Psyllid ID: psy11707

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------
Protein Sequence
MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQGRFLGHQKGPNSGRS
Secondary Structure (PSIPRED)
cEEEccccccEEEEcccEEEEccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccccEEEEEEEEEcccccEEEEEcccccEEEEcEEEccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccccccccEEEEEEcccccEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEcccccEEEEEccEEEEccEcHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccEEEEEEEEEccEEEEEEEEccccEEEEcEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHEcccccEEEEEEEEccccEEEEEccccccccccc
Coil and Loop (DISEMBL)
mssssgsmkkIVEINDYLLGtlaggaadcVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIagwdkrgpqlyyvdsdgqrikgnvfsvgsgsvFAFGVldtgyhwnltdeEAHQLARKSIYHATyrdfasgglirgnasgqqwnqgrflghqkgpnsgrs
Flexible Loop (DISEMBL)
MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQwnqgrflghqkgpnsgrs
Low Complexity Region (SEG)
MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQGRFLGHQKGPNSGRS
Disordered region (IsUnstruct)
*********KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS***W*****************
Disordered Region (DISOPRED)
MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQGRFLG**********
Disordered Region (DISEMBL)
********KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQGRFLGHQKGPNSGRS
Disordered Region (DISPRO)
MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQGRFLGHQK*******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQGRFLGHQKGPNSGRS
Positional Conservation
no confident homologs detected

---

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	177	2.2.26 [Sep-21-2011]
P28075	263	Proteasome subunit beta t	yes	N/A	0.836	0.562	0.695	2e-57
O55234	264	Proteasome subunit beta t	yes	N/A	0.836	0.560	0.689	5e-57
Q32KL2	263	Proteasome subunit beta t	yes	N/A	0.836	0.562	0.689	9e-57
Q5R8S2	263	Proteasome subunit beta t	yes	N/A	0.836	0.562	0.682	2e-56
P28074	263	Proteasome subunit beta t	yes	N/A	0.836	0.562	0.682	2e-56
Q54BC8	272	Proteasome subunit beta t	yes	N/A	0.836	0.544	0.641	7e-54
O24361	272	Proteasome subunit beta t	N/A	N/A	0.836	0.544	0.655	2e-52
Q9LIP2	273	Proteasome subunit beta t	yes	N/A	0.898	0.582	0.612	7e-52
O23717	274	Proteasome subunit beta t	no	N/A	0.830	0.536	0.646	7e-52
Q5W416	276	Proteasome subunit beta t	no	N/A	0.836	0.536	0.621	2e-51

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

 Score =  221 bits (564), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 103/148 (69%), Positives = 124/148 (83%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 86  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+AFGV+D GY ++
Sbjct: 146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAFGVMDRGYSYD 205

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L  EEA+ LAR++IY ATYRD  SGG +
Sbjct: 206 LQVEEAYDLARRAIYQATYRDAYSGGAV 233

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: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

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

 Score =  220 bits (560), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 102/148 (68%), Positives = 124/148 (83%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 86  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct: 146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAYGVMDRGYSYD 205

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L  EEA+ LAR++IY ATYRD  SGG +
Sbjct: 206 LKVEEAYDLARRAIYQATYRDAYSGGAV 233

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

 Score =  219 bits (557), Expect = 9e-57,   Method: Compositional matrix adjust.
 Identities = 102/148 (68%), Positives = 124/148 (83%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 86  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct: 146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 205

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L  EEA+ LAR++IY ATYRD  SGG +
Sbjct: 206 LEVEEAYDLARRAIYQATYRDAYSGGSV 233

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

 Score =  218 bits (555), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/148 (68%), Positives = 124/148 (83%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 86  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct: 146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 205

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L  E+A+ LAR++IY ATYRD  SGG +
Sbjct: 206 LEVEQAYDLARRAIYQATYRDAYSGGAV 233

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 =  218 bits (555), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/148 (68%), Positives = 124/148 (83%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 86  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct: 146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 205

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L  E+A+ LAR++IY ATYRD  SGG +
Sbjct: 206 LEVEQAYDLARRAIYQATYRDAYSGGAV 233

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

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  209 bits (532), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 95/148 (64%), Positives = 121/148 (81%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S S+KK++EI   LLGT+AGGAADC +W+R L ++CRLYELRN E ISVAAASK++ N+
Sbjct: 89  ASRSVKKVIEITPTLLGTMAGGAADCSFWERELGRRCRLYELRNKELISVAAASKILANI 148

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y+YKG GLSMG MI GWDK GPQLYYVD+DG R+ G  FS GSGS +A+GVLDTG+ W+
Sbjct: 149 VYSYKGYGLSMGTMITGWDKTGPQLYYVDNDGTRLHGQRFSCGSGSTYAYGVLDTGFKWD 208

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           + DEEA++L R+++YHAT+RD  SGG I
Sbjct: 209 MNDEEAYELGRRAVYHATHRDAYSGGAI 236

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

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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

 Score =  204 bits (520), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 97/148 (65%), Positives = 121/148 (81%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           SS S+KKI+EIN Y+LGT+AGGAADC +W R L  +CRL+EL N  RISV  ASKL+ N+
Sbjct: 82  SSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVTGASKLLANI 141

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            YNY+G GLS+G MIAGWD+ GP LYYVDS+G R+KG  FSVGSGS +A+GVLD GY ++
Sbjct: 142 LYNYRGMGLSVGTMIAGWDETGPGLYYVDSEGGRLKGMRFSVGSGSPYAYGVLDNGYKYD 201

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           +T EEA +LAR++IYHATYRD ASGG++
Sbjct: 202 MTVEEASELARRAIYHATYRDGASGGVV 229

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

Spinacia oleracea (taxid: 3562)

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 =  202 bits (515), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 98/160 (61%), Positives = 127/160 (79%), Gaps = 1/160 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           SS S+KKI+EIN Y+LGT+AGGAADC +W R L  +CRL+EL N  RISV+ ASKL+ NM
Sbjct: 84  SSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVSGASKLLANM 143

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y+Y+G GLS+G MIAGWD+ GP LYYVD++G R+KG+ FSVGSGS +A+GVLD+GY ++
Sbjct: 144 LYSYRGMGLSVGTMIAGWDETGPGLYYVDNEGGRLKGDRFSVGSGSPYAYGVLDSGYKFD 203

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ-WNQ 162
           ++ EEA +LAR+SIYHAT+RD ASGG+      G Q W +
Sbjct: 204 MSVEEASELARRSIYHATFRDGASGGVASVYHVGPQGWTK 243

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

 Score =  202 bits (515), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 95/147 (64%), Positives = 123/147 (83%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           SS S+KKI+EIN Y+LGT+AGGAADC +W R L  +CRL+EL N  RISV+ ASKL+ NM
Sbjct: 84  SSQSVKKIIEINPYMLGTMAGGAADCQFWHRNLGIKCRLHELANKRRISVSGASKLLANM 143

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y+Y+G GLS+G MIAGWD+ GP LYYVD++G R+KG+ FSVGSGS +A+GVLD+GY ++
Sbjct: 144 LYSYRGMGLSVGTMIAGWDETGPGLYYVDNEGGRLKGDRFSVGSGSPYAYGVLDSGYKYD 203

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGL 150
           ++ EEA +LAR+SIYHAT+RD ASGG+
Sbjct: 204 MSVEEASELARRSIYHATFRDGASGGV 230

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|Q5W416|PSB8_CANFA Proteasome subunit beta type-8 OS=Canis familiaris GN=PSMB8 PE=1 SV=1

 Score =  201 bits (511), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 92/148 (62%), Positives = 120/148 (81%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           SS  + K++EIN  LLGT++G AADC YW+R+LAK+CRLY LRNGERISV+AASKL+ NM
Sbjct: 99  SSSRVNKVIEINPSLLGTMSGCAADCQYWERLLAKECRLYYLRNGERISVSAASKLLSNM 158

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y Y+G  LSMG MI GWDK+GP LYYVD +G R+ GN+FS GSGS +A+GV+D+GY  +
Sbjct: 159 VYQYRGMDLSMGSMICGWDKKGPGLYYVDQNGTRLSGNMFSTGSGSTYAYGVMDSGYQPS 218

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L+ EEA++L R++I +AT+RD  SGG+I
Sbjct: 219 LSPEEAYELGRRAITYATHRDSYSGGII 246

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 subunit is involved in antigen processing to generate class I binding peptides (By similarity). Required for adipocyte differentiation.

Canis familiaris (taxid: 9615)

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	177
91085931	279	PREDICTED: similar to proteasome subunit	0.836	0.530	0.810	2e-66
332373358	279	unknown [Dendroctonus ponderosae]	0.836	0.530	0.804	3e-66
307195303	287	Proteasome subunit beta type-5 [Harpegna	0.836	0.515	0.810	4e-66
322791530	292	hypothetical protein SINV_10172 [Solenop	0.836	0.506	0.790	4e-65
307182515	286	Proteasome subunit beta type-5 [Camponot	0.836	0.517	0.790	6e-65
332021182	286	Proteasome subunit beta type-5 [Acromyrm	0.836	0.517	0.783	9e-65
357620434	281	proteasome subunit beta 5 [Danaus plexip	0.836	0.526	0.817	1e-64
350409192	282	PREDICTED: proteasome subunit beta type-	0.836	0.524	0.783	2e-64
340712774	282	PREDICTED: proteasome subunit beta type-	0.836	0.524	0.783	3e-64
328787761	282	PREDICTED: proteasome subunit beta type-	0.836	0.524	0.777	4e-64

>gi|91085931|ref|XP_970194.1| PREDICTED: similar to proteasome subunit beta type 5,8 [Tribolium castaneum]

 Score =  256 bits (655), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 120/148 (81%), Positives = 134/148 (90%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEIND+LLGTLAGGAADCVYWDRVLAKQCR+YELRN ERISVAAASKLM NM 
Sbjct: 97  SQTMKKIVEINDFLLGTLAGGAADCVYWDRVLAKQCRMYELRNRERISVAAASKLMANMV 156

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YNYKG GLSMGMM+AGWDKRGPQLYYVDS+G R  G VFSVGSGS++AFGVLD+GY W+L
Sbjct: 157 YNYKGMGLSMGMMLAGWDKRGPQLYYVDSEGTRTPGKVFSVGSGSIYAFGVLDSGYKWDL 216

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           TDEEA+ L R+SIYHAT+RD  SGG++R
Sbjct: 217 TDEEAYDLGRRSIYHATHRDAYSGGIVR 244

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332373358|gb|AEE61820.1| unknown [Dendroctonus ponderosae]

 Score =  256 bits (653), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 119/148 (80%), Positives = 134/148 (90%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEIND+LLGTLAGGAADCVYWDRVLAKQCR+YELRN ERISVAAASKLM NM 
Sbjct: 97  SQTMKKIVEINDFLLGTLAGGAADCVYWDRVLAKQCRMYELRNRERISVAAASKLMSNMV 156

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YNYKG GLSMGMM+AGWDKRGPQLYY+DS+G R  G +FSVGSGSV+AFGVLD+GY W+L
Sbjct: 157 YNYKGMGLSMGMMLAGWDKRGPQLYYIDSEGARTPGKIFSVGSGSVYAFGVLDSGYKWDL 216

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           TDEEA+ L R+SIYHAT+RD  SGG++R
Sbjct: 217 TDEEAYDLGRRSIYHATHRDAYSGGIVR 244

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307195303|gb|EFN77251.1| Proteasome subunit beta type-5 [Harpegnathos saltator]

 Score =  255 bits (652), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 120/148 (81%), Positives = 134/148 (90%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCR+YELRN ERIS+AAASKL+ NM 
Sbjct: 103 SSTMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRMYELRNRERISIAAASKLLSNMI 162

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YNYKG GLS+GMM+AGWDKRGP LYYVDS+G R  G VFSVGSGSVFAFGVLD+GY W+L
Sbjct: 163 YNYKGMGLSIGMMLAGWDKRGPGLYYVDSEGTRTPGKVFSVGSGSVFAFGVLDSGYKWDL 222

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           TDEEA++L R+SIYHAT+RD  SGG+IR
Sbjct: 223 TDEEAYELGRRSIYHATHRDAYSGGIIR 250

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322791530|gb|EFZ15921.1| hypothetical protein SINV_10172 [Solenopsis invicta]

 Score =  252 bits (643), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 117/148 (79%), Positives = 134/148 (90%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEINDYLLGTLAGGAADCVYWDRVLA+QCR+YELRN ERIS+AAASKL+ NM 
Sbjct: 109 SSTMKKIVEINDYLLGTLAGGAADCVYWDRVLARQCRMYELRNRERISIAAASKLLSNMI 168

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YN+KG GLS+GMM+AGWDKRGP LYYVDS+G R  G VFSVGSGSVFAFGVLD+GY W+L
Sbjct: 169 YNFKGMGLSIGMMLAGWDKRGPGLYYVDSEGTRTPGKVFSVGSGSVFAFGVLDSGYRWDL 228

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           TDE+A++L R+SIYHAT+RD  SGG+IR
Sbjct: 229 TDEQAYELGRRSIYHATHRDAYSGGIIR 256

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307182515|gb|EFN69722.1| Proteasome subunit beta type-5 [Camponotus floridanus]

 Score =  251 bits (642), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 117/148 (79%), Positives = 134/148 (90%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEINDYLLGTLAGGAADCVYWDRVLA+QCR+YELRN ERIS+AAASKL+ NM 
Sbjct: 102 SSTMKKIVEINDYLLGTLAGGAADCVYWDRVLARQCRMYELRNRERISIAAASKLLSNMI 161

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YN+KG GLS+GMM+AGWDKRGP LYYVDS+G R  G VFSVGSGSVFAFGVLD+GY W+L
Sbjct: 162 YNFKGMGLSIGMMLAGWDKRGPGLYYVDSEGTRTPGKVFSVGSGSVFAFGVLDSGYRWDL 221

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           TDE+A++L R+SIYHAT+RD  SGG+IR
Sbjct: 222 TDEQAYELGRRSIYHATHRDAYSGGIIR 249

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332021182|gb|EGI61567.1| Proteasome subunit beta type-5 [Acromyrmex echinatior]

 Score =  251 bits (640), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 116/148 (78%), Positives = 134/148 (90%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEINDYLLGTLAGGAADCVYWDRVLA+QCR+YELRN ERIS+AAASKL+ NM 
Sbjct: 102 SSTMKKIVEINDYLLGTLAGGAADCVYWDRVLARQCRMYELRNRERISIAAASKLLSNMI 161

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YN+KG GLS+GMM+AGWDKRGP LYYVDS+G R  G VFSVGSGSVFAFGVLD+GY W+L
Sbjct: 162 YNFKGMGLSIGMMLAGWDKRGPGLYYVDSEGTRTPGKVFSVGSGSVFAFGVLDSGYRWDL 221

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           TDE+A++L R++IYHAT+RD  SGG+IR
Sbjct: 222 TDEQAYELGRRAIYHATHRDAYSGGIIR 249

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357620434|gb|EHJ72628.1| proteasome subunit beta 5 [Danaus plexippus]

 Score =  250 bits (639), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 121/148 (81%), Positives = 131/148 (88%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN ERISVAAASKLM NM 
Sbjct: 101 SQSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNRERISVAAASKLMANMV 160

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YNYKG GLSMGMM+AG DKRG QLYYVDS+G R  G VFSVGSGSV+AFGVLD+GY W+L
Sbjct: 161 YNYKGMGLSMGMMLAGIDKRGAQLYYVDSEGTRTPGKVFSVGSGSVYAFGVLDSGYRWDL 220

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
            DEEA +L R++IYHAT+RD  SGG+IR
Sbjct: 221 EDEEAQELGRRAIYHATHRDAYSGGIIR 248

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350409192|ref|XP_003488646.1| PREDICTED: proteasome subunit beta type-5-like [Bombus impatiens]

 Score =  249 bits (637), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 116/148 (78%), Positives = 132/148 (89%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCR YELRN ERIS+AAASKL+ NM 
Sbjct: 102 SSTMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRTYELRNRERISIAAASKLLSNMI 161

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YNYKG GLS+GMM+AGWDKRGP LYYVDS+G R  G VFSVGSGS++AFG LD+GY W+L
Sbjct: 162 YNYKGMGLSIGMMLAGWDKRGPSLYYVDSEGARTPGKVFSVGSGSIYAFGALDSGYRWDL 221

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           TDEEA++L R+SIYHAT+RD  SGG++R
Sbjct: 222 TDEEAYELGRRSIYHATHRDAYSGGIVR 249

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340712774|ref|XP_003394930.1| PREDICTED: proteasome subunit beta type-5-like [Bombus terrestris]

 Score =  249 bits (637), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 116/148 (78%), Positives = 132/148 (89%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCR YELRN ERIS+AAASKL+ NM 
Sbjct: 102 SSTMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRTYELRNRERISIAAASKLLSNMI 161

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YNYKG GLS+GMM+AGWDKRGP LYYVDS+G R  G VFSVGSGS++AFG LD+GY W+L
Sbjct: 162 YNYKGMGLSIGMMLAGWDKRGPSLYYVDSEGARTPGKVFSVGSGSIYAFGALDSGYRWDL 221

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           TDEEA++L R+SIYHAT+RD  SGG++R
Sbjct: 222 TDEEAYELGRRSIYHATHRDAYSGGIVR 249

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328787761|ref|XP_394680.3| PREDICTED: proteasome subunit beta type-5-like [Apis mellifera]

 Score =  249 bits (635), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 115/148 (77%), Positives = 132/148 (89%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S +MKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCR YELRN ERIS+AAASKL+ NM 
Sbjct: 102 SSTMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRTYELRNRERISIAAASKLLSNMI 161

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
           YNYKG GLS+GMM+AGWDKRGP LYYVDS+G R  G VFSVGSGS++AFG LD+GY W+L
Sbjct: 162 YNYKGMGLSIGMMLAGWDKRGPSLYYVDSEGARTPGKVFSVGSGSIYAFGTLDSGYRWDL 221

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           +DEEA+QL ++SIYHAT+RD  SGG++R
Sbjct: 222 SDEEAYQLGKRSIYHATHRDAYSGGIVR 249

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	177
FB|FBgn0029134	282	Prosbeta5 "Proteasome beta5 su	0.836	0.524	0.743	9.3e-59
RGD|61879	263	Psmb5 "proteasome (prosome, ma	0.836	0.562	0.695	2.6e-54
UNIPROTKB|P28075	263	Psmb5 "Proteasome subunit beta	0.836	0.562	0.695	2.6e-54
MGI|MGI:1194513	264	Psmb5 "proteasome (prosome, ma	0.836	0.560	0.689	5.5e-54
UNIPROTKB|Q32KL2	263	PSMB5 "Proteasome subunit beta	0.836	0.562	0.689	1.1e-53
UNIPROTKB|E2R3R2	263	PSMB5 "Proteasome subunit beta	0.836	0.562	0.682	1.9e-53
UNIPROTKB|P28074	263	PSMB5 "Proteasome subunit beta	0.836	0.562	0.682	1.9e-53
UNIPROTKB|Q5R8S2	263	PSMB5 "Proteasome subunit beta	0.836	0.562	0.682	1.9e-53
UNIPROTKB|F1S9C9	263	LOC100155139 "Proteasome subun	0.836	0.562	0.682	2.4e-53
ZFIN|ZDB-GENE-990415-215	269	psmb5 "proteasome (prosome, ma	0.943	0.620	0.604	9.2e-52

FB|FBgn0029134 Prosbeta5 "Proteasome beta5 subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 603 (217.3 bits), Expect = 9.3e-59, P = 9.3e-59
 Identities = 110/148 (74%), Positives = 133/148 (89%)

Query:     5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
             S SMKKIVEIN ++LGTLAGGAADCVYWDRVL+K+CRL+ELRN ERISVAAASK+M N+A
Sbjct:   101 SQSMKKIVEINQFMLGTLAGGAADCVYWDRVLSKECRLHELRNKERISVAAASKIMANIA 160

Query:    65 YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
             + YKG GLSMGMM+AG+DKRGP LYYVDS+G R  GN+FSVGSGS++A+GVLD+GYHW+L
Sbjct:   161 HEYKGMGLSMGMMLAGYDKRGPGLYYVDSEGSRTPGNLFSVGSGSLYAYGVLDSGYHWDL 220

Query:   125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
              D+EA +L R++IYHAT+RD  SGG+IR
Sbjct:   221 EDKEAQELGRRAIYHATFRDAYSGGIIR 248

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

GO:0005839 "proteasome core complex" evidence=ISS

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

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

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0008283 "cell proliferation" evidence=IMP

GO:0051297 "centrosome organization" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

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

 Score = 561 (202.5 bits), Expect = 2.6e-54, P = 2.6e-54
 Identities = 103/148 (69%), Positives = 124/148 (83%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    86 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+AFGV+D GY ++
Sbjct:   146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAFGVMDRGYSYD 205

Query:   124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
             L  EEA+ LAR++IY ATYRD  SGG +
Sbjct:   206 LQVEEAYDLARRAIYQATYRDAYSGGAV 233

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 = 561 (202.5 bits), Expect = 2.6e-54, P = 2.6e-54
 Identities = 103/148 (69%), Positives = 124/148 (83%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    86 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+AFGV+D GY ++
Sbjct:   146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAFGVMDRGYSYD 205

Query:   124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
             L  EEA+ LAR++IY ATYRD  SGG +
Sbjct:   206 LQVEEAYDLARRAIYQATYRDAYSGGAV 233

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 102/148 (68%), Positives = 124/148 (83%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    86 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct:   146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAYGVMDRGYSYD 205

Query:   124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
             L  EEA+ LAR++IY ATYRD  SGG +
Sbjct:   206 LKVEEAYDLARRAIYQATYRDAYSGGAV 233

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 = 555 (200.4 bits), Expect = 1.1e-53, P = 1.1e-53
 Identities = 102/148 (68%), Positives = 124/148 (83%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    86 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct:   146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 205

Query:   124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
             L  EEA+ LAR++IY ATYRD  SGG +
Sbjct:   206 LEVEEAYDLARRAIYQATYRDAYSGGSV 233

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

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 101/148 (68%), Positives = 124/148 (83%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    86 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct:   146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 205

Query:   124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
             L  E+A+ LAR++IY ATYRD  SGG +
Sbjct:   206 LEVEQAYDLARRAIYQATYRDAYSGGAV 233

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

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

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 101/148 (68%), Positives = 124/148 (83%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    86 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct:   146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 205

Query:   124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
             L  E+A+ LAR++IY ATYRD  SGG +
Sbjct:   206 LEVEQAYDLARRAIYQATYRDAYSGGAV 233

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 = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 101/148 (68%), Positives = 124/148 (83%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    86 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct:   146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 205

Query:   124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
             L  E+A+ LAR++IY ATYRD  SGG +
Sbjct:   206 LEVEQAYDLARRAIYQATYRDAYSGGAV 233

GO:0005839 "proteasome core complex" evidence=ISS

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

 Score = 552 (199.4 bits), Expect = 2.4e-53, P = 2.4e-53
 Identities = 101/148 (68%), Positives = 124/148 (83%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    86 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 145

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct:   146 VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 205

Query:   124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
             L  E+A+ LAR++IY ATYRD  SGG +
Sbjct:   206 LEVEQAYDLARRAIYQATYRDAYSGGSV 233

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

ZFIN|ZDB-GENE-990415-215 psmb5 "proteasome (prosome, macropain) subunit, beta type, 5" [Danio rerio (taxid:7955)]

 Score = 537 (194.1 bits), Expect = 9.2e-52, P = 9.2e-52
 Identities = 104/172 (60%), Positives = 136/172 (79%)

Query:     4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct:    92 ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 151

Query:    64 AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y YKG GLSMG M+ GWDKRGP LYYVDS+G R+ G +F+VGSGS++A+GV+D+G  ++
Sbjct:   152 VYQYKGMGLSMGTMVCGWDKRGPGLYYVDSEGNRVCGGLFAVGSGSMYAYGVVDSGLRYD 211

Query:   124 LTDEEAHQLARKSIYHATYRDFASGG---LIRGNASG-QQWNQGRFLG-HQK 170
             LT +EA  L R++IY ATYRD  SGG   L R ++ G ++ +Q   L  HQK
Sbjct:   212 LTIDEACDLGRRAIYQATYRDAYSGGQVNLYRVHSEGWERVSQEDVLQLHQK 263

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" 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)
C3MZI0	PSB2_SULIA	3, ., 4, ., 2, 5, ., 1	0.3611	0.8079	0.7295	yes	N/A
Q54BC8	PSB5_DICDI	3, ., 4, ., 2, 5, ., 1	0.6418	0.8361	0.5441	yes	N/A
D2RGT4	PSB_ARCPA	3, ., 4, ., 2, 5, ., 1	0.3475	0.7909	0.6511	yes	N/A
D1Z199	PSB_METPS	3, ., 4, ., 2, 5, ., 1	0.3546	0.7796	0.6731	yes	N/A
A2SS78	PSB_METLZ	3, ., 4, ., 2, 5, ., 1	0.3698	0.8192	0.6839	yes	N/A
P30655	PSB5_SCHPO	3, ., 4, ., 2, 5, ., 1	0.6148	0.8361	0.5441	yes	N/A
P30656	PSB5_YEAST	3, ., 4, ., 2, 5, ., 1	0.5838	0.8361	0.5156	yes	N/A
P34065	PSB5_CHICK	3, ., 4, ., 2, 5, ., 1	0.6216	0.8361	0.5781	yes	N/A
C3MRE5	PSB2_SULIL	3, ., 4, ., 2, 5, ., 1	0.3611	0.8079	0.7295	yes	N/A
C3NFX2	PSB1_SULIN	3, ., 4, ., 2, 5, ., 1	0.3611	0.8079	0.7295	yes	N/A
Q32KL2	PSB5_BOVIN	3, ., 4, ., 2, 5, ., 1	0.6891	0.8361	0.5627	yes	N/A
D5EAS6	PSB_METMS	3, ., 4, ., 2, 5, ., 1	0.3219	0.8192	0.6904	yes	N/A
Q980L4	PSB1_SULSO	3, ., 4, ., 2, 5, ., 1	0.3680	0.8079	0.7295	yes	N/A
D3E0A3	PSB_METRM	3, ., 4, ., 2, 5, ., 1	0.3489	0.8192	0.7004	yes	N/A
Q9P996	PSB_ARCFU	3, ., 4, ., 2, 5, ., 1	0.3287	0.8192	0.6807	yes	N/A
D0KRX1	PSB1_SULS9	3, ., 4, ., 2, 5, ., 1	0.3680	0.8079	0.7295	yes	N/A
Q8PZ04	PSB_METMA	3, ., 4, ., 2, 5, ., 1	0.3219	0.8192	0.6904	yes	N/A
A8AB58	PSB2_IGNH4	3, ., 4, ., 2, 5, ., 1	0.3475	0.7909	0.6603	yes	N/A
A3CUS9	PSB_METMJ	3, ., 4, ., 2, 5, ., 1	0.3561	0.8192	0.6775	yes	N/A
B8GG66	PSB_METPE	3, ., 4, ., 2, 5, ., 1	0.3561	0.8192	0.6872	yes	N/A
Q46G14	PSB_METBF	3, ., 4, ., 2, 5, ., 1	0.3287	0.8192	0.6872	yes	N/A
Q0W2D6	PSB_UNCMA	3, ., 4, ., 2, 5, ., 1	0.3561	0.8192	0.6971	yes	N/A
Q5R8S2	PSB5_PONAB	3, ., 4, ., 2, 5, ., 1	0.6824	0.8361	0.5627	yes	N/A
O55234	PSB5_MOUSE	3, ., 4, ., 2, 5, ., 1	0.6891	0.8361	0.5606	yes	N/A
P28075	PSB5_RAT	3, ., 4, ., 2, 5, ., 1	0.6959	0.8361	0.5627	yes	N/A
P28074	PSB5_HUMAN	3, ., 4, ., 2, 5, ., 1	0.6824	0.8361	0.5627	yes	N/A
D2PDG6	PSB2_SULID	3, ., 4, ., 2, 5, ., 1	0.3611	0.8079	0.7295	yes	N/A
Q9YER0	PSB2_AERPE	3, ., 4, ., 2, 5, ., 1	0.3212	0.9265	0.7488	yes	N/A
A7I841	PSB_METB6	3, ., 4, ., 2, 5, ., 1	0.3424	0.8192	0.6807	yes	N/A
C4KIR0	PSB2_SULIK	3, ., 4, ., 2, 5, ., 1	0.3611	0.8079	0.7295	yes	N/A
C3MY41	PSB2_SULIM	3, ., 4, ., 2, 5, ., 1	0.3611	0.8079	0.7295	yes	N/A
C3N7K2	PSB2_SULIY	3, ., 4, ., 2, 5, ., 1	0.3611	0.8079	0.7295	yes	N/A
Q2NI68	PSB_METST	3, ., 4, ., 2, 5, ., 1	0.3525	0.7683	0.6634	yes	N/A
C9REN7	PSB_METVM	3, ., 4, ., 2, 5, ., 1	0.3521	0.7909	0.6278	yes	N/A
A5UM14	PSB_METS3	3, ., 4, ., 2, 5, ., 1	0.3357	0.7740	0.6715	yes	N/A
D3RX66	PSB_FERPA	3, ., 4, ., 2, 5, ., 1	0.3356	0.8192	0.6904	yes	N/A
Q9LIP2	PSB5B_ARATH	3, ., 4, ., 2, 5, ., 1	0.6125	0.8983	0.5824	yes	N/A
Q12YV7	PSB_METBU	3, ., 4, ., 2, 5, ., 1	0.3356	0.8192	0.6904	yes	N/A
Q2FQL8	PSB_METHJ	3, ., 4, ., 2, 5, ., 1	0.3561	0.8192	0.6937	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.914
3rd Layer	3.4.25	0.921

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	177
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	7e-97
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	3e-78
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	5e-57
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	2e-48
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	4e-44
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	2e-39
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	1e-34
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	2e-33
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	6e-32
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	8e-26
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	3e-19
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	4e-15
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	3e-14
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-13
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	6e-10
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	3e-09
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	1e-08
TIGR03690	219	TIGR03690, 20S_bact_beta, proteasome, beta subunit	6e-07
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	3e-06
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	1e-05
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	3e-05
cd03759	195	cd03759, proteasome_beta_type_3, proteasome beta t	3e-05
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	3e-04
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	3e-04
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	0.003

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

 Score =  277 bits (712), Expect = 7e-97
 Identities = 103/149 (69%), Positives = 127/149 (85%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC YW+RVL ++CRLYELRN ERISVAAASKL+ NM
Sbjct: 27  ASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNM 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDK GP LYYVDSDG R+KG++FSVGSGS +A+GVLD+GY ++
Sbjct: 87  LYQYKGMGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYD 146

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           L+ EEA+ LAR++IYHAT+RD  SGG + 
Sbjct: 147 LSVEEAYDLARRAIYHATHRDAYSGGNVN 175

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

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

 Score =  232 bits (594), Expect = 3e-78
 Identities = 99/148 (66%), Positives = 122/148 (82%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S S+KK++EIN  LLGT+AGGAADC +W+R LA QCRLYELRNGE ISVAAASK++ N+
Sbjct: 66  ASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANI 125

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            +NYKG GLSMG MI GWDK+GP L+YVD+DG R+ GN+FS GSGS +A+GVLD G+ W+
Sbjct: 126 VWNYKGMGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWD 185

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L DEEA  L R++IYHAT+RD  SGG I
Sbjct: 186 LNDEEAQDLGRRAIYHATFRDAYSGGAI 213

Length = 247

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

 Score =  176 bits (450), Expect = 5e-57
 Identities = 67/156 (42%), Positives = 96/156 (61%), Gaps = 7/156 (4%)

Query: 4   SSGSM------KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAAS 57
           S+GS+       KI +I+D +L   AG AAD     R+L +  RLYELRNG  +SV AA+
Sbjct: 21  SAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAA 80

Query: 58  KLMCNMAYNYKGTGLSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVL 116
            L+ N+ Y+Y+G    + +++ G DK  GP LYYVD  G  I+    + GSGS +A+G+L
Sbjct: 81  NLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGIL 140

Query: 117 DTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           D GY  ++T EEA +L +K+I  A  RD +SGG + 
Sbjct: 141 DRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVD 176

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 =  154 bits (393), Expect = 2e-48
 Identities = 60/149 (40%), Positives = 90/149 (60%), Gaps = 3/149 (2%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S +++KI +I+D++    AG AAD       L K+ +LY LR GE I V A +KL+ N+
Sbjct: 27  ASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANL 86

Query: 64  AYNYKGTG--LSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
            Y Y  +   L + +++AG D+  GPQLY VD  G  I+    ++GSGS +A G+L+  Y
Sbjct: 87  LYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLY 146

Query: 121 HWNLTDEEAHQLARKSIYHATYRDFASGG 149
             ++T EEA +LA K++  A  RD  SGG
Sbjct: 147 KPDMTLEEAIELALKALKSALERDLYSGG 175

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 =  143 bits (364), Expect = 4e-44
 Identities = 55/154 (35%), Positives = 83/154 (53%), Gaps = 6/154 (3%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISV----AAASKL 59
           S  +++KI +I+D++    AG AAD          + +LY LR G  ISV      A KL
Sbjct: 32  SKDTVEKIFKIDDHIGMAFAGLAADAQTLVDYARAEAQLYRLRYGRPISVELAKRIADKL 91

Query: 60  MCNMAYNYKGTGLSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
                Y+ +     + ++IAG+D+ G P LY +D  G  I+    ++GSGS +A+G L+ 
Sbjct: 92  QAYTQYSGRR-PYGVSLLIAGYDEDGGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEK 150

Query: 119 GYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            Y  ++T EEA +LA K++  A  RD  SGG I 
Sbjct: 151 LYKPDMTLEEAVELAVKALKEAIERDALSGGNIE 184

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 =  133 bits (337), Expect = 2e-39
 Identities = 59/150 (39%), Positives = 89/150 (59%), Gaps = 2/150 (1%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S +++KI +I+D++   +AG AAD     R    + +LY LR GE ISV A +KL+ N+
Sbjct: 57  ASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNI 116

Query: 64  AYNYKGTG--LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH 121
              Y  +G    + +++AG D  GP+LY  D  G   +    ++GSGS FA+G L+  Y 
Sbjct: 117 LQEYTQSGRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYR 176

Query: 122 WNLTDEEAHQLARKSIYHATYRDFASGGLI 151
            +L+ EEA +LA K++  A  RD ASGG I
Sbjct: 177 EDLSLEEAIELAVKALRAAIERDAASGGGI 206

Length = 236

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

 Score =  120 bits (302), Expect = 1e-34
 Identities = 54/148 (36%), Positives = 87/148 (58%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S + KK+ +I+DY+  T+AG   D     R+L  + +LYELR G  +SV A + L+ N+
Sbjct: 28  ASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNI 87

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
             + +     + +++ G D+ GP LY +D  G  I+ +  + GSGS  A+GVL+  Y  +
Sbjct: 88  LNSNRFFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYRED 147

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           ++ EEA +LA ++I  A  RD ASG  I
Sbjct: 148 MSVEEAKKLAVRAIKSAIERDVASGNGI 175

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

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

 Score =  116 bits (293), Expect = 2e-33
 Identities = 56/144 (38%), Positives = 83/144 (57%)

Query: 9   KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK 68
           KKI +I+D +  T+AG   D     R+L  + RLYELR G  +S+ A + L+ N+  + K
Sbjct: 32  KKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSSK 91

Query: 69  GTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
                + ++I G D+ GP LY +D  G  I+    + GSGS +A+GVL+  Y  ++T EE
Sbjct: 92  YFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEE 151

Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
           A +LA ++I  A  RD ASG  I 
Sbjct: 152 AKKLAIRAIKSAIERDSASGDGID 175

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

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

 Score =  112 bits (281), Expect = 6e-32
 Identities = 47/141 (33%), Positives = 72/141 (51%), Gaps = 2/141 (1%)

Query: 1   MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLM 60
           +  +   + KI +  D +   LAG AAD     R L +  +LY LR GE ISV A +K +
Sbjct: 24  LPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKEL 83

Query: 61  CNMAYNYK-GTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVF-SVGSGSVFAFGVLDT 118
             +   Y  G    + +++AG D+ G  LYY+D  G  I+     + GS S  A  +L+ 
Sbjct: 84  AKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEK 143

Query: 119 GYHWNLTDEEAHQLARKSIYH 139
            Y  ++T EEA +LA K++  
Sbjct: 144 LYKPDMTLEEAVELALKALKS 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 = 97.3 bits (243), Expect = 8e-26
 Identities = 46/144 (31%), Positives = 75/144 (52%), Gaps = 2/144 (1%)

Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
           K+ +++D +    +G AAD       +     ++ +  GE   V  A+ L  N+ YNYK 
Sbjct: 33  KLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYKE 92

Query: 70  TGLSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
             LS G+++AGWD+  G Q+Y +   G  I+      GSGS + +G +D  Y   +T EE
Sbjct: 93  M-LSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEE 151

Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
             +  + ++  A  RD +SGG+IR
Sbjct: 152 CIKFVKNALSLAMSRDGSSGGVIR 175

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

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

 Score = 80.3 bits (199), Expect = 3e-19
 Identities = 42/143 (29%), Positives = 68/143 (47%), Gaps = 5/143 (3%)

Query: 9   KKIVEIND--YLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYN 66
           +KI  I    Y  G  AG AAD      +++    L+ L  G +  V  A  ++    + 
Sbjct: 32  EKIHYIAPNIYCCG--AGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFR 89

Query: 67  YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTD 126
           Y+G  +   +++ G D  GP LY +   G   K    ++GSGS+ A  VL+  Y  ++T+
Sbjct: 90  YQG-HIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTE 148

Query: 127 EEAHQLARKSIYHATYRDFASGG 149
           EEA +L  ++I    + D  SG 
Sbjct: 149 EEAKKLVCEAIEAGIFNDLGSGS 171

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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 69.7 bits (171), Expect = 4e-15
 Identities = 42/141 (29%), Positives = 71/141 (50%), Gaps = 19/141 (13%)

Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-----GERISVAAASKLMC 61
           S++KI+EI+D++   ++G  AD     R L    R+ E +N      E ++V + ++ + 
Sbjct: 56  SVEKIMEIDDHIGCAMSGLIADA----RTLIDHARV-EAQNHRFTYNEPMTVESVTQAVS 110

Query: 62  NMAYNYKGTGLSMGMM---------IAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFA 112
           ++A  +         M         IAG D+ GPQL++ D  G   + +  ++GSGS  A
Sbjct: 111 DLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGA 170

Query: 113 FGVLDTGYHWNLTDEEAHQLA 133
              L   YH ++T EEA +LA
Sbjct: 171 QSSLQEKYHKDMTLEEAEKLA 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|239727 cd03758, proteasome_beta_type_2, proteasome beta type-2 subunit

 Score = 66.8 bits (164), Expect = 3e-14
 Identities = 43/131 (32%), Positives = 72/131 (54%), Gaps = 3/131 (2%)

Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLM-CNMAYNY- 67
           KI +++D+ L   +G A D + +   + K  +LY++RNG  +S  AA+      +A +  
Sbjct: 34  KIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLR 93

Query: 68  KGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTD 126
             T   + +++AG+DK  GP LYY+D  G  +K    + G G+ F   +LD  Y  ++T 
Sbjct: 94  SRTPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTV 153

Query: 127 EEAHQLARKSI 137
           EEA +L +K I
Sbjct: 154 EEALELMKKCI 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|238892 cd01911, proteasome_alpha, proteasome alpha subunit

 Score = 65.5 bits (161), Expect = 1e-13
 Identities = 47/147 (31%), Positives = 70/147 (47%), Gaps = 13/147 (8%)

Query: 3   SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASK 58
               S++KI +I+D++   +AG  AD     RVL  + R+    Y    GE I V    K
Sbjct: 52  LDPSSVEKIFKIDDHIGCAVAGLTADA----RVLVNRARVEAQNYRYTYGEPIPVEVLVK 107

Query: 59  LMCNMAYNYKGTGLSM----GMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAF 113
            + ++A  Y   G        ++IAG+D+  GPQLY  D  G        ++G GS  A 
Sbjct: 108 RIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAK 167

Query: 114 GVLDTGYHWNLTDEEAHQLARKSIYHA 140
             L+  Y  +LT EEA +LA K++   
Sbjct: 168 TFLEKRYKKDLTLEEAIKLALKALKEV 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 = 55.4 bits (134), Expect = 6e-10
 Identities = 43/143 (30%), Positives = 71/143 (49%), Gaps = 12/143 (8%)

Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
           S++KI +I+D++    +G  AD     RVL  + R+    + L  GE I V    K +C+
Sbjct: 57  SIEKIYKIDDHVGAATSGLVADA----RVLIDRARVEAQIHRLTYGEPIDVEVLVKKICD 112

Query: 63  MAYNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
           +   Y   G      + ++IAG D  GP+L+  D  G   +    ++GSG       L+ 
Sbjct: 113 LKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEK 172

Query: 119 GYHWNLTDEEAHQLARKSIYHAT 141
            Y  +++ EEA +LA K++Y A 
Sbjct: 173 EYKEDMSLEEAIELALKALYAAL 195

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|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex, archaeal, alpha subunit

 Score = 53.8 bits (130), Expect = 3e-09
 Identities = 42/143 (29%), Positives = 72/143 (50%), Gaps = 12/143 (8%)

Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
           S++KI +I+D++    +G  AD     RVL  + R+      L  GE I V   +K +C+
Sbjct: 58  SIEKIFKIDDHIGAATSGLVADA----RVLIDRARIEAQINRLTYGEPIDVETLAKKICD 113

Query: 63  MAYNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
           +   Y   G      + ++IAG D  GP+L+  D  G  ++    ++G+G       L+ 
Sbjct: 114 LKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEK 173

Query: 119 GYHWNLTDEEAHQLARKSIYHAT 141
            Y  +L+ +EA +LA K++Y A 
Sbjct: 174 EYREDLSLDEAIELALKALYSAV 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|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional

 Score = 52.1 bits (126), Expect = 1e-08
 Identities = 44/145 (30%), Positives = 73/145 (50%), Gaps = 16/145 (11%)

Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
           S++KI +I+D++    AG  AD     RVL  + R+      L  GE I V   +K +C+
Sbjct: 65  SIEKIFKIDDHIGAASAGLVADA----RVLIDRARVEAQINRLTYGEPIGVETLTKKICD 120

Query: 63  M--AY-NYKGT---GLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVL 116
               Y  + G    G+++  +IAG D  GP+L+  D  G  ++    ++G+G       L
Sbjct: 121 HKQQYTQHGGVRPFGVAL--LIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFL 178

Query: 117 DTGYHWNLTDEEAHQLARKSIYHAT 141
           +  Y  +L+ EEA +LA K++  A 
Sbjct: 179 EKNYKEDLSLEEAIELALKALAKAN 203

Length = 241

>gnl|CDD|163402 TIGR03690, 20S_bact_beta, proteasome, beta subunit, bacterial type

 Score = 47.4 bits (113), Expect = 6e-07
 Identities = 42/158 (26%), Positives = 79/158 (50%), Gaps = 8/158 (5%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S  ++K+   ++Y    +AG A   +   R+   +   YE   G  +++   +  +  M
Sbjct: 29  ASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAM 88

Query: 64  AYNYKGT---GLSMGMMIAGWD--KRGPQLYYVDSDGQRIKGNVF-SVGSGSVFAFGVLD 117
                     GL++  ++AG+D      +++  D  G R +   + +VGSGSVFA G L 
Sbjct: 89  VRGNLPAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALK 148

Query: 118 TGYHWNLTDEEAHQLARKSIYHATYRDFASGG--LIRG 153
             Y  +L +++A ++A +++Y A   D A+GG  L+RG
Sbjct: 149 KLYSPDLDEDDALRVAVEALYDAADDDSATGGPDLVRG 186

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

 Score = 45.3 bits (108), Expect = 3e-06
 Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 22/157 (14%)

Query: 8   MKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYN- 66
             KI ++ D  +   +G  AD +   + L  + ++Y+  + + +S  A ++L+  + Y+ 
Sbjct: 39  SPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSR 98

Query: 67  -----YKGTGLSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLD--- 117
                Y         ++AG D+ G   +Y  D  G   +    + GS S     +LD   
Sbjct: 99  RFFPYYVFN------ILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQV 152

Query: 118 TGYHWN------LTDEEAHQLARKSIYHATYRDFASG 148
              + N      L+ EEA  L + +   A  RD  +G
Sbjct: 153 GRKNQNNVERTPLSLEEAVSLVKDAFTSAAERDIYTG 189

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|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score = 43.5 bits (103), Expect = 1e-05
 Identities = 41/141 (29%), Positives = 62/141 (43%), Gaps = 13/141 (9%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN----GERISVAAASKL 59
            S S +KI +I+D++   +AG  +D      +L    RL   R      E I V    + 
Sbjct: 56  QSFSSEKIYKIDDHIACAVAGITSDA----NILINYARLIAQRYLYSYQEPIPVEQLVQR 111

Query: 60  MCNMAYNYKGTG----LSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFG 114
           +C++   Y   G      +  + AGWDK  G QLY  D  G        ++G+ +  A  
Sbjct: 112 LCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQS 171

Query: 115 VLDTGYHWNLTDEEAHQLARK 135
           +L   Y  ++T EEA  LA K
Sbjct: 172 LLKQDYKDDMTLEEALALAVK 192

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

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score = 42.7 bits (101), Expect = 3e-05
 Identities = 40/135 (29%), Positives = 59/135 (43%), Gaps = 20/135 (14%)

Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCR----LYELRNGERIS----VAAASK 58
           S+ K+ +I  ++    +G   D     RVL K+ R     Y L  GE I     V   + 
Sbjct: 56  SVHKVEQITPHIGMVYSGMGPDF----RVLVKKARKIAQQYYLVYGEPIPVSQLVREIAS 111

Query: 59  LMCNMAYNYKGT----GLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFG 114
           +M    Y   G     G+S+  +IAGWD+ GP LY VD  G        ++G     A  
Sbjct: 112 VM--QEYTQSGGVRPFGVSL--LIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKT 167

Query: 115 VLDTGYHWNLTDEEA 129
            L+  Y+ +L  E+A
Sbjct: 168 FLEKRYNEDLELEDA 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|239728 cd03759, proteasome_beta_type_3, proteasome beta type-3 subunit

 Score = 42.2 bits (100), Expect = 3e-05
 Identities = 36/146 (24%), Positives = 63/146 (43%), Gaps = 2/146 (1%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S   +K+  I D L   LAG A D     + L  +  LY LR    I     S L+ ++ 
Sbjct: 31  STDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLL 90

Query: 65  YNYKGTGLSMGMMIAGWDKRG-PQLYYVDSDG-QRIKGNVFSVGSGSVFAFGVLDTGYHW 122
           Y  +     +  ++AG D  G P +  +D  G   I  +    G+ S   +G+ ++ +  
Sbjct: 91  YEKRFGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRP 150

Query: 123 NLTDEEAHQLARKSIYHATYRDFASG 148
           ++  +E  +   +++  A  RD  SG
Sbjct: 151 DMEPDELFETISQALLSAVDRDALSG 176

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|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score = 39.5 bits (93), Expect = 3e-04
 Identities = 22/99 (22%), Positives = 41/99 (41%), Gaps = 13/99 (13%)

Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
           ++  +  I D +   + G  AD     R   ++ R     ++ + G  + V   +K + +
Sbjct: 58  TVTHLFRITDEIGCVMTGMIADS----RSQVQRARYEAAEFKYKYGYEMPVDVLAKRIAD 113

Query: 63  MA--YNYKGTGLSMG--MMIAGWD-KRGPQLYYVDSDGQ 96
           +   Y        +G  M++ G D + GPQLY  D  G 
Sbjct: 114 INQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGY 152

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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score = 39.6 bits (93), Expect = 3e-04
 Identities = 34/121 (28%), Positives = 56/121 (46%), Gaps = 22/121 (18%)

Query: 2   SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAK----QCRLYELRNGERISVAAAS 57
           S  S   KKI +++D++   +AG  AD     RVL++    +C  Y       I V   S
Sbjct: 49  SELSSYQKKIFKVDDHIGIAIAGLTADA----RVLSRYMRQECLNYRFVYDSPIPV---S 101

Query: 58  KLMCNMA---------YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSG 108
           +L+  +A         Y  +  G+  G++IAG+D+ GP L+     G   +    S+G+ 
Sbjct: 102 RLVSKVAEKAQINTQRYGRRPYGV--GLLIAGYDESGPHLFQTCPSGNYFEYKATSIGAR 159

Query: 109 S 109
           S
Sbjct: 160 S 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|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score = 36.6 bits (85), Expect = 0.003
 Identities = 33/140 (23%), Positives = 63/140 (45%), Gaps = 13/140 (9%)

Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
           +++KI  ++D++    AG  AD     RVL  + RL    + L   + ++V   ++ +  
Sbjct: 56  TVRKICMLDDHVCLAFAGLTADA----RVLINRARLECQSHRLTVEDPVTVEYITRYIAG 111

Query: 63  MAYNYKGTG----LSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLD 117
           +   Y  +G      +  +I G+D  G P+LY  D  G        ++G  S      L+
Sbjct: 112 LQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLE 171

Query: 118 TGYHWNLTDEEAHQLARKSI 137
             Y   +T ++  +LA K++
Sbjct: 172 KNYKEEMTRDDTIKLAIKAL 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	177
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
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
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
KOG0176|consensus	241		100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
KOG0178|consensus	249		100.0
KOG0174|consensus	224		100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
KOG0183|consensus	249		100.0
KOG0179|consensus	235		100.0
KOG0181|consensus	233		100.0
KOG0184|consensus	254		100.0
KOG0863|consensus	264		100.0
KOG0182|consensus	246		100.0
KOG0177|consensus	200		100.0
KOG0180|consensus	204		99.97
KOG0175|consensus	285		99.97
KOG0173|consensus	271		99.97
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.95
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.95
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.94
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.94
KOG0185|consensus	256		99.93
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	98.98
COG3484	255	Predicted proteasome-type protease [Posttranslatio	98.83
KOG3361|consensus	157		91.67
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	91.4

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=2.6e-43  Score=267.32  Aligned_cols=161  Identities=64%  Similarity=1.072  Sum_probs=156.8

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+|||+|++|++|+++|..+|++.+.+++|.+++.|++.++++++++.+|+++++++|.+|++||+|++|+||||
T Consensus        26 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la~~ls~~l~~~~~~~~~v~~li~G~D  105 (188)
T cd03761          26 IASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWD  105 (188)
T ss_pred             EEcCCcceEEEccCcEEEEeCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEe
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++.+||..+.+||..+++.++|++|+++|++
T Consensus       106 ~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~~~~l~~~~~rd~~sg~~~~v~ii~~~g~~  185 (188)
T cd03761         106 KTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVNLYHVREDGWR  185 (188)
T ss_pred             CCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEcCCceE
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999986


Q ss_pred             E
Q psy11707        163 G  163 (177)
Q Consensus       163 ~  163 (177)
                      +
T Consensus       186 ~  186 (188)
T cd03761         186 K  186 (188)
T ss_pred             E
Confidence            4

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

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

Probab=100.00  E-value=4.9e-42  Score=268.26  Aligned_cols=168  Identities=36%  Similarity=0.470  Sum_probs=157.5

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC--CCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG--TGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~--~P~~v~~lvaG   80 (177)
                      +.+++.+|||+|+|||+|++||+.+|++.++++++.+++.|++.++++++++.+++++++++|.+|+  |||+|++|+||
T Consensus        56 ~~~~~~~Ki~~I~d~i~~~~sG~~aDa~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~~rP~gv~~iiaG  135 (236)
T COG0638          56 IASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAG  135 (236)
T ss_pred             ecccccceEEEecCCEEEEeccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCcccceEEEEEEE
Confidence            5677899999999999999999999999999999999999999999999999999999999999999  99999999999


Q ss_pred             EeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCc
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQW  160 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg  160 (177)
                      +|+++|+||++||+|++.+++++|+|+|+..+.++||+.|+++|+.+||++++++||+.+.+||..++++++|++++++ 
T Consensus       136 ~d~~~p~Ly~~Dp~G~~~~~~~~a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~-  214 (236)
T COG0638         136 VDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKD-  214 (236)
T ss_pred             EcCCCCeEEEECCCCceeecCEEEEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcC-
Confidence            9987799999999999999999999999999999999999999999999999999999999999988999999999996 


Q ss_pred             eEEEEecCCCC
Q psy11707        161 NQGRFLGHQKG  171 (177)
Q Consensus       161 ~~~~~l~~~~~  171 (177)
                      ...+.+...++
T Consensus       215 ~~~~~~~~~~~  225 (236)
T COG0638         215 EGFRKLDGEEI  225 (236)
T ss_pred             CCeEEcCHHHH
Confidence            22334554443

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=9.8e-42  Score=260.01  Aligned_cols=163  Identities=22%  Similarity=0.216  Sum_probs=155.8

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEeC
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDK   83 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d~   83 (177)
                      .+++.+|||+|++|++|++||..+|++.+.+++|.+++.|++.++.+++++.+|++|++++|.++.+||+|++|+||||+
T Consensus        30 ~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~la~~l~~~ly~~r~~P~~v~~ii~G~D~  109 (195)
T cd03759          30 VSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVVAGLDP  109 (195)
T ss_pred             EecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEcC
Confidence            45678999999999999999999999999999999999999999999999999999999999888899999999999995


Q ss_pred             -CCCeEEEEcCCCceeeec-eeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         84 -RGPQLYYVDSDGQRIKGN-VFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        84 -~gp~ly~id~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                       .+|+||.+||+|++..++ ++|+|+|+..++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|+
T Consensus       110 ~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~  189 (195)
T cd03759         110 DGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVDRDALSGWGAVVYIITKDKV  189 (195)
T ss_pred             CCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHhhCcccCCceEEEEEcCCcE
Confidence             569999999999998887 999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEe
Q psy11707        162 QGRFL  166 (177)
Q Consensus       162 ~~~~l  166 (177)
                      +++.|
T Consensus       190 ~~~~~  194 (195)
T cd03759         190 TTRTL  194 (195)
T ss_pred             EEEec
Confidence            88765

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

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=1e-41  Score=259.55  Aligned_cols=161  Identities=27%  Similarity=0.353  Sum_probs=154.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC--CCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG--TGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~--~P~~v~~lvaG   80 (177)
                      +.+++.+|||+|+++++|++||..+|++.+.++++.+++.|++.++++++++.+++++++++|.+++  |||++++|++|
T Consensus        27 ~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~rP~~~~~li~G  106 (193)
T cd03758          27 VLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAG  106 (193)
T ss_pred             EEecCcccEEEeCCCeEEEEccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCeEEEEEEEE
Confidence            4567899999999999999999999999999999999999999999999999999999999987654  59999999999


Q ss_pred             EeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         81 WDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        81 ~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      ||+ .||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++.+||..+.+||..++++++|++|+++
T Consensus       107 ~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~a~~~~~~rd~~~~~~i~i~ii~~~  186 (193)
T cd03758         107 YDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKCIKELKKRFIINLPNFTVKVVDKD  186 (193)
T ss_pred             EcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEEcCC
Confidence            996 7899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEE
Q psy11707        160 WNQG  163 (177)
Q Consensus       160 g~~~  163 (177)
                      |++.
T Consensus       187 g~~~  190 (193)
T cd03758         187 GIRD  190 (193)
T ss_pred             CeEe
Confidence            9765

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=9.5e-41  Score=252.53  Aligned_cols=159  Identities=34%  Similarity=0.508  Sum_probs=154.4

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+|||+|+++++|+++|..+|++.+.++++.+++.|+..++.+++++.+++++++++|.++.|||+|++|+||||
T Consensus        27 i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~rP~~v~~ivaG~d  106 (185)
T TIGR03634        27 VASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVD  106 (185)
T ss_pred             EecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEe
Confidence            45668899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      ++||+||.+||+|++.+++++++|+|+.+++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|+
T Consensus       107 ~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~r~~~~~~~~~v~ii~~~g~  185 (185)
T TIGR03634       107 EEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNGIDVAVITKDGV  185 (185)
T ss_pred             CCCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEcCCCC
Confidence            9899999999999999999999999999999999999999999999999999999999999999999999999999984

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=1e-40  Score=257.36  Aligned_cols=165  Identities=20%  Similarity=0.189  Sum_probs=157.2

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +..++.+||++|+++++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+|.+||+|++|+||||
T Consensus        34 ~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~ly~~R~~P~~~~~iiaG~D  113 (212)
T cd03757          34 ILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGID  113 (212)
T ss_pred             eEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCHHHHHHHHHHHHHhhcCCCeEEEEEEEEEc
Confidence            44678899999999999999999999999999999999999999999999999999999999988778999999999999


Q ss_pred             C-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC---------CCCCHHHHHHHHHHHHHHHHhccCCCCCcEE
Q psy11707         83 K-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH---------WNLTDEEAHQLARKSIYHATYRDFASGGLIR  152 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~---------~~~s~~ea~~l~~~~l~~~~~~d~~~g~~ie  152 (177)
                      + .+|+||.+||+|++.+++++|+|+|+.+++++||+.|+         ++||.+||++++++||+.+.+||..+++.++
T Consensus       114 ~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~  193 (212)
T cd03757         114 EEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLE  193 (212)
T ss_pred             CCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcCCCCCCCHHHHHHHHHHHHHHHHHhCcccCCCEE
Confidence            6 56999999999999999999999999999999999975         8999999999999999999999999999999


Q ss_pred             EEEEcCCceEEEEec
Q psy11707        153 GNASGQQWNQGRFLG  167 (177)
Q Consensus       153 v~iitkdg~~~~~l~  167 (177)
                      |++|+++|++.+.++
T Consensus       194 i~iit~~g~~~~~~~  208 (212)
T cd03757         194 IVIITKDGIEEETFP  208 (212)
T ss_pred             EEEEcCCCEEEEeec
Confidence            999999999887765

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=3.2e-40  Score=250.28  Aligned_cols=160  Identities=36%  Similarity=0.491  Sum_probs=155.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++++++++.+++++++.+|.++.|||+|++|+||||
T Consensus        26 ~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~P~~~~~lvaG~d  105 (188)
T cd03764          26 IASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQLLIGGVD  105 (188)
T ss_pred             EecCCcccEEEccCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEEEEe
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      +++|+||.+||+|++.+++++|+|+|+.+++++||+.|+++|+.+||++++++||+.+.+||..++++++|++|+++|.+
T Consensus       106 ~~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~~~~l~~~~~rd~~~~~~i~i~iv~~~g~~  185 (188)
T cd03764         106 EEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGIDVVVITKDGYK  185 (188)
T ss_pred             CCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEECCCCeE
Confidence            88899999999999999999999999999999999999999999999999999999999999999999999999999854

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.

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=4.8e-40  Score=249.31  Aligned_cols=161  Identities=29%  Similarity=0.439  Sum_probs=154.4

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEeC
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDK   83 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d~   83 (177)
                      .+++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+| +||+|++|+||||+
T Consensus        27 ~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~-~~~~~~~ii~G~d~  105 (188)
T cd03762          27 ANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYK-EMLSAGIIVAGWDE  105 (188)
T ss_pred             EcCCcccEEEccCCEEEEecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHhcc-ccceeeEEEEEEcC
Confidence            45688999999999999999999999999999999999999999999999999999999999986 77999999999996


Q ss_pred             -CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         84 -RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        84 -~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                       +||+||.+||+|++.+++++++|+|+.+++++||+.|+++||.+||++++++||..+.+||..+++.++|++|+++|++
T Consensus       106 ~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~al~~~~~rd~~~~~~~~i~~i~~~g~~  185 (188)
T cd03762         106 QNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSGGVIRLVIITKDGVE  185 (188)
T ss_pred             CCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhccccCCCEEEEEECCCCEE
Confidence             7899999999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             EEE
Q psy11707        163 GRF  165 (177)
Q Consensus       163 ~~~  165 (177)
                      +++
T Consensus       186 ~~~  188 (188)
T cd03762         186 RKF  188 (188)
T ss_pred             EeC
Confidence            653

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=7.3e-40  Score=248.57  Aligned_cols=160  Identities=25%  Similarity=0.356  Sum_probs=153.7

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+|||+|+++++|+++|..+|++.+.+.++.+++.|+++++++++++.+++++++.+|.+++ ||+|++|+||||
T Consensus        26 ~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~-p~~v~~ivaG~d  104 (189)
T cd03763          26 VADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQG-HIGAALVLGGVD  104 (189)
T ss_pred             EEcCCccceEEecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHcCC-ccceeEEEEeEc
Confidence            3456889999999999999999999999999999999999999999999999999999999998865 999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++||+||.+||+|++.+++++|+|+++..++++||++|+++||.+||++++++||+.+.+||..++++++|++|+++|++
T Consensus       105 ~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l~~~~l~~~~~rd~~~~~~~~v~ii~~~g~~  184 (189)
T cd03763         105 YTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGSNVDLCVITKDGVE  184 (189)
T ss_pred             CCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCcCCCceEEEEEcCCcEE
Confidence            88899999999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             E
Q psy11707        163 G  163 (177)
Q Consensus       163 ~  163 (177)
                      +
T Consensus       185 ~  185 (189)
T cd03763         185 Y  185 (189)
T ss_pred             E
Confidence            4

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

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=7.6e-40  Score=249.97  Aligned_cols=161  Identities=23%  Similarity=0.267  Sum_probs=151.8

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHH-HHHHhcCCCCCHHHHHHHHHHHHHhcC--CCCceEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCR-LYELRNGERISVAAASKLMCNMAYNYK--GTGLSMGMMIA   79 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~-~~~~~~~~~~~~~~la~~i~~~~~~~~--~~P~~v~~lva   79 (177)
                      +.+++.+|||+|+++++|+++|..+|++.+.+++|.+++ .+++.++.+++++.+|+++++++|.++  .|||+|++|+|
T Consensus        28 ~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~i~~~~y~~~~~~rP~~v~~iia  107 (197)
T cd03760          28 ARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPKEIHSYLTRVLYNRRSKMNPLWNTLVVG  107 (197)
T ss_pred             eecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHhhcCCCceEEEEEE
Confidence            445788999999999999999999999999999999987 577889999999999999999988776  47999999999


Q ss_pred             EEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC--CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         80 GWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW--NLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        80 G~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      |||+ .||+||++||+|++.+++++|+|+|+.+++++||+.|++  +||.+||++++++||..+.+||..+++.++|++|
T Consensus       108 G~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~~~~~~~i~ii  187 (197)
T cd03760         108 GVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVLYYRDARSINKYQIAVV  187 (197)
T ss_pred             EEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEE
Confidence            9996 789999999999999999999999999999999999999  9999999999999999999999999999999999


Q ss_pred             cCCceEE
Q psy11707        157 GQQWNQG  163 (177)
Q Consensus       157 tkdg~~~  163 (177)
                      +++|++.
T Consensus       188 ~~~g~~~  194 (197)
T cd03760         188 TKEGVEI  194 (197)
T ss_pred             CCCCEEe
Confidence            9999753

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

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=6.5e-40  Score=257.68  Aligned_cols=167  Identities=59%  Similarity=1.034  Sum_probs=158.8

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|++||..+|++.+.+++|.+++.|++.++++++++.+|++|++++|.+|..|+.+++|+||||
T Consensus        65 i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~isv~~la~~ls~~l~~~R~~~~~v~~iiaG~D  144 (247)
T PTZ00488         65 IASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWD  144 (247)
T ss_pred             EEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeeEEEEEEEEe
Confidence            44678999999999999999999999999999999999999999999999999999999999999888888889999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++++||..+.+||..+++.++|++|+++|+ 
T Consensus       145 ~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g~-  223 (247)
T PTZ00488        145 KKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDGW-  223 (247)
T ss_pred             CCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCcc-
Confidence            8899999999999999999999999999999999999999999999999999999999999999999999999999985 


Q ss_pred             EEEecCCCC
Q psy11707        163 GRFLGHQKG  171 (177)
Q Consensus       163 ~~~l~~~~~  171 (177)
                       +.++++|+
T Consensus       224 -~~l~~~ei  231 (247)
T PTZ00488        224 -KKISADDC  231 (247)
T ss_pred             -EECCHHHH
Confidence             46776665

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=3.3e-39  Score=244.71  Aligned_cols=160  Identities=41%  Similarity=0.627  Sum_probs=155.2

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEeC
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDK   83 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d~   83 (177)
                      .+++.+|||+|+++++|+++|+.+|++.+.++++.+++.|++.++++++++.+++++++.+|.++++||++++|+||||+
T Consensus        27 ~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~P~~~~~iv~G~d~  106 (189)
T cd01912          27 ASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDK  106 (189)
T ss_pred             EcCCcCcEEEccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEcC
Confidence            36788999999999999999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             -CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         84 -RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        84 -~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                       ++|+||.+||+|++.+++++|+|.++++++++||+.|+++||.+||++++.+||..+.++|..+++.++|++|+++|+.
T Consensus       107 ~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi~~~g~~  186 (189)
T cd01912         107 GGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVDVAVITKDGVE  186 (189)
T ss_pred             CCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhcCccCCcEEEEEECCCCEE
Confidence             7899999999999999999999999999999999999999999999999999999999999999999999999999976


Q ss_pred             E
Q psy11707        163 G  163 (177)
Q Consensus       163 ~  163 (177)
                      .
T Consensus       187 ~  187 (189)
T cd01912         187 E  187 (189)
T ss_pred             E
Confidence            4

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

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=1.8e-39  Score=252.86  Aligned_cols=166  Identities=22%  Similarity=0.283  Sum_probs=153.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.++++|++++|.|++    |||+|++|+
T Consensus        52 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li  131 (227)
T cd03750          52 IDESSVHKVEQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLI  131 (227)
T ss_pred             cCCCCcceEEEEcCCEEEEEeEcHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEE
Confidence            3566889999999999999999999999999999999999999999999999999999999998864    799999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      +|||+.||+||.+||+|++.+++++|+|+|+.+++++||++|+++||++||++++++||..+.+||. ++.+++|++|++
T Consensus       132 ~G~D~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l-~~~~iev~iv~~  210 (227)
T cd03750         132 AGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQM-TEKNIEIGICGE  210 (227)
T ss_pred             EEEeCCCCEEEEECCCCCEEeeeEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEEC
Confidence            9999889999999999999999999999999999999999999999999999999999999998875 788999999998


Q ss_pred             CceEEEEecCCC
Q psy11707        159 QWNQGRFLGHQK  170 (177)
Q Consensus       159 dg~~~~~l~~~~  170 (177)
                      ++. .+.+.++|
T Consensus       211 ~~~-~~~~~~~e  221 (227)
T cd03750         211 TKG-FRLLTPAE  221 (227)
T ss_pred             CCC-EEECCHHH
Confidence            732 23454444

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.

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=3.4e-39  Score=251.44  Aligned_cols=157  Identities=15%  Similarity=0.143  Sum_probs=146.5

Q ss_pred             CccCceEEec----CcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHHhc----C------CC
Q psy11707          6 GSMKKIVEIN----DYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGE-RISVAAASKLMCNMAYNY----K------GT   70 (177)
Q Consensus         6 ~~~~ki~~i~----~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~-~~~~~~la~~i~~~~~~~----~------~~   70 (177)
                      ++.+|||+|+    +|++|+.||+.||++.+++++|.+++.|+++++. +++++.+|++++++++.+    .      .|
T Consensus        28 ~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v~~la~~i~~~l~~~~~q~~~~~~~~~r  107 (236)
T cd03765          28 STYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPTMFDAARYVGETLREVQEQDREALKKAGI  107 (236)
T ss_pred             cccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCHHHHHHHHHHHHHHHHhhcccccccCCc
Confidence            3689999998    8999999999999999999999999999999999 899999999999986552    2      37


Q ss_pred             CceEEEEEEEEe-CCCCeEEEEcCCCceeee----ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccC
Q psy11707         71 GLSMGMMIAGWD-KRGPQLYYVDSDGQRIKG----NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDF  145 (177)
Q Consensus        71 P~~v~~lvaG~d-~~gp~ly~id~~G~~~~~----~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~  145 (177)
                      ||+|++|+|||| +.||+||++||+|++.++    +++|+|. +.+++++||++|+++||++||++++++||..+..||.
T Consensus       108 p~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek~yk~~ms~eeai~la~~al~~a~~rd~  186 (236)
T cd03765         108 DFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDRVITPDTSLEDAAKCALVSMDSTMRSNL  186 (236)
T ss_pred             ceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhcC
Confidence            999999999999 478999999999999999    4589996 7999999999999999999999999999999999999


Q ss_pred             CCCCcEEEEEEcCCceEE
Q psy11707        146 ASGGLIRGNASGQQWNQG  163 (177)
Q Consensus       146 ~~g~~iev~iitkdg~~~  163 (177)
                      .+++.++|++|+|+|.+.
T Consensus       187 ~sg~~iev~vI~k~G~~~  204 (236)
T cd03765         187 SVGPPLDLLVYERDSLQV  204 (236)
T ss_pred             CCCCCEEEEEEECCCeee
Confidence            999999999999998875

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

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=5.1e-39  Score=249.87  Aligned_cols=167  Identities=24%  Similarity=0.332  Sum_probs=158.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|+++++|++||..+|++.+.+.++.++..|++.++++++++.+++.+++++|.|++    |||+|++||
T Consensus        54 ~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll  133 (224)
T TIGR03633        54 VEPSSIEKIFKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLI  133 (224)
T ss_pred             cCCCccceEEEECCCEEEEEeecHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEE
Confidence            3457889999999999999999999999999999999999999999999999999999999998864    799999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      ||+|+.+|+||.+||+|++.+++++|+|+++.+++++||+.|+++|+.+||++++++||..+.+ |..+++.++|++|++
T Consensus       134 ~G~d~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~~-d~~~~~~i~i~ii~~  212 (224)
T TIGR03633       134 AGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAVE-DKLTPENVEVAYITV  212 (224)
T ss_pred             EEEeCCcCEEEEECCCCCeecceEEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEEEEEEEc
Confidence            9999889999999999999999999999999999999999999999999999999999999888 888999999999999


Q ss_pred             CceEEEEecCCC
Q psy11707        159 QWNQGRFLGHQK  170 (177)
Q Consensus       159 dg~~~~~l~~~~  170 (177)
                      +|..++.++++|
T Consensus       213 ~g~~~~~~~~~~  224 (224)
T TIGR03633       213 EDKKFRKLSVEE  224 (224)
T ss_pred             CCCcEEECCCCC
Confidence            987778888775

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.

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=4.4e-39  Score=252.73  Aligned_cols=168  Identities=24%  Similarity=0.299  Sum_probs=158.5

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIA   79 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lva   79 (177)
                      ..++.+||++|+++++|++||..+|++.+.++++.+++.|++.++.+++++.+++.+++.+|.|++    |||+|++|+|
T Consensus        62 ~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ila  141 (241)
T PRK03996         62 EPSSIEKIFKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIA  141 (241)
T ss_pred             CCCccceEEEEcCCEEEEEcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEE
Confidence            456789999999999999999999999999999999999999999999999999999999998864    6999999999


Q ss_pred             EEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         80 GWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        80 G~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      |||+.||+||.+||+|++.+++++|+|.|+..++++||+.|+++|+.+||++++++||..+.++ ..+++.++|++|+++
T Consensus       142 G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~-~~~~~~i~i~ii~~~  220 (241)
T PRK03996        142 GVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEG-KLDPENVEIAYIDVE  220 (241)
T ss_pred             EEeCCcCEEEEECCCCCeecceEEEECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEECC
Confidence            9998899999999999999999999999999999999999999999999999999999999875 557899999999999


Q ss_pred             ceEEEEecCCCCC
Q psy11707        160 WNQGRFLGHQKGP  172 (177)
Q Consensus       160 g~~~~~l~~~~~~  172 (177)
                      |..++.++++|+.
T Consensus       221 ~~~~~~~~~~ei~  233 (241)
T PRK03996        221 TKKFRKLSVEEIE  233 (241)
T ss_pred             CCcEEECCHHHHH
Confidence            8888889887764

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1.3e-38  Score=251.61  Aligned_cols=169  Identities=20%  Similarity=0.233  Sum_probs=157.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|+++++|+++|..+|++.+.+.+|.+++.|++.++.+++++.+++.++..+|.|++    |||+|++|+
T Consensus        57 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li  136 (253)
T PTZ00246         57 DPGKINEKIYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLF  136 (253)
T ss_pred             cCCCCcccEEEecCCEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEE
Confidence            4455789999999999999999999999999999999999999999999999999999999999874    799999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG  157 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit  157 (177)
                      ||||+ .||+||.+||+|++.+++++|+|+|+.+++++||+.|+++|+.+||++++++||..+.++|..+++.++|++|+
T Consensus       137 ~G~D~~~gp~Ly~~D~~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~  216 (253)
T PTZ00246        137 AGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILS  216 (253)
T ss_pred             EEEeCCCCcEEEEECCCCCEecceEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEe
Confidence            99995 78999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCc----eEEEEecCCCC
Q psy11707        158 QQW----NQGRFLGHQKG  171 (177)
Q Consensus       158 kdg----~~~~~l~~~~~  171 (177)
                      ++|    ..++.|.++|+
T Consensus       217 ~~~~~~~~~~~~l~~~ei  234 (253)
T PTZ00246        217 HGETDGEPIQKMLSEKEI  234 (253)
T ss_pred             cCCcCCCCCeEECCHHHH
Confidence            986    22567776654

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=4.8e-38  Score=242.72  Aligned_cols=154  Identities=24%  Similarity=0.278  Sum_probs=147.0

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|+++++|++||..+|++.+.+++|.+++.|++.++++++++.+++.|+..+|.|++    |||+|++|+
T Consensus        55 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li  134 (213)
T cd03752          55 DQSFSSEKIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLY  134 (213)
T ss_pred             CCCcCcceEEEecCCEEEEEecChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEE
Confidence            3456889999999999999999999999999999999999999999999999999999999998864    799999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +|||+ .||+||.+||+|++.+++++|+|+++.+++++||+.|+++||.+||++++++||..+.+||..++.+++|+++
T Consensus       135 ~G~D~~~g~~ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         135 AGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             EEEeCCCCCEEEEECCCCCeeeeeEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            99995 7899999999999999999999999999999999999999999999999999999999999888899999875

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=2.4e-38  Score=245.27  Aligned_cols=168  Identities=23%  Similarity=0.303  Sum_probs=153.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC---CCCceEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK---GTGLSMGMMIA   79 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~---~~P~~v~~lva   79 (177)
                      +.+++.+|||+|++|++|+++|..+|++.+.+++|.+++.|++.++.+++++.+|++|++++|.++   .|||+|++|+|
T Consensus        28 ~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~rp~~v~~iia  107 (219)
T TIGR03690        28 IASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAMVRGNLPAAMQGLAVVPLLA  107 (219)
T ss_pred             EEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhhhhccCCceEEEEEE
Confidence            346789999999999999999999999999999999999999999999999999999999999875   37999999999


Q ss_pred             EEeC--CCCeEEEEcCCCc-eeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCc------
Q psy11707         80 GWDK--RGPQLYYVDSDGQ-RIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGL------  150 (177)
Q Consensus        80 G~d~--~gp~ly~id~~G~-~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~------  150 (177)
                      |||+  .+|+||.+||+|+ +..++++|+|+|+.+++++||+.|+++||.+||++++++||..+.++|..+++.      
T Consensus       108 G~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~~~~~~~  187 (219)
T TIGR03690       108 GYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRVAVEALYDAADDDSATGGPDLVRGI  187 (219)
T ss_pred             EECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHHHHHHHHHHHHHHHhcccccCCccccccc
Confidence            9995  5799999999995 667899999999999999999999999999999999999999999999877754      


Q ss_pred             -EEEEEEcCCceEEEEecCCCCC
Q psy11707        151 -IRGNASGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       151 -iev~iitkdg~~~~~l~~~~~~  172 (177)
                       ++|++|+++|.  +.++++|+.
T Consensus       188 ~~ei~ii~~~g~--~~l~~~ei~  208 (219)
T TIGR03690       188 YPTVVVITADGA--RRVPESELE  208 (219)
T ss_pred             ccEEEEEccCce--EEcCHHHHH
Confidence             39999998874  578777653

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.

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=5e-38  Score=242.27  Aligned_cols=153  Identities=22%  Similarity=0.257  Sum_probs=145.5

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC----CCCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK----GTGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~----~~P~~v~~lvaG   80 (177)
                      .++.+||++|+++++|++||+.+|++.+.+++|.+++.|+++++++++++.+|+.+++++|.++    .|||+|++|++|
T Consensus        52 ~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G  131 (211)
T cd03749          52 SSYQKKIFKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAG  131 (211)
T ss_pred             CCccccEEEeCCCEEEEEEeChHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEE
Confidence            3467999999999999999999999999999999999999999999999999999999998875    479999999999


Q ss_pred             EeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC--CCCCHHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEc
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH--WNLTDEEAHQLARKSIYHATYRDF-ASGGLIRGNASG  157 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~--~~~s~~ea~~l~~~~l~~~~~~d~-~~g~~iev~iit  157 (177)
                      ||+.||+||++||+|++.+++++|+|+|+..++++||++|+  ++|+.+||+++++++|+.++++|. .++.+|||++|+
T Consensus       132 ~D~~gp~Ly~~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         132 YDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             EcCCCCeEEEECCCcCEeeeeEEEECCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            99889999999999999999999999999999999999998  599999999999999999999886 888999999984

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=4.6e-38  Score=242.55  Aligned_cols=154  Identities=21%  Similarity=0.179  Sum_probs=145.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +..++.+|||+|++|++|+++|+.+|++.+.+++|.+++.|++.++.+++++.++++|++++|.|++    |||+|++|+
T Consensus        55 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li  134 (212)
T cd03751          55 YEPGSNKRIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLL  134 (212)
T ss_pred             cCcchhcceeEecCcEEEEEEEChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEE
Confidence            3456789999999999999999999999999999999999999999999999999999999999864    799999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +|||++||+||++||+|++.+++++|+|+|+..++++||++|+++||.+||+++++++|+.+.+.+...+.++||.++
T Consensus       135 ~G~D~~gp~Ly~~D~~Gs~~~~~~~a~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         135 GGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             EEEeCCcCEEEEECCCCCEEeeEEEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            999988999999999999999999999999999999999999999999999999999999999866667788998874

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

Probab=100.00  E-value=4.8e-39  Score=236.68  Aligned_cols=166  Identities=25%  Similarity=0.291  Sum_probs=152.9

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC---------CCCceE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK---------GTGLSM   74 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~---------~~P~~v   74 (177)
                      .++++.||++|++||+|++||+.||++++++++|.++++|++.|+++++++.+.+.++++.-.|.         .|||||
T Consensus        60 ~p~sveKi~eid~HIgca~SGl~aDarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGV  139 (241)
T KOG0176|consen   60 EPSSVEKIVEIDDHIGCAMSGLIADARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGV  139 (241)
T ss_pred             CchhhhhheehhhceeeeccccccchHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcce
Confidence            46789999999999999999999999999999999999999999999999999999999988775         289999


Q ss_pred             EEEEEEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEE
Q psy11707         75 GMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGN  154 (177)
Q Consensus        75 ~~lvaG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~  154 (177)
                      ++|+||+|++||+||+.||||++++|++-|+|+|++-+++.|++.|+++|+++||+.+++..|+.+.+. ..+..++++.
T Consensus       140 alliAG~D~~gpqL~h~dPSGtf~~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMee-Kl~~~Nvev~  218 (241)
T KOG0176|consen  140 ALLIAGHDETGPQLYHLDPSGTFIRYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVMEE-KLNSNNVEVA  218 (241)
T ss_pred             EEEEeeccCCCceEEEeCCCCceEEecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHH-hcCccceEEE
Confidence            999999999999999999999999999999999999999999999999999999999999999999974 4556789999


Q ss_pred             EEcCCceEEEEecCCCC
Q psy11707        155 ASGQQWNQGRFLGHQKG  171 (177)
Q Consensus       155 iitkdg~~~~~l~~~~~  171 (177)
                      +|+++|. +.++.++|+
T Consensus       219 ~vt~e~~-f~~~t~EE~  234 (241)
T KOG0176|consen  219 VVTPEGE-FHIYTPEEV  234 (241)
T ss_pred             EEcccCc-eEecCHHHH
Confidence            9999863 345555443

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=100.00  E-value=2.3e-37  Score=237.91  Aligned_cols=151  Identities=19%  Similarity=0.284  Sum_probs=142.7

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|++||+.+|++.+.+++|.+++.|++.++++++++.+++.+++++|.|++    |||+|++|+
T Consensus        52 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii  131 (207)
T cd03755          52 QDPRTVRKICMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLI  131 (207)
T ss_pred             cCCCccCcEEEECCCEEEEEecchhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEE
Confidence            3456789999999999999999999999999999999999999999999999999999999988864    699999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +|||+ .+|+||++||+|++.+++++|+|+|+.+++++||++|+++|+.+||++++++||..+.+   .++.++||+++
T Consensus       132 ~G~D~~~~p~Ly~iD~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~---~~~~~~e~~~~  207 (207)
T cd03755         132 VGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVVQ---SGSKNIELAVM  207 (207)
T ss_pred             EEEeCCCCeEEEEECCCcCEEcceEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhC---CCCCeEEEEEC
Confidence            99996 58999999999999999999999999999999999999999999999999999999996   56788999875

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

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=4.3e-37  Score=237.11  Aligned_cols=154  Identities=25%  Similarity=0.330  Sum_probs=147.0

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|+++++|++||+.+|++.+.+.++.+++.|++.++++++++.+++.++..+|.|++    |||+|++|+
T Consensus        53 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll  132 (211)
T cd03756          53 VEPESIEKIYKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLI  132 (211)
T ss_pred             cCCCccceEEEEcCCEEEEEecCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEE
Confidence            3456889999999999999999999999999999999999999999999999999999999998864    699999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG  157 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit  157 (177)
                      +|||+.+|+||.+||+|++.+++++|+|+|+..++++||++|+++|+.+||++++++||..+.++|. ++.+++|++|+
T Consensus       133 ~G~D~~~~~ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~~~~~~-~~~~~~v~ii~  210 (211)
T cd03756         133 AGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAALEENE-TPENVEIAYVT  210 (211)
T ss_pred             EEEeCCCCEEEEECCCCCeeeeEEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEe
Confidence            9999989999999999999999999999999999999999999999999999999999999998776 88999999987

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

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=3.8e-37  Score=237.95  Aligned_cols=153  Identities=20%  Similarity=0.241  Sum_probs=144.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      |.+++.+||++|+++++|++||+.+|++.+.+++|.++..|+++++++++++.+|+.+++++|.|++    |||+|++|+
T Consensus        54 i~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii  133 (215)
T cd03754          54 IDPSTVTHLFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMIL  133 (215)
T ss_pred             cCCcccCceEEEcCCEEEEEEechhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEE
Confidence            4556789999999999999999999999999999999999999999999999999999999888764    699999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCC--C--CHHHHHHHHHHHHHHHHhccCCCCCcEEE
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN--L--TDEEAHQLARKSIYHATYRDFASGGLIRG  153 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~--~--s~~ea~~l~~~~l~~~~~~d~~~g~~iev  153 (177)
                      ||||+ +||+||.+||+|++.+++++|+|+|+..++++||++|+++  |  |.+||++++++||..+.+||.. ++++||
T Consensus       134 ~G~D~~~gp~Ly~~Dp~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~-~~~~ei  212 (215)
T cd03754         134 IGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFK-ATEIEV  212 (215)
T ss_pred             EEEeCCCCeEEEEEcCCccEEeEEEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCC-CCcEEE
Confidence            99995 7899999999999999999999999999999999999985  7  9999999999999999999965 889999


Q ss_pred             EEE
Q psy11707        154 NAS  156 (177)
Q Consensus       154 ~ii  156 (177)
                      ++|
T Consensus       213 ~~~  215 (215)
T cd03754         213 GVV  215 (215)
T ss_pred             EEC
Confidence            885

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=9.1e-37  Score=235.59  Aligned_cols=152  Identities=24%  Similarity=0.319  Sum_probs=144.0

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC---------CCceE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG---------TGLSM   74 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~---------~P~~v   74 (177)
                      ..++.+||++|+++++|++||+.+|++.+.+.++.+++.|++.++++++++.+++.+++++|.|++         |||+|
T Consensus        53 ~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v  132 (213)
T cd03753          53 EPSSVEKIMEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGV  132 (213)
T ss_pred             CCCccceEEEEcCCEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceE
Confidence            346789999999999999999999999999999999999999999999999999999999998764         79999


Q ss_pred             EEEEEEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEE
Q psy11707         75 GMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGN  154 (177)
Q Consensus        75 ~~lvaG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~  154 (177)
                      ++|+||||+.||+||.+||+|++.+++++|+|++++.++++|++.|+++|+.+||++++++||+.+.+++ .++..+||+
T Consensus       133 ~~ii~G~D~~gp~Ly~vd~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~-~~~~~~ei~  211 (213)
T cd03753         133 ALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEK-LNSTNVELA  211 (213)
T ss_pred             EEEEEEEcCCCCEEEEECCCCCeecccEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEE
Confidence            9999999998999999999999999999999999999999999999999999999999999999988755 677889998


Q ss_pred             EE
Q psy11707        155 AS  156 (177)
Q Consensus       155 ii  156 (177)
                      ++
T Consensus       212 ~~  213 (213)
T cd03753         212 TV  213 (213)
T ss_pred             EC
Confidence            75

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

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=1.5e-36  Score=228.51  Aligned_cols=153  Identities=40%  Similarity=0.572  Sum_probs=148.4

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC--CCceEEEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG--TGLSMGMMIAGW   81 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~--~P~~v~~lvaG~   81 (177)
                      ..++.+|||+|+++++|+++|..+|++.+.++++.++..|++.++.+++++.+++++++++|.+++  +||++++|+|||
T Consensus        27 ~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~p~~~~~lv~G~  106 (182)
T cd01906          27 ASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGV  106 (182)
T ss_pred             cCCCcceEEEECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCccChheEEEEEEE
Confidence            367889999999999999999999999999999999999999999999999999999999999998  999999999999


Q ss_pred             eC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         82 DK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        82 d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      |. .+|+||.+||+|++.+++++|+|+++.+++++||+.|+++||.+||++++++||..+.++|..++++++|.+|
T Consensus       107 d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         107 DEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             eCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHcccCCCCCCEEEEEC
Confidence            97 7899999999999999999999999999999999999999999999999999999999999989999999875

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

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=1.7e-36  Score=235.73  Aligned_cols=167  Identities=13%  Similarity=0.077  Sum_probs=151.2

Q ss_pred             CccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHhc---CCCCceEEEEEEEE
Q psy11707          6 GSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNG-ERISVAAASKLMCNMAYNY---KGTGLSMGMMIAGW   81 (177)
Q Consensus         6 ~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~la~~i~~~~~~~---~~~P~~v~~lvaG~   81 (177)
                      ++.+|||+|+||++|+++|+.+|++.++++++.+++.|++.++ .+++++.+|+.+++.++.+   +.|||+|++|++||
T Consensus        48 ~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~~~~~RP~gvs~Li~G~  127 (228)
T TIGR03691        48 RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMRGYSYDRRDVTGRGLANAYAQTLGTIFTEQQKPYEVEICVAEV  127 (228)
T ss_pred             CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhhhcCCCCccHHHHHHHHHhhcccccccccCcceEEEEEEEE
Confidence            4679999999999999999999999999999999999999998 6899999999888887754   35899999999999


Q ss_pred             eC--CCCeEEEEcCCCceeeec-eeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHH--hccCCCCCcEEEEEE
Q psy11707         82 DK--RGPQLYYVDSDGQRIKGN-VFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHAT--YRDFASGGLIRGNAS  156 (177)
Q Consensus        82 d~--~gp~ly~id~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~--~~d~~~g~~iev~ii  156 (177)
                      |+  .||+||.+||+|++.+++ ++|+|+|++.++++||++|+++||.+||++++++||..+.  ++|..++.++||.++
T Consensus       128 d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~Lek~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii  207 (228)
T TIGR03691       128 GETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVL  207 (228)
T ss_pred             cCCCCCCEEEEECCCCCceeccceEEECCChHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEE
Confidence            84  689999999999999976 8999999999999999999999999999999999999995  466788899999999


Q ss_pred             cCCc--eEEEEecCCCCC
Q psy11707        157 GQQW--NQGRFLGHQKGP  172 (177)
Q Consensus       157 tkdg--~~~~~l~~~~~~  172 (177)
                      ++++  ..++.|+++|+.
T Consensus       208 ~k~~~~~~f~~l~~~ei~  225 (228)
T TIGR03691       208 DRSRPRRAFRRITGEALE  225 (228)
T ss_pred             eCCCCccceEECCHHHHH
Confidence            9764  347788887764

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.

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=4.6e-36  Score=231.01  Aligned_cols=152  Identities=29%  Similarity=0.359  Sum_probs=145.1

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIA   79 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lva   79 (177)
                      ..++.+||++|+++++|++||..+|++.+.+.++.++..|++.++.+++++.+|+++++++|.|++    |||+|++|++
T Consensus        53 ~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~  132 (209)
T cd01911          53 DPSSVEKIFKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIA  132 (209)
T ss_pred             CCcccceEEEecCCeEEEeccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEE
Confidence            346889999999999999999999999999999999999999999999999999999999987754    6999999999


Q ss_pred             EEeCC-CCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         80 GWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        80 G~d~~-gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      |||++ ||+||.+||.|++.+++++++|+|+.+++++||+.|+++|+.+||++++.+||..+.++|. +++.++|+++
T Consensus       133 G~d~~~~~~Ly~iD~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~-~~~~~~i~i~  209 (209)
T cd01911         133 GYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDK-KAKNIEIAVV  209 (209)
T ss_pred             EEcCCCCcEEEEECCCCCeeeeeEEEeCCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHhccC-CCCcEEEEEC
Confidence            99974 8999999999999999999999999999999999999999999999999999999999999 9999999875

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.

>KOG0178|consensus

Probab=100.00  E-value=2e-36  Score=224.80  Aligned_cols=160  Identities=24%  Similarity=0.306  Sum_probs=152.0

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIA   79 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lva   79 (177)
                      .+.+.+||++|+|||+|+++|+++|+..+++++|..+|.|.+++++++|++.|++.++++.|.|||    ||||||+|.+
T Consensus        58 t~~~~EKiY~l~d~iaC~vaGlt~DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYa  137 (249)
T KOG0178|consen   58 TSIPMEKIYKLNDNIACAVAGLTSDANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYA  137 (249)
T ss_pred             ccccHHHhhhcCCceEEEEecccccHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeee
Confidence            355789999999999999999999999999999999999999999999999999999999999998    8999999999


Q ss_pred             EEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCC-CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc
Q psy11707         80 GWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL-TDEEAHQLARKSIYHATYRDFASGGLIRGNASG  157 (177)
Q Consensus        80 G~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~-s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit  157 (177)
                      |||. .|.+||+.||||++..|++.++|.++..++..|+..|+++. ++++|..+|++.|..+.+.+..+...+|++.++
T Consensus       138 Gwd~~~gyqLy~SdPSGny~gWka~ciG~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~  217 (249)
T KOG0178|consen  138 GWDDRYGYQLYQSDPSGNYGGWKATCIGANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATIT  217 (249)
T ss_pred             ceecCcceEEEecCCCCCccccceeeeccchHHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEE
Confidence            9997 67999999999999999999999999999999999998865 599999999999999999999999999999999


Q ss_pred             CCceEE
Q psy11707        158 QQWNQG  163 (177)
Q Consensus       158 kdg~~~  163 (177)
                      +++.+.
T Consensus       218 k~~~k~  223 (249)
T KOG0178|consen  218 KDCNKT  223 (249)
T ss_pred             ecCCce
Confidence            996664

>KOG0174|consensus

Probab=100.00  E-value=8.5e-36  Score=218.86  Aligned_cols=172  Identities=28%  Similarity=0.421  Sum_probs=165.2

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      |+++..+|+.+|.|+|+||.||.+||.|.+.+.++..+..|...++.++++...|+.++++.|.|+.. +...+|+||||
T Consensus        45 vanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v~~aA~l~r~~~Y~~re~-L~AgliVAGwD  123 (224)
T KOG0174|consen   45 VANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPLVHTAASLFREICYNYREM-LSAGLIVAGWD  123 (224)
T ss_pred             HHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCchHHHHHHHHHHHHHhCHHh-hhcceEEeecc
Confidence            67889999999999999999999999999999999999999999999999999999999999999876 78899999999


Q ss_pred             C-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 K-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      + .|.++|.+--.|...+.++..-|+||.+++++++.+|+++|+.||++.+..+|+..++.||..+|+.|.+.+|+++|+
T Consensus       124 ~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gv  203 (224)
T KOG0174|consen  124 EKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTLEECVRFVKNAVSLAIERDGSSGGVIRLVIINKAGV  203 (224)
T ss_pred             cccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEEccCCc
Confidence            7 789999998888888899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCCCCCCC
Q psy11707        162 QGRFLGHQKGPNSG  175 (177)
Q Consensus       162 ~~~~l~~~~~~~~~  175 (177)
                      +++++++|++|.|.
T Consensus       204 er~~~~~d~~~~~~  217 (224)
T KOG0174|consen  204 ERRFFPGDKLGQFA  217 (224)
T ss_pred             eEEEecCCcccccc
Confidence            99999999999874

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

Probab=100.00  E-value=1.2e-34  Score=219.54  Aligned_cols=150  Identities=35%  Similarity=0.487  Sum_probs=140.9

Q ss_pred             ccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhc----CCCCceEEEEEEEEe
Q psy11707          7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNY----KGTGLSMGMMIAGWD   82 (177)
Q Consensus         7 ~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~----~~~P~~v~~lvaG~d   82 (177)
                      +.+|||+|+++++|++||..+|++.+.++++.++..|++.++.+++++.+++.+++.++.+    +.+|+++++|+||||
T Consensus        35 ~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d  114 (190)
T PF00227_consen   35 TVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPISPEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYD  114 (190)
T ss_dssp             TSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTCHHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEE
T ss_pred             ccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCccccchhhhhhhHHHHhhhcccccccCccccceeeeec
Confidence            3699999999999999999999999999999999999999999999997777777666654    358999999999999


Q ss_pred             CCC-CeEEEEcCCCceeee-ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         83 KRG-PQLYYVDSDGQRIKG-NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        83 ~~g-p~ly~id~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +++ |+||.+||+|++.++ ++.|+|+|+++++++||+.|+++|+.+||++++++||+.+.++|..++++++|++|
T Consensus       115 ~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  115 EDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLSLEEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             TTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSSHHHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             cccccceeeeccccccccccccccchhcchhhhHHHHhhccCCCCHHHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            765 999999999999999 69999999999999999999999999999999999999999999999999999986

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 ....

>KOG0183|consensus

Probab=100.00  E-value=8.6e-36  Score=221.89  Aligned_cols=163  Identities=18%  Similarity=0.284  Sum_probs=149.5

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG   80 (177)
                      .+...||..++||++|+|+|+.+|++.+++++|.+|+.|+++.+.|+|++.++++|+.+.|.|||    ||||+++|++|
T Consensus        57 ~r~~rkI~~ld~hV~mafaGl~aDArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~G  136 (249)
T KOG0183|consen   57 ERTVRKISMLDDHVVMAFAGLTADARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGG  136 (249)
T ss_pred             hhhhhhheeecceeeEEecCCCccceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEe
Confidence            45688999999999999999999999999999999999999999999999999999999999997    89999999999


Q ss_pred             EeCCC-CeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCC--CCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc
Q psy11707         81 WDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN--LTDEEAHQLARKSIYHATYRDFASGGLIRGNASG  157 (177)
Q Consensus        81 ~d~~g-p~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~--~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit  157 (177)
                      +|++| |+||++||+|.+++|++.|+|.++..+..+||++|.++  .+..+++++++++|.++...+   +.+||+++++
T Consensus       137 fD~~g~p~lyqtePsG~f~ewka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvqs~---~~nie~aVm~  213 (249)
T KOG0183|consen  137 FDPDGTPRLYQTEPSGIFSEWKANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQSG---GKNIEVAVMK  213 (249)
T ss_pred             eCCCCCeeeEeeCCCcchhhhhccccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhhcC---CCeeEEEEEe
Confidence            99865 99999999999999999999999999999999999876  788999999999999999743   4789999999


Q ss_pred             CCceEEEEecCCCC
Q psy11707        158 QQWNQGRFLGHQKG  171 (177)
Q Consensus       158 kdg~~~~~l~~~~~  171 (177)
                      +++- .++|..+++
T Consensus       214 ~~~~-~~~l~~~~I  226 (249)
T KOG0183|consen  214 RRKD-LKMLESEEI  226 (249)
T ss_pred             cCCc-eeecCHHHH
Confidence            8852 456665543

>KOG0179|consensus

Probab=100.00  E-value=8.9e-35  Score=215.74  Aligned_cols=168  Identities=20%  Similarity=0.199  Sum_probs=160.8

Q ss_pred             CCCCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEE
Q psy11707          1 MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAG   80 (177)
Q Consensus         1 ~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG   80 (177)
                      |+|.++...|||+++|+++++.||..||+..|...++.+...|++.++..|++..+|++|+.++|..|.+||.+..+++|
T Consensus        53 y~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~s~A~lls~~LY~kRFFPYYv~~ilaG  132 (235)
T KOG0179|consen   53 YNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSIHSAAQLLSTILYSKRFFPYYVFNILAG  132 (235)
T ss_pred             eeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHhhcccccceeeeeeec
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeCC-CCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC-----------CCCCHHHHHHHHHHHHHHHHhccCCCC
Q psy11707         81 WDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH-----------WNLTDEEAHQLARKSIYHATYRDFASG  148 (177)
Q Consensus        81 ~d~~-gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~-----------~~~s~~ea~~l~~~~l~~~~~~d~~~g  148 (177)
                      +|++ ++.+|..||.|++.+..+.|-|+++..++++|+....           +.+++|+|++++..++..+.+||..+|
T Consensus       133 iDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tG  212 (235)
T KOG0179|consen  133 IDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLENAERTPLSLERAIRLVKDAFTSAAERDIYTG  212 (235)
T ss_pred             ccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCcCcccccCcccccCHHHHHHHHHHHhhhhhhcccccC
Confidence            9984 5999999999999999999999999999999998742           358999999999999999999999999


Q ss_pred             CcEEEEEEcCCceEEEEecC
Q psy11707        149 GLIRGNASGQQWNQGRFLGH  168 (177)
Q Consensus       149 ~~iev~iitkdg~~~~~l~~  168 (177)
                      +.++|+|++|||++++++|=
T Consensus       213 D~l~i~I~tk~gV~~e~~~L  232 (235)
T KOG0179|consen  213 DKLEICIITKDGVEVETLPL  232 (235)
T ss_pred             CcEEEEEEecCCEEEEeeec
Confidence            99999999999999999873

>KOG0181|consensus

Probab=100.00  E-value=2.1e-34  Score=211.67  Aligned_cols=164  Identities=21%  Similarity=0.253  Sum_probs=151.7

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG   80 (177)
                      ..++.|+++|.++|+|.+||..+|++.+++..|+.++.|...+++++++..+...++..+|+|||    ||||+++++||
T Consensus        59 ~~sv~KV~~i~~~IG~vYSGmgpD~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG  138 (233)
T KOG0181|consen   59 EESVRKVEKITPHIGCVYSGMGPDYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAG  138 (233)
T ss_pred             hhhhhhHhhccCCcceEEecCCCceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEee
Confidence            34679999999999999999999999999999999999999999999999999999999999998    89999999999


Q ss_pred             EeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCc
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQW  160 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg  160 (177)
                      ||+.+|.||++||||++..|+++|+|.+...++++||++|+++|.+++++..++..|++..+... +.+++||.++...+
T Consensus       139 ~~~~~p~LyQvdPSGsyf~wkatA~Gkn~v~aktFlEkR~~edleldd~ihtailtlkE~fege~-~~~nieigv~~~~~  217 (233)
T KOG0181|consen  139 WDEGGPLLYQVDPSGSYFAWKATAMGKNYVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEGEM-TAKNIEIGVCGENG  217 (233)
T ss_pred             cCCCceeEEEECCccceeehhhhhhccCcchHHHHHHHHhccccccchHHHHHHHHHHHHhcccc-ccCceEEEEecCCc
Confidence            99999999999999999999999999999999999999999999999999999999999987554 56889999999554


Q ss_pred             eEEEEecCCCC
Q psy11707        161 NQGRFLGHQKG  171 (177)
Q Consensus       161 ~~~~~l~~~~~  171 (177)
                        ++.|..+|+
T Consensus       218 --F~~lt~~eI  226 (233)
T KOG0181|consen  218 --FRRLTPAEI  226 (233)
T ss_pred             --eeecCHHHH
Confidence              445655543

>KOG0184|consensus

Probab=100.00  E-value=4.6e-34  Score=213.64  Aligned_cols=168  Identities=16%  Similarity=0.139  Sum_probs=157.8

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG   80 (177)
                      +.+..||+.|++||+|+++|+.+|.+.+.+++|.++..|+..++.++|...++.+++++.|.||.    ||||++.++++
T Consensus        61 p~sn~ri~~V~r~iG~avaGl~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~  140 (254)
T KOG0184|consen   61 PGSNERIFSVDRHIGMAVAGLIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGS  140 (254)
T ss_pred             cCCCCceEeecccccEEEeccccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEE
Confidence            56789999999999999999999999999999999999999999999999999999999999985    89999999999


Q ss_pred             EeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC-
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ-  159 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd-  159 (177)
                      ||.+||+||+++|||..+.++++|+|.|.+.+++.|||+--.+|+.+|+++.+.++|+.+.+.......++|+.|+..+ 
T Consensus       141 yd~~g~~LymiepSG~~~~Y~~aaiGKgrq~aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eT  220 (254)
T KOG0184|consen  141 YDDEGPQLYMIEPSGSSYGYKGAAIGKGRQAAKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEET  220 (254)
T ss_pred             EeCCCceEEEEcCCCCccceeeeeccchhHHHHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEeec
Confidence            9999999999999999999999999999999999999999899999999999999999999876666788999999976 


Q ss_pred             ceEEEEecCCCCC
Q psy11707        160 WNQGRFLGHQKGP  172 (177)
Q Consensus       160 g~~~~~l~~~~~~  172 (177)
                      +..++.+|.+.+|
T Consensus       221 nG~h~~vp~el~~  233 (254)
T KOG0184|consen  221 NGLHEKVPSELLE  233 (254)
T ss_pred             CCccccCcHHHHH
Confidence            6788888875544

>KOG0863|consensus

Probab=100.00  E-value=2.3e-33  Score=210.91  Aligned_cols=156  Identities=23%  Similarity=0.271  Sum_probs=147.9

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG   80 (177)
                      ++..+||++|++|++++++|+++|++.+.+++|++|..+++.+++++++..+...+.+.+|..||    |||||.++++|
T Consensus        57 ss~QkKi~~iD~h~g~siAGLt~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~g  136 (264)
T KOG0863|consen   57 SSHQKKIFKIDDHIGISIAGLTADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAG  136 (264)
T ss_pred             HHhhheeEecccccceEEeccCcchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEe
Confidence            45678999999999999999999999999999999999999999999999999999999999876    79999999999


Q ss_pred             EeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC--CCCCHHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEc
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH--WNLTDEEAHQLARKSIYHATYRD-FASGGLIRGNASG  157 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~--~~~s~~ea~~l~~~~l~~~~~~d-~~~g~~iev~iit  157 (177)
                      ||+.|||||+++|+|++.+++++++|+.|+.++++||++..  ++++.+|.+..+++||+.++..| ..++.+++|+|+.
T Consensus       137 YDe~G~hl~e~~Psg~v~e~~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivg  216 (264)
T KOG0863|consen  137 YDESGPHLYEFCPSGNVFECKGMSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVG  216 (264)
T ss_pred             ecCCCceeEEEcCCccEEEEeeeecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEe
Confidence            99999999999999999999999999999999999999975  59999999999999999999855 6778899999999


Q ss_pred             CCc
Q psy11707        158 QQW  160 (177)
Q Consensus       158 kdg  160 (177)
                      ||.
T Consensus       217 kd~  219 (264)
T KOG0863|consen  217 KDE  219 (264)
T ss_pred             CCC
Confidence            984

>KOG0182|consensus

Probab=100.00  E-value=9.5e-33  Score=205.33  Aligned_cols=169  Identities=19%  Similarity=0.192  Sum_probs=158.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.++++..+|+|+.+|+|+++|..+|++..++++|.++.++++.+|.++|++.||++++++.|.|+|    ||+||.+++
T Consensus        61 ld~~tvt~~f~itk~ig~v~tG~~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~  140 (246)
T KOG0182|consen   61 LDSSTVTHLFRITKKIGCVITGMIADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATL  140 (246)
T ss_pred             cccccceeEEEeeccceEEEecCCcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEE
Confidence            3466789999999999999999999999999999999999999999999999999999999999998    799999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCC--CCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN--LTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~--~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      .|+|+ .||.+|.+||.|.++.+++++.|.....+..+||+.|+++  ++.+|++++++.||..++..|..+ .++||.+
T Consensus       141 i~~D~E~gP~vYk~DpAGyy~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~-se~EVgv  219 (246)
T KOG0182|consen  141 IGVDEERGPSVYKTDPAGYYYGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFKS-SELEVGV  219 (246)
T ss_pred             EEeccccCcceEeecCccccccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccCC-cceEEEE
Confidence            99996 7899999999999999999999999999999999999987  789999999999999999988764 5799999


Q ss_pred             EcCCceEEEEecCCCCC
Q psy11707        156 SGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       156 itkdg~~~~~l~~~~~~  172 (177)
                      ++++.-+++.|..+|++
T Consensus       220 v~~~~p~f~~Ls~~eie  236 (246)
T KOG0182|consen  220 VTVDNPEFRILSAEEIE  236 (246)
T ss_pred             EEcCCcceeeccHHHHH
Confidence            99998778888877653

>KOG0177|consensus

Probab=100.00  E-value=1.7e-32  Score=200.72  Aligned_cols=161  Identities=25%  Similarity=0.334  Sum_probs=153.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC--CCCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK--GTGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~--~~P~~v~~lvaG   80 (177)
                      +..++.+|+++|++++.|+++|..+|+.++.+++...++.|++++|.+++|+.+|+.+++.+..+.  ++||.|++|+||
T Consensus        27 ~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aahFtR~~La~~LRsr~~yqV~~LvaG  106 (200)
T KOG0177|consen   27 VLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAHFTRRELAESLRSRTPYQVNILVAG  106 (200)
T ss_pred             EecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHHHHHHHHHHHHhcCCCceEEEEEec
Confidence            356789999999999999999999999999999999999999999999999999999999998863  579999999999


Q ss_pred             EeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         81 WDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        81 ~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      ||+ .||.||++|-.|+..+.++.+.|.++.++.++|+++|+|+||.+||+++..+|+.++..|-...-.++.|.+|+||
T Consensus       107 Yd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lmkKCv~El~kRlvin~~~f~v~IVdkd  186 (200)
T KOG0177|consen  107 YDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLMKKCVLELKKRLVINLPGFIVKIVDKD  186 (200)
T ss_pred             cCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHhcccCCCCcEEEEEcCC
Confidence            997 6799999999999999999999999999999999999999999999999999999999998877788999999999


Q ss_pred             ceEE
Q psy11707        160 WNQG  163 (177)
Q Consensus       160 g~~~  163 (177)
                      |++.
T Consensus       187 Gir~  190 (200)
T KOG0177|consen  187 GIRK  190 (200)
T ss_pred             Ccee
Confidence            9874

>KOG0180|consensus

Probab=99.97  E-value=6.9e-31  Score=189.78  Aligned_cols=164  Identities=23%  Similarity=0.207  Sum_probs=157.4

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEeC-
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDK-   83 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d~-   83 (177)
                      +.+.+|||+|+|++++|.+|++.|.+++.++++...+.|+++.++.+.|+.+++++|..+|+.|.-||.+..++||+|+ 
T Consensus        36 stdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~~~s~mvS~~lYekRfgpYf~~PvVAGl~~~  115 (204)
T KOG0180|consen   36 STDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPETFSSMVSSLLYEKRFGPYFTEPVVAGLDDD  115 (204)
T ss_pred             eccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcHHHHHHHHHHHHHhhcCCcccceeEeccCCC
Confidence            5678999999999999999999999999999999999999999999999999999999999999999999999999997 


Q ss_pred             CCCeEEEEcCCCceee-eceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         84 RGPQLYYVDSDGQRIK-GNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        84 ~gp~ly~id~~G~~~~-~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++|+|...|..|.... .++++.|.+++.+.+.+|..|+|||..|++.+.+.++|..+.+||..+||...|.+|+||.+.
T Consensus       116 ~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~LFetisQa~Lna~DRDalSGwGa~vyiI~kdkv~  195 (204)
T KOG0180|consen  116 NKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDELFETISQALLNAVDRDALSGWGAVVYIITKDKVT  195 (204)
T ss_pred             CCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhHhhhhhhccCCeEEEEEccchhh
Confidence            5699999999999986 599999999999999999999999999999999999999999999999999999999999988


Q ss_pred             EEEecC
Q psy11707        163 GRFLGH  168 (177)
Q Consensus       163 ~~~l~~  168 (177)
                      ++.|+.
T Consensus       196 ~r~lK~  201 (204)
T KOG0180|consen  196 KRTLKG  201 (204)
T ss_pred             hhhhhh
Confidence            877764

>KOG0175|consensus

Probab=99.97  E-value=5.7e-31  Score=200.72  Aligned_cols=160  Identities=64%  Similarity=1.078  Sum_probs=156.6

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      |++.+++||.+||++.+-..+|-+||+++.-+.+..+|..|++++++.++|...+++|+++++.|+...+.+...|+|||
T Consensus        97 Iasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVsaASKllsN~~y~YkGmGLsmGtMi~G~D  176 (285)
T KOG0175|consen   97 IASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVSAASKLLSNMVYQYKGMGLSMGTMIAGWD  176 (285)
T ss_pred             eechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehHHHHHHHHHHHhhccCcchhheeeEeecc
Confidence            78899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ..||.||.||..|+-.+-+-.++|+|+.++.++|++.|++||+.+||.+|+++|+..+..||..+|+.+.++.|++||-.
T Consensus       177 k~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~eEA~~L~rrAI~hAThRDaySGG~vnlyHv~edGW~  256 (285)
T KOG0175|consen  177 KKGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDEEAYDLARRAIYHATHRDAYSGGVVNLYHVKEDGWV  256 (285)
T ss_pred             CCCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCCHHHHHHHHHHHHHHHHhcccccCceEEEEEECCccce
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999754

>KOG0173|consensus

Probab=99.97  E-value=1.4e-30  Score=198.09  Aligned_cols=168  Identities=26%  Similarity=0.397  Sum_probs=156.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      ++..+.+||+.|.++|+||-+|.++|...+.+.+-++...|++..++.+.|-..-+++.+.++.|... .++.+|++|+|
T Consensus        63 vaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R~~rVv~A~~mlkQ~LFrYqG~-IgA~LiiGGvD  141 (271)
T KOG0173|consen   63 VADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGRKPRVVTALRMLKQHLFRYQGH-IGAALILGGVD  141 (271)
T ss_pred             eecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCCCCceeeHHHHHHHHHHHhcCc-ccceeEEcccc
Confidence            56779999999999999999999999999999999999999999999999999999999999998877 89999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ..|||||.+.|.|+....+|.+.|+|+..+.+.||..|++||+.|||.+|+.+|+...+..|..||.++++|+|++.+.+
T Consensus       142 ~TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k~dlt~eea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~~~  221 (271)
T KOG0173|consen  142 PTGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWKPDLTKEEAIKLVCEAIAAGIFNDLGSGSNVDLCVITKKGVE  221 (271)
T ss_pred             CCCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcCcccCHHHHHHHHHHHHHhhhccccCCCCceeEEEEeCCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999976544


Q ss_pred             EEEecCCCCCC
Q psy11707        163 GRFLGHQKGPN  173 (177)
Q Consensus       163 ~~~l~~~~~~~  173 (177)
                        ++.+-..||
T Consensus       222 --~lr~~~~~~  230 (271)
T KOG0173|consen  222 --YLRNYSRPN  230 (271)
T ss_pred             --ccccCCCCC
Confidence              555444444

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.95  E-value=1.7e-26  Score=172.16  Aligned_cols=140  Identities=19%  Similarity=0.210  Sum_probs=121.4

Q ss_pred             CCCCccCceEEe-cCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC-CCCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEI-NDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK-GTGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i-~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~-~~P~~v~~lvaG   80 (177)
                      |++++.+||++| +++++|++||..+|+|.+.++++.+++.|+.  +.   ++.+++.+..+ ..+. ++|+.+++|++ 
T Consensus        27 v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~--~~---~~~~a~l~~~l-~~~~~~~~l~~~~lv~-   99 (172)
T PRK05456         27 VMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQG--NL---LRAAVELAKDW-RTDRYLRRLEAMLIVA-   99 (172)
T ss_pred             EEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccC--cc---HHHHHHHHHHH-HhccCCCccEEEEEEE-
Confidence            678899999999 9999999999999999999999999999882  21   46666555433 3333 36788999995 


Q ss_pred             EeCCCCeEEEEcCCCceeee--ceeEecCCcHHHHHHHHhcCC-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         81 WDKRGPQLYYVDSDGQRIKG--NVFSVGSGSVFAFGVLDTGYH-WNLTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~-~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                       |  .|+||.+|+.|+..+.  ++.++|+|+.++.++||++|+ ++|   ||++++++|++.+..||..+|++++|-.
T Consensus       100 -d--~~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---eA~~la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        100 -D--KEHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---SAEEIAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             -c--CCcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---CHHHHHHHHHHHHHHhCeeCCCcEEEEE
Confidence             3  3799999999999877  799999999999999999999 999   9999999999999999999999888754

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

Probab=99.95  E-value=2.5e-26  Score=170.30  Aligned_cols=140  Identities=17%  Similarity=0.170  Sum_probs=119.2

Q ss_pred             CCCCccCceEEecC-cEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCce-EEEEEEE
Q psy11707          3 SSSGSMKKIVEIND-YLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLS-MGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i~~-~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~-v~~lvaG   80 (177)
                      |++++.+||++|+| |++|+++|..+|++.+.++++.+++.|+.+.++     .+++.+. .+..++.+|+. +.+++++
T Consensus        26 v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~aa~l~~-~l~~~~~~~~l~a~~iv~~   99 (171)
T cd01913          26 VMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AAVELAK-DWRTDRYLRRLEAMLIVAD   99 (171)
T ss_pred             EEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HHHHHHH-HHHhccCcCceEEEEEEeC
Confidence            67889999999999 999999999999999999999999999988763     4454433 33334445554 7777764


Q ss_pred             EeCCCCeEEEEcCCCceeeec--eeEecCCcHHHHHHHHhcCCCC-CCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGN--VFSVGSGSVFAFGVLDTGYHWN-LTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~--~~a~G~gs~~~~~~Le~~~~~~-~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      +    ++||.+||.|...+++  +.++|+|++++.++||.+|+++ ||   +.+++.+|++.+.+||..+|++|+|-.
T Consensus       100 ~----~~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms---~~~la~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         100 K----EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLS---AEEIARKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             C----CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC---HHHHHHHHHHHHHhhCcccCCCEEEEe
Confidence            4    3999999999999984  9999999999999999999995 99   559999999999999999999888754

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.

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

Probab=99.94  E-value=1.2e-25  Score=164.65  Aligned_cols=134  Identities=34%  Similarity=0.429  Sum_probs=130.2

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC-CCceEEEEEEEEeC
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG-TGLSMGMMIAGWDK   83 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~-~P~~v~~lvaG~d~   83 (177)
                      .....|+++++++++++++|..+|++.+.++++.+++.|++.++.++++..+++.+++.++.+++ +|+++++|++|+|+
T Consensus        28 ~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~iiag~~~  107 (164)
T cd01901          28 GSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDE  107 (164)
T ss_pred             CCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCcceEEEEEEEcC
Confidence            56789999999999999999999999999999999999999999999999999999999999998 99999999999998


Q ss_pred             CCCeEEEEcCCCceeee-ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHH
Q psy11707         84 RGPQLYYVDSDGQRIKG-NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIY  138 (177)
Q Consensus        84 ~gp~ly~id~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~  138 (177)
                      ++|+||.+||+|.+.++ +++++|.++..+.++|++.|+++|+.+++++++.+||.
T Consensus       108 ~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~  163 (164)
T cd01901         108 GGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALK  163 (164)
T ss_pred             CCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            88999999999999999 99999999999999999999999999999999999985

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

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.94  E-value=1.4e-25  Score=166.37  Aligned_cols=140  Identities=19%  Similarity=0.201  Sum_probs=118.8

Q ss_pred             CCCCccCceEEe-cCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCC-ceEEEEEEE
Q psy11707          3 SSSGSMKKIVEI-NDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTG-LSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i-~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P-~~v~~lvaG   80 (177)
                      |++++.+||++| +||++|+++|..+|++.+.++++.+++.|+...     .+.+++.++. ++.++.+| +.+.++++|
T Consensus        26 v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~a~l~~~-~~~~~~~~~l~a~~iv~~   99 (171)
T TIGR03692        26 VMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEYQGNL-----TRAAVELAKD-WRTDRYLRRLEAMLIVAD   99 (171)
T ss_pred             EEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHHHHHHHHccCch-----HHHHHHHHHH-HhhcccccccEEEEEEEc
Confidence            678899999999 599999999999999999999999999987643     3666777665 32333333 447777764


Q ss_pred             EeCCCCeEEEEcCCCceeee--ceeEecCCcHHHHHHHHhcC-CCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         81 WDKRGPQLYYVDSDGQRIKG--NVFSVGSGSVFAFGVLDTGY-HWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~--~~~a~G~gs~~~~~~Le~~~-~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      |    ++||.+||.|.+.++  ++.++|+||.++.++||..| +++|+   |++++.+++..+.+||..+|++++|-.
T Consensus       100 ~----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s---a~~la~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       100 K----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS---AEEIAREALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             C----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC---HHHHHHHHHHHHHhhCccCCCCEEEEe
Confidence            4    499999999999996  69999999999999999999 57777   999999999999999999999998764

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

>KOG0185|consensus

Probab=99.93  E-value=3.7e-25  Score=167.05  Aligned_cols=168  Identities=23%  Similarity=0.270  Sum_probs=150.8

Q ss_pred             CccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHH-HhcCCCCCHHHHHHHHHHHHHhcCC--CCceEEEEEEEEe
Q psy11707          6 GSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYE-LRNGERISVAAASKLMCNMAYNYKG--TGLSMGMMIAGWD   82 (177)
Q Consensus         6 ~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~-~~~~~~~~~~~la~~i~~~~~~~~~--~P~~v~~lvaG~d   82 (177)
                      +++++|++|+||+.+|+||..+|+|.+.+.+.+...... +..+..+.|+.+.++|.+.+|..|.  .|+...+++||+|
T Consensus        70 ~nVeRi~kVgdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvlY~rRsKmnPlwntlvVgGv~  149 (256)
T KOG0185|consen   70 KNVERIFKVGDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVLYARRSKMNPLWNTLVVGGVD  149 (256)
T ss_pred             cCceeeEEecCceEEecCccHHHHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHHHHhhhccCchhhheeEeeec
Confidence            478999999999999999999999999999988776643 5556899999999999999999875  6999999999999


Q ss_pred             C-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC---CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         83 K-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH---WNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~---~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      . ..|.|-.+|..|..++.+..|+|.|..++.++|++.|.   ++++.+||..++.+|++....||+.+..+++|++|++
T Consensus       150 ~~g~~~lg~V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~  229 (256)
T KOG0185|consen  150 NTGEPFLGYVDLLGVAYESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDE  229 (256)
T ss_pred             CCCCeeEEEEeeccccccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEcc
Confidence            8 55999999999999999999999999999999999997   5899999999999999999999999999999999999


Q ss_pred             CceEEEEecCCCCCCC
Q psy11707        159 QWNQGRFLGHQKGPNS  174 (177)
Q Consensus       159 dg~~~~~l~~~~~~~~  174 (177)
                      +|+.. .-|.+..-||
T Consensus       230 eGv~i-~~p~qv~~~W  244 (256)
T KOG0185|consen  230 EGVTI-SKPYQVKTNW  244 (256)
T ss_pred             cceEe-cCceeeeecc
Confidence            98764 3444444444

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

Probab=98.98  E-value=2.2e-09  Score=77.70  Aligned_cols=140  Identities=18%  Similarity=0.222  Sum_probs=98.7

Q ss_pred             CCccCceEEecC-cEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEeC
Q psy11707          5 SGSMKKIVEIND-YLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDK   83 (177)
Q Consensus         5 ~~~~~ki~~i~~-~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d~   83 (177)
                      ..+..|+.+|.+ ++..||+|.++|+.+|.+.+..+++.|.  .+..-.+-.+++-+++-.+..+   +..-+|++    
T Consensus        32 K~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~--g~L~raavelaKdwr~Dk~lr~---LEAmllVa----  102 (178)
T COG5405          32 KGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQ--GDLFRAAVELAKDWRTDKYLRK---LEAMLLVA----  102 (178)
T ss_pred             eccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHcc--CcHHHHHHHHHHhhhhhhHHHH---HhhheeEe----
Confidence            345555655555 8999999999999999999998888775  1111134445554443333322   55667777    


Q ss_pred             CCCeEEEEcCCCceeee--ceeEecCCcHHHHHHHHhcCC-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         84 RGPQLYYVDSDGQRIKG--NVFSVGSGSVFAFGVLDTGYH-WNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        84 ~gp~ly~id~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~-~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +.-+++-+...|...+.  +..|+|+|..++.+.....+. +++|.+   +++.++|..+.+-+..+++++.|-.+
T Consensus       103 d~~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~lsA~---eIa~~sl~iA~eiciyTN~ni~ve~l  175 (178)
T COG5405         103 DKTHILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELSAR---EIAEKSLKIAGDICIYTNHNIVVEEL  175 (178)
T ss_pred             CCCcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCCHH---HHHHHHHhhhheEEEecCCcEEEEEe
Confidence            44689999999999975  689999999999998888775 366654   77888888887655555555555443

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

Probab=98.83  E-value=9.3e-08  Score=71.84  Aligned_cols=144  Identities=17%  Similarity=0.134  Sum_probs=115.3

Q ss_pred             EEEEEcCChhhHHHHHHHHHHHHHHHHH-hcCCCCCHHHHHHHHHHHHHhc--CCC--------CceEEEEEEEEeCCC-
Q psy11707         18 LLGTLAGGAADCVYWDRVLAKQCRLYEL-RNGERISVAAASKLMCNMAYNY--KGT--------GLSMGMMIAGWDKRG-   85 (177)
Q Consensus        18 i~~~~sG~~aD~~~l~~~~~~~~~~~~~-~~~~~~~~~~la~~i~~~~~~~--~~~--------P~~v~~lvaG~d~~g-   85 (177)
                      ++++.+|..|-.|.+++.+....+.... .-..-+++-..+..+.....+-  +.+        -|.|++|++|.=.++ 
T Consensus        45 lvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~p  124 (255)
T COG3484          45 LVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPSMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEP  124 (255)
T ss_pred             EEEEecCccHHHHHHHHHHHHHhhccchhhhhcchhHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCC
Confidence            5678999999999999999877752211 1122346666677777665542  112        489999999997654 


Q ss_pred             CeEEEEcCCCceeee----ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         86 PQLYYVDSDGQRIKG----NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        86 p~ly~id~~G~~~~~----~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      |.||.|-|-|++++-    ++.-+|.. .+-+++|++.+.-+++++|+.++++-.+...+..+...|-.+++.++.+|..
T Consensus       125 p~Ly~IYpqGNFIqaT~etpf~QiGEt-KYGKPildR~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds~  203 (255)
T COG3484         125 PRLYLIYPQGNFIQATPETPFLQIGET-KYGKPILDRTITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADSF  203 (255)
T ss_pred             ceeEEEccCCCeeecCCCCceeEcccc-ccCchhhhhhhhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccce
Confidence            899999999999974    88899854 5788999999999999999999999999999999998999999999999844


Q ss_pred             E
Q psy11707        162 Q  162 (177)
Q Consensus       162 ~  162 (177)
                      +
T Consensus       204 ~  204 (255)
T COG3484         204 S  204 (255)
T ss_pred             e
Confidence            3

>KOG3361|consensus

Probab=91.67  E-value=0.28  Score=34.84  Aligned_cols=44  Identities=27%  Similarity=0.259  Sum_probs=39.9

Q ss_pred             EEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHH
Q psy11707         89 YYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQL  132 (177)
Q Consensus        89 y~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l  132 (177)
                      ..+|-+|.+...+|-..|.||..+.+.+-..|-..++.+|+.++
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~kI  114 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALKI  114 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHhc
Confidence            56888999999999999999999999999999999999998753

>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=91.40  E-value=1  Score=34.06  Aligned_cols=50  Identities=6%  Similarity=-0.041  Sum_probs=43.7

Q ss_pred             HHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707        110 VFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus       110 ~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      +.+...|.++|++.|+.+++..+..++|..+....+..+..+++...++.
T Consensus       131 ~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~  180 (194)
T PF09894_consen  131 EIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKK  180 (194)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEeccc
Confidence            56778899999999999999999999999998777777788998888765

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	177
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		3e-58
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		1e-57
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		5e-51
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		2e-47
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		5e-47
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		5e-47
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		1e-46
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		8e-17
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		1e-14
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		5e-14
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		5e-14
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		6e-14
3unb_N	205	Mouse Constitutive 20s Proteasome In Complex With P		2e-12
1iru_H	205	Crystal Structure Of The Mammalian 20s Proteasome A		3e-12
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		1e-10
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		1e-10
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		1e-10
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		3e-10
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		2e-09
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		2e-09
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		2e-09
3unf_N	199	Mouse 20s Immunoproteasome In Complex With Pr-957 L		2e-08
1iru_K	201	Crystal Structure Of The Mammalian 20s Proteasome A		2e-08
3unb_J	201	Mouse Constitutive 20s Proteasome In Complex With P		3e-08
3nzj_N	215	Crystal Structure Of Yeast 20s Proteasome In Comple		2e-07
1vsy_H	196	Proteasome Activator Complex Length = 196		2e-07
1g65_N	196	Crystal Structure Of Epoxomicin:20s Proteasome Reve		2e-07
1ryp_H	205	Crystal Structure Of The 20s Proteasome From Yeast		2e-07
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		7e-07
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		8e-07
1ryp_K	198	Crystal Structure Of The 20s Proteasome From Yeast		8e-06
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		2e-05
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		2e-05
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		2e-05
1vsy_E	250	Proteasome Activator Complex Length = 250		2e-05
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		2e-05
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		4e-05
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		4e-05
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		4e-05
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		5e-05
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		5e-05
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		5e-05
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		5e-05
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		5e-05
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		5e-05
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		6e-05
3unb_I	205	Mouse Constitutive 20s Proteasome In Complex With P		2e-04
1q5q_H	235	The Rhodococcus 20s Proteasome Length = 235		3e-04
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		3e-04
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		4e-04
1q5r_H	294	The Rhodococcus 20s Proteasome With Unprocessed Pro		8e-04

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

Iteration: 1
 Score =  220 bits (561), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 102/148 (68%), Positives = 124/148 (83%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 27  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 86
Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct: 87  VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAYGVMDRGYSYD 146
Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L  EEA+ LAR++IY ATYRD  SGG +
Sbjct: 147 LKVEEAYDLARRAIYQATYRDAYSGGAV 174

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

Iteration: 1
 Score =  218 bits (556), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 101/148 (68%), Positives = 124/148 (83%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 27  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 86
Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct: 87  VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 146
Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L  E+A+ LAR++IY ATYRD  SGG +
Sbjct: 147 LEVEQAYDLARRAIYQATYRDAYSGGAV 174

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

Iteration: 1
 Score =  196 bits (498), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 91/148 (61%), Positives = 119/148 (80%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           SS  M K++EIN YLLGT++G AADC YW+R+LAK+CRLY LRNGERISV+AASKL+ NM
Sbjct: 27  SSLRMNKVIEINPYLLGTMSGCAADCQYWERLLAKECRLYYLRNGERISVSAASKLLSNM 86
Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
              Y+G GLSMG MI GWDK+GP LYYVD +G R+ G +FS GSG+ +A+GV+D+GY  +
Sbjct: 87  MLQYRGMGLSMGSMICGWDKKGPGLYYVDDNGTRLSGQMFSTGSGNTYAYGVMDSGYRQD 146
Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLI 151
           L+ EEA+ L R++I +AT+RD  SGG++
Sbjct: 147 LSPEEAYDLGRRAIAYATHRDNYSGGVV 174

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

Iteration: 1
 Score =  184 bits (467), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 87/149 (58%), Positives = 114/149 (76%), Gaps = 1/149 (0%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN +LLGT+AGGAADC +W+  L  QCRL+ELR  ERISVAAASK++ N+
Sbjct: 102 ASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNL 161
Query: 64  AYNYKGTGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y YKG GLSMG MI G+  K GP +YYVDSDG R+KG++F VGSG  FA+GVLD+ Y W
Sbjct: 162 VYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW 221
Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLI 151
           +L+ E+A  L ++SI  A +RD  SGG +
Sbjct: 222 DLSVEDALYLGKRSILAAAHRDAYSGGSV 250

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

Iteration: 1
 Score =  183 bits (464), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 86/149 (57%), Positives = 114/149 (76%), Gaps = 1/149 (0%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++K+++EIN +LLGT+AGGAADC +W+  L  QCRL+ELR  ERISVAAASK++ N+
Sbjct: 102 ASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNL 161
Query: 64  AYNYKGTGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y YKG GLSMG MI G+  K GP +YYVDSDG R+KG++F VGSG  FA+GVLD+ Y W
Sbjct: 162 VYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW 221
Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLI 151
           +L+ E+A  L ++SI  A +RD  SGG +
Sbjct: 222 DLSVEDALYLGKRSILAAAHRDAYSGGSV 250

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

Iteration: 1
 Score =  183 bits (464), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 87/149 (58%), Positives = 114/149 (76%), Gaps = 1/149 (0%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN +LLGT+AGGAADC +W+  L  QCRL+ELR  ERISVAAASK++ N+
Sbjct: 27  ASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNL 86
Query: 64  AYNYKGTGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y YKG GLSMG MI G+  K GP +YYVDSDG R+KG++F VGSG  FA+GVLD+ Y W
Sbjct: 87  VYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW 146
Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLI 151
           +L+ E+A  L ++SI  A +RD  SGG +
Sbjct: 147 DLSVEDALYLGKRSILAAAHRDAYSGGSV 175

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

Iteration: 1
 Score =  182 bits (461), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 86/149 (57%), Positives = 114/149 (76%), Gaps = 1/149 (0%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++K+++EIN +LLGT+AGGAADC +W+  L  QCRL+ELR  ERISVAAASK++ N+
Sbjct: 27  ASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNL 86
Query: 64  AYNYKGTGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y YKG GLSMG MI G+  K GP +YYVDSDG R+KG++F VGSG  FA+GVLD+ Y W
Sbjct: 87  VYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW 146
Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLI 151
           +L+ E+A  L ++SI  A +RD  SGG +
Sbjct: 147 DLSVEDALYLGKRSILAAAHRDAYSGGSV 175

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

Iteration: 1
 Score = 82.8 bits (203), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 48/146 (32%), Positives = 81/146 (55%), Gaps = 1/146 (0%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S + KKI +I D +  T AG   D  +  R++  +  LYE+R   + +V A + L  N+
Sbjct: 27  ASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNL 86
Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRI-KGNVFSVGSGSVFAFGVLDTGYHW 122
             +Y+     + ++I G D  G  +Y +D  G  I + ++ + GSGS+ A+GVL+  +  
Sbjct: 87  LNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTP 146
Query: 123 NLTDEEAHQLARKSIYHATYRDFASG 148
            +  +EA +LA ++IY A  RD ASG
Sbjct: 147 EIGVDEAVELAVRAIYSAMKRDSASG 172

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

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 78/142 (54%), Gaps = 2/142 (1%)
Query: 9   KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK 68
           KK+ +I+DY+  T+AG   D     R+L  + +LY++R G  I   A + L+ N+ ++ +
Sbjct: 33  KKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACATLLSNILHSSR 92
Query: 69  GTGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFS-VGSGSVFAFGVLDTGYHWNLTD 126
                  ++I G+D   G +L+ +D  G   +   F+  GSGS  A+GVL+ GY  +++ 
Sbjct: 93  MFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSV 152
Query: 127 EEAHQLARKSIYHATYRDFASG 148
           EE  +LA  ++  A  RD  SG
Sbjct: 153 EEGIKLALNALKSAMERDTFSG 174

>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 = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 44/143 (30%), Positives = 73/143 (51%), Gaps = 1/143 (0%)
Query: 9   KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK 68
           KK+ +I+ Y   T+AG   D     R +  +  LY L+    + + A + L+ NM    K
Sbjct: 40  KKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVK 99
Query: 69  GTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
                + +++ G D   P ++ +D+ G  ++    S GSGS F +GVL++ Y   +T +E
Sbjct: 100 YMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDE 158
Query: 129 AHQLARKSIYHATYRDFASGGLI 151
              L  ++I  A  RD ASGG+I
Sbjct: 159 GVDLVIRAISAAKQRDSASGGMI 181

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

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 44/143 (30%), Positives = 73/143 (51%), Gaps = 1/143 (0%)
Query: 9   KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK 68
           KK+ +I+ Y   T+AG   D     R +  +  LY L+    + + A + L+ NM    K
Sbjct: 40  KKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVK 99
Query: 69  GTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
                + +++ G D   P ++ +D+ G  ++    S GSGS F +GVL++ Y   +T +E
Sbjct: 100 YMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDE 158
Query: 129 AHQLARKSIYHATYRDFASGGLI 151
              L  ++I  A  RD ASGG+I
Sbjct: 159 GVDLVIRAISAAKQRDSASGGMI 181

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

Iteration: 1
 Score = 73.6 bits (179), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 44/143 (30%), Positives = 73/143 (51%), Gaps = 1/143 (0%)
Query: 9   KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK 68
           KK+ +I+ Y   T+AG   D     R +  +  LY L+    + + A + L+ NM    K
Sbjct: 32  KKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVK 91
Query: 69  GTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
                + +++ G D   P ++ +D+ G  ++    S GSGS F +GVL++ Y   +T +E
Sbjct: 92  YMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDE 150
Query: 129 AHQLARKSIYHATYRDFASGGLI 151
              L  ++I  A  RD ASGG+I
Sbjct: 151 GVDLVIRAISAAKQRDSASGGMI 173

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/144 (31%), Positives = 71/144 (49%), Gaps = 2/144 (1%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
           K+  I+D++    +G AAD       +  Q   + +   E   V  A+ L   M Y Y+ 
Sbjct: 33  KLTPIHDHIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYR- 91
Query: 70  TGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
             L  G++IAGWD + G Q+Y V   G  ++ +    GSGS + +G +D  Y   +T +E
Sbjct: 92  EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDE 151
Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
             Q    ++  A  RD +SGG+IR
Sbjct: 152 CLQFTANALALAMERDGSSGGVIR 175

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

Iteration: 1
 Score = 67.8 bits (164), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 46/144 (31%), Positives = 70/144 (48%), Gaps = 2/144 (1%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
           K+  I+D +    +G AAD       +  Q   + +   E   V  A+ L   M Y Y+ 
Sbjct: 33  KLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYR- 91
Query: 70  TGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
             L  G++IAGWD + G Q+Y V   G  ++ +    GSGS + +G +D  Y   +T EE
Sbjct: 92  EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEE 151
Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
             Q    ++  A  RD +SGG+IR
Sbjct: 152 CLQFTANALALAMERDGSSGGVIR 175

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

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 42/142 (29%), Positives = 71/142 (50%), Gaps = 12/142 (8%)
Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLMCN 62
           S++KI +I+D++    +G  AD     RVL  + RL    Y L  GE IS+   +K +C+
Sbjct: 67  SIEKIFQIDDHVAAATSGLVADA----RVLIDRARLEAQIYRLTYGEEISIEMLAKKICD 122
Query: 63  MAYNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
           +   Y   G      + ++IAG DK   +L+  D  G  I+    ++GSG      +L+ 
Sbjct: 123 IKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEK 182
Query: 119 GYHWNLTDEEAHQLARKSIYHA 140
            Y  ++T +E  +LA  ++  A
Sbjct: 183 EYRDDITLDEGLELAITALTKA 204

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

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 44/162 (27%), Positives = 74/162 (45%), Gaps = 5/162 (3%)
Query: 12  VEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTG 71
           +  N Y  G  AG AAD     ++++    L+ L  G    V  A++++  M + Y+G  
Sbjct: 37  ISPNIYCCG--AGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGY- 93
Query: 72  LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQ 131
           +   +++ G D  GP LY +   G   K    ++GSGS+ A  V +  +  ++ +EEA  
Sbjct: 94  IGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKN 153
Query: 132 LARKSIYHATYRDFASGGLIRGNASGQQWNQGRFLGHQKGPN 173
           L  ++I    + D  SG  I  +      N+  FL     PN
Sbjct: 154 LVSEAIAAGIFNDLGSGSNI--DLCVISKNKLDFLRPYTVPN 193

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

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 38/137 (27%), Positives = 67/137 (48%), Gaps = 3/137 (2%)
Query: 12  VEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTG 71
           +  N Y  G  AG AAD     ++++    L+ L  G    V  A++++  M + Y+G  
Sbjct: 37  ISPNIYCCG--AGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQMLFRYQGY- 93
Query: 72  LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQ 131
           +   +++ G D  GP LY +   G   K    ++GSGS+ A  V +  +  ++ +EEA +
Sbjct: 94  IGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKK 153
Query: 132 LARKSIYHATYRDFASG 148
           L  ++I    + D  SG
Sbjct: 154 LVSEAIAAGIFNDLGSG 170

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

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/127 (29%), Positives = 61/127 (48%), Gaps = 1/127 (0%)
Query: 23  AGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD 82
           AG AAD     R+ A +  L+ L  G    VA  ++++    + Y+G  +   +++ G D
Sbjct: 46  AGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRYQG-HVGASLVVGGVD 104
Query: 83  KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATY 142
             GPQLY V   G   +    ++GSG   A  +L+  +  N+T E A +L  ++I     
Sbjct: 105 LNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGIL 164
Query: 143 RDFASGG 149
            D  SGG
Sbjct: 165 SDLGSGG 171

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/126 (29%), Positives = 63/126 (50%), Gaps = 1/126 (0%)
Query: 23  AGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD 82
           AG AAD     +++     L+ L       V +A +++    + Y+G  +   +++AG D
Sbjct: 75  AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG-HIGAYLIVAGVD 133
Query: 83  KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATY 142
             G  L+ + + G    G   S+GSGS+ A  VL++ +  +LT EEA +LA  +I    +
Sbjct: 134 PTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIW 193
Query: 143 RDFASG 148
            D  SG
Sbjct: 194 NDLGSG 199

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/126 (29%), Positives = 63/126 (50%), Gaps = 1/126 (0%)
Query: 23  AGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD 82
           AG AAD     +++     L+ L       V +A +++    + Y+G  +   +++AG D
Sbjct: 46  AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG-HIGAYLIVAGVD 104
Query: 83  KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATY 142
             G  L+ + + G    G   S+GSGS+ A  VL++ +  +LT EEA +LA  +I    +
Sbjct: 105 PTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIW 164
Query: 143 RDFASG 148
            D  SG
Sbjct: 165 NDLGSG 170

>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 = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/126 (29%), Positives = 63/126 (50%), Gaps = 1/126 (0%)
Query: 23  AGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD 82
           AG AAD     +++     L+ L       V +A +++    + Y+G  +   +++AG D
Sbjct: 46  AGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG-HIGAYLIVAGVD 104
Query: 83  KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATY 142
             G  L+ + + G    G   S+GSGS+ A  VL++ +  +LT EEA +LA  +I    +
Sbjct: 105 PTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIW 164
Query: 143 RDFASG 148
            D  SG
Sbjct: 165 NDLGSG 170

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/142 (30%), Positives = 71/142 (50%), Gaps = 1/142 (0%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
           K+  ++  +   L+G AAD      + A Q  L+ L   E   V AA+ ++ N++Y Y+ 
Sbjct: 33  KLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKYRE 92
Query: 70  TGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEA 129
             L+  +++AGWD+R     Y    G  I+      GSGS + +G +D  Y   +T EE 
Sbjct: 93  DLLAH-LIVAGWDQREGGQVYGTMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEEC 151
Query: 130 HQLARKSIYHATYRDFASGGLI 151
            +    +I  A  RD +SGG+I
Sbjct: 152 RRFTTNAITLAMNRDGSSGGVI 173

>pdb|1IRU|K Chain K, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 201

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 67/131 (51%), Gaps = 3/131 (2%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLM-CNMAYNYK 68
           K+ ++++ +L    G A D V +   + K  +LY++RNG  +S  AA+     N+A   +
Sbjct: 34  KMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLR 93
Query: 69  G-TGLSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTD 126
             T   + +++AG+D+  GP LYY+D      K    + G G+     +LD  Y   ++ 
Sbjct: 94  SRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISR 153
Query: 127 EEAHQLARKSI 137
           E A +L RK +
Sbjct: 154 ERAVELLRKCL 164

>pdb|3UNB|J Chain J, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 201

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 67/131 (51%), Gaps = 3/131 (2%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLM-CNMAYNYK 68
           K+ ++++ +L    G A D V +   + K  +LY++RNG  +S  AA+     N+A   +
Sbjct: 34  KMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLR 93
Query: 69  G-TGLSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTD 126
             T   + +++AG+D+  GP LYY+D      K    + G G+     +LD  Y   ++ 
Sbjct: 94  SRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISR 153
Query: 127 EEAHQLARKSI 137
           E A +L RK +
Sbjct: 154 ERAVELLRKCL 164

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 3/144 (2%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
           K+  ++D +    +G AAD      ++     LY  + G   +  AAS +   + Y  K 
Sbjct: 52  KLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTETAAS-VFKELCYENKD 110
Query: 70  TGLSMGMMIAGWDKRGP-QLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
             L+ G+++AG+D +   ++Y +   G   K      GSGS F +G  D  +  N++ EE
Sbjct: 111 -NLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEE 169
Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
                + S+  A   D +SGG+IR
Sbjct: 170 TVDFIKHSLSQAIKWDGSSGGVIR 193

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 3/144 (2%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
           K+  ++D +    +G AAD      ++     LY  + G   +  AAS +   + Y  K 
Sbjct: 33  KLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTETAAS-VFKELCYENKD 91
Query: 70  TGLSMGMMIAGWDKRGP-QLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
             L+ G+++AG+D +   ++Y +   G   K      GSGS F +G  D  +  N++ EE
Sbjct: 92  -NLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEE 150
Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
                + S+  A   D +SGG+IR
Sbjct: 151 TVDFIKHSLSQAIKWDGSSGGVIR 174

>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 = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 3/144 (2%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
           K+  ++D +    +G AAD      ++     LY  + G   +  AAS +   + Y  K 
Sbjct: 33  KLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTETAAS-VFKELCYENKD 91
Query: 70  TGLSMGMMIAGWDKRGP-QLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
             L+ G+++AG+D +   ++Y +   G   K      GSGS F +G  D  +  N++ EE
Sbjct: 92  -NLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEE 150
Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
                + S+  A   D +SGG+IR
Sbjct: 151 TVDFIKHSLSQAIKWDGSSGGVIR 174

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 3/144 (2%)
Query: 10  KIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG 69
           K+  ++D +    +G AAD      ++     LY  + G   +  AAS +   + Y  K 
Sbjct: 42  KLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTETAAS-VFKELCYENKD 100
Query: 70  TGLSMGMMIAGWDKRGP-QLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEE 128
             L+ G+++AG+D +   ++Y +   G   K      GSGS F +G  D  +  N++ EE
Sbjct: 101 -NLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEE 159
Query: 129 AHQLARKSIYHATYRDFASGGLIR 152
                + S+  A   D +SGG+IR
Sbjct: 160 TVDFIKHSLSQAIKWDGSSGGVIR 183

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 70/137 (51%), Gaps = 19/137 (13%)
Query: 7   SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-----GERISVAAASKLMC 61
           S++KIVEI+ ++   ++G  AD     + L  + R+ E +N      E ++V + ++ + 
Sbjct: 63  SIEKIVEIDAHIGCAMSGLIADA----KTLIDKARV-ETQNHWFTYNETMTVESVTQAVS 117
Query: 62  NMAYNY---------KGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFA 112
           N+A  +               + ++  G D++GPQL+++D  G  ++ +  ++GS S  A
Sbjct: 118 NLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGA 177
Query: 113 FGVLDTGYHWNLTDEEA 129
              L   YH ++T +EA
Sbjct: 178 QSSLQEVYHKSMTLKEA 194

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 35/139 (25%), Positives = 70/139 (50%), Gaps = 19/139 (13%)
Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-----GERISVAAASKL 59
             S++KIVEI+ ++   ++G  AD     + L  + R+ E +N      E ++V + ++ 
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADA----KTLIDKARV-ETQNHWFTYNETMTVESVTQA 115
Query: 60  MCNMAYNY---------KGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSV 110
           + N+A  +               + ++  G D++GPQL+++D  G  ++ +  ++GS S 
Sbjct: 116 VSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASE 175
Query: 111 FAFGVLDTGYHWNLTDEEA 129
            A   L   YH ++T +EA
Sbjct: 176 GAQSSLQELYHKSMTLKEA 194

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 34/138 (24%), Positives = 65/138 (47%), Gaps = 4/138 (2%)
Query: 1   MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLM 60
           +S    S  K  +++ + L + AG A D V +   +    +LY +R    +S  A S  +
Sbjct: 25  ISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFV 84
Query: 61  -CNMAYNYKGT-GLSMGMMIAGWDKRG--PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVL 116
              +A + +      + ++I G+DK+   P+LY +D  G +++    + G    + F +L
Sbjct: 85  RQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLL 144
Query: 117 DTGYHWNLTDEEAHQLAR 134
           D  Y  ++T EE   L +
Sbjct: 145 DHHYRPDMTTEEGLDLLK 162

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 44/147 (29%), Positives = 72/147 (48%), Gaps = 19/147 (12%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLYELRNGERISVAAASKLM 60
            S S++KIVEI+ ++   ++G  AD    +   R  A    LY     E I+V + ++ +
Sbjct: 62  ESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLY---YDEDINVESLTQSV 118
Query: 61  CNMAYNYKGTGLS-----------MGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSG 108
           C++A  + G G S           + ++IAG D   G QL++ +  G   + N  ++GSG
Sbjct: 119 CDLALRF-GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSG 177
Query: 109 SVFAFGVLDTGYHWNLTDEEAHQLARK 135
           S  A   L   +H +LT +EA  L  K
Sbjct: 178 SEGAQAELLNEWHSSLTLKEAELLVLK 204

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 44/147 (29%), Positives = 72/147 (48%), Gaps = 19/147 (12%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLYELRNGERISVAAASKLM 60
            S S++KIVEI+ ++   ++G  AD    +   R  A    LY     E I+V + ++ +
Sbjct: 52  ESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLY---YDEDINVESLTQSV 108
Query: 61  CNMAYNYKGTGLS-----------MGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSG 108
           C++A  + G G S           + ++IAG D   G QL++ +  G   + N  ++GSG
Sbjct: 109 CDLALRF-GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSG 167
Query: 109 SVFAFGVLDTGYHWNLTDEEAHQLARK 135
           S  A   L   +H +LT +EA  L  K
Sbjct: 168 SEGAQAELLNEWHSSLTLKEAELLVLK 194

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 44/147 (29%), Positives = 72/147 (48%), Gaps = 19/147 (12%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLYELRNGERISVAAASKLM 60
            S S++KIVEI+ ++   ++G  AD    +   R  A    LY     E I+V + ++ +
Sbjct: 61  ESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLY---YDEDINVESLTQSV 117
Query: 61  CNMAYNYKGTGLS-----------MGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSG 108
           C++A  + G G S           + ++IAG D   G QL++ +  G   + N  ++GSG
Sbjct: 118 CDLALRF-GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSG 176
Query: 109 SVFAFGVLDTGYHWNLTDEEAHQLARK 135
           S  A   L   +H +LT +EA  L  K
Sbjct: 177 SEGAQAELLNEWHSSLTLKEAELLVLK 203

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 44/147 (29%), Positives = 72/147 (48%), Gaps = 19/147 (12%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLYELRNGERISVAAASKLM 60
            S S++KIVEI+ ++   ++G  AD    +   R  A    LY     E I+V + ++ +
Sbjct: 60  ESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLY---YDEDINVESLTQSV 116
Query: 61  CNMAYNYKGTGLS-----------MGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSG 108
           C++A  + G G S           + ++IAG D   G QL++ +  G   + N  ++GSG
Sbjct: 117 CDLALRF-GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSG 175
Query: 109 SVFAFGVLDTGYHWNLTDEEAHQLARK 135
           S  A   L   +H +LT +EA  L  K
Sbjct: 176 SEGAQAELLNEWHSSLTLKEAELLVLK 202

>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 = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 44/147 (29%), Positives = 72/147 (48%), Gaps = 19/147 (12%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLYELRNGERISVAAASKLM 60
            S S++KIVEI+ ++   ++G  AD    +   R  A    LY     E I+V + ++ +
Sbjct: 60  ESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLY---YDEDINVESLTQSV 116
Query: 61  CNMAYNYKGTGLS-----------MGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSG 108
           C++A  + G G S           + ++IAG D   G QL++ +  G   + N  ++GSG
Sbjct: 117 CDLALRF-GEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSG 175
Query: 109 SVFAFGVLDTGYHWNLTDEEAHQLARK 135
           S  A   L   +H +LT +EA  L  K
Sbjct: 176 SEGAQAELLNEWHSSLTLKEAELLVLK 202

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 8/137 (5%)
Query: 7   SMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLY--ELRNGERISVAAASKLMC 61
           S++KI  I+DY+    +G  AD    V + R+ A+Q ++    L N E +    A ++  
Sbjct: 67  SIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQ 126
Query: 62  NMAYN-YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
              Y   +  G+S+  + AG D+ GP+L+  D  G   +    ++GSG       L+  Y
Sbjct: 127 YTQYGGVRPYGVSL--IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREY 184
Query: 121 HWNLTDEEAHQLARKSI 137
             NL ++EA  L  K++
Sbjct: 185 KENLPEKEAVTLGIKAL 201

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 8/137 (5%)
Query: 7   SMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLY--ELRNGERISVAAASKLMC 61
           S++KI  I+DY+    +G  AD    V + R+ A+Q ++    L N E +    A ++  
Sbjct: 63  SIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQ 122
Query: 62  NMAYN-YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
              Y   +  G+S+  + AG D+ GP+L+  D  G   +    ++GSG       L+  Y
Sbjct: 123 YTQYGGVRPYGVSL--IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREY 180
Query: 121 HWNLTDEEAHQLARKSI 137
             NL ++EA  L  K++
Sbjct: 181 KENLPEKEAVTLGIKAL 197

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 8/137 (5%)
Query: 7   SMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLY--ELRNGERISVAAASKLMC 61
           S++KI  I+DY+    +G  AD    V + R+ A+Q ++    L N E +    A ++  
Sbjct: 67  SIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQ 126
Query: 62  NMAYN-YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
              Y   +  G+S+  + AG D+ GP+L+  D  G   +    ++GSG       L+  Y
Sbjct: 127 YTQYGGVRPYGVSL--IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREY 184
Query: 121 HWNLTDEEAHQLARKSI 137
             NL ++EA  L  K++
Sbjct: 185 KENLPEKEAVTLGIKAL 201

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 8/137 (5%)
Query: 7   SMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLY--ELRNGERISVAAASKLMC 61
           S++KI  I+DY+    +G  AD    V + R+ A+Q ++    L N E +    A ++  
Sbjct: 63  SIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQ 122
Query: 62  NMAYN-YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
              Y   +  G+S+  + AG D+ GP+L+  D  G   +    ++GSG       L+  Y
Sbjct: 123 YTQYGGVRPYGVSL--IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREY 180
Query: 121 HWNLTDEEAHQLARKSI 137
             NL ++EA  L  K++
Sbjct: 181 KENLPEKEAVTLGIKAL 197

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 8/137 (5%)
Query: 7   SMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLY--ELRNGERISVAAASKLMC 61
           S++KI  I+DY+    +G  AD    V + R+ A+Q ++    L N E +    A ++  
Sbjct: 63  SIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQ 122
Query: 62  NMAYN-YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
              Y   +  G+S+  + AG D+ GP+L+  D  G   +    ++GSG       L+  Y
Sbjct: 123 YTQYGGVRPYGVSL--IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREY 180
Query: 121 HWNLTDEEAHQLARKSI 137
             NL ++EA  L  K++
Sbjct: 181 KENLPEKEAVTLGIKAL 197

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 45/88 (51%), Gaps = 4/88 (4%)
Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S   KKI++ ++++  +LAG A D       L +QC    L    +++V  A  L+C+ A
Sbjct: 56  SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA 115
Query: 65  ----YNYKGTGLSMGMMIAGWDKRGPQL 88
                +Y G    +G++I G+DK G  L
Sbjct: 116 QKNTQSYGGRPYGVGLLIIGYDKSGAHL 143

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 8/137 (5%)
Query: 7   SMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLY--ELRNGERISVAAASKLMC 61
           S++KI  I+DY+    +G  AD    V + R+ A+Q ++    L N E +    A ++  
Sbjct: 57  SIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQ 116
Query: 62  NMAYN-YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
              Y   +  G+S+  + AG D+ GP+L+  D  G   +    ++GSG       L+  Y
Sbjct: 117 YTQYGGVRPYGVSL--IFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREY 174
Query: 121 HWNLTDEEAHQLARKSI 137
             NL ++EA  L  K++
Sbjct: 175 KENLPEKEAVTLGIKAL 191

>pdb|1FNT|F Chain F, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 234

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 45/88 (51%), Gaps = 4/88 (4%)
Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S   KKI++ ++++  +LAG A D       L +QC    L    +++V  A  L+C+ A
Sbjct: 57  SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA 116
Query: 65  ----YNYKGTGLSMGMMIAGWDKRGPQL 88
                +Y G    +G++I G+DK G  L
Sbjct: 117 QKNTQSYGGRPYGVGLLIIGYDKSGAHL 144

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 45/88 (51%), Gaps = 4/88 (4%)
Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S   KKI++ ++++  +LAG A D       L +QC    L    +++V  A  L+C+ A
Sbjct: 58  SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA 117
Query: 65  ----YNYKGTGLSMGMMIAGWDKRGPQL 88
                +Y G    +G++I G+DK G  L
Sbjct: 118 QKNTQSYGGRPYGVGLLIIGYDKSGAHL 145

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 41/137 (29%), Positives = 69/137 (50%), Gaps = 8/137 (5%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADC---VYWDRVLAKQCRLYELRNGERISVAAASKLM 60
            S S++KIVEI+ ++   ++G  AD    +   R  A    LY     E I+V + ++ +
Sbjct: 60  ESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLY---YDEDINVESLTQSV 116
Query: 61  CNMAYNYKGT-GLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
           C++A     +    + ++IAG D   G QL++ +  G   + N  ++GSGS  A   L  
Sbjct: 117 CDLAAAAAMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLN 176
Query: 119 GYHWNLTDEEAHQLARK 135
            +H +LT +EA  L  K
Sbjct: 177 EWHSSLTLKEAELLVLK 193

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 37/147 (25%), Positives = 66/147 (44%), Gaps = 3/147 (2%)
Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           +   +KI  + D L   LAG A D     + L  +  LYEL+ G +I       ++ N+ 
Sbjct: 36  TTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLL 95
Query: 65  YNYKGTGLSMGMMIAGWDKRG--PQLYYVDSDGQRIKGNVFSV-GSGSVFAFGVLDTGYH 121
           Y  +        +IAG D +   P +  +D  G  +  + F V G+ S   +G+ ++ + 
Sbjct: 96  YEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCSEQMYGMCESLWE 155
Query: 122 WNLTDEEAHQLARKSIYHATYRDFASG 148
            N+  E   +   +++ +A  RD  SG
Sbjct: 156 PNMDPEHLFETISQAMLNAVDRDAVSG 182

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 43/171 (25%), Positives = 74/171 (43%), Gaps = 29/171 (16%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S  ++K+   ++Y    +AG A   +   R+ A +   YE   G  ++    +  + +M
Sbjct: 27  ASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASM 86
Query: 64  AYNYKGT---GLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFS---------------- 104
                G    GL++  ++ G+D        +D+D +   G + S                
Sbjct: 87  VRGNLGAAMQGLAVVPLLVGYD--------LDADDESRAGRIVSYDVVGGRYEERAGYHA 138
Query: 105 VGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGG--LIRG 153
           VGSGS+FA   L   Y  +  +E A + A +S+Y A   D A+GG  L RG
Sbjct: 139 VGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRG 189

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 4/95 (4%)
Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S   KKI++ ++++  +LAG A D       L +QC    L    +++V  A  L+C+ A
Sbjct: 56  SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA 115
Query: 65  YNYK----GTGLSMGMMIAGWDKRGPQLYYVDSDG 95
                   G    +G++I G+DK G  L      G
Sbjct: 116 QKNTQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSG 150

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 4/95 (4%)
Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S   KKI++ ++++  +LAG A D       L +QC    L    +++V  A  L+C+ A
Sbjct: 57  SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA 116
Query: 65  YNYK----GTGLSMGMMIAGWDKRGPQLYYVDSDG 95
                   G    +G++I G+DK G  L      G
Sbjct: 117 QKNTQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSG 151

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

Iteration: 1
 Score = 39.7 bits (91), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 42/171 (24%), Positives = 73/171 (42%), Gaps = 29/171 (16%)
Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S  ++ +   ++Y    +AG A   +   R+ A +   YE   G  ++    +  + +M
Sbjct: 92  ASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASM 151
Query: 64  AYNYKGT---GLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFS---------------- 104
                G    GL++  ++ G+D        +D+D +   G + S                
Sbjct: 152 VRGNLGAAMQGLAVVPLLVGYD--------LDADDESRAGRIVSYDVVGGRYEERAGYHA 203
Query: 105 VGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGG--LIRG 153
           VGSGS+FA   L   Y  +  +E A + A +S+Y A   D A+GG  L RG
Sbjct: 204 VGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRG 254

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	177
1iru_L	204	20S proteasome; cell cycle, immune response, prote	4e-75
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	5e-74
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	1e-72
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	2e-72
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	7e-72
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	9e-72
1iru_I	234	20S proteasome; cell cycle, immune response, prote	1e-70
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	5e-70
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-69
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	2e-69
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	1e-67
1iru_H	205	20S proteasome; cell cycle, immune response, prote	3e-67
1iru_J	205	20S proteasome; cell cycle, immune response, prote	6e-64
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	1e-63
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	2e-63
1iru_N	219	20S proteasome; cell cycle, immune response, prote	1e-61
1iru_M	213	20S proteasome; cell cycle, immune response, prote	3e-61
1iru_K	201	20S proteasome; cell cycle, immune response, prote	2e-60
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	4e-60
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	6e-60
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	2e-59
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	6e-58
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	4e-55
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	8e-52
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	1e-50
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-26
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	4e-18
1iru_E	241	20S proteasome; cell cycle, immune response, prote	2e-16
1iru_B	233	20S proteasome; cell cycle, immune response, prote	9e-16
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-15
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	2e-15
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	6e-15
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-14
1iru_F	263	20S proteasome; cell cycle, immune response, prote	2e-14
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	3e-14
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	3e-14
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	6e-14
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	7e-14
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	1e-13
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	2e-13
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	2e-13
1iru_A	246	20S proteasome; cell cycle, immune response, prote	3e-13
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	3e-13
1iru_C	261	20S proteasome; cell cycle, immune response, prote	8e-13
1iru_D	248	20S proteasome; cell cycle, immune response, prote	8e-12
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	8e-10
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	9e-10
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	3e-07

>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 =  222 bits (569), Expect = 4e-75
 Identities = 101/149 (67%), Positives = 124/149 (83%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 27  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct: 87  VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 146

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           L  E+A+ LAR++IY ATYRD  SGG + 
Sbjct: 147 LEVEQAYDLARRAIYQATYRDAYSGGAVN 175

>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 =  220 bits (564), Expect = 5e-74
 Identities = 42/149 (28%), Positives = 69/149 (46%), Gaps = 1/149 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +  S +KI  I   +    AG AAD     R+ A +  L+ L  G    VA  ++++   
Sbjct: 27  ADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQT 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            + Y+G  +   +++ G D  GPQLY V   G   +    ++GSG   A  +L+  +  N
Sbjct: 87  LFRYQG-HVGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPN 145

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +T E A +L  ++I      D  SGG + 
Sbjct: 146 MTLEAAQELLVEAITAGILSDLGSGGNVD 174

>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 =  217 bits (554), Expect = 1e-72
 Identities = 44/149 (29%), Positives = 74/149 (49%), Gaps = 1/149 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              + KK+ +I+ Y   T+AG   D     R +  +  LY L+    + + A + L+ NM
Sbjct: 35  MHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNM 94

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
               K     + +++ G D   P ++ +D+ G  ++    S GSGS F +GVL++ Y   
Sbjct: 95  LNQVKYMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEK 153

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +T +E   L  ++I  A  RD ASGG+I 
Sbjct: 154 MTVDEGVDLVIRAISAAKQRDSASGGMID 182

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

 Score =  216 bits (552), Expect = 2e-72
 Identities = 49/150 (32%), Positives = 82/150 (54%), Gaps = 1/150 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S + KKI +I D +  T AG   D  +  R++  +  LYE+R   + +V A + L  N+
Sbjct: 27  ASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNL 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRI-KGNVFSVGSGSVFAFGVLDTGYHW 122
             +Y+     + ++I G D  G  +Y +D  G  I + ++ + GSGS+ A+GVL+  +  
Sbjct: 87  LNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTP 146

Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            +  +EA +LA ++IY A  RD ASG  I 
Sbjct: 147 EIGVDEAVELAVRAIYSAMKRDSASGDGID 176

>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 =  214 bits (548), Expect = 7e-72
 Identities = 85/150 (56%), Positives = 115/150 (76%), Gaps = 1/150 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++K+++EIN +LLGT+AGGAADC +W+  L  QCRL+ELR  ERISVAAASK++ N+
Sbjct: 27  ASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNL 86

Query: 64  AYNYKGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y YKG GLSMG MI G+ ++ GP +YYVDSDG R+KG++F VGSG  FA+GVLD+ Y W
Sbjct: 87  VYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW 146

Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +L+ E+A  L ++SI  A +RD  SGG + 
Sbjct: 147 DLSVEDALYLGKRSILAAAHRDAYSGGSVN 176

>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 =  217 bits (554), Expect = 9e-72
 Identities = 86/150 (57%), Positives = 115/150 (76%), Gaps = 1/150 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN +LLGT+AGGAADC +W+  L  QCRL+ELR  ERISVAAASK++ N+
Sbjct: 102 ASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNL 161

Query: 64  AYNYKGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y YKG GLSMG MI G+ ++ GP +YYVDSDG R+KG++F VGSG  FA+GVLD+ Y W
Sbjct: 162 VYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW 221

Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +L+ E+A  L ++SI  A +RD  SGG + 
Sbjct: 222 DLSVEDALYLGKRSILAAAHRDAYSGGSVN 251

>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 =  212 bits (542), Expect = 1e-70
 Identities = 39/149 (26%), Positives = 70/149 (46%), Gaps = 1/149 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +  +  KI  I+  +    AG AAD     ++++    L+ L  G    V  A++++  M
Sbjct: 27  ADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQM 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            + Y+G  +   +++ G D  GP LY +   G   K    ++GSGS+ A  V +  +  +
Sbjct: 87  LFRYRGY-IGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPD 145

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           + +EEA  L  ++I    + D  SG  I 
Sbjct: 146 MEEEEAKNLVSEAIAAGIFNDLGSGSNID 174

>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 =  210 bits (537), Expect = 5e-70
 Identities = 39/149 (26%), Positives = 71/149 (47%), Gaps = 1/149 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +  +  K+  I+  +    AG AAD     +++     L+ L       V +A +++   
Sbjct: 27  ADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQH 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            + Y+G  +   +++AG D  G  L+ + + G    G   S+GSGS+ A  VL++ +  +
Sbjct: 87  LFKYQG-HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQD 145

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           LT EEA +LA  +I    + D  SG  + 
Sbjct: 146 LTKEEAIKLASDAIQAGIWNDLGSGSNVD 174

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

 Score =  209 bits (534), Expect = 1e-69
 Identities = 12/151 (7%), Positives = 26/151 (17%), Gaps = 2/151 (1%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              + + +      +      G    V               +  +     AA+      
Sbjct: 28  VEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLVA 87

Query: 64  AYNYKGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVF-SVGSGSVFAFGVLDTGYH 121
                     +   I          +  +      IK       G        ++     
Sbjct: 88  DARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDK 147

Query: 122 WNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
                 E         Y AT        ++ 
Sbjct: 148 NEARLFETDPSGALIEYKATAIGSGRPVVME 178

>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 =  210 bits (537), Expect = 2e-69
 Identities = 39/149 (26%), Positives = 71/149 (47%), Gaps = 1/149 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +  +  K+  I+  +    AG AAD     +++     L+ L       V +A +++   
Sbjct: 56  ADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQH 115

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            + Y+G  +   +++AG D  G  L+ + + G    G   S+GSGS+ A  VL++ +  +
Sbjct: 116 LFKYQG-HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQD 174

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           LT EEA +LA  +I    + D  SG  + 
Sbjct: 175 LTKEEAIKLASDAIQAGIWNDLGSGSNVD 203

>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 =  203 bits (520), Expect = 1e-67
 Identities = 44/149 (29%), Positives = 71/149 (47%), Gaps = 1/149 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
            +    K+  ++  +   L+G AAD      + A Q  L+ L   E   V AA+ ++ N+
Sbjct: 27  VNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNI 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
           +Y Y+   L   +++AGWD+R     Y    G  I+      GSGS + +G +D  Y   
Sbjct: 87  SYKYRE-DLLAHLIVAGWDQREGGQVYGTMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPG 145

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +T EE  +    +I  A  RD +SGG+I 
Sbjct: 146 MTPEECRRFTTNAITLAMNRDGSSGGVIY 174

>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 =  203 bits (518), Expect = 3e-67
 Identities = 46/150 (30%), Positives = 72/150 (48%), Gaps = 2/150 (1%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           ++    K+  I+D +    +G AAD       +  Q   + +   E   V  A+ L   M
Sbjct: 27  ANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEM 86

Query: 64  AYNYKGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y Y+   L  G++IAGWD + G Q+Y V   G  ++ +    GSGS + +G +D  Y  
Sbjct: 87  CYRYRE-DLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYRE 145

Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            +T EE  Q    ++  A  RD +SGG+IR
Sbjct: 146 GMTKEECLQFTANALALAMERDGSSGGVIR 175

>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 =  194 bits (495), Expect = 6e-64
 Identities = 35/152 (23%), Positives = 67/152 (44%), Gaps = 3/152 (1%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
            +   +KI  + D L   LAG A D     + L  +  LYEL+ G +I       ++ N+
Sbjct: 35  VTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANL 94

Query: 64  AYNYKGTGLSMGMMIAGWDKR--GPQLYYVDSDGQRIKGNVFSV-GSGSVFAFGVLDTGY 120
            Y  +        +IAG D +   P +  +D  G  +  + F V G+ +   +G+ ++ +
Sbjct: 95  LYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLW 154

Query: 121 HWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
             N+  +   +   +++ +A  RD  SG  + 
Sbjct: 155 EPNMDPDHLFETISQAMLNAVDRDAVSGMGVI 186

>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 =  193 bits (494), Expect = 1e-63
 Identities = 33/153 (21%), Positives = 62/153 (40%), Gaps = 4/153 (2%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              S  K  +++ + L + AG A D V +   +    +LY +R    +S  A S  +   
Sbjct: 28  LKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQE 87

Query: 64  AYNY--KGTGLSMGMMIAGWDKR--GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG 119
                       + ++I G+DK+   P+LY +D  G +++    + G    + F +LD  
Sbjct: 88  LAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHH 147

Query: 120 YHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           Y  ++T EE   L +  +     R       + 
Sbjct: 148 YRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVI 180

>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 =  193 bits (493), Expect = 2e-63
 Identities = 40/150 (26%), Positives = 70/150 (46%), Gaps = 3/150 (2%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           ++    K+  ++D +    +G AAD      ++     LY  + G   +  AAS +   +
Sbjct: 36  ANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTETAAS-VFKEL 94

Query: 64  AYNYKGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y  K   L+ G+++AG+D +   ++Y +   G   K      GSGS F +G  D  +  
Sbjct: 95  CYENKD-NLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRE 153

Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           N++ EE     + S+  A   D +SGG+IR
Sbjct: 154 NMSKEETVDFIKHSLSQAIKWDGSSGGVIR 183

>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 =  188 bits (481), Expect = 1e-61
 Identities = 38/161 (23%), Positives = 61/161 (37%), Gaps = 11/161 (6%)

Query: 3   SSSGSM------KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELR-NGERISVAA 55
            S GS+       +I+ +N+  +   +G  AD  Y  +VL +     EL  +G   S  A
Sbjct: 28  GSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRA 87

Query: 56  ASKLMCNMAYNYKGTG--LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAF 113
               +    Y+ +     L   M+I G+      L YVD  G   +    + G G+  A 
Sbjct: 88  IHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQ 147

Query: 114 GVLDTGYHW--NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            +L         L+  EA  L  + +    YRD  S    +
Sbjct: 148 PLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQ 188

>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 =  187 bits (478), Expect = 3e-61
 Identities = 29/159 (18%), Positives = 66/159 (41%), Gaps = 10/159 (6%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
            +    K  ++ D  +   +G   DC+   +++  + ++Y+  N + ++  A + ++  +
Sbjct: 36  HTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTI 95

Query: 64  AYNYKGTGLSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y+ +     +  +I G D+ G   +Y  D  G   + +  + GS S     +LD    +
Sbjct: 96  LYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGF 155

Query: 123 ---------NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
                     L+ + A +L +     A  RD  +G  +R
Sbjct: 156 KNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALR 194

>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 =  185 bits (472), Expect = 2e-60
 Identities = 37/152 (24%), Positives = 66/152 (43%), Gaps = 3/152 (1%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
                 K+ ++++ +L    G A D V +   + K  +LY++RNG  +S  AA+      
Sbjct: 28  MKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRN 87

Query: 64  AYN--YKGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
             +     T   + +++AG+D+  GP LYY+D      K    + G G+     +LD  Y
Sbjct: 88  LADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYY 147

Query: 121 HWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
              ++ E A +L RK +     R   +     
Sbjct: 148 TPTISRERAVELLRKCLEELQKRFILNLPTFS 179

>1q5r_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, hydrolase; 3.10A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_H Length = 294

 Score =  187 bits (477), Expect = 4e-60
 Identities = 39/165 (23%), Positives = 70/165 (42%), Gaps = 11/165 (6%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S  ++ +   ++Y    +AG A   +   R+ A +   YE   G  ++    +  + +M
Sbjct: 92  ASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASM 151

Query: 64  AYNYKGT---GLSMGMMIAGWD------KRGPQLYYVDSDGQRI--KGNVFSVGSGSVFA 112
                G    GL++  ++ G+D       R  ++   D  G R   +    +VGSGS+FA
Sbjct: 152 VRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFA 211

Query: 113 FGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG 157
              L   Y  +  +E A + A +S+Y A   D A+GG        
Sbjct: 212 KSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIY 256

>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 =  185 bits (471), Expect = 6e-60
 Identities = 40/165 (24%), Positives = 71/165 (43%), Gaps = 11/165 (6%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S  ++K+   ++Y    +AG A   +   R+ A +   YE   G  ++    +  + +M
Sbjct: 27  ASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASM 86

Query: 64  AYNYKGT---GLSMGMMIAGWD------KRGPQLYYVDSDGQRI--KGNVFSVGSGSVFA 112
                G    GL++  ++ G+D       R  ++   D  G R   +    +VGSGS+FA
Sbjct: 87  VRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFA 146

Query: 113 FGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG 157
              L   Y  +  +E A + A +S+Y A   D A+GG        
Sbjct: 147 KSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIY 191

>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 =  182 bits (465), Expect = 2e-59
 Identities = 35/152 (23%), Positives = 64/152 (42%), Gaps = 4/152 (2%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
            S   +KI       LG + G A D    + +   +  LY+L+    I     ++L+ + 
Sbjct: 35  VSNKFEKIFHYGHVFLG-ITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSS 93

Query: 64  AYNYKGTGLSMGMMIAGWDKRG--PQLYYVDSDGQRIKGNVFSV-GSGSVFAFGVLDTGY 120
            Y  +     +G ++AG + +   P +   D  G   +   F V G+ S   FG+ ++ Y
Sbjct: 94  LYERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLY 153

Query: 121 HWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
             NL  E+  +   +++ +A  RD  SG    
Sbjct: 154 EPNLEPEDLFETISQALLNAADRDALSGWGAV 185

>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 =  182 bits (463), Expect = 6e-58
 Identities = 38/160 (23%), Positives = 67/160 (41%), Gaps = 11/160 (6%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           S   ++K+   +DY    +AG AA  V + R+ A +   YE   G  ++ A     +  M
Sbjct: 84  SGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIM 143

Query: 64  AYN---YKGTGLSMGMMIAGWD------KRGPQLYYVDSDGQR--IKGNVFSVGSGSVFA 112
                     GL    ++AG+D      +   ++   D+ G     +    +VGSGS+FA
Sbjct: 144 VRGNLAAAMQGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFA 203

Query: 113 FGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
              +   Y      +   ++A +++Y A   D A+GG   
Sbjct: 204 KSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDL 243

>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 =  172 bits (438), Expect = 4e-55
 Identities = 33/168 (19%), Positives = 65/168 (38%), Gaps = 19/168 (11%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYEL-RNGERISVAAASKLMCN 62
           +S    K+ +  D ++ +  G AAD     +      + Y    N +++S+ +A++ + +
Sbjct: 36  NSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQH 95

Query: 63  MAYNYKGTGLSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH 121
           + Y  +     +  +IAG D+ G   +Y  D  G   +    + G+ +      LD   +
Sbjct: 96  LLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVN 155

Query: 122 W-----------------NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +                  L+ EE  +L R S   AT R    G  + 
Sbjct: 156 FKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLE 203

>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 =  164 bits (418), Expect = 8e-52
 Identities = 29/168 (17%), Positives = 59/168 (35%), Gaps = 19/168 (11%)

Query: 4   SSGSM------KKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-----GERIS 52
           S GS+      ++++ + D  +  ++G  +D  + +R+L          N      E + 
Sbjct: 29  SYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALE 88

Query: 53  VAAASKLMCNMAYNYKGTG--LSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGS 109
            +   + +  + Y  +     L   +++AG    G   L YV+  G        + G G+
Sbjct: 89  PSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGA 148

Query: 110 VFAFGVLDTGYHW-----NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
             A  +L             T + A +    ++    YRD  S     
Sbjct: 149 HMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFS 196

>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 =  162 bits (412), Expect = 1e-50
 Identities = 26/161 (16%), Positives = 56/161 (34%), Gaps = 13/161 (8%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-----GERISVAAASKL 59
              +++++ + D  +  ++G  +D  + +R+L          N      E +  +   + 
Sbjct: 69  FNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEY 128

Query: 60  MCNMAYNYKGTG--LSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVL 116
           +  + Y  +     L   +++AG    G   L YV+  G        + G G+  A  +L
Sbjct: 129 LATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLL 188

Query: 117 DTGYHW-----NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
                        T + A +    ++    YRD  S     
Sbjct: 189 RKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFS 229

>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 =  100 bits (250), Expect = 2e-26
 Identities = 22/155 (14%), Positives = 49/155 (31%), Gaps = 9/155 (5%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELR-NGERISVAAASKLMCNM 63
           S ++ K+ E+ D L     G   +     R       +     +   ++  + +      
Sbjct: 47  STALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQT 106

Query: 64  ---AYNYKGTGLSMGMMIAG----WDKRGPQLYYVDSDGQRIKGNVFSV-GSGSVFAFGV 115
               +  +     + + +A        + PQLY +  DG  +    F V G  +      
Sbjct: 107 LGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATA 166

Query: 116 LDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGL 150
           +   Y  +L  E A  +A  ++      +     +
Sbjct: 167 MRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNV 201

>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 = 77.7 bits (191), Expect = 4e-18
 Identities = 26/157 (16%), Positives = 53/157 (33%), Gaps = 15/157 (9%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S S++KI E+ D +    AG   +   +D +     +  + R           + + N+ 
Sbjct: 47  SRSLQKISELYDRVGFAAAGKFNE---FDNLRRGGIQFADTRGYAYDRRDVTGRQLANVY 103

Query: 65  YNYKGTGLSMGM-------MIAGW----DKRGPQLYYVDSDGQRIKGNVF-SVGSGSVFA 112
               GT  +           +A      + + P+LY +  DG       F  +G  +   
Sbjct: 104 AQTLGTIFTEQAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPI 163

Query: 113 FGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGG 149
              L   Y  N +  +A ++A  ++   +        
Sbjct: 164 ANALKESYAENASLTDALRIAVAALRAGSADTSGGDQ 200

>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 = 73.0 bits (180), Expect = 2e-16
 Identities = 35/155 (22%), Positives = 70/155 (45%), Gaps = 29/155 (18%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLM 60
             S++KIVEI+ ++   ++G  AD     + L  + R+    +     E ++V + ++ +
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADA----KTLIDKARVETQNHWFTYNETMTVESVTQAV 116

Query: 61  CNMAYNY---KGTGLSM------GMMIAGWDKRGPQLYYVD-SDGQRIKGNVF-----SV 105
            N+A  +        +M       ++  G D++GPQL+++D S      G        ++
Sbjct: 117 SNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPS------GTFVQCDARAI 170

Query: 106 GSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHA 140
           GS S  A   L   YH ++T +EA + +   +   
Sbjct: 171 GSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQV 205

>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 = 71.0 bits (175), Expect = 9e-16
 Identities = 31/147 (21%), Positives = 55/147 (37%), Gaps = 16/147 (10%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKL 59
              S+ K+  I  ++    +G   D     RVL  + R     Y L   E I  A   + 
Sbjct: 57  DERSVHKVEPITKHIGLVYSGMGPDY----RVLVHRARKLAQQYYLVYQEPIPTAQLVQR 112

Query: 60  MCNMAYNYKGTGLSM------GMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAF 113
           + ++   Y  T           ++I GW++  P L+  D  G        ++G   V   
Sbjct: 113 VASVMQEY--TQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGK 170

Query: 114 GVLDTGYHWNLTDEEAHQLARKSIYHA 140
             L+  Y+ +L  E+A   A  ++  +
Sbjct: 171 TFLEKRYNEDLELEDAIHTAILTLKES 197

>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 = 70.0 bits (172), Expect = 2e-15
 Identities = 36/154 (23%), Positives = 64/154 (41%), Gaps = 30/154 (19%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKL 59
              S++KI  I+DY+    +G  AD     RVL    R+     ++  G  +++    K 
Sbjct: 60  EQNSIEKIQLIDDYVAAVTSGLVADA----RVLVDFARISAQQEKVTYGSLVNIENLVKR 115

Query: 60  MCNMAYNYKGTGLSMGM-------MIAGWDKRGPQLYYVD-SDGQRIKGNVF-----SVG 106
           + +    Y       G+       + AG D+ GP+L+  D +      G +      ++G
Sbjct: 116 VADQMQQY---TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPA------GTINEYKATAIG 166

Query: 107 SGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHA 140
           SG       L+  Y  NL ++EA  L  K++  +
Sbjct: 167 SGKDAVVSFLEREYKENLPEKEAVTLGIKALKSS 200

>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 = 69.2 bits (170), Expect = 6e-15
 Identities = 41/151 (27%), Positives = 70/151 (46%), Gaps = 19/151 (12%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLM 60
           S S++KIVEI+ ++   ++G  AD     R + +  R     + L   E I+V + ++ +
Sbjct: 53  SDSIEKIVEIDRHIGCAMSGLTADA----RSMIEHARTAAVTHNLYYDEDINVESLTQSV 108

Query: 61  CNMA-----YNYKGTGLSM-----GMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGS 109
           C++A            L        ++IAG D   G QL++ +  G   + N  ++GSGS
Sbjct: 109 CDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGS 168

Query: 110 VFAFGVLDTGYHWNLTDEEAHQLARKSIYHA 140
             A   L   +H +LT +EA  L  K +   
Sbjct: 169 EGAQAELLNEWHSSLTLKEAELLVLKILKQV 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 = 68.5 bits (168), Expect = 1e-14
 Identities = 29/147 (19%), Positives = 51/147 (34%), Gaps = 17/147 (11%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLM 60
            GS K++  ++ ++   +AG  AD     R LA   R     +    G  I +   +  +
Sbjct: 60  EGSNKRLFNVDRHVGMAVAGLLADA----RSLADIAREEASNFRSNFGYNIPLKHLADRV 115

Query: 61  CNMAYNYKGTGLSM------GMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAF 113
               + Y  T  S         M+  +    G QLY +D  G        ++G     A 
Sbjct: 116 AMYVHAY--TLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAK 173

Query: 114 GVLDTGYHWNLTDEEAHQLARKSIYHA 140
             ++      +T  +  +   K IY  
Sbjct: 174 TEIEKLQMKEMTCRDIVKEVAKIIYIV 200

>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 = 68.1 bits (167), Expect = 2e-14
 Identities = 26/148 (17%), Positives = 52/148 (35%), Gaps = 18/148 (12%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLM 60
           +   KKI+ +++++  ++AG  AD     R+L    R             + V+    L+
Sbjct: 57  AAHQKKILHVDNHIGISIAGLTADA----RLLCNFMRQECLDSRFVFDRPLPVSRLVSLI 112

Query: 61  CNMAYNYKGTGLSM------GMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFG 114
            +       T          G++IAG+D  GP ++              S+G+ S  A  
Sbjct: 113 GSKTQIP--TQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSART 170

Query: 115 VLDTGYH--WNLTDEEAHQLARKSIYHA 140
            L+            E  +   +++   
Sbjct: 171 YLERHMSEFMECNLNELVKHGLRALRET 198

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

 Score = 67.3 bits (165), Expect = 3e-14
 Identities = 31/147 (21%), Positives = 64/147 (43%), Gaps = 17/147 (11%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKL 59
              +++KI +I++++    +G  AD     RVL  + R+      L     I+V   +K 
Sbjct: 60  EKDTIEKIYKIDEHICAATSGLVADA----RVLIDRARIEAQINRLTYDIPITVKELAKK 115

Query: 60  MCNMAYNYKGTGLSM------GMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAF 113
           +C+    Y  T           ++IAG ++  P+LY  D  G  ++    ++G G +   
Sbjct: 116 ICDFKQQY--TQYGGVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYKATAIGMGRMAVT 172

Query: 114 GVLDTGYHWNLTDEEAHQLARKSIYHA 140
              +  Y  +L+ ++A  L   ++  +
Sbjct: 173 EFFEKEYRDDLSFDDAMVLGLVAMGLS 199

>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 = 67.3 bits (165), Expect = 3e-14
 Identities = 32/148 (21%), Positives = 55/148 (37%), Gaps = 18/148 (12%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL-----YELRNGERISVAAASKL 59
           S ++ K+  +   +    +G   D     RVL  + R      Y+   GE          
Sbjct: 58  SETLSKVSLLTPDIGAVYSGMGPDY----RVLVDKSRKVAHTSYKRIYGEYPPTKLLVSE 113

Query: 60  MCNMAYNYKGTGLSM------GMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFA 112
           +  +      T           ++IAG D+  G  LY VD  G        ++G GSV A
Sbjct: 114 VAKIMQEA--TQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAA 171

Query: 113 FGVLDTGYHWNLTDEEAHQLARKSIYHA 140
              L+  ++  L  E+A  +A  ++  +
Sbjct: 172 KTFLEKRWNDELELEDAIHIALLTLKES 199

>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 = 66.1 bits (162), Expect = 6e-14
 Identities = 37/159 (23%), Positives = 63/159 (39%), Gaps = 32/159 (20%)

Query: 2   SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAAS 57
              S   KKI++ ++++  +LAG A D     RVL+   R       L    +++V  A 
Sbjct: 53  DELSSYQKKIIKCDEHMGLSLAGLAPDA----RVLSNYLRQQCNYSSLVFNRKLAVERAG 108

Query: 58  KLMCNMAYNYKGTGLSM------GMMIAGWDKRGPQLYYVD-SDGQRIKGNVF-----SV 105
            L+C+ A     T          G++I G+DK G  L     S      GNV      ++
Sbjct: 109 HLLCDKAQKN--TQSYGGRPYGVGLLIIGYDKSGAHLLEFQPS------GNVTELYGTAI 160

Query: 106 GSGSVFAFGVLDTGYH----WNLTDEEAHQLARKSIYHA 140
           G+ S  A   L+         +   +E  +   ++I  +
Sbjct: 161 GARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQS 199

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

 Score = 66.2 bits (162), Expect = 7e-14
 Identities = 36/153 (23%), Positives = 62/153 (40%), Gaps = 29/153 (18%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLM 60
             S +K+ ++ND +   +AG  AD      +L    R+    Y     E I V    + +
Sbjct: 59  DTSTEKLYKLNDKIAVAVAGLTADA----EILINTARIHAQNYLKTYNEDIPVEILVRRL 114

Query: 61  CNMAYNYKGTGLSM------GMMIAGWD-KRGPQLYYVD-SDGQRIKGNVF-----SVGS 107
            ++   Y  T            + AG+D + G QLY  + S      GN       SVG+
Sbjct: 115 SDIKQGY--TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPS------GNYTGWKAISVGA 166

Query: 108 GSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHA 140
            +  A  +L   Y  ++  ++A +LA K++   
Sbjct: 167 NTSAAQTLLQMDYKDDMKVDDAIELALKTLSKT 199

>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 = 65.8 bits (161), Expect = 1e-13
 Identities = 30/155 (19%), Positives = 64/155 (41%), Gaps = 21/155 (13%)

Query: 1   MSSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAA 56
           +  +  +  K+ +I+ +++ + +G  AD     R+L ++ R+    + L   + ++V   
Sbjct: 52  LQDTRITPSKVSKIDSHVVLSFSGLNADS----RILIEKARVEAQSHRLTLEDPVTVEYL 107

Query: 57  SKLMCNMAYNYKGTGLSM------GMMIAGWDKR--GPQLYYVDSDGQRIKGNVFSVGSG 108
           ++ +  +   Y  T            +IAG+D R   P+LY  +  G     +  ++G  
Sbjct: 108 TRYVAGVQQRY--TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRN 165

Query: 109 SVFAFGVLDTGYH---WNLTDEEAHQLARKSIYHA 140
           S      L+  Y       T EE  +L  +S+   
Sbjct: 166 SKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEV 200

>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 = 65.5 bits (160), Expect = 2e-13
 Identities = 31/153 (20%), Positives = 51/153 (33%), Gaps = 23/153 (15%)

Query: 3   SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASK 58
                  KI  ++ ++    +G   D     R L  + R     ++      I + A + 
Sbjct: 59  LVPQKNVKIQVVDRHIGCVYSGLIPDG----RHLVNRGREEAASFKKLYKTPIPIPAFAD 114

Query: 59  LMCNMAYNYKGTGLSM------GMMIAGWDKRGPQLYYVDSDG--QRIKGNVFSVGSGSV 110
            +      +  T  +         +  G DK G  LY ++  G     KG   + G G  
Sbjct: 115 RLGQYVQAH--TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGA--ATGKGRQ 170

Query: 111 FAFGVL---DTGYHWNLTDEEAHQLARKSIYHA 140
            A   L      +   L+  EA + A K IY A
Sbjct: 171 SAKAELEKLVDHHPEGLSAREAVKQAAKIIYLA 203

>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 = 64.5 bits (158), Expect = 2e-13
 Identities = 25/161 (15%), Positives = 51/161 (31%), Gaps = 28/161 (17%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLM 60
             ++  I  I+  +   + G   D     R  A + +     +  + G  +     +K M
Sbjct: 57  PTTVSYIFCISRTIGMVVNGPIPDA----RNAALRAKAEAAEFRYKYGYDMPCDVLAKRM 112

Query: 61  CNMAYNYKGTGLSM------GMMIAGWDK-RGPQLYYVDSDG--QRIKGNVFSVGSGSVF 111
            N++  Y  T  +        +     D+  GP +Y  D  G     K    + G     
Sbjct: 113 ANLSQIY--TQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKAT--ATGPKQQE 168

Query: 112 AFGVLDTGYHWN-------LTDEEAHQLARKSIYHATYRDF 145
               L+  +  +        + E+  + A   +  A   +F
Sbjct: 169 ITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEF 209

>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 = 64.5 bits (158), Expect = 3e-13
 Identities = 28/151 (18%), Positives = 58/151 (38%), Gaps = 23/151 (15%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKLM 60
           S ++  + +I + +   + G  AD     R   ++ R     ++ + G  I V    K +
Sbjct: 63  SSTVTHLFKITENIGCVMTGMTADS----RSQVQRARYEAANWKYKYGYEIPVDMLCKRI 118

Query: 61  CNMAYNYKGTGLSM------GMMIAGWDK-RGPQLYYVDSDG--QRIKGNVFSVGSGSVF 111
            +++  Y  T  +        M++ G D+ +GPQ+Y  D  G     K    + G     
Sbjct: 119 ADISQVY--TQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKAT--AAGVKQTE 174

Query: 112 AFGVLDTGYH--WNLTDEEAHQLARKSIYHA 140
           +   L+      ++ T E+  + A   +   
Sbjct: 175 STSFLEKKVKKKFDWTFEQTVETAITCLSTV 205

>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 = 64.2 bits (157), Expect = 3e-13
 Identities = 31/153 (20%), Positives = 51/153 (33%), Gaps = 23/153 (15%)

Query: 3   SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASK 58
                  KI  ++ ++    +G   D     R L  + R     ++      I + A + 
Sbjct: 55  LVPQKNVKIQVVDRHIGCVYSGLIPDG----RHLVNRGREEAASFKKLYKTPIPIPAFAD 110

Query: 59  LMCNMAYNYKGTGLSM------GMMIAGWDKRGPQLYYVDSDG--QRIKGNVFSVGSGSV 110
            +      +  T  +         +  G DK G  LY ++  G     KG   + G G  
Sbjct: 111 RLGQYVQAH--TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGA--ATGKGRQ 166

Query: 111 FAFGVL---DTGYHWNLTDEEAHQLARKSIYHA 140
            A   L      +   L+  EA + A K IY A
Sbjct: 167 SAKAELEKLVDHHPEGLSAREAVKQAAKIIYLA 199

>1iru_C 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_B* 3une_B 3unf_B* 3unh_B Length = 261

 Score = 63.5 bits (155), Expect = 8e-13
 Identities = 37/149 (24%), Positives = 58/149 (38%), Gaps = 18/149 (12%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASKL 59
                +KI ++N+ +  ++AG  +D      VL  + RL    Y L+  E I        
Sbjct: 58  EVFFSEKIYKLNEDMACSVAGITSDA----NVLTNELRLIAQRYLLQYQEPIPCEQLVTA 113

Query: 60  MCNMAYNYKGTGLSM------GMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFA 112
           +C++   Y  T           ++  GWDK  G QLY  D  G         +G+ S  A
Sbjct: 114 LCDIKQAY--TQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAA 171

Query: 113 FGVLDTGYH-WNLTDEEAHQLARKSIYHA 140
             +L   Y    +T + A  LA K +   
Sbjct: 172 VSMLKQDYKEGEMTLKSALALAIKVLNKT 200

>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 = 60.7 bits (148), Expect = 8e-12
 Identities = 30/152 (19%), Positives = 61/152 (40%), Gaps = 19/152 (12%)

Query: 3   SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL----YELRNGERISVAAASK 58
               +++KI  ++D +    AG  AD     R++  + R+    + L   + ++V   ++
Sbjct: 54  QDERTVRKICALDDNVCMAFAGLTADA----RIVINRARVECQSHRLTVEDPVTVEYITR 109

Query: 59  LMCNMAYNYKGTGLSM------GMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVF 111
            + ++   Y  T  +         +I G+D  G P+LY  D  G        ++G G+  
Sbjct: 110 YIASLKQRY--TQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKS 167

Query: 112 AFGVLDTGYH--WNLTDEEAHQLARKSIYHAT 141
               L+  Y      TD+   +L  K++    
Sbjct: 168 VREFLEKNYTDEAIETDDLTIKLVIKALLEVV 199

>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 = 54.2 bits (130), Expect = 8e-10
 Identities = 22/139 (15%), Positives = 46/139 (33%), Gaps = 8/139 (5%)

Query: 3   SSSGSMKKIVEI-NDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMC 61
               + +K+ ++ N  +L   AG  AD          +   Y   N +R +V  A +   
Sbjct: 32  VMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN-GNLKRAAVELAKEWRS 90

Query: 62  NMAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH 121
           +           +  M+   ++    L     +       + ++GSG  +A         
Sbjct: 91  DKVLR------KLEAMLIVMNQDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKK 144

Query: 122 WNLTDEEAHQLARKSIYHA 140
                  A ++AR ++  A
Sbjct: 145 HAGESMSASEIARAALETA 163

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

 Score = 54.2 bits (130), Expect = 9e-10
 Identities = 22/137 (16%), Positives = 49/137 (35%), Gaps = 10/137 (7%)

Query: 5   SGSMKKIVEI-NDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
            G+ +K+ ++    +L   AG  AD +        + R +   N  + +V  A     + 
Sbjct: 28  KGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWG-GNLTKAAVELAKDWRTDR 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
                     +  ++   DK    +   + +  +   +  ++GSG  +A           
Sbjct: 87  VL------RRLEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAK--ALLR 138

Query: 124 LTDEEAHQLARKSIYHA 140
            TD  A ++  K++  A
Sbjct: 139 NTDLSAREIVEKAMTIA 155

>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 = 47.3 bits (112), Expect = 3e-07
 Identities = 24/137 (17%), Positives = 50/137 (36%), Gaps = 9/137 (6%)

Query: 5   SGSMKKIVEIND-YLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
            G+ +K+  + +  +L   AGG AD      +  ++  +++  +  + +V  A     + 
Sbjct: 28  KGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG-HLLKSAVELAKDWRTDR 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
           A       L +          G          Q  +  + ++GSG  +A           
Sbjct: 87  ALRKLEAMLIVADEKESLIITGIGDVV-----QPEEDQILAIGSGGNYALSAAR--ALVE 139

Query: 124 LTDEEAHQLARKSIYHA 140
            T+  AH++  KS+  A
Sbjct: 140 NTELSAHEIVEKSLRIA 156

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	177
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.97
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.97
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.97

>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=5.8e-43  Score=267.43  Aligned_cols=171  Identities=29%  Similarity=0.399  Sum_probs=164.8

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.+++++++++|.+|+ ||++++|+||||
T Consensus        26 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~-p~~~~~lvaG~D  104 (205)
T 1iru_H           26 IANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYRE-DLMAGIIIAGWD  104 (205)
T ss_dssp             EEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTT-TCCEEEEEEEEE
T ss_pred             EecCCcCceEEcCCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCc-CccEEEEEEEEe
Confidence            4456789999999999999999999999999999999999999999999999999999999999998 999999999999


Q ss_pred             C-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 K-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      + +||+||.+||+|++.++++.++|+|+.+++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|.
T Consensus       105 ~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~  184 (205)
T 1iru_H          105 PQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIAESGV  184 (205)
T ss_dssp             TTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEE
T ss_pred             CCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhccccCCcEEEEEEeCCCe
Confidence            7 789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCCCCCC
Q psy11707        162 QGRFLGHQKGPNS  174 (177)
Q Consensus       162 ~~~~l~~~~~~~~  174 (177)
                      +++.++.+|++..
T Consensus       185 ~~~~l~~~ei~~~  197 (205)
T 1iru_H          185 ERQVLLGDQIPKF  197 (205)
T ss_dssp             EEEEECGGGSCCC
T ss_pred             EEEEeChHHhhHH
Confidence            8999999999875

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

Probab=100.00  E-value=1.3e-42  Score=265.01  Aligned_cols=168  Identities=29%  Similarity=0.404  Sum_probs=159.5

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++.+++++.+++++++++|.++.|||++++|+||||
T Consensus        26 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~r~rp~~~~~lvaG~D  105 (202)
T 1j2q_H           26 IASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGID  105 (202)
T ss_dssp             EEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEE
T ss_pred             EeeccccCEEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEe
Confidence            45678899999999999999999999999999999999999999999999999999999999999889999999999999


Q ss_pred             CCCCeEEEEcCCCceeeec-eeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 KRGPQLYYVDSDGQRIKGN-VFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      ++||+||.+||+|++.+++ +.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++| 
T Consensus       106 ~~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~~s~~~i~v~vi~~~g-  184 (202)
T 1j2q_H          106 SEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDE-  184 (202)
T ss_dssp             TTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEECSSC-
T ss_pred             CCCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCC-
Confidence            8899999999999999999 99999999999999999999999999999999999999999999999999999999997 


Q ss_pred             EEEEecCCCCC
Q psy11707        162 QGRFLGHQKGP  172 (177)
Q Consensus       162 ~~~~l~~~~~~  172 (177)
                       .+.++++|++
T Consensus       185 -~~~l~~~ei~  194 (202)
T 1j2q_H          185 -FYQYSPEEVE  194 (202)
T ss_dssp             -EEECHHHHHH
T ss_pred             -eEEeCHHHHH
Confidence             4467776653

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

Probab=100.00  E-value=3.7e-42  Score=262.82  Aligned_cols=168  Identities=60%  Similarity=1.019  Sum_probs=159.7

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+|++||++++|+||||
T Consensus        26 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r~~~~~v~~lvaG~D  105 (204)
T 1iru_L           26 IASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWD  105 (204)
T ss_dssp             EEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCBEEEEEEEC
T ss_pred             EEcCcccceEEcCCCEEEEccCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhCCCCeeEEEEEEEEe
Confidence            34568899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|.+
T Consensus       106 ~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~rd~~s~~~i~v~vi~~~g~~  185 (204)
T 1iru_L          106 KRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDGWI  185 (204)
T ss_dssp             SSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEECSSCEE
T ss_pred             CCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHhCccCCCceEEEEEeCCceE
Confidence            98999999999999999999999999999999999999999999999999999999999999989999999999999754


Q ss_pred             EEEecCCCCC
Q psy11707        163 GRFLGHQKGP  172 (177)
Q Consensus       163 ~~~l~~~~~~  172 (177)
                        .++++|++
T Consensus       186 --~l~~~ei~  193 (204)
T 1iru_L          186 --RVSSDNVA  193 (204)
T ss_dssp             --EEEEEEHH
T ss_pred             --EeCHHHHH
Confidence              57766654

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

Probab=100.00  E-value=3.4e-42  Score=265.80  Aligned_cols=167  Identities=28%  Similarity=0.416  Sum_probs=158.4

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.++.+||+|++|+||||
T Consensus        27 i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~P~~v~~lvaG~D  106 (219)
T 3h4p_a           27 VADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACATLLSNILHSSRMFPFLTQIIIGGYD  106 (219)
T ss_dssp             EEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHTTTTTCCCCCEEEEEE
T ss_pred             eeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEe
Confidence            35678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C-CCCeEEEEcCCCceeeec-eeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCc
Q psy11707         83 K-RGPQLYYVDSDGQRIKGN-VFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQW  160 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg  160 (177)
                      + +||+||.+||+|++.+++ +.|+|+|+.+++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|
T Consensus       107 ~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~g  186 (219)
T 3h4p_a          107 LLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFSGNGISLAVITKDG  186 (219)
T ss_dssp             TTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHTSCSSCCSCCCEEEEETTE
T ss_pred             CCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC
Confidence            8 789999999999999998 99999999999999999999999999999999999999999999999999999999997


Q ss_pred             eEEEEecCCCC
Q psy11707        161 NQGRFLGHQKG  171 (177)
Q Consensus       161 ~~~~~l~~~~~  171 (177)
                      .  +.++++|+
T Consensus       187 ~--~~l~~~ei  195 (219)
T 3h4p_a          187 V--KIFEDEEI  195 (219)
T ss_dssp             E--EECCHHHH
T ss_pred             e--EEcCHHHH
Confidence            4  45665443

>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=1.8e-41  Score=264.02  Aligned_cols=169  Identities=25%  Similarity=0.319  Sum_probs=159.7

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.+++++++++|.|+ +||++++|+||||
T Consensus        26 v~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-~p~~v~llvaG~D  104 (234)
T 3unf_H           26 VADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRYQ-GHVGASLVVGGVD  104 (234)
T ss_dssp             EEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTT-TCSCEEEEEEEEE
T ss_pred             eccCccccEEEecCCEEEEecccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHhcC-CCccEEEEEEEEe
Confidence            346788999999999999999999999999999999999999999999999999999999999874 6999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++|+.+||++++++||..+.++|..++++++|++|+++|.+
T Consensus       105 ~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~~~~~D~~sg~~iev~vi~~dg~~  184 (234)
T 3unf_H          105 LNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVITAGGAK  184 (234)
T ss_dssp             TTEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEESSCEE
T ss_pred             CCCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEECCCEE
Confidence            98999999999999999999999999999999999999999999999999999999999999999999999999999764


Q ss_pred             EEEecCCCCCCC
Q psy11707        163 GRFLGHQKGPNS  174 (177)
Q Consensus       163 ~~~l~~~~~~~~  174 (177)
                        .+.+.++|+-
T Consensus       185 --~l~~~~i~~~  194 (234)
T 3unf_H          185 --LQRALSTPTE  194 (234)
T ss_dssp             --EEEEEECCCC
T ss_pred             --EeCceecccc
Confidence              6777777653

>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=8.6e-42  Score=263.16  Aligned_cols=167  Identities=27%  Similarity=0.368  Sum_probs=158.4

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|+++++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.++.|||++++|+||||
T Consensus        34 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r~rp~~v~~lvaG~D  113 (217)
T 1yar_H           34 IMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID  113 (217)
T ss_dssp             EEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEES
T ss_pred             EecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEC
Confidence            45678899999999999999999999999999999999999999999999999999999999999889999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC-Cce
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ-QWN  161 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk-dg~  161 (177)
                       +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|++ +| 
T Consensus       114 -~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~~g-  191 (217)
T 1yar_H          114 -TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDG-  191 (217)
T ss_dssp             -SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTE-
T ss_pred             -CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCC-
Confidence             899999999999999999999999999999999999999999999999999999999999998999999999999 66 


Q ss_pred             EEEEecCCCCC
Q psy11707        162 QGRFLGHQKGP  172 (177)
Q Consensus       162 ~~~~l~~~~~~  172 (177)
                       .+.++++|++
T Consensus       192 -~~~~~~~ei~  201 (217)
T 1yar_H          192 -YVQLPTDQIE  201 (217)
T ss_dssp             -EEECCHHHHH
T ss_pred             -EEEcCHHHHH
Confidence             4467776653

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

Probab=100.00  E-value=1.1e-41  Score=261.54  Aligned_cols=167  Identities=52%  Similarity=0.920  Sum_probs=158.2

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+|+.||++++|+||||
T Consensus        26 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~p~~v~~lvaG~D  105 (212)
T 1ryp_L           26 VASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYT  105 (212)
T ss_dssp             EEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCBEEEEEEEE
T ss_pred             EecCcccceeeeCCcEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEe
Confidence            34568899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             -CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 -KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 -~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                       ++||+||.+||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|.
T Consensus       106 ~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~g~  185 (212)
T 1ryp_L          106 RKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGW  185 (212)
T ss_dssp             TTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEE
T ss_pred             CCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEEcCCce
Confidence             5689999999999999999999999999999999999999999999999999999999999999999999999999974


Q ss_pred             EEEEecCCCC
Q psy11707        162 QGRFLGHQKG  171 (177)
Q Consensus       162 ~~~~l~~~~~  171 (177)
                        +.++++|+
T Consensus       186 --~~~~~~ei  193 (212)
T 1ryp_L          186 --IYHGNHDV  193 (212)
T ss_dssp             --EEEEEEEH
T ss_pred             --EEECHHHH
Confidence              45666554

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L

Probab=100.00  E-value=1.2e-40  Score=255.86  Aligned_cols=165  Identities=18%  Similarity=0.258  Sum_probs=157.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|+++++|++||..+|++.+.++++.+++.|++.++.+++++.+|+++++++|.++.+||++++|+||||
T Consensus        35 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D  114 (213)
T 1iru_M           35 IHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLD  114 (213)
T ss_dssp             EEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEC
T ss_pred             EecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEc
Confidence            44678999999999999999999999999999999999999999999999999999999999887788999999999999


Q ss_pred             CCC-CeEEEEcCCCceeeeceeEecCCcHHHHHHHHhc---------CCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEE
Q psy11707         83 KRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG---------YHWNLTDEEAHQLARKSIYHATYRDFASGGLIR  152 (177)
Q Consensus        83 ~~g-p~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~---------~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~ie  152 (177)
                      ++| |+||.+||+|++.++++.|+|+|+.+++++||+.         |+++||.+||++++++||..+.++|..++++++
T Consensus       115 ~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~  194 (213)
T 1iru_M          115 EEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALR  194 (213)
T ss_dssp             TTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEE
T ss_pred             CCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhccccccccccCCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEE
Confidence            754 9999999999999999999999999999999999         889999999999999999999999999999999


Q ss_pred             EEEEcCCceEEEEec
Q psy11707        153 GNASGQQWNQGRFLG  167 (177)
Q Consensus       153 v~iitkdg~~~~~l~  167 (177)
                      |++|+++|++.+.++
T Consensus       195 v~vi~~~g~~~~~~~  209 (213)
T 1iru_M          195 ICIVTKEGIREETVS  209 (213)
T ss_dssp             EEEEETTEEEEEEEE
T ss_pred             EEEEcCCCeEEEEee
Confidence            999999999887765

>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=5.2e-41  Score=261.30  Aligned_cols=168  Identities=19%  Similarity=0.219  Sum_probs=159.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|++||..+|++.+.++++.+++.|+++++.+++++.+|+++++++|.+++    |||++++|+
T Consensus        59 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lv  138 (233)
T 1yar_A           59 IEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF  138 (233)
T ss_dssp             BCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEE
T ss_pred             ccccccCeEEEecCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEE
Confidence            4567889999999999999999999999999999999999999999999999999999999999886    799999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      ||||++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++|. ++++++|++|++
T Consensus       139 aG~D~~gp~Ly~id~~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~-s~~~i~v~vi~~  217 (233)
T 1yar_A          139 AGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITV  217 (233)
T ss_dssp             EEECSSCEEEEEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEET
T ss_pred             EEEeCCCCEEEEECCCCCEEeeeEEEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEEC
Confidence            9999889999999999999999999999999999999999999999999999999999999999998 699999999999


Q ss_pred             CceEEEEecCCCCC
Q psy11707        159 QWNQGRFLGHQKGP  172 (177)
Q Consensus       159 dg~~~~~l~~~~~~  172 (177)
                      +|. ++.++++|+.
T Consensus       218 ~~~-~~~~~~~ei~  230 (233)
T 1yar_A          218 GNK-YRIYDQEEVK  230 (233)
T ss_dssp             TSC-CEECCHHHHH
T ss_pred             CCC-EEECCHHHHH
Confidence            984 6778877654

>1ryp_M 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_M* 1jd2_L* 1g65_L 1vsy_M 1z7q_M 2f16_L* 2fak_L* 2fny_L* 2gpl_L* 3d29_L* 3dy3_L* 3dy4_L* 3e47_L* 3gpj_L* 3gpt_L* 3gpw_L* 3hye_L* 3l5q_Q 3mg0_L* 3mg4_L* ...

Probab=100.00  E-value=1.9e-40  Score=256.45  Aligned_cols=166  Identities=20%  Similarity=0.218  Sum_probs=158.2

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNG-ERISVAAASKLMCNMAYNYKGTGLSMGMMIAGW   81 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~   81 (177)
                      |.+++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++ .+++++.+|+++++++|.++.+||++++|+|||
T Consensus        35 i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~P~~v~~ivaG~  114 (222)
T 1ryp_M           35 INSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGL  114 (222)
T ss_dssp             EEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEE
T ss_pred             ecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEE
Confidence            4677899999999999999999999999999999999999999999 999999999999999998888899999999999


Q ss_pred             eCCC-CeEEEEcCCCceeeeceeEecCCcHHHHHHHHhc-----------------CCCCCCHHHHHHHHHHHHHHHHhc
Q psy11707         82 DKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG-----------------YHWNLTDEEAHQLARKSIYHATYR  143 (177)
Q Consensus        82 d~~g-p~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~-----------------~~~~~s~~ea~~l~~~~l~~~~~~  143 (177)
                      |++| |+||.+||+|++.++++.|+|+|+.+++++||+.                 |+++||.+||++++++||..+.++
T Consensus       115 D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~r  194 (222)
T 1ryp_M          115 DEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATER  194 (222)
T ss_dssp             CTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhcccccccccccccccccccCCCCCCHHHHHHHHHHHHHHHHHh
Confidence            9754 9999999999999999999999999999999998                 889999999999999999999999


Q ss_pred             cCCCCCcEEEEEEcCCceEEEEecC
Q psy11707        144 DFASGGLIRGNASGQQWNQGRFLGH  168 (177)
Q Consensus       144 d~~~g~~iev~iitkdg~~~~~l~~  168 (177)
                      |..++++++|++|+++|++.+.+|-
T Consensus       195 d~~sg~~i~v~vi~~~g~~~~~~~~  219 (222)
T 1ryp_M          195 HIQVGDGLEILIVTKDGVRKEFYEL  219 (222)
T ss_dssp             BTTCCSEEEEEEEETTEEEEEEEEC
T ss_pred             cccCCCcEEEEEEcCCCeEEEEeec
Confidence            9999999999999999998877753

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

Probab=100.00  E-value=5.7e-41  Score=265.39  Aligned_cols=170  Identities=22%  Similarity=0.284  Sum_probs=162.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+|+++++++|.|++    |||+|++||
T Consensus        63 i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lv  142 (264)
T 3h4p_A           63 VKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLI  142 (264)
T ss_dssp             BCTTTCCCEEEEETTEEEEEEECSHHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEE
T ss_pred             cccCccccEEEecCcEEEEeccchHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEE
Confidence            4567899999999999999999999999999999999999999999999999999999999999875    699999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      ||||++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++  .+++.++|++|++
T Consensus       143 aG~D~~gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~--~sg~~iev~vi~~  220 (264)
T 3h4p_A          143 AGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED--IKPENVDVCIITV  220 (264)
T ss_dssp             EEEETTEEEEEEECTTCCCEEESEEEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS--CCTTSEEEEEEET
T ss_pred             EEEeCCcCEEEEECCCceEEecCeEEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc--cCCCeEEEEEEEe
Confidence            99999899999999999999999999999999999999999999999999999999999999986  6889999999999


Q ss_pred             CceEEEEecCCCCCCC
Q psy11707        159 QWNQGRFLGHQKGPNS  174 (177)
Q Consensus       159 dg~~~~~l~~~~~~~~  174 (177)
                      ++..++.|+++|++..
T Consensus       221 ~~~~~~~l~~~ei~~~  236 (264)
T 3h4p_A          221 KDAQFKKIPVEEIKKL  236 (264)
T ss_dssp             TTTEEEECCTTTTGGG
T ss_pred             CCCcEEECCHHHHHHH
Confidence            9888999999998754

>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=4.1e-41  Score=263.86  Aligned_cols=169  Identities=17%  Similarity=0.161  Sum_probs=160.6

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+|+++++++|.|++    |||+|++|+
T Consensus        61 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lv  140 (246)
T 1iru_A           61 LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMIL  140 (246)
T ss_dssp             BCGGGCCSEEESSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEE
T ss_pred             cCCCccCceEEECCCEEEEEeccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEE
Confidence            4567889999999999999999999999999999999999999999999999999999999887764    699999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC--CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW--NLTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      ||||+ .||+||.+||+|++.++++.|+|+|+.+++++||+.|++  +|+.+||++++++||..+.++| .++++++|++
T Consensus       141 aG~D~~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd-~sg~~i~v~v  219 (246)
T 1iru_A          141 IGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSID-FKPSEIEVGV  219 (246)
T ss_dssp             EEEETTTEEEEEEECTTSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCC-CCTTSEEEEE
T ss_pred             EEEeCCCCeEEEEEcCCeeEEEeeEEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEE
Confidence            99997 789999999999999999999999999999999999999  9999999999999999999999 7899999999


Q ss_pred             EcCCceEEEEecCCCCC
Q psy11707        156 SGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       156 itkdg~~~~~l~~~~~~  172 (177)
                      |+++|.+++.++++|++
T Consensus       220 i~~~g~~~~~l~~~ei~  236 (246)
T 1iru_A          220 VTVENPKFRILTEAEID  236 (246)
T ss_dssp             EETTEEEEEECCHHHHH
T ss_pred             EECCCCeEEECCHHHHH
Confidence            99999888899887764

>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=1.2e-40  Score=253.41  Aligned_cols=169  Identities=27%  Similarity=0.370  Sum_probs=159.8

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.++ +||++++|+||||
T Consensus        26 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~-~p~~v~~lvaG~D  104 (199)
T 3unf_N           26 VVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKYR-EDLLAHLIVAGWD  104 (199)
T ss_dssp             EEESSCCCEEEEETTEEEEECSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHTT-TTCCCCEEEEEEE
T ss_pred             eEccccCceEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcC-CCceEEEEEEEEe
Confidence            456789999999999999999999999999999999999999999999999999999999999986 4999999999999


Q ss_pred             C-CCCeEEEEcCCCceeeec-eeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCc
Q psy11707         83 K-RGPQLYYVDSDGQRIKGN-VFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQW  160 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg  160 (177)
                      + ++|+||.  |+|++..+. +.++|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|
T Consensus       105 ~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~~sg~~i~v~vi~~~g  182 (199)
T 3unf_N          105 QREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLVTITAAG  182 (199)
T ss_dssp             TTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEECSSC
T ss_pred             CCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCC
Confidence            7 6799999  999988775 55569999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEecCCCCCCC
Q psy11707        161 NQGRFLGHQKGPNS  174 (177)
Q Consensus       161 ~~~~~l~~~~~~~~  174 (177)
                      ++++.|+++|+|.+
T Consensus       183 ~~~~~l~~~ei~~~  196 (199)
T 3unf_N          183 VDHRVILGDELPKF  196 (199)
T ss_dssp             EEEEEECGGGSCCC
T ss_pred             EEEEEcCcccCccc
Confidence            99999999999875

>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=6.1e-41  Score=260.89  Aligned_cols=167  Identities=18%  Similarity=0.180  Sum_probs=157.7

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.|++    |||++++|+
T Consensus        56 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lv  135 (233)
T 1iru_B           56 YDERSVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLI  135 (233)
T ss_dssp             BCSTTCCSSEESSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEE
T ss_pred             cccccCCeEEEECCCEEEEEEEccHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEE
Confidence            4567889999999999999999999999999999999999999999999999999999999999876    699999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      ||||++||+||.+||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.++| .++++++|++|++
T Consensus       136 aG~D~~gp~Ly~id~~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d-~sg~~i~v~vi~~  214 (233)
T 1iru_B          136 CGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQ-MTEDNIEVGICNE  214 (233)
T ss_dssp             EEECSSSEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSC-CCSSSEEEEEEET
T ss_pred             EEEeCCCCeEEEECCCCCEEEeeEEEECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhcc-CCCCCEEEEEEEC
Confidence            999988999999999999999999999999999999999999999999999999999999999999 6789999999999


Q ss_pred             CceEEEEecCCCCC
Q psy11707        159 QWNQGRFLGHQKGP  172 (177)
Q Consensus       159 dg~~~~~l~~~~~~  172 (177)
                      +|  .+.++++|++
T Consensus       215 ~g--~~~l~~~ei~  226 (233)
T 1iru_B          215 AG--FRRLTPTEVK  226 (233)
T ss_dssp             TE--EEECCHHHHH
T ss_pred             CC--EEECCHHHHH
Confidence            98  5567776654

>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K 1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J* 2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J* 3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ...

Probab=100.00  E-value=2.1e-40  Score=251.91  Aligned_cols=164  Identities=20%  Similarity=0.244  Sum_probs=154.8

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC--CCceEEEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG--TGLSMGMMIAGW   81 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~--~P~~v~~lvaG~   81 (177)
                      .+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.+++++++++|.+++  +||++++|+|||
T Consensus        28 ~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~~r~p~~v~~lvaG~  107 (198)
T 1ryp_K           28 LKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGY  107 (198)
T ss_dssp             EESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTSSSCCCEEEEEEEE
T ss_pred             EecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEE
Confidence            456889999999999999999999999999999999999999999999999999999999999865  499999999999


Q ss_pred             eC--CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         82 DK--RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        82 d~--~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      |+  +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++
T Consensus       108 D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~  187 (198)
T 1ryp_K          108 DKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVKIVDKD  187 (198)
T ss_dssp             ETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEEETT
T ss_pred             eCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhCccCCCceEEEEEcCC
Confidence            95  7899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEEecCC
Q psy11707        160 WNQGRFLGHQ  169 (177)
Q Consensus       160 g~~~~~l~~~  169 (177)
                      |.+  .+++.
T Consensus       188 g~~--~~~~~  195 (198)
T 1ryp_K          188 GIR--QVDDF  195 (198)
T ss_dssp             EEE--EECCC
T ss_pred             CEE--Eeccc
Confidence            755  45543

>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=2.7e-41  Score=264.45  Aligned_cols=167  Identities=14%  Similarity=0.094  Sum_probs=157.4

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+|+++++++|.|++    |||+|++|+
T Consensus        55 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lv  134 (243)
T 1ryp_A           55 LDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTF  134 (243)
T ss_dssp             BCGGGCCSEEECSSSCEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEE
T ss_pred             cCCCcCCceEEECCCEEEEEEecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEE
Confidence            4567889999999999999999999999999999999999999999999999999999999977654    699999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC-------CCCHHHHHHHHHHHHHHHHhccCCCCCc
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW-------NLTDEEAHQLARKSIYHATYRDFASGGL  150 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~-------~~s~~ea~~l~~~~l~~~~~~d~~~g~~  150 (177)
                      ||||+ .||+||++||+|++.++++.|+|+|+..++++||+.|++       +||.+||++++++||..+.++| .++++
T Consensus       135 aG~D~~~gp~Ly~~dp~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd-~s~~~  213 (243)
T 1ryp_A          135 VSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTE-FSKND  213 (243)
T ss_dssp             EEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCC-CCTTS
T ss_pred             EEEcCCCCcEEEEEcCCCCEEEEEEEEECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhccc-CCCCc
Confidence            99996 789999999999999999999999999999999999998       9999999999999999999999 68999


Q ss_pred             EEEEEEcCCceEEEEecCCCCC
Q psy11707        151 IRGNASGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       151 iev~iitkdg~~~~~l~~~~~~  172 (177)
                      ++|++|+++|  ++.++++|++
T Consensus       214 iev~vi~~~g--~~~l~~~ei~  233 (243)
T 1ryp_A          214 LEVGVATKDK--FFTLSAENIE  233 (243)
T ss_dssp             EEEEEEETTE--EEECCHHHHH
T ss_pred             EEEEEEECCC--eEECCHHHHH
Confidence            9999999998  6778877654

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

Probab=100.00  E-value=1.5e-40  Score=254.03  Aligned_cols=162  Identities=24%  Similarity=0.358  Sum_probs=156.0

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.+++ ++++.+++++++++|.+|++ |++++|+||||
T Consensus        35 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~-~~v~~la~~l~~~~~~~~~~-~~~~~lvaG~D  112 (205)
T 1ryp_H           35 IANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT-PSTETAASVFKELCYENKDN-LTAGIIVAGYD  112 (205)
T ss_dssp             EEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS-CCHHHHHHHHHHHHHHTTTT-CCEEEEEEEEE
T ss_pred             EEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhhcC-ceEEEEEEEEe
Confidence            44568899999999999999999999999999999999999999999 99999999999999999988 99999999999


Q ss_pred             C-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 K-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      + +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|.
T Consensus       113 ~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~  192 (205)
T 1ryp_H          113 DKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGV  192 (205)
T ss_dssp             TTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEE
T ss_pred             cCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhCCccCCeEEEEEEcCCCE
Confidence            7 789999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             EEEEe
Q psy11707        162 QGRFL  166 (177)
Q Consensus       162 ~~~~l  166 (177)
                      +++.+
T Consensus       193 ~~~~~  197 (205)
T 1ryp_H          193 ERLIF  197 (205)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            87776

>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=1.4e-40  Score=256.69  Aligned_cols=169  Identities=21%  Similarity=0.234  Sum_probs=159.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHH-hcCCCCCHHHHHHHHHHHHHhcC--CCCceEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYEL-RNGERISVAAASKLMCNMAYNYK--GTGLSMGMMIA   79 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~-~~~~~~~~~~la~~i~~~~~~~~--~~P~~v~~lva   79 (177)
                      +.+++.+||++|+++++|+++|..+|++.+.++++.+++.|++ .++.+++++.+++++++++|.++  .+||++++|+|
T Consensus        34 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lva  113 (219)
T 1iru_N           34 ARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIG  113 (219)
T ss_dssp             EEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEE
T ss_pred             EecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhcccCCCceEEEEEE
Confidence            4467889999999999999999999999999999999999998 99999999999999999999876  68999999999


Q ss_pred             EEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC--CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc
Q psy11707         80 GWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW--NLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG  157 (177)
Q Consensus        80 G~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit  157 (177)
                      |||++||+||.+||+|++.++++.|+|+|+++++++||+.|++  +||.+||++++++||..+.++|..++++++|++|+
T Consensus       114 G~D~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~  193 (219)
T 1iru_N          114 GYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVT  193 (219)
T ss_dssp             EEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEE
T ss_pred             EEECCCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEc
Confidence            9998899999999999999999999999999999999999999  99999999999999999999999999999999999


Q ss_pred             CCceEEEEecCCCCCC
Q psy11707        158 QQWNQGRFLGHQKGPN  173 (177)
Q Consensus       158 kdg~~~~~l~~~~~~~  173 (177)
                      ++|.  +.+++++++.
T Consensus       194 ~~g~--~~~~~~~i~~  207 (219)
T 1iru_N          194 EKGV--EIEGPLSTET  207 (219)
T ss_dssp             TTEE--EEEEEECCCC
T ss_pred             CCCE--EEcCCeeccc
Confidence            9984  4677666654

>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=4.7e-41  Score=268.42  Aligned_cols=168  Identities=15%  Similarity=0.069  Sum_probs=159.8

Q ss_pred             CccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEEE
Q psy11707          6 GSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAGW   81 (177)
Q Consensus         6 ~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG~   81 (177)
                      ++.+||++|++||+|+++|+.+|++.+.++++.+++.|++.++.+++++.+|+++++++|.||+    |||+|++|||||
T Consensus        62 ~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~  141 (288)
T 3nzj_F           62 QKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGV  141 (288)
T ss_dssp             TCSCCCEEETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEE
T ss_pred             cccceEEEEcCCEEEEecCcHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEE
Confidence            4679999999999999999999999999999999999999999999999999999999999976    699999999999


Q ss_pred             eCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhc---CCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         82 DKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG---YHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        82 d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~---~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      |++||+||++||+|++.+++++|+|+|+.+++++||+.   |+++||.+||++++++||..+.+++..+++.++|++|++
T Consensus       142 D~~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~  221 (288)
T 3nzj_F          142 DKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSL  221 (288)
T ss_dssp             ETTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEET
T ss_pred             eCCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEe
Confidence            99899999999999999999999999999999999999   999999999999999999999999988889999999999


Q ss_pred             --CceEEEEecCCCCCC
Q psy11707        159 --QWNQGRFLGHQKGPN  173 (177)
Q Consensus       159 --dg~~~~~l~~~~~~~  173 (177)
                        ++..++++|.+++|.
T Consensus       222 ~~~~~~~~~vp~~~~~~  238 (288)
T 3nzj_F          222 SETNGLHKFVKGDLLQE  238 (288)
T ss_dssp             TTSTTCCEECCHHHHHH
T ss_pred             cCCCceEEECCHHHHHH
Confidence              477888999876653

>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=4.3e-40  Score=251.53  Aligned_cols=166  Identities=21%  Similarity=0.222  Sum_probs=156.7

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.++..||++++|+||||
T Consensus        34 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D  113 (205)
T 1iru_J           34 LVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLD  113 (205)
T ss_dssp             EEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHTTTTSCCSCCCEEEEEC
T ss_pred             EeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEe
Confidence            34568899999999999999999999999999999999999999999999999999999999877767999999999999


Q ss_pred             C--CCCeEEEEcCCCceeee-ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         83 K--RGPQLYYVDSDGQRIKG-NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        83 ~--~gp~ly~id~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      +  +||+||.+||+|++.++ .+.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++
T Consensus       114 ~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~  193 (205)
T 1iru_J          114 PKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKD  193 (205)
T ss_dssp             TTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESS
T ss_pred             CCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHhCcccCCceEEEEEcCC
Confidence            5  78999999999999776 56999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEEecC
Q psy11707        160 WNQGRFLGH  168 (177)
Q Consensus       160 g~~~~~l~~  168 (177)
                      |.+++.++.
T Consensus       194 g~~~~~~~~  202 (205)
T 1iru_J          194 KITTRTLKA  202 (205)
T ss_dssp             BEEEEEBCC
T ss_pred             CEEEEEeec
Confidence            999888764

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

Probab=100.00  E-value=1.5e-40  Score=260.36  Aligned_cols=170  Identities=19%  Similarity=0.221  Sum_probs=159.4

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC----CCCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK----GTGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~----~~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.|+    .|||++++|+
T Consensus        57 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lv  136 (244)
T 1ryp_C           57 EQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIY  136 (244)
T ss_dssp             CSTTCCSSEEESSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEE
T ss_pred             cCCCCCCcEEEECCCEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEE
Confidence            347789999999999999999999999999999999999999999999999999999999998875    3699999999


Q ss_pred             EEEe-CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc
Q psy11707         79 AGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG  157 (177)
Q Consensus        79 aG~d-~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit  157 (177)
                      |||| ++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++|+.+||++++++||..+.++|..++++++|++|+
T Consensus       137 aG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~  216 (244)
T 1ryp_C          137 AGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIR  216 (244)
T ss_dssp             EEEETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEE
T ss_pred             EEEcCCCCCEEEEECCCccEEeeeEEEECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEE
Confidence            9999 678999999999999999999999999999999999999999999999999999999999966679999999999


Q ss_pred             --CCceE--EEEecCCCCC
Q psy11707        158 --QQWNQ--GRFLGHQKGP  172 (177)
Q Consensus       158 --kdg~~--~~~l~~~~~~  172 (177)
                        ++|.+  ++.|+.+|+.
T Consensus       217 ~~~~~~~~~~~~l~~~ei~  235 (244)
T 1ryp_C          217 KGANDGEVYQKIFKPQEIK  235 (244)
T ss_dssp             CCSSSSSCEEEECCHHHHH
T ss_pred             eecCCCceeEEECCHHHHH
Confidence              99875  7888877653

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

Probab=100.00  E-value=2.2e-40  Score=264.39  Aligned_cols=167  Identities=53%  Similarity=0.922  Sum_probs=158.5

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      |.+++.+||++|+++++|+++|..+|++.+.++++.+++.|+++++++++++.+++++++++|.+|++||++++|+||||
T Consensus       101 i~~~~~~KI~~I~d~i~~~~aG~~AD~~~l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~~p~~v~~lvaG~D  180 (287)
T 3nzj_K          101 VASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYT  180 (287)
T ss_dssp             EEESCCCCEEEEETTEEEECEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEE
T ss_pred             eecCCcceEEEEcCcEEEEecCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcCCCceEEEEEEEEc
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             -CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 -KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 -~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                       .+||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.+||..+|+.++|++|++||.
T Consensus       181 ~~~gp~Ly~iDp~G~~~~~~~~AiGsgs~~a~~~Le~~y~~dms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkdg~  260 (287)
T 3nzj_K          181 RKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGW  260 (287)
T ss_dssp             TTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEE
T ss_pred             CCCCCEEEEECCCceEEEcCeEEEecchHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCCCE
Confidence             5789999999999999999999999999999999999999999999999999999999999999999999999999974


Q ss_pred             EEEEecCCCC
Q psy11707        162 QGRFLGHQKG  171 (177)
Q Consensus       162 ~~~~l~~~~~  171 (177)
                      +  .++++++
T Consensus       261 ~--~l~~~ev  268 (287)
T 3nzj_K          261 I--YHGNHDV  268 (287)
T ss_dssp             E--EEEEEEH
T ss_pred             E--EeCHHHH
Confidence            4  5655443

>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=1.5e-39  Score=256.63  Aligned_cols=157  Identities=24%  Similarity=0.339  Sum_probs=151.9

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.+++++++.++.++ +||++++|+||||
T Consensus        55 i~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~-~~~gv~llvaG~D  133 (261)
T 3nzj_H           55 VADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ-GHIGAYLIVAGVD  133 (261)
T ss_dssp             EEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTT-TCSCEEEEEEEEE
T ss_pred             eccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHHhc-CcccEEEEEEEEe
Confidence            456789999999999999999999999999999999999999999999999999999999998874 6899999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCc
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQW  160 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg  160 (177)
                      ++||+||.+||+|++.++++.|+|+|+..++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|
T Consensus       134 ~~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg  211 (261)
T 3nzj_H          134 PTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGK  211 (261)
T ss_dssp             TTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTS
T ss_pred             CCCCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCC
Confidence            989999999999999999999999999999999999999999999999999999999999999999999999999998

>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=1.2e-39  Score=252.04  Aligned_cols=159  Identities=24%  Similarity=0.337  Sum_probs=153.2

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.+++++++.+|.++ +||++++|+||||
T Consensus        26 ~~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~-~p~~v~~lvaG~D  104 (222)
T 1ryp_I           26 VADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ-GHIGAYLIVAGVD  104 (222)
T ss_dssp             EEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTT-TCSCEEEEEEEEE
T ss_pred             eecCCcccEEEecCCEEEEecccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhhcC-CCCCeeEEEEEEe
Confidence            446688999999999999999999999999999999999999999999999999999999999885 7999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCc-e
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQW-N  161 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg-~  161 (177)
                      ++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++|..+++.++|++|+++| .
T Consensus       105 ~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~  184 (222)
T 1ryp_I          105 PTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDA  184 (222)
T ss_dssp             TTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCE
T ss_pred             CCCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHHHHHHHHHHHhccccCCCcEEEEEEECCCCE
Confidence            989999999999999999999999999999999999999999999999999999999999999999999999999999 6


Q ss_pred             E
Q psy11707        162 Q  162 (177)
Q Consensus       162 ~  162 (177)
                      +
T Consensus       185 ~  185 (222)
T 1ryp_I          185 E  185 (222)
T ss_dssp             E
T ss_pred             E
Confidence            5

>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=2e-39  Score=247.65  Aligned_cols=165  Identities=20%  Similarity=0.221  Sum_probs=155.7

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|+ |++|+++|..+|++.+.++++.+++.|+++++.+++++.+++++++++|.++..||++++|+||||
T Consensus        34 ~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~~~~P~~v~~lvaG~D  112 (204)
T 1ryp_J           34 GVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGIN  112 (204)
T ss_dssp             EEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEEC
T ss_pred             EeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEe
Confidence            3456899999999 999999999999999999999999999999999999999999999999877767999999999999


Q ss_pred             C--CCCeEEEEcCCCceeee-ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         83 K--RGPQLYYVDSDGQRIKG-NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        83 ~--~gp~ly~id~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      +  +||+||.+||+|++.++ .+.|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++
T Consensus       113 ~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~  192 (204)
T 1ryp_J          113 SKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAVVYIIKKD  192 (204)
T ss_dssp             TTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESS
T ss_pred             CCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCCCcCHHHHHHHHHHHHHHHHHhCcccCCcEEEEEEcCC
Confidence            5  78999999999999776 66999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEEecC
Q psy11707        160 WNQGRFLGH  168 (177)
Q Consensus       160 g~~~~~l~~  168 (177)
                      |.+++.++-
T Consensus       193 g~~~~~~~~  201 (204)
T 1ryp_J          193 EVVKRYLKM  201 (204)
T ss_dssp             CEEEEEECC
T ss_pred             CEEEEEeec
Confidence            999888764

>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=5e-40  Score=259.73  Aligned_cols=169  Identities=21%  Similarity=0.249  Sum_probs=159.0

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+|+    |||+|++|+
T Consensus        57 ~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lv  136 (261)
T 1iru_C           57 DEVFFSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLY  136 (261)
T ss_dssp             CCCSSCSSEEECSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEE
T ss_pred             ccCCCCccEEEecCCEEEEEeEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEE
Confidence            4556689999999999999999999999999999999999999999999999999999999999975    699999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC-CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW-NLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~-~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      ||||+ .||+||.+||+|++.++++.|+|+|+.+++++||+.|++ +||.+||++++++||..+.++|..++++++|++|
T Consensus       137 aG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi  216 (261)
T 1iru_C          137 IGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATL  216 (261)
T ss_dssp             EEEETTTEEEEEEEETTTEEEECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEE
T ss_pred             EEEeCCCCcEEEEECCCceEEeeeeEEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Confidence            99995 789999999999999999999999999999999999999 9999999999999999999999999999999999


Q ss_pred             cCCceE--EEEecCCCC
Q psy11707        157 GQQWNQ--GRFLGHQKG  171 (177)
Q Consensus       157 tkdg~~--~~~l~~~~~  171 (177)
                      +++|..  ++.++++|+
T Consensus       217 ~~~~~~~~~~~l~~~ei  233 (261)
T 1iru_C          217 TRENGKTVIRVLKQKEV  233 (261)
T ss_dssp             ECCSSSCEEEECCHHHH
T ss_pred             EcCCCeeeEEECCHHHH
Confidence            999753  567776554

>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=7.6e-40  Score=255.92  Aligned_cols=166  Identities=20%  Similarity=0.220  Sum_probs=157.6

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC---------CCceEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG---------TGLSMG   75 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~---------~P~~v~   75 (177)
                      +++.+||++|+++++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.|++         |||+++
T Consensus        61 ~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~  140 (241)
T 1iru_E           61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVA  140 (241)
T ss_dssp             TTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEE
T ss_pred             ccccceEEEEcCCEEEEEeeChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEE
Confidence            67889999999999999999999999999999999999999999999999999999999988864         599999


Q ss_pred             EEEEEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         76 MMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        76 ~lvaG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      +|+||||++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++ ..++++++|++
T Consensus       141 ~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~v  219 (241)
T 1iru_E          141 LLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEE-KLNATNIELAT  219 (241)
T ss_dssp             EEEEEEETTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEE
T ss_pred             EEEEEEeCCCCEEEEECCCCcEEecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCCEEEEE
Confidence            99999998889999999999999999999999999999999999999999999999999999999998 66799999999


Q ss_pred             EcCCceEEEEecCCCCC
Q psy11707        156 SGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       156 itkdg~~~~~l~~~~~~  172 (177)
                      |+++|. ++.++++|+.
T Consensus       220 i~~~~~-~~~l~~~ei~  235 (241)
T 1iru_E          220 VQPGQN-FHMFTKEELE  235 (241)
T ss_dssp             ECSSSC-CEECCHHHHH
T ss_pred             EECCCC-eEECCHHHHH
Confidence            999987 7788877654

>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=2.4e-39  Score=252.13  Aligned_cols=159  Identities=24%  Similarity=0.349  Sum_probs=152.6

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.+++++++.+|.++ +||++++|+||||
T Consensus        26 ~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-~~~~v~llvaG~D  104 (234)
T 1iru_I           26 VADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYR-GYIGAALVLGGVD  104 (234)
T ss_dssp             EEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTT-TCSCEEEEEEEEC
T ss_pred             eccCcccceEEecCCEEEEecCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC-CCCceeEEEEEEc
Confidence            345688999999999999999999999999999999999999999999999999999999999886 5899999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++||+||.+||+|++.++++.|+|+|+..++++||+.|+++||.+||++++++||..+.++|..++++++|++|+++|++
T Consensus       105 ~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~a~~~d~~sg~~i~v~vi~k~g~~  184 (234)
T 1iru_I          105 VTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLD  184 (234)
T ss_dssp             SSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEETTEEE
T ss_pred             CCCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCcEE
Confidence            98999999999999999999999999999999999999999999999999999999999999999999999999999865

>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=9.6e-40  Score=255.47  Aligned_cols=166  Identities=24%  Similarity=0.254  Sum_probs=156.7

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC----------CCCceE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK----------GTGLSM   74 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~----------~~P~~v   74 (177)
                      +++.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.||          .|||++
T Consensus        53 ~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v  132 (242)
T 1ryp_E           53 SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGV  132 (242)
T ss_dssp             GGGCCCEEEEETTEEEEEEESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSE
T ss_pred             CccCCceEEEcCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceE
Confidence            6788999999999999999999999999999999999999999999999999999999999875          459999


Q ss_pred             EEEEEEEe-CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEE
Q psy11707         75 GMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRG  153 (177)
Q Consensus        75 ~~lvaG~d-~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev  153 (177)
                      ++|+|||| .+||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++ ..++++++|
T Consensus       133 ~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v  211 (242)
T 1ryp_E          133 ALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEE-KLDENNAQL  211 (242)
T ss_dssp             EEEEEEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEE
T ss_pred             EEEEEEEeCCCCCEEEEECCCCCEeccCEEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEE
Confidence            99999999 6789999999999999999999999999999999999999999999999999999999998 667899999


Q ss_pred             EEEcCCceEEEEecCCCCC
Q psy11707        154 NASGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       154 ~iitkdg~~~~~l~~~~~~  172 (177)
                      ++|+++|. ++.++++|+.
T Consensus       212 ~vi~~~~~-~~~~~~~ei~  229 (242)
T 1ryp_E          212 SCITKQDG-FKIYDNEKTA  229 (242)
T ss_dssp             EEEETTTE-EEECCHHHHH
T ss_pred             EEEECCCC-eEECCHHHHH
Confidence            99999986 7788877653

>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=2.7e-39  Score=252.83  Aligned_cols=166  Identities=16%  Similarity=0.179  Sum_probs=155.8

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+|+++++++|.+++    |||++++|+
T Consensus        54 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lv  133 (241)
T 1ryp_D           54 DTRITPSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI  133 (241)
T ss_dssp             CTTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEE
T ss_pred             cccCCcCcEEEecCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEE
Confidence            4455899999999999999999999999999999999999999999999999999999999999875    599999999


Q ss_pred             EEEeC--CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcC---CCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEE
Q psy11707         79 AGWDK--RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY---HWNLTDEEAHQLARKSIYHATYRDFASGGLIRG  153 (177)
Q Consensus        79 aG~d~--~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~---~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev  153 (177)
                      ||||+  .||+||.+||+|++.++++.|+|+|+.+++++||+.|   +++||.+||++++++||..+.+   .++++++|
T Consensus       134 aG~D~~~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~---~sg~~i~v  210 (241)
T 1ryp_D          134 AGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ---TGAKNIEI  210 (241)
T ss_dssp             EECCTTCCSCEEEEECTTSCEEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC---SCSTTEEE
T ss_pred             EEEcCCCCCeeEEEECCCCCEEEeeeEEECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc---CCCCcEEE
Confidence            99997  7899999999999999999999999999999999999   9999999999999999999986   67899999


Q ss_pred             EEEcCCceEEEEecCCCCC
Q psy11707        154 NASGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       154 ~iitkdg~~~~~l~~~~~~  172 (177)
                      ++|+++| .++.++++|++
T Consensus       211 ~vi~~~~-~~~~l~~~ei~  228 (241)
T 1ryp_D          211 TVVKPDS-DIVALSSEEIN  228 (241)
T ss_dssp             EEEETTT-EEEECCHHHHH
T ss_pred             EEEECCC-cEEECCHHHHH
Confidence            9999997 46788877654

>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=8.4e-40  Score=258.66  Aligned_cols=166  Identities=14%  Similarity=0.164  Sum_probs=156.6

Q ss_pred             CccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEEE
Q psy11707          6 GSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAGW   81 (177)
Q Consensus         6 ~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG~   81 (177)
                      ++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.|++    |||+|++|||||
T Consensus        58 ~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~  137 (263)
T 1iru_F           58 AHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGY  137 (263)
T ss_dssp             CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEE
T ss_pred             cchhcEEEEcCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEE
Confidence            4779999999999999999999999999999999999999999999999999999999998763    799999999999


Q ss_pred             eCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC--CCCHHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEcC
Q psy11707         82 DKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW--NLTDEEAHQLARKSIYHATYRD-FASGGLIRGNASGQ  158 (177)
Q Consensus        82 d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~~s~~ea~~l~~~~l~~~~~~d-~~~g~~iev~iitk  158 (177)
                      |++||+||.+||+|++.++++.|+|+|+.+++++||+.|++  +||.+||++++++||..+.++| ..++++++|++|++
T Consensus       138 D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~  217 (263)
T 1iru_F          138 DDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGK  217 (263)
T ss_dssp             ETTEEEEEEECSSSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEET
T ss_pred             cCCCCEEEEECCCCCEEEeeEEEcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEC
Confidence            99899999999999999999999999999999999999998  9999999999999999999999 47899999999999


Q ss_pred             CceEEEEecCCCCC
Q psy11707        159 QWNQGRFLGHQKGP  172 (177)
Q Consensus       159 dg~~~~~l~~~~~~  172 (177)
                      ++ .++.++++|++
T Consensus       218 ~~-~~~~l~~~ei~  230 (263)
T 1iru_F          218 DL-EFTIYDDDDVS  230 (263)
T ss_dssp             TE-EEEEECSGGGH
T ss_pred             CC-CeEECCHHHHH
Confidence            95 36788887764

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

Probab=100.00  E-value=1.5e-39  Score=256.14  Aligned_cols=166  Identities=14%  Similarity=0.122  Sum_probs=156.1

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG   80 (177)
                      .++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.||+    |||+|++||||
T Consensus        60 ~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG  139 (254)
T 1iru_G           60 EGSNKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGS  139 (254)
T ss_dssp             TTTTCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEE
T ss_pred             cCcCCcEEEECCCEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEE
Confidence            36789999999999999999999999999999999999999999999999999999999999985    79999999999


Q ss_pred             Ee-CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         81 WD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        81 ~d-~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      || +.||+||++||+|++.++++.|+|+|+.+++++||+.|+++|+.+||++++++||..+.++|..+++.++|++|+++
T Consensus       140 ~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~  219 (254)
T 1iru_G          140 YSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGEL  219 (254)
T ss_dssp             EETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTT
T ss_pred             EeCCCCcEEEEEcCCCCEEeeeeEEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcC
Confidence            99 67899999999999999999999999999999999999999999999999999999999888777889999999988


Q ss_pred             --ceEEEEecCCCC
Q psy11707        160 --WNQGRFLGHQKG  171 (177)
Q Consensus       160 --g~~~~~l~~~~~  171 (177)
                        | .++.++++++
T Consensus       220 ~~g-~~~~l~~~~i  232 (254)
T 1iru_G          220 TNG-RHEIVPKDIR  232 (254)
T ss_dssp             TTT-CCEECCHHHH
T ss_pred             CCC-CeEECCHHHH
Confidence              5 4667776654

>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=8.8e-40  Score=254.40  Aligned_cols=165  Identities=21%  Similarity=0.260  Sum_probs=155.4

Q ss_pred             CccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC----CCCceEEEEEEEE
Q psy11707          6 GSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK----GTGLSMGMMIAGW   81 (177)
Q Consensus         6 ~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~----~~P~~v~~lvaG~   81 (177)
                      ++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.||    .|||+|++|+|||
T Consensus        57 ~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~  136 (233)
T 1ryp_F           57 SYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGY  136 (233)
T ss_dssp             CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEE
T ss_pred             cccCcEEEEcCCEEEEEEechHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEE
Confidence            467999999999999999999999999999999999999999999999999999999998875    4799999999999


Q ss_pred             eCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC--CC--CHHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEE
Q psy11707         82 DKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW--NL--TDEEAHQLARKSIYHATYRD-FASGGLIRGNAS  156 (177)
Q Consensus        82 d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~--~~--s~~ea~~l~~~~l~~~~~~d-~~~g~~iev~ii  156 (177)
                      |++||+||++||+|++.++++.|+|+|+.+++++||+.|++  +|  |.+||+++++++|..+. +| ..++++++|++|
T Consensus       137 D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi  215 (233)
T 1ryp_F          137 DKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIV  215 (233)
T ss_dssp             ETTEEEEEEECTTSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEE
T ss_pred             eCCcCEEEEECCCCCeeeeeEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEE
Confidence            99899999999999999999999999999999999999998  99  99999999999999999 77 568999999999


Q ss_pred             cCCceEEEEecCCCCC
Q psy11707        157 GQQWNQGRFLGHQKGP  172 (177)
Q Consensus       157 tkdg~~~~~l~~~~~~  172 (177)
                      ++++. ++.++++|+.
T Consensus       216 ~~~~~-~~~l~~~ei~  230 (233)
T 1ryp_F          216 GKDTP-FTIYDGEAVA  230 (233)
T ss_dssp             ETTEE-EEEEEGGGGG
T ss_pred             ECCCC-EEECCHHHHH
Confidence            99953 6788888765

>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=3.6e-39  Score=245.71  Aligned_cols=161  Identities=23%  Similarity=0.333  Sum_probs=150.9

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH-HhcC-CCCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA-YNYK-GTGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~-~~~~-~~P~~v~~lvaG   80 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.+++++++.+ +.++ .+||++++|+||
T Consensus        27 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~~~~~l~~~~~~~~p~~~~~lvaG  106 (201)
T 1iru_K           27 QMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAG  106 (201)
T ss_dssp             EEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHTSSSCCCEEEEEEE
T ss_pred             EEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHhcCCCccEEEEEEE
Confidence            34578899999999999999999999999999999999999999999999999999998765 4433 369999999999


Q ss_pred             EeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         81 WDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        81 ~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      ||+ +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++
T Consensus       107 ~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~a~~rd~~sg~~i~v~vi~~~  186 (201)
T 1iru_K          107 YDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVRIIDKN  186 (201)
T ss_dssp             EETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEEETT
T ss_pred             EeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhhccccCCceEEEEEcCC
Confidence            997 6899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEE
Q psy11707        160 WNQG  163 (177)
Q Consensus       160 g~~~  163 (177)
                      |+++
T Consensus       187 g~~~  190 (201)
T 1iru_K          187 GIHD  190 (201)
T ss_dssp             EEEC
T ss_pred             CeEE
Confidence            8763

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

Probab=100.00  E-value=1.8e-39  Score=252.58  Aligned_cols=169  Identities=15%  Similarity=0.151  Sum_probs=158.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHH-----hcCCCCCHHHHHHHHHHHHHhcC--CCCceEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYEL-----RNGERISVAAASKLMCNMAYNYK--GTGLSMG   75 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~-----~~~~~~~~~~la~~i~~~~~~~~--~~P~~v~   75 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++     .++.+++++.+++++++++|.++  .+||+++
T Consensus        34 ~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~  113 (233)
T 1ryp_N           34 LRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNA  113 (233)
T ss_dssp             EEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEE
T ss_pred             eecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchhhcCCCCCHHHHHHHHHHHHHHhcCCCCCceEE
Confidence            4567899999999999999999999999999999999999999     89999999999999999999876  5899999


Q ss_pred             EEEEEEeCC-CCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC-----CCCHHHHHHHHHHHHHHHHhccCCCCC
Q psy11707         76 MMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW-----NLTDEEAHQLARKSIYHATYRDFASGG  149 (177)
Q Consensus        76 ~lvaG~d~~-gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~-----~~s~~ea~~l~~~~l~~~~~~d~~~g~  149 (177)
                      +|+||||++ ||+||.+||+|++.++++.|+|+|+.+++++||+.|++     +||.+||++++++||..+.++|..+++
T Consensus       114 ~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~  193 (233)
T 1ryp_N          114 IIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSR  193 (233)
T ss_dssp             EEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCS
T ss_pred             EEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhhccccccCCCCHHHHHHHHHHHHHHHHHhcccCCC
Confidence            999999975 89999999999999999999999999999999999999     999999999999999999999999999


Q ss_pred             cEEEEEEcCC-ceEEEEecCCCCCC
Q psy11707        150 LIRGNASGQQ-WNQGRFLGHQKGPN  173 (177)
Q Consensus       150 ~iev~iitkd-g~~~~~l~~~~~~~  173 (177)
                      +++|++|+++ |.+  .++++|++.
T Consensus       194 ~i~v~vi~~~~g~~--~~~~~~i~~  216 (233)
T 1ryp_N          194 NFSLAIIDKNTGLT--FKKNLQVEN  216 (233)
T ss_dssp             EEEEEEEETTTEEE--EEEEEECCS
T ss_pred             cEEEEEEECCCCeE--EcChHhccc
Confidence            9999999999 754  566666554

>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=1.3e-38  Score=249.37  Aligned_cols=162  Identities=16%  Similarity=0.082  Sum_probs=152.8

Q ss_pred             ccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEEEe
Q psy11707          7 SMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAGWD   82 (177)
Q Consensus         7 ~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG~d   82 (177)
                      +.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.|++    +||++++|+||||
T Consensus        59 ~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D  138 (244)
T 1ryp_G           59 KNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVD  138 (244)
T ss_dssp             TSCCCEEETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEE
T ss_pred             ccCceEEecCCEEEEEcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEe
Confidence            459999999999999999999999999999999999999999999999999999999999865    7999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhc---CCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC-
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG---YHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ-  158 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~---~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk-  158 (177)
                      ++||+||.+||+|++.++++.|+|+|+.+++++||+.   |+++||.+||++++++||..+.++|..++++++|++|++ 
T Consensus       139 ~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~  218 (244)
T 1ryp_G          139 KNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLS  218 (244)
T ss_dssp             TTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETT
T ss_pred             CCcCEEEEECCCCCEEEeeEEEECCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEec
Confidence            8899999999999999999999999999999999997   999999999999999999999999999999999999998 


Q ss_pred             --CceEEEEecCC
Q psy11707        159 --QWNQGRFLGHQ  169 (177)
Q Consensus       159 --dg~~~~~l~~~  169 (177)
                        +|. ++..|.+
T Consensus       219 ~~~g~-~~~~~~~  230 (244)
T 1ryp_G          219 ETNGL-HKFVKGD  230 (244)
T ss_dssp             TTTTS-EEECCTH
T ss_pred             CCCCe-eeeChHH
Confidence              664 4456654

>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=5.2e-39  Score=251.84  Aligned_cols=166  Identities=13%  Similarity=0.095  Sum_probs=148.9

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHH-HHHHhcC--CCCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNG-ERISVAAASKLMC-NMAYNYK--GTGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~la~~i~-~~~~~~~--~~P~~v~~lvaG   80 (177)
                      +++.+|||+|++|++|+++|+.+|++.+.+.++.+++.|++.++ .+++++.++++++ .+.|.|+  .|||+|++||||
T Consensus        47 ~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~gv~~liaG  126 (248)
T 3mi0_A           47 SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAE  126 (248)
T ss_dssp             CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEE
T ss_pred             CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEE
Confidence            45789999999999999999999999999999999999999999 8999999999999 5566665  589999999999


Q ss_pred             EeC----CCCeEEEEcCCCceee-eceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHH-------hccCCCC
Q psy11707         81 WDK----RGPQLYYVDSDGQRIK-GNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHAT-------YRDFASG  148 (177)
Q Consensus        81 ~d~----~gp~ly~id~~G~~~~-~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~-------~~d~~~g  148 (177)
                      ||+    +||+||++||+|++.+ |++.|+|+|+..++++||++|+++|+.+||++++++||..+.       +++ .++
T Consensus       127 ~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~~Le~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~-~~~  205 (248)
T 3mi0_A          127 VAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDALRIAVAALRAGSADTSGGDQPT-LGV  205 (248)
T ss_dssp             CCCTTCCCCCEEEEECTTSCEEEESSEEEESSCHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC-------------CC
T ss_pred             EcCCCCCCCCEEEEECCCeEEeecccEEEECccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcccCcccc-cCC
Confidence            998    7899999999999995 999999999999999999999999999999999999999998       444 567


Q ss_pred             CcEEEEEEcCCc--eEEEEecCCCC
Q psy11707        149 GLIRGNASGQQW--NQGRFLGHQKG  171 (177)
Q Consensus       149 ~~iev~iitkdg--~~~~~l~~~~~  171 (177)
                      ++++|++|+++|  .+++.|+++|+
T Consensus       206 ~~iev~vv~~~g~~~~f~~l~~~ei  230 (248)
T 3mi0_A          206 ASLEVAVLDANRPRRAFRRITGSAL  230 (248)
T ss_dssp             TTEEEEEEETTSSSCCEEECCHHHH
T ss_pred             CcEEEEEEECCCCcccEEECCHHHH
Confidence            899999999996  45777877654

>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=6.3e-39  Score=251.44  Aligned_cols=166  Identities=16%  Similarity=0.206  Sum_probs=155.5

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIA   79 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lva   79 (177)
                      .+++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.|++    |||++++|+|
T Consensus        60 ~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lva  139 (246)
T 1j2p_A           60 EKDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIA  139 (246)
T ss_dssp             CGGGCCSEEECSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEE
T ss_pred             ccCccCcEEEECCCEEEEEeEccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEE
Confidence            367889999999999999999999999999999999999999999999999999999999999876    5999999999


Q ss_pred             EEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc-C
Q psy11707         80 GWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG-Q  158 (177)
Q Consensus        80 G~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit-k  158 (177)
                      ||| +||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++ ..++++++|++|+ +
T Consensus       140 G~D-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~  217 (246)
T 1j2p_A          140 GVN-EVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIES-ELVPENIEVGYVKVD  217 (246)
T ss_dssp             EES-SSEEEEEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTS-CCCGGGEEEEEEETT
T ss_pred             EEC-CCCEEEEECCCceEEeeeEEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEEcC
Confidence            999 899999999999999999999999999999999999999999999999999999999997 7789999999999 6


Q ss_pred             CceEEEEecCCCCC
Q psy11707        159 QWNQGRFLGHQKGP  172 (177)
Q Consensus       159 dg~~~~~l~~~~~~  172 (177)
                      ++ .++.++++|++
T Consensus       218 ~~-~~~~l~~~ei~  230 (246)
T 1j2p_A          218 DR-TFKEVSPEELK  230 (246)
T ss_dssp             TC-CCEECCHHHHH
T ss_pred             CC-ceEECCHHHHH
Confidence            53 45678777654

>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=2.5e-39  Score=254.02  Aligned_cols=166  Identities=18%  Similarity=0.269  Sum_probs=155.0

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.|++    |||+|++||
T Consensus        54 ~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lv  133 (248)
T 1iru_D           54 QDERTVRKICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALI  133 (248)
T ss_dssp             SCGGGGCSEEESSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEE
T ss_pred             ccCCCCCcEEEEcCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEE
Confidence            4557889999999999999999999999999999999999999999999999999999999999986    599999999


Q ss_pred             EEEe-CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         79 AGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL--TDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        79 aG~d-~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~--s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      |||| ++||+||.+||+|++.++++.|+|+|+.+++++||+.|+++|  |.+||++++++||..+.+   .++++++|++
T Consensus       134 aG~D~~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~---~sg~~i~v~v  210 (248)
T 1iru_D          134 VGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ---SGGKNIELAV  210 (248)
T ss_dssp             EEECSSSCEEEEEECTTSCEEEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC---TTSTTCCEEE
T ss_pred             EEEeCCCCcEEEEEcCCCcEEEeeEEEECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc---CCCCcEEEEE
Confidence            9999 688999999999999999999999999999999999999999  999999999999998886   4688999999


Q ss_pred             EcCCceEEEEecCCCCC
Q psy11707        156 SGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       156 itkdg~~~~~l~~~~~~  172 (177)
                      |+++| .++.++++|++
T Consensus       211 i~~~g-~~~~l~~~ei~  226 (248)
T 1iru_D          211 MRRDQ-SLKILNPEEIE  226 (248)
T ss_dssp             EESSS-CEECCCHHHHH
T ss_pred             EECCC-cEEECCHHHHH
Confidence            99998 36677766654

>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=1.6e-38  Score=247.60  Aligned_cols=167  Identities=23%  Similarity=0.295  Sum_probs=154.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC---CCCceEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK---GTGLSMGMMIA   79 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~---~~P~~v~~lva   79 (177)
                      +.+++.+||++|+++++|++||..+|++.+.++++.+++.|++.++.+++++.+++.+++++|.++   .|||+|++|+|
T Consensus        26 ~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~rp~~v~~lva  105 (235)
T 1q5q_H           26 IASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLV  105 (235)
T ss_dssp             EEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHHHTTTCCEEEEEE
T ss_pred             EecCCcCcEEEeCCcEEEEcCCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHHHHHHHHHHHHHHhhhcccceEEEEE
Confidence            346788999999999999999999999999999999999999999999999999999999999987   47999999999


Q ss_pred             EEeCC-C-----CeEEEEcCCCceeee--ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCc-
Q psy11707         80 GWDKR-G-----PQLYYVDSDGQRIKG--NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGL-  150 (177)
Q Consensus        80 G~d~~-g-----p~ly~id~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~-  150 (177)
                      |||++ +     |+||.+||+|++.++  ++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++|..+|+. 
T Consensus       106 G~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~a~~~d~~sg~~~  185 (235)
T 1q5q_H          106 GYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPD  185 (235)
T ss_dssp             EECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTTCCCB
T ss_pred             EEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhCcccCCcc
Confidence            99975 7     999999999999999  99999999999999999999999999999999999999999999987753 


Q ss_pred             -E-----EEEEEcCCceEEEEecCCCC
Q psy11707        151 -I-----RGNASGQQWNQGRFLGHQKG  171 (177)
Q Consensus       151 -i-----ev~iitkdg~~~~~l~~~~~  171 (177)
                       +     +|++|+++|.  +.++++|+
T Consensus       186 ~i~~~~~ev~vi~~~g~--~~l~~~ei  210 (235)
T 1q5q_H          186 LTRGIYPTAVTITQAGA--VHVSEETT  210 (235)
T ss_dssp             TTTTBCCEEEEEETTEE--EECCHHHH
T ss_pred             cccccccEEEEEeCCCe--EEeCHHHH
Confidence             2     9999999974  45665543

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=1.5e-38  Score=251.92  Aligned_cols=169  Identities=15%  Similarity=0.151  Sum_probs=157.8

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHH-----hcCCCCCHHHHHHHHHHHHHhcC--CCCceEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYEL-----RNGERISVAAASKLMCNMAYNYK--GTGLSMG   75 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~-----~~~~~~~~~~la~~i~~~~~~~~--~~P~~v~   75 (177)
                      +.+++.+||++|+++++|+++|..+|++.+.++++.+++.|++     .++.+++++.+++++++++|.++  .+||+|+
T Consensus        67 i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~  146 (266)
T 1g0u_M           67 LRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNA  146 (266)
T ss_dssp             EEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEE
T ss_pred             eecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhccchhhcCCCCCHHHHHHHHHHHHHHhccCCCCceEE
Confidence            4567899999999999999999999999999999999999998     89999999999999999999876  5899999


Q ss_pred             EEEEEEeCC-CCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC-----CCCHHHHHHHHHHHHHHHHhccCCCCC
Q psy11707         76 MMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW-----NLTDEEAHQLARKSIYHATYRDFASGG  149 (177)
Q Consensus        76 ~lvaG~d~~-gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~-----~~s~~ea~~l~~~~l~~~~~~d~~~g~  149 (177)
                      +||||||++ ||+||.+||+|++.++++.|+|+|+.+++++||+.|++     +||.+||++++++||..+.++|..+++
T Consensus       147 ~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~  226 (266)
T 1g0u_M          147 IIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSR  226 (266)
T ss_dssp             EEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHHHHHTTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCS
T ss_pred             EEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHHHHHHHhhcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            999999975 89999999999999999999999999999999999999     999999999999999999999999999


Q ss_pred             cEEEEEEcCC-ceEEEEecCCCCCC
Q psy11707        150 LIRGNASGQQ-WNQGRFLGHQKGPN  173 (177)
Q Consensus       150 ~iev~iitkd-g~~~~~l~~~~~~~  173 (177)
                      .++|++|+++ |.+  .++++|++.
T Consensus       227 ~i~v~vI~k~~g~~--~~~~~ei~~  249 (266)
T 1g0u_M          227 NFSLAIIDKNTGLT--FKKNLQVEN  249 (266)
T ss_dssp             EEEEEEEETTTEEE--EEEEEECCC
T ss_pred             cEEEEEEECCCCeE--EcCHHHhhh
Confidence            9999999999 754  566655554

>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=6.6e-38  Score=246.18  Aligned_cols=168  Identities=21%  Similarity=0.220  Sum_probs=155.0

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHH-HHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL-YELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMM   77 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~-~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~l   77 (177)
                      +.+++.+||++|++|++|++||..+|++.+.++++.+++. |+..++.+++++.+++.++++++.+++    |||++++|
T Consensus        56 ~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~l  135 (250)
T 1ryp_B           56 AMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLL  135 (250)
T ss_dssp             BCGGGCCSSEEEETTEEEEEEECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEE
T ss_pred             ccCcccCceEEECCCEEEEeeeCHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEE
Confidence            4567889999999999999999999999999999999999 999999999999999999999988875    69999999


Q ss_pred             EEEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         78 IAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        78 vaG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +||||+ +||+||.+||+|++.++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.+++. ++++++|++|
T Consensus       136 vaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~-sg~~i~v~vi  214 (250)
T 1ryp_B          136 IAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NGDTIELAII  214 (250)
T ss_dssp             EEEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCC-STTTEEEEEE
T ss_pred             EEEEcCCCCcEEEEECCCCCEEeeceeEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhcccc-CCCCEEEEEE
Confidence            999997 68999999999999999999999999999999999999999999999999999999998765 7999999999


Q ss_pred             cCCc--------------eEEEEecCCCC
Q psy11707        157 GQQW--------------NQGRFLGHQKG  171 (177)
Q Consensus       157 tkdg--------------~~~~~l~~~~~  171 (177)
                      ++++              ..++.|+++|+
T Consensus       215 ~~~~~~~~~~~~~~~~~~~~~~~l~~~ei  243 (250)
T 1ryp_B          215 GDENPDLLGYTGIPTDKGPRFRKLTSQEI  243 (250)
T ss_dssp             CSCCGGGTSEESCSSCCCCSEEECCHHHH
T ss_pred             EccccccccccccccCCCCCeEECCHHHH
Confidence            9973              23667776654

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A

Probab=100.00  E-value=3.1e-38  Score=249.19  Aligned_cols=168  Identities=14%  Similarity=0.137  Sum_probs=150.3

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHH-HHHhc--CCCCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNG-ERISVAAASKLMCN-MAYNY--KGTGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~la~~i~~-~~~~~--~~~P~~v~~lvaG   80 (177)
                      +++.+||++|++||+|+++|..+|++.+.++++.+++.|++.++ .+++++.+++++++ +.|.|  +.+||+|++||||
T Consensus        47 s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~~v~~lvaG  126 (259)
T 1q5q_A           47 STALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAE  126 (259)
T ss_dssp             CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEE
T ss_pred             CCCcCcEEEeCCCEEEEEccCHHHHHHHHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEE
Confidence            36789999999999999999999999999999999999999988 49999999999999 44444  5689999999999


Q ss_pred             Ee----CCCCeEEEEcCCCcee-eeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHH-----hccCCCCCc
Q psy11707         81 WD----KRGPQLYYVDSDGQRI-KGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHAT-----YRDFASGGL  150 (177)
Q Consensus        81 ~d----~~gp~ly~id~~G~~~-~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~-----~~d~~~g~~  150 (177)
                      ||    ..||+||++||+|++. ++++.|+|+|+..++++||+.|+++|+.+||++++++||..+.     ++|. ++++
T Consensus       127 ~D~~~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~-sg~~  205 (259)
T 1q5q_A          127 VGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNV-DVAS  205 (259)
T ss_dssp             CCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------C-CSSC
T ss_pred             EcccCCCCCCEEEEECCCCceeeCCCEEEECCChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccC-CCCc
Confidence            99    6889999999999999 8899999999999999999999999999999999999999998     8898 8999


Q ss_pred             EEEEEEcCCce--EEEEecCCCCCC
Q psy11707        151 IRGNASGQQWN--QGRFLGHQKGPN  173 (177)
Q Consensus       151 iev~iitkdg~--~~~~l~~~~~~~  173 (177)
                      ++|++|+++|.  .++.++++|++.
T Consensus       206 iev~vi~~~~~~~~~~~l~~~ei~~  230 (259)
T 1q5q_A          206 LEVAVLDQSRPRRAFRRIAGTALEQ  230 (259)
T ss_dssp             SEEEEEETTSSSCCEEECCHHHHHT
T ss_pred             EEEEEEECCCCcCCeEECCHHHHHH
Confidence            99999999952  456677766544

>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=4.8e-38  Score=251.66  Aligned_cols=166  Identities=23%  Similarity=0.313  Sum_probs=154.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC---CCceEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG---TGLSMGMMIA   79 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~---~P~~v~~lva   79 (177)
                      +.+++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++.+++++.++++|++++|.+++   +||+|++|||
T Consensus        91 i~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g~~isv~~la~~la~~l~~~~~~~~rp~~v~lLva  170 (294)
T 1q5r_H           91 IASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLV  170 (294)
T ss_dssp             EEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHHTTTTCEEEEEE
T ss_pred             eecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhCCCCCHHHHHHHHHHHHHHHHhhhcCCcceEEEEE
Confidence            4567889999999999999999999999999999999999999999999999999999999999876   8999999999


Q ss_pred             EEeCC-C-----CeEEEEcCCCceeee--ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCc-
Q psy11707         80 GWDKR-G-----PQLYYVDSDGQRIKG--NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGL-  150 (177)
Q Consensus        80 G~d~~-g-----p~ly~id~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~-  150 (177)
                      |||++ +     |+||++||+|++.++  ++.|+|+|+.+++++||+.|+++|+.+||++++++||..+.++|..+|+. 
T Consensus       171 G~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~Le~~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~  250 (294)
T 1q5r_H          171 GYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPD  250 (294)
T ss_dssp             EECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCB
T ss_pred             EEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccccCCch
Confidence            99975 6     999999999999999  99999999999999999999999999999999999999999999988753 


Q ss_pred             -E-----EEEEEcCCceEEEEecCCC
Q psy11707        151 -I-----RGNASGQQWNQGRFLGHQK  170 (177)
Q Consensus       151 -i-----ev~iitkdg~~~~~l~~~~  170 (177)
                       +     +|++|+++|.+  .++.+|
T Consensus       251 ~ir~i~~ev~vI~~~g~~--~l~~~e  274 (294)
T 1q5r_H          251 LTRGIYPTAVTITQAGAV--HVSEET  274 (294)
T ss_dssp             TTTTBCCEEEEEETTEEE--ECCHHH
T ss_pred             hhcccCCEEEEEECCCEE--EcCHHH
Confidence             5     99999999744  466544

>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=6e-37  Score=245.12  Aligned_cols=167  Identities=23%  Similarity=0.271  Sum_probs=144.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC---CCceEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG---TGLSMGMMIA   79 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~---~P~~v~~lva   79 (177)
                      |.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+++   +||+|++|+|
T Consensus        83 i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~~~~rpf~v~~lva  162 (291)
T 2jay_A           83 ISGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLA  162 (291)
T ss_dssp             --CCCCCCEEEEETTEEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHHHHHHTCCCEEEEE
T ss_pred             eecCCcccEEEeCCcEEEEEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhhhhccccceeEEEE
Confidence            6678899999999999999999999999999999999999999999999999999999999999875   6999999999


Q ss_pred             EEeCC-C-----CeEEEEcCCCcee--eeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCc-
Q psy11707         80 GWDKR-G-----PQLYYVDSDGQRI--KGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGL-  150 (177)
Q Consensus        80 G~d~~-g-----p~ly~id~~G~~~--~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~-  150 (177)
                      |||++ +     |+||++||+|++.  ++++.|+|+|+.+++++||+.|+++||.+||++++++||..+.++|..+++. 
T Consensus       163 G~D~~g~~~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e  242 (291)
T 2jay_A          163 GYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPD  242 (291)
T ss_dssp             EECTTCSCSTTCEEEEEECTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC-----------
T ss_pred             EEeCCCCcCCCCCEEEEECCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcc
Confidence            99974 4     8999999999999  8999999999999999999999999999999999999999999999987763 


Q ss_pred             -E-----EEEEEcCCceEEEEecCCCC
Q psy11707        151 -I-----RGNASGQQWNQGRFLGHQKG  171 (177)
Q Consensus       151 -i-----ev~iitkdg~~~~~l~~~~~  171 (177)
                       +     +|++|+++|.  +.++++|+
T Consensus       243 ~vr~~~~~v~vi~~dg~--~~l~~~ei  267 (291)
T 2jay_A          243 LVRGIFPTAVIIDADGA--VDVPESRI  267 (291)
T ss_dssp             -----CCEEEEEETTEE--EECCHHHH
T ss_pred             cccccCCEEEEEECCCe--EEcCHHHH
Confidence             2     6999999974  45665543

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

Probab=99.97  E-value=5.5e-30  Score=190.93  Aligned_cols=142  Identities=15%  Similarity=0.173  Sum_probs=126.6

Q ss_pred             CCCCccCceEEe-cCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC-CCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEI-NDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG-TGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i-~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~-~P~~v~~lvaG   80 (177)
                      +.+++.+||++| ++|++|+++|..+|++.+.++++.+++.|+.      +....+..+++.++.++. +|+  +++++|
T Consensus        26 i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~r~~--~~~l~g   97 (174)
T 1g3k_A           26 VMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG------HLLKSAVELAKDWRTDRALRKL--EAMLIV   97 (174)
T ss_dssp             EEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------CHHHHHHHHHHHHHHSTTGGGC--CCEEEE
T ss_pred             eEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------cHHHHHHHHHHHHHhccCcCcc--eEEEEE
Confidence            567889999999 9999999999999999999999999999875      445566677777777654 465  467888


Q ss_pred             EeCCCCeEEEEcCCCceeeec---eeEecCCcHHHHHHHHhcCC-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGN---VFSVGSGSVFAFGVLDTGYH-WNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~---~~a~G~gs~~~~~~Le~~~~-~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +|  +|+||.+||+|++.+++   +.|+|+|+++++++||+.|+ ++||.+   +++++||..+.+||..++++++|++|
T Consensus        98 ~d--~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~~---~l~~~al~~a~~rd~~sg~~i~v~~i  172 (174)
T 1g3k_A           98 AD--EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAH---EIVEKSLRIAGDICVFTNTNFTIEEL  172 (174)
T ss_dssp             EC--SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHH---HHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             EC--CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHH---HHHHHHHHHHHHhccccCCceEEEEe
Confidence            87  79999999999999988   99999999999999999999 999965   79999999999999999999999998


Q ss_pred             c
Q psy11707        157 G  157 (177)
Q Consensus       157 t  157 (177)
                      +
T Consensus       173 ~  173 (174)
T 1g3k_A          173 P  173 (174)
T ss_dssp             C
T ss_pred             c
Confidence            5

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

Probab=99.97  E-value=9.4e-30  Score=189.13  Aligned_cols=141  Identities=17%  Similarity=0.211  Sum_probs=124.4

Q ss_pred             CCCCccCceEEe-cCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC-CCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEI-NDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG-TGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i-~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~-~P~~v~~lvaG   80 (177)
                      |.+++.+||++| ++|++|+++|..+|++.+.++++.+++.|+.+     .++.++++. +.++.++. +||++++|++ 
T Consensus        26 i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~~~l~-~~~~~~~~~~~~~~~~lv~-   98 (171)
T 1m4y_A           26 VLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAAVELA-KDWRTDRVLRRLEALLLVA-   98 (171)
T ss_dssp             EEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHHHHHH-HHHHHCTTGGGCCCEEEEE-
T ss_pred             EEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc-----HHHHHHHHH-HHHHHhCCCCceEEEEEEE-
Confidence            567789999999 99999999999999999999999999988744     266666654 45555553 5799998888 


Q ss_pred             EeCCCCeEEEEcCCCceeeec--eeEecCCcHHHHHHHHhcCC-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGN--VFSVGSGSVFAFGVLDTGYH-WNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~--~~a~G~gs~~~~~~Le~~~~-~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                       |  ||+||.+||+|++.+++  +.|+|+|+++++++||+.|+ ++||.   ++++++||..+.+||..++++++|.++
T Consensus        99 -D--~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---~~l~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A           99 -D--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             -C--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             -c--CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---HHHHHHHHHHHHHhCcccCCeEEEEEC
Confidence             5  89999999999999988  99999999999999999999 99997   578999999999999999999999864

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=99.97  E-value=1.5e-29  Score=189.51  Aligned_cols=141  Identities=18%  Similarity=0.194  Sum_probs=124.4

Q ss_pred             CCCCccCceEEe-cCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC-CCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEI-NDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG-TGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i-~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~-~P~~v~~lvaG   80 (177)
                      |.+++.+||++| ++|++|+++|..+|++.+.++++.+++.|+   +  ..+..++ .+++.++.++. |||++++|+| 
T Consensus        32 i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g--~~~~~~~-~l~~~~~~~~~~rp~~~~~lva-  104 (180)
T 2z3b_A           32 VMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G--NLKRAAV-ELAKEWRSDKVLRKLEAMLIVM-  104 (180)
T ss_dssp             EEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T--CHHHHHH-HHHHHHHHCTTGGGCCCCEEEE-
T ss_pred             EecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C--ChHHHHH-HHHHHHHhhhCcCcceEEEEEE-
Confidence            667889999999 999999999999999999999999999987   3  2333333 45666665554 6999999999 


Q ss_pred             EeCCCCeEEEEcCCCceeee--ceeEecCCcHHHHHHHHhcCCC---CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         81 WDKRGPQLYYVDSDGQRIKG--NVFSVGSGSVFAFGVLDTGYHW---NLTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~---~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                         ++|+||.+||+|++.++  ++.|+|+|+++++++||+.|++   +||.+|   ++.+||..+.+||..+|+.++|.+
T Consensus       105 ---d~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~mt~ee---l~~~al~~a~~rd~~sg~~i~v~~  178 (180)
T 2z3b_A          105 ---NQDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASE---IARAALETAGEICVYTNDQIILEE  178 (180)
T ss_dssp             ---CSSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCCHHH---HHHHHHHHHHHHCTTCCSCCEEEE
T ss_pred             ---cCCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCCCCHHH---HHHHHHHHHHHhcCccCCeEEEEE
Confidence               47999999999999984  9999999999999999999998   999999   477999999999999999999998


Q ss_pred             E
Q psy11707        156 S  156 (177)
Q Consensus       156 i  156 (177)
                      |
T Consensus       179 i  179 (180)
T 2z3b_A          179 L  179 (180)
T ss_dssp             E
T ss_pred             E
Confidence            8

---

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	177
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	6e-35
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-34
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-33
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	5e-33
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	8e-33
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	9e-32
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-30
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	4e-30
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-30
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-29
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-29
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	4e-29
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-29
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	7e-29
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-28
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	5e-28
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	6e-28
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-27
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-26
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	4e-26
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	6e-26
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	6e-26
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-25
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-25
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	4e-25
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	5e-25
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	1e-23
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	2e-23
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-23
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	4e-23
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-22
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-22
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	2e-22
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-22
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	6e-22
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	9e-20
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	1e-16

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 201

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  119 bits (299), Expect = 6e-35
 Identities = 101/149 (67%), Positives = 124/149 (83%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++KK++EIN YLLGT+AGGAADC +W+R+LA+QCR+YELRN ERISVAAASKL+ NM
Sbjct: 27  ASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANM 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            Y YKG GLSMG MI GWDKRGP LYYVDS+G RI G  FSVGSGSV+A+GV+D GY ++
Sbjct: 87  VYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYD 146

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           L  E+A+ LAR++IY ATYRD  SGG + 
Sbjct: 147 LEVEQAYDLARRAIYQATYRDAYSGGAVN 175

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 202

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  118 bits (297), Expect = 1e-34
 Identities = 46/150 (30%), Positives = 72/150 (48%), Gaps = 2/150 (1%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           ++    K+  I+D +    +G AAD       +  Q   + +   E   V  A+ L   M
Sbjct: 27  ANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEM 86

Query: 64  AYNYKGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y Y+   L  G++IAGWD + G Q+Y V   G  ++ +    GSGS + +G +D  Y  
Sbjct: 87  CYRYRED-LMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYRE 145

Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            +T EE  Q    ++  A  RD +SGG+IR
Sbjct: 146 GMTKEECLQFTANALALAMERDGSSGGVIR 175

>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 =  116 bits (290), Expect = 2e-33
 Identities = 86/150 (57%), Positives = 113/150 (75%), Gaps = 1/150 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S ++K+++EIN +LLGT+AGGAADC +W+  L  QCRL+ELR  ERISVAAASK++ N+
Sbjct: 27  ASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNL 86

Query: 64  AYNYKGTGLSMGMMIAG-WDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y YKG GLSMG MI G   K GP +YYVDSDG R+KG++F VGSG  FA+GVLD+ Y W
Sbjct: 87  VYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKW 146

Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +L+ E+A  L ++SI  A +RD  SGG + 
Sbjct: 147 DLSVEDALYLGKRSILAAAHRDAYSGGSVN 176

>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 =  115 bits (288), Expect = 5e-33
 Identities = 39/149 (26%), Positives = 70/149 (46%), Gaps = 1/149 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +  +  K+  I+  +    AG AAD     +++     L+ L       V +A +++   
Sbjct: 27  ADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQH 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            + Y+G      +++AG D  G  L+ + + G    G   S+GSGS+ A  VL++ +  +
Sbjct: 87  LFKYQGHI-GAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQD 145

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           LT EEA +LA  +I    + D  SG  + 
Sbjct: 146 LTKEEAIKLASDAIQAGIWNDLGSGSNVD 174

>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 =  114 bits (286), Expect = 8e-33
 Identities = 39/149 (26%), Positives = 70/149 (46%), Gaps = 1/149 (0%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +  +  KI  I+  +    AG AAD     ++++    L+ L  G    V  A++++  M
Sbjct: 27  ADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQM 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
            + Y+G  +   +++ G D  GP LY +   G   K    ++GSGS+ A  V +  +  +
Sbjct: 87  LFRYRGY-IGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPD 145

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           + +EEA  L  ++I    + D  SG  I 
Sbjct: 146 MEEEEAKNLVSEAIAAGIFNDLGSGSNID 174

>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 =  112 bits (281), Expect = 9e-32
 Identities = 32/156 (20%), Positives = 70/156 (44%), Gaps = 9/156 (5%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              S++KIVEI+ ++   ++G  AD          + + +     E ++V + ++ + N+
Sbjct: 53  EPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNL 112

Query: 64  AYNYKGTGLSMG---------MMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFG 114
           A  +       G         ++  G D++GPQL+++D  G  ++ +  ++GS S  A  
Sbjct: 113 ALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQS 172

Query: 115 VLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGL 150
            L   YH ++T +EA + +   +         +  +
Sbjct: 173 SLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNI 208

>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 =  108 bits (270), Expect = 2e-30
 Identities = 41/150 (27%), Positives = 69/150 (46%), Gaps = 3/150 (2%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           ++    K+  ++D +    +G AAD      ++     LY  + G   +  AAS     +
Sbjct: 36  ANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTETAASVFKE-L 94

Query: 64  AYNYKGTGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
            Y  K   L+ G+++AG+D K   ++Y +   G   K      GSGS F +G  D  +  
Sbjct: 95  CYENKDN-LTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRE 153

Query: 123 NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           N++ EE     + S+  A   D +SGG+IR
Sbjct: 154 NMSKEETVDFIKHSLSQAIKWDGSSGGVIR 183

>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 =  107 bits (267), Expect = 4e-30
 Identities = 44/148 (29%), Positives = 74/148 (50%), Gaps = 1/148 (0%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
             + KK+ +I+ Y   T+AG   D     R +  +  LY L+    + + A + L+ NM 
Sbjct: 28  HKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNML 87

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL 124
              K     + +++ G D   P ++ +D+ G  ++    S GSGS F +GVL++ Y   +
Sbjct: 88  NQVKYMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKM 146

Query: 125 TDEEAHQLARKSIYHATYRDFASGGLIR 152
           T +E   L  ++I  A  RD ASGG+I 
Sbjct: 147 TVDEGVDLVIRAISAAKQRDSASGGMID 174

>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 =  107 bits (267), Expect = 5e-30
 Identities = 34/153 (22%), Positives = 58/153 (37%), Gaps = 5/153 (3%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-GERISVAAASKLMCNM 63
             ++ +I+ +N+  +   +G  AD  Y  +VL +     EL   G   S  A    +   
Sbjct: 36  FRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRA 95

Query: 64  AYNYKGTGLSMG--MMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH 121
            Y+ +     +   M+I G+      L YVD  G   +    + G G+  A  +L     
Sbjct: 96  MYSRRSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLE 155

Query: 122 W--NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
               L+  EA  L  + +    YRD  S    +
Sbjct: 156 KQPVLSQTEARDLVERCMRVLYYRDARSYNRFQ 188

>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 =  106 bits (265), Expect = 2e-29
 Identities = 25/161 (15%), Positives = 56/161 (34%), Gaps = 13/161 (8%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-----GERISVAAASKL 59
              +++++ + D  +  ++G  +D  + +R+L          N      E +  +   + 
Sbjct: 36  FNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEY 95

Query: 60  MCNMAYNYKGTGLSMG--MMIAGWDKRGP-QLYYVDSDGQRIKGNVFSVGSGSVFAFGVL 116
           +  + Y  +     +   +++AG    G   L YV+  G        + G G+  A  +L
Sbjct: 96  LATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLL 155

Query: 117 DTGYH-----WNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
                        T + A +    ++    YRD  S     
Sbjct: 156 RKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFS 196

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 198

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  105 bits (262), Expect = 2e-29
 Identities = 33/153 (21%), Positives = 62/153 (40%), Gaps = 4/153 (2%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              S  K  +++ + L + AG A D V +   +    +LY +R    +S  A S  +   
Sbjct: 28  LKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQE 87

Query: 64  AYNY--KGTGLSMGMMIAGWDKR--GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG 119
                       + ++I G+DK+   P+LY +D  G +++    + G    + F +LD  
Sbjct: 88  LAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHH 147

Query: 120 YHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           Y  ++T EE   L +  +     R       + 
Sbjct: 148 YRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVI 180

>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 =  105 bits (262), Expect = 4e-29
 Identities = 40/160 (25%), Positives = 71/160 (44%), Gaps = 11/160 (6%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
           +S  ++K+   ++Y    +AG A   +   R+ A +   YE   G  ++    +  + +M
Sbjct: 27  ASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASM 86

Query: 64  AYNYKGT---GLSMGMMIAGWD------KRGPQLYYVDSDGQRI--KGNVFSVGSGSVFA 112
                G    GL++  ++ G+D       R  ++   D  G R   +    +VGSGS+FA
Sbjct: 87  VRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFA 146

Query: 113 FGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
              L   Y  +  +E A + A +S+Y A   D A+GG   
Sbjct: 147 KSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDL 186

>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 =  104 bits (259), Expect = 5e-29
 Identities = 49/149 (32%), Positives = 79/149 (53%), Gaps = 1/149 (0%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S + KKI +I D +  T AG   D  +  R++  +  LYE+R   + +V A + L  N+ 
Sbjct: 28  SKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLL 87

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVF-SVGSGSVFAFGVLDTGYHWN 123
            +Y+     + ++I G D  G  +Y +D  G  I+     + GSGS+ A+GVL+  +   
Sbjct: 88  NSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPE 147

Query: 124 LTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +  +EA +LA ++IY A  RD ASG  I 
Sbjct: 148 IGVDEAVELAVRAIYSAMKRDSASGDGID 176

>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 =  104 bits (261), Expect = 7e-29
 Identities = 36/159 (22%), Positives = 66/159 (41%), Gaps = 8/159 (5%)

Query: 2   SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMC 61
              S   KKI++ ++++  +LAG A D       L +QC    L    +++V  A  L+C
Sbjct: 53  DELSSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLC 112

Query: 62  NMAYN----YKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAF---- 113
           + A      Y G    +G++I G+DK G  L      G   +    ++G+ S  A     
Sbjct: 113 DKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLE 172

Query: 114 GVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
             LDT    +   +E  +   ++I  +   +  +   + 
Sbjct: 173 RTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLS 211

>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 =  104 bits (260), Expect = 1e-28
 Identities = 25/151 (16%), Positives = 49/151 (32%), Gaps = 7/151 (4%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
                KI  ++ ++    +G   D  +      ++   ++      I + A +  +    
Sbjct: 57  PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYV 116

Query: 65  YNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT-- 118
             +          +  +  G DK G  LY ++  G        + G G   A   L+   
Sbjct: 117 QAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLV 176

Query: 119 -GYHWNLTDEEAHQLARKSIYHATYRDFASG 148
             +   L+  EA + A K IY A   +    
Sbjct: 177 DHHPEGLSAREAVKQAAKIIYLAHEDNKEKD 207

>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 =  102 bits (254), Expect = 5e-28
 Identities = 32/151 (21%), Positives = 60/151 (39%), Gaps = 4/151 (2%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              S++KI  I+DY+    +G  AD            +  ++  G  +++    K + + 
Sbjct: 48  EQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQ 107

Query: 64  AYNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG 119
              Y   G      + ++ AG D+ GP+L+  D  G   +    ++GSG       L+  
Sbjct: 108 MQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLERE 167

Query: 120 YHWNLTDEEAHQLARKSIYHATYRDFASGGL 150
           Y  NL ++EA  L  K++  +          
Sbjct: 168 YKENLPEKEAVTLGIKALKSSLEEGEELKAP 198

>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 =  102 bits (255), Expect = 6e-28
 Identities = 22/141 (15%), Positives = 47/141 (33%), Gaps = 5/141 (3%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
            GS K++  ++ ++   +AG  AD      +  ++   +    G  I +   +  +    
Sbjct: 60  EGSNKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYV 119

Query: 65  YNYKGTG----LSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG 119
           + Y             M+  +      QLY +D  G        ++G     A   ++  
Sbjct: 120 HAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKL 179

Query: 120 YHWNLTDEEAHQLARKSIYHA 140
               +T  +  +   K IY  
Sbjct: 180 QMKEMTCRDIVKEVAKIIYIV 200

>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 =  101 bits (253), Expect = 1e-27
 Identities = 27/151 (17%), Positives = 64/151 (42%), Gaps = 5/151 (3%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              +++KI +I++++    +G  AD          + ++  L     I+V   +K +C+ 
Sbjct: 57  EKDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDF 116

Query: 64  AYNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG 119
              Y   G      + ++IAG ++  P+LY  D  G  ++    ++G G +      +  
Sbjct: 117 KQQYTQYGGVRPFGVSLLIAGVNEV-PKLYETDPSGALLEYKATAIGMGRMAVTEFFEKE 175

Query: 120 YHWNLTDEEAHQLARKSIYHATYRDFASGGL 150
           Y  +L+ ++A  L   ++  +   +     +
Sbjct: 176 YRDDLSFDDAMVLGLVAMGLSIESELVPENI 206

>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 = 98.2 bits (244), Expect = 2e-26
 Identities = 24/154 (15%), Positives = 54/154 (35%), Gaps = 6/154 (3%)

Query: 2   SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMC 61
           S  +   KKI+ +++++  ++AG  AD       + ++C          + V+    L+ 
Sbjct: 51  SELAAHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIG 110

Query: 62  NMAYNYKGTG----LSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLD 117
           +               +G++IAG+D  GP ++              S+G+ S  A   L+
Sbjct: 111 SKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLE 170

Query: 118 TGYHWN--LTDEEAHQLARKSIYHATYRDFASGG 149
                       E  +   +++      +     
Sbjct: 171 RHMSEFMECNLNELVKHGLRALRETLPAEQDLTT 204

>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 = 97.8 bits (243), Expect = 4e-26
 Identities = 33/154 (21%), Positives = 60/154 (38%), Gaps = 5/154 (3%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              S +K+ ++ND +   +AG  AD            + Y     E I V    + + ++
Sbjct: 58  QDTSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDI 117

Query: 64  AYNYKGTG----LSMGMMIAGWDKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
              Y   G      +  + AG+D R   QLY  +  G        SVG+ +  A  +L  
Sbjct: 118 KQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQM 177

Query: 119 GYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            Y  ++  ++A +LA K++   T     +   + 
Sbjct: 178 DYKDDMKVDDAIELALKTLSKTTDSSALTYDRLE 211

>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 = 96.8 bits (240), Expect = 6e-26
 Identities = 31/168 (18%), Positives = 64/168 (38%), Gaps = 19/168 (11%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGER-ISVAAASKLMCN 62
           +S    K+ +  D ++ +  G AAD     +      + Y   + ++ +S+ +A++ + +
Sbjct: 36  NSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQH 95

Query: 63  MAYNYKGTGLSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH 121
           + Y  +     +  +IAG D+     +Y  D  G   +    + G+ +      LD   +
Sbjct: 96  LLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVN 155

Query: 122 W-----------------NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
           +                  L+ EE  +L R S   AT R    G  + 
Sbjct: 156 FKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLE 203

>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 = 97.1 bits (241), Expect = 6e-26
 Identities = 37/158 (23%), Positives = 66/158 (41%), Gaps = 11/158 (6%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
            S S++KIVEI+ ++   ++G  AD              + L   E I+V + ++ +C++
Sbjct: 52  ESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDL 111

Query: 64  AYNYKGTG----------LSMGMMIAGWDKRGP-QLYYVDSDGQRIKGNVFSVGSGSVFA 112
           A  +                + ++IAG D     QL++ +  G   + N  ++GSGS  A
Sbjct: 112 ALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGA 171

Query: 113 FGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGL 150
              L   +H +LT +EA  L  K +             
Sbjct: 172 QAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNA 209

>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 = 95.3 bits (236), Expect = 1e-25
 Identities = 33/151 (21%), Positives = 65/151 (43%), Gaps = 3/151 (1%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           +   +KI  + D L   LAG A D     + L  +  LYEL+ G +I       ++ N+ 
Sbjct: 35  TTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLL 94

Query: 65  YNYKGTGLSMGMMIAGWDKRGP--QLYYVDSDGQRIKGNVFSVG-SGSVFAFGVLDTGYH 121
           Y  +        +IAG D +     +  +D  G  +  + F V  + +   +G+ ++ + 
Sbjct: 95  YEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWE 154

Query: 122 WNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            N+  +   +   +++ +A  RD  SG  + 
Sbjct: 155 PNMDPDHLFETISQAMLNAVDRDAVSGMGVI 185

>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 = 95.9 bits (238), Expect = 2e-25
 Identities = 35/155 (22%), Positives = 58/155 (37%), Gaps = 6/155 (3%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
                +KI ++N+ +  ++AG  +D       L    + Y L+  E I        +C++
Sbjct: 57  EVFFSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDI 116

Query: 64  AYNYKGTG----LSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
              Y   G      + ++  GWDK  G QLY  D  G         +G+ S  A  +L  
Sbjct: 117 KQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQ 176

Query: 119 GYHW-NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            Y    +T + A  LA K +         S   + 
Sbjct: 177 DYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVE 211

>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 = 94.7 bits (235), Expect = 4e-25
 Identities = 22/159 (13%), Positives = 49/159 (30%), Gaps = 9/159 (5%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGER-ISVAAASKLMCNM 63
           S ++ K+ E+ D L     G   +     R       +       R ++  + +      
Sbjct: 39  STALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQT 98

Query: 64  A---YNYKGTGLSMGMMIAGWD----KRGPQLYYVDSDGQRIKGNVFSVG-SGSVFAFGV 115
               +  +     + + +A        + PQLY +  DG  +    F V    +      
Sbjct: 99  LGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATA 158

Query: 116 LDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGN 154
           +   Y  +L  E A  +A  ++      +     +   +
Sbjct: 159 MRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVAS 197

>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 = 95.2 bits (236), Expect = 5e-25
 Identities = 29/152 (19%), Positives = 55/152 (36%), Gaps = 6/152 (3%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRL-YELRNGERISVAAASKLMCNM 63
           S ++ K+  +   +    +G   D         K     Y+   GE          +  +
Sbjct: 58  SETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKI 117

Query: 64  A----YNYKGTGLSMGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
                 +       + ++IAG D+  G  LY VD  G        ++G GSV A   L+ 
Sbjct: 118 MQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEK 177

Query: 119 GYHWNLTDEEAHQLARKSIYHATYRDFASGGL 150
            ++  L  E+A  +A  ++  +   +F    +
Sbjct: 178 RWNDELELEDAIHIALLTLKESVEGEFNGDTI 209

>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 = 90.9 bits (225), Expect = 1e-23
 Identities = 28/151 (18%), Positives = 55/151 (36%), Gaps = 4/151 (2%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              S+ K+  I  ++    +G   D         K  + Y L   E I  A   + + ++
Sbjct: 57  DERSVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASV 116

Query: 64  AYNYKGTGL----SMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG 119
              Y  +G      + ++I GW++  P L+  D  G        ++G   V     L+  
Sbjct: 117 MQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKR 176

Query: 120 YHWNLTDEEAHQLARKSIYHATYRDFASGGL 150
           Y+ +L  E+A   A  ++  +         +
Sbjct: 177 YNEDLELEDAIHTAILTLKESFEGQMTEDNI 207

>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 = 90.2 bits (223), Expect = 2e-23
 Identities = 34/151 (22%), Positives = 62/151 (41%), Gaps = 4/151 (2%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S   +KI       LG   G A D    + +   +  LY+L+    I     ++L+ +  
Sbjct: 36  SNKFEKIFHYGHVFLGIT-GLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSL 94

Query: 65  YNYKGTGLSMGMMIAGWDKRG--PQLYYVDSDGQRIKGNVFSVG-SGSVFAFGVLDTGYH 121
           Y  +     +G ++AG + +   P +   D  G   +   F V  + S   FG+ ++ Y 
Sbjct: 95  YERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYE 154

Query: 122 WNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
            NL  E+  +   +++ +A  RD  SG    
Sbjct: 155 PNLEPEDLFETISQALLNAADRDALSGWGAV 185

>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 = 90.2 bits (223), Expect = 3e-23
 Identities = 22/159 (13%), Positives = 47/159 (29%), Gaps = 12/159 (7%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              ++  I  I+  +   + G   D          +   +  + G  +     +K M N+
Sbjct: 56  DPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANL 115

Query: 64  A----YNYKGTGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
           +           L + +     D + GP +Y  D  G  +     + G         L+ 
Sbjct: 116 SQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLEN 175

Query: 119 GYHWNLTDEEAH-------QLARKSIYHATYRDFASGGL 150
            +  +  D           + A   +  A   +F+   L
Sbjct: 176 HFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDL 214

>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 = 87.9 bits (217), Expect = 4e-23
 Identities = 17/141 (12%), Positives = 44/141 (31%), Gaps = 8/141 (5%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
             G+ +K+ ++ +  +     G+           +        N  + +V  A     + 
Sbjct: 27  LKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGNLTKAAVELAKDWRTDR 86

Query: 64  AYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWN 123
                     +  ++   DK    +   + +  +   +  ++GSG  +A           
Sbjct: 87  VLRR------LEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKA--LLR 138

Query: 124 LTDEEAHQLARKSIYHATYRD 144
            TD  A ++  K++  A    
Sbjct: 139 NTDLSAREIVEKAMTIAGEIC 159

>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 = 88.9 bits (220), Expect = 1e-22
 Identities = 27/153 (17%), Positives = 55/153 (35%), Gaps = 7/153 (4%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           S ++  + +I + +   + G  AD     +    +   ++ + G  I V    K + +++
Sbjct: 62  SSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADIS 121

Query: 65  YNY----KGTGLSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTG 119
             Y    +   L   M++ G D+  GPQ+Y  D  G        + G     +   L+  
Sbjct: 122 QVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKK 181

Query: 120 YHWN--LTDEEAHQLARKSIYHATYRDFASGGL 150
                  T E+  + A   +      DF    +
Sbjct: 182 VKKKFDWTFEQTVETAITCLSTVLSIDFKPSEI 214

>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 = 88.2 bits (218), Expect = 2e-22
 Identities = 27/147 (18%), Positives = 58/147 (39%), Gaps = 9/147 (6%)

Query: 8   MKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNY 67
             K+ +I+ +++ + +G  AD          + + + L   + ++V   ++ +  +   Y
Sbjct: 59  PSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY 118

Query: 68  KGTG----LSMGMMIAGWDKR--GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH 121
             +G      +  +IAG+D R   P+LY  +  G     +  ++G  S      L+  Y 
Sbjct: 119 TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYD 178

Query: 122 WN---LTDEEAHQLARKSIYHATYRDF 145
                 T EE  +L  +S+        
Sbjct: 179 RKEPPATVEECVKLTVRSLLEVVQTGA 205

>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 = 87.2 bits (215), Expect = 2e-22
 Identities = 37/152 (24%), Positives = 65/152 (42%), Gaps = 3/152 (1%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
                 K+ ++++ +L    G A D V +   + K  +LY++RNG  +S  AA+      
Sbjct: 28  MKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRN 87

Query: 64  AYNYK--GTGLSMGMMIAGWD-KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY 120
             +     T   + +++AG+D   GP LYY+D      K    + G G+     +LD  Y
Sbjct: 88  LADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYY 147

Query: 121 HWNLTDEEAHQLARKSIYHATYRDFASGGLIR 152
              ++ E A +L RK +     R   +     
Sbjct: 148 TPTISRERAVELLRKCLEELQKRFILNLPTFS 179

>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 = 87.3 bits (215), Expect = 2e-22
 Identities = 29/158 (18%), Positives = 65/158 (41%), Gaps = 10/158 (6%)

Query: 5   SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMA 64
           +    K  ++ D  +   +G   DC+   +++  + ++Y+  N + ++  A + ++  + 
Sbjct: 37  TRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTIL 96

Query: 65  YNYKGTGLSMGMMIAGWDKRGPQL-YYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW- 122
           Y+ +     +  +I G D+ G    Y  D  G   + +  + GS S     +LD    + 
Sbjct: 97  YSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFK 156

Query: 123 --------NLTDEEAHQLARKSIYHATYRDFASGGLIR 152
                    L+ + A +L +     A  RD  +G  +R
Sbjct: 157 NMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALR 194

>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 = 86.6 bits (214), Expect = 6e-22
 Identities = 27/149 (18%), Positives = 57/149 (38%), Gaps = 7/149 (4%)

Query: 4   SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNM 63
              +++KI  ++D +    AG  AD          +C+ + L   + ++V   ++ + ++
Sbjct: 54  DERTVRKICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASL 113

Query: 64  AYNYKGTG----LSMGMMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT 118
              Y  +       +  +I G+D    P+LY  D  G        ++G G+      L+ 
Sbjct: 114 KQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEK 173

Query: 119 GYHWNL--TDEEAHQLARKSIYHATYRDF 145
            Y      TD+   +L  K++        
Sbjct: 174 NYTDEAIETDDLTIKLVIKALLEVVQSGG 202

>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 = 79.8 bits (196), Expect = 9e-20
 Identities = 19/142 (13%), Positives = 38/142 (26%), Gaps = 8/142 (5%)

Query: 4   SSGSMKKIVEIND-YLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCN 62
              + +K+ ++ +  +L   AG  AD          +   Y           A       
Sbjct: 33  MKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAVELAKEWRSDK 92

Query: 63  MAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
           +    +   L +          G        D       + ++GSG  +A          
Sbjct: 93  VLRKLEA-MLIVMNQDTLLLVSGTGEVIEPDD------GILAIGSGGNYALAAGRALKKH 145

Query: 123 NLTDEEAHQLARKSIYHATYRD 144
                 A ++AR ++  A    
Sbjct: 146 AGESMSASEIARAALETAGEIC 167

>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 = 71.4 bits (174), Expect = 1e-16
 Identities = 25/142 (17%), Positives = 49/142 (34%), Gaps = 9/142 (6%)

Query: 4   SSGSMKKIVEINDY-LLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCN 62
             G+ +K+  + +  +L   AGG AD      +  ++      +     S    +K    
Sbjct: 27  MKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKL--EMHQGHLLKSAVELAKDWRT 84

Query: 63  MAYNYKGTGLSMGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW 122
                K       M+I   +K    +  +    Q  +  + ++GSG  +A          
Sbjct: 85  DRALRK----LEAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAAR--ALV 138

Query: 123 NLTDEEAHQLARKSIYHATYRD 144
             T+  AH++  KS+  A    
Sbjct: 139 ENTELSAHEIVEKSLRIAGDIC 160

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	177
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypf_	233	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
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.73
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.73
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.68
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	88.47

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=4.3e-43  Score=265.79  Aligned_cols=175  Identities=28%  Similarity=0.387  Sum_probs=168.6

Q ss_pred             CCCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEE
Q psy11707          2 SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGW   81 (177)
Q Consensus         2 ~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~   81 (177)
                      +|.+++.+||++|++|++||++|..+|++.+.+.++.+++.|++.++.+++++.+++++++.+|.++ +||++++|++|+
T Consensus        25 ~i~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~-~p~~~~~lvaG~  103 (202)
T d1iruh_          25 YIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYR-EDLMAGIIIAGW  103 (202)
T ss_dssp             EEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTT-TTCCEEEEEEEE
T ss_pred             eeecCCcceEEEcCCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhc-cceeEEEEEEEe
Confidence            3567889999999999999999999999999999999999999999999999999999999999987 699999999999


Q ss_pred             eC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCc
Q psy11707         82 DK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQW  160 (177)
Q Consensus        82 d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg  160 (177)
                      |+ ++|+||.+||.|++.+++++|+|+|+.+++++|++.|+++|+.+||++++++||..+.++|..+|+.++|++|+++|
T Consensus       104 d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l~~~al~~a~~rD~~sg~~i~v~vi~~~G  183 (202)
T d1iruh_         104 DPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIAESG  183 (202)
T ss_dssp             ETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTE
T ss_pred             ecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEEeCCC
Confidence            97 57999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEecCCCCCCCCCC
Q psy11707        161 NQGRFLGHQKGPNSGRS  177 (177)
Q Consensus       161 ~~~~~l~~~~~~~~~~~  177 (177)
                      ++++++++||+|.+.++
T Consensus       184 ~~~~~~~~d~~~~~~~~  200 (202)
T d1iruh_         184 VERQVLLGDQIPKFAVA  200 (202)
T ss_dssp             EEEEEECGGGSCCCCCC
T ss_pred             eEEEEcCHHHhhhhhhh
Confidence            99999999999999864

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=6.4e-42  Score=259.09  Aligned_cols=167  Identities=60%  Similarity=1.024  Sum_probs=159.6

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+|||+|+++++||++|..+|++.+.+.++.+++.|++.++.+++++.+++++++++|.++++||+++++++|+|
T Consensus        26 ~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~d  105 (201)
T d1irul_          26 IASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWD  105 (201)
T ss_dssp             EEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCBEEEEEEEC
T ss_pred             eecCCcccEEEeCCcEEEEEcCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhhhccCCCceEEEEEEEEe
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++||+||.+||+|++.+++++|+|+|+++++++||+.|+++||.+||++++++||+.+.++|..+++.++|++|+++|.+
T Consensus       106 ~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~~~~l~~~~~~d~~sg~~~~v~~i~~~G~~  185 (201)
T d1irul_         106 KRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDGWI  185 (201)
T ss_dssp             SSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEECSSCEE
T ss_pred             cCCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHhCCCCCCceEEEEEeCCceE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999865


Q ss_pred             EEEecCCCC
Q psy11707        163 GRFLGHQKG  171 (177)
Q Consensus       163 ~~~l~~~~~  171 (177)
                        .++++|+
T Consensus       186 --~i~~~ev  192 (201)
T d1irul_         186 --RVSSDNV  192 (201)
T ss_dssp             --EEEEEEH
T ss_pred             --EECHHHH
Confidence              3565554

>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=2e-41  Score=257.25  Aligned_cols=170  Identities=23%  Similarity=0.327  Sum_probs=160.3

Q ss_pred             CCCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEE
Q psy11707          2 SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGW   81 (177)
Q Consensus         2 ~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~   81 (177)
                      ++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+ ++..+++++++++|.++ +||++++|+|||
T Consensus        34 ~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~-~p~~~~~lvaG~  111 (205)
T d1ryph_          34 YIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-STETAASVFKELCYENK-DNLTAGIIVAGY  111 (205)
T ss_dssp             EEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-CHHHHHHHHHHHHHHTT-TTCCEEEEEEEE
T ss_pred             eeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-cHHHHHHHHHHHHHhCc-cCceEEEEEEee
Confidence            3556788999999999999999999999999999999999999999965 57899999999998876 699999999999


Q ss_pred             eC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCc
Q psy11707         82 DK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQW  160 (177)
Q Consensus        82 d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg  160 (177)
                      |+ ++|+||.+||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++++||+.+.++|..+|+.++|++|||||
T Consensus       112 d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~al~~a~~rD~~sg~~v~v~iitk~G  191 (205)
T d1ryph_         112 DDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAG  191 (205)
T ss_dssp             ETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTE
T ss_pred             cCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhcccCHHHHHHHHHHHHHHHHHhcCcCCCCEEEEEEcCCc
Confidence            97 57999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEecCCCCCC
Q psy11707        161 NQGRFLGHQKGPN  173 (177)
Q Consensus       161 ~~~~~l~~~~~~~  173 (177)
                      ++++.+.++|+|+
T Consensus       192 ~~~~~~~~~e~~~  204 (205)
T d1ryph_         192 VERLIFYPDEYEQ  204 (205)
T ss_dssp             EEEEEECHHHHTC
T ss_pred             eEEEecCcccccc
Confidence            9999998888775

>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=2.2e-40  Score=250.06  Aligned_cols=167  Identities=20%  Similarity=0.242  Sum_probs=157.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC--CCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG--TGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~--~P~~v~~lvaG   80 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|+++++.+++++.+++++++.+|.+++  +||++++|+||
T Consensus        27 ~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~P~~~~~liaG  106 (198)
T d1rypk_          27 VLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGG  106 (198)
T ss_dssp             EEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTSSSCCCEEEEEEE
T ss_pred             eecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHhcccccceEEEEEE
Confidence            4567889999999999999999999999999999999999999999999999999999999998653  79999999999


Q ss_pred             EeC--CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         81 WDK--RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        81 ~d~--~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      ||+  +||+||.+||+|++.+++++|+|+|+.++.++||++|+++|+.+||++++.+||+.+..+|..+++.++|++|++
T Consensus       107 ~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~l~~~~l~~~~~~d~~s~~~~~v~vi~~  186 (198)
T d1rypk_         107 YDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVKIVDK  186 (198)
T ss_dssp             EETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEEET
T ss_pred             EecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcC
Confidence            996  479999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceEEEEecCCCC
Q psy11707        159 QWNQGRFLGHQKG  171 (177)
Q Consensus       159 dg~~~~~l~~~~~  171 (177)
                      ||++  .+.+.|+
T Consensus       187 dG~~--~~~~~~~  197 (198)
T d1rypk_         187 DGIR--QVDDFQA  197 (198)
T ss_dssp             TEEE--EECCCSC
T ss_pred             CCeE--Ecchhcc
Confidence            9875  5666665

>d1yarh1 d.153.1.4 (H:1-203) Proteasome beta subunit (catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=1.5e-40  Score=251.78  Aligned_cols=168  Identities=27%  Similarity=0.363  Sum_probs=158.6

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+|||+|+++++||+||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.++++||++++|+||+|
T Consensus        26 ~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~d  105 (203)
T d1yarh1          26 IMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID  105 (203)
T ss_dssp             EEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEES
T ss_pred             eecCCcccEEEecCCeeeecCCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHhhccCCccceeEEEEEc
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      . +|+||.+||+|++.+++++|+|+|+.+++++|++.|+++||.+||++++++||+.+.++|..+++.++|++|+++. .
T Consensus       106 ~-~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~~v~v~ii~~~~-g  183 (203)
T d1yarh1         106 T-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKD-G  183 (203)
T ss_dssp             S-SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTT-E
T ss_pred             C-CCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCC-C
Confidence            5 6999999999999999999999999999999999999999999999999999999999999999999999999763 3


Q ss_pred             EEEecCCCCC
Q psy11707        163 GRFLGHQKGP  172 (177)
Q Consensus       163 ~~~l~~~~~~  172 (177)
                      ++.++++|+.
T Consensus       184 ~~~l~~~ei~  193 (203)
T d1yarh1         184 YVQLPTDQIE  193 (203)
T ss_dssp             EEECCHHHHH
T ss_pred             EEECCHHHHH
Confidence            5678877653

>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=2.1e-40  Score=258.56  Aligned_cols=171  Identities=21%  Similarity=0.242  Sum_probs=159.5

Q ss_pred             CCCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEE
Q psy11707          2 SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMM   77 (177)
Q Consensus         2 ~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~l   77 (177)
                      ++.+++.+|||+|++|++|++||..+|++.+++.++.++..|++.++.+++++.+++.+++++|.+++    |||+|++|
T Consensus        55 ~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~l  134 (250)
T d1iruc_          55 LDEVFFSEKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLL  134 (250)
T ss_dssp             BCCCSSCSSEEECSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEE
T ss_pred             cccCcccceEEECCCcEEEEeecccchHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEE
Confidence            45677889999999999999999999999999999999999999999999999999999999999986    69999999


Q ss_pred             EEEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC-CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         78 IAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW-NLTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        78 vaG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~-~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      ++|||+ .||+||.+||+|++.+++++|+|+|+..++++||++|++ +|+.+||++++++||+.+.++|..+++.++|++
T Consensus       135 i~G~D~~~gp~Ly~~Dp~G~~~~~~~~a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~i  214 (250)
T d1iruc_         135 YIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIAT  214 (250)
T ss_dssp             EEEEETTTEEEEEEEETTTEEEECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEE
T ss_pred             EEEEcCCCCCEEEEEcccccEeeeeEEEeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEE
Confidence            999997 579999999999999999999999999999999999985 899999999999999999999999999999999


Q ss_pred             EcCCceE--EEEecCCCCC
Q psy11707        156 SGQQWNQ--GRFLGHQKGP  172 (177)
Q Consensus       156 itkdg~~--~~~l~~~~~~  172 (177)
                      |++++.+  ++.++++|+.
T Consensus       215 i~~~~~~~~~~~l~~~Ei~  233 (250)
T d1iruc_         215 LTRENGKTVIRVLKQKEVE  233 (250)
T ss_dssp             EECCSSSCEEEECCHHHHH
T ss_pred             EEcCCCceeEEECCHHHHH
Confidence            9999754  5667766553

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.8e-40  Score=256.48  Aligned_cols=169  Identities=20%  Similarity=0.232  Sum_probs=158.1

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC----CCCceEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK----GTGLSMGMMIA   79 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~----~~P~~v~~lva   79 (177)
                      ...+.+||++|++|++|++||..+|++.++++++.+++.|++.++.+++++.+|+.+++++|.|+    .|||+|++|+|
T Consensus        55 l~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~  134 (233)
T d1rypf_          55 LSSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLII  134 (233)
T ss_dssp             TBCCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEE
T ss_pred             CCcchheEEEcCCCEEEEEeeccccHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEE
Confidence            45678999999999999999999999999999999999999999999999999999999999875    37999999999


Q ss_pred             EEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcC----CCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         80 GWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY----HWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        80 G~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~----~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      |||++||+||++||+|++.+++++|+|+|++.++++||+.|    +++|+++||++++++||..+.++|..+++.+||++
T Consensus       135 G~d~~g~~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~i  214 (233)
T d1rypf_         135 GYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAI  214 (233)
T ss_dssp             EEETTEEEEEEECTTSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEE
T ss_pred             EEcCCCCEEEEEccccceecccEEEecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEE
Confidence            99999999999999999999999999999999999998764    67999999999999999999999999999999999


Q ss_pred             EcCCceEEEEecCCCCCC
Q psy11707        156 SGQQWNQGRFLGHQKGPN  173 (177)
Q Consensus       156 itkdg~~~~~l~~~~~~~  173 (177)
                      |++++ .++.++++|++.
T Consensus       215 i~k~~-~~~~l~~~ei~~  231 (233)
T d1rypf_         215 VGKDT-PFTIYDGEAVAK  231 (233)
T ss_dssp             EETTE-EEEEEEGGGGGG
T ss_pred             EECCC-CeEECCHHHHHh
Confidence            99996 467788888764

>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=1.5e-39  Score=245.74  Aligned_cols=166  Identities=30%  Similarity=0.423  Sum_probs=156.8

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+|||+|+++++||+||..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+|++||++++|+||+|
T Consensus        26 ~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~lvaG~d  105 (202)
T d1j2qh_          26 IASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGID  105 (202)
T ss_dssp             EEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEE
T ss_pred             eccCccceEEEecCcEEEEecCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHHHHHHHHHhhhcccceeeEEEEEEEc
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEcCCCceeee-ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 KRGPQLYYVDSDGQRIKG-NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      +++|+||.+||+|++.++ .++|+|+|+.+++++|+++|+++||.+||++++++||..+.++|..++++++|++|+++|.
T Consensus       106 ~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~al~~~~~~d~~~g~~v~v~~i~~~g~  185 (202)
T d1j2qh_         106 SEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDEF  185 (202)
T ss_dssp             TTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEECSSCE
T ss_pred             CCCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCE
Confidence            999999999999998876 5899999999999999999999999999999999999999999999999999999999985


Q ss_pred             EEEEecCCC
Q psy11707        162 QGRFLGHQK  170 (177)
Q Consensus       162 ~~~~l~~~~  170 (177)
                      +  .++++|
T Consensus       186 ~--~~~~~e  192 (202)
T d1j2qh_         186 Y--QYSPEE  192 (202)
T ss_dssp             E--ECHHHH
T ss_pred             E--EeCHHH
Confidence            4  455444

>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=4.9e-40  Score=250.61  Aligned_cols=167  Identities=51%  Similarity=0.920  Sum_probs=158.2

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      |.+++.+|||+|+++++||++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.++++|+++..+++|+|
T Consensus        26 i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~p~~~~~~l~G~~  105 (212)
T d1rypl_          26 VASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYT  105 (212)
T ss_dssp             EEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCBEEEEEEEE
T ss_pred             eecCCcceEEEECCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHhccCCcceEeeeeEee
Confidence            55678899999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             C-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         83 K-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      + .||+||.+||+|++.+++++|+|+|+++++++||+.|+++||.+||++++++||+.+.+||..+++.++|++|+++|.
T Consensus       106 ~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l~~~al~~~~~rd~~sg~~v~v~vi~~~g~  185 (212)
T d1rypl_         106 RKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGW  185 (212)
T ss_dssp             TTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEE
T ss_pred             cCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEcCCce
Confidence            6 579999999999999999999999999999999999999999999999999999999999999999999999999985


Q ss_pred             EEEEecCCCC
Q psy11707        162 QGRFLGHQKG  171 (177)
Q Consensus       162 ~~~~l~~~~~  171 (177)
                      +  .++++++
T Consensus       186 ~--~~~~~ev  193 (212)
T d1rypl_         186 I--YHGNHDV  193 (212)
T ss_dssp             E--EEEEEEH
T ss_pred             E--EeCHHHH
Confidence            5  4565554

>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=1e-39  Score=250.07  Aligned_cols=160  Identities=24%  Similarity=0.345  Sum_probs=153.9

Q ss_pred             CCCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEE
Q psy11707          2 SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGW   81 (177)
Q Consensus         2 ~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~   81 (177)
                      .+.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|++.++.+++++.+++++++++|.++ +|+++++|+||+
T Consensus        25 ~i~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~y~~~-~p~~~~~ivaG~  103 (220)
T d1irui_          25 VVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYR-GYIGAALVLGGV  103 (220)
T ss_dssp             BEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTT-TCSCEEEEEEEE
T ss_pred             EeecCCcccEEEecCcEEEEEccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhhhhhcc-cccceeEEEEEE
Confidence            3556788999999999999999999999999999999999999999999999999999999999765 689999999999


Q ss_pred             eCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCce
Q psy11707         82 DKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWN  161 (177)
Q Consensus        82 d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~  161 (177)
                      |++||+||.+||+|++.+++++|+|+|+++++++|++.|+++||.+||++++++||+.+.++|..+++.++|++|++||+
T Consensus       104 D~~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~~~al~~~~~~D~~sg~~i~i~vitkdg~  183 (220)
T d1irui_         104 DVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKL  183 (220)
T ss_dssp             CSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEETTEE
T ss_pred             eCCCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHHHHHHHHhhccCCCCCCcEEEEEEECCCe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             E
Q psy11707        162 Q  162 (177)
Q Consensus       162 ~  162 (177)
                      +
T Consensus       184 ~  184 (220)
T d1irui_         184 D  184 (220)
T ss_dssp             E
T ss_pred             E
Confidence            5

>d1irue_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=5.7e-40  Score=253.74  Aligned_cols=168  Identities=19%  Similarity=0.222  Sum_probs=155.2

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC---------CCce
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG---------TGLS   73 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~---------~P~~   73 (177)
                      +..++.+||++|++|++|++||..+|++.+.+.++.++..|++.++.+++++.+++.+++++|.|++         |||+
T Consensus        52 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~  131 (234)
T d1irue_          52 MEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFG  131 (234)
T ss_dssp             BCTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCC
T ss_pred             cccCcccCEEEccCcEEEEEeeccchHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccce
Confidence            4467789999999999999999999999999999999999999999999999999999999998753         6999


Q ss_pred             EEEEEEEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEE
Q psy11707         74 MGMMIAGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRG  153 (177)
Q Consensus        74 v~~lvaG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev  153 (177)
                      |++|+||||++||+||.+||+|++.+++++|+|+|++.++++||+.|+++|+.+||++++++||+.+.++|. +++++||
T Consensus       132 ~~~il~G~D~~gp~Ly~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~~-~~~~iei  210 (234)
T d1irue_         132 VALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKL-NATNIEL  210 (234)
T ss_dssp             EEEEEEEEETTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCC-CTTSEEE
T ss_pred             EEEEEEEEcCCCCEEEEEecCcccceeeeEEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhccC-CCCCEEE
Confidence            999999999999999999999999999999999999999999999999999999999999999999887764 6678999


Q ss_pred             EEEcCCceEEEEecCCCCC
Q psy11707        154 NASGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       154 ~iitkdg~~~~~l~~~~~~  172 (177)
                      ++|++++ .++.|+++|++
T Consensus       211 ~ii~~~~-~~k~l~~~ei~  228 (234)
T d1irue_         211 ATVQPGQ-NFHMFTKEELE  228 (234)
T ss_dssp             EEECSSS-CCEECCHHHHH
T ss_pred             EEEECCC-CEEECCHHHHH
Confidence            9999874 35677777654

>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=1.5e-39  Score=249.41  Aligned_cols=169  Identities=19%  Similarity=0.220  Sum_probs=156.9

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++++.+++.++.+++.+++    |||++++|+
T Consensus        47 ~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li  126 (221)
T d1yara1          47 IEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIF  126 (221)
T ss_dssp             BCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEE
T ss_pred             cccCccceEEEecCCceEEeeeccchHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEE
Confidence            4567789999999999999999999999999999999999999999999999999999999999875    699999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      ||||++||+||.+||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||+.+.++|. +++.++|++|++
T Consensus       127 ~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~-~~~~~ei~~i~~  205 (221)
T d1yara1         127 AGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITV  205 (221)
T ss_dssp             EEECSSCEEEEEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEET
T ss_pred             EEEecCCCeEEEEcCCccEEEeeEEEECCchHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEc
Confidence            9999999999999999999999999999999999999999999999999999999999999998765 567899999998


Q ss_pred             CceEEEEecCCCCCC
Q psy11707        159 QWNQGRFLGHQKGPN  173 (177)
Q Consensus       159 dg~~~~~l~~~~~~~  173 (177)
                      ++ .++.|+.+|++.
T Consensus       206 ~~-~~r~l~~~ei~~  219 (221)
T d1yara1         206 GN-KYRIYDQEEVKK  219 (221)
T ss_dssp             TS-CCEECCHHHHHT
T ss_pred             CC-CEEECCHHHHHH
Confidence            75 356787776643

>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=1.3e-39  Score=253.27  Aligned_cols=167  Identities=18%  Similarity=0.195  Sum_probs=155.6

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC----CCCceEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK----GTGLSMGMMIA   79 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~----~~P~~v~~lva   79 (177)
                      .+++.+||++|++|++|++||..+|++.+.+++|.+++.|++.++.+++++.+++.++.++|.++    .|||+|++|||
T Consensus        61 ~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~  140 (244)
T d1irua_          61 DSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILI  140 (244)
T ss_dssp             CGGGCCSEEESSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEE
T ss_pred             cCCccceEEEecCCcEEEEecchHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEE
Confidence            35678999999999999999999999999999999999999999999999999999999999874    48999999999


Q ss_pred             EEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC--CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         80 GWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH--WNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        80 G~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~--~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      |||+ .||+||.+||+|++.+++++|+|+|+..++++||++|+  ++|+.+||++++++||..+.++|.. ++++||++|
T Consensus       141 G~D~~~g~~Ly~~Dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~-~~~iev~ii  219 (244)
T d1irua_         141 GIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFK-PSEIEVGVV  219 (244)
T ss_dssp             EEETTTEEEEEEECTTSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCC-TTSEEEEEE
T ss_pred             EEcCCCCcEEEEEcCCccEEecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCCC-CCcEEEEEE
Confidence            9997 57999999999999999999999999999999999994  5899999999999999999999964 567999999


Q ss_pred             cCCceEEEEecCCCC
Q psy11707        157 GQQWNQGRFLGHQKG  171 (177)
Q Consensus       157 tkdg~~~~~l~~~~~  171 (177)
                      ++|+..++.+.++|+
T Consensus       220 ~~~~~~~~~l~~~ei  234 (244)
T d1irua_         220 TVENPKFRILTEAEI  234 (244)
T ss_dssp             ETTEEEEEECCHHHH
T ss_pred             EeCCCcEEECCHHHH
Confidence            999888888887765

>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=1.8e-39  Score=252.52  Aligned_cols=167  Identities=14%  Similarity=0.121  Sum_probs=155.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++.+++++|.|++    |||+|++|+
T Consensus        58 ~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li  137 (245)
T d1irug_          58 YEEGSNKRLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFML  137 (245)
T ss_dssp             BCTTTTCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEE
T ss_pred             cccCccceEEEcCCCEEEEeccCchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEE
Confidence            4567889999999999999999999999999999999999999999999999999999999999987    699999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG  157 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit  157 (177)
                      +|||+ +||+||++||+|++.+++++|+|+|++.++++||+.|+++||.+||++++++||+.+.+++...+.++||.+|+
T Consensus       138 ~G~D~~~gp~Ly~iDp~G~~~~~~~~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~  217 (245)
T d1irug_         138 GSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVG  217 (245)
T ss_dssp             EEEETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECB
T ss_pred             EEEcCCCCceEEEEcCCceEEeeeEEEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEE
Confidence            99996 67999999999999999999999999999999999999999999999999999999998888778889999999


Q ss_pred             CC-ceEEEEecCC
Q psy11707        158 QQ-WNQGRFLGHQ  169 (177)
Q Consensus       158 kd-g~~~~~l~~~  169 (177)
                      ++ +..++.+|.+
T Consensus       218 ~~~~~~~~~~~~e  230 (245)
T d1irug_         218 ELTNGRHEIVPKD  230 (245)
T ss_dssp             TTTTTCCEECCHH
T ss_pred             ecCCCeEEEChHH
Confidence            86 4445566654

>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=9.7e-39  Score=245.05  Aligned_cols=159  Identities=24%  Similarity=0.339  Sum_probs=151.4

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|+++++||++|..+|++.+.+.++.+++.|++.++.++++..+++.+++.++.++ +|+++++|+||+|
T Consensus        26 ~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~-~p~~~~~l~aG~d  104 (222)
T d1rypi_          26 VADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ-GHIGAYLIVAGVD  104 (222)
T ss_dssp             EEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTT-TCSCEEEEEEEEE
T ss_pred             eecCCcccEEEEcCCEEEEecccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHHHHHHHHHHhhh-hccceeEEEEEEc
Confidence            456688999999999999999999999999999999999999999999999999999999988765 6999999999999


Q ss_pred             CCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCceE
Q psy11707         83 KRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQWNQ  162 (177)
Q Consensus        83 ~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkdg~~  162 (177)
                      ++||+||.+||+|++.+++++|+|+|+++++++||+.|+++||.+||++++++||..+.++|..++++++|+++++++..
T Consensus       105 ~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l~~~al~~a~~~D~~sg~~i~i~vi~~~~~~  184 (222)
T d1rypi_         105 PTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDA  184 (222)
T ss_dssp             TTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCE
T ss_pred             CCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCCcEEEEEEEcCCCe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999987433

>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=3e-39  Score=251.09  Aligned_cols=170  Identities=20%  Similarity=0.222  Sum_probs=158.3

Q ss_pred             CCCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC----CCCceEEEE
Q psy11707          2 SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK----GTGLSMGMM   77 (177)
Q Consensus         2 ~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~----~~P~~v~~l   77 (177)
                      ++.+++.+||++|+++++|+++|..+|++.+.+.++.+++.|++.++.+++++.+++.++++++.++    .|||++++|
T Consensus        56 ~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~l  135 (244)
T d1rypc_          56 LEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFI  135 (244)
T ss_dssp             BCSTTCCSSEEESSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEE
T ss_pred             cccCCccceEEEcCCCeEEEEecccCcHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEE
Confidence            4667789999999999999999999999999999999999999999999999999999999998875    379999999


Q ss_pred             EEEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         78 IAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        78 vaG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      |||+|+ +||+||.+||+|++.+++++|+|+|+.+++++||+.|+++|+.+||++++++||..+.++|..+++++||++|
T Consensus       136 l~G~d~~~gp~Ly~id~~Gs~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii  215 (244)
T d1rypc_         136 YAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATI  215 (244)
T ss_dssp             EEEEETTTEEEEEEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEE
T ss_pred             EEEEecCCCceEEEecCCCcEeeeeeeeccchhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Confidence            999997 5799999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCceE----EEEecCCCC
Q psy11707        157 GQQWNQ----GRFLGHQKG  171 (177)
Q Consensus       157 tkdg~~----~~~l~~~~~  171 (177)
                      +++|..    .+.++++|+
T Consensus       216 ~~~~~~~~~~~~~~~~~Ei  234 (244)
T d1rypc_         216 RKGANDGEVYQKIFKPQEI  234 (244)
T ss_dssp             ECCSSSSSCEEEECCHHHH
T ss_pred             ECCCcccceeEEECCHHHH
Confidence            998753    455665553

>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=2.9e-38  Score=239.33  Aligned_cols=167  Identities=21%  Similarity=0.236  Sum_probs=158.3

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|+++++||++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.++++||+|++|+||||
T Consensus        33 ~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~D  112 (204)
T d1iruj_          33 LVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLD  112 (204)
T ss_dssp             EEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHTTTTSCCSCCCEEEEEC
T ss_pred             eEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccchHHHHHHHHHHHHHhhhccceeEEEEEEEc
Confidence            56788899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CC--CCeEEEEcCCCceeee-ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         83 KR--GPQLYYVDSDGQRIKG-NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        83 ~~--gp~ly~id~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      ++  +|.+|.+||.|....+ .++++|+|+++++++|++.|+++|+.+||++++++||+.+.++|..+++.++|++|++|
T Consensus       113 ~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~ea~~l~~~al~~a~~rd~~sg~~~~v~ii~k~  192 (204)
T d1iruj_         113 PKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKD  192 (204)
T ss_dssp             TTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESS
T ss_pred             CCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEeCC
Confidence            74  4789999999998776 67899999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEEecCC
Q psy11707        160 WNQGRFLGHQ  169 (177)
Q Consensus       160 g~~~~~l~~~  169 (177)
                      |++++.++.-
T Consensus       193 gi~~~~~~~r  202 (204)
T d1iruj_         193 KITTRTLKAR  202 (204)
T ss_dssp             BEEEEEBCCC
T ss_pred             CEEEEEEecC
Confidence            9999888753

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=2.5e-38  Score=245.77  Aligned_cols=166  Identities=16%  Similarity=0.220  Sum_probs=154.7

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEE
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIA   79 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lva   79 (177)
                      ..++.+|||+|+++++|++||..+|++.+.++++.++..|++.++.+++++.+++.++.++|.+++    |||+|++|+|
T Consensus        57 ~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~  136 (243)
T d1j2pa_          57 EKDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIA  136 (243)
T ss_dssp             CGGGCCSEEECSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEE
T ss_pred             cccccccEeecCCcEEEEeeecccHHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEE
Confidence            345779999999999999999999999999999999999999999999999999999999999886    5999999999


Q ss_pred             EEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         80 GWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        80 G~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      |+|+ +|+||.+||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||+.+.++|.. ++++||++++++
T Consensus       137 G~D~-~p~Ly~~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~~-~~~iei~iv~~~  214 (243)
T d1j2pa_         137 GVNE-VPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELV-PENIEVGYVKVD  214 (243)
T ss_dssp             EESS-SEEEEEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCC-GGGEEEEEEETT
T ss_pred             EecC-CceEEEEeccCceeeeeEEEeCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhcccC-CCceEEEEEEeC
Confidence            9985 69999999999999999999999999999999999999999999999999999999999975 468999999998


Q ss_pred             ceEEEEecCCCC
Q psy11707        160 WNQGRFLGHQKG  171 (177)
Q Consensus       160 g~~~~~l~~~~~  171 (177)
                      +..++.++.+|+
T Consensus       215 ~~~~~~l~~~ei  226 (243)
T d1j2pa_         215 DRTFKEVSPEEL  226 (243)
T ss_dssp             TCCCEECCHHHH
T ss_pred             CCcEEECCHHHH
Confidence            656677777665

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.1e-38  Score=244.16  Aligned_cols=167  Identities=16%  Similarity=0.075  Sum_probs=154.6

Q ss_pred             CCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEE
Q psy11707          5 SGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAG   80 (177)
Q Consensus         5 ~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG   80 (177)
                      .++.+||++|++|++|+++|..+|++.++++++.+++.|++.++.+++++.+++.+++.+|.|++    |||+|++|+||
T Consensus        57 ~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG  136 (244)
T d1rypg_          57 PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGG  136 (244)
T ss_dssp             TTTSCCCEEETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEE
T ss_pred             ccccceEEEccCceEEEEccchhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEE
Confidence            34568999999999999999999999999999999999999999999999999999999999986    69999999999


Q ss_pred             EeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHh---cCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEc
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDT---GYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASG  157 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~---~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iit  157 (177)
                      ||++||+||.+||+|++.+++++|+|+|+..++++||+   .|+++||.+||++++++||..+.+++..++.+++|.+|+
T Consensus       137 ~D~~gp~Ly~idp~Gs~~~~~~~a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~  216 (244)
T d1rypg_         137 VDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCS  216 (244)
T ss_dssp             EETTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEE
T ss_pred             EeCCCCEEEEEcCCccEEecCeEecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEE
Confidence            99999999999999999999999999999999999996   699999999999999999999998888878889999997


Q ss_pred             CC--ceEEEEecCCCC
Q psy11707        158 QQ--WNQGRFLGHQKG  171 (177)
Q Consensus       158 kd--g~~~~~l~~~~~  171 (177)
                      .+  +..++.+|.+++
T Consensus       217 ~~~~~~~~~~~~~e~~  232 (244)
T d1rypg_         217 LSETNGLHKFVKGDLL  232 (244)
T ss_dssp             TTTTTTSEEECCTHHH
T ss_pred             EEcCCCeEEECCHHHH
Confidence            53  445677777654

>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=1.5e-38  Score=246.35  Aligned_cols=166  Identities=14%  Similarity=0.169  Sum_probs=153.6

Q ss_pred             CccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEEEEE
Q psy11707          6 GSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMIAGW   81 (177)
Q Consensus         6 ~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lvaG~   81 (177)
                      .+.+||++|+++++|++||..+|++.++++++.+++.|++.++.+++++.+++.++++.|.|++    |||++++|+|||
T Consensus        55 ~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~  134 (238)
T d1iruf_          55 AHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGY  134 (238)
T ss_dssp             CCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEE
T ss_pred             CccceEEEeCCceEEEEeccchHHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEE
Confidence            4568999999999999999999999999999999999999999999999999999999888764    799999999999


Q ss_pred             eCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCC--CHHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEcC
Q psy11707         82 DKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL--TDEEAHQLARKSIYHATYRDF-ASGGLIRGNASGQ  158 (177)
Q Consensus        82 d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~--s~~ea~~l~~~~l~~~~~~d~-~~g~~iev~iitk  158 (177)
                      |++||+||++||+|++.+++++|+|+|+..++++||++|+++|  +.+||++++++||..++.+|. .++..+||++|++
T Consensus       135 D~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k  214 (238)
T d1iruf_         135 DDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGK  214 (238)
T ss_dssp             ETTEEEEEEECSSSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEET
T ss_pred             cCCCceEEEEcCCCCEEeeeeEEECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeC
Confidence            9999999999999999999999999999999999999999854  899999999999999887654 4778999999999


Q ss_pred             CceEEEEecCCCCC
Q psy11707        159 QWNQGRFLGHQKGP  172 (177)
Q Consensus       159 dg~~~~~l~~~~~~  172 (177)
                      ++ .++.++.+|++
T Consensus       215 ~~-~~~~l~~~ei~  227 (238)
T d1iruf_         215 DL-EFTIYDDDDVS  227 (238)
T ss_dssp             TE-EEEEECSGGGH
T ss_pred             CC-CEEECCHHHHH
Confidence            85 46778887764

>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=1.6e-37  Score=234.90  Aligned_cols=165  Identities=21%  Similarity=0.237  Sum_probs=155.7

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+|||++ ++++|+++|..+|++.+.++++.+++.|++.++.+++++.+++++++.+|.++++||++++|++|||
T Consensus        34 ~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~~~~p~~v~~li~G~d  112 (204)
T d1rypj_          34 GVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGIN  112 (204)
T ss_dssp             EEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEEC
T ss_pred             eecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhcccceeeeEEEEEEe
Confidence            446778999999 5999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C-CC-CeEEEEcCCCceeee-ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         83 K-RG-PQLYYVDSDGQRIKG-NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        83 ~-~g-p~ly~id~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      + +| |+||++||+|++.++ .++++|+|+.++.++|++.|+++|+.+||++++++||..+.++|..+++.++|++|++|
T Consensus       113 ~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~ea~~l~~~al~~a~~~d~~sg~~~~v~ii~kd  192 (204)
T d1rypj_         113 SKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAVVYIIKKD  192 (204)
T ss_dssp             TTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESS
T ss_pred             cCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccCCCHHHHHHHHHHHHHHHHHhcCccCCeEEEEEEECC
Confidence            5 44 899999999999887 47888999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEEecC
Q psy11707        160 WNQGRFLGH  168 (177)
Q Consensus       160 g~~~~~l~~  168 (177)
                      |++++.+|-
T Consensus       193 g~~~~~~~l  201 (204)
T d1rypj_         193 EVVKRYLKM  201 (204)
T ss_dssp             CEEEEEECC
T ss_pred             ceEEEEecc
Confidence            999988764

>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=8.3e-38  Score=243.70  Aligned_cols=158  Identities=20%  Similarity=0.233  Sum_probs=148.4

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHH-HHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCR-LYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMM   77 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~-~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~l   77 (177)
                      +.+++.+||++|++|++|++||..+|++.++++++.+++ .|++.++.+++++.+++.+++++|.+++    |||++++|
T Consensus        56 ~~~~~~~ki~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~l  135 (250)
T d1rypb_          56 AMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLL  135 (250)
T ss_dssp             BCGGGCCSSEEEETTEEEEEEECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEE
T ss_pred             ccccccceeEeccCCEEEEeeecccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEE
Confidence            346678999999999999999999999999999999987 5899999999999999999999998875    69999999


Q ss_pred             EEEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         78 IAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        78 vaG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +||||+ .||+||++||+|++.+++++|+|+|+.++.++||++|+++|+.+||++++++||+.+.++|. ++.+++|++|
T Consensus       136 i~G~D~~~gp~Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~vi  214 (250)
T d1rypb_         136 IAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NGDTIELAII  214 (250)
T ss_dssp             EEEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCC-STTTEEEEEE
T ss_pred             EEEecCCCCCEEEEEcCcEEEEEeeEEecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhhccC-CCCCEEEEEE
Confidence            999997 67999999999999999999999999999999999999999999999999999999999985 6788999999


Q ss_pred             cCCce
Q psy11707        157 GQQWN  161 (177)
Q Consensus       157 tkdg~  161 (177)
                      ++++.
T Consensus       215 ~~~~~  219 (250)
T d1rypb_         215 GDENP  219 (250)
T ss_dssp             CSCCG
T ss_pred             eCCCc
Confidence            99864

>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=3.1e-37  Score=236.28  Aligned_cols=165  Identities=20%  Similarity=0.233  Sum_probs=155.5

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNG-ERISVAAASKLMCNMAYNYKGTGLSMGMMIAGW   81 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~   81 (177)
                      |.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++ .++++..++++++..++..+.+||+++++++|+
T Consensus        35 i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~li~G~  114 (222)
T d1ryp1_          35 INSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGL  114 (222)
T ss_dssp             EEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEE
T ss_pred             eccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCcHHHHHHHHHHHHHhhhhhhheeeeeEEEE
Confidence            4567899999999999999999999999999999999999998876 678999999999999999999999999999999


Q ss_pred             eCCC-CeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC-----------------CCCCHHHHHHHHHHHHHHHHhc
Q psy11707         82 DKRG-PQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH-----------------WNLTDEEAHQLARKSIYHATYR  143 (177)
Q Consensus        82 d~~g-p~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~-----------------~~~s~~ea~~l~~~~l~~~~~~  143 (177)
                      |+++ |+||.+||+|++.+++++|+|+|+++++++||+.|+                 ++||.+||++++++||..+.+|
T Consensus       115 d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~r  194 (222)
T d1ryp1_         115 DEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATER  194 (222)
T ss_dssp             CTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             eCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhccccccCcccchhhhcccccccHHHHHHHHHHHHHHHHHh
Confidence            9754 799999999999999999999999999999999987                 6899999999999999999999


Q ss_pred             cCCCCCcEEEEEEcCCceEEEEec
Q psy11707        144 DFASGGLIRGNASGQQWNQGRFLG  167 (177)
Q Consensus       144 d~~~g~~iev~iitkdg~~~~~l~  167 (177)
                      |..+|+.++|++||+||+++++++
T Consensus       195 d~~sg~~v~v~iitkdGv~~~~~~  218 (222)
T d1ryp1_         195 HIQVGDGLEILIVTKDGVRKEFYE  218 (222)
T ss_dssp             BTTCCSEEEEEEEETTEEEEEEEE
T ss_pred             cccCCCcEEEEEEeCCCEEEEEEe
Confidence            999999999999999999987764

>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=8.7e-38  Score=242.50  Aligned_cols=167  Identities=24%  Similarity=0.259  Sum_probs=152.1

Q ss_pred             CCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----------CCce
Q psy11707          4 SSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----------TGLS   73 (177)
Q Consensus         4 ~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----------~P~~   73 (177)
                      ..++.+|||+|+++++|++||..+|++.+.++++.+++.|++.++.+++++.+++.+++++|.|++          |||+
T Consensus        52 ~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~  131 (242)
T d1rype_          52 ESDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFG  131 (242)
T ss_dssp             CGGGCCCEEEEETTEEEEEEESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCS
T ss_pred             ccCccceEEEcCCCEEEEEeecchhHHHHHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccce
Confidence            356789999999999999999999999999999999999999999999999999999999998753          6999


Q ss_pred             EEEEEEEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEE
Q psy11707         74 MGMMIAGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIR  152 (177)
Q Consensus        74 v~~lvaG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~ie  152 (177)
                      |++|++|+|+ ++|+||.+||+|++.+++++|+|+|+..++++||+.|+++||.+||+.++++||+.+.++|.. .+.++
T Consensus       132 ~~~ii~G~D~~~~p~L~~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~-~~~~~  210 (242)
T d1rype_         132 VALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLD-ENNAQ  210 (242)
T ss_dssp             EEEEEEEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCC-TTSEE
T ss_pred             EEEEEEEeccccceEEEEEcCCCceeccceeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCC-CCceE
Confidence            9999999996 559999999999999999999999999999999999999999999999999999999998865 45699


Q ss_pred             EEEEcCCceEEEEecCCCCC
Q psy11707        153 GNASGQQWNQGRFLGHQKGP  172 (177)
Q Consensus       153 v~iitkdg~~~~~l~~~~~~  172 (177)
                      |++|+++. .++.+++++++
T Consensus       211 v~~i~~~~-g~~~l~~~~i~  229 (242)
T d1rype_         211 LSCITKQD-GFKIYDNEKTA  229 (242)
T ss_dssp             EEEEETTT-EEEECCHHHHH
T ss_pred             EEEEECCC-CeEECCHHHHH
Confidence            99998763 24567766654

>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=4.3e-37  Score=238.47  Aligned_cols=165  Identities=16%  Similarity=0.186  Sum_probs=151.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+.+.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++.+++++|.+++    |||+|++|+
T Consensus        54 ~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li  133 (241)
T d1rypd_          54 DTRITPSKVSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLI  133 (241)
T ss_dssp             CTTTSCCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEE
T ss_pred             ccccccccEEEeCCCEEEEeeeccchHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEE
Confidence            4556889999999999999999999999999999999999999999999999999999999999975    699999999


Q ss_pred             EEEeC--CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC---CCCHHHHHHHHHHHHHHHHhccCCCCCcEEE
Q psy11707         79 AGWDK--RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW---NLTDEEAHQLARKSIYHATYRDFASGGLIRG  153 (177)
Q Consensus        79 aG~d~--~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~---~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev  153 (177)
                      ||||+  +||+||.+||+|++.+++++|+|+|++.+.++||+.|++   +|+.+|+++++++||+.+.+++   +.++||
T Consensus       134 ~G~d~~~~~p~Ly~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~~---~~~iei  210 (241)
T d1rypd_         134 AGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTG---AKNIEI  210 (241)
T ss_dssp             EECCTTCCSCEEEEECTTSCEEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCSC---STTEEE
T ss_pred             EEEccccCcceEEEecCCEEEEeeCeEEECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcCC---CCcEEE
Confidence            99995  579999999999999999999999999999999999964   6999999999999999988654   568999


Q ss_pred             EEEcCCceEEEEecCCCC
Q psy11707        154 NASGQQWNQGRFLGHQKG  171 (177)
Q Consensus       154 ~iitkdg~~~~~l~~~~~  171 (177)
                      +++++|+ ..+.|+.+|+
T Consensus       211 ~ii~~d~-~~~~l~~~ei  227 (241)
T d1rypd_         211 TVVKPDS-DIVALSSEEI  227 (241)
T ss_dssp             EEEETTT-EEEECCHHHH
T ss_pred             EEEECCC-CEEECCHHHH
Confidence            9999986 3456776654

>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=6.2e-38  Score=243.51  Aligned_cols=166  Identities=14%  Similarity=0.114  Sum_probs=153.0

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcC----CCCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYK----GTGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~----~~P~~v~~lv   78 (177)
                      +.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++.+++++.+++.+++++|.++    .|||+|++|+
T Consensus        55 ~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll  134 (243)
T d1rypa_          55 LDPTTVSYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTF  134 (243)
T ss_dssp             BCGGGCCSEEECSSSCEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEE
T ss_pred             cccCcccceEecCCCEEEEEecCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEE
Confidence            456778999999999999999999999999999999999999999999999999999999999886    4899999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCC-------CCCHHHHHHHHHHHHHHHHhccCCCCCc
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHW-------NLTDEEAHQLARKSIYHATYRDFASGGL  150 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~-------~~s~~ea~~l~~~~l~~~~~~d~~~g~~  150 (177)
                      +|||+ .||+||.+||+|++.+++++|+|+|+..++++||++|++       +++.+||++++++||+.+.++|. ++++
T Consensus       135 ~G~D~~~g~~Ly~~Dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~-~~~~  213 (243)
T d1rypa_         135 VSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEF-SKND  213 (243)
T ss_dssp             EEEETTTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCC-CTTS
T ss_pred             EEEccCCCCeEEEEcCCEEEEecceEEeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccC-CCCc
Confidence            99996 579999999999999999999999999999999999974       56999999999999999999996 6778


Q ss_pred             EEEEEEcCCceEEEEecCCCC
Q psy11707        151 IRGNASGQQWNQGRFLGHQKG  171 (177)
Q Consensus       151 iev~iitkdg~~~~~l~~~~~  171 (177)
                      ++|++++++|.  +.++++|+
T Consensus       214 iei~iitk~g~--~~l~~eeI  232 (243)
T d1rypa_         214 LEVGVATKDKF--FTLSAENI  232 (243)
T ss_dssp             EEEEEEETTEE--EECCHHHH
T ss_pred             EEEEEEeCCce--EEeCHHHH
Confidence            99999999975  45666554

>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=5.9e-37  Score=236.35  Aligned_cols=167  Identities=18%  Similarity=0.187  Sum_probs=156.0

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +..++.+|||+|+++++|+++|..+|++.+.++++.+++.|+..++.+++++.+++.+++++|.+++    +|+++++++
T Consensus        56 ~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li  135 (233)
T d1irub_          56 YDERSVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLI  135 (233)
T ss_dssp             BCSTTCCSSEESSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEE
T ss_pred             ccccccceEEEecCceEEEEeccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEee
Confidence            4567899999999999999999999999999999999999999999999999999999999998764    799999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcC
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQ  158 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitk  158 (177)
                      +|+|+++|+||.+||+|++.+++++|+|+|+.++.++||+.|+++|+.+||++++++||+.+.++|.. +++++|+++++
T Consensus       136 ~g~d~~~~~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~~-~~~vev~ii~~  214 (233)
T d1irub_         136 CGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMT-EDNIEVGICNE  214 (233)
T ss_dssp             EEECSSSEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCC-SSSEEEEEEET
T ss_pred             eecccCCceEEEEcCCcceEeccceecCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccCC-CCcEEEEEEeC
Confidence            99999999999999999999999999999999999999999999999999999999999999998874 56799999999


Q ss_pred             CceEEEEecCCCCC
Q psy11707        159 QWNQGRFLGHQKGP  172 (177)
Q Consensus       159 dg~~~~~l~~~~~~  172 (177)
                      +|.  +.++++|+.
T Consensus       215 ~g~--~~l~~~eI~  226 (233)
T d1irub_         215 AGF--RRLTPTEVK  226 (233)
T ss_dssp             TEE--EECCHHHHH
T ss_pred             CCe--EECCHHHHH
Confidence            985  456766653

>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=7e-37  Score=237.55  Aligned_cols=165  Identities=18%  Similarity=0.263  Sum_probs=148.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC----CCceEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG----TGLSMGMMI   78 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~----~P~~v~~lv   78 (177)
                      +.+++.+||++|+++++|++||..+|++.+.+.++.+++.|++.++.+++++.+|+++++++|.|++    |||+|++|+
T Consensus        53 ~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li  132 (243)
T d1irud_          53 QDERTVRKICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALI  132 (243)
T ss_dssp             SCGGGGCSEEESSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEE
T ss_pred             cCCCccccEEECCCCEEEEEEEchhhHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEE
Confidence            4567889999999999999999999999999999999999999999999999999999999999876    799999999


Q ss_pred             EEEeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q psy11707         79 AGWDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNL--TDEEAHQLARKSIYHATYRDFASGGLIRGNA  155 (177)
Q Consensus        79 aG~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~--s~~ea~~l~~~~l~~~~~~d~~~g~~iev~i  155 (177)
                      +|||+ ++|+||.+||+|++.+++++|+|+|+..++++||+.|+++|  +.++++++++++|....   ..++.+++|++
T Consensus       133 ~G~D~~~~p~Ly~idp~G~~~~~~~~a~G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~~---~~~~~~vei~i  209 (243)
T d1irud_         133 VGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVV---QSGGKNIELAV  209 (243)
T ss_dssp             EEECSSSCEEEEEECTTSCEEEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTS---CTTSTTCCEEE
T ss_pred             EEEcCCCCCEEEEecCcEEEEeccEEEECCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHHh---cCCCCcEEEEE
Confidence            99996 47999999999999999999999999999999999999988  77788888888887554   34567899999


Q ss_pred             EcCCceEEEEecCCCC
Q psy11707        156 SGQQWNQGRFLGHQKG  171 (177)
Q Consensus       156 itkdg~~~~~l~~~~~  171 (177)
                      |++++. ++.++++|+
T Consensus       210 i~k~~~-~~~l~~~eI  224 (243)
T d1irud_         210 MRRDQS-LKILNPEEI  224 (243)
T ss_dssp             EESSSC-EECCCHHHH
T ss_pred             EECCCC-EEECCHHHH
Confidence            999842 455666554

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.3e-36  Score=232.30  Aligned_cols=172  Identities=21%  Similarity=0.193  Sum_probs=155.9

Q ss_pred             CCCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHH-hcCCCCCHHHHHHHHHHHHHhcC--CCCceEEEEE
Q psy11707          2 SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYEL-RNGERISVAAASKLMCNMAYNYK--GTGLSMGMMI   78 (177)
Q Consensus         2 ~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~-~~~~~~~~~~la~~i~~~~~~~~--~~P~~v~~lv   78 (177)
                      ++.+++.+||++|+++++||++|..+|++.+.+.++.++..++. .++.+++++.+++++++.+|.++  .+|+++++|+
T Consensus        33 ~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~y~~~~~~~p~~~~~li  112 (217)
T d1iru2_          33 LARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVI  112 (217)
T ss_dssp             EEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHTTCCCCEEEEE
T ss_pred             eeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHHHHhccccCcccceEEE
Confidence            35667899999999999999999999999999999999988765 55689999999999999988765  5799999999


Q ss_pred             EEEeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcC--CCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         79 AGWDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGY--HWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        79 aG~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~--~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +|+|.++|+||.+||+|++.++++.|+|+|+.+++++||+.|  +++||.+||++++++||+.+.+||..+++.++|++|
T Consensus       113 ~G~d~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi  192 (217)
T d1iru2_         113 GGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATV  192 (217)
T ss_dssp             EEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEE
T ss_pred             EEEcCCCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEE
Confidence            999998999999999999999999999999999999999965  489999999999999999999999999999999999


Q ss_pred             cCCceEEEEecCCCCCCC
Q psy11707        157 GQQWNQGRFLGHQKGPNS  174 (177)
Q Consensus       157 tkdg~~~~~l~~~~~~~~  174 (177)
                      +++|++. .-|...-++|
T Consensus       193 ~~~G~~~-~~~~~~~~~~  209 (217)
T d1iru2_         193 TEKGVEI-EGPLSTETNW  209 (217)
T ss_dssp             ETTEEEE-EEEECCCCCC
T ss_pred             eCCCEEE-cCCeeccccH
Confidence            9999764 4555555555

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.7e-36  Score=233.90  Aligned_cols=170  Identities=16%  Similarity=0.151  Sum_probs=154.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhc-----CCCCCHHHHHHHHHHHHHhc--CCCCceEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRN-----GERISVAAASKLMCNMAYNY--KGTGLSMG   75 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~-----~~~~~~~~la~~i~~~~~~~--~~~P~~v~   75 (177)
                      +.+++.+||++|++|++|+++|..+|++.+.+.++.++..|++.+     +..+++..+++++++.+|..  +.+||+++
T Consensus        34 ~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~y~~~~~~~P~~~~  113 (233)
T d1ryp2_          34 LRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNA  113 (233)
T ss_dssp             EEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEE
T ss_pred             eecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCCCCCcccCHHHHHHHHHHHHHhhccccCCceeE
Confidence            346678999999999999999999999999999999999998876     56789999999999988775  45899999


Q ss_pred             EEEEEEeCC-CCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC-----CCCCHHHHHHHHHHHHHHHHhccCCCCC
Q psy11707         76 MMIAGWDKR-GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH-----WNLTDEEAHQLARKSIYHATYRDFASGG  149 (177)
Q Consensus        76 ~lvaG~d~~-gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~-----~~~s~~ea~~l~~~~l~~~~~~d~~~g~  149 (177)
                      +|++|||++ +|+||.+||+|.+.+++++|+|+|+++++++||+.|+     ++|+.+||++++++||+.+..||..+++
T Consensus       114 ~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~  193 (233)
T d1ryp2_         114 IIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSR  193 (233)
T ss_dssp             EEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCCSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCS
T ss_pred             EEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHHHhcccCCC
Confidence            999999975 4789999999999999999999999999999999998     7899999999999999999999999999


Q ss_pred             cEEEEEEcCCceEEEEecCCCCCC
Q psy11707        150 LIRGNASGQQWNQGRFLGHQKGPN  173 (177)
Q Consensus       150 ~iev~iitkdg~~~~~l~~~~~~~  173 (177)
                      .++|++|++|+. ++.+.++++++
T Consensus       194 ~i~i~~itkd~g-~~~~~~~~ie~  216 (233)
T d1ryp2_         194 NFSLAIIDKNTG-LTFKKNLQVEN  216 (233)
T ss_dssp             EEEEEEEETTTE-EEEEEEEECCS
T ss_pred             CEEEEEEECCCC-EEECChhcchh
Confidence            999999999852 44666666665

>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=3.1e-36  Score=231.70  Aligned_cols=167  Identities=13%  Similarity=0.088  Sum_probs=143.8

Q ss_pred             CccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHh---cCCCCceEEEEEEEE
Q psy11707          6 GSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNG-ERISVAAASKLMCNMAYN---YKGTGLSMGMMIAGW   81 (177)
Q Consensus         6 ~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~-~~~~~~~la~~i~~~~~~---~~~~P~~v~~lvaG~   81 (177)
                      ++.+||++|++||+||++|+.+|++.++++++.+++.|++.++ .+++++.+++.++++++.   +..|||+|++|+|||
T Consensus        40 ~s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~~~~~rP~gvs~lvaG~  119 (227)
T d1q5qa_          40 TALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEV  119 (227)
T ss_dssp             SSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEEC
T ss_pred             CCcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEE
Confidence            4679999999999999999999999999999999999999998 578999999999887543   345899999999999


Q ss_pred             eC----CCCeEEEEcCCCceeeece-eEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCC----CCCcEE
Q psy11707         82 DK----RGPQLYYVDSDGQRIKGNV-FSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFA----SGGLIR  152 (177)
Q Consensus        82 d~----~gp~ly~id~~G~~~~~~~-~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~----~g~~ie  152 (177)
                      |.    .+|+||.+||+|++.++++ ++.|.+++.++++|+++|+++||.+||++++++||+.+..+|..    +++.+|
T Consensus       120 D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~Le~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ie  199 (227)
T d1q5qa_         120 GRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLE  199 (227)
T ss_dssp             CCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSE
T ss_pred             ecCCCCCCCEEEEEccccceeeecccccCCCchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEE
Confidence            95    4699999999999998765 56677889999999999999999999999999999999987753    457899


Q ss_pred             EEEEcCCce--EEEEecCCCCC
Q psy11707        153 GNASGQQWN--QGRFLGHQKGP  172 (177)
Q Consensus       153 v~iitkdg~--~~~~l~~~~~~  172 (177)
                      |++++++|.  .++.|+++|+.
T Consensus       200 vavi~k~~~~~~fr~l~~~ei~  221 (227)
T d1q5qa_         200 VAVLDQSRPRRAFRRIAGTALE  221 (227)
T ss_dssp             EEEEETTSSSCCEEECCHHHHH
T ss_pred             EEEEECCCCccceEEcCHHHHH
Confidence            999999864  47888887654

>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=1.1e-34  Score=219.96  Aligned_cols=166  Identities=17%  Similarity=0.223  Sum_probs=157.4

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEe
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWD   82 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d   82 (177)
                      +.+++.+||++|++|++++++|..+|++.+.++++.+++.|++.++.++++..++++++..+|.++++|++++++++|+|
T Consensus        35 ~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~d  114 (213)
T d1iru1_          35 IHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLD  114 (213)
T ss_dssp             EEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEEC
T ss_pred             eeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHhhhcccccceEEEe
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC---------CCCCHHHHHHHHHHHHHHHHhccCCCCCcEE
Q psy11707         83 K-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH---------WNLTDEEAHQLARKSIYHATYRDFASGGLIR  152 (177)
Q Consensus        83 ~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~---------~~~s~~ea~~l~~~~l~~~~~~d~~~g~~ie  152 (177)
                      . ++|.+|.+||+|.+.++++.++|+|+.++++.||+.|.         ++||.+||++++++||..+.++|..+++.++
T Consensus       115 ~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~  194 (213)
T d1iru1_         115 EEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALR  194 (213)
T ss_dssp             TTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEE
T ss_pred             cCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhcccccCCCHHHHHHHHHHHHHHHHHhcCCCCCceE
Confidence            7 55899999999999999999999999999999998764         7899999999999999999999999999999


Q ss_pred             EEEEcCCceEEEEecC
Q psy11707        153 GNASGQQWNQGRFLGH  168 (177)
Q Consensus       153 v~iitkdg~~~~~l~~  168 (177)
                      |++|+|||++++.++-
T Consensus       195 v~~i~k~G~~~~~~~~  210 (213)
T d1iru1_         195 ICIVTKEGIREETVSL  210 (213)
T ss_dssp             EEEEETTEEEEEEEEC
T ss_pred             EEEEeCCCEEEEEEec
Confidence            9999999999887764

>d1iruk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.9e-35  Score=219.50  Aligned_cols=168  Identities=23%  Similarity=0.320  Sum_probs=157.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC--CCceEEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG--TGLSMGMMIAG   80 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~--~P~~v~~lvaG   80 (177)
                      +.+++.+|||+|+++++|+++|..+|++.+.++++.+++.|+..++.+++++.+++.++..++.+++  +|++++++++|
T Consensus        27 ~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~aG  106 (199)
T d1iruk_          27 QMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAG  106 (199)
T ss_dssp             EEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHTSSSCCCEEEEEEE
T ss_pred             eecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHHHHHHHHHHHHhhccCCcceeeeecc
Confidence            4467889999999999999999999999999999999999999999999999999999998887643  69999999999


Q ss_pred             EeC-CCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCC
Q psy11707         81 WDK-RGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNASGQQ  159 (177)
Q Consensus        81 ~d~-~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~iitkd  159 (177)
                      +|+ .+|+||.+||+|.+.++++.++|+|+.+++++|++.|+++|+.+||++++++||..+.++|..++++++|++|+++
T Consensus       107 ~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l~~~al~~~~~~d~~sg~~~~v~vv~~~  186 (199)
T d1iruk_         107 YDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVRIIDKN  186 (199)
T ss_dssp             EETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEEETT
T ss_pred             eeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCcCCceEEEEEcCC
Confidence            997 5699999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEEecCCCCC
Q psy11707        160 WNQGRFLGHQKGP  172 (177)
Q Consensus       160 g~~~~~l~~~~~~  172 (177)
                      |++  .+.+..+|
T Consensus       187 g~~--~~~~~~~~  197 (199)
T d1iruk_         187 GIH--DLDNISFP  197 (199)
T ss_dssp             EEE--CCCCBCCC
T ss_pred             CeE--EcCCccCC
Confidence            975  46666665

>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=2.6e-34  Score=219.98  Aligned_cols=167  Identities=25%  Similarity=0.323  Sum_probs=153.1

Q ss_pred             CCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCC---CCceEEEEEE
Q psy11707          3 SSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKG---TGLSMGMMIA   79 (177)
Q Consensus         3 i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~---~P~~v~~lva   79 (177)
                      +.+++.+||++|+++++|+++|..+|++.+.+.++.+++.|++.++.+++++.+++.+++.+|.+++   +|+++.++++
T Consensus        26 i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (224)
T d1q5qh_          26 IASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLV  105 (224)
T ss_dssp             EEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHHHTTTCCEEEEEE
T ss_pred             eecCCcceEEEeCCcEEEEecccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHHHHHHHHHHHhhcccccCccceeeEE
Confidence            4567889999999999999999999999999999999999999999999999999999999998864   6899999999


Q ss_pred             EEeC------CCCeEEEEcCCCceeee--ceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCc-
Q psy11707         80 GWDK------RGPQLYYVDSDGQRIKG--NVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGL-  150 (177)
Q Consensus        80 G~d~------~gp~ly~id~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~-  150 (177)
                      |++.      .+|+||.+||+|+...+  ++.|+|+|+.+++++||+.|+++||.+||++++++||..+.+||..+|+. 
T Consensus       106 g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt~~ea~~l~~~al~~a~~rD~~SGg~~  185 (224)
T d1q5qh_         106 GYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPD  185 (224)
T ss_dssp             EECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTTCCCB
T ss_pred             EeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHhhccccCCcc
Confidence            9873      46999999999998876  77999999999999999999999999999999999999999999999874 


Q ss_pred             ------EEEEEEcCCceEEEEecCCCC
Q psy11707        151 ------IRGNASGQQWNQGRFLGHQKG  171 (177)
Q Consensus       151 ------iev~iitkdg~~~~~l~~~~~  171 (177)
                            +++++++++|.+  .++++|+
T Consensus       186 ~~~~~~~~~~~i~~~g~~--~l~~~ei  210 (224)
T d1q5qh_         186 LTRGIYPTAVTITQAGAV--HVSEETT  210 (224)
T ss_dssp             TTTTBCCEEEEEETTEEE--ECCHHHH
T ss_pred             cccccceEEEEEeCCcEE--EcCHHHH
Confidence                  789999999865  5666554

>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=99.73  E-value=2.6e-18  Score=124.99  Aligned_cols=146  Identities=11%  Similarity=-0.016  Sum_probs=109.0

Q ss_pred             CCCCCccCceEEecCcEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEE
Q psy11707          2 SSSSGSMKKIVEINDYLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGW   81 (177)
Q Consensus         2 ~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~   81 (177)
                      .|++++.+||++|+++++++.+|..+|.+.+...+..+...+....     ........+..+..+. .++....++.+.
T Consensus        25 ~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~-~~~~~~~~~~~~   98 (171)
T d1m4ya_          25 TVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAAVELAKDWRTDR-VLRRLEALLLVA   98 (171)
T ss_dssp             EEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHHHHHHHHHHHCT-TGGGCCCEEEEE
T ss_pred             EEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhhcc-----chhhHHHHHHHHHHhh-hhccccccccee
Confidence            3678899999999999999999999999988877665554433222     1222222222222221 112223445556


Q ss_pred             eCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCC-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         82 DKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYH-WNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        82 d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~-~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      +..+|+++..|+.|.....++.|+|+|+.++++.|+.+++ ++|+   |.+++++||..+.++|..+|++++|..|
T Consensus        99 ~~~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~---a~el~~~Ai~~A~e~dvyTg~~~~i~~~  171 (171)
T d1m4ya_          99 DKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS---AREIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             CSSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC---HHHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             cCCcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhhceEcCCcEEEEEC
Confidence            6788999999999999999999999999999999998764 5775   5678999999999999999999888653

>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=99.73  E-value=9.2e-19  Score=128.63  Aligned_cols=144  Identities=15%  Similarity=0.042  Sum_probs=105.5

Q ss_pred             CccCceEEecC-cEEEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEeCC
Q psy11707          6 GSMKKIVEIND-YLLGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAGWDKR   84 (177)
Q Consensus         6 ~~~~ki~~i~~-~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG~d~~   84 (177)
                      ...+|++++++ .++++.+|..+|.+.+.+.++.+...++............+... ...+.+...++......+|++..
T Consensus        35 ~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  113 (180)
T d2z3ba1          35 HTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAVELAKEWRS-DKVLRKLEAMLIVMNQDTLLLVS  113 (180)
T ss_dssp             SCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-CTTGGGCCCCEEEECSSCEEEEC
T ss_pred             ccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhccccchhHHHHHHHHhH-HHHHHHhhcceeeeecccccccc
Confidence            35788999987 48888899999999999888777665543322222211111111 11112222344555555666666


Q ss_pred             CCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         85 GPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        85 gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      ++.++..+++|      +.|+|+|+.+++++|+..|+++|+.+||++++++||+.+.++|..+|+.++|..|
T Consensus       114 ~~~~~~~~~~~------~~a~GSGs~~A~g~l~~~~~~~~s~~eA~~l~~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         114 GTGEVIEPDDG------ILAIGSGGNYALAAGRALKKHAGESMSASEIARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             TTCCEECCSSS------EEEESTTHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             CCceeeccccc------EEEEcCchHHHHHHHHHHhhcCCCccCHHHHHHHHHHHHHhhcEEcCCcEEEEEe
Confidence            66777666665      7799999999999999999999999999999999999999999999999998876

>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=99.68  E-value=4.8e-17  Score=118.42  Aligned_cols=147  Identities=15%  Similarity=0.121  Sum_probs=104.1

Q ss_pred             CCCCCccCceEEecCcE-EEEEcCChhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEE
Q psy11707          2 SSSSGSMKKIVEINDYL-LGTLAGGAADCVYWDRVLAKQCRLYELRNGERISVAAASKLMCNMAYNYKGTGLSMGMMIAG   80 (177)
Q Consensus         2 ~i~~~~~~ki~~i~~~i-~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~i~~~~~~~~~~P~~v~~lvaG   80 (177)
                      .|.+++.+||++|++++ +++.+|...+.+.+.+..+.+..     .. .......+..++..+...+..+.....++++
T Consensus        25 ~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (173)
T d1g3ka_          25 TVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLE-----MH-QGHLLKSAVELAKDWRTDRALRKLEAMLIVA   98 (173)
T ss_dssp             EEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHH-----HT-TTCHHHHHHHHHHHHHHSTTGGGCCCEEEEE
T ss_pred             EeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHH-----hh-cCcchhHHHHHHHHHHHhhhhcccccccccc
Confidence            36789999999998874 55566666555554443322221     11 2233344444444444444443444444555


Q ss_pred             EeCCCCeEEEEcCCCceeeeceeEecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q psy11707         81 WDKRGPQLYYVDSDGQRIKGNVFSVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSIYHATYRDFASGGLIRGNAS  156 (177)
Q Consensus        81 ~d~~gp~ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~g~~iev~ii  156 (177)
                      .+..++.++..|+.|...+.++.|+|+|+.++++.|+.+++  ++.++|.+++++||..+.++|..+|+.++|..|
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~ela~~Ai~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_          99 DEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAHEIVEKSLRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             CSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             cCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHHHHHHHHHHHHHhhcEEcCCcEEEEEC
Confidence            44577999999999999999999999999999999998874  445578889999999999999999988888765

>d1cuka1 a.5.1.1 (A:156-203) DNA helicase RuvA subunit, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: DNA helicase RuvA subunit, C-terminal domain
family: DNA helicase RuvA subunit, C-terminal domain
domain: DNA helicase RuvA subunit, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=88.47  E-value=0.26  Score=26.56  Aligned_cols=34  Identities=12%  Similarity=-0.017  Sum_probs=29.4

Q ss_pred             EecCCcHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Q psy11707        104 SVGSGSVFAFGVLDTGYHWNLTDEEAHQLARKSI  137 (177)
Q Consensus       104 a~G~gs~~~~~~Le~~~~~~~s~~ea~~l~~~~l  137 (177)
                      +.|+....+...+.+...++++.|+.++.+++++
T Consensus        14 ~LGY~~~ea~~av~~i~~~~~s~E~lIk~ALk~m   47 (48)
T d1cuka1          14 ALGYKPQEASRMVSKIARPDASSETLIREALRAA   47 (48)
T ss_dssp             HHTCCHHHHHHHHHHSCCSSCCHHHHHHHHHHTT
T ss_pred             HcCCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999999998888877753