  SG    V
Sbjct: 120 DVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDV 175

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 53/186 (28%), Positives = 87/186 (46%), Gaps = 3/186 (1%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    +F++GV++ AD+RA+    ++ +S +KI  I P +    AG AAD +   R   
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRG-MGLSVGTMIAGWDETGPGLYYVDSEGG 174
            K  LH L+  R   V   +++L   L+ Y+G +G S+  ++ G D  GP LY V   G 
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASL--VVGGVDLNGPQLYEVHPHGS 118
Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
             +    ++GSG   A  +L+  ++ +M++          I      D  SGG      +
Sbjct: 119 YSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVI 178
Query: 235 GPNGWK 240
              G K
Sbjct: 179 TAGGAK 184

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

Iteration: 1
 Score = 77.4 bits (189), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 50/171 (29%), Positives = 81/171 (47%), Gaps = 1/171 (0%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT    ++K+G+++ AD+RA+ G  ++ ++  KI  I+P +    AG AAD     + + 
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               LH L   R   V  A+++L  +L+ Y+G  +    ++ G D TGP LY +   G  
Sbjct: 61  SNLELHSLTTGRLPRVVTANRMLKQMLFRYQGY-IGAALVLGGVDVTGPHLYSIYPHGST 119
Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASG 226
            K    ++GSGS  A  V +  ++ DM            I    F D  SG
Sbjct: 120 DKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVSEAIAAGIFNDLGSG 170

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

Iteration: 1
 Score = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 50/189 (26%), Positives = 90/189 (47%), Gaps = 3/189 (1%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           GT+ +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     +
Sbjct: 19  GTSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 78
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
                L+  +     S   A+ +   + Y  +   L+ G ++AG+D+   G  Y    GG
Sbjct: 79  QYHLELYT-SQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTIPLGG 136
Query: 175 RLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYY 233
            +    +++ GSGS + YG  D  ++ +MS           +  A   D +SGGV  +  
Sbjct: 137 SVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVV 196
Query: 234 VGPNGWKKL 242
           +   G ++L
Sbjct: 197 LTAAGVERL 205

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

Iteration: 1
 Score = 68.9 bits (167), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 58/174 (33%), Positives = 85/174 (48%), Gaps = 3/174 (1%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT +A  F  GV+V +DSR S G  + ++   K+  ++  +   ++G AAD Q       
Sbjct: 1   TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAA 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +  LH L  +    V  A+ ++ NI Y YR   L    ++AGWD+   G  Y  + GG 
Sbjct: 61  YQLELHGLELEEPPLVLAAANVVKNISYKYR-EDLLAHLIVAGWDQREGGQVY-GTMGGM 118
Query: 176 LKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGV 228
           L    F++ GSGS Y YG +D+ YK  M+           I  A  RD +SGGV
Sbjct: 119 LIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGV 172

>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 = 68.2 bits (165), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 49/188 (26%), Positives = 89/188 (47%), Gaps = 3/188 (1%)
Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           T+ +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     + 
Sbjct: 1   TSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQ 60
Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               L+  +     S   A+ +   + Y  +   L+ G ++AG+D+   G  Y    GG 
Sbjct: 61  YHLELY-TSQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTIPLGGS 118
Query: 176 LKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYV 234
           +    +++ GSGS + YG  D  ++ +MS           +  A   D +SGGV  +  +
Sbjct: 119 VHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVL 178
Query: 235 GPNGWKKL 242
              G ++L
Sbjct: 179 TAAGVERL 186

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 49/189 (25%), Positives = 89/189 (47%), Gaps = 3/189 (1%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G + +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     +
Sbjct: 9   GASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
                L+  +     S   A+ +   + Y  +   L+ G ++AG+D+   G  Y    GG
Sbjct: 69  QYHLELYT-SQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTIPLGG 126
Query: 175 RLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYY 233
            +    +++ GSGS + YG  D  ++ +MS           +  A   D +SGGV  +  
Sbjct: 127 SVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVV 186
Query: 234 VGPNGWKKL 242
           +   G ++L
Sbjct: 187 LTAAGVERL 195

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

Iteration: 1
 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 48/187 (25%), Positives = 88/187 (47%), Gaps = 3/187 (1%)
Query: 57  TTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGI 116
           + +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     +  
Sbjct: 2   SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQY 61
Query: 117 KCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRL 176
              L+  +     S   A+ +   + Y  +   L+ G ++AG+D+   G  Y    GG +
Sbjct: 62  HLELYT-SQYGTPSTETAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTIPLGGSV 119
Query: 177 KGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVASVYYVG 235
               +++ GSGS + YG  D  ++ +MS           +  A   D +SGGV  +  + 
Sbjct: 120 HKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLT 179
Query: 236 PNGWKKL 242
             G ++L
Sbjct: 180 AAGVERL 186

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

Iteration: 1
 Score = 63.5 bits (153), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 38/155 (24%), Positives = 77/155 (49%), Gaps = 5/155 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +GTT +    K+GV++A D R +    +  +S++KI +I+ ++    +G  AD +     
Sbjct: 37  RGTTAIGIACKDGVVLAVDRRIT-SKLVKIRSIEKIFQIDDHVAAATSGLVADARVLIDR 95
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             ++ +++ L     IS+   +K + +I  +Y   G      V  +IAG D+    L+  
Sbjct: 96  ARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFET 155
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSI 204
           D  G  ++    ++GSG P    +L+  Y+ D+++
Sbjct: 156 DPSGALIEYKATAIGSGRPVVMELLEKEYRDDITL 190

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 52/184 (28%), Positives = 83/184 (45%), Gaps = 11/184 (5%)
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---MGLSVGTMIAGW-----DETGPG- 165
            ++   +E      ++  G +  LA+++    G    GL+V  ++ G+     DE+  G 
Sbjct: 125 AVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGR 184
Query: 166 LYYVDSEGGRL--KGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDA 223
           +   D  GGR   +    +VGSGS  A   L   Y  D             +Y A   D+
Sbjct: 185 IVSYDVVGGRYEERAGYHAVGSGSLAAKSALKKIYSPDSDEETALRAAIESLYDAADDDS 244
Query: 224 ASGG 227
           A+GG
Sbjct: 245 ATGG 248

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 51/184 (27%), Positives = 83/184 (45%), Gaps = 11/184 (5%)
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---MGLSVGTMIAGW-----DETGPG- 165
            ++   +E      ++  G +  LA+++    G    GL+V  ++ G+     DE+  G 
Sbjct: 125 AVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGR 184
Query: 166 LYYVDSEGGRL--KGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDA 223
           +   D  GGR   +    +VGSGS +A   L   Y  D             +Y A   D+
Sbjct: 185 IVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDS 244
Query: 224 ASGG 227
           A+GG
Sbjct: 245 ATGG 248

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 51/183 (27%), Positives = 83/183 (45%), Gaps = 11/183 (6%)
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---MGLSVGTMIAGW-----DETGPG-L 166
           ++   +E      ++  G +  LA+++    G    GL+V  ++ G+     DE+  G +
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRI 120
Query: 167 YYVDSEGGRL--KGTRFSVGSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAA 224
              D  GGR   +    +VGSGS +A   L   Y  D             +Y A   D+A
Sbjct: 121 VSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSA 180
Query: 225 SGG 227
           +GG
Sbjct: 181 TGG 183

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 39/154 (25%), Positives = 69/154 (44%), Gaps = 6/154 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G T +    KEGV++ AD R      + + +++KI +I+ ++    +G  AD +     
Sbjct: 24  RGATAIGIKCKEGVILIADKRVG-SKLLEADTIEKIYKIDEHICAATSGLVADARVLIDR 82
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             I+ +++ L     I+V   +K + +    Y   G      V  +IAG DE  P LY  
Sbjct: 83  ARIEAQINRLTYDEPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVDEV-PKLYET 141
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMS 203
           D  G  L+    ++G G        +  Y+ D+S
Sbjct: 142 DPSGALLEYKATAIGMGRNAVTEFFEKEYRDDLS 175

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 47/175 (26%), Positives = 75/175 (42%), Gaps = 3/175 (1%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G   +A   K  V +AAD R  +   + +   +KI  +   +   +AG A D Q   + L
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQMVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET--GPGLYYVDSE 172
             +  L+EL   R+I       ++AN+LY  R        +IAG D     P +  +D  
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLI 127
Query: 173 GGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASG 226
           G  +    F V G+ S   YG+ +S ++ +M            + +A  RDA SG
Sbjct: 128 GCPMVTDDFVVSGTCSEQMYGMCESLWEPNMDPEHLFETISQAMLNAVDRDAVSG 182

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 46/175 (26%), Positives = 75/175 (42%), Gaps = 3/175 (1%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G   +A   K  V +AAD R  +   + +   +KI  +   +   +AG A D Q   + L
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET--GPGLYYVDSE 172
             +  L+EL   R+I       ++AN+LY  R        +IAG D     P +  +D  
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLI 127
Query: 173 GGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASG 226
           G  +    F V G+ +   YG+ +S ++ +M            + +A  RDA SG
Sbjct: 128 GCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSG 182

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 38/154 (24%), Positives = 68/154 (44%), Gaps = 6/154 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G T +    KEGV++ AD R      +   +++KI +I+ ++    +G  AD +     
Sbjct: 33  RGATAIGIKCKEGVILIADKRVG-SKLLEKDTIEKIYKIDEHICAATSGLVADARVLIDR 91
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             I+ +++ L     I+V   +K + +    Y   G      V  +IAG +E  P LY  
Sbjct: 92  ARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNEV-PKLYET 150
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMS 203
           D  G  L+    ++G G        +  Y+ D+S
Sbjct: 151 DPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLS 184

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 37/161 (22%), Positives = 72/161 (44%), Gaps = 14/161 (8%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +     EGV +A + R +    +   S++KI+EI+ ++   M+G  AD +      
Sbjct: 34  GSTAIGIQTSEGVCLAVEKRIT-SPLMEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKA 92
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSY-----------RGMGLSVGTMIAGWDETG 163
            ++ + H       ++V   ++ ++N+   +           R  G  V  +  G DE G
Sbjct: 93  RVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFG--VALLFGGVDEKG 150
Query: 164 PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSI 204
           P L+++D  G  ++    ++GS S  A   L   Y   M++
Sbjct: 151 PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQEVYHKSMTL 191

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 37/161 (22%), Positives = 72/161 (44%), Gaps = 14/161 (8%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +     EGV +A + R +    +   S++KI+EI+ ++   M+G  AD +      
Sbjct: 34  GSTAIGIQTSEGVCLAVEKRIT-SPLMEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKA 92
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSY-----------RGMGLSVGTMIAGWDETG 163
            ++ + H       ++V   ++ ++N+   +           R  G  V  +  G DE G
Sbjct: 93  RVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFG--VALLFGGVDEKG 150
Query: 164 PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSI 204
           P L+++D  G  ++    ++GS S  A   L   Y   M++
Sbjct: 151 PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTL 191

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 38/148 (25%), Positives = 70/148 (47%), Gaps = 1/148 (0%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G T LA   ++  +VA+D+R S G  I ++   K  ++    +   +G   DC    + 
Sbjct: 8   NGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKI 67
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPG-LYYVDSE 172
           +  + ++++ +N + ++    + +L+ ILYS R     V  +I G DE G G +Y  D  
Sbjct: 68  IEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPV 127
Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKF 200
           G   + +  + GS S     +LD+   F
Sbjct: 128 GSYQRDSFKAGGSASAMLQPLLDNQVGF 155

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 38/148 (25%), Positives = 70/148 (47%), Gaps = 1/148 (0%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G T LA   ++  +VA+D+R S G  I ++   K  ++    +   +G   DC    + 
Sbjct: 8   NGGTVLAIAGEDFSIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKI 67
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPG-LYYVDSE 172
           +  + ++++ +N + ++    + +L+ ILYS R     V  +I G DE G G +Y  D  
Sbjct: 68  IEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPV 127
Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKF 200
           G   + +  + GS S     +LD+   F
Sbjct: 128 GSYQRDSFKAGGSASAMLQPLLDNQVGF 155

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 66/153 (43%), Gaps = 5/153 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T L   F  GV++ +D +      I   S++KI  I+ Y+    +G  AD +     
Sbjct: 27  KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF 85
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             I  +  ++     +++    K +A+ +  Y   G      V  + AG D+ GP L+  
Sbjct: 86  ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDC 145
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM 202
           D  G   +    ++GSG       L+  YK ++
Sbjct: 146 DPAGTINEYKATAIGSGKDAVVSFLEREYKENL 178

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 66/153 (43%), Gaps = 5/153 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T L   F  GV++ +D +      I   S++KI  I+ Y+    +G  AD +     
Sbjct: 33  KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF 91
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             I  +  ++     +++    K +A+ +  Y   G      V  + AG D+ GP L+  
Sbjct: 92  ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDC 151
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM 202
           D  G   +    ++GSG       L+  YK ++
Sbjct: 152 DPAGTINEYKATAIGSGKDAVVSFLEREYKENL 184

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 66/153 (43%), Gaps = 5/153 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T L   F  GV++ +D +      I   S++KI  I+ Y+    +G  AD +     
Sbjct: 33  KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF 91
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             I  +  ++     +++    K +A+ +  Y   G      V  + AG D+ GP L+  
Sbjct: 92  ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDC 151
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM 202
           D  G   +    ++GSG       L+  YK ++
Sbjct: 152 DPAGTINEYKATAIGSGKDAVVSFLEREYKENL 184

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 66/153 (43%), Gaps = 5/153 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T L   F  GV++ +D +      I   S++KI  I+ Y+    +G  AD +     
Sbjct: 37  KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF 95
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             I  +  ++     +++    K +A+ +  Y   G      V  + AG D+ GP L+  
Sbjct: 96  ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDC 155
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM 202
           D  G   +    ++GSG       L+  YK ++
Sbjct: 156 DPAGTINEYKATAIGSGKDAVVSFLEREYKENL 188

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 66/153 (43%), Gaps = 5/153 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T L   F  GV++ +D +      I   S++KI  I+ Y+    +G  AD +     
Sbjct: 33  KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF 91
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             I  +  ++     +++    K +A+ +  Y   G      V  + AG D+ GP L+  
Sbjct: 92  ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDC 151
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM 202
           D  G   +    ++GSG       L+  YK ++
Sbjct: 152 DPAGTINEYKATAIGSGKDAVVSFLEREYKENL 184

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 37/153 (24%), Positives = 66/153 (43%), Gaps = 5/153 (3%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T L   F  GV++ +D +      I   S++KI  I+ Y+    +G  AD +     
Sbjct: 37  KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF 95
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
             I  +  ++     +++    K +A+ +  Y   G      V  + AG D+ GP L+  
Sbjct: 96  ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDC 155
Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM 202
           D  G   +    ++GSG       L+  YK ++
Sbjct: 156 DPAGTINEYKATAIGSGKDAVVSFLEREYKENL 188

>pdb|1RYP|J Chain J, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 204

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 47/184 (25%), Positives = 76/184 (41%), Gaps = 4/184 (2%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G   +A   K+ V +A D R        S   +KI       LG + G A D    +  
Sbjct: 7   NGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLG-ITGLATDVTTLNEM 65
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETG--PGLYYVDS 171
              K  L++L  +R I     ++L+++ LY  R     VG ++AG +     P +   D 
Sbjct: 66  FRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDL 125
Query: 172 EGGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVAS 230
            G   +   F V G+ S   +G+ +S Y+ ++            + +A  RDA SG  A 
Sbjct: 126 IGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAV 185
Query: 231 VYYV 234
           VY +
Sbjct: 186 VYII 189

>pdb|1G0U|I Chain I, A Gated Channel Into The Proteasome Core Particle Length = 205

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 47/184 (25%), Positives = 76/184 (41%), Gaps = 4/184 (2%)
Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G   +A   K+ V +A D R        S   +KI       LG + G A D    +  
Sbjct: 8   NGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLG-ITGLATDVTTLNEM 66
Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETG--PGLYYVDS 171
              K  L++L  +R I     ++L+++ LY  R     VG ++AG +     P +   D 
Sbjct: 67  FRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDL 126
Query: 172 EGGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIXXXXXXXXXXIYHATFRDAASGGVAS 230
            G   +   F V G+ S   +G+ +S Y+ ++            + +A  RDA SG  A 
Sbjct: 127 IGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAV 186
Query: 231 VYYV 234
           VY +
Sbjct: 187 VYII 190

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 38/144 (26%), Positives = 69/144 (47%), Gaps = 7/144 (4%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +    KEGV++  + RA+    + S S++KI+EI+ ++   M+G  AD +    + 
Sbjct: 34  GSTAIGIATKEGVVLGVEKRAT-SPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHA 92
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSY---RGMGLSVGTMIAGWD-ETGPGLYYVD 170
                 H L     I+V   ++ + ++  +    R  G  V  +IAG D + G  L++ +
Sbjct: 93  RTAAVTHNLYYDEDINVESLTQSVCDLAAAAAMSRPFG--VALLIAGHDADDGYQLFHAE 150
Query: 171 SEGGRLKGTRFSVGSGSPYAYGVL 194
             G   +    ++GSGS  A   L
Sbjct: 151 PSGTFYRYNAKAIGSGSEGAQAEL 174

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 39/152 (25%), Positives = 70/152 (46%), Gaps = 14/152 (9%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +    KEGV++  + RA+    + S S++KI+EI+ ++   M+G  AD +    + 
Sbjct: 36  GSTAIGIATKEGVVLGVEKRAT-SPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHA 94
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLS-----------VGTMIAGWD-ET 162
                 H L     I+V   ++ + ++   + G G S           V  +IAG D + 
Sbjct: 95  RTAAVTHNLYYDEDINVESLTQSVCDLALRF-GEGASGEERLMSRPFGVALLIAGHDADD 153
Query: 163 GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVL 194
           G  L++ +  G   +    ++GSGS  A   L
Sbjct: 154 GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 185

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 39/152 (25%), Positives = 70/152 (46%), Gaps = 14/152 (9%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +    KEGV++  + RA+    + S S++KI+EI+ ++   M+G  AD +    + 
Sbjct: 35  GSTAIGIATKEGVVLGVEKRAT-SPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHA 93
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLS-----------VGTMIAGWD-ET 162
                 H L     I+V   ++ + ++   + G G S           V  +IAG D + 
Sbjct: 94  RTAAVTHNLYYDEDINVESLTQSVCDLALRF-GEGASGEERLMSRPFGVALLIAGHDADD 152
Query: 163 GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVL 194
           G  L++ +  G   +    ++GSGS  A   L
Sbjct: 153 GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 184

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 39/152 (25%), Positives = 70/152 (46%), Gaps = 14/152 (9%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +    KEGV++  + RA+    + S S++KI+EI+ ++   M+G  AD +    + 
Sbjct: 34  GSTAIGIATKEGVVLGVEKRAT-SPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHA 92
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLS-----------VGTMIAGWD-ET 162
                 H L     I+V   ++ + ++   + G G S           V  +IAG D + 
Sbjct: 93  RTAAVTHNLYYDEDINVESLTQSVCDLALRF-GEGASGEERLMSRPFGVALLIAGHDADD 151
Query: 163 GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVL 194
           G  L++ +  G   +    ++GSGS  A   L
Sbjct: 152 GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 183

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 39/152 (25%), Positives = 70/152 (46%), Gaps = 14/152 (9%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +    KEGV++  + RA+    + S S++KI+EI+ ++   M+G  AD +    + 
Sbjct: 34  GSTAIGIATKEGVVLGVEKRAT-SPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHA 92
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLS-----------VGTMIAGWD-ET 162
                 H L     I+V   ++ + ++   + G G S           V  +IAG D + 
Sbjct: 93  RTAAVTHNLYYDEDINVESLTQSVCDLALRF-GEGASGEERLMSRPFGVALLIAGHDADD 151
Query: 163 GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVL 194
           G  L++ +  G   +    ++GSGS  A   L
Sbjct: 152 GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 183

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 39/152 (25%), Positives = 70/152 (46%), Gaps = 14/152 (9%)
Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G+T +    KEGV++  + RA+    + S S++KI+EI+ ++   M+G  AD +    + 
Sbjct: 26  GSTAIGIATKEGVVLGVEKRAT-SPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHA 84
Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLS-----------VGTMIAGWD-ET 162
                 H L     I+V   ++ + ++   + G G S           V  +IAG D + 
Sbjct: 85  RTAAVTHNLYYDEDINVESLTQSVCDLALRF-GEGASGEERLMSRPFGVALLIAGHDADD 143
Query: 163 GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVL 194
           G  L++ +  G   +    ++GSGS  A   L
Sbjct: 144 GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAEL 175

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 53/123 (43%), Gaps = 8/123 (6%)
Query: 87  KKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANI----L 142
           KKII+ + +M  ++AG A D +     L  +C    L   R+++V  A  LL +      
Sbjct: 60  KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT 119
Query: 143 YSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG--RLKGTRFSVGS--GSPYAYGVLDSGY 198
            SY G    VG +I G+D++G  L      G    L GT     S     Y    LD+  
Sbjct: 120 QSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFI 179
Query: 199 KFD 201
           K D
Sbjct: 180 KID 182

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	272
1iru_L	204	20S proteasome; cell cycle, immune response, prote	1e-114
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	1e-110
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	1e-106
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	1e-105
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-102
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	1e-101
1iru_H	205	20S proteasome; cell cycle, immune response, prote	5e-98
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	1e-97
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	9e-97
1iru_I	234	20S proteasome; cell cycle, immune response, prote	2e-95
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	8e-95
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	2e-94
1iru_J	205	20S proteasome; cell cycle, immune response, prote	4e-93
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	1e-90
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	2e-90
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	3e-88
1iru_M	213	20S proteasome; cell cycle, immune response, prote	5e-88
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	1e-87
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	1e-87
1iru_N	219	20S proteasome; cell cycle, immune response, prote	3e-87
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	8e-87
1iru_K	201	20S proteasome; cell cycle, immune response, prote	3e-84
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-80
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	7e-79
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	1e-76
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	1e-34
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	2e-25
1iru_B	233	20S proteasome; cell cycle, immune response, prote	4e-22
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	2e-20
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	4e-20
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-19
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-19
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	1e-18
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	2e-18
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	6e-18
1iru_G	254	20S proteasome; cell cycle, immune response, prote	8e-18
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	8e-18
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	1e-17
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	2e-17
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	2e-17
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	3e-17
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	4e-17
1iru_F	263	20S proteasome; cell cycle, immune response, prote	1e-16
1iru_C	261	20S proteasome; cell cycle, immune response, prote	2e-16
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	4e-16
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	7e-16
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-15
1iru_D	248	20S proteasome; cell cycle, immune response, prote	2e-14

>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 =  326 bits (838), Expect = e-114
 Identities = 134/204 (65%), Positives = 165/204 (80%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG R
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
           + G  FSVGSGS YAYGV+D GY +D+ +E+A +LARRAIY AT+RDA SGG  ++Y+V 
Sbjct: 121 ISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVR 180

Query: 236 PNGWKKLSGDDVGELHYHYYPVTP 259
            +GW ++S D+V +LH  Y   TP
Sbjct: 181 EDGWIRVSSDNVADLHEKYSGSTP 204

>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 =  318 bits (818), Expect = e-110
 Identities = 125/235 (53%), Positives = 165/235 (70%), Gaps = 8/235 (3%)

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 ILYSYRGMGLSVGTMIAGWD-ETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK 199
           ++Y Y+G GLS+GTMI G+  + GP +YYVDS+G RLKG  F VGSG  +AYGVLDS YK
Sbjct: 161 LVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYK 220

Query: 200 FDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHY 254
           +D+S+E+A  L +R+I  A  RDA SGG  ++Y+V  +GW      DVGEL +  
Sbjct: 221 WDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKV 275

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

 Score =  305 bits (783), Expect = e-106
 Identities = 72/200 (36%), Positives = 116/200 (58%), Gaps = 1/200 (0%)

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 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
           I+  L+E+  +R+ +V   + L +N+L SYR     V  +I G D  G  +Y +D  GG 
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGA 120

Query: 176 L-KGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
           + +    + GSGS  AYGVL+  +  ++ ++EA ELA RAIY A  RD+ASG    V  +
Sbjct: 121 IEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKI 180

Query: 235 GPNGWKKLSGDDVGELHYHY 254
             + + + S ++V ++   +
Sbjct: 181 TEDEFYQYSPEEVEQILAKF 200

>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 =  304 bits (781), Expect = e-105
 Identities = 116/200 (58%), Positives = 151/200 (75%), Gaps = 1/200 (0%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ETGPGLYYVDSEGG 174
            +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G+  + GP +YYVDS+G 
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
           RLKG  F VGSG  +AYGVLDS YK+D+S+E+A  L +R+I  A  RDA SGG  ++Y+V
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV 180

Query: 235 GPNGWKKLSGDDVGELHYHY 254
             +GW      DVGEL +  
Sbjct: 181 TEDGWIYHGNHDVGELFWKV 200

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

 Score =  296 bits (759), Expect = e-102
 Identities = 13/202 (6%), Positives = 33/202 (16%), Gaps = 2/202 (0%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGG 174
           +          +      A+                +   I          +  +  +  
Sbjct: 62  LVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKIC 121

Query: 175 RLKGTRF-SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYY 233
            +K       G        ++    K +  + E         Y AT   +    V  +  
Sbjct: 122 DIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLE 181

Query: 234 VGPNGWKKLSGDDVGELHYHYY 255
                   L       +     
Sbjct: 182 KEYRDDITLDEGLELAITALTK 203

>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 =  294 bits (755), Expect = e-101
 Identities = 65/212 (30%), Positives = 112/212 (52%), Gaps = 10/212 (4%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
             GTTT+    K+ V++A + R +M  +I  ++ KK+ +I+ Y   T+AG   D Q   R
Sbjct: 6   ETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVR 65

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSE 172
            +  +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D   P ++ +D+ 
Sbjct: 66  YMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGIDT-APHVFSIDAA 124

Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVY 232
           GG ++    S GSGSP+ YGVL+S Y   M+++E  +L  RAI  A  RD+ASGG+  V 
Sbjct: 125 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVA 184

Query: 233 YVGP-NGWKKLSGDDVGEL--------HYHYY 255
            +   +G+ +L  D +           H+H++
Sbjct: 185 VITRKDGYVQLPTDQIESRIRKLGLILHHHHH 216

>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 =  284 bits (730), Expect = 5e-98
 Identities = 63/204 (30%), Positives = 99/204 (48%), Gaps = 4/204 (1%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ETGPGLYYVDSEGG 174
            +   H +       V  A+ L   + Y YR   L  G +IAGWD + G  +Y V   G 
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYRE-DLMAGIIIAGWDPQEGGQVYSVPMGGM 119

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
            ++ +    GSGS Y YG +D+ Y+  M+ EE  +    A+  A  RD +SGGV  +  +
Sbjct: 120 MVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAI 179

Query: 235 GPNGWKK--LSGDDVGELHYHYYP 256
             +G ++  L GD + +      P
Sbjct: 180 AESGVERQVLLGDQIPKFAVATLP 203

>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 =  285 bits (731), Expect = 1e-97
 Identities = 60/220 (27%), Positives = 98/220 (44%), Gaps = 7/220 (3%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            K  LH L+  R   V   +++L   L+ Y+G  +    ++ G D  GP LY V   G  
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGH-VGASLVVGGVDLNGPQLYEVHPHGSY 119

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
            +    ++GSG   A  +L+  ++ +M++E A EL   AI      D  SGG      + 
Sbjct: 120 SRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVIT 179

Query: 236 PNGWKKLSGDD------VGELHYHYYPVTPSTVEQEMAEV 269
             G K                 Y + P T   + +E+  +
Sbjct: 180 AGGAKLQRALSTPTEPVQRAGRYRFAPGTTPVLTREVRPL 219

>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 =  281 bits (721), Expect = 9e-97
 Identities = 61/199 (30%), Positives = 94/199 (47%), Gaps = 3/199 (1%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +  LH L  +    V  A+ ++ NI Y YR   L    ++AGWD+   G  Y    G  
Sbjct: 61  YQLELHGLELEEPPLVLAAANVVKNISYKYRE-DLLAHLIVAGWDQREGGQVYGTMGGML 119

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
           ++      GSGS Y YG +D+ YK  M+ EE       AI  A  RD +SGGV  +  + 
Sbjct: 120 IRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLVTIT 179

Query: 236 PNGWKK--LSGDDVGELHY 252
             G     + GD++ + + 
Sbjct: 180 AAGVDHRVILGDELPKFYD 198

>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 =  279 bits (716), Expect = 2e-95
 Identities = 61/221 (27%), Positives = 100/221 (45%), Gaps = 7/221 (3%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               LH L+  R   V  A+++L  +L+ YRG  +    ++ G D TGP LY +   G  
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGY-IGAALVLGGVDVTGPHLYSIYPHGST 119

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
            K    ++GSGS  A  V +  ++ DM  EEA  L   AI    F D  SG    +  + 
Sbjct: 120 DKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVIS 179

Query: 236 PNGWKKLSGDDVG------ELHYHYYPVTPSTVEQEMAEVA 270
            N    L    V          Y     T + + +++  + 
Sbjct: 180 KNKLDFLRPYTVPNKKGTRLGRYRCEKGTTAVLTEKITPLE 220

>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 =  278 bits (714), Expect = 8e-95
 Identities = 65/235 (27%), Positives = 108/235 (45%), Gaps = 15/235 (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 SVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAEL 210
               ++AG D TG  L+ + + G    G   S+GSGS  A  VL+S +K D++ EEA +L
Sbjct: 124 GAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKL 183

Query: 211 ARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVG-------ELHYHYYPVT 258
           A  AI    + D  SG    V  +      +   + +        +  Y +   T
Sbjct: 184 ASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREEKQKSYKFPRGT 238

>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 =  276 bits (709), Expect = 2e-94
 Identities = 61/221 (27%), Positives = 106/221 (47%), Gaps = 8/221 (3%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               LH L   R   V  A ++L   L+ Y+G  +    ++AG D TG  L+ + + G  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGH-IGAYLIVAGVDPTGSHLFSIHAHGST 119

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
             G   S+GSGS  A  VL+S +K D++ EEA +LA  AI    + D  SG    V  + 
Sbjct: 120 DVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVME 179

Query: 236 PNGWKKLSGD-------DVGELHYHYYPVTPSTVEQEMAEV 269
                +   +       +  +  Y +   T + +++ +  +
Sbjct: 180 IGKDAEYLRNYLTPNVREEKQKSYKFPRGTTAVLKESIVNI 220

>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 =  272 bits (698), Expect = 4e-93
 Identities = 49/194 (25%), Positives = 83/194 (42%), Gaps = 3/194 (1%)

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

Query: 111 HRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDET--GPGLYY 168
            + L  +  L+EL   R+I       ++AN+LY  R        +IAG D     P +  
Sbjct: 64  AQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICS 123

Query: 169 VDSEGGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGG 227
           +D  G  +    F V G+ +   YG+ +S ++ +M  +   E   +A+ +A  RDA SG 
Sbjct: 124 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGM 183

Query: 228 VASVYYVGPNGWKK 241
              V+ +  +    
Sbjct: 184 GVIVHIIEKDKITT 197

>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 =  269 bits (689), Expect = 1e-90
 Identities = 62/263 (23%), Positives = 102/263 (38%), Gaps = 20/263 (7%)

Query: 10  STSPFFGSGDELCPELSAAPSFSLPLSTDFDEFQKDTKATLKHAKGTTTLAFIFKEGVMV 69
           + S F        PEL           +       ++     H  GTT +A  +K GV++
Sbjct: 22  NLSSFTDYLRGHAPELLPENRIGHRSHSTRGGDGMESGDLAPH--GTTIVALTYKGGVLL 79

Query: 70  AADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRI 129
           A D RA+ G  I+S+ V+ +   + Y    +AG A       R   ++   +E      +
Sbjct: 80  AGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPL 139

Query: 130 SVTGASKLLANILYSYRGM---GLSVGTMIAGWD------ETGPGLYYVDSEGGRL--KG 178
           +  G +  LA+++    G    GL+V  ++ G+D           +   D  GGR   + 
Sbjct: 140 TFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERA 199

Query: 179 TRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVA-------SV 231
              +VGSGS +A   L   Y  D   E A   A  ++Y A   D+A+GG         + 
Sbjct: 200 GYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTA 259

Query: 232 YYVGPNGWKKLSGDDVGELHYHY 254
             +   G   +S +   EL    
Sbjct: 260 VTITQAGAVHVSEETTSELARRI 282

>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 =  265 bits (680), Expect = 2e-90
 Identities = 54/203 (26%), Positives = 98/203 (48%), Gaps = 5/203 (2%)

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

Query: 111 HRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPG-LYYV 169
              +     L+        + T AS +   + Y  +   L+ G ++AG+D+   G +Y +
Sbjct: 65  ADIVQYHLELYTSQYGTPSTETAAS-VFKELCYENKDN-LTAGIIVAGYDDKNKGEVYTI 122

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVA 229
              G   K      GSGS + YG  D  ++ +MS EE  +  + ++  A   D +SGGV 
Sbjct: 123 PLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVI 182

Query: 230 SVYYVGPNGWKKL--SGDDVGEL 250
            +  +   G ++L    D+  +L
Sbjct: 183 RMVVLTAAGVERLIFYPDEYEQL 205

>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 =  263 bits (673), Expect = 3e-88
 Identities = 58/248 (23%), Positives = 99/248 (39%), Gaps = 20/248 (8%)

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------ETGPGLYYVDSEG-GRLKGTRF-SVGSGSPYAYGV 193
                  GL    ++AG+D      ++   +   D+ G   ++   + +VGSGS +A   
Sbjct: 147 NLAAAMQGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSS 206

Query: 194 LDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP-------NGWKKLSGDD 246
           +   Y      +    +A  A+Y A   D+A+GG   V  + P       +G   +    
Sbjct: 207 MKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIIDADGAVDVPESR 266

Query: 247 VGELHYHY 254
           + EL    
Sbjct: 267 IAELARAI 274

>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 =  259 bits (665), Expect = 5e-88
 Identities = 46/197 (23%), Positives = 86/197 (43%), Gaps = 10/197 (5%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPG-LYYVDSEG 173
             + ++++ +N + ++    + +L+ ILYS R     V  +I G DE G G +Y  D  G
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVG 128

Query: 174 GRLKGTRFSVGSGSPYAYGVLDSG---------YKFDMSIEEAAELARRAIYHATFRDAA 224
              + +  + GS S     +LD+              +S++ A  L +     A  RD  
Sbjct: 129 SYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVY 188

Query: 225 SGGVASVYYVGPNGWKK 241
           +G    +  V   G ++
Sbjct: 189 TGDALRICIVTKEGIRE 205

>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 =  260 bits (665), Expect = 1e-87
 Identities = 56/217 (25%), Positives = 92/217 (42%), Gaps = 18/217 (8%)

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---GLSVGTMIAGWD------ETGPGL 166
           ++   +E      ++  G +  LA+++    G    GL+V  ++ G+D           +
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRI 120

Query: 167 YYVDSEGGRL--KGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAA 224
              D  GGR   +    +VGSGS +A   L   Y  D   E A   A  ++Y A   D+A
Sbjct: 121 VSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSA 180

Query: 225 SGGVA-------SVYYVGPNGWKKLSGDDVGELHYHY 254
           +GG         +   +   G   +S +   EL    
Sbjct: 181 TGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRI 217

>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 =  258 bits (662), Expect = 1e-87
 Identities = 51/190 (26%), Positives = 83/190 (43%), Gaps = 4/190 (2%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETG--PGLYYVDSE 172
             K  L++L  +R I     ++L+++ LY  R     VG ++AG +     P +   D  
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLI 126

Query: 173 GGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASV 231
           G   +   F V G+ S   +G+ +S Y+ ++  E+  E   +A+ +A  RDA SG  A V
Sbjct: 127 GCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAVV 186

Query: 232 YYVGPNGWKK 241
           Y +  +   K
Sbjct: 187 YIIKKDEVVK 196

>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 =  257 bits (660), Expect = 3e-87
 Identities = 50/208 (24%), Positives = 81/208 (38%), Gaps = 6/208 (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--MGLSVGTMIAGWDETGPGLYY 168
           + LG      EL  +    S       L   +YS R     L    +I G+ +    L Y
Sbjct: 65  QVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGY 124

Query: 169 VDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK--FDMSIEEAAELARRAIYHATFRDAASG 226
           VD  G   +    + G G+  A  +L    +    +S  EA +L  R +    +RDA S 
Sbjct: 125 VDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSY 184

Query: 227 GVASVYYVGPNGWKKLSGDDVGELHYHY 254
                  V   G +        E ++  
Sbjct: 185 NRFQTATVTEKGVEIEGPLST-ETNWDI 211

>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 =  256 bits (656), Expect = 8e-87
 Identities = 39/192 (20%), Positives = 77/192 (40%), Gaps = 4/192 (2%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSY--RGMGLSVGTMIAGWDE--TGPGLYYVDS 171
              +L+ +     +S    S  +   L           V  +I G+D+    P LY +D 
Sbjct: 62  ANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDY 121

Query: 172 EGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASV 231
            G +++    + G    Y + +LD  Y+ DM+ EE  +L +  +     R         V
Sbjct: 122 LGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIV 181

Query: 232 YYVGPNGWKKLS 243
             V  +G +++ 
Sbjct: 182 KIVDKDGIRQVD 193

>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 =  249 bits (639), Expect = 3e-84
 Identities = 45/195 (23%), Positives = 75/195 (38%), Gaps = 3/195 (1%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYS--YRGMGLSVGTMIAGWDE-TGPGLYYVDSE 172
              +L+++ N   +S T A+      L           V  ++AG+DE  GP LYY+D  
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYL 121

Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVY 232
               K    + G G+     +LD  Y   +S E A EL R+ +     R   +    SV 
Sbjct: 122 AALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVR 181

Query: 233 YVGPNGWKKLSGDDV 247
            +  NG   L     
Sbjct: 182 IIDKNGIHDLDNISF 196

>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 =  240 bits (615), Expect = 2e-80
 Identities = 47/206 (22%), Positives = 85/206 (41%), Gaps = 19/206 (9%)

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

Query: 115 GIKCRLHELA-NKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPG-LYYVDSE 172
               + +    N +++S+  A++ + ++LY  R     V T+IAG DE G G +Y  D  
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPV 128

Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKF-----------------DMSIEEAAELARRAI 215
           G   +    + G+ +      LD+   F                  +S+EE  +L R + 
Sbjct: 129 GSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSF 188

Query: 216 YHATFRDAASGGVASVYYVGPNGWKK 241
             AT R    G    +  V  +G +K
Sbjct: 189 TSATERHIQVGDGLEILIVTKDGVRK 214

>1ryp_N 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_N* 1jd2_M* 1g65_M 1vsy_N 1z7q_N 2f16_M* 2fak_M* 2fny_M* 2gpl_M* 3d29_M* 3dy3_M* 3dy4_M* 3e47_M* 3gpj_M* 3gpt_M* 3gpw_M* 3hye_M* 3l5q_R 3mg0_M* 3mg4_M* ... Length = 233

 Score =  237 bits (606), Expect = 7e-79
 Identities = 43/217 (19%), Positives = 83/217 (38%), Gaps = 14/217 (6%)

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

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

Query: 165 G-LYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK-----FDMSIEEAAELARRAIYHA 218
             L YV+  G        + G G+  A  +L             +++ A E    A+   
Sbjct: 125 QFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVL 184

Query: 219 TFRDAASGGVASVYYVGPNGWKKLSGD-DVGELHYHY 254
            +RDA S    S+  +  N       +  V  + + +
Sbjct: 185 YYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDF 221

>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 =  233 bits (595), Expect = 1e-76
 Identities = 43/216 (19%), Positives = 84/216 (38%), Gaps = 14/216 (6%)

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

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

Query: 166 -LYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFD-----MSIEEAAELARRAIYHAT 219
            L YV+  G        + G G+  A  +L      +      +++ A E    A+    
Sbjct: 159 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLY 218

Query: 220 FRDAASGGVASVYYVGPNGWKKLSGD-DVGELHYHY 254
           +RDA S    S+  +  N       +  V  + + +
Sbjct: 219 YRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDF 254

>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 =  124 bits (313), Expect = 1e-34
 Identities = 34/238 (14%), Positives = 88/238 (36%), Gaps = 27/238 (11%)

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 RGMGLSVGTMIAG----WDETGPGLYYVDSEGGRLKGTRFSV-GSGSPYAYGVLDSGYKF 200
           +     V   +A          P LY +  +G  +    F V G  +      +   Y+ 
Sbjct: 114 QPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRA 173

Query: 201 DMSIEEAAELARRAIYHATFRDAASGG-------VASVYYVGPN-GWKKLSGDDVGEL 250
           D+ +E A  +A  A+      +            VA +    P   +++++G  + +L
Sbjct: 174 DLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQL 231

>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 =  100 bits (249), Expect = 2e-25
 Identities = 35/217 (16%), Positives = 77/217 (35%), Gaps = 27/217 (12%)

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

Query: 113 NLGIKCRLHELA-NKRRISVTGASKLLANIL---YSYRGMGLSVGTMIAGW----DETGP 164
                      A ++R ++    + + A  L   ++ +     V   +A      +   P
Sbjct: 77  GGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRP 136

Query: 165 GLYYVDSEGGRLKGTRF-SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDA 223
            LY +  +G       F  +G  +      L   Y  + S+ +A  +A  A+   +   +
Sbjct: 137 ELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDALRIAVAALRAGSADTS 196

Query: 224 ASGG---------VASVYYVGPN-GWKKLSGDDVGEL 250
                        VA +    P   +++++G  +  L
Sbjct: 197 GGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQAL 233

>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 = 90.7 bits (226), Expect = 4e-22
 Identities = 40/209 (19%), Positives = 77/209 (36%), Gaps = 22/209 (10%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETG 163
           L  + R     + L  +  I      + +A+++         R  G  V  +I GW+E  
Sbjct: 85  LVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFG--VSLLICGWNEGR 142

Query: 164 PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFR 221
           P L+  D  G     K T  ++G         L+  Y  D+ +E+A   A   +  +   
Sbjct: 143 PYLFQSDPSGAYFAWKAT--AMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEG 200

Query: 222 DAASGGVASVYYVGPNGWKKLSGDDVGEL 250
                 +  V      G+++L+  +V + 
Sbjct: 201 QMTEDNI-EVGICNEAGFRRLTPTEVKDY 228

>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 = 85.0 bits (210), Expect = 2e-20
 Identities = 34/167 (20%), Positives = 59/167 (35%), Gaps = 9/167 (5%)

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

Query: 112 RNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDS 171
                K   +    KR      A+  LA    S + +      +I   ++    L     
Sbjct: 64  EKFEAKLEEYNGNLKR------AAVELAKEWRSDKVLRKLEAMLIVM-NQDTLLLVSGTG 116

Query: 172 EGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHA 218
           E         ++GSG  YA     +  K       A+E+AR A+  A
Sbjct: 117 EVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASEIARAALETA 163

>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 = 85.4 bits (212), Expect = 4e-20
 Identities = 47/210 (22%), Positives = 85/210 (40%), Gaps = 23/210 (10%)

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------YSYRGMGLSVGTMIAGWDETG 163
           L    R+     ++     +++    K +A+ +         R  G  V  + AG D+ G
Sbjct: 88  LVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYG--VSLIFAGIDQIG 145

Query: 164 PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFR 221
           P L+  D  G     K T  ++GSG       L+  YK ++  +EA  L  +A+  +   
Sbjct: 146 PRLFDCDPAGTINEYKAT--AIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEE 203

Query: 222 DAASGGVASVYYVGP-NGWKKLSGDDVGEL 250
                    +  +   N ++    ++V + 
Sbjct: 204 GEELKAP-EIASITVGNKYRIYDQEEVKKF 232

>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 = 84.2 bits (209), Expect = 1e-19
 Identities = 45/213 (21%), Positives = 89/213 (41%), Gaps = 24/213 (11%)

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 ETGPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHA 218
           E GP L+++D  G   +      ++GS S  A   L   Y   M+++EA + +   +   
Sbjct: 148 EKGPQLFHMDPSGTFVQCDAR--AIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQV 205

Query: 219 TFRDAASGGVASVYYVGPN-GWKKLSGDDVGEL 250
                 +  +  +  V P   +   + +++ E+
Sbjct: 206 MEEKLNATNI-ELATVQPGQNFHMFTKEELEEV 237

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

 Score = 81.2 bits (201), Expect = 1e-18
 Identities = 49/211 (23%), Positives = 88/211 (41%), Gaps = 25/211 (11%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETG 163
           L  + R+    + L     I+V   +K + +           R  G  V  +IAG +E  
Sbjct: 88  LIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFG--VSLLIAGVNE-V 144

Query: 164 PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFR 221
           P LY  D  G     K T  ++G G        +  Y+ D+S ++A  L   A+  +   
Sbjct: 145 PKLYETDPSGALLEYKAT--AIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIES 202

Query: 222 DAASGGVASVYYVGP--NGWKKLSGDDVGEL 250
           +     +  V YV      +K++S +++   
Sbjct: 203 ELVPENI-EVGYVKVDDRTFKEVSPEELKPY 232

>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 = 79.6 bits (196), Expect = 2e-18
 Identities = 32/164 (19%), Positives = 54/164 (32%), Gaps = 9/164 (5%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             K  +H+    +              L     M L V         TG G      E  
Sbjct: 61  ERKLEMHQGHLLKSAVELAKDWRTDRALRKLEAM-LIVADEKESLIITGIGDVVQPEEDQ 119

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHA 218
                  ++GSG  YA          + +   A E+  +++  A
Sbjct: 120 -----ILAIGSGGNYALSAAR--ALVENTELSAHEIVEKSLRIA 156

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

 Score = 79.7 bits (197), Expect = 6e-18
 Identities = 41/178 (23%), Positives = 73/178 (41%), Gaps = 21/178 (11%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDE-T 162
           L    R+    +       I V    + L++I          R  G  V  + AG+D+  
Sbjct: 86  LINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFG--VSFIYAGYDDRY 143

Query: 163 GPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHA 218
           G  LY  +  G     K    SVG+ +  A  +L   YK DM +++A ELA + +   
Sbjct: 144 GYQLYTSNPSGNYTGWKAI--SVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKT 199

>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 = 79.7 bits (197), Expect = 8e-18
 Identities = 30/178 (16%), Positives = 60/178 (33%), Gaps = 22/178 (12%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWD-ET 162
           L    R             I +   +  +A  +       + R  G     M+  +    
Sbjct: 87  LADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFG--CSFMLGSYSVND 144

Query: 163 GPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHA 218
           G  LY +D  G      G   ++G     A   ++     +M+  +  +   + IY  
Sbjct: 145 GAQLYMIDPSGVSYGYWGC--AIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIV 200

>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 = 79.2 bits (196), Expect = 8e-18
 Identities = 49/217 (22%), Positives = 85/217 (39%), Gaps = 34/217 (15%)

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 ETGPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYK----FDMSIEEAAELARRA 214
           ++G  L      G    L GT  ++G+ S  A   L+         D + +E  +    A
Sbjct: 138 KSGAHLLEFQPSGNVTELYGT--AIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEA 195

Query: 215 IYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGEL 250
           I  +   ++ +    S+  VG +  +    G+ V + 
Sbjct: 196 ISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKY 232

>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 = 78.8 bits (195), Expect = 1e-17
 Identities = 38/216 (17%), Positives = 72/216 (33%), Gaps = 30/216 (13%)

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

Query: 115 GIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWD-ETG 163
            ++ +             +     +K +AN+          R +G  V       D E G
Sbjct: 85  ALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLG--VILTFVSVDEELG 142

Query: 164 PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYK-------FDMSIEEAAELARRA 214
           P +Y  D  G     K T  + G         L++ +K        + S E+  E A   
Sbjct: 143 PSIYKTDPAGYYVGYKAT--ATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITH 200

Query: 215 IYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGEL 250
           +  A   + +   +  V     + +  LS +++ E 
Sbjct: 201 MIDALGTEFSKNDL-EVGVATKDKFFTLSAENIEER 235

>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 = 78.5 bits (194), Expect = 2e-17
 Identities = 48/215 (22%), Positives = 91/215 (42%), Gaps = 26/215 (12%)

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 D-ETGPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIY 216
           D + G  L++ +  G   R      ++GSGS  A   L + +   ++++EA  L  + + 
Sbjct: 140 DADDGYQLFHAEPSGTFYRYNAK--AIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILK 197

Query: 217 HATFRDAASGGVASVYYVGP-NGWKKLSGDDVGEL 250
                +      A +  +   +G+K    +   EL
Sbjct: 198 Q-VMEEKLDENNAQLSCITKQDGFKIYDNEKTAEL 231

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

 Score = 76.6 bits (188), Expect = 2e-17
 Identities = 31/165 (18%), Positives = 60/165 (36%), Gaps = 12/165 (7%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             K R       +      A+  LA    + R +      ++   D+    +   + E  
Sbjct: 61  EAKLREWGGNLTK------AAVELAKDWRTDRVLRRLEALLLVA-DKENIFIISGNGEVI 113

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKF-DMSIEEAAELARRAIYHA 218
           +      ++GSG PYA     +  +  D+S   A E+  +A+  A
Sbjct: 114 QPDDDAAAIGSGGPYALAAAKALLRNTDLS---AREIVEKAMTIA 155

>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 = 77.7 bits (192), Expect = 3e-17
 Identities = 43/215 (20%), Positives = 88/215 (40%), Gaps = 29/215 (13%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWD--E 161
           L  K R+    H L  +  ++V   ++ +A +          R  G  V T+IAG+D  +
Sbjct: 83  LIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFG--VSTLIAGFDPRD 140

Query: 162 TGPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYK---FDMSIEEAAELARRAIY 216
             P LY  +  G          ++G  S      L+  Y       ++EE  +L  R++ 
Sbjct: 141 DEPKLYQTEPSGIYSSWSAQ--TIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLL 198

Query: 217 HATFRDAASGGVASVYYVGP-NGWKKLSGDDVGEL 250
                 A +  +     V P +    LS +++ + 
Sbjct: 199 EVVQTGAKNIEIT---VVKPDSDIVALSSEEINQY 230

>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 = 77.3 bits (191), Expect = 4e-17
 Identities = 43/179 (24%), Positives = 73/179 (40%), Gaps = 23/179 (12%)

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--VSLLIAGHDEF 142

Query: 162 TGPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHA 218
            G  LY VD  G     K T  ++G GS  A   L+  +  ++ +E+A  +A   +  +
Sbjct: 143 NGFSLYQVDPSGSYFPWKAT--AIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKES 199

>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 = 76.5 bits (189), Expect = 1e-16
 Identities = 47/214 (21%), Positives = 82/214 (38%), Gaps = 29/214 (13%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G+ T+    K   ++ A  RA       +   KKI+ ++ ++  ++AG  AD     R 
Sbjct: 31  QGSATVGLKSKTHAVLVALKRAQS---ELAAHQKKILHVDNHIGISIAGLTADA----RL 83

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETG 163
           L    R           R + V+    L+ +        Y  R  G  VG +IAG+D+ G
Sbjct: 84  LCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYG--VGLLIAGYDDMG 141

Query: 164 PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDM--SIEEAAELARRAIY--H 217
           P ++           +    S+G+ S  A   L+      M  ++ E  +   RA+    
Sbjct: 142 PHIFQTCPSANYFDCRAM--SIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETL 199

Query: 218 ATFRDAASGGVASVYYVGPN-GWKKLSGDDVGEL 250
              +D  +  V S+  VG +  +     DDV   
Sbjct: 200 PAEQDLTTKNV-SIGIVGKDLEFTIYDDDDVSPF 232

>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 = 75.8 bits (187), Expect = 2e-16
 Identities = 49/215 (22%), Positives = 80/215 (37%), Gaps = 26/215 (12%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDE-T 162
           L  + RL    + L  +  I        L +I          R  G  V  +  GWD+  
Sbjct: 86  LTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFG--VSLLYIGWDKHY 143

Query: 163 GPGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKF-DMSIEEAAELARRAIYHAT 219
           G  LY  D  G  G  K T   +G+ S  A  +L   YK  +M+++ A  LA + +    
Sbjct: 144 GFQLYQSDPSGNYGGWKAT--CIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTM 201

Query: 220 FRDAASGGVASVYYVGPNG----WKKLSGDDVGEL 250
                S     +  +         + L   +V +L
Sbjct: 202 DVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQL 236

>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 = 74.6 bits (184), Expect = 4e-16
 Identities = 41/180 (22%), Positives = 68/180 (37%), Gaps = 24/180 (13%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETG 163
           L  + R      +   K  I +   +  L   +       S R  G  V T+  G D+ G
Sbjct: 84  LVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFG--VSTIFGGVDKNG 141

Query: 164 PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVL---DSGYKFDMSIEEAAELARRAIYHA 218
             LY ++  G     KG   + G G   A   L      +   +S  EA + A + IY A
Sbjct: 142 AHLYMLEPSGSYWGYKGA--ATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLA 199

>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 = 74.7 bits (184), Expect = 7e-16
 Identities = 41/180 (22%), Positives = 68/180 (37%), Gaps = 24/180 (13%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETG 163
           L  + R      +   K  I +   +  L   +       S R  G  V T+  G D+ G
Sbjct: 88  LVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFG--VSTIFGGVDKNG 145

Query: 164 PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVL---DSGYKFDMSIEEAAELARRAIYHA 218
             LY ++  G     KG   + G G   A   L      +   +S  EA + A + IY A
Sbjct: 146 AHLYMLEPSGSYWGYKGA--ATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLA 203

>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 = 73.4 bits (181), Expect = 1e-15
 Identities = 43/213 (20%), Positives = 74/213 (34%), Gaps = 27/213 (12%)

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------YSYRGMGLSVGTMIAGWD-ETG 163
             + R      +      I V    K +A+I          R +G     ++ G D E G
Sbjct: 91  VQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLG--CCMILIGIDEEQG 148

Query: 164 PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYK--FDMSIEEAAELARRAIYHAT 219
           P +Y  D  G     K T  + G     +   L+   K  FD + E+  E A   +    
Sbjct: 149 PQVYKCDPAGYYCGFKAT--AAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVL 206

Query: 220 FRDAASGGVASVYYVGP--NGWKKLSGDDVGEL 250
             D     +  V  V      ++ L+  ++   
Sbjct: 207 SIDFKPSEI-EVGVVTVENPKFRILTEAEIDAH 238

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

 Score = 70.3 bits (173), Expect = 2e-14
 Identities = 38/213 (17%), Positives = 85/213 (39%), Gaps = 28/213 (13%)

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

Query: 114 LGIKCRL----HELANKRRISVTGASKLLANIL------YSYRGMGLSVGTMIAGWDETG 163
           +  + R+    H L  +  ++V   ++ +A++          R  G  +  +I G+D  G
Sbjct: 83  VINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFG--ISALIVGFDFDG 140

Query: 164 -PGLYYVDSEG--GRLKGTRFSVGSGSPYAYGVLDSGYKFDMSI--EEAAELARRAIYHA 218
            P LY  D  G     K    ++G G+      L+  Y  +     +   +L  +A+   
Sbjct: 141 TPRLYQTDPSGTYHAWKAN--AIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEV 198

Query: 219 TFRDAASGGVASVYYVGPN-GWKKLSGDDVGEL 250
                 +  +A    +  +   K L+ +++ + 
Sbjct: 199 VQSGGKNIELA---VMRRDQSLKILNPEEIEKY 228

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	272
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	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
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	100.0
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	100.0
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	100.0

>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=1.3e-53  Score=376.01  Aligned_cols=222  Identities=16%  Similarity=0.106  Sum_probs=209.7

Q ss_pred             CCCCCC-CCcchhhHh-HHhhccCCC-CceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhH
Q 024133           31 FSLPLS-TDFDEFQKD-TKATLKHAK-GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADC  107 (272)
Q Consensus        31 ~~~p~~-~~g~~~q~e-a~~av~~~~-Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~  107 (272)
                      +.++.| ||||+||+| |++||+  + |+|+|||+++||||||+|+|.+ +.++.+++.+||++|++||+|++||..+|+
T Consensus         5 ~~~t~fsp~Grl~QvEYA~~av~--~~Gtt~vgi~~~dgVvlaad~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~   81 (243)
T 1ryp_A            5 RHITIFSPEGRLYQVEYAFKATN--QTNINSLAVRGKDCTVVISQKKVP-DKLLDPTTVSYIFCISRTIGMVVNGPIPDA   81 (243)
T ss_dssp             GTSSSCCTTSCCHHHHHHHHHTT--TTCCCEEEEECSSEEEEEEECCCC-CTTBCGGGCCSEEECSSSCEEEEESCHHHH
T ss_pred             CCCceECCCCeeHHHHHHHHHHh--cCCCcEEEEEeCCEEEEEEEecCC-ccccCCCcCCceEEECCCEEEEEEecHHHH
Confidence            344444 799999999 999998  9 9999999999999999999999 799999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHh--cc--CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceE
Q 024133          108 QFWHRNLGIKCRLHELANKRRISVTGASKLLANILYS--YR--GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~--~R--~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      +.|.++++.+++.|++.++++++++.+++++++++|.  .|  ..|+++++||+|||+ +||+||++||+|++.++++.|
T Consensus        82 ~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~~~~~~~a  161 (243)
T 1ryp_A           82 RNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATA  161 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcCCCCEEEEEEEE
Confidence            9999999999999999999999999999999999954  34  357889999999996 789999999999999999999


Q ss_pred             EccChhHHHHHHHccCCC-------CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhC
Q 024133          183 VGSGSPYAYGVLDSGYKF-------DMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~~~-------~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~  255 (272)
                      +|+|+.+++++||+.|++       +||++||++++++||..+.+|| .++++++|++|+++|+++++++||++++..++
T Consensus       162 ~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd-~s~~~iev~vi~~~g~~~l~~~ei~~~~~~~~  240 (243)
T 1ryp_A          162 TGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTE-FSKNDLEVGVATKDKFFTLSAENIEERLVAIA  240 (243)
T ss_dssp             ESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCC-CCTTSEEEEEEETTEEEECCHHHHHHHHHHHT
T ss_pred             ECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCeEECCHHHHHHHHHHhh
Confidence            999999999999999999       9999999999999999999999 78999999999999999999999999999886


Q ss_pred             C
Q 024133          256 P  256 (272)
Q Consensus       256 ~  256 (272)
                      .
T Consensus       241 ~  241 (243)
T 1ryp_A          241 E  241 (243)
T ss_dssp             T
T ss_pred             c
Confidence            4

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

Probab=100.00  E-value=3.3e-53  Score=371.19  Aligned_cols=223  Identities=18%  Similarity=0.224  Sum_probs=210.6

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.++.| ||||+||+| |+++++  +|||+|||+++||||||+|+|.+ +.++.+++.+||++|+++|++++||..+
T Consensus         4 ~yd~~~t~fsp~Grl~QvEya~~av~--~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~a   80 (233)
T 1iru_B            4 GYSFSLTTFSPSGKLVQIEYALAAVA--GGAPSVGIKAANGVVLATEKKQK-SILYDERSVHKVEPITKHIGLVYSGMGP   80 (233)
T ss_dssp             CCCSBSCCCCTTSCCHHHHHHHHHHH--TSCCEEEEECSSCEEEEEECCCC-CSSBCSTTCCSSEESSSSEEEEEEECHH
T ss_pred             CccCCceeECCCCeEehhHhHHHHHH--cCCcEEEEEeCCEEEEEEEecCC-ccccccccCCeEEEECCCEEEEEEEccH
Confidence            344555555 799999999 999999  99999999999999999999999 6899999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.+.++++.+++.|+++++++++++.+++++++++|.|+.    .|+++++||+|||++||+||++||+|++.++++.
T Consensus        81 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~  160 (233)
T 1iru_B           81 DYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKAT  160 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCCCCeEEEECCCCCEEEeeEE
Confidence            999999999999999999999999999999999999987633    4788999999999889999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhh
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHY  254 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~  254 (272)
                      |+|+|+.+++++||+.|+++||++||++++++||..+.+|| .++++++|++|+++|++.++++||++++..+
T Consensus       161 aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d-~sg~~i~v~vi~~~g~~~l~~~ei~~~~~~~  232 (233)
T 1iru_B          161 AMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQ-MTEDNIEVGICNEAGFRRLTPTEVKDYLAAI  232 (233)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSC-CCSSSEEEEEEETTEEEECCHHHHHHHHTTC
T ss_pred             EECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhcc-CCCCCEEEEEEECCCEEECCHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999 7799999999999999999999999999765

>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=2.8e-53  Score=377.71  Aligned_cols=231  Identities=19%  Similarity=0.208  Sum_probs=216.7

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+
T Consensus         4 ~yd~~~t~fsp~Grl~QvEYA~~av~--~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~a   81 (261)
T 1iru_C            4 RYDSRTTIFSPEGRLYQVEYAMEAIG--HAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITS   81 (261)
T ss_dssp             TTCCCTTCCCTTSCCHHHHHHHHHHT--TSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHH
T ss_pred             ccCCCCccCCCCCeehHHHhHHHHHh--cCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHH
Confidence            355566655 799999999 999998  9999999999999999999999999888888899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcC-CCCeeEEEeCCCceeecCc
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTR  180 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~  180 (272)
                      |++.|.++++.+++.|++.++++++++.+++++++++|.+|.    .|+++++||+|||+ +||+||++||+|++.++++
T Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~  161 (261)
T 1iru_C           82 DANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKA  161 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSE
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECCCceEEeeee
Confidence            999999999999999999999999999999999999998853    37889999999995 7899999999999999999


Q ss_pred             eEEccChhHHHHHHHccCCC-CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC----eEEcCcchHHHHHHhhC
Q 024133          181 FSVGSGSPYAYGVLDSGYKF-DMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG----WKKLSGDDVGELHYHYY  255 (272)
Q Consensus       181 ~AiG~gs~~a~~~Le~~~~~-~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg----~~~l~~~ei~~~~~~~~  255 (272)
                      .|+|+|+.+++++||+.|++ +||++||++++++||..+.++|..++++++|++|+++|    |++++++||++++.++.
T Consensus       162 ~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~~~ei~~~l~~~~  241 (261)
T 1iru_C          162 TCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHE  241 (261)
T ss_dssp             EEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHHHHH
T ss_pred             EEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECCHHHHHHHHHHHH
Confidence            99999999999999999999 99999999999999999999999999999999999987    89999999999999996


Q ss_pred             CCCCc
Q 024133          256 PVTPS  260 (272)
Q Consensus       256 ~~~~~  260 (272)
                      ..+.+
T Consensus       242 ~~~~~  246 (261)
T 1iru_C          242 EEEAK  246 (261)
T ss_dssp             TTTTT
T ss_pred             hchhh
Confidence            55443

>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=1.9e-52  Score=366.33  Aligned_cols=220  Identities=21%  Similarity=0.311  Sum_probs=203.8

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.+++ ++.+++.+||++|+++|++++||..+
T Consensus         7 ~yd~~~t~fsp~Grl~QvEya~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~~-~~~~~~~~Ki~~i~~~i~~~~aG~~a   83 (233)
T 1yar_A            7 AYSRAITVFSPDGRLFQVEYAREAVK--KGSTALGMKFANGVLLISDKKVRSR-LIEQNSIEKIQLIDDYVAAVTSGLVA   83 (233)
T ss_dssp             ------CCCCTTSCCHHHHHHHHHHT--TSCCEEEEEETTEEEEEECCCCCCT-TBCSTTCCSEEEEETTEEEEEEEBHH
T ss_pred             cCCCCCceECcCCeeHHHHhHHHHHh--cCCcEEEEEECCEEEEEEeccCCcc-cccccccCeEEEecCCEEEEEeeCHH
Confidence            344555555 799999999 999998  9999999999999999999999985 78889999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.+.++++.+++.|++.++++++++.+++++++++|.++.    .|+++++||+|||++||+||.+||+|++.++++.
T Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~  163 (233)
T 1yar_A           84 DARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKAT  163 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeCCCCEEEEECCCCCEEeeeEE
Confidence            999999999999999999999999999999999999997754    2788999999999889999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC-eEEcCcchHHHHH
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG-WKKLSGDDVGELH  251 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~~ei~~~~  251 (272)
                      |+|+|+.+++++||+.|+++||++||++++++||..+.+||. ++++++|++|+++| +++++++||++++
T Consensus       164 aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~-s~~~i~v~vi~~~~~~~~~~~~ei~~~l  233 (233)
T 1yar_A          164 AIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKYRIYDQEEVKKFL  233 (233)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             EEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEECCCCEEECCHHHHHhhC
Confidence            999999999999999999999999999999999999999997 79999999999998 9999999998763

>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=5.5e-52  Score=365.78  Aligned_cols=226  Identities=19%  Similarity=0.216  Sum_probs=211.0

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.+.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.++|.++.+++.+||++|+++|+|++||..+|
T Consensus         5 yd~~~t~fsp~Grl~QvEyA~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD   82 (244)
T 1ryp_C            5 YDSRTTIFSPEGRLYQVEYALESIS--HAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GCCCTTCBCTTSCBHHHHHHHHHHT--TSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             cCCCCceECcCCeeHHHHhHHHHHh--cCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHH
Confidence            34455555 799999999 999998  99999999999999999999999987776899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEc-CCCCeeEEEeCCCceeecCce
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWD-ETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D-~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      ++.|.++++.+++.|++.++++++++.+++++++++|.++    ..|+++++||+||| ++||+||++||+|++.+++++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~  162 (244)
T 1ryp_C           83 AEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAI  162 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCCccEEeeeEE
Confidence            9999999999999999999999999999999999998762    23788999999999 678999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEc--CCC----eEEcCcchHHHHHHhhC
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG--PNG----WKKLSGDDVGELHYHYY  255 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~--kdg----~~~l~~~ei~~~~~~~~  255 (272)
                      |+|+|+.+++++||+.|+++||++||++++++||..+.+||..++++++|++|+  ++|    ++.++++||++++.+++
T Consensus       163 aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l~~~ei~~~~~~~~  242 (244)
T 1ryp_C          163 SVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVKTG  242 (244)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHHHHT
T ss_pred             EECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEECCHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999966689999999999  886    89999999999999886


Q ss_pred             C
Q 024133          256 P  256 (272)
Q Consensus       256 ~  256 (272)
                      .
T Consensus       243 ~  243 (244)
T 1ryp_C          243 I  243 (244)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=100.00  E-value=6.4e-53  Score=375.90  Aligned_cols=229  Identities=21%  Similarity=0.333  Sum_probs=210.9

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.++.| |+||+||+| |++||+  +|||+|||+++||||||+|+|.+++ ++.+++.+||++|++||+|++||..+
T Consensus        11 ~yd~~~t~fSp~Grl~QvEYA~~av~--~Gtt~vgi~~~dgVVlaaD~r~~~~-li~~~~~~KI~~i~d~i~~~~aG~~a   87 (264)
T 3h4p_A           11 AYDRAITVFSPEGRLYQVEYAREAVR--RGTTAIGIACKDGVVLAVDRRITSK-LVKIRSIEKIFQIDDHVAAATSGLVA   87 (264)
T ss_dssp             -----CCCCCSSSSCHHHHHHHHHHH--HSCCEEEECCSSEEEEEEECCCCST-TBCTTTCCCEEEEETTEEEEEEECSH
T ss_pred             ccCCCcceECCCCeeHHHHhHHHHHh--cCCcEEEEEECCEEEEEEecCccCC-ccccCccccEEEecCcEEEEeccchH
Confidence            345666666 799999999 999998  9999999999999999999999985 78889999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.+.++++.+++.|++.++++++++.+++++++++|.++.    .|+++++||||||++||+||++||+|++.+++++
T Consensus        88 D~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~gp~Ly~iDp~G~~~~~~~~  167 (264)
T 3h4p_A           88 DARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKAT  167 (264)
T ss_dssp             HHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETTEEEEEEECTTCCCEEESEE
T ss_pred             HHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCCcCEEEEECCCceEEecCeE
Confidence            999999999999999999999999999999999999987743    3788999999999989999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC--CeEEcCcchHHHHHHhhCCCCC
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN--GWKKLSGDDVGELHYHYYPVTP  259 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd--g~~~l~~~ei~~~~~~~~~~~~  259 (272)
                      |+|+|+.+++++||+.|+++||++||++++++||..+.++  .++++++|++|+++  +|++++++||++++..+....+
T Consensus       168 aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~--~sg~~iev~vi~~~~~~~~~l~~~ei~~~~~~~~~~~~  245 (264)
T 3h4p_A          168 AIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED--IKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVKKKLN  245 (264)
T ss_dssp             EESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS--CCTTSEEEEEEETTTTEEEECCTTTTGGGTTTTTTSSS
T ss_pred             EECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc--cCCCeEEEEEEEeCCCcEEECCHHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999999999999999986  79999999999975  6999999999999999987654


Q ss_pred             ch
Q 024133          260 ST  261 (272)
Q Consensus       260 ~~  261 (272)
                      ++
T Consensus       246 ~~  247 (264)
T 3h4p_A          246 EE  247 (264)
T ss_dssp             CC
T ss_pred             cc
Confidence            33

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

Probab=100.00  E-value=1.7e-51  Score=362.17  Aligned_cols=220  Identities=19%  Similarity=0.280  Sum_probs=207.5

Q ss_pred             CCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHH
Q 024133           31 FSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQ  108 (272)
Q Consensus        31 ~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~  108 (272)
                      +.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.+.|.++.+++.+||++|++||++++||..+|++
T Consensus         4 ~~~t~fsp~Grl~QvEya~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~   81 (241)
T 1ryp_D            4 RALSIFSPDGHIFQVEYALEAVK--RGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSR   81 (241)
T ss_dssp             CCCSCCBTTTBCHHHHHHHHHHT--TSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHH
T ss_pred             CCceeECCCCcchHHHHHHHHHH--cCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHHH
Confidence            445555 799999999 999998  9999999999999999999999998888777999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcC--CCCeeEEEeCCCceeecCceE
Q 024133          109 FWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDE--TGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~--~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      .|.++++.+++.|++.++++++++.+++++++++|.++.    .|+++++||+|||+  +||+||++||+|++.++++.|
T Consensus        82 ~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~a  161 (241)
T 1ryp_D           82 ILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQT  161 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCCCCEEEeeeEE
Confidence            999999999999999999999999999999999998743    27889999999998  789999999999999999999


Q ss_pred             EccChhHHHHHHHccC---CCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC-eEEcCcchHHHHHHhhC
Q 024133          183 VGSGSPYAYGVLDSGY---KFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG-WKKLSGDDVGELHYHYY  255 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~---~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~~ei~~~~~~~~  255 (272)
                      +|+|+.+++++||+.|   +++||++||++++++||..+.+   .++++++|++|+++| ++.++++|+++++.+++
T Consensus       162 iG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~---~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~~~  235 (241)
T 1ryp_D          162 IGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ---TGAKNIEITVVKPDSDIVALSSEEINQYVTQIE  235 (241)
T ss_dssp             ESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC---SCSTTEEEEEEETTTEEEECCHHHHHHHHHHHT
T ss_pred             ECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc---CCCCcEEEEEEECCCcEEECCHHHHHHHHHHHh
Confidence            9999999999999999   9999999999999999999985   788999999999985 99999999999999885

>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=8.1e-52  Score=365.20  Aligned_cols=225  Identities=17%  Similarity=0.162  Sum_probs=210.6

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCC-CceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCCh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAK-GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGA  104 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~-Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~  104 (272)
                      .+...++.| |+||+||+| |++||+  + |||+|||+++||||||+|+|.+ +.++.+++.+||++|+++|++++||..
T Consensus         8 ~yd~~~t~fsp~Grl~QvEya~~av~--~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~   84 (246)
T 1iru_A            8 GFDRHITIFSPEGRLYQVEYAFKAIN--QGGLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCVMTGMT   84 (246)
T ss_dssp             TTTTTSSCCCTTSCCHHHHHHHHHHH--TTCCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEEEEECH
T ss_pred             CcCCCCccCCCCCeehHHHHHHHHHh--cCCCCEEEEEeCCEEEEEEeecCC-CcccCCCccCceEEECCCEEEEEeccH
Confidence            345555555 799999999 999998  7 9999999999999999999999 689999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecC
Q 024133          105 ADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGT  179 (272)
Q Consensus       105 aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~  179 (272)
                      +|++.|.++++.+++.|++.++++++++.+++++++++|.|+    ..|+++++||+|||+ +||+||++||+|++.+++
T Consensus        85 aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~  164 (246)
T 1iru_A           85 ADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFK  164 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCeeEEEee
Confidence            999999999999999999999999999999999999976542    347889999999996 789999999999999999


Q ss_pred             ceEEccChhHHHHHHHccCCC--CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC--eEEcCcchHHHHHHhhC
Q 024133          180 RFSVGSGSPYAYGVLDSGYKF--DMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG--WKKLSGDDVGELHYHYY  255 (272)
Q Consensus       180 ~~AiG~gs~~a~~~Le~~~~~--~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg--~~~l~~~ei~~~~~~~~  255 (272)
                      +.|+|+|+.+++++||+.|++  +||++||++++++||..+.+|| .++++++|++|+++|  ++.++++|+++++.+++
T Consensus       165 ~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd-~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~~~~~  243 (246)
T 1iru_A          165 ATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSID-FKPSEIEVGVVTVENPKFRILTEAEIDAHLVALA  243 (246)
T ss_dssp             EEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCC-CCTTSEEEEEEETTEEEEEECCHHHHHHHHHHHH
T ss_pred             EEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCCeEEECCHHHHHHHHHHhh
Confidence            999999999999999999999  9999999999999999999999 889999999999998  69999999999998885


Q ss_pred             C
Q 024133          256 P  256 (272)
Q Consensus       256 ~  256 (272)
                      +
T Consensus       244 ~  244 (246)
T 1iru_A          244 E  244 (246)
T ss_dssp             T
T ss_pred             c
Confidence            3

>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=2.5e-52  Score=367.52  Aligned_cols=216  Identities=22%  Similarity=0.281  Sum_probs=205.1

Q ss_pred             CCCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHH
Q 024133           36 STDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL  114 (272)
Q Consensus        36 ~~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l  114 (272)
                      .||||+||+| |++|++  +|||+|||+++||||||+|+|.++|.++ +++.+||++|+++|+|++||..+|++.+.+++
T Consensus         8 sp~Grl~QvEyA~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~   84 (242)
T 1ryp_E            8 SPEGRLFQVEYSLEAIK--LGSTAIGIATKEGVVLGVEKRATSPLLE-SDSIEKIVEIDRHIGCAMSGLTADARSMIEHA   84 (242)
T ss_dssp             CTTSCBHHHHHHHHHHT--TSCCEEEEECSSCEEEEEECCCSSTTBC-GGGCCCEEEEETTEEEEEEESGGGHHHHHHHH
T ss_pred             CCCCcChHHHhHHHHHH--cCCCEEEEEECCEEEEEEeecCCCcCcc-CccCCceEEEcCCEEEEEeecHHHHHHHHHHH
Confidence            3799999999 999998  9999999999999999999999998766 88999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----------CCcceeEEEEEEEc-CCCCeeEEEeCCCceeecCceEE
Q 024133          115 GIKCRLHELANKRRISVTGASKLLANILYSYR----------GMGLSVGTMIAGWD-ETGPGLYYVDSEGGRLKGTRFSV  183 (272)
Q Consensus       115 ~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----------~~p~~v~~iiaG~D-~~gp~Ly~iDp~G~~~~~~~~Ai  183 (272)
                      +.+++.|++.++++++++.+++++++++|.++          ..|+++++||+||| ++||+||++||+|++.+++++|+
T Consensus        85 ~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~ai  164 (242)
T 1ryp_E           85 RTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAI  164 (242)
T ss_dssp             HHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEeccCEEEE
Confidence            99999999999999999999999999998853          22778999999999 67899999999999999999999


Q ss_pred             ccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC-eEEcCcchHHHHHHhhC
Q 024133          184 GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG-WKKLSGDDVGELHYHYY  255 (272)
Q Consensus       184 G~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~~ei~~~~~~~~  255 (272)
                      |+|+.+++++||+.|+++||++||++++++||..+.+| ..++++++|++|+++| +++++++|+++++.+++
T Consensus       165 Gsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~~~~~ei~~~~~~~~  236 (242)
T 1ryp_E          165 GSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEE-KLDENNAQLSCITKQDGFKIYDNEKTAELIKELK  236 (242)
T ss_dssp             STTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEEETTTEEEECCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEECCCCeEECCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999998 6789999999999998 69999999999999884

>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=7.8e-52  Score=364.29  Aligned_cols=222  Identities=19%  Similarity=0.260  Sum_probs=207.9

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.+..| ||||+||+| |++|++  +|||+|||+++||||||+|+|.+.|.++ +++.+||++|+++|++++||..+
T Consensus         7 ~yd~~~t~fsp~Grl~QvEya~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~a   83 (241)
T 1iru_E            7 EYDRGVNTFSPEGRLFQVEYDIEAIK--LGSTAIGIQTSEGVCLAVEKRITSPLME-PSSIEKIVEIDAHIGCAMSGLIA   83 (241)
T ss_dssp             -CCCCTTCBCTTSCBHHHHHHHHHHT--TSCCEEEEEETTEEEEEEECCCCCTTBC-TTSCCSEEEEETTEEEEEEECHH
T ss_pred             CCCCCCceECCCCccHHHHHHHHHHH--cCCcEEEEEcCCEEEEEEecccCCcCcC-ccccceEEEEcCCEEEEEeeChH
Confidence            345555555 799999999 999998  9999999999999999999999998777 89999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc---------CCcceeEEEEEEEcCCCCeeEEEeCCCcee
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR---------GMGLSVGTMIAGWDETGPGLYYVDSEGGRL  176 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R---------~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~  176 (272)
                      |++.+.++++.+++.|++.++++++++.+++++++++|.++         ..|+++++||+|||++||+||.+||+|++.
T Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~  163 (241)
T 1iru_E           84 DAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFV  163 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEE
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCCCCEEEEECCCCcEE
Confidence            99999999999999999999999999999999999997663         237889999999998889999999999999


Q ss_pred             ecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC-eEEcCcchHHHHHHh
Q 024133          177 KGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG-WKKLSGDDVGELHYH  253 (272)
Q Consensus       177 ~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~~ei~~~~~~  253 (272)
                      +++++|+|+|+.+++++||+.|+++||++||++++++||..+.+| ..++++++|++|+++| ++.++++|+++++.+
T Consensus       164 ~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~  240 (241)
T 1iru_E          164 QCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEE-KLNATNIELATVQPGQNFHMFTKEELEEVIKD  240 (241)
T ss_dssp             EBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEECSSSCCEECCHHHHHHHHTT
T ss_pred             ecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCCEEEEEEECCCCeEECCHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999998 7789999999999997 799999999999865

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

Probab=100.00  E-value=3.9e-52  Score=367.79  Aligned_cols=227  Identities=17%  Similarity=0.268  Sum_probs=211.0

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.+.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.+.| ++.+++.+||++|++||+|++||..+|
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD   79 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVK--KGSTAVGVRGRDIVVLGVEKKSVAK-LQDERTVRKICALDDNVCMAFAGLTAD   79 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHH--TSCCEEEECCSSEEEEEECCCCCCS-SSCGGGGCSEEESSSSCEEEEEECHHH
T ss_pred             ccCCCceECCCCcchHHHHHHHHHH--cCCCEEEEEeCCEEEEEEeeccccc-CccCCCCCcEEEEcCCEEEEEeecHHH
Confidence            44555555 799999999 999999  9999999999999999999999996 678889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEc-CCCCeeEEEeCCCceeecCce
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWD-ETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D-~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      ++.|.++++.+++.|++.++++++++.+++++++++|.++.    .|+++++||+||| ++||+||++||+|++.++++.
T Consensus        80 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~  159 (248)
T 1iru_D           80 ARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKAN  159 (248)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeEE
Confidence            99999999999999999999999999999999999988743    2788999999999 678999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCC--CHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC-eEEcCcchHHHHHHhhCCCC
Q 024133          182 SVGSGSPYAYGVLDSGYKFDM--SIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG-WKKLSGDDVGELHYHYYPVT  258 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~m--s~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~~ei~~~~~~~~~~~  258 (272)
                      |+|+|+.+++++||+.|+++|  |++||++++++||..+.+   .++++++|++|+++| +++++++||++++..+....
T Consensus       160 aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~---~sg~~i~v~vi~~~g~~~~l~~~ei~~~~~~~~~~~  236 (248)
T 1iru_D          160 AIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ---SGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEK  236 (248)
T ss_dssp             EESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC---TTSTTCCEEEEESSSCEECCCHHHHHHHTTTTTTTT
T ss_pred             EECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc---CCCCcEEEEEEECCCcEEECCHHHHHHHHHHHHhcc
Confidence            999999999999999999999  999999999999999876   578999999999998 99999999999999997665


Q ss_pred             Cch
Q 024133          259 PST  261 (272)
Q Consensus       259 ~~~  261 (272)
                      .++
T Consensus       237 ~~~  239 (248)
T 1iru_D          237 EEN  239 (248)
T ss_dssp             TTT
T ss_pred             hhh
Confidence            443

>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=3.9e-52  Score=369.00  Aligned_cols=225  Identities=15%  Similarity=0.122  Sum_probs=210.8

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.++.| |+||+||+| |++||+  +|+|+|||+++||||||+|+|.+.|.++ .++.+||++|++||+|++||..+
T Consensus         6 ~yd~~~t~fsp~Grl~QvEyA~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~KI~~i~~~i~~~~aG~~a   82 (254)
T 1iru_G            6 GYDLSASTFSPDGRVFQVEYAMKAVE--NSSTAIGIRCKDGVVFGVEKLVLSKLYE-EGSNKRLFNVDRHVGMAVAGLLA   82 (254)
T ss_dssp             STTSCTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEECSSBEEEEEEEECSCTTBC-TTTTCCEEEEETTEEEEEEECHH
T ss_pred             ccCCCCccCCcCCccHHHHhHHHHHh--cCCCEEEEEECCEEEEEEecccCCCCcC-cCcCCcEEEECCCEEEEEecChH
Confidence            355566666 799999999 999999  9999999999999999999999998777 47899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEc-CCCCeeEEEeCCCceeecCc
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWD-ETGPGLYYVDSEGGRLKGTR  180 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D-~~gp~Ly~iDp~G~~~~~~~  180 (272)
                      |++.|.++++.+++.|+++++++++++.+++++++++|.+|    ..|+++++|||||| ++||+||++||+|++.++++
T Consensus        83 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~  162 (254)
T 1iru_G           83 DARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWG  162 (254)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCCCEEeeee
Confidence            99999999999999999999999999999999999999885    24789999999999 67899999999999999999


Q ss_pred             eEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC--C-eEEcCcchHHHHHHhhC
Q 024133          181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN--G-WKKLSGDDVGELHYHYY  255 (272)
Q Consensus       181 ~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd--g-~~~l~~~ei~~~~~~~~  255 (272)
                      .|+|+|+.+++++||+.|+++||++||++++++||..+.++|..++++++|++|+++  | ++.+++++++++++.++
T Consensus       163 ~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~~~~i~~~~~~~~  240 (254)
T 1iru_G          163 CAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKYAK  240 (254)
T ss_dssp             EEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHHHHH
T ss_pred             EEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999998888778889999999987  6 99999999999998874

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

Probab=100.00  E-value=6.6e-51  Score=359.44  Aligned_cols=223  Identities=22%  Similarity=0.295  Sum_probs=208.9

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.+.+ ++.+++.+||++|+++|++++||..+
T Consensus         7 ~yd~~~t~fsp~Grl~QvEya~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~a   83 (246)
T 1j2p_A            7 GYDRAITVFSPDGRLFQVEYAREAVK--RGATAIGIKCKEGVILIADKRVGSK-LLEKDTIEKIYKIDEHICAATSGLVA   83 (246)
T ss_dssp             TSSSCTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEEETTEEEEEEECCCSCT-TBCGGGCCSEEECSSSEEEEEEECHH
T ss_pred             CcCCCCceECCCCeehHHHhHHHHHH--cCCcEEEEEECCEEEEEEeccCCcc-ccccCccCcEEEECCCEEEEEeEccH
Confidence            455566555 799999999 999998  9999999999999999999999985 56688999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.+.++++.+++.|++.++++++++.+++++++++|.|+.    .|+++++||+||| +||+||.+||+|++.+++++
T Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~  162 (246)
T 1j2p_A           84 DARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLYETDPSGALLEYKAT  162 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-SSEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-CCCEEEEECCCceEEeeeEE
Confidence            999999999999999999999999999999999999987643    2788999999999 89999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEc-C-CCeEEcCcchHHHHHHhhC
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG-P-NGWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~-k-dg~~~l~~~ei~~~~~~~~  255 (272)
                      |+|+|+.+++++||+.|+++||++||++++++||..+.++ ..++++++|++|+ + +|++.++++|+++++.++.
T Consensus       163 aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~~l~~~ei~~~~~~~~  237 (246)
T 1j2p_A          163 AIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIES-ELVPENIEVGYVKVDDRTFKEVSPEELKPYVERAN  237 (246)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTS-CCCGGGEEEEEEETTTCCCEECCHHHHHHHHHHHH
T ss_pred             EECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEEcCCCceEECCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998 7889999999999 6 4899999999999999884

>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F* 1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F* 3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F* 3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ...

Probab=100.00  E-value=4.1e-51  Score=360.42  Aligned_cols=226  Identities=18%  Similarity=0.179  Sum_probs=210.9

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.++++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.++|.++.+ +.+||++|+++|+|++||..+
T Consensus         3 ~yd~~~t~fsp~Grl~QvEya~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~-~~~KI~~i~~~i~~~~aG~~a   79 (244)
T 1ryp_G            3 GYDLSNSVFSPDGRNFQVEYAVKAVE--NGTTSIGIKCNDGVVFAVEKLITSKLLVPQ-KNVKIQVVDRHIGCVYSGLIP   79 (244)
T ss_dssp             CTTSSTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEEETTEEEEEEEEECCCTTBCTT-TSCCCEEETTTEEEEEEECHH
T ss_pred             CccCCcccCCcCCchHHHHhHHHHHH--CCCCEEEEEECCEEEEEEecccCCCCcccc-ccCceEEecCCEEEEEcccHH
Confidence            345666666 799999999 999999  999999999999999999999999877655 459999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.|.++++.+++.|+++++++++++.+++++++++|.++    ..|+++++||+|||++||+||++||+|++.++++.
T Consensus        80 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~  159 (244)
T 1ryp_G           80 DGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGA  159 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeCCcCEEEEECCCCCEEEeeEE
Confidence            99999999999999999999999999999999999998762    24788999999999889999999999999999999


Q ss_pred             EEccChhHHHHHHHcc---CCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcC---CCeEEcCcchHHHHHHhhC
Q 024133          182 SVGSGSPYAYGVLDSG---YKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP---NGWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~---~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~k---dg~~~l~~~ei~~~~~~~~  255 (272)
                      |+|+|+.+++++||+.   |+++||++||++++++||..+.+||..++++++|++|++   +|++++.++++.+.+++++
T Consensus       160 aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~~~~~~~~~~~~~~~  239 (244)
T 1ryp_G          160 ATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFA  239 (244)
T ss_dssp             EESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHHHHH
T ss_pred             EECCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeeeeChHHHHHHHHHHH
Confidence            9999999999999997   999999999999999999999999999999999999998   8999999999999988885


Q ss_pred             C
Q 024133          256 P  256 (272)
Q Consensus       256 ~  256 (272)
                      +
T Consensus       240 ~  240 (244)
T 1ryp_G          240 Q  240 (244)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=3.4e-51  Score=368.31  Aligned_cols=226  Identities=55%  Similarity=0.960  Sum_probs=196.6

Q ss_pred             CCCCCCCCCCCcchhhHh---------HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEE
Q 024133           28 APSFSLPLSTDFDEFQKD---------TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLG   98 (272)
Q Consensus        28 ~~~~~~p~~~~g~~~q~e---------a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~   98 (272)
                      .+.|.+|++.++..|..+         +..+|+  +|||+|||+++||||||+|+|.+.|.++.+++.+||++|+++|++
T Consensus        41 ~~~~~~p~~~~p~~~~~~~~~~~~~~~~~~~v~--~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~  118 (287)
T 3nzj_K           41 APSLTVPPIASPQQFLRAHTDDSRNPDCKIKIA--HGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLG  118 (287)
T ss_dssp             -------------------------------------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEE
T ss_pred             CcccccCCCCCHHHHHHHhcccccccchhhhec--cCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEE
Confidence            678999999888888765         255676  999999999999999999999999999999999999999999999


Q ss_pred             EecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCCcceeEEEEEEEc-CCCCeeEEEeCCCceee
Q 024133           99 TMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWD-ETGPGLYYVDSEGGRLK  177 (272)
Q Consensus        99 ~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~p~~v~~iiaG~D-~~gp~Ly~iDp~G~~~~  177 (272)
                      ++||..+|++.|.++++.+++.|+++++++++++.+++++++++|.+|.+|+++++|||||| ++||+||++||+|++.+
T Consensus       119 ~~aG~~AD~~~l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~  198 (287)
T 3nzj_K          119 TMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLK  198 (287)
T ss_dssp             ECEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETTTEEEEEEEETTCCEEE
T ss_pred             EecCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCCEEEEECCCceEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999 57899999999999999


Q ss_pred             cCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhC
Q 024133          178 GTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       178 ~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~  255 (272)
                      ++++|+|+|+.+++++||+.|+++||++||++++++||..+.+||..++++++|++|+++||++++++||++++.+++
T Consensus       199 ~~~~AiGsgs~~a~~~Le~~y~~dms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkdg~~~l~~~ev~~~l~~~~  276 (287)
T 3nzj_K          199 GDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVK  276 (287)
T ss_dssp             CSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHH
T ss_pred             cCeEEEecchHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCCCEEEeCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999998886

>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=4.9e-51  Score=363.65  Aligned_cols=224  Identities=18%  Similarity=0.205  Sum_probs=209.2

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.++|.   .++.+||++|+++|+|++||..+
T Consensus         5 ~yd~~~t~fsP~Grl~QvEYA~~av~--~Gtt~vgi~~~dgVVlaaD~r~~~gl---~~~~~KI~~i~~~i~~~~aG~~a   79 (263)
T 1iru_F            5 QYDNDVTVWSPQGRIHQIEYAMEAVK--QGSATVGLKSKTHAVLVALKRAQSEL---AAHQKKILHVDNHIGISIAGLTA   79 (263)
T ss_dssp             TTTSCTTCCCTTSCCHHHHHHHHHHH--HSCCEEEEECSSEEEEEEECCCSSTT---BCCCCCEEEEETTEEEEEEECHH
T ss_pred             CCCCCCccCCCCCeehHHHHHHHHHH--cCCcEEEEEeCCEEEEEEeccccccc---ccchhcEEEEcCCEEEEEeCCHH
Confidence            455666666 799999999 999998  99999999999999999999999874   24789999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.|.++++.+++.|++.++++++++.+++++++++|.++    ..||++++||+|||++||+||++||+|++.++++.
T Consensus        80 D~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~  159 (263)
T 1iru_F           80 DARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAM  159 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcCCCCEEEEECCCCCEEEeeEE
Confidence            99999999999999999999999999999999999998652    13788999999999989999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCC--CCCHHHHHHHHHHHHHHHHhhc-ccCCCcEEEEEEcCC-CeEEcCcchHHHHHHhhCC
Q 024133          182 SVGSGSPYAYGVLDSGYKF--DMSIEEAAELARRAIYHATFRD-AASGGVASVYYVGPN-GWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~--~ms~eeai~l~~~al~~a~~rd-~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~~~  256 (272)
                      |+|+|+.+++++||+.|++  +||++||++++++||..+.+|| ..++++++|++|+++ |+++++++||++++.++..
T Consensus       160 aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~~~ei~~~~~~~~~  238 (263)
T 1iru_F          160 SIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEE  238 (263)
T ss_dssp             EESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTCCC
T ss_pred             EcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECCHHHHHHHHHHHhc
Confidence            9999999999999999998  9999999999999999999999 488999999999999 8999999999999999973

>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=2.4e-51  Score=359.41  Aligned_cols=216  Identities=22%  Similarity=0.241  Sum_probs=200.4

Q ss_pred             CCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhH
Q 024133           30 SFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADC  107 (272)
Q Consensus        30 ~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~  107 (272)
                      .+.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.+.|..   ++.+||++|++||++++||..+|+
T Consensus         6 d~~~t~fsp~Grl~QvEyA~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~~l~---~~~~Ki~~i~~~i~~~~aG~~aD~   80 (233)
T 1ryp_F            6 DGDTVTFSPTGRLFQVEYALEAIK--QGSVTVGLRSNTHAVLVALKRNADELS---SYQKKIIKCDEHMGLSLAGLAPDA   80 (233)
T ss_dssp             SSCTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHH
T ss_pred             cCCCccCCCCCeehHHHHHHHHHH--cCCCEEEEEcCCEEEEEEEeccccccc---cccCcEEEEcCCEEEEEEechHHH
Confidence            3445555 799999999 999999  999999999999999999999998632   478999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhc----cCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEE
Q 024133          108 QFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSY----RGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSV  183 (272)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~----R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~Ai  183 (272)
                      +.|.++++.+++.|++.++++++++.+++++++++|.+    +..|+++++||||||++||+||++||+|++.++++.|+
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~ai  160 (233)
T 1ryp_F           81 RVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAI  160 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSCEEEESEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCCcCEEEEECCCCCeeeeeEEEE
Confidence            99999999999999999999999999999999999764    22378899999999998999999999999999999999


Q ss_pred             ccChhHHHHHHHccCCC--CC--CHHHHHHHHHHHHHHHHhhc-ccCCCcEEEEEEcCC-CeEEcCcchHHHHH
Q 024133          184 GSGSPYAYGVLDSGYKF--DM--SIEEAAELARRAIYHATFRD-AASGGVASVYYVGPN-GWKKLSGDDVGELH  251 (272)
Q Consensus       184 G~gs~~a~~~Le~~~~~--~m--s~eeai~l~~~al~~a~~rd-~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~  251 (272)
                      |+|+.+++++||+.|++  +|  |++||+++++++|..+. || ..++++++|++|+++ ||++++++||++++
T Consensus       161 G~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~~~~~~~l~~~ei~~~l  233 (233)
T 1ryp_F          161 GARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI  233 (233)
T ss_dssp             STTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEETTEEEEEEEGGGGGGGC
T ss_pred             CCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEECCCCEEECCHHHHHhhC
Confidence            99999999999999998  99  99999999999999998 78 578999999999999 79999999998763

>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=4.3e-50  Score=355.03  Aligned_cols=222  Identities=20%  Similarity=0.245  Sum_probs=206.1

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.+.++.| ||||+||+| |++|++  +|||+|||+++||||||+|+|.+ +.++.+++.+||++|+++|+|++||..+
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~--~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~a   80 (250)
T 1ryp_B            4 RYSFSLTTFSPSGKLGQIDYALTAVK--QGVTSLGIKATNGVVIATEKKSS-SPLAMSETLSKVSLLTPDIGAVYSGMGP   80 (250)
T ss_dssp             CCCSBSSCBCTTSCBHHHHHHHHHHH--TSCCEEEEEETTEEEEEEECCCS-CSSBCGGGCCSSEEEETTEEEEEEECHH
T ss_pred             cccCCceeECCCCccHHHHhHHHHHH--cCCcEEEEEECCEEEEEEeccCC-CccccCcccCceEEECCCEEEEeeeCHH
Confidence            455666666 799999999 999998  99999999999999999999998 7899999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHH-HHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecC
Q 024133          106 DCQFWHRNLGIKCRL-HELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGT  179 (272)
Q Consensus       106 D~~~l~~~l~~~~~~-~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~  179 (272)
                      |++.+.++++.+++. |+..++++++++.+++.++++++.++    ..|+++++||+|||+ +||+||++||+|++.+++
T Consensus        81 D~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~  160 (250)
T 1ryp_B           81 DYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWK  160 (250)
T ss_dssp             HHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEECCCCCEEeec
Confidence            999999999999999 99999999999999999999887652    247889999999997 589999999999999999


Q ss_pred             ceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC----------------CeEEcC
Q 024133          180 RFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN----------------GWKKLS  243 (272)
Q Consensus       180 ~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd----------------g~~~l~  243 (272)
                      +.|+|+|+.+++++||+.|+++||++||++++++||..+.+++ .++++++|++|+++                +|++++
T Consensus       161 ~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~-~sg~~i~v~vi~~~~~~~~~~~~~~~~~~~~~~~l~  239 (250)
T 1ryp_B          161 ATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGE-FNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLT  239 (250)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSC-CSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEECC
T ss_pred             eeEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhccc-cCCCCEEEEEEEccccccccccccccCCCCCeEECC
Confidence            9999999999999999999999999999999999999999875 58999999999986                389999


Q ss_pred             cchHHHHHHh
Q 024133          244 GDDVGELHYH  253 (272)
Q Consensus       244 ~~ei~~~~~~  253 (272)
                      ++||++++..
T Consensus       240 ~~ei~~~l~~  249 (250)
T 1ryp_B          240 SQEINDRLEA  249 (250)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            9999999865

>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=8.4e-50  Score=342.75  Aligned_cols=204  Identities=66%  Similarity=1.138  Sum_probs=197.5

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++||++++||..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++++|.+|++|+++++||+|||++||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++++||
T Consensus        81 ~~l~~~~~~~r~~~~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al  160 (204)
T 1iru_L           81 KLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAI  160 (204)
T ss_dssp             HHHHHHHHTTTTSCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCeeEEEEEEEEeCCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCCCCC
Q 024133          216 YHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTP  259 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~~~~  259 (272)
                      ..+.+||..++++++|++|+++|++.++++|+++++.+++++.|
T Consensus       161 ~~~~~rd~~s~~~i~v~vi~~~g~~~l~~~ei~~~~~~~~~~~~  204 (204)
T 1iru_L          161 YQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHEKYSGSTP  204 (204)
T ss_dssp             HHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHHHHHHHHTC---
T ss_pred             HHHHHhCccCCCceEEEEEeCCceEEeCHHHHHHHHHHhccCCC
Confidence            99999999999999999999999999999999999999976543

>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=2.4e-50  Score=362.97  Aligned_cols=226  Identities=18%  Similarity=0.181  Sum_probs=205.8

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.++++.| |+||+||+| |++||+  +|||+|||+++||||||+|+|.++|.++. ++++||++|++||+|++||+.+
T Consensus         7 ~yd~~~t~fSP~Grl~QvEYA~kAv~--~GtT~Vgik~kdGVVlAaD~r~t~gl~~~-~~~~KI~~I~d~i~~~~aG~~a   83 (288)
T 3nzj_F            7 GYDLSNSVFSPDGRNFQVEYAVKAVE--NGTTSIGIKCNDGVVFAVEKLITSKLLVP-QKNVKIQVVDRHIGCVYSGLIP   83 (288)
T ss_dssp             CTTSSTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEEETTEEEEEEEEEECCTTBCT-TCSCCCEEETTTEEEEEEECHH
T ss_pred             CccCCcccCCCCCchHHHHHHHHHHh--cCCcEEEEEECCEEEEEEcCCcccCCccc-cccceEEEEcCCEEEEecCcHH
Confidence            456677777 799999999 999999  99999999999999999999999987665 4789999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.|.++++.+++.|++.++++++++.+++++++++|.|+.    .||+|++||||||++||+||++||+|++++++++
T Consensus        84 D~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~Gp~Ly~iDp~G~~~~~~~~  163 (288)
T 3nzj_F           84 DGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGA  163 (288)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCCCEEEEECCCCCEEEcCEE
Confidence            999999999999999999999999999999999999998743    4889999999999999999999999999999999


Q ss_pred             EEccChhHHHHHHHcc---CCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcC---CCeEEcCcchHHHHHHhhC
Q 024133          182 SVGSGSPYAYGVLDSG---YKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP---NGWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~---~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~k---dg~~~l~~~ei~~~~~~~~  255 (272)
                      |+|+|+.+++++||+.   |+++||++||++++++||..+.+++..++..++|.+|++   +|.+++.++|+.+-.++++
T Consensus       164 aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~~~~~~~~~~vp~~~~~~~~~~~  243 (288)
T 3nzj_F          164 ATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFA  243 (288)
T ss_dssp             EESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEETTTSTTCCEECCHHHHHHHHHHH
T ss_pred             EEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEecCCCceEEECCHHHHHHHHHHH
Confidence            9999999999999999   999999999999999999999999988899999999998   3566555555555444554


Q ss_pred             C
Q 024133          256 P  256 (272)
Q Consensus       256 ~  256 (272)
                      +
T Consensus       244 ~  244 (288)
T 3nzj_F          244 Q  244 (288)
T ss_dssp             H
T ss_pred             H
Confidence            4

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

Probab=100.00  E-value=4.9e-50  Score=348.22  Aligned_cols=209  Identities=33%  Similarity=0.465  Sum_probs=196.4

Q ss_pred             CceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        55 Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      |||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.|.++++.+++.|++.++++++++.+
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            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecC-ceEEccChhHHHHHHHccCCCCCCHHHHHHHHH
Q 024133          135 SKLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGT-RFSVGSGSPYAYGVLDSGYKFDMSIEEAAELAR  212 (272)
Q Consensus       135 a~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~-~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~  212 (272)
                      ++++++++|.+|..||++++||||||+ +||+||++||+|++++++ +.|+|+|+.+++++||+.|+++||++||+++++
T Consensus        81 a~~l~~~~~~~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~  160 (219)
T 3h4p_a           81 ATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLAL  160 (219)
T ss_dssp             HHHHHHHHHHTTTTTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            999999999998889999999999998 789999999999999999 999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCCCCCchhH
Q 024133          213 RAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVTPSTVE  263 (272)
Q Consensus       213 ~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~~~~~~~~  263 (272)
                      +||..+.+||..++++++|++|+++||++++++||++++.+++.....+.+
T Consensus       161 ~al~~~~~rd~~sg~~i~v~vi~~~g~~~l~~~ei~~~l~~~~~~~~~~~~  211 (219)
T 3h4p_a          161 NALKSAMERDTFSGNGISLAVITKDGVKIFEDEEIEKILDSMKAKPKKKTT  211 (219)
T ss_dssp             HHHHHHHTSCSSCCSCCCEEEEETTEEEECCHHHHHHHHHHCC--------
T ss_pred             HHHHHHHhhcCCCCCcEEEEEEeCCCeEEcCHHHHHHHHHHhhcccccccc
Confidence            999999999999999999999999999999999999999999977654443

>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=4.3e-49  Score=341.74  Aligned_cols=205  Identities=32%  Similarity=0.518  Sum_probs=195.5

Q ss_pred             hccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCc
Q 024133           49 TLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRR  128 (272)
Q Consensus        49 av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~  128 (272)
                      +++  +|||+|||+++||||||+|+|.++|.++.+++.+||++|++++++++||..+|++.+.++++.+++.|++.++++
T Consensus         4 ~~~--~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (217)
T 1yar_H            4 TLE--TGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVN   81 (217)
T ss_dssp             -------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             CCC--CCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            454  999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHhHHHHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHH
Q 024133          129 ISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAA  208 (272)
Q Consensus       129 i~v~~la~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai  208 (272)
                      ++++.+++++++++|.+|..||++++||+||| +||+||++||+|++.++++.|+|+|+.+++++||+.|+++||.|||+
T Consensus        82 ~~v~~la~~l~~~~~~~r~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~  160 (217)
T 1yar_H           82 MPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGV  160 (217)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSCCCEEEEEEEES-SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCceEEEEEEEEC-CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCCCHHHHH
Confidence            99999999999999998877899999999999 89999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcccCCCcEEEEEEcC-CCeEEcCcchHHHHHHhhCC
Q 024133          209 ELARRAIYHATFRDAASGGVASVYYVGP-NGWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       209 ~l~~~al~~a~~rd~~sg~~v~v~ii~k-dg~~~l~~~ei~~~~~~~~~  256 (272)
                      +++++||..+.+||..++++++|++|++ +|+++++++|+++++.+++.
T Consensus       161 ~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei~~~~~~~~~  209 (217)
T 1yar_H          161 DLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKLGL  209 (217)
T ss_dssp             HHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999 89999999999999988864

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

Probab=100.00  E-value=5.3e-49  Score=337.32  Aligned_cols=201  Identities=36%  Similarity=0.558  Sum_probs=195.9

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|+++++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecC-ceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGT-RFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~-~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +++++++|.+|..||++++||+|||++||+||++||+|++.+++ +.|+|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 ~~l~~~~~~~r~rp~~~~~lvaG~D~~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~la~~a  160 (202)
T 1j2q_H           81 TLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRA  160 (202)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCCCCceEEEEEEEEeCCCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHHHHHH
Confidence            99999999988778999999999998899999999999999999 99999999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCC
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~  256 (272)
                      |..+.+||..++++++|++|+++|+++++++|+++++.++++
T Consensus       161 l~~~~~~d~~s~~~i~v~vi~~~g~~~l~~~ei~~~~~~~~~  202 (202)
T 1j2q_H          161 IYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVEQILAKFRK  202 (202)
T ss_dssp             HHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHHHHGGGTTC
T ss_pred             HHHHHhcCCCCCCcEEEEEEeCCCeEEeCHHHHHHHHHHhhC
Confidence            999999999999999999999999999999999999998864

>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=8.1e-48  Score=332.37  Aligned_cols=200  Identities=58%  Similarity=1.017  Sum_probs=195.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEc-CCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWD-ETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D-~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +++++++|.+|.+|+++++||+||| ++||+||++||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 ~~l~~~~~~~~~~p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~a  160 (212)
T 1ryp_L           81 KILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRS  160 (212)
T ss_dssp             HHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCCCCceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Confidence            9999999999998999999999999 568999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhC
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~  255 (272)
                      |..+.+||..++++++|++|+++|+++++++|+++++.+++
T Consensus       161 l~~~~~rd~~s~~~i~v~vi~~~g~~~~~~~ei~~~~~~~~  201 (212)
T 1ryp_L          161 ILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVK  201 (212)
T ss_dssp             HHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHH
T ss_pred             HHHHHHhccccCCceEEEEEcCCceEEECHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988874

>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=2.1e-47  Score=339.50  Aligned_cols=211  Identities=14%  Similarity=0.237  Sum_probs=191.2

Q ss_pred             CCcchh-hHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHH
Q 024133           37 TDFDEF-QKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL  114 (272)
Q Consensus        37 ~~g~~~-q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l  114 (272)
                      |++++. |+| |++||+  +|+|+|||+++||||||+|+|        +++.+||++|++||+|++||..+|++.|.+++
T Consensus         9 Pe~~~~~qvEYA~~av~--~Gtt~vgi~~~dgVVlaaD~r--------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~   78 (259)
T 1q5q_A            9 AEQIMRDRSELARKGIA--RGRSVVVLTFRDGVLFVAENP--------STALHKVSELYDRLGFAAVGKYNEFENLRRAG   78 (259)
T ss_dssp             CHHHHHHHHHHHHHHHH--TSCCEEEEECSSEEEEEECCS--------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHh--cCCcEEEEEeCCEEEEEEecC--------CCCcCcEEEeCCCEEEEEccCHHHHHHHHHHH
Confidence            588885 999 999998  999999999999999999998        36789999999999999999999999999999


Q ss_pred             HHHHHHHHHhhC-CcCCHhHHHHHHHHHH---HhccCCcceeEEEEEEEc----CCCCeeEEEeCCCcee-ecCceEEcc
Q 024133          115 GIKCRLHELANK-RRISVTGASKLLANIL---YSYRGMGLSVGTMIAGWD----ETGPGLYYVDSEGGRL-KGTRFSVGS  185 (272)
Q Consensus       115 ~~~~~~~~~~~~-~~i~v~~la~~ls~~l---~~~R~~p~~v~~iiaG~D----~~gp~Ly~iDp~G~~~-~~~~~AiG~  185 (272)
                      +.+++.|++.++ ++++++.+++++++++   |.+|..||+|++||||||    ++||+||++||+|++. ++++.|+|+
T Consensus        79 ~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~~~~aiG~  158 (259)
T 1q5q_A           79 IVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGG  158 (259)
T ss_dssp             HHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESS
T ss_pred             HHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCCCEEEECC
Confidence            999999999988 4999999999999953   444556788999999999    6889999999999999 889999999


Q ss_pred             ChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHH-----hhcccCCCcEEEEEEcCC----CeEEcCcchHHHHHHhhCC
Q 024133          186 GSPYAYGVLDSGYKFDMSIEEAAELARRAIYHAT-----FRDAASGGVASVYYVGPN----GWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       186 gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~-----~rd~~sg~~v~v~ii~kd----g~~~l~~~ei~~~~~~~~~  256 (272)
                      |+..++++||+.|+++||++||++++++||..+.     +||. ++++++|++|+++    +|++++++||++++.++..
T Consensus       159 gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~-sg~~iev~vi~~~~~~~~~~~l~~~ei~~~~~~~~~  237 (259)
T 1q5q_A          159 TTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNV-DVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAEPA  237 (259)
T ss_dssp             SHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------C-CSSCSEEEEEETTSSSCCEEECCHHHHHTTSCCC--
T ss_pred             ChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccC-CCCcEEEEEEECCCCcCCeEECCHHHHHHHHHHhhh
Confidence            9999999999999999999999999999999998     8998 8999999999998    7999999999999988866


Q ss_pred             CC
Q 024133          257 VT  258 (272)
Q Consensus       257 ~~  258 (272)
                      .+
T Consensus       238 ~~  239 (259)
T 1q5q_A          238 AA  239 (259)
T ss_dssp             --
T ss_pred             cc
Confidence            54

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

Probab=100.00  E-value=1.2e-47  Score=332.95  Aligned_cols=203  Identities=24%  Similarity=0.258  Sum_probs=195.3

Q ss_pred             HhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHH-hh
Q 024133           47 KATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHEL-AN  125 (272)
Q Consensus        47 ~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~-~~  125 (272)
                      .++|+  +|||+|||+++||||||+|+|.++|.++.+++.+||++|+++|++++||..+|++.|.++++.+++.|++ .+
T Consensus         2 ~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~   79 (219)
T 1iru_N            2 QNPMV--TGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGD   79 (219)
T ss_dssp             CSCCS--EECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred             CCCcc--CCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHc
Confidence            35676  9999999999999999999999999999999999999999999999999999999999999999999998 99


Q ss_pred             CCcCCHhHHHHHHHHHHHhcc--CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCC--C
Q 024133          126 KRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKF--D  201 (272)
Q Consensus       126 ~~~i~v~~la~~ls~~l~~~R--~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~--~  201 (272)
                      +++++++.+++++++++|.+|  ..|+++++||+|||++||+||++||+|++.++++.|+|+|+.+++++||+.|++  +
T Consensus        80 ~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~  159 (219)
T 1iru_N           80 GHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPV  159 (219)
T ss_dssp             SCCCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSC
T ss_pred             CCCCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEECCCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCCC
Confidence            999999999999999999877  458899999999998899999999999999999999999999999999999999  9


Q ss_pred             CCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHH
Q 024133          202 MSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELH  251 (272)
Q Consensus       202 ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~  251 (272)
                      ||.+||++++++||..+.+||..++++++|++|+++|++.+++++++..|
T Consensus       160 mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~i~~~~  209 (219)
T 1iru_N          160 LSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTETNW  209 (219)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCCCCC
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCEEEcCCeeccchh
Confidence            99999999999999999999999999999999999999999999998875

>1q5r_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, hydrolase; 3.10A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_H

Probab=100.00  E-value=1.8e-46  Score=338.68  Aligned_cols=211  Identities=27%  Similarity=0.355  Sum_probs=198.0

Q ss_pred             HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhh
Q 024133           46 TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELAN  125 (272)
Q Consensus        46 a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~  125 (272)
                      |++|++  +|||+|||+++||||||+|+|.++|+++.+++.+||++|+++|+|++||..+|++.+.++++.+++.|++.+
T Consensus        58 a~~Av~--~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~  135 (294)
T 1q5r_H           58 SGDLAP--HGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIE  135 (294)
T ss_dssp             --CCSC--BCCCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHh--cCceEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhh
Confidence            888998  999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcCCHhHHHHHHHHHHHhccC---CcceeEEEEEEEcCC-C-----CeeEEEeCCCceeec--CceEEccChhHHHHHH
Q 024133          126 KRRISVTGASKLLANILYSYRG---MGLSVGTMIAGWDET-G-----PGLYYVDSEGGRLKG--TRFSVGSGSPYAYGVL  194 (272)
Q Consensus       126 ~~~i~v~~la~~ls~~l~~~R~---~p~~v~~iiaG~D~~-g-----p~Ly~iDp~G~~~~~--~~~AiG~gs~~a~~~L  194 (272)
                      +++++++.+++.|++++|.+|.   .||++++||+|||++ |     |+||++||+|+++++  ++.|+|+|+.+++++|
T Consensus       136 g~~isv~~la~~la~~l~~~~~~~~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~L  215 (294)
T 1q5r_H          136 GVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSAL  215 (294)
T ss_dssp             SSCCCHHHHHHHHHHHHHHHHHHHTTTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhhhcCCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHH
Confidence            9999999999999999998754   478899999999975 6     999999999999999  8999999999999999


Q ss_pred             HccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCc--E-----EEEEEcCCCeEEcCcchHHHHHHhhCCCC
Q 024133          195 DSGYKFDMSIEEAAELARRAIYHATFRDAASGGV--A-----SVYYVGPNGWKKLSGDDVGELHYHYYPVT  258 (272)
Q Consensus       195 e~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~--v-----~v~ii~kdg~~~l~~~ei~~~~~~~~~~~  258 (272)
                      |+.|+++||++||++++++||..+.++|..+++.  +     +|++|+++|+++++++|+++++.++...+
T Consensus       216 e~~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~~~g~~~l~~~ei~~~l~~i~~~~  286 (294)
T 1q5r_H          216 KKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAER  286 (294)
T ss_dssp             HHHCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHCC--
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEECCCEEEcCHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999988764  6     99999999999999999999999997654

>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=1.4e-46  Score=322.96  Aligned_cols=197  Identities=31%  Similarity=0.487  Sum_probs=190.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999999899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +++++++|.+|. |+++++||+|||+ +||+||.+||+|++.++++.++|+|+.+++++||+.|+++||.+||++++++|
T Consensus        81 ~~l~~~~~~~~~-p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l~~~a  159 (205)
T 1iru_H           81 SLFKEMCYRYRE-DLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANA  159 (205)
T ss_dssp             HHHHHHHHHTTT-TCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCc-CccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            999999999987 8999999999997 68999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCe--EEcCcchHHHHHHh
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGW--KKLSGDDVGELHYH  253 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~--~~l~~~ei~~~~~~  253 (272)
                      |..+.+||..++++++|++|+++|+  +.++++||++++.+
T Consensus       160 l~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~~~  200 (205)
T 1iru_H          160 LALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAVA  200 (205)
T ss_dssp             HHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCCCC
T ss_pred             HHHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHHhh
Confidence            9999999999999999999999985  57999999988765

>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=4.4e-47  Score=332.38  Aligned_cols=208  Identities=20%  Similarity=0.264  Sum_probs=197.1

Q ss_pred             HhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHH---
Q 024133           47 KATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHEL---  123 (272)
Q Consensus        47 ~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~---  123 (272)
                      .++|+  +|+|+|||+++||||||+|+|.+.|.++.+++.+||++|+++|+|++||..+|++.+.++++.+++.|++   
T Consensus         2 ~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~   79 (233)
T 1ryp_N            2 QQPIV--TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNP   79 (233)
T ss_dssp             CCCCE--EECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCT
T ss_pred             ccccc--CCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccc
Confidence            35677  9999999999999999999999999999999999999999999999999999999999999999999999   


Q ss_pred             --hhCCcCCHhHHHHHHHHHHHhcc--CCcceeEEEEEEEcCC-CCeeEEEeCCCceeecCceEEccChhHHHHHHHccC
Q 024133          124 --ANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGY  198 (272)
Q Consensus       124 --~~~~~i~v~~la~~ls~~l~~~R--~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~  198 (272)
                        .++++++++.+++++++++|.+|  ..||++++||+|||++ ||+||++||+|++.++++.|+|+|+.+++++||+.|
T Consensus        80 ~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~  159 (233)
T 1ryp_N           80 LADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVV  159 (233)
T ss_dssp             TTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTC
T ss_pred             hhhcCCCCCHHHHHHHHHHHHHHhcCCCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhh
Confidence              89999999999999999999887  3588999999999975 899999999999999999999999999999999999


Q ss_pred             CC-----CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHHHhhCC
Q 024133          199 KF-----DMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       199 ~~-----~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~~~  256 (272)
                      ++     +||++||++++++||..+.+||..++++++|++|+++ |++.++++||++++-++++
T Consensus       160 ~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~~~~~~~~i~~~~w~~~~  223 (233)
T 1ryp_N          160 DRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAK  223 (233)
T ss_dssp             SSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSCCCGGGG
T ss_pred             ccccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCeEEcChHhcccccchhhh
Confidence            99     9999999999999999999999999999999999999 9999999999998324544

>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=3.9e-46  Score=326.71  Aligned_cols=203  Identities=29%  Similarity=0.426  Sum_probs=192.0

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|++.++++++++.++
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             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++++|.++. |+++++||||||++||+||++||+|++.++++.|+|+|+.+++++||+.|+++||++||++++++||
T Consensus        81 ~~l~~~l~~~~~-p~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al  159 (234)
T 3unf_H           81 RILRQTLFRYQG-HVGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAI  159 (234)
T ss_dssp             HHHHHHHHHTTT-CSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC-CccEEEEEEEEeCCCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHHHHHHH
Confidence            999999998765 6889999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHH------HHHhhCCCCC
Q 024133          216 YHATFRDAASGGVASVYYVGPNGWKKLSGDDVGE------LHYHYYPVTP  259 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~------~~~~~~~~~~  259 (272)
                      ..+..||..++++++|++|+++|++.+++++++.      ..++|.+.++
T Consensus       160 ~~~~~~D~~sg~~iev~vi~~dg~~~l~~~~i~~~~~~~~~~~~~~~~~~  209 (234)
T 3unf_H          160 TAGILSDLGSGGNVDACVITAGGAKLQRALSTPTEPVQRAGRYRFAPGTT  209 (234)
T ss_dssp             HHHHHHBTTCCSCEEEEEEESSCEEEEEEEECCCCCCCCCCCCCCCTTCS
T ss_pred             HHHHhhcCCCCCcEEEEEEECCCEEEeCceecccccccccccccCCCCCc
Confidence            9999999999999999999999999999988754      4555655443

>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=5.8e-46  Score=319.20  Aligned_cols=193  Identities=26%  Similarity=0.426  Sum_probs=185.6

Q ss_pred             HhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhC
Q 024133           47 KATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANK  126 (272)
Q Consensus        47 ~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~  126 (272)
                      .++++  +|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++.++
T Consensus         3 ~~av~--~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~   80 (205)
T 1ryp_H            3 KGEVS--LGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYG   80 (205)
T ss_dssp             TTCCB--CCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CCCCc--CCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence            46777  9999999999999999999999999899999999999999999999999999999999999999999999999


Q ss_pred             CcCCHhHHHHHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHH
Q 024133          127 RRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIE  205 (272)
Q Consensus       127 ~~i~v~~la~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~e  205 (272)
                      + ++++.+++++++++|.+|.. +++++||+|||+ +||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+
T Consensus        81 ~-~~v~~la~~l~~~~~~~~~~-~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~e  158 (205)
T 1ryp_H           81 T-PSTETAASVFKELCYENKDN-LTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKE  158 (205)
T ss_dssp             S-CCHHHHHHHHHHHHHHTTTT-CCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHH
T ss_pred             C-CCHHHHHHHHHHHHHhhhcC-ceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCCCHH
Confidence            9 99999999999999999887 889999999997 68999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcC
Q 024133          206 EAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLS  243 (272)
Q Consensus       206 eai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~  243 (272)
                      ||++++++||..+.+||..++++++|++|+++|+++..
T Consensus       159 ea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~~~~~  196 (205)
T 1ryp_H          159 ETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLI  196 (205)
T ss_dssp             HHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhCCccCCeEEEEEEcCCCEEEEE
Confidence            99999999999999999999999999999999987643

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

Probab=100.00  E-value=1.3e-45  Score=328.08  Aligned_cols=200  Identities=31%  Similarity=0.418  Sum_probs=182.6

Q ss_pred             HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhh
Q 024133           46 TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELAN  125 (272)
Q Consensus        46 a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~  125 (272)
                      ..+|++  +|||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|++.+
T Consensus        22 ~~kav~--~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~   99 (261)
T 3nzj_H           22 QPKATS--TGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYT   99 (261)
T ss_dssp             ----------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccc--cCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhh
Confidence            567887  999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcCCHhHHHHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHH
Q 024133          126 KRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIE  205 (272)
Q Consensus       126 ~~~i~v~~la~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~e  205 (272)
                      +++++++.+++++++.++.++. |+++++||||||++||+||++||+|++.++++.|+|+|+.+++++||+.|+++||+|
T Consensus       100 ~~~~~v~~~a~~l~~~l~~~~~-~~gv~llvaG~D~~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~e  178 (261)
T 3nzj_H          100 SREPRVVSALQMLKQHLFKYQG-HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKE  178 (261)
T ss_dssp             TSCCCHHHHHHHHHHHHHHTTT-CSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHH
T ss_pred             CCCCCHHHHHHHHHHHHHHhcC-cccEEEEEEEEeCCCCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhccCCCHH
Confidence            9999999999999999998754 578999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC-eEEcCcchHH
Q 024133          206 EAAELARRAIYHATFRDAASGGVASVYYVGPNG-WKKLSGDDVG  248 (272)
Q Consensus       206 eai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~~ei~  248 (272)
                      ||++++++||..+.+||..++++++|++|+++| ++.+.+..+.
T Consensus       179 EA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~~~~~~~~~~  222 (261)
T 3nzj_H          179 EAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTP  222 (261)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEECC
T ss_pred             HHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcEEEeccccCC
Confidence            999999999999999999999999999999999 6655554433

>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=3.2e-45  Score=316.19  Aligned_cols=189  Identities=24%  Similarity=0.314  Sum_probs=182.3

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      +|+|+|||+++||||||+|+|.++|.++.+++.+||++|+++|++++||..+|++.+.++++.+++.|++.++++++++.
T Consensus         8 ~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~   87 (213)
T 1iru_M            8 NGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGA   87 (213)
T ss_dssp             CCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHH
T ss_pred             CCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCCHHH
Confidence            99999999999999999999999999999899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCcceeEEEEEEEcCCC-CeeEEEeCCCceeecCceEEccChhHHHHHHHcc---------CCCCCC
Q 024133          134 ASKLLANILYSYRGMGLSVGTMIAGWDETG-PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSG---------YKFDMS  203 (272)
Q Consensus       134 la~~ls~~l~~~R~~p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~---------~~~~ms  203 (272)
                      +++++++++|.+|..||++++||+|||++| |+||.+||+|++.++++.|+|+|+.+++++||+.         |+++||
T Consensus        88 la~~l~~~~y~~r~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~~~~~~s  167 (213)
T 1iru_M           88 IAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLS  167 (213)
T ss_dssp             HHHHHHHHHHHTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCC
T ss_pred             HHHHHHHHHHhhCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhccccccccccCCCCCC
Confidence            999999999988877899999999999755 9999999999999999999999999999999999         888999


Q ss_pred             HHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEc
Q 024133          204 IEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKL  242 (272)
Q Consensus       204 ~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l  242 (272)
                      ++||++++++||..+.+||..++++++|++|+++|++..
T Consensus       168 ~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~  206 (213)
T 1iru_M          168 LDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIREE  206 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCCeEEE
Confidence            999999999999999999999999999999999998753

>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=3.7e-45  Score=318.02  Aligned_cols=189  Identities=23%  Similarity=0.282  Sum_probs=182.6

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhC-CcCCHh
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANK-RRISVT  132 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~~i~v~  132 (272)
                      +|+|+|||+++||||||+|+|.+.|.++.+++.+||++|+++|++++||..+|++.+.++++.+++.|++.++ ++++++
T Consensus         8 ~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~   87 (222)
T 1ryp_M            8 NGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSIN   87 (222)
T ss_dssp             CCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHH
T ss_pred             CCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCCHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999 999999


Q ss_pred             HHHHHHHHHHHhccCCcceeEEEEEEEcCCC-CeeEEEeCCCceeecCceEEccChhHHHHHHHcc--------------
Q 024133          133 GASKLLANILYSYRGMGLSVGTMIAGWDETG-PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSG--------------  197 (272)
Q Consensus       133 ~la~~ls~~l~~~R~~p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~--------------  197 (272)
                      .+|+++++++|.+|.+||++++||+|||++| |+||++||+|++.++++.|+|+|+.+++++||+.              
T Consensus        88 ~la~~l~~~ly~~r~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~~~~~~~  167 (222)
T 1ryp_M           88 SAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGK  167 (222)
T ss_dssp             HHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTC
T ss_pred             HHHHHHHHHHHhcCCCCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhcccccccccccccccc
Confidence            9999999999998877899999999999755 9999999999999999999999999999999998              


Q ss_pred             ---CCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEc
Q 024133          198 ---YKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKL  242 (272)
Q Consensus       198 ---~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l  242 (272)
                         |+++||+|||++++++||..+.+||..++++++|++|+++|++..
T Consensus       168 ~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi~~~g~~~~  215 (222)
T 1ryp_M          168 VKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKE  215 (222)
T ss_dssp             SBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEE
T ss_pred             cccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEcCCCeEEE
Confidence               889999999999999999999999999999999999999998753

>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=3.2e-45  Score=312.76  Aligned_cols=191  Identities=20%  Similarity=0.265  Sum_probs=182.8

Q ss_pred             CceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        55 Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      .||+|||+++||||||+|+|.+.|.++.+++.+||++|++||++++||..+|++.+.++++.+++.|+++++++++++.+
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (198)
T 1ryp_K            1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAV   80 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHH
T ss_pred             CceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            37999999999999999999999999888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccC--CcceeEEEEEEEcC--CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHH
Q 024133          135 SKLLANILYSYRG--MGLSVGTMIAGWDE--TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAEL  210 (272)
Q Consensus       135 a~~ls~~l~~~R~--~p~~v~~iiaG~D~--~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l  210 (272)
                      ++++++++|.++.  .||++++||+|||+  +||+||++||+|++.++++.|+|+|+.+++++||+.|+++||++||+++
T Consensus        81 a~~l~~~l~~~~~~r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l  160 (198)
T 1ryp_K           81 SSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDL  160 (198)
T ss_dssp             HHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHHH
Confidence            9999999998742  48899999999995  6899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcc
Q 024133          211 ARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGD  245 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~  245 (272)
                      +++||..+.+||..++++++|++|+++|++++++-
T Consensus       161 ~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~~~  195 (198)
T 1ryp_K          161 LKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDF  195 (198)
T ss_dssp             HHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCC
T ss_pred             HHHHHHHHHHhCccCCCceEEEEEcCCCEEEeccc
Confidence            99999999999999999999999999999998763

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=3.3e-46  Score=333.01  Aligned_cols=209  Identities=21%  Similarity=0.267  Sum_probs=198.5

Q ss_pred             HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHH--
Q 024133           46 TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHEL--  123 (272)
Q Consensus        46 a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~--  123 (272)
                      ++++++  +|||+|||+++||||||+|+|.+.|.++.+++.+||++|+++|+|++||..+|++.|.++++.+++.|++  
T Consensus        34 ~~~av~--~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~  111 (266)
T 1g0u_M           34 TQQPIV--TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDN  111 (266)
T ss_dssp             CCCCCE--EECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             hccCcc--cCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhcc
Confidence            788898  9999999999999999999999999999999999999999999999999999999999999999999998  


Q ss_pred             ---hhCCcCCHhHHHHHHHHHHHhcc--CCcceeEEEEEEEcCC-CCeeEEEeCCCceeecCceEEccChhHHHHHHHcc
Q 024133          124 ---ANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSG  197 (272)
Q Consensus       124 ---~~~~~i~v~~la~~ls~~l~~~R--~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~  197 (272)
                         .++++++++.+++++++++|.+|  ..|+++++||+|||++ ||+||++||+|++.++++.|+|+|+.+++++||+.
T Consensus       112 ~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~  191 (266)
T 1g0u_M          112 PLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKV  191 (266)
T ss_dssp             TTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHHHHHTTT
T ss_pred             chhhcCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHHHHHHHh
Confidence               89999999999999999999877  3588999999999975 89999999999999999999999999999999999


Q ss_pred             CCC-----CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHHHhhCC
Q 024133          198 YKF-----DMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       198 ~~~-----~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~~~  256 (272)
                      |++     +||++||++++++||..+.+||..++++++|++|+++ |++.++++||++++-.+++
T Consensus       192 ~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~~~~~~~ei~~~~w~~~~  256 (266)
T 1g0u_M          192 VDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAK  256 (266)
T ss_dssp             CSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCCCCCGGGG
T ss_pred             hcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCeEEcCHHHhhhhhhhHHh
Confidence            999     9999999999999999999999999999999999999 9999999999998324443

>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=4.4e-45  Score=320.18  Aligned_cols=200  Identities=28%  Similarity=0.377  Sum_probs=190.2

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|+++++|++||..+|++.|.++++.+++.|++.++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccC---CcceeEEEEEEEcCC-C-----CeeEEEeCCCceeec--CceEEccChhHHHHHHHccCCCCCCH
Q 024133          136 KLLANILYSYRG---MGLSVGTMIAGWDET-G-----PGLYYVDSEGGRLKG--TRFSVGSGSPYAYGVLDSGYKFDMSI  204 (272)
Q Consensus       136 ~~ls~~l~~~R~---~p~~v~~iiaG~D~~-g-----p~Ly~iDp~G~~~~~--~~~AiG~gs~~a~~~Le~~~~~~ms~  204 (272)
                      +.+++++|.+|+   .||++++||||||++ |     |+||++||+|+++++  ++.|+|+|+.+++++||+.|+++||+
T Consensus        81 ~~l~~~~~~~~~~~~rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~  160 (235)
T 1q5q_H           81 NRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDE  160 (235)
T ss_dssp             HHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCH
T ss_pred             HHHHHHHHHHHHhhhcccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCCH
Confidence            999999998653   267899999999976 7     999999999999999  89999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcccCCCc--E-----EEEEEcCCCeEEcCcchHHHHHHhhC
Q 024133          205 EEAAELARRAIYHATFRDAASGGV--A-----SVYYVGPNGWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       205 eeai~l~~~al~~a~~rd~~sg~~--v-----~v~ii~kdg~~~l~~~ei~~~~~~~~  255 (272)
                      +||++++++||..+.++|..+++.  +     +|++|+++|+++++++|+++++.++.
T Consensus       161 eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~~~g~~~l~~~ei~~~~~~~~  218 (235)
T 1q5q_H          161 ETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIV  218 (235)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEeCCCeEEeCHHHHHHHHHHHH
Confidence            999999999999999999988763  2     99999999999999999999999884

>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=8.3e-45  Score=311.89  Aligned_cols=189  Identities=25%  Similarity=0.263  Sum_probs=181.2

Q ss_pred             CCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHh
Q 024133           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (272)
Q Consensus        53 ~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~  132 (272)
                      .+|||+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++.++++++++
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            39999999999999999999999999998888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCcceeEEEEEEEcC--CCCeeEEEeCCCceeecCc-eEEccChhHHHHHHHccCCCCCCHHHHHH
Q 024133          133 GASKLLANILYSYRGMGLSVGTMIAGWDE--TGPGLYYVDSEGGRLKGTR-FSVGSGSPYAYGVLDSGYKFDMSIEEAAE  209 (272)
Q Consensus       133 ~la~~ls~~l~~~R~~p~~v~~iiaG~D~--~gp~Ly~iDp~G~~~~~~~-~AiG~gs~~a~~~Le~~~~~~ms~eeai~  209 (272)
                      .+++++++++|.+|..|+++++||+|||+  +||+||++||+|++.++.. .|+|+|+.+++++||+.|+++||++||++
T Consensus        86 ~la~~l~~~~y~~r~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~  165 (205)
T 1iru_J           86 TLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFE  165 (205)
T ss_dssp             HHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCHHHHHH
Confidence            99999999999988778999999999995  6899999999999988766 78999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcccCCCcEEEEEEcCCCeEE
Q 024133          210 LARRAIYHATFRDAASGGVASVYYVGPNGWKK  241 (272)
Q Consensus       210 l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~  241 (272)
                      ++++||..+.+||..++++++|++|+++|++.
T Consensus       166 l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  197 (205)
T 1iru_J          166 TISQAMLNAVDRDAVSGMGVIVHIIEKDKITT  197 (205)
T ss_dssp             HHHHHHHHHGGGBTTSCSCEEEEEEESSBEEE
T ss_pred             HHHHHHHHHHHhCcccCCceEEEEEcCCCEEE
Confidence            99999999999999999999999999999864

>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=2.9e-45  Score=313.20  Aligned_cols=193  Identities=33%  Similarity=0.523  Sum_probs=184.1

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++.++++++++.++
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-CCCeeEEEeCCCceeecCceEE-ccChhHHHHHHHccCCCCCCHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIEEAAELARR  213 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~Ai-G~gs~~a~~~Le~~~~~~ms~eeai~l~~~  213 (272)
                      +++++++|.+|. |+++++||||||+ +||+||.  |+|++.++..+++ |+|+.+++++||+.|+++||++||++++++
T Consensus        81 ~~l~~~l~~~~~-p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~la~~  157 (199)
T 3unf_N           81 NVVKNISYKYRE-DLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTN  157 (199)
T ss_dssp             HHHHHHHHHTTT-TCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC-CceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHHHHHH
Confidence            999999999875 7899999999997 5799999  9999888887765 999999999999999999999999999999


Q ss_pred             HHHHHHhhcccCCCcEEEEEEcCCC--eEEcCcchHHHHH
Q 024133          214 AIYHATFRDAASGGVASVYYVGPNG--WKKLSGDDVGELH  251 (272)
Q Consensus       214 al~~a~~rd~~sg~~v~v~ii~kdg--~~~l~~~ei~~~~  251 (272)
                      ||..+.+||..++++++|++|+++|  ++.++++||++++
T Consensus       158 al~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~  197 (199)
T 3unf_N          158 AITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPKFY  197 (199)
T ss_dssp             HHHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSCCCC
T ss_pred             HHHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCcccc
Confidence            9999999999999999999999998  6779999998764

>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=1.1e-44  Score=319.85  Aligned_cols=211  Identities=16%  Similarity=0.191  Sum_probs=181.9

Q ss_pred             CCCCCcchhh---Hh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHH
Q 024133           34 PLSTDFDEFQ---KD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF  109 (272)
Q Consensus        34 p~~~~g~~~q---~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~  109 (272)
                      |....+.++-   +| |++||+  +|+|+|||+++||||||+|+|        +++.+|||+|++||+|+++|+.+|++.
T Consensus         4 ~~~~~p~~~~~~r~EYA~~av~--~GtT~vgi~~kdgVVlaadkr--------~~~~~KI~~I~d~i~~~~aG~~aD~~~   73 (248)
T 3mi0_A            4 PYFISPEQAMRERSELARKGIA--RAKSVVALAYAGGVLFVAENP--------SRSLQKISELYDRVGFAAAGKFNEFDN   73 (248)
T ss_dssp             ----CHHHHHHHHHHHHHHHHH--TSCCEEEEEETTEEEEEEECC--------CSSSCSEEEEETTEEEEEEECHHHHHH
T ss_pred             CccCCHHHhcccchHHHHHHHh--CCCcEEEEEeCCEEEEEEeCC--------CCCCCCeEEECCCEEEEEccCHHHHHH
Confidence            4344444443   46 999998  999999999999999999999        357899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhC-CcCCHhHHHHHHHH-HHHhc--cCCcceeEEEEEEEcC----CCCeeEEEeCCCceee-cCc
Q 024133          110 WHRNLGIKCRLHELANK-RRISVTGASKLLAN-ILYSY--RGMGLSVGTMIAGWDE----TGPGLYYVDSEGGRLK-GTR  180 (272)
Q Consensus       110 l~~~l~~~~~~~~~~~~-~~i~v~~la~~ls~-~l~~~--R~~p~~v~~iiaG~D~----~gp~Ly~iDp~G~~~~-~~~  180 (272)
                      +.+.++..++.|++.++ ++++++.+++++++ +.|.|  +..||+|++||+|||+    +||+||++||+|++.. +++
T Consensus        74 l~~~~~~~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~  153 (248)
T 3mi0_A           74 LRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHF  153 (248)
T ss_dssp             HHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSE
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccE
Confidence            99999999999999999 89999999999994 44433  3457789999999998    7899999999999995 999


Q ss_pred             eEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHH-------hhcccCCCcEEEEEEcCCC----eEEcCcchHHH
Q 024133          181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHAT-------FRDAASGGVASVYYVGPNG----WKKLSGDDVGE  249 (272)
Q Consensus       181 ~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~-------~rd~~sg~~v~v~ii~kdg----~~~l~~~ei~~  249 (272)
                      .|+|+|+..++++||++|+++||++||++++++||..+.       ++ ..++.+++|++|+++|    |++++++||++
T Consensus       154 ~a~Gsgs~~a~~~Le~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~-~~~~~~iev~vv~~~g~~~~f~~l~~~ei~~  232 (248)
T 3mi0_A          154 VVMGGTTEPIANALKESYAENASLTDALRIAVAALRAGSADTSGGDQP-TLGVASLEVAVLDANRPRRAFRRITGSALQA  232 (248)
T ss_dssp             EEESSCHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC-------------CCTTEEEEEEETTSSSCCEEECCHHHHHH
T ss_pred             EEECccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcccCccc-ccCCCcEEEEEEECCCCcccEEECCHHHHHH
Confidence            999999999999999999999999999999999999998       55 4678899999999998    99999999999


Q ss_pred             HHHhhC
Q 024133          250 LHYHYY  255 (272)
Q Consensus       250 ~~~~~~  255 (272)
                      ++.+..
T Consensus       233 ~l~~~~  238 (248)
T 3mi0_A          233 LLVDQE  238 (248)
T ss_dssp             TC----
T ss_pred             HHHHcC
Confidence            998764

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ...

Probab=100.00  E-value=2.9e-44  Score=308.30  Aligned_cols=187  Identities=25%  Similarity=0.259  Sum_probs=179.9

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      +|||+|||+++||||||+|+|.+.|.++.+++.+||++|+ ++++++||..+|++.+.++++.+++.|+++++++++++.
T Consensus         7 ~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~   85 (204)
T 1ryp_J            7 NGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPET   85 (204)
T ss_dssp             SCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHH
T ss_pred             CCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCHHH
Confidence            9999999999999999999999999998888999999999 999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCcceeEEEEEEEcC--CCCeeEEEeCCCceeecCc-eEEccChhHHHHHHHccCCCCCCHHHHHHH
Q 024133          134 ASKLLANILYSYRGMGLSVGTMIAGWDE--TGPGLYYVDSEGGRLKGTR-FSVGSGSPYAYGVLDSGYKFDMSIEEAAEL  210 (272)
Q Consensus       134 la~~ls~~l~~~R~~p~~v~~iiaG~D~--~gp~Ly~iDp~G~~~~~~~-~AiG~gs~~a~~~Le~~~~~~ms~eeai~l  210 (272)
                      +++++++++|.+|..|+++++||+|||+  +||+||++||+|++.++.. .|+|+|+.+++++||+.|+++||++||+++
T Consensus        86 la~~l~~~~y~~~~~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l  165 (204)
T 1ryp_J           86 FTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFET  165 (204)
T ss_dssp             HHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCCCcCHHHHHHH
Confidence            9999999999988779999999999995  6899999999999988765 789999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEEEcCCCeEE
Q 024133          211 ARRAIYHATFRDAASGGVASVYYVGPNGWKK  241 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~  241 (272)
                      +++||..+.+||..++++++|++|+++|++.
T Consensus       166 ~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  196 (204)
T 1ryp_J          166 ISQALLNAADRDALSGWGAVVYIIKKDEVVK  196 (204)
T ss_dssp             HHHHHHHHHTTBTTSCSCEEEEEEESSCEEE
T ss_pred             HHHHHHHHHHhCcccCCcEEEEEEcCCCEEE
Confidence            9999999999999999999999999999864

>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H* 1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H* 2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H* 3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ...

Probab=100.00  E-value=1.5e-44  Score=314.20  Aligned_cols=194  Identities=31%  Similarity=0.427  Sum_probs=185.1

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++||++++||..+|++.+.++++.+++.|+++++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++.+|.+|. |+++++||||||++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||++||++++++||
T Consensus        81 ~~l~~~l~~~~~-p~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al  159 (222)
T 1ryp_I           81 QMLKQHLFKYQG-HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAI  159 (222)
T ss_dssp             HHHHHHHHHTTT-CSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCC-CCCeeEEEEEEeCCCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHHHHHHH
Confidence            999999998864 6889999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCC-eEEcCcchHHHH
Q 024133          216 YHATFRDAASGGVASVYYVGPNG-WKKLSGDDVGEL  250 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~~ei~~~  250 (272)
                      ..+.+||..++++++|++++++| ++.+.+.++..-
T Consensus       160 ~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~~~~~~  195 (222)
T 1ryp_I          160 QAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNV  195 (222)
T ss_dssp             HHHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCC
T ss_pred             HHHHhccccCCCcEEEEEEECCCCEEEEeceecCCc
Confidence            99999999999999999999999 998776665443

>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=5e-45  Score=328.90  Aligned_cols=212  Identities=24%  Similarity=0.319  Sum_probs=173.4

Q ss_pred             Hh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHH
Q 024133           44 KD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHE  122 (272)
Q Consensus        44 ~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~  122 (272)
                      +| |++ ++  +|||+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.+.++++.+++.|+
T Consensus        48 ~~ya~~-v~--~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~  124 (291)
T 2jay_A           48 AGGDAQ-LP--HGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYE  124 (291)
T ss_dssp             -------------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEEEEESCHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccc-cc--CCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEEEEcccHHHHHHHHHHHHHHHHHhh
Confidence            45 777 66  999999999999999999999999989999999999999999999999999999999999999999999


Q ss_pred             HhhCCcCCHhHHHHHHHHHHHhccCC---cceeEEEEEEEcCC-C-----CeeEEEeCCCcee--ecCceEEccChhHHH
Q 024133          123 LANKRRISVTGASKLLANILYSYRGM---GLSVGTMIAGWDET-G-----PGLYYVDSEGGRL--KGTRFSVGSGSPYAY  191 (272)
Q Consensus       123 ~~~~~~i~v~~la~~ls~~l~~~R~~---p~~v~~iiaG~D~~-g-----p~Ly~iDp~G~~~--~~~~~AiG~gs~~a~  191 (272)
                      +.++++++++.+++.+++++|.+|+.   |++|++||||||++ +     |+||++||+|+++  ++++.|+|+|+.+++
T Consensus       125 ~~~~~~i~v~~la~~la~~l~~~~~~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~  204 (291)
T 2jay_A          125 KLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAK  204 (291)
T ss_dssp             HHHSSCCCHHHHHHHHHHHHHTCHHHHHHTCCCEEEEEEECTTCSCSTTCEEEEEECTTSCEEECSSSEEEESTTHHHHH
T ss_pred             hhcCCCCCHHHHHHHHHHHHHHhhhhhccccceeEEEEEEeCCCCcCCCCCEEEEECCCCcEEecCCCEEEEecCHHHHH
Confidence            99999999999999999999987652   67899999999975 4     8999999999999  889999999999999


Q ss_pred             HHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCc--E-----EEEEEcCCCeEEcCcchHHHHHHhhCCCC
Q 024133          192 GVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGV--A-----SVYYVGPNGWKKLSGDDVGELHYHYYPVT  258 (272)
Q Consensus       192 ~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~--v-----~v~ii~kdg~~~l~~~ei~~~~~~~~~~~  258 (272)
                      ++||+.|+++||++||++++++||..+.++|..+++.  +     +|++|+++|+++++++||++++..+...+
T Consensus       205 ~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~v~vi~~dg~~~l~~~ei~~~~~~~~~~~  278 (291)
T 2jay_A          205 SSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIIDADGAVDVPESRIAELARAIIESR  278 (291)
T ss_dssp             HHHHHHGGGCCSHHHHHHHHHHHHHHC----------------CCEEEEEETTEEEECCHHHHHHHHHHC----
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCEEEEEECCCeEEcCHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999988764  2     69999999999999999999999987654

>1iru_K 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_J* 3une_J 3unf_J* 3unh_J

Probab=100.00  E-value=2.6e-44  Score=307.87  Aligned_cols=190  Identities=24%  Similarity=0.264  Sum_probs=180.2

Q ss_pred             CceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        55 Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      .||+|||+++||||||+|+|.++|.++.+++.+||++|++||++++||..+|++.+.++++.+++.|++.++++++++.+
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~   80 (201)
T 1iru_K            1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAA   80 (201)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHH
T ss_pred             CceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH-HhccC-CcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHH
Q 024133          135 SKLLANIL-YSYRG-MGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELA  211 (272)
Q Consensus       135 a~~ls~~l-~~~R~-~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~  211 (272)
                      ++++++.+ +.+|. .|+++++||+|||+ +||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||++||++++
T Consensus        81 a~~~~~~l~~~~~~~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~  160 (201)
T 1iru_K           81 ANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELL  160 (201)
T ss_dssp             HHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHHH
Confidence            99998765 54343 47889999999997 68999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCc
Q 024133          212 RRAIYHATFRDAASGGVASVYYVGPNGWKKLSG  244 (272)
Q Consensus       212 ~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~  244 (272)
                      ++||..+.+||..++++++|++|+++|++.++.
T Consensus       161 ~~al~~a~~rd~~sg~~i~v~vi~~~g~~~~~~  193 (201)
T 1iru_K          161 RKCLEELQKRFILNLPTFSVRIIDKNGIHDLDN  193 (201)
T ss_dssp             HHHHHHHHHTBCBCCCCEEEEEEETTEEECCCC
T ss_pred             HHHHHHHHhhccccCCceEEEEEcCCCeEEeec
Confidence            999999999999999999999999999998764

>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=4.8e-44  Score=313.47  Aligned_cols=194  Identities=30%  Similarity=0.433  Sum_probs=185.6

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999999998889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++.+|.+|. |+++++||||||++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||++||++++++||
T Consensus        81 ~~l~~~l~~~~~-~~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al  159 (234)
T 1iru_I           81 RMLKQMLFRYRG-YIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAI  159 (234)
T ss_dssp             HHHHHHHHHTTT-CSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHH
T ss_pred             HHHHHHHHhcCC-CCceeEEEEEEcCCCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            999999998875 5889999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHH
Q 024133          216 YHATFRDAASGGVASVYYVGPNGWKKLSGDDVGEL  250 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~  250 (272)
                      ..+..+|..++++++|++|+++|++.+.+.++..-
T Consensus       160 ~~a~~~d~~sg~~i~v~vi~k~g~~~~~~~~~~~~  194 (234)
T 1iru_I          160 AAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNK  194 (234)
T ss_dssp             HHHHHHCTTCCSCEEEEEEETTEEECCSEEECCCC
T ss_pred             HHHHHhcccCCCCEEEEEEECCcEEEEcceecCcc
Confidence            99999999999999999999999998876665554

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

Probab=100.00  E-value=2.3e-36  Score=253.25  Aligned_cols=168  Identities=18%  Similarity=0.207  Sum_probs=153.6

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEe-cCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++| ++|+++++||..+|++.|.++++.+++.|++      ++...
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            6899999999999999999999999999999999999 9999999999999999999999999999985      45556


Q ss_pred             HHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecC---ceEEccChhHHHHHHHccCC-CCCCHHHHHHH
Q 024133          135 SKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGT---RFSVGSGSPYAYGVLDSGYK-FDMSIEEAAEL  210 (272)
Q Consensus       135 a~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~---~~AiG~gs~~a~~~Le~~~~-~~ms~eeai~l  210 (272)
                      +..+++.++.+|..+ .++.+++|+|  +|+||++||+|++.+++   +.|+|+|+.+++++||+.|+ ++||.+   ++
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--EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAH---EI  148 (174)
T ss_dssp             HHHHHHHHHHSTTGG-GCCCEEEEEC--SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHH---HH
T ss_pred             HHHHHHHHHhccCcC-cceEEEEEEC--CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHH---HH
Confidence            677788887766543 2567889998  79999999999999988   89999999999999999999 999965   79


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEEEc
Q 024133          211 ARRAIYHATFRDAASGGVASVYYVG  235 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~ii~  235 (272)
                      +++||..+.+||..++++++|++|+
T Consensus       149 ~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          149 VEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             HHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             HHHHHHHHHHhccccCCceEEEEec
Confidence            9999999999999999999999986

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=100.00  E-value=6.4e-36  Score=251.93  Aligned_cols=170  Identities=21%  Similarity=0.187  Sum_probs=150.5

Q ss_pred             CCCceEEEEEeCCeEEEEEeCCCcCCce-eeccccceEEEe-cCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCC
Q 024133           53 AKGTTTLAFIFKEGVMVAADSRASMGGY-ISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRIS  130 (272)
Q Consensus        53 ~~Gtt~vgik~kdgVvlAaD~r~t~g~l-i~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~  130 (272)
                      .+|||+|||+++||||||+|+|.+.|.+ +.+++.+||++| ++|+++++||..+|++.|.++++.+++.|+   +  ..
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            4899999999999999999999999988 999999999999 999999999999999999999999999998   3  22


Q ss_pred             HhHHHHHHHHHHHhccCC-cceeEEEEEEEcCCCCeeEEEeCCCceeec--CceEEccChhHHHHHHHccCCC---CCCH
Q 024133          131 VTGASKLLANILYSYRGM-GLSVGTMIAGWDETGPGLYYVDSEGGRLKG--TRFSVGSGSPYAYGVLDSGYKF---DMSI  204 (272)
Q Consensus       131 v~~la~~ls~~l~~~R~~-p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~--~~~AiG~gs~~a~~~Le~~~~~---~ms~  204 (272)
                      ++.++ .+++.++.++.+ |+.+++||+  |  +|+||++||+|++.++  ++.|+|+|+.+++++||+.|++   +||.
T Consensus        78 ~~~~~-~l~~~~~~~~~~rp~~~~~lva--d--~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~mt~  152 (180)
T 2z3b_A           78 KRAAV-ELAKEWRSDKVLRKLEAMLIVM--N--QDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSA  152 (180)
T ss_dssp             HHHHH-HHHHHHHHCTTGGGCCCCEEEE--C--SSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCCH
T ss_pred             HHHHH-HHHHHHHhhhCcCcceEEEEEE--c--CCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCCCCH
Confidence            33333 456666555433 577888988  4  7999999999999984  8899999999999999999998   9999


Q ss_pred             HHHHHHHHHHHHHHHhhcccCCCcEEEEEEc
Q 024133          205 EEAAELARRAIYHATFRDAASGGVASVYYVG  235 (272)
Q Consensus       205 eeai~l~~~al~~a~~rd~~sg~~v~v~ii~  235 (272)
                      ||   ++++||..+.+||.++|++++|++|+
T Consensus       153 ee---l~~~al~~a~~rd~~sg~~i~v~~i~  180 (180)
T 2z3b_A          153 SE---IARAALETAGEICVYTNDQIILEELE  180 (180)
T ss_dssp             HH---HHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             HH---HHHHHHHHHHHhcCccCCeEEEEEEC
Confidence            99   47799999999999999999999883

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

Probab=100.00  E-value=1.4e-35  Score=247.63  Aligned_cols=166  Identities=19%  Similarity=0.229  Sum_probs=149.5

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEe-cCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEI-NPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++| ++|+++++||..+|++.+.++++.+++.|+++     .++.+
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            6899999999999999999999999999999999999 99999999999999999999999999998854     26666


Q ss_pred             HHHHHHHHHhccCC-cceeEEEEEEEcCCCCeeEEEeCCCceeecC--ceEEccChhHHHHHHHccCC-CCCCHHHHHHH
Q 024133          135 SKLLANILYSYRGM-GLSVGTMIAGWDETGPGLYYVDSEGGRLKGT--RFSVGSGSPYAYGVLDSGYK-FDMSIEEAAEL  210 (272)
Q Consensus       135 a~~ls~~l~~~R~~-p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~--~~AiG~gs~~a~~~Le~~~~-~~ms~eeai~l  210 (272)
                      +++.+ .++.+|.. |+++++|++  |  ||+||++||+|++.+++  +.|+|+|+.+++++||+.|+ ++||.   .++
T Consensus        76 ~~l~~-~~~~~~~~~~~~~~~lv~--D--~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---~~l  147 (171)
T 1m4y_A           76 VELAK-DWRTDRVLRRLEALLLVA--D--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---REI  147 (171)
T ss_dssp             HHHHH-HHHHCTTGGGCCCEEEEE--C--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---HHH
T ss_pred             HHHHH-HHHHhCCCCceEEEEEEE--c--CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---HHH
Confidence            66644 66666544 377877777  5  89999999999999988  99999999999999999999 99997   678


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEEE
Q 024133          211 ARRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      +++||..+.+||..++++++|.++
T Consensus       148 ~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          148 VEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHHHHHHHhCcccCCeEEEEEC
Confidence            999999999999999999999864

---

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	272
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	4e-63
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	1e-59
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-54
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	8e-53
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-51
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	6e-51
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	3e-50
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-49
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	1e-48
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	6e-48
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	4e-47
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	9e-47
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	2e-46
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	7e-46
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	4e-45
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	8e-45
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	4e-43
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-42
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-41
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	2e-41
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	7e-41
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	8e-41
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	1e-40
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	1e-39
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-39
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	1e-38
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	2e-38
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	5e-38
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-37
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-37
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-36
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	2e-36
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	9e-36
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	2e-34
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-33
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	6e-33
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	9e-31

>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 =  194 bits (495), Expect = 4e-63
 Identities = 132/199 (66%), Positives = 163/199 (81%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +CR++EL NK RISV  ASKLLAN++Y Y+GMGLS+GTMI GWD+ GPGLYYVDSEG R
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
           + G  FSVGSGS YAYGV+D GY +D+ +E+A +LARRAIY AT+RDA SGG  ++Y+V 
Sbjct: 121 ISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVR 180

Query: 236 PNGWKKLSGDDVGELHYHY 254
            +GW ++S D+V +LH  Y
Sbjct: 181 EDGWIRVSSDNVADLHEKY 199

>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 =  186 bits (474), Expect = 1e-59
 Identities = 116/200 (58%), Positives = 150/200 (75%), Gaps = 1/200 (0%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAG-WDETGPGLYYVDSEGG 174
            +CRLHEL  K RISV  ASK+L+N++Y Y+G GLS+GTMI G   + GP +YYVDS+G 
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
           RLKG  F VGSG  +AYGVLDS YK+D+S+E+A  L +R+I  A  RDA SGG  ++Y+V
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV 180

Query: 235 GPNGWKKLSGDDVGELHYHY 254
             +GW      DVGEL +  
Sbjct: 181 TEDGWIYHGNHDVGELFWKV 200

>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 =  172 bits (437), Expect = 2e-54
 Identities = 62/195 (31%), Positives = 96/195 (49%), Gaps = 4/195 (2%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGG 174
            +   H +       V  A+ L   + Y YR   L  G +IAGWD   G  +Y V   G 
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYRED-LMAGIIIAGWDPQEGGQVYSVPMGGM 119

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
            ++ +    GSGS Y YG +D+ Y+  M+ EE  +    A+  A  RD +SGGV  +  +
Sbjct: 120 MVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAI 179

Query: 235 GPNGWKK--LSGDDV 247
             +G ++  L GD +
Sbjct: 180 AESGVERQVLLGDQI 194

>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 =  168 bits (427), Expect = 8e-53
 Identities = 72/200 (36%), Positives = 116/200 (58%), Gaps = 1/200 (0%)

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 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
           I+  L+E+  +R+ +V   + L +N+L SYR     V  +I G D  G  +Y +D  GG 
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGA 120

Query: 176 LKGTRF-SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYV 234
           ++     + GSGS  AYGVL+  +  ++ ++EA ELA RAIY A  RD+ASG    V  +
Sbjct: 121 IEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKI 180

Query: 235 GPNGWKKLSGDDVGELHYHY 254
             + + + S ++V ++   +
Sbjct: 181 TEDEFYQYSPEEVEQILAKF 200

>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 =  166 bits (420), Expect = 1e-51
 Identities = 53/200 (26%), Positives = 98/200 (49%), Gaps = 5/200 (2%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G + +A  FK+GV++ ADSR + G YI+++   K+  ++  +    +G AAD Q     
Sbjct: 8   LGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADI 67

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEG 173
           +     L+        + T A+ +   + Y  +   L+ G ++AG+D+   G  Y    G
Sbjct: 68  VQYHLELYTSQYGTPSTET-AASVFKELCYENKDN-LTAGIIVAGYDDKNKGEVYTIPLG 125

Query: 174 GRLKGTRFSV-GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVY 232
           G +    +++ GSGS + YG  D  ++ +MS EE  +  + ++  A   D +SGGV  + 
Sbjct: 126 GSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMV 185

Query: 233 YVGPNGWKKL--SGDDVGEL 250
            +   G ++L    D+  +L
Sbjct: 186 VLTAAGVERLIFYPDEYEQL 205

>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 =  164 bits (416), Expect = 6e-51
 Identities = 59/194 (30%), Positives = 92/194 (47%), Gaps = 1/194 (0%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               LH L+  R   V  A+++L  +L+ YRG  +    ++ G D TGP LY +   G  
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGY-IGAALVLGGVDVTGPHLYSIYPHGST 119

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
            K    ++GSGS  A  V +  ++ DM  EEA  L   AI    F D  SG    +  + 
Sbjct: 120 DKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVIS 179

Query: 236 PNGWKKLSGDDVGE 249
            N    L    V  
Sbjct: 180 KNKLDFLRPYTVPN 193

>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 =  161 bits (409), Expect = 3e-50
 Identities = 62/196 (31%), Positives = 106/196 (54%), Gaps = 2/196 (1%)

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 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
            +  L+ L  +  + +   + LL+N+L   + M   V  ++ G D   P ++ +D+ GG 
Sbjct: 61  AELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGIDT-APHVFSIDAAGGS 119

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
           ++    S GSGSP+ YGVL+S Y   M+++E  +L  RAI  A  RD+ASGG+  V  + 
Sbjct: 120 VEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVIT 179

Query: 236 P-NGWKKLSGDDVGEL 250
             +G+ +L  D +   
Sbjct: 180 RKDGYVQLPTDQIESR 195

>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 =  160 bits (405), Expect = 3e-49
 Identities = 56/217 (25%), Positives = 92/217 (42%), Gaps = 18/217 (8%)

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------ETGPGL 166
           ++   +E      ++  G +  LA+++    G    GL+V  ++ G+D           +
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRI 120

Query: 167 YYVDSEGGRL--KGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAA 224
              D  GGR   +    +VGSGS +A   L   Y  D   E A   A  ++Y A   D+A
Sbjct: 121 VSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSA 180

Query: 225 SGGVA-------SVYYVGPNGWKKLSGDDVGELHYHY 254
           +GG         +   +   G   +S +   EL    
Sbjct: 181 TGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRI 217

>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 =  159 bits (402), Expect = 1e-48
 Identities = 43/216 (19%), Positives = 81/216 (37%), Gaps = 14/216 (6%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
             GT+ ++  +  GV++AAD+  S G  +    V+++I +    +  ++G  +D Q   R
Sbjct: 6   VTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIER 65

Query: 113 NLGIKCRLHELANKR-----RISVTGASKLLANILYSYRGMGL--SVGTMIAGWDETGPG 165
            L      +   N        +  +   + LA ++Y  R          ++AG    G  
Sbjct: 66  LLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQ 125

Query: 166 -LYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK-----FDMSIEEAAELARRAIYHAT 219
            L YV+  G        + G G+  A  +L             +++ A E    A+    
Sbjct: 126 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLY 185

Query: 220 FRDAASGGVASVYYVGPN-GWKKLSGDDVGELHYHY 254
           +RDA S    S+  +  N G        V  + + +
Sbjct: 186 YRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDF 221

>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 =  156 bits (396), Expect = 6e-48
 Identities = 62/210 (29%), Positives = 98/210 (46%), Gaps = 8/210 (3%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
               LH L   R   V  A ++L   L+ Y+G       ++AG D TG  L+ + + G  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHI-GAYLIVAGVDPTGSHLFSIHAHGST 119

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVG 235
             G   S+GSGS  A  VL+S +K D++ EEA +LA  AI    + D  SG    V  + 
Sbjct: 120 DVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVME 179

Query: 236 PN-GWKKLSGDDVG------ELHYHYYPVT 258
                + L            +  Y +   T
Sbjct: 180 IGKDAEYLRNYLTPNVREEKQKSYKFPRGT 209

>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 =  153 bits (388), Expect = 4e-47
 Identities = 39/192 (20%), Positives = 77/192 (40%), Gaps = 4/192 (2%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDE--TGPGLYYVDS 171
              +L+ +     +S    S  +   L           V  +I G+D+    P LY +D 
Sbjct: 62  ANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDY 121

Query: 172 EGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASV 231
            G +++    + G    Y + +LD  Y+ DM+ EE  +L +  +     R         V
Sbjct: 122 LGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIV 181

Query: 232 YYVGPNGWKKLS 243
             V  +G +++ 
Sbjct: 182 KIVDKDGIRQVD 193

>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 =  153 bits (388), Expect = 9e-47
 Identities = 48/200 (24%), Positives = 76/200 (38%), Gaps = 5/200 (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--SVGTMIAGWDETGPGLYYV 169
            LG      EL       S       L   +YS R          +I G+ +    L YV
Sbjct: 66  VLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYV 125

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKF--DMSIEEAAELARRAIYHATFRDAASGG 227
           D  G   +    + G G+  A  +L    +    +S  EA +L  R +    +RDA S  
Sbjct: 126 DMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYN 185

Query: 228 VASVYYVGPNGWKKLSGDDV 247
                 V   G +       
Sbjct: 186 RFQTATVTEKGVEIEGPLST 205

>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 =  153 bits (387), Expect = 2e-46
 Identities = 40/208 (19%), Positives = 88/208 (42%), Gaps = 12/208 (5%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
             G+T +     EGV +A + R +    +   S++KI+EI+ ++   M+G  AD +    
Sbjct: 25  KLGSTAIGIQTSEGVCLAVEKRITSP-LMEPSSIEKIVEIDAHIGCAMSGLIADAKTLID 83

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSY---------RGMGLSVGTMIAGWDETG 163
              ++ + H       ++V   ++ ++N+   +               V  +  G DE G
Sbjct: 84  KARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKG 143

Query: 164 PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDA 223
           P L+++D  G  ++    ++GS S  A   L   Y   M+++EA + +   +      + 
Sbjct: 144 PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQV-MEEK 202

Query: 224 ASGGVASVYYVGPN-GWKKLSGDDVGEL 250
            +     +  V P   +   + +++ E+
Sbjct: 203 LNATNIELATVQPGQNFHMFTKEELEEV 230

>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 =  150 bits (380), Expect = 7e-46
 Identities = 47/190 (24%), Positives = 81/190 (42%), Gaps = 3/190 (1%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G   +A   K  V +AAD R  +   + +   +KI  +   +   +AG A D Q   + L
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPG--LYYVDSE 172
             +  L+EL   R+I       ++AN+LY  R        +IAG D       +  +D  
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLI 126

Query: 173 GGRLKGTRFSVG-SGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASV 231
           G  +    F V  + +   YG+ +S ++ +M  +   E   +A+ +A  RDA SG    V
Sbjct: 127 GCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIV 186

Query: 232 YYVGPNGWKK 241
           + +  +    
Sbjct: 187 HIIEKDKITT 196

>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 =  149 bits (377), Expect = 4e-45
 Identities = 46/206 (22%), Positives = 85/206 (41%), Gaps = 19/206 (9%)

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

Query: 115 GIKCRLHELANK-RRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPG-LYYVDSE 172
               + +   +  +++S+  A++ + ++LY  R     V T+IAG DE G G +Y  D  
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPV 128

Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKF-----------------DMSIEEAAELARRAI 215
           G   +    + G+ +      LD+   F                  +S+EE  +L R + 
Sbjct: 129 GSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSF 188

Query: 216 YHATFRDAASGGVASVYYVGPNGWKK 241
             AT R    G    +  V  +G +K
Sbjct: 189 TSATERHIQVGDGLEILIVTKDGVRK 214

>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 =  148 bits (375), Expect = 8e-45
 Identities = 43/201 (21%), Positives = 81/201 (40%), Gaps = 5/201 (2%)

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----LSVGTMIAGWDETGPGLYYV 169
             I  +  ++     +++    K +A+ +  Y   G      V  + AG D+ GP L+  
Sbjct: 80  ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDC 139

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVA 229
           D  G   +    ++GSG       L+  YK ++  +EA  L  +A+  +           
Sbjct: 140 DPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGEELKAPE 199

Query: 230 SVYYVGPNGWKKLSGDDVGEL 250
                  N ++    ++V + 
Sbjct: 200 IASITVGNKYRIYDQEEVKKF 220

>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 =  143 bits (362), Expect = 4e-43
 Identities = 50/190 (26%), Positives = 82/190 (43%), Gaps = 4/190 (2%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETG--PGLYYVDSE 172
             K  L++L  +R I     ++L+++ LY  R     VG ++AG +     P +   D  
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLI 126

Query: 173 GGRLKGTRFSVG-SGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASV 231
           G   +   F V  + S   +G+ +S Y+ ++  E+  E   +A+ +A  RDA SG  A V
Sbjct: 127 GCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAVV 186

Query: 232 YYVGPNGWKK 241
           Y +  +   K
Sbjct: 187 YIIKKDEVVK 196

>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 =  143 bits (362), Expect = 1e-42
 Identities = 44/203 (21%), Positives = 86/203 (42%), Gaps = 7/203 (3%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
            +G T +    KEGV++ AD R      +   +++KI +I+ ++    +G  AD +    
Sbjct: 29  KRGATAIGIKCKEGVILIADKRVGSK-LLEKDTIEKIYKIDEHICAATSGLVADARVLID 87

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYY 168
              I+ +++ L     I+V   +K + +    Y   G      V  +IAG +E  P LY 
Sbjct: 88  RARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNEV-PKLYE 146

Query: 169 VDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGV 228
            D  G  L+    ++G G        +  Y+ D+S ++A  L   A+  +   +     +
Sbjct: 147 TDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENI 206

Query: 229 -ASVYYVGPNGWKKLSGDDVGEL 250
                 V    +K++S +++   
Sbjct: 207 EVGYVKVDDRTFKEVSPEELKPY 229

>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 =  141 bits (356), Expect = 1e-41
 Identities = 42/209 (20%), Positives = 81/209 (38%), Gaps = 11/209 (5%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           +   T +  +  +G+++AA+ + +        S +K+ ++N  +   +AG  AD +    
Sbjct: 29  SHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILIN 88

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWD-ETGPGLY 167
              I  + +       I V    + L++I   Y   G      V  + AG+D   G  LY
Sbjct: 89  TARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLY 148

Query: 168 YVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGG 227
             +  G        SVG+ +  A  +L   YK DM +++A ELA + +   T   A +  
Sbjct: 149 TSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYD 208

Query: 228 VASVYYVGPNG------WKKLSGDDVGEL 250
                 +           K     ++ ++
Sbjct: 209 RLEFATIRKGANDGEVYQKIFKPQEIKDI 237

>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 =  140 bits (355), Expect = 2e-41
 Identities = 37/206 (17%), Positives = 72/206 (34%), Gaps = 11/206 (5%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            GTT++     +GV+ A +   +    +  Q   KI  ++ ++    +G   D +     
Sbjct: 29  NGTTSIGIKCNDGVVFAVEKLITSK-LLVPQKNVKIQVVDRHIGCVYSGLIPDGRHLVNR 87

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
              +    +   K  I +   +  L   + ++          V T+  G D+ G  LY +
Sbjct: 88  GREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYML 147

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLD---SGYKFDMSIEEAAELARRAIYHATFRDAASG 226
           +  G        + G G   A   L+     +   +S  EA + A + IY A   +    
Sbjct: 148 EPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKD 207

Query: 227 ---GVASVYYVGPNGWKKLSGDDVGE 249
               ++       NG  K    D+ +
Sbjct: 208 FELEISWCSLSETNGLHKFVKGDLLQ 233

>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 =  139 bits (351), Expect = 7e-41
 Identities = 42/209 (20%), Positives = 85/209 (40%), Gaps = 14/209 (6%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
            G+T +    KEGV++  + RA+    + S S++KI+EI+ ++   M+G  AD +    +
Sbjct: 25  LGSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADARSMIEH 83

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----------LSVGTMIAGWDETG 163
                  H L     I+V   ++ + ++   +                V  +IAG D   
Sbjct: 84  ARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADD 143

Query: 164 PG-LYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRD 222
              L++ +  G   +    ++GSGS  A   L + +   ++++EA  L  + +       
Sbjct: 144 GYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEK 203

Query: 223 AASGGVASVYYVGP-NGWKKLSGDDVGEL 250
                   +  +   +G+K    +   EL
Sbjct: 204 LDENNA-QLSCITKQDGFKIYDNEKTAEL 231

>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 =  139 bits (351), Expect = 8e-41
 Identities = 43/207 (20%), Positives = 77/207 (37%), Gaps = 10/207 (4%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
              T L  +  +GV++AA+ R            +KI ++N  M  ++AG  +D       
Sbjct: 29  HAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNE 88

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDE-TGPGLYY 168
           L +  + + L  +  I        L +I  +Y   G      V  +  GWD+  G  LY 
Sbjct: 89  LRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQ 148

Query: 169 VDSEGGRLKGTRFSVGSGSPYAYGVLDSGY-KFDMSIEEAAELARRAIYHATFRDAASGG 227
            D  G         +G+ S  A  +L   Y + +M+++ A  LA + +         S  
Sbjct: 149 SDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAE 208

Query: 228 VASVYYVGPNGW----KKLSGDDVGEL 250
              +  +         + L   +V +L
Sbjct: 209 KVEIATLTRENGKTVIRVLKQKEVEQL 235

>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 =  138 bits (349), Expect = 1e-40
 Identities = 48/207 (23%), Positives = 86/207 (41%), Gaps = 12/207 (5%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
            +G+ T+        ++ A  R +      S   KKII+ + +M  ++AG A D +    
Sbjct: 29  KQGSVTVGLRSNTHAVLVALKRNADE---LSSYQKKIIKCDEHMGLSLAGLAPDARVLSN 85

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILY----SYRGMGLSVGTMIAGWDETGPGLYY 168
            L  +C    L   R+++V  A  LL +       SY G    VG +I G+D++G  L  
Sbjct: 86  YLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLE 145

Query: 169 VDSEGGRLKGTRFSVGSGSPYA----YGVLDSGYKFDMSIEEAAELARRAIYHATFRDAA 224
               G   +    ++G+ S  A       LD+  K D + +E  +    AI  +   ++ 
Sbjct: 146 FQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESL 205

Query: 225 SGGVASVYYVGPN-GWKKLSGDDVGEL 250
           +    S+  VG +  +    G+ V + 
Sbjct: 206 TVDNLSIAIVGKDTPFTIYDGEAVAKY 232

>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 =  135 bits (341), Expect = 1e-39
 Identities = 36/202 (17%), Positives = 74/202 (36%), Gaps = 6/202 (2%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           A G  ++      GV++A + +         +SV K+  I  ++    +G   D +    
Sbjct: 29  AGGAPSVGIKAANGVVLATEKKQKSI-LYDERSVHKVEPITKHIGLVYSGMGPDYRVLVH 87

Query: 113 NLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGL----SVGTMIAGWDETGPGLYY 168
                 + + L  +  I      + +A+++  Y   G      V  +I GW+E  P L+ 
Sbjct: 88  RARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQ 147

Query: 169 VDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGV 228
            D  G        ++G         L+  Y  D+ +E+A   A   +  +         +
Sbjct: 148 SDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMTEDNI 207

Query: 229 ASVYYVGPNGWKKLSGDDVGEL 250
             V      G+++L+  +V + 
Sbjct: 208 -EVGICNEAGFRRLTPTEVKDY 228

>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 =  134 bits (337), Expect = 2e-39
 Identities = 44/191 (23%), Positives = 74/191 (38%), Gaps = 3/191 (1%)

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

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWD-ETGPGLYYVDSE 172
              +L+++ N   +S T A+      L           V  ++AG+D   GP LYY+D  
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYL 121

Query: 173 GGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVY 232
               K    + G G+     +LD  Y   +S E A EL R+ +     R   +    SV 
Sbjct: 122 AALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVR 181

Query: 233 YVGPNGWKKLS 243
            +  NG   L 
Sbjct: 182 IIDKNGIHDLD 192

>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 =  133 bits (336), Expect = 1e-38
 Identities = 40/205 (19%), Positives = 77/205 (37%), Gaps = 11/205 (5%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G+ T+    K   ++ A  RA       +   KKI+ ++ ++  ++AG  AD +     
Sbjct: 28  QGSATVGLKSKTHAVLVALKRAQSE---LAAHQKKILHVDNHIGISIAGLTADARLLCNF 84

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDETGPGLYYV 169
           +  +C        R + V+    L+ +               VG +IAG+D+ GP ++  
Sbjct: 85  MRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQT 144

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM--SIEEAAELARRAIYHATFRD-AASG 226
                       S+G+ S  A   L+      M  ++ E  +   RA+      +   + 
Sbjct: 145 CPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTT 204

Query: 227 GVASVYYVGPN-GWKKLSGDDVGEL 250
              S+  VG +  +     DDV   
Sbjct: 205 KNVSIGIVGKDLEFTIYDDDDVSPF 229

>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 =  132 bits (334), Expect = 2e-38
 Identities = 32/208 (15%), Positives = 69/208 (33%), Gaps = 8/208 (3%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
             +T +    K+GV+   +       Y    S K++  ++ ++   +AG  AD +     
Sbjct: 32  NSSTAIGIRCKDGVVFGVEKLVLSKLYEEG-SNKRLFNVDRHVGMAVAGLLADARSLADI 90

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWD-ETGPGLYY 168
              +           I +   +  +A  +++Y             M+  +    G  LY 
Sbjct: 91  AREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYM 150

Query: 169 VDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGV 228
           +D  G        ++G     A   ++     +M+  +  +   + IY            
Sbjct: 151 IDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFE 210

Query: 229 ASVYYVGP--NGWKKLSGDDVGELHYHY 254
             + +VG   NG  ++   D+ E    Y
Sbjct: 211 LELSWVGELTNGRHEIVPKDIREEAEKY 238

>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 =  131 bits (329), Expect = 5e-38
 Identities = 47/197 (23%), Positives = 84/197 (42%), Gaps = 10/197 (5%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             + ++++ +N + ++    + +L+ ILYS R     V  +I G DE G G  Y     G
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVG 128

Query: 175 RLKGTRFSV-GSGSPYAYGVLDSGYKF---------DMSIEEAAELARRAIYHATFRDAA 224
             +   F   GS S     +LD+   F          +S++ A  L +     A  RD  
Sbjct: 129 SYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVY 188

Query: 225 SGGVASVYYVGPNGWKK 241
           +G    +  V   G ++
Sbjct: 189 TGDALRICIVTKEGIRE 205

>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 =  130 bits (328), Expect = 2e-37
 Identities = 34/208 (16%), Positives = 66/208 (31%), Gaps = 14/208 (6%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
              +LA   K+  +V +  +      +   +V  I  I+  +   + G   D +      
Sbjct: 30  NINSLAVRGKDCTVVISQKKVPDK-LLDPTTVSYIFCISRTIGMVVNGPIPDARNAALRA 88

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWD-ETGPGLYYV 169
             +           +     +K +AN+   Y        L V       D E GP +Y  
Sbjct: 89  KAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKT 148

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDM-------SIEEAAELARRAIYHATFRD 222
           D  G  +     + G         L++ +K          S E+  E A   +  A   +
Sbjct: 149 DPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTE 208

Query: 223 AASGGVASVYYVGPNGWKKLSGDDVGEL 250
            +   +  V     + +  LS +++ E 
Sbjct: 209 FSKNDL-EVGVATKDKFFTLSAENIEER 235

>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 =  130 bits (328), Expect = 2e-37
 Identities = 37/200 (18%), Positives = 73/200 (36%), Gaps = 8/200 (4%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +G T+L      GV++A + ++S      S+++ K+  + P +    +G   D +     
Sbjct: 30  QGVTSLGIKATNGVVIATEKKSSSP-LAMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDK 88

Query: 114 LGIKCRL-HELANKRRISVTGASKLLANIL----YSYRGMGLSVGTMIAGWDE-TGPGLY 167
                   ++               +A I+     S       V  +IAG DE  G  LY
Sbjct: 89  SRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLY 148

Query: 168 YVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGG 227
            VD  G        ++G GS  A   L+  +  ++ +E+A  +A   +  +   +     
Sbjct: 149 QVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEFNGDT 208

Query: 228 VASVYYVGPNGWKKLSGDDV 247
           +  +  +G      L    +
Sbjct: 209 I-ELAIIGDENPDLLGYTGI 227

>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 =  127 bits (320), Expect = 2e-36
 Identities = 31/215 (14%), Positives = 81/215 (37%), Gaps = 25/215 (11%)

Query: 53  AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHR 112
           A+G + +   F++GV+  A++ ++        ++ K+ E+   +     G   + +   R
Sbjct: 17  ARGRSVVVLTFRDGVLFVAENPST--------ALHKVSELYDRLGFAAVGKYNEFENLRR 68

Query: 113 NLGIKCRLHELA-NKRRISVTGASKLLANI---LYSYRGMGLSVGTMIAGWDET----GP 164
              +   +   + ++R ++    +   A     +++ +     V   +A          P
Sbjct: 69  AGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAP 128

Query: 165 GLYYVDSEGGRLKGTRFSVGSGSPYA-YGVLDSGYKFDMSIEEAAELARRAIYHATFRDA 223
            LY +  +G  +    F V  G+       +   Y+ D+ +E A  +A  A+      + 
Sbjct: 129 QLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEG 188

Query: 224 ASGGVAS----VYYVGPNG----WKKLSGDDVGEL 250
               V      V  +  +     +++++G  + +L
Sbjct: 189 EKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQL 223

>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 =  125 bits (315), Expect = 2e-36
 Identities = 33/176 (18%), Positives = 55/176 (31%), Gaps = 9/176 (5%)

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

Query: 112 RNLGIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDS 171
                K   +    KR             +L     M L V         +G G      
Sbjct: 64  EKFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAM-LIVMNQDTLLLVSGTGEVIEPD 122

Query: 172 EGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGG 227
           +         ++GSG  YA     +  K       A+E+AR A+  A      +  
Sbjct: 123 D------GILAIGSGGNYALAAGRALKKHAGESMSASEIARAALETAGEICVYTND 172

>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 =  125 bits (316), Expect = 9e-36
 Identities = 39/207 (18%), Positives = 87/207 (42%), Gaps = 13/207 (6%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           +GT  +    K  V++  + R+++    +  +  K+ +I+ +++ + +G  AD +     
Sbjct: 27  RGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEK 86

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDET--GPGLY 167
             ++ + H L  +  ++V   ++ +A +   Y   G      V T+IAG+D     P LY
Sbjct: 87  ARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLY 146

Query: 168 YVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKF---DMSIEEAAELARRAIYHATFRDAA 224
             +  G     +  ++G  S      L+  Y       ++EE  +L  R++       A 
Sbjct: 147 QTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTGAK 206

Query: 225 SGGVASVYYVGPN-GWKKLSGDDVGEL 250
           +  +     V P+     LS +++ + 
Sbjct: 207 NIEIT---VVKPDSDIVALSSEEINQY 230

>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 =  120 bits (301), Expect = 2e-34
 Identities = 22/167 (13%), Positives = 52/167 (31%), Gaps = 8/167 (4%)

Query: 56  TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLG 115
           TT L        ++  D + + G  +   + +K+ ++    +     G+        +  
Sbjct: 1   TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF 60

Query: 116 IKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGR 175
                    N  + +V  A     + +            ++   D+    +   + E  +
Sbjct: 61  EAKLREWGGNLTKAAVELAKDWRTDRVLRRLEA------LLLVADKENIFIISGNGEVIQ 114

Query: 176 LKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRD 222
                 ++GSG PYA     +  +       A E+  +A+  A    
Sbjct: 115 PDDDAAAIGSGGPYALAAAKALLRNTD--LSAREIVEKAMTIAGEIC 159

>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 =  120 bits (301), Expect = 1e-33
 Identities = 35/205 (17%), Positives = 83/205 (40%), Gaps = 12/205 (5%)

Query: 54  KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRN 113
           KG+T +    ++ V++  + + S+      ++V+KI  ++  +    AG  AD +     
Sbjct: 27  KGSTAVGVRGRDIVVLGVEKK-SVAKLQDERTVRKICALDDNVCMAFAGLTADARIVINR 85

Query: 114 LGIKCRLHELANKRRISVTGASKLLANILYSYRGMG----LSVGTMIAGWDET-GPGLYY 168
             ++C+ H L  +  ++V   ++ +A++   Y          +  +I G+D    P LY 
Sbjct: 86  ARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQ 145

Query: 169 VDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSI--EEAAELARRAIYHATFRDAASG 226
            D  G        ++G G+      L+  Y  +     +   +L  +A+        + G
Sbjct: 146 TDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEV---VQSGG 202

Query: 227 GVASVYYVGPN-GWKKLSGDDVGEL 250
               +  +  +   K L+ +++ + 
Sbjct: 203 KNIELAVMRRDQSLKILNPEEIEKY 227

>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 =  118 bits (297), Expect = 6e-33
 Identities = 39/205 (19%), Positives = 70/205 (34%), Gaps = 11/205 (5%)

Query: 55  GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL 114
           G T++A   K+  ++    +       SS +V  + +I   +   M G  AD +   +  
Sbjct: 35  GLTSVAVRGKDCAVIVTQKKVPDKLLDSS-TVTHLFKITENIGCVMTGMTADSRSQVQRA 93

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSY----RGMGLSVGTMIAGWD-ETGPGLYYV 169
             +    +      I V    K +A+I   Y        L    ++ G D E GP +Y  
Sbjct: 94  RYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKC 153

Query: 170 DSEGGRLKGTRFSVGSGSPYAYGVLDSGYK--FDMSIEEAAELARRAIYHATFRDAASGG 227
           D  G        + G     +   L+   K  FD + E+  E A   +      D     
Sbjct: 154 DPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSE 213

Query: 228 VASVYYVGPNG--WKKLSGDDVGEL 250
           +  V  V      ++ L+  ++   
Sbjct: 214 I-EVGVVTVENPKFRILTEAEIDAH 237

>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 =  111 bits (277), Expect = 9e-31
 Identities = 28/173 (16%), Positives = 59/173 (34%), Gaps = 9/173 (5%)

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

Query: 115 GIKCRLHELANKRRISVTGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGG 174
             K  +H+    +          LA    + R +      +I   ++    +  +     
Sbjct: 61  ERKLEMHQGHLLKSAVE------LAKDWRTDRALRKLEAMLIVADEKESLIITGIGDVVQ 114

Query: 175 RLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGG 227
             +    ++GSG  YA          + +   A E+  +++  A      +  
Sbjct: 115 PEEDQILAIGSGGNYALSAAR--ALVENTELSAHEIVEKSLRIAGDICVFTNT 165

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	272
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.95
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.94
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.93

>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=2.3e-53  Score=373.93  Aligned_cols=228  Identities=19%  Similarity=0.218  Sum_probs=215.2

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      .+.++++.| ||||+||+| |++||+  +|+|+|||+++||||||+|++.+++.++.+++.+|||+|++||+|++||..+
T Consensus         3 ~yd~~~t~fsp~Grl~QvEyA~kav~--~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   80 (250)
T d1iruc_           3 RYDSRTTIFSPEGRLYQVEYAMEAIG--HAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITS   80 (250)
T ss_dssp             TTCCCTTCCCTTSCCHHHHHHHHHHT--TSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHH
T ss_pred             ccCCCCeeECCCCcchHHHHHHHHHh--cCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccc
Confidence            356677666 799999999 999998  9999999999999999999999999999899999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCC----cceeEEEEEEEcCC-CCeeEEEeCCCceeecCc
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGM----GLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTR  180 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~----p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~  180 (272)
                      |++.+++.++.+++.|++.++++++++.+++.+++++|.++.+    |+++++||+|||++ ||+||.+||+|++.++++
T Consensus        81 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~~~~~~  160 (250)
T d1iruc_          81 DANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKA  160 (250)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSE
T ss_pred             hHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEcccccEeeeeE
Confidence            9999999999999999999999999999999999999987543    78899999999974 799999999999999999


Q ss_pred             eEEccChhHHHHHHHccCCC-CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC----eEEcCcchHHHHHHhhC
Q 024133          181 FSVGSGSPYAYGVLDSGYKF-DMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG----WKKLSGDDVGELHYHYY  255 (272)
Q Consensus       181 ~AiG~gs~~a~~~Le~~~~~-~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg----~~~l~~~ei~~~~~~~~  255 (272)
                      +|+|+|+.+++++|++.|++ +||++||++++++||+.+.++|..++++++|++|+++|    ++.++++||++++++++
T Consensus       161 ~a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~~~Ei~~~l~~~~  240 (250)
T d1iruc_         161 TCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHE  240 (250)
T ss_dssp             EEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHHHHH
T ss_pred             EEeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECCHHHHHHHHHHHH
Confidence            99999999999999999985 89999999999999999999999999999999999986    88999999999999998


Q ss_pred             CC
Q 024133          256 PV  257 (272)
Q Consensus       256 ~~  257 (272)
                      .+
T Consensus       241 e~  242 (250)
T d1iruc_         241 EE  242 (250)
T ss_dssp             TT
T ss_pred             HH
Confidence            54

>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=2.1e-51  Score=358.00  Aligned_cols=221  Identities=19%  Similarity=0.282  Sum_probs=204.7

Q ss_pred             CCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhH
Q 024133           30 SFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADC  107 (272)
Q Consensus        30 ~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~  107 (272)
                      .++++.| ||||++|+| |++|++  +|+|+|||+++||||||+|++.+.+ ++..++.+||++|++++++++||..+|+
T Consensus         2 d~~~t~fsp~G~l~QvEYa~kav~--~G~t~vgik~~dgVvlaad~~~~~~-~~~~~~~~KI~~I~~~i~~~~sG~~~D~   78 (234)
T d1irue_           2 DRGVNTFSPEGRLFQVEYDIEAIK--LGSTAIGIQTSEGVCLAVEKRITSP-LMEPSSIEKIVEIDAHIGCAMSGLIADA   78 (234)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHT--TSCCEEEEEETTEEEEEEECCCCCT-TBCTTSCCSEEEEETTEEEEEEECHHHH
T ss_pred             CCCCceECCCCcchHHHHHHHHHH--cCCCEEEEEeCCEEEEEEecCccCC-CcccCcccCEEEccCcEEEEEeeccchH
Confidence            3456555 799999999 999998  9999999999999999999999875 5667889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhc---------cCCcceeEEEEEEEcCCCCeeEEEeCCCceeec
Q 024133          108 QFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSY---------RGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKG  178 (272)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~---------R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~  178 (272)
                      +.+.+.++.+++.|++.++++++++.+++++++++|.+         |..|+++++|++|||++||+||++||+|++.++
T Consensus        79 ~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~gp~Ly~idp~G~~~~~  158 (234)
T d1irue_          79 KTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQC  158 (234)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCCCEEEEEecCccccee
Confidence            99999999999999999999999999999999999865         234788999999999999999999999999999


Q ss_pred             CceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHHHhh
Q 024133          179 TRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELHYHY  254 (272)
Q Consensus       179 ~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~  254 (272)
                      +++|+|+|+..++++||+.|+++|+++||++++++||+.+.++| .++++++|++|+++ ++++++++||++++.++
T Consensus       159 ~~~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~-~~~~~iei~ii~~~~~~k~l~~~ei~~~l~~i  234 (234)
T d1irue_         159 DARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEK-LNATNIELATVQPGQNFHMFTKEELEEVIKDI  234 (234)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSC-CCTTSEEEEEECSSSCCEECCHHHHHHHHTTC
T ss_pred             eeEEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhcc-CCCCCEEEEEEECCCCEEECCHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999988766 57778999999985 89999999999998753

>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=7.5e-51  Score=356.54  Aligned_cols=224  Identities=19%  Similarity=0.225  Sum_probs=211.3

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.++++.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|
T Consensus         5 yd~~~t~fsp~G~~~Qveya~~ai~--~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (244)
T d1rypc_           5 YDSRTTIFSPEGRLYQVEYALESIS--HAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GCCCTTCBCTTSCBHHHHHHHHHHT--TSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             cCCCceeECCCCcChHHHHHHHHHh--cCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCc
Confidence            55666666 799999999 999998  99999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCce
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      ++.+.+.++.+++.|++.++++++++.+++.++++++.++    ..|+++++||+|||+ +||+||++||+|++.+++++
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~~~~~  162 (244)
T d1rypc_          83 AEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAI  162 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEecCCCcEeeeeee
Confidence            9999999999999999999999999999999999998752    237889999999996 56999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC------eEEcCcchHHHHHHhh
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG------WKKLSGDDVGELHYHY  254 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg------~~~l~~~ei~~~~~~~  254 (272)
                      |+|+|+.+++++|++.|+++||++||++++++||..+.+||..++++++|++|+++|      ++.++++||++++.+.
T Consensus       163 a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~~~~~~~~~~~~~Ei~~~l~k~  241 (244)
T d1rypc_         163 SVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVKT  241 (244)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHHHH
T ss_pred             eccchhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCcccceeEEECCHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999999999986      6789999999999875

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=8.5e-51  Score=357.39  Aligned_cols=225  Identities=20%  Similarity=0.242  Sum_probs=207.1

Q ss_pred             cCCCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCC
Q 024133           26 SAAPSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGG  103 (272)
Q Consensus        26 ~~~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~  103 (272)
                      .+.+.++++.| ||||+||+| |++||+  +|+|+|||+++||||||+|+|.+.+ ++..++.+||++|++|++|++||.
T Consensus         2 ~~~yd~~~t~fsp~G~l~QvEyA~kav~--~G~tvvgi~~~dgVvlaad~r~~~~-~~~~~~~~ki~~I~~~i~~~~sG~   78 (250)
T d1rypb_           2 TDRYSFSLTTFSPSGKLGQIDYALTAVK--QGVTSLGIKATNGVVIATEKKSSSP-LAMSETLSKVSLLTPDIGAVYSGM   78 (250)
T ss_dssp             CCCCCSBSSCBCTTSCBHHHHHHHHHHH--TSCCEEEEEETTEEEEEEECCCSCS-SBCGGGCCSSEEEETTEEEEEEEC
T ss_pred             CccccCCCceECCCCeehHHHHHHHHHH--cCCCEEEEEeCCEEEEEEecccCCc-cccccccceeEeccCCEEEEeeec
Confidence            45577778777 799999999 999998  9999999999999999999998864 567888999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHH-HHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcC-CCCeeEEEeCCCceee
Q 024133          104 AADCQFWHRNLGIKCR-LHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLK  177 (272)
Q Consensus       104 ~aD~~~l~~~l~~~~~-~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~  177 (272)
                      .+|++.+.++++.+++ .|+..++++++++.+++.++++++.++    ..|+++++||+|||+ +||+||++||+|++.+
T Consensus        79 ~~D~~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id~~G~~~~  158 (250)
T d1rypb_          79 GPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFP  158 (250)
T ss_dssp             HHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEE
T ss_pred             ccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEcCcEEEEE
Confidence            9999999999999987 489999999999999999999998763    247889999999996 5799999999999999


Q ss_pred             cCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC----------------eEE
Q 024133          178 GTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG----------------WKK  241 (272)
Q Consensus       178 ~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg----------------~~~  241 (272)
                      ++++|+|+|+.+++++||+.|+++||++||++++++||+.+..+| .++.+++|++|++++                |++
T Consensus       159 ~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d-~s~~~iev~vi~~~~~~~~~~~~v~~~~~~~fr~  237 (250)
T d1rypb_         159 WKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGE-FNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRK  237 (250)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSC-CSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEE
T ss_pred             eeEEecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhhcc-CCCCCEEEEEEeCCCcccccccccccccCCceEE
Confidence            999999999999999999999999999999999999999999998 478899999999876                789


Q ss_pred             cCcchHHHHHHhh
Q 024133          242 LSGDDVGELHYHY  254 (272)
Q Consensus       242 l~~~ei~~~~~~~  254 (272)
                      ++++||+++++.+
T Consensus       238 ls~eei~~~l~~l  250 (250)
T d1rypb_         238 LTSQEINDRLEAL  250 (250)
T ss_dssp             CCHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHhC
Confidence            9999999998753

>d1yara1 d.153.1.4 (A:13-233) Proteasome alpha subunit (non-catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=1.4e-50  Score=349.82  Aligned_cols=212  Identities=22%  Similarity=0.330  Sum_probs=199.8

Q ss_pred             CCCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHH
Q 024133           36 STDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNL  114 (272)
Q Consensus        36 ~~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l  114 (272)
                      .||||+||+| |++||+  +|+|+|||+++||||||+|+|.+ ++++.+++.+||++|+++++++++|..+|++.+.+.+
T Consensus         4 sp~G~l~QvEYa~~av~--~G~t~vgi~~~dgVvlaad~r~~-~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~   80 (221)
T d1yara1           4 SPDGRLFQVEYAREAVK--KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFA   80 (221)
T ss_dssp             CTTSCCHHHHHHHHHHT--TSCCEEEEEETTEEEEEECCCCC-CTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHH
T ss_pred             CCCCcchHHHHHHHHHh--cCCcEEEEEeCCEEEEEEecccC-CcccccCccceEEEecCCceEEeeeccchHHHHHHHH
Confidence            4799999999 999998  99999999999999999999988 6778889999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHH
Q 024133          115 GIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYA  190 (272)
Q Consensus       115 ~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a  190 (272)
                      +.+++.|++.++++++++.++++++++++.++.    .|+++++||+|||++||+||++||+|++.+++++|+|+|+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~  160 (221)
T d1yara1          81 RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAV  160 (221)
T ss_dssp             HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEEEESTTHHHH
T ss_pred             HHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecCCCeEEEEcCCccEEEeeEEEECCchHHH
Confidence            999999999999999999999999999988643    3788999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcC-CCeEEcCcchHHHHH
Q 024133          191 YGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP-NGWKKLSGDDVGELH  251 (272)
Q Consensus       191 ~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~k-dg~~~l~~~ei~~~~  251 (272)
                      +++|++.|+++||.+||++++++||+.+.++| .+.++++|+++++ +++++++++||++++
T Consensus       161 ~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~-~~~~~~ei~~i~~~~~~r~l~~~ei~~~l  221 (221)
T d1yara1         161 VSFLEREYKENLPEKEAVTLGIKALKSSLEEG-EELKAPEIASITVGNKYRIYDQEEVKKFL  221 (221)
T ss_dssp             HHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSS-CCCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEcCCCEEECCHHHHHHhC
Confidence            99999999999999999999999999988866 5667899999987 589999999999864

>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=3e-50  Score=349.89  Aligned_cols=222  Identities=18%  Similarity=0.216  Sum_probs=206.7

Q ss_pred             CCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhH
Q 024133           30 SFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADC  107 (272)
Q Consensus        30 ~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~  107 (272)
                      .+.++.| ||||+||+| |+||++  +|+|+|||+++||||||+|+|.+++. +..++.+|||+|+++++++++|..+|+
T Consensus         6 d~~~t~fsp~Gr~~Qveya~kav~--~G~tvigik~~dgVvlaaD~r~~~~~-~~~~~~~ki~~i~~~i~~~~sG~~~D~   82 (233)
T d1irub_           6 SFSLTTFSPSGKLVQIEYALAAVA--GGAPSVGIKAANGVVLATEKKQKSIL-YDERSVHKVEPITKHIGLVYSGMGPDY   82 (233)
T ss_dssp             CSBSCCCCTTSCCHHHHHHHHHHH--TSCCEEEEECSSCEEEEEECCCCCSS-BCSTTCCSSEESSSSEEEEEEECHHHH
T ss_pred             CCCCCeECCCCcChHHHHHHHHHH--cCCCEEEEEeCCEEEEEEeCCcccCC-ccccccceEEEecCceEEEEeccchHH
Confidence            3444445 799999999 999998  99999999999999999999999876 468889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEE
Q 024133          108 QFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSV  183 (272)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~Ai  183 (272)
                      +.+.++++.+++.|++.++++++++.+++.++++++.++.    .|+.++++++|+|++||+||++||+|++.++++.|+
T Consensus        83 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~~~~ly~id~~G~~~~~~~~a~  162 (233)
T d1irub_          83 RVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAM  162 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccCCceEEEEcCCcceEeccceec
Confidence            9999999999999999999999999999999999987632    378899999999999999999999999999999999


Q ss_pred             ccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhC
Q 024133          184 GSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       184 G~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~  255 (272)
                      |+|+.+++++|++.|+++||++||++++++||+.+.++|. +.++++|++++++|+++++++||++++..++
T Consensus       163 G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~-~~~~vev~ii~~~g~~~l~~~eI~~~l~~i~  233 (233)
T d1irub_         163 GKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQM-TEDNIEVGICNEAGFRRLTPTEVKDYLAAIA  233 (233)
T ss_dssp             STTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCC-CSSSEEEEEEETTEEEECCHHHHHHHHTTCC
T ss_pred             CCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccC-CCCcEEEEEEeCCCeEECCHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999887 5578999999999999999999999997753

>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=7.1e-50  Score=350.20  Aligned_cols=223  Identities=22%  Similarity=0.299  Sum_probs=206.5

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      -+.++++.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.++|.+ ..++++|||+|++++++++||..+
T Consensus         4 gyd~~~t~fsp~Grl~QvEya~kav~--~G~t~Igik~~dgVvlaad~r~~~~~~-~~~~~~KI~~I~~~i~~~~sG~~~   80 (243)
T d1j2pa_           4 GYDRAITVFSPDGRLFQVEYAREAVK--RGATAIGIKCKEGVILIADKRVGSKLL-EKDTIEKIYKIDEHICAATSGLVA   80 (243)
T ss_dssp             TSSSCTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEEETTEEEEEEECCCSCTTB-CGGGCCSEEECSSSEEEEEEECHH
T ss_pred             CcCCCCccCCCCCcchHHHHHHHHHH--cCCCEEEEEECCEEEEEEecCccccCc-cccccccEeecCCcEEEEeeeccc
Confidence            345666666 799999999 999998  999999999999999999999998754 567889999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCC----cceeEEEEEEEcCCCCeeEEEeCCCceeecCce
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGM----GLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~----p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      |++.+.++++.+++.|++.++++++++.+++.+++++|.++.+    |+++++|++|+|+ +|+||++||+|++.+++++
T Consensus        81 D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~-~p~Ly~~Dp~G~~~~~~~~  159 (243)
T d1j2pa_          81 DARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYKAT  159 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS-SEEEEEECTTCCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC-CceEEEEeccCceeeeeEE
Confidence            9999999999999999999999999999999999999987432    7889999999985 6999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC--CeEEcCcchHHHHHHhhC
Q 024133          182 SVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN--GWKKLSGDDVGELHYHYY  255 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd--g~~~l~~~ei~~~~~~~~  255 (272)
                      |+|+|+..++++|++.|+++||.+||++++++||+.+.++|.. .++++|.+++++  |+++++++||++++.+++
T Consensus       160 a~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~~-~~~iei~iv~~~~~~~~~l~~~ei~~~~~~~~  234 (243)
T d1j2pa_         160 AIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELV-PENIEVGYVKVDDRTFKEVSPEELKPYVERAN  234 (243)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCC-GGGEEEEEEETTTCCCEECCHHHHHHHHHHHH
T ss_pred             EeCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhcccC-CCceEEEEEEeCCCcEEECCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999864 468999999875  899999999999998775

>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=1.2e-50  Score=355.58  Aligned_cols=226  Identities=15%  Similarity=0.151  Sum_probs=208.5

Q ss_pred             CCCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           28 APSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        28 ~~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      -+.++++.| ||||+||+| |++||+  +|+|+|||+++||||||+|+|.+. .++..++.+||++|++|++|++||..+
T Consensus         6 ~yd~~~t~Fsp~Grl~QvEYa~~av~--~G~t~VGik~~dgVvlaad~~~~~-~~~~~~~~~Ki~~I~~~i~~~~sG~~~   82 (245)
T d1irug_           6 GYDLSASTFSPDGRVFQVEYAMKAVE--NSSTAIGIRCKDGVVFGVEKLVLS-KLYEEGSNKRLFNVDRHVGMAVAGLLA   82 (245)
T ss_dssp             STTSCTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEECSSBEEEEEEEECSC-TTBCTTTTCCEEEEETTEEEEEEECHH
T ss_pred             ccCCCCceECCCCeehHHHHHHHHHH--cCCcEEEEEeCCEEEEEEeccccc-cccccCccceEEEcCCCEEEEeccCch
Confidence            455666666 799999999 999998  999999999999999999999887 455688899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcC-CCCeeEEEeCCCceeecCc
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTR  180 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~  180 (272)
                      |++.+.++++.+++.|++.++++++++.+++++++++|.++.    .|+++++||+|||+ +||+||++||+|++.++++
T Consensus        83 D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~~~~~~~  162 (245)
T d1irug_          83 DARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWG  162 (245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSE
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCceEEeeeE
Confidence            999999999999999999999999999999999999988743    37889999999995 5799999999999999999


Q ss_pred             eEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcC--CCeEEcCcchHHHHHHhhCC
Q 024133          181 FSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP--NGWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       181 ~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~k--dg~~~l~~~ei~~~~~~~~~  256 (272)
                      +|+|+|+..++++||+.|+++||.+||++++++||+.+.+++..++.+++|.+|++  ++++++.+.|+.+.+.++++
T Consensus       163 ~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~~~~e~~~~~~~~~~  240 (245)
T d1irug_         163 CAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKYAK  240 (245)
T ss_dssp             EEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHHHHH
T ss_pred             EEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEEChHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998887777888899999987  48888999999999988874

>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=3.2e-50  Score=352.27  Aligned_cols=224  Identities=16%  Similarity=0.102  Sum_probs=206.3

Q ss_pred             CCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHH
Q 024133           31 FSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQ  108 (272)
Q Consensus        31 ~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~  108 (272)
                      ++++.| |+||++|+| |++|++ ..|+|+|||+++||||||+|+|.+. .++..++++||++|+++++|++||..+|++
T Consensus         5 ~~~t~fsp~Grl~QvEYA~~av~-~~g~T~igik~~dgVvlaad~r~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~   82 (243)
T d1rypa_           5 RHITIFSPEGRLYQVEYAFKATN-QTNINSLAVRGKDCTVVISQKKVPD-KLLDPTTVSYIFCISRTIGMVVNGPIPDAR   82 (243)
T ss_dssp             GTSSSCCTTSCCHHHHHHHHHTT-TTCCCEEEEECSSEEEEEEECCCCC-TTBCGGGCCSEEECSSSCEEEEESCHHHHH
T ss_pred             CCCCeECCCCeehHHHHHHHHHH-ccCceEEEEEcCCEEEEEEeccccc-cccccCcccceEecCCCEEEEEecCcHHHH
Confidence            455555 799999999 999998 3366899999999999999999885 788889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEE
Q 024133          109 FWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSV  183 (272)
Q Consensus       109 ~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~Ai  183 (272)
                      .+.+.++.+++.|++.++++++++.+++++++++|.++    ..|+++++||+|||+ .||+||++||+|++.+++++|+
T Consensus        83 ~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~a~  162 (243)
T d1rypa_          83 NAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATAT  162 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCCEEEEecceEEe
Confidence            99999999999999999999999999999999998763    237889999999996 4799999999999999999999


Q ss_pred             ccChhHHHHHHHccCCC-------CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCC
Q 024133          184 GSGSPYAYGVLDSGYKF-------DMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       184 G~gs~~a~~~Le~~~~~-------~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~  256 (272)
                      |+|+..++++||++|++       ++|.+||++++++||+.+..+|. ++++++|++++++|+++++++||++++..++.
T Consensus       163 G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~-~~~~iei~iitk~g~~~l~~eeI~~~l~~i~e  241 (243)
T d1rypa_         163 GPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEF-SKNDLEVGVATKDKFFTLSAENIEERLVAIAE  241 (243)
T ss_dssp             STTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCC-CTTSEEEEEEETTEEEECCHHHHHHHHHHHTT
T ss_pred             CccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCCceEEeCHHHHHHHHHHHhc
Confidence            99999999999999975       46999999999999999999995 77899999999999999999999999998875


Q ss_pred             C
Q 024133          257 V  257 (272)
Q Consensus       257 ~  257 (272)
                      .
T Consensus       242 ~  242 (243)
T d1rypa_         242 Q  242 (243)
T ss_dssp             T
T ss_pred             c
Confidence            3

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.3e-49  Score=338.79  Aligned_cols=201  Identities=66%  Similarity=1.140  Sum_probs=197.5

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|.++.+++.+|||+|+++++|++||..+|++.+.+.++.+++.|++.++++++++.++
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             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++++|.+|.+|++++++++|+|++||+||++||+|++.+++++|+|+|+.+++++|++.|+++||.+||++++++||
T Consensus        81 ~~l~~~~~~~~~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~~~~l  160 (201)
T d1irul_          81 KLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAI  160 (201)
T ss_dssp             HHHHHHHHTTTTSCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCceEEEEEEEEecCCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCC
Q 024133          216 YHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~  256 (272)
                      +.+.+||..++++++|++++++|+++++++||++++++|+.
T Consensus       161 ~~~~~~d~~sg~~~~v~~i~~~G~~~i~~~ev~~~~~~~~~  201 (201)
T d1irul_         161 YQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHEKYSG  201 (201)
T ss_dssp             HHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHHHHHHHHTC
T ss_pred             HHHHHhCCCCCCceEEEEEeCCceEEECHHHHHHHHHhhcC
Confidence            99999999999999999999999999999999999999873

>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=2.6e-50  Score=352.62  Aligned_cols=222  Identities=21%  Similarity=0.289  Sum_probs=204.5

Q ss_pred             CCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHH
Q 024133           32 SLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQF  109 (272)
Q Consensus        32 ~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~  109 (272)
                      +++.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.+.| ++..++++|||+|+++++|++||..+|++.
T Consensus         3 ~~t~fsp~G~l~Qveya~~a~~--~G~t~Vgi~~~dgVvla~d~r~~~~-~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   79 (242)
T d1rype_           3 GVSTFSPEGRLFQVEYSLEAIK--LGSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADARS   79 (242)
T ss_dssp             CTTCBCTTSCBHHHHHHHHHHT--TSCCEEEEECSSCEEEEEECCCSST-TBCGGGCCCEEEEETTEEEEEEESGGGHHH
T ss_pred             CcceECCCCcchHHHHHHHHHH--cCCCEEEEEeCCEEEEEEeCCccCc-CcccCccceEEEcCCCEEEEEeecchhHHH
Confidence            34445 799999999 999998  9999999999999999999999976 777888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----------CCcceeEEEEEEEcCC-CCeeEEEeCCCceeec
Q 024133          110 WHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----------GMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKG  178 (272)
Q Consensus       110 l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----------~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~  178 (272)
                      +.++++.+++.|++.++++++++.+++++++++|.+.          ..||++++||+|||++ +|+||.+||+|++.++
T Consensus        80 l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~~  159 (242)
T d1rype_          80 MIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRY  159 (242)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceecc
Confidence            9999999999999999999999999999999998651          2378899999999964 5999999999999999


Q ss_pred             CceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcC-CCeEEcCcchHHHHHHhhCCC
Q 024133          179 TRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP-NGWKKLSGDDVGELHYHYYPV  257 (272)
Q Consensus       179 ~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~k-dg~~~l~~~ei~~~~~~~~~~  257 (272)
                      +++|+|+|+.+++++|+++|+++||++||++++++||+.+.++|. +.++++|.++++ +||+.+++++|++++.++++.
T Consensus       160 ~~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~-~~~~~~v~~i~~~~g~~~l~~~~i~~~~~~i~e~  238 (242)
T d1rype_         160 NAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKL-DENNAQLSCITKQDGFKIYDNEKTAELIKELKEK  238 (242)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCC-CTTSEEEEEEETTTEEEECCHHHHHHHHHHHHHH
T ss_pred             ceeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccC-CCCceEEEEEECCCCeEECCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999998875 555799999976 699999999999999888743

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=5.7e-50  Score=350.76  Aligned_cols=227  Identities=17%  Similarity=0.265  Sum_probs=205.9

Q ss_pred             CCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhH
Q 024133           30 SFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADC  107 (272)
Q Consensus        30 ~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~  107 (272)
                      .+.++.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|++||..+|+
T Consensus         3 d~~~t~Fsp~Grl~QvEya~kav~--~G~Tvvgik~~dgVvla~d~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   79 (243)
T d1irud_           3 DRAITVFSPDGHLFQVEYAQEAVK--KGSTAVGVRGRDIVVLGVEKKSV-AKLQDERTVRKICALDDNVCMAFAGLTADA   79 (243)
T ss_dssp             CCCCSCCCTTSCCHHHHHHHHHHH--TSCCEEEECCSSEEEEEECCCCC-CSSSCGGGGCSEEESSSSCEEEEEECHHHH
T ss_pred             CCCCeeECCCCcchHHHHHHHHHh--cCCCEEEEEeCCEEEEEEecccc-CcccCCCccccEEECCCCEEEEEEEchhhH
Confidence            4455555 799999999 999998  99999999999999999999976 789999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcCC-CCeeEEEeCCCceeecCceE
Q 024133          108 QFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      +.+++.++.+++.|++.++.+++++.+++++++++|.+.    ..|+++++||+|||++ ||+||++||+|++.+++++|
T Consensus        80 ~~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~~~a  159 (243)
T d1irud_          80 RIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANA  159 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcEEEEeccEEE
Confidence            999999999999999999999999999999999998752    2367899999999965 79999999999999999999


Q ss_pred             EccChhHHHHHHHccCCCCC--CHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHHHhhCCCCC
Q 024133          183 VGSGSPYAYGVLDSGYKFDM--SIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELHYHYYPVTP  259 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~~~~m--s~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~~~~~~  259 (272)
                      +|+|+..++++|+++|+++|  +.++++++++++|...   +..++.+++|++++++ ||++++++||++++..++++..
T Consensus       160 ~G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~---~~~~~~~vei~ii~k~~~~~~l~~~eI~~~l~~i~~~~~  236 (243)
T d1irud_         160 IGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEV---VQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEKE  236 (243)
T ss_dssp             ESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTT---SCTTSTTCCEEEEESSSCEECCCHHHHHHHTTTTTTTTT
T ss_pred             ECCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHH---hcCCCCcEEEEEEECCCCEEECCHHHHHHHHHHHHhhhh
Confidence            99999999999999999988  6777888888887654   4556779999999987 8999999999999999998774


Q ss_pred             chh
Q 024133          260 STV  262 (272)
Q Consensus       260 ~~~  262 (272)
                      +++
T Consensus       237 ~~~  239 (243)
T d1irud_         237 ENE  239 (243)
T ss_dssp             TTT
T ss_pred             hhh
Confidence            443

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.9e-49  Score=347.73  Aligned_cols=224  Identities=17%  Similarity=0.178  Sum_probs=204.6

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCC-ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKG-TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAA  105 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~G-tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~a  105 (272)
                      +.++++.| ||||+||+| |++||+  +| +|+|||+++||||||+|+|.+ +.++..++++||++|++|++|++||..+
T Consensus         8 yd~~~t~Fsp~Grl~QvEYA~kav~--~gg~t~igIk~~dgVVlaad~r~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~   84 (244)
T d1irua_           8 FDRHITIFSPEGRLYQVEYAFKAIN--QGGLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCVMTGMTA   84 (244)
T ss_dssp             TTTTSSCCCTTSCCHHHHHHHHHHH--TTCCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEEEEECHH
T ss_pred             cCCCCceECCCCeEhHHHHHHHHHH--hCCccEEEEEcCCEEEEEEecccc-cccccCCccceEEEecCCcEEEEecchH
Confidence            45666666 799999999 999998  75 589999999999999999998 4666678899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhc----cCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCc
Q 024133          106 DCQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSY----RGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTR  180 (272)
Q Consensus       106 D~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~----R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~  180 (272)
                      |++.+.+.++.+++.|++.++++++++.+++.+++++|.+    +..|+++++||+|||+ +||+||.+||+|++.++++
T Consensus        85 D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~  164 (244)
T d1irua_          85 DSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKA  164 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCccEEecce
Confidence            9999999999999999999999999999999999999865    4457889999999997 5799999999999999999


Q ss_pred             eEEccChhHHHHHHHccCC--CCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCC--eEEcCcchHHHHHHhhCC
Q 024133          181 FSVGSGSPYAYGVLDSGYK--FDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNG--WKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       181 ~AiG~gs~~a~~~Le~~~~--~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg--~~~l~~~ei~~~~~~~~~  256 (272)
                      +|+|+|+..++++||++|+  ++|+.+||++++++||+.+..+|. +.++++|+++++++  +++++++||++++..+++
T Consensus       165 ~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~-~~~~iev~ii~~~~~~~~~l~~~ei~~~l~~~~~  243 (244)
T d1irua_         165 TAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDF-KPSEIEVGVVTVENPKFRILTEAEIDAHLVALAE  243 (244)
T ss_dssp             EEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCC-CTTSEEEEEEETTEEEEEECCHHHHHHHHHHHHT
T ss_pred             EeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEEEeCCCcEEECCHHHHHHHHHHHhc
Confidence            9999999999999999995  589999999999999999999986 45679999999874  899999999999988764

>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=3e-49  Score=345.80  Aligned_cols=222  Identities=19%  Similarity=0.276  Sum_probs=205.8

Q ss_pred             CCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhH
Q 024133           30 SFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADC  107 (272)
Q Consensus        30 ~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~  107 (272)
                      .++++.| ||||+||+| |++|++  +|+|+|||+++||||||+|++.+++.++...+.+||++|++|++|++||..+|+
T Consensus         3 d~~~t~fsp~Grl~QvEya~kav~--~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   80 (241)
T d1rypd_           3 DRALSIFSPDGHIFQVEYALEAVK--RGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADS   80 (241)
T ss_dssp             CCCCSCCBTTTBCHHHHHHHHHHT--TSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHH
T ss_pred             CCCCceECCCCcEeHHHHHHHHHH--cCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchH
Confidence            4556666 799999999 999998  999999999999999999999999888888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcC--CCCeeEEEeCCCceeecCce
Q 024133          108 QFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDE--TGPGLYYVDSEGGRLKGTRF  181 (272)
Q Consensus       108 ~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~--~gp~Ly~iDp~G~~~~~~~~  181 (272)
                      +.+.+.++.+++.|++.++++++++.+++++++++|.++.    .|+++++|++|||+  +||+||.+||+|++.+++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~~~~  160 (241)
T d1rypd_          81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQ  160 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEEEEeeCeE
Confidence            9999999999999999999999999999999999998732    37889999999995  47999999999999999999


Q ss_pred             EEccChhHHHHHHHccCCC---CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHHHhhCC
Q 024133          182 SVGSGSPYAYGVLDSGYKF---DMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       182 AiG~gs~~a~~~Le~~~~~---~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~~~  256 (272)
                      |+|+|+..++++|++.|++   +||.+|+++++++||+.+..+   ++.+++|+++++| ++++++++||++++..+++
T Consensus       161 a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~---~~~~iei~ii~~d~~~~~l~~~ei~~~l~~i~~  236 (241)
T d1rypd_         161 TIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQT---GAKNIEITVVKPDSDIVALSSEEINQYVTQIEQ  236 (241)
T ss_dssp             EESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCS---CSTTEEEEEEETTTEEEECCHHHHHHHHHHHTH
T ss_pred             EECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcC---CCCcEEEEEEECCCCEEECCHHHHHHHHHHHHH
Confidence            9999999999999999965   699999999999999998754   4578999999997 7999999999999998874

>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=9.8e-50  Score=348.30  Aligned_cols=224  Identities=19%  Similarity=0.195  Sum_probs=205.3

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.+.++.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.+++..   .+.+||++|+++|+|++||..+|
T Consensus         3 yd~~~tiFsp~Grl~QvEYA~kav~--~G~t~vgik~~dgVvlaad~~~~~~~~---~~~~KI~~I~~~i~~~~sG~~~D   77 (238)
T d1iruf_           3 YDNDVTVWSPQGRIHQIEYAMEAVK--QGSATVGLKSKTHAVLVALKRAQSELA---AHQKKILHVDNHIGISIAGLTAD   77 (238)
T ss_dssp             TTSCTTCCCTTSCCHHHHHHHHHHH--HSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHH
T ss_pred             CCCCCeeECCCCcchHHHHHHHHHh--cCCCEEEEEeCCEEEEEEecccccCCC---CccceEEEeCCceEEEEeccchH
Confidence            45666666 799999999 999998  999999999999999999999998643   35689999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccC----CcceeEEEEEEEcCCCCeeEEEeCCCceeecCceE
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRG----MGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~----~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      ++.+++.++.+++.|++.++++++++.+++.++++.|.++.    .|+++++||+|||++||+||++||+|++.+++++|
T Consensus        78 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~gp~Ly~~D~~G~~~~~~~~a  157 (238)
T d1iruf_          78 ARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMS  157 (238)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEEE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCCCceEEEEcCCCCEEeeeeEE
Confidence            99999999999999999999999999999999999876522    37889999999999999999999999999999999


Q ss_pred             EccChhHHHHHHHccCCCCC--CHHHHHHHHHHHHHHHHhhcc-cCCCcEEEEEEcCC-CeEEcCcchHHHHHHhhCCC
Q 024133          183 VGSGSPYAYGVLDSGYKFDM--SIEEAAELARRAIYHATFRDA-ASGGVASVYYVGPN-GWKKLSGDDVGELHYHYYPV  257 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~~~~m--s~eeai~l~~~al~~a~~rd~-~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~~~~  257 (272)
                      +|+|+..++++|+++|+++|  +++||++++++||+.++.+|. .++.+|+|++++++ ++++++++||++++..+++.
T Consensus       158 ~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~~~ei~~~l~~i~ek  236 (238)
T d1iruf_         158 IGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLEER  236 (238)
T ss_dssp             ESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTCCCC
T ss_pred             ECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECCHHHHHHHHHHHHhC
Confidence            99999999999999999854  899999999999999887654 58889999999998 79999999999999988763

>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=4.7e-50  Score=349.31  Aligned_cols=218  Identities=22%  Similarity=0.232  Sum_probs=200.6

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.+.++.| ||||+||+| |++||+  +|+|+|||+++||||||+|++.+++.   ..+.+||++|+++++|++||..+|
T Consensus         5 yd~~~t~FspdGrl~QvEyA~kav~--~g~t~igi~~~dgvvlaad~~~~~~l---~~~~~KI~~I~~~i~~~~sG~~~D   79 (233)
T d1rypf_           5 YDGDTVTFSPTGRLFQVEYALEAIK--QGSVTVGLRSNTHAVLVALKRNADEL---SSYQKKIIKCDEHMGLSLAGLAPD   79 (233)
T ss_dssp             HSSCTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEECSSEEEEEEECCCSSTT---BCCCCCEEEEETTEEEEEEECHHH
T ss_pred             ccCCCceECCCCcChHHHHHHHHHH--cCCCEEEEEECCeEEEEEeccccccC---CcchheEEEcCCCEEEEEeecccc
Confidence            34555555 799999999 999998  99999999999999999999998743   467899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhcc----CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceE
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYR----GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R----~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      ++.+.++++.+++.|++.++++++++.+++.+++++|.++    ..||++++||+|||++||+||++||+|++.+++++|
T Consensus        80 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~g~~Ly~idp~G~~~~~~~~a  159 (233)
T d1rypf_          80 ARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTA  159 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSCEEEESEEE
T ss_pred             HHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCCCCEEEEEccccceecccEEE
Confidence            9999999999999999999999999999999999998652    126789999999999999999999999999999999


Q ss_pred             EccChhHHHHHHHccC----CCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHH
Q 024133          183 VGSGSPYAYGVLDSGY----KFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELH  251 (272)
Q Consensus       183 iG~gs~~a~~~Le~~~----~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~  251 (272)
                      +|+|+..++++|++.|    +++|+.+||++++++||..+..+|..++.+++|++|+++ ++++++++||++++
T Consensus       160 iG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l~~~ei~~~i  233 (233)
T d1rypf_         160 IGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI  233 (233)
T ss_dssp             ESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGGGGC
T ss_pred             ecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEECCHHHHHhhC
Confidence            9999999999998754    679999999999999999999999999999999999997 79999999998863

>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=8.8e-49  Score=343.44  Aligned_cols=223  Identities=19%  Similarity=0.193  Sum_probs=200.8

Q ss_pred             CCCCCCCC-CCcchhhHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhh
Q 024133           29 PSFSLPLS-TDFDEFQKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAAD  106 (272)
Q Consensus        29 ~~~~~p~~-~~g~~~q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD  106 (272)
                      +.++++.| ||||+||+| |++|++  +|+|+|||+++||||||+|+|.++|.++ .++.+||++|+++++|+++|..+|
T Consensus         4 yd~~~t~fsp~Grl~QvEya~kav~--~G~t~igik~~dgVvlaad~~~~~~~~~-~~~~~KI~~I~~~i~~~~sG~~~D   80 (244)
T d1rypg_           4 YDLSNSVFSPDGRNFQVEYAVKAVE--NGTTSIGIKCNDGVVFAVEKLITSKLLV-PQKNVKIQVVDRHIGCVYSGLIPD   80 (244)
T ss_dssp             TTSSTTCCCTTSCCHHHHHHHHHHH--TSCCEEEEEETTEEEEEEEEECCCTTBC-TTTSCCCEEETTTEEEEEEECHHH
T ss_pred             cCCCCceECCCCeehHHHHHHHHHH--cCCCEEEEEeCCEEEEEEecccCCCCcc-ccccceEEEccCceEEEEccchhh
Confidence            45666666 799999999 999999  9999999999999999999999987554 566789999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhCCcCCHhHHHHHHHHHHHhccCC----cceeEEEEEEEcCCCCeeEEEeCCCceeecCceE
Q 024133          107 CQFWHRNLGIKCRLHELANKRRISVTGASKLLANILYSYRGM----GLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFS  182 (272)
Q Consensus       107 ~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~ls~~l~~~R~~----p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~A  182 (272)
                      ++.++++++.+++.|++.++++++++.+++.+++++|.++.+    |+++++|++|||++||+||++||+|++.+++++|
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~gp~Ly~idp~Gs~~~~~~~a  160 (244)
T d1rypg_          81 GRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAA  160 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCCCCEEEEEcCCccEEecCeEe
Confidence            999999999999999999999999999999999999987543    7889999999999999999999999999999999


Q ss_pred             EccChhHHHHHHHc---cCCCCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcC---CCeEE-cCcchHHHHHHhh
Q 024133          183 VGSGSPYAYGVLDS---GYKFDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGP---NGWKK-LSGDDVGELHYHY  254 (272)
Q Consensus       183 iG~gs~~a~~~Le~---~~~~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~k---dg~~~-l~~~ei~~~~~~~  254 (272)
                      +|+|+..++++||+   .|+++||.+||++++++||+.+.+++..++.+++|.+++.   +++++ ++.+++++++...
T Consensus       161 ~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~~~~~~~~~~~~e~~~~~~~~~  239 (244)
T d1rypg_         161 TGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAIDFA  239 (244)
T ss_dssp             ESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHHHHH
T ss_pred             cCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEEcCCCeEEECCHHHHHHHHHHH
Confidence            99999999999996   7999999999999999999999988888888999999964   45555 5555556666544

>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=1.8e-47  Score=324.98  Aligned_cols=201  Identities=36%  Similarity=0.558  Sum_probs=195.1

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.+.|.++.+++.+|||+|+++++|++||..+|++.+.++++.+++.|++.++++++++.++
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             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecC-ceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGT-RFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~-~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +++++++|.+|.+|+++++|++|+|++||+||++||+|+..++. +.|+|+|+.+++++|+++|+++||.+||++++++|
T Consensus        81 ~~~~~~~~~~~~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~a  160 (202)
T d1j2qh_          81 TLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRA  160 (202)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcccceeeEEEEEEEcCCCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999988765 66899999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCC
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~  256 (272)
                      |..+.++|..++++++|++|+++|+++++++||++++.++++
T Consensus       161 l~~~~~~d~~~g~~v~v~~i~~~g~~~~~~~ei~~~l~~~~k  202 (202)
T d1j2qh_         161 IYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVEQILAKFRK  202 (202)
T ss_dssp             HHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHHHHGGGTTC
T ss_pred             HHHHHHhcCCCCCeEEEEEEECCCEEEeCHHHHHHHHHHhhC
Confidence            999999999999999999999999999999999999999874

>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=9.6e-48  Score=329.86  Aligned_cols=203  Identities=57%  Similarity=0.997  Sum_probs=196.4

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+|+||||||+|+|.++|.++.+++.+|||+|+++++|++||..+|++.+.++++.+++.|++.++++++++.++
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             HHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +++++++|.+|.+|+.++.+++|+|+ +||+||.+||+|++.+++++|+|+|+.+++++|++.|+++||.+||++++++|
T Consensus        81 ~~ls~~~~~~~~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l~~~a  160 (212)
T d1rypl_          81 KILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRS  160 (212)
T ss_dssp             HHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHHHHHHH
Confidence            99999999999888889999999976 57999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHHHHhhCCCC
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGELHYHYYPVT  258 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~~~~~~~~~  258 (272)
                      |+.+.+||..++++++|++|+++|+++++++||.+++.+++.+.
T Consensus       161 l~~~~~rd~~sg~~v~v~vi~~~g~~~~~~~ev~~~~~~~~~~~  204 (212)
T d1rypl_         161 ILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEE  204 (212)
T ss_dssp             HHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCceEEEEEcCCceEEeCHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999887543

>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=3.5e-47  Score=324.01  Aligned_cols=198  Identities=31%  Similarity=0.518  Sum_probs=192.4

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|++.|+++.+++++|||+|++++++|+||..+|++.+.++++.+++.|++.++++++++.++
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             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++++|.+|.+|+++++|+||+|+ +|+||.+||+|++.+++++|+|+|+.+++++|++.|+++||.+||++++++||
T Consensus        81 ~~l~~~~~~~~~~p~~~~~lvaG~d~-~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~~~~l  159 (203)
T d1yarh1          81 TLLSNMLNQVKYMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAI  159 (203)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEESS-SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccCCccceeEEEEEcC-CCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            99999999998889999999999986 69999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcC-CCeEEcCcchHHHHHHhh
Q 024133          216 YHATFRDAASGGVASVYYVGP-NGWKKLSGDDVGELHYHY  254 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~k-dg~~~l~~~ei~~~~~~~  254 (272)
                      +.+.+||..++++++|++|++ +|+++++++||+++++++
T Consensus       160 ~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei~~~~~~~  199 (203)
T d1yarh1         160 SAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKL  199 (203)
T ss_dssp             HHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCCeEEEEEEECCCCEEECCHHHHHHHHHHh
Confidence            999999999999999999985 699999999999999875

>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=1.7e-46  Score=320.69  Aligned_cols=195  Identities=26%  Similarity=0.428  Sum_probs=185.1

Q ss_pred             CCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHh
Q 024133           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (272)
Q Consensus        53 ~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~  132 (272)
                      ++|||+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++ ++.
T Consensus         7 ~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~~~   85 (205)
T d1ryph_           7 SLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-STE   85 (205)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-CHH
T ss_pred             cCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-cHH
Confidence            3999999999999999999999999999999999999999999999999999999999999999999999999965 588


Q ss_pred             HHHHHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHH
Q 024133          133 GASKLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELA  211 (272)
Q Consensus       133 ~la~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~  211 (272)
                      .+++++++++|.+|. |+.+++|++|||+ ++|+||++||.|++.+++++|+|+|+.+++++||+.|+++||.+||++++
T Consensus        86 ~~~~~~~~~~~~~~~-p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~  164 (205)
T d1ryph_          86 TAASVFKELCYENKD-NLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFI  164 (205)
T ss_dssp             HHHHHHHHHHHHTTT-TCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcc-CceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhcccCHHHHHHHH
Confidence            999999999998774 7889999999996 56999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcccCCCcEEEEEEcCCCeEE--cCcchHHH
Q 024133          212 RRAIYHATFRDAASGGVASVYYVGPNGWKK--LSGDDVGE  249 (272)
Q Consensus       212 ~~al~~a~~rd~~sg~~v~v~ii~kdg~~~--l~~~ei~~  249 (272)
                      ++||+.+.+||..++++++|++|++||+++  +.++|+++
T Consensus       165 ~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~~~~~e~~~  204 (205)
T d1ryph_         165 KHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQ  204 (205)
T ss_dssp             HHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECHHHHTC
T ss_pred             HHHHHHHHHhcCcCCCCEEEEEEcCCceEEEecCcccccc
Confidence            999999999999999999999999999875  68888875

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=7.4e-46  Score=314.77  Aligned_cols=193  Identities=20%  Similarity=0.268  Sum_probs=185.0

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      +|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.+.+.++.+++.|+++++++++++.++
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             HHHHHHHHhcc--CCcceeEEEEEEEcC--CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHH
Q 024133          136 KLLANILYSYR--GMGLSVGTMIAGWDE--TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELA  211 (272)
Q Consensus       136 ~~ls~~l~~~R--~~p~~v~~iiaG~D~--~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~  211 (272)
                      +++++.+|.++  ..|+++++||+|||+  +||+||++||+|++.+++++|+|+|+.+++++|+++|+++||.+||++++
T Consensus        82 ~~i~~~~~~~~~~~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~l~  161 (198)
T d1rypk_          82 SFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLL  161 (198)
T ss_dssp             HHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHHHHHHHH
Confidence            99999998752  347889999999995  47999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHH
Q 024133          212 RRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVG  248 (272)
Q Consensus       212 ~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~  248 (272)
                      ++||+.+.+||..++++++|++|++||++++++++++
T Consensus       162 ~~~l~~~~~~d~~s~~~~~v~vi~~dG~~~~~~~~~~  198 (198)
T d1rypk_         162 KLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQAQ  198 (198)
T ss_dssp             HHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCCSCC
T ss_pred             HHHHHHHHHhcCcCCCcEEEEEEcCCCeEEcchhccC
Confidence            9999999999999999999999999999999998864

>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=1.9e-45  Score=313.09  Aligned_cols=194  Identities=32%  Similarity=0.504  Sum_probs=186.7

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++++++++.++
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             HHHHHHHHhccCCcceeEEEEEEEcC-CCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDE-TGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~-~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +++++++|.+| .|+.+++|++|||+ ++|+||.+||.|++.+.+++|+|+|+.+++++|++.|+++||.+||++++++|
T Consensus        81 ~~l~~~l~~~~-~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l~~~a  159 (202)
T d1iruh_          81 SLFKEMCYRYR-EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANA  159 (202)
T ss_dssp             HHHHHHHHHTT-TTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhc-cceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHHHHHH
Confidence            99999999987 48899999999997 56999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCcEEEEEEcCCCeEE--cCcchHHHH
Q 024133          215 IYHATFRDAASGGVASVYYVGPNGWKK--LSGDDVGEL  250 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii~kdg~~~--l~~~ei~~~  250 (272)
                      |..+.+||..++++++|++|+++|+++  +++|||+++
T Consensus       160 l~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~  197 (202)
T d1iruh_         160 LALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKF  197 (202)
T ss_dssp             HHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCC
T ss_pred             HHHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhh
Confidence            999999999999999999999999865  999888754

>d1irui_ d.153.1.4 (I:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.9e-45  Score=316.01  Aligned_cols=194  Identities=30%  Similarity=0.433  Sum_probs=188.0

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+|+||||||+|+|.++|.++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|+++++++++++.++
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             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++++|.+|+ |+++++|++|||++||+||++||.|++.++++.|+|+|+.+++++|++.|+++||.+||++++++||
T Consensus        81 ~~l~~~~y~~~~-p~~~~~ivaG~D~~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~~~al  159 (220)
T d1irui_          81 RMLKQMLFRYRG-YIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAI  159 (220)
T ss_dssp             HHHHHHHHHTTT-CSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHH
T ss_pred             HHHHhhhhhccc-ccceeEEEEEEeCCCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHHHHHH
Confidence            999999998875 5889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHHH
Q 024133          216 YHATFRDAASGGVASVYYVGPNGWKKLSGDDVGEL  250 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~~  250 (272)
                      ..+.+||..++++++|++|++||++.+.+.++++-
T Consensus       160 ~~~~~~D~~sg~~i~i~vitkdg~~~~~~~~~~~~  194 (220)
T d1irui_         160 AAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNK  194 (220)
T ss_dssp             HHHHHHCTTCCSCEEEEEEETTEEECCSEEECCCC
T ss_pred             HHhhccCCCCCCcEEEEEEECCCeEEeCcccccch
Confidence            99999999999999999999999999998887654

>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=3e-44  Score=312.06  Aligned_cols=207  Identities=21%  Similarity=0.279  Sum_probs=190.9

Q ss_pred             hhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhh--
Q 024133           48 ATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELAN--  125 (272)
Q Consensus        48 ~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~--  125 (272)
                      +++.  +|||+|||+++||||||+|+|.+.|+++.+++.+|||+|++|++++++|..+|++.+.+.++.+++.|++.+  
T Consensus         3 ~~i~--tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~   80 (233)
T d1ryp2_           3 QPIV--TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPL   80 (233)
T ss_dssp             CCCE--EECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTT
T ss_pred             CCcc--ccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCC
Confidence            3455  999999999999999999999999999999999999999999999999999999999999999999998876  


Q ss_pred             ---CCcCCHhHHHHHHHHHHHhcc--CCcceeEEEEEEEcCCC-CeeEEEeCCCceeecCceEEccChhHHHHHHHccCC
Q 024133          126 ---KRRISVTGASKLLANILYSYR--GMGLSVGTMIAGWDETG-PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK  199 (272)
Q Consensus       126 ---~~~i~v~~la~~ls~~l~~~R--~~p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~  199 (272)
                         +..++++.+++++++++|.+|  ..|+++++||+|||++| |+||.+||+|++.+++++|+|+|+.+++++||+.|+
T Consensus        81 ~~~~~~~~~~~~a~~l~~~~y~~~~~~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~~  160 (233)
T d1ryp2_          81 ADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVD  160 (233)
T ss_dssp             TTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCC
T ss_pred             CCCCcccCHHHHHHHHHHHHHhhccccCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHHh
Confidence               567899999999999998753  35788999999999765 789999999999999999999999999999999998


Q ss_pred             -----CCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCC-CeEEcCcchHHHHHHhhCC
Q 024133          200 -----FDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPN-GWKKLSGDDVGELHYHYYP  256 (272)
Q Consensus       200 -----~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kd-g~~~l~~~ei~~~~~~~~~  256 (272)
                           ++||.+||++++++||+.+.+||+.++++++|++|++| |++.+.+++|+.+...|++
T Consensus       161 ~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~g~~~~~~~~ie~~~~~~a~  223 (233)
T d1ryp2_         161 RESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAK  223 (233)
T ss_dssp             SGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSCCCGGGG
T ss_pred             hcccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCCCEEECChhcchhhhhhHhh
Confidence                 68999999999999999999999999999999999997 8999999999886545544

>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=3.5e-43  Score=299.47  Aligned_cols=189  Identities=25%  Similarity=0.267  Sum_probs=180.6

Q ss_pred             CCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHh
Q 024133           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVT  132 (272)
Q Consensus        53 ~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~  132 (272)
                      .+|||+|||+++||||||+|+|.+.|.++.+++.+|||+|+++++++++|..+|++.+.++++.+++.|++.++.+++++
T Consensus         5 ~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1iruj_           5 YNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPY   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHH
T ss_pred             eCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccchH
Confidence            38999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCcceeEEEEEEEcCC--CCeeEEEeCCCceeecCc-eEEccChhHHHHHHHccCCCCCCHHHHHH
Q 024133          133 GASKLLANILYSYRGMGLSVGTMIAGWDET--GPGLYYVDSEGGRLKGTR-FSVGSGSPYAYGVLDSGYKFDMSIEEAAE  209 (272)
Q Consensus       133 ~la~~ls~~l~~~R~~p~~v~~iiaG~D~~--gp~Ly~iDp~G~~~~~~~-~AiG~gs~~a~~~Le~~~~~~ms~eeai~  209 (272)
                      .+++++++++|.+|..|+++++||||||++  +|.+|++|+.|....+.. +++|+|+.+++++|++.|+++||.+||++
T Consensus        85 ~~a~~l~~~~~~~~~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~ea~~  164 (204)
T d1iruj_          85 TLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFE  164 (204)
T ss_dssp             HHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHHHHHhhhccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCCCHHHHHH
Confidence            999999999999988899999999999975  477899999999888765 56799999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcccCCCcEEEEEEcCCCeEE
Q 024133          210 LARRAIYHATFRDAASGGVASVYYVGPNGWKK  241 (272)
Q Consensus       210 l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~  241 (272)
                      ++++||+.+.+||..++++++|++|+++|+++
T Consensus       165 l~~~al~~a~~rd~~sg~~~~v~ii~k~gi~~  196 (204)
T d1iruj_         165 TISQAMLNAVDRDAVSGMGVIVHIIEKDKITT  196 (204)
T ss_dssp             HHHHHHHHHGGGBTTSCSCEEEEEEESSBEEE
T ss_pred             HHHHHHHHHHhhcccCCCcEEEEEEeCCCEEE
Confidence            99999999999999999999999999999874

>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=5.8e-43  Score=302.13  Aligned_cols=188  Identities=32%  Similarity=0.451  Sum_probs=178.9

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++|+||++|..+|++.+.+.++.+++.|++.++.++++..++
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             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRAI  215 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~al  215 (272)
                      +++++.++.++. |+++++|++|+|++||+||.+||+|++.+++++|+|+|+++++++|++.|+++||++||++++++||
T Consensus        81 ~~l~~~~~~~~~-p~~~~~l~aG~d~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l~~~al  159 (222)
T d1rypi_          81 QMLKQHLFKYQG-HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAI  159 (222)
T ss_dssp             HHHHHHHHHTTT-CSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhh-ccceeEEEEEEcCCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            999999987754 6889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccCCCcEEEEEEcCCC-eEEcCc
Q 024133          216 YHATFRDAASGGVASVYYVGPNG-WKKLSG  244 (272)
Q Consensus       216 ~~a~~rd~~sg~~v~v~ii~kdg-~~~l~~  244 (272)
                      +.+.+||..++++++|+++++++ .+.+.+
T Consensus       160 ~~a~~~D~~sg~~i~i~vi~~~~~~~~~~~  189 (222)
T d1rypi_         160 QAGIWNDLGSGSNVDVCVMEIGKDAEYLRN  189 (222)
T ss_dssp             HHHHHHCTTCCSCEEEEEEETTSCEEEEEE
T ss_pred             HHHhcccCCCCCcEEEEEEEcCCCeEEecC
Confidence            99999999999999999999874 344444

>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=2.1e-43  Score=305.98  Aligned_cols=200  Identities=15%  Similarity=0.269  Sum_probs=176.8

Q ss_pred             hHh-HHhhccCCCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHH
Q 024133           43 QKD-TKATLKHAKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLH  121 (272)
Q Consensus        43 q~e-a~~av~~~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~  121 (272)
                      |+| |++|++  +|+|+|||+++||||||+|+|.++        .+||++|++||+||+||..+|++.++++++.+++.|
T Consensus         8 q~eyA~~av~--~GtT~vgi~~~~GVvlaad~r~~s--------~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~   77 (227)
T d1q5qa_           8 RSELARKGIA--RGRSVVVLTFRDGVLFVAENPSTA--------LHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMR   77 (227)
T ss_dssp             HHHHHHHHHH--TSCCEEEEECSSEEEEEECCSCSS--------SCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--cCCCEEEEEECCEEEEEEccCCCC--------cceEEEecCceEEEecCchHHHHHHHHHHHHHHHHH
Confidence            899 999998  999999999999999999998653        689999999999999999999999999999999999


Q ss_pred             HHhhCC-cCCHhHHHHHHHHHHHh---ccCCcceeEEEEEEEcC----CCCeeEEEeCCCceeecCceEE-ccChhHHHH
Q 024133          122 ELANKR-RISVTGASKLLANILYS---YRGMGLSVGTMIAGWDE----TGPGLYYVDSEGGRLKGTRFSV-GSGSPYAYG  192 (272)
Q Consensus       122 ~~~~~~-~i~v~~la~~ls~~l~~---~R~~p~~v~~iiaG~D~----~gp~Ly~iDp~G~~~~~~~~Ai-G~gs~~a~~  192 (272)
                      ++.++. +++++.+++.++++++.   .+..||++++||||||.    +||+||.+||+|++.+++.+++ |+++..+++
T Consensus        78 ~~~~~~~~~~~~~la~~~~~~~~~~~~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~  157 (227)
T d1q5qa_          78 GYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIAT  157 (227)
T ss_dssp             HHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHH
T ss_pred             HHHhCCCCCcHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHHHH
Confidence            999984 68999999999887532   23347789999999985    4699999999999998887765 777889999


Q ss_pred             HHHccCCCCCCHHHHHHHHHHHHHHHHhhcc----cCCCcEEEEEEcCCC----eEEcCcchHHHHHH
Q 024133          193 VLDSGYKFDMSIEEAAELARRAIYHATFRDA----ASGGVASVYYVGPNG----WKKLSGDDVGELHY  252 (272)
Q Consensus       193 ~Le~~~~~~ms~eeai~l~~~al~~a~~rd~----~sg~~v~v~ii~kdg----~~~l~~~ei~~~~~  252 (272)
                      +|+++|+++||++||++++++||+.+..+|.    .++.+++|++++++|    |++++++||+++++
T Consensus       158 ~Le~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~~~fr~l~~~ei~~~l~  225 (227)
T d1q5qa_         158 AMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP  225 (227)
T ss_dssp             HHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSC
T ss_pred             HHHHhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCccceEEcCHHHHHHHhc
Confidence            9999999999999999999999999998775    356689999999886    99999999999874

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=2.9e-43  Score=303.35  Aligned_cols=202  Identities=28%  Similarity=0.370  Sum_probs=187.8

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.++|+++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++.++++..++
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             HHHHHHHHhccC---CcceeEEEEEEEcC------CCCeeEEEeCCCceeec--CceEEccChhHHHHHHHccCCCCCCH
Q 024133          136 KLLANILYSYRG---MGLSVGTMIAGWDE------TGPGLYYVDSEGGRLKG--TRFSVGSGSPYAYGVLDSGYKFDMSI  204 (272)
Q Consensus       136 ~~ls~~l~~~R~---~p~~v~~iiaG~D~------~gp~Ly~iDp~G~~~~~--~~~AiG~gs~~a~~~Le~~~~~~ms~  204 (272)
                      +++++++|.++.   .|+.+.++++|+|.      .+|+||++||+|+..++  +++|+|+|+.+++++||+.|+++||.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt~  160 (224)
T d1q5qh_          81 NRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDE  160 (224)
T ss_dssp             HHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCH
T ss_pred             HHHHHHHHHhhcccccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCCH
Confidence            999999997742   35667888888762      46999999999998776  45899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcccCCCc-------EEEEEEcCCCeEEcCcchHHHHHHhhCCC
Q 024133          205 EEAAELARRAIYHATFRDAASGGV-------ASVYYVGPNGWKKLSGDDVGELHYHYYPV  257 (272)
Q Consensus       205 eeai~l~~~al~~a~~rd~~sg~~-------v~v~ii~kdg~~~l~~~ei~~~~~~~~~~  257 (272)
                      +||++++++||..+.+||..||+.       +.+++++++|+++++++|++++++++..+
T Consensus       161 ~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~~~g~~~l~~~ei~~~~~~~~~~  220 (224)
T d1q5qh_         161 ETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAE  220 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEeCCcEEEcCHHHHHHHHHHHHHH
Confidence            999999999999999999999874       78999999999999999999999988643

>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=7.7e-43  Score=300.04  Aligned_cols=197  Identities=25%  Similarity=0.268  Sum_probs=185.0

Q ss_pred             CCCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHH-hhCCcCCH
Q 024133           53 AKGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHEL-ANKRRISV  131 (272)
Q Consensus        53 ~~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~-~~~~~i~v  131 (272)
                      .+|||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|++.+.+.++.++..|+. .++.++++
T Consensus         6 ~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v   85 (217)
T d1iru2_           6 VTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSP   85 (217)
T ss_dssp             SEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCH
T ss_pred             CcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCCCCH
Confidence            49999999999999999999999999999999999999999999999999999999999999999988765 55789999


Q ss_pred             hHHHHHHHHHHHhcc--CCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccC--CCCCCHHHH
Q 024133          132 TGASKLLANILYSYR--GMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGY--KFDMSIEEA  207 (272)
Q Consensus       132 ~~la~~ls~~l~~~R--~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~--~~~ms~eea  207 (272)
                      +.+++++++.+|.+|  ..|+.+++|++|+|+++|+||.+||+|++.+++++|+|+|+.+++++|++.|  +++||.+||
T Consensus        86 ~~~a~~l~~~~y~~~~~~~p~~~~~li~G~d~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~lt~~ea  165 (217)
T d1iru2_          86 RAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEA  165 (217)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHH
T ss_pred             HHHHHHHHHHHHHhccccCcccceEEEEEEcCCCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCCCHHHH
Confidence            999999999998875  3478899999999998999999999999999999999999999999999965  489999999


Q ss_pred             HHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHHH
Q 024133          208 AELARRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVGE  249 (272)
Q Consensus       208 i~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~~  249 (272)
                      ++++++||+.+.+||..++++++|++|+++|++...++++++
T Consensus       166 ~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G~~~~~~~~~~~  207 (217)
T d1iru2_         166 RDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTET  207 (217)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCCC
T ss_pred             HHHHHHHHHHHHHhcCcCCCcEEEEEEeCCCEEEcCCeeccc
Confidence            999999999999999999999999999999999988887764

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=6.1e-42  Score=291.24  Aligned_cols=187  Identities=26%  Similarity=0.274  Sum_probs=178.7

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      +|+|+|||+++||||||+|+|.+.|.++..++.+|||++ ++++++++|..+|++.+.++++.+++.|++.++.+++++.
T Consensus         7 nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~   85 (204)
T d1rypj_           7 NGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPET   85 (204)
T ss_dssp             SCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHH
T ss_pred             CCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcchH
Confidence            899999999999999999999999999999999999999 5999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCcceeEEEEEEEcC-CC-CeeEEEeCCCceeecCc-eEEccChhHHHHHHHccCCCCCCHHHHHHH
Q 024133          134 ASKLLANILYSYRGMGLSVGTMIAGWDE-TG-PGLYYVDSEGGRLKGTR-FSVGSGSPYAYGVLDSGYKFDMSIEEAAEL  210 (272)
Q Consensus       134 la~~ls~~l~~~R~~p~~v~~iiaG~D~-~g-p~Ly~iDp~G~~~~~~~-~AiG~gs~~a~~~Le~~~~~~ms~eeai~l  210 (272)
                      +++++++.+|.++.+|+.++++++|||+ +| |+||++||+|++.+++. +++|+|+.+++++|++.|+++||.+||+++
T Consensus        86 la~~l~~~l~~~~~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~ea~~l  165 (204)
T d1rypj_          86 FTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFET  165 (204)
T ss_dssp             HHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHH
T ss_pred             HHHHHHHHHHhhcccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccCCCHHHHHHH
Confidence            9999999999998889999999999995 44 89999999999988875 566999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcccCCCcEEEEEEcCCCeEE
Q 024133          211 ARRAIYHATFRDAASGGVASVYYVGPNGWKK  241 (272)
Q Consensus       211 ~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~  241 (272)
                      +++||..+.+||..++++++|++|++||+++
T Consensus       166 ~~~al~~a~~~d~~sg~~~~v~ii~kdg~~~  196 (204)
T d1rypj_         166 ISQALLNAADRDALSGWGAVVYIIKKDEVVK  196 (204)
T ss_dssp             HHHHHHHHHTTBTTSCSCEEEEEEESSCEEE
T ss_pred             HHHHHHHHHHhcCccCCeEEEEEEECCceEE
Confidence            9999999999999999999999999999865

>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=4.3e-42  Score=295.96  Aligned_cols=189  Identities=23%  Similarity=0.291  Sum_probs=180.3

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhC-CcCCHh
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANK-RRISVT  132 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~~i~v~  132 (272)
                      +|||+|||+++||||||+|+|.+.|.++.+++++||++|++++++++||..+|++.+.++++.+++.|++.++ ..+++.
T Consensus         8 nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~   87 (222)
T d1ryp1_           8 NGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSIN   87 (222)
T ss_dssp             CCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHH
T ss_pred             CCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCcHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998875 578999


Q ss_pred             HHHHHHHHHHHhccCCcceeEEEEEEEcCCC-CeeEEEeCCCceeecCceEEccChhHHHHHHHccCC------------
Q 024133          133 GASKLLANILYSYRGMGLSVGTMIAGWDETG-PGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK------------  199 (272)
Q Consensus       133 ~la~~ls~~l~~~R~~p~~v~~iiaG~D~~g-p~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~------------  199 (272)
                      .++++++..+|.+|..|+.+++||+|||++| |+||.+||+|++.+++++|+|+|+.+++++||+.|+            
T Consensus        88 ~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~~~~~~  167 (222)
T d1ryp1_          88 SAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGK  167 (222)
T ss_dssp             HHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTC
T ss_pred             HHHHHHHHHHHhhhhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhccccccCcccchh
Confidence            9999999999998888999999999999865 789999999999999999999999999999999987            


Q ss_pred             -----CCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEc
Q 024133          200 -----FDMSIEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKL  242 (272)
Q Consensus       200 -----~~ms~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l  242 (272)
                           ++||.+||++++++||..+.+||+.++++++|++|++||+++.
T Consensus       168 ~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~iitkdGv~~~  215 (222)
T d1ryp1_         168 VKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKE  215 (222)
T ss_dssp             SBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEE
T ss_pred             hhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEeCCCEEEE
Confidence                 6899999999999999999999999999999999999998763

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4e-41  Score=282.65  Aligned_cols=194  Identities=23%  Similarity=0.236  Sum_probs=183.6

Q ss_pred             CceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           55 GTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        55 Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      .||+|||+++||||||+|+|.+.|.++.+++.+|||+|+++++++++|..+|++.+.++++.+++.|+..++.+++++.+
T Consensus         1 Mt~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (199)
T d1iruk_           1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAA   80 (199)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHH
T ss_pred             CeEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcc--CCcceeEEEEEEEcCC-CCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHH
Q 024133          135 SKLLANILYSYR--GMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELA  211 (272)
Q Consensus       135 a~~ls~~l~~~R--~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~  211 (272)
                      ++.+++.++.++  ..|+.++++++|||++ +|+||.+||.|.+.+.+++|+|+|+.+++++|++.|+++||++||++++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l~  160 (199)
T d1iruk_          81 ANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELL  160 (199)
T ss_dssp             HHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHHH
Confidence            999999887753  3478899999999975 6999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcccCCCcEEEEEEcCCCeEEcCcchHH
Q 024133          212 RRAIYHATFRDAASGGVASVYYVGPNGWKKLSGDDVG  248 (272)
Q Consensus       212 ~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l~~~ei~  248 (272)
                      ++||..+.+||..++++++|++|+++|++++++..++
T Consensus       161 ~~al~~~~~~d~~sg~~~~v~vv~~~g~~~~~~~~~~  197 (199)
T d1iruk_         161 RKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNISFP  197 (199)
T ss_dssp             HHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBCCC
T ss_pred             HHHHHHHHHhcCCcCCceEEEEEcCCCeEEcCCccCC
Confidence            9999999999999999999999999999998876553

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.5e-40  Score=283.26  Aligned_cols=189  Identities=23%  Similarity=0.301  Sum_probs=181.5

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTG  133 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~  133 (272)
                      +|||+|||+++||||||+|+|.+.|.++.+.+.+||++|+++++++++|..+|++.+.++++.+++.|++.++.++++..
T Consensus         8 nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~   87 (213)
T d1iru1_           8 NGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGA   87 (213)
T ss_dssp             CCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHH
T ss_pred             CCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCcceeEEEEEEEcCC-CCeeEEEeCCCceeecCceEEccChhHHHHHHHccCC---------CCCC
Q 024133          134 ASKLLANILYSYRGMGLSVGTMIAGWDET-GPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK---------FDMS  203 (272)
Q Consensus       134 la~~ls~~l~~~R~~p~~v~~iiaG~D~~-gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~---------~~ms  203 (272)
                      +++++++.+|.++..|+.++.+++|||.+ +|.+|.+||.|++.++++.|+|+|+.+++++|++.|+         ++||
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~~~~~s  167 (213)
T d1iru1_          88 IAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLS  167 (213)
T ss_dssp             HHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCC
T ss_pred             HHHHHHHHHHHHHhhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhcccccCCC
Confidence            99999999999988889999999999975 5899999999999999999999999999999998764         6899


Q ss_pred             HHHHHHHHHHHHHHHHhhcccCCCcEEEEEEcCCCeEEc
Q 024133          204 IEEAAELARRAIYHATFRDAASGGVASVYYVGPNGWKKL  242 (272)
Q Consensus       204 ~eeai~l~~~al~~a~~rd~~sg~~v~v~ii~kdg~~~l  242 (272)
                      ++||++++++||..+.+||..++++++|++|+++|+++.
T Consensus       168 ~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G~~~~  206 (213)
T d1iru1_         168 LDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIREE  206 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCCEEEE
Confidence            999999999999999999999999999999999999754

>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=99.95  E-value=1.4e-29  Score=210.36  Aligned_cols=174  Identities=18%  Similarity=0.105  Sum_probs=136.9

Q ss_pred             CCceEEEEEeCCeEEEEEeCCCcCCceeecc-ccceEEEecCc-EEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCH
Q 024133           54 KGTTTLAFIFKEGVMVAADSRASMGGYISSQ-SVKKIIEINPY-MLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISV  131 (272)
Q Consensus        54 ~Gtt~vgik~kdgVvlAaD~r~t~g~li~~~-~~~KI~~I~~~-i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v  131 (272)
                      ||||+|||+|+||||||+|+|+|+|+++..+ ..+|+++++++ ++++.+|...|.+.+.+.++.+.+.++.........
T Consensus         4 ~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (180)
T d2z3ba1           4 HATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAVE   83 (180)
T ss_dssp             CCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             CCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhccccchhHHH
Confidence            8999999999999999999999999877665 57889999774 888889999999999998887776665444333332


Q ss_pred             hHHHHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHH
Q 024133          132 TGASKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELA  211 (272)
Q Consensus       132 ~~la~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~  211 (272)
                      .......... +.++.+++......+|++..++.++..++.|      +.|+|+|+.+|+++|++.|+++||.+||++++
T Consensus        84 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~a~GSGs~~A~g~l~~~~~~~~s~~eA~~l~  156 (180)
T d2z3ba1          84 LAKEWRSDKV-LRKLEAMLIVMNQDTLLLVSGTGEVIEPDDG------ILAIGSGGNYALAAGRALKKHAGESMSASEIA  156 (180)
T ss_dssp             HHHHHHHCTT-GGGCCCCEEEECSSCEEEECTTCCEECCSSS------EEEESTTHHHHHHHHHHHHHHHGGGCCHHHHH
T ss_pred             HHHHHhHHHH-HHHhhcceeeeeccccccccCCceeeccccc------EEEEcCchHHHHHHHHHHhhcCCCccCHHHHH
Confidence            2222222222 2223333444455566666677777766665      67999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcccCCCcEEEEEE
Q 024133          212 RRAIYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       212 ~~al~~a~~rd~~sg~~v~v~ii  234 (272)
                      ++||+.|.++|.+++++++|..|
T Consensus       157 ~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         157 RAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             HHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHHHHhhcEEcCCcEEEEEe
Confidence            99999999999999999999876

>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=99.94  E-value=1.3e-27  Score=196.39  Aligned_cols=170  Identities=16%  Similarity=0.048  Sum_probs=134.7

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcEEEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGAS  135 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la  135 (272)
                      ||+|||+++||||||+|+|.|.|+++.+++.+||++|+++++++.+|..+|.+.+.+.+..+...+.....     ....
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            79999999999999999999999999999999999999999999999999999888776655544432222     1122


Q ss_pred             HHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCC-CCCCHHHHHHHHHHH
Q 024133          136 KLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYK-FDMSIEEAAELARRA  214 (272)
Q Consensus       136 ~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~-~~ms~eeai~l~~~a  214 (272)
                      ...+..+..++. .+....++.+.++.+|+++..|+.|......+.|+|||+.+|+++|+..|+ ++|+   |.+++++|
T Consensus        76 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~---a~el~~~A  151 (171)
T d1m4ya_          76 VELAKDWRTDRV-LRRLEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS---AREIVEKA  151 (171)
T ss_dssp             HHHHHHHHHCTT-GGGCCCEEEEECSSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC---HHHHHHHH
T ss_pred             HHHHHHHHHhhh-hcccccccceecCCcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCCC---HHHHHHHH
Confidence            222222222222 122334555667788999999999999999999999999999999998765 5775   66789999


Q ss_pred             HHHHHhhcccCCCcEEEEEE
Q 024133          215 IYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii  234 (272)
                      |+.|.++|.++|++++|..|
T Consensus       152 i~~A~e~dvyTg~~~~i~~~  171 (171)
T d1m4ya_         152 MTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHHhhceEcCCcEEEEEC
Confidence            99999999999999998653

>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=99.93  E-value=2.1e-26  Score=189.48  Aligned_cols=171  Identities=16%  Similarity=0.125  Sum_probs=128.0

Q ss_pred             ceEEEEEeCCeEEEEEeCCCcCCceeeccccceEEEecCcE-EEEecCChhhHHHHHHHHHHHHHHHHHhhCCcCCHhHH
Q 024133           56 TTTLAFIFKEGVMVAADSRASMGGYISSQSVKKIIEINPYM-LGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGA  134 (272)
Q Consensus        56 tt~vgik~kdgVvlAaD~r~t~g~li~~~~~~KI~~I~~~i-~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~l  134 (272)
                      ||+|||+|+||||||+|+|+|.|+++.+++.+||++|++++ +++.+|...+.+.+.+..+.+.+.+     + ......
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~-~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMH-----Q-GHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHT-----T-TCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHhh-----c-CcchhH
Confidence            79999999999999999999999999999999999998874 5555666665555554433222222     1 222333


Q ss_pred             HHHHHHHHHhccCCcceeEEEEEEEcCCCCeeEEEeCCCceeecCceEEccChhHHHHHHHccCCCCCCHHHHHHHHHHH
Q 024133          135 SKLLANILYSYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGTRFSVGSGSPYAYGVLDSGYKFDMSIEEAAELARRA  214 (272)
Q Consensus       135 a~~ls~~l~~~R~~p~~v~~iiaG~D~~gp~Ly~iDp~G~~~~~~~~AiG~gs~~a~~~Le~~~~~~ms~eeai~l~~~a  214 (272)
                      +..++..++..+..+.....++++.++.++.++..|+.|.+.+..+.|+|||+.+|++.|+.+|+  ++.+||.+++++|
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~ela~~A  152 (173)
T d1g3ka_          75 AVELAKDWRTDRALRKLEAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAHEIVEKS  152 (173)
T ss_dssp             HHHHHHHHHHSTTGGGCCCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHHHHHHHH
Confidence            34444444433332233334444444566889999999999999999999999999999998875  4556788999999


Q ss_pred             HHHHHhhcccCCCcEEEEEE
Q 024133          215 IYHATFRDAASGGVASVYYV  234 (272)
Q Consensus       215 l~~a~~rd~~sg~~v~v~ii  234 (272)
                      |..|.++|.+++++|+|..|
T Consensus       153 i~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_         153 LRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             HHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHhhcEEcCCcEEEEEC
Confidence            99999999999999998765