Psyllid ID: psy2074

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180----
Protein Sequence
MWNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF
Secondary Structure (PSIPRED)
cccccccHHHccccccccccccccccccccEEEEEEccEEEEEEccccccccEEEccccccEEEEccEEEEEccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccEEEEEEEEEEcccccEEEEEcccccEEEEcEEEEccHHHHHHHHHcccccccccHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccccHcHccccccccHHHHHHEccccEEEEEEccEEEEEEcccEEEccEEEEcccccEEEEEccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccEEEEEEEEEcccEEEEEEEccccccEEEcEEEEcHHHHHHHHHHHHHccccccHHHHHHHc
Coil and Loop (DISEMBL)
mwnkdynvnayhggveapdwltakhscgTTIIAVEfdggvvigadsrsstgAYVANRVADkltrvtdniyccrsgsaadtQAISDFVSYNLDLqrmelgeeplvysGAKLFQELVYSYRDSLTAgiicagwdrkkggqvyciplggmLMRQKmamggsgstylyghmdnqfkenmtkkeamstf
Flexible Loop (DISEMBL)
mwnkdynvNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGAdsrsstgayvanrvadkltrvTDNIYCCRsgsaadtqaISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIicagwdrkkGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF
Low Complexity Region (SEG)
MWNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF
Disordered region (IsUnstruct)
****DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGH******************
Disordered Region (DISOPRED)
****DY****************AKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF
Disordered Region (DISEMBL)
MWNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF
Disordered Region (DISPRO)
*WNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MWNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	184	2.2.26 [Sep-21-2011]
Q3MHN0	239	Proteasome subunit beta t	yes	N/A	0.896	0.690	0.6	1e-58
P28073	238	Proteasome subunit beta t	yes	N/A	0.945	0.731	0.585	2e-58
P28072	239	Proteasome subunit beta t	yes	N/A	0.891	0.686	0.597	3e-58
Q60692	238	Proteasome subunit beta t	yes	N/A	0.891	0.689	0.591	1e-57
Q55GJ6	214	Proteasome subunit beta t	yes	N/A	0.907	0.780	0.580	6e-53
Q8LD27	233	Proteasome subunit beta t	yes	N/A	0.869	0.686	0.543	4e-47
O43063	226	Probable proteasome subun	yes	N/A	0.836	0.681	0.538	1e-46
P38624	215	Proteasome subunit beta t	yes	N/A	0.842	0.720	0.570	2e-46
P93395	234	Proteasome subunit beta t	N/A	N/A	0.853	0.670	0.541	1e-45
Q8UW64	217	Proteasome subunit beta t	N/A	N/A	0.875	0.741	0.512	3e-45

>sp|Q3MHN0|PSB6_BOVIN Proteasome subunit beta type-6 OS=Bos taurus GN=PSMB6 PE=1 SV=1

 Score =  225 bits (574), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 99/165 (60%), Positives = 133/165 (80%)

Query: 17  APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGS 76
           APDW   + S GTTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT + D I+CCRSGS
Sbjct: 23  APDWENREVSTGTTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGS 82

Query: 77  AADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKG 136
           AADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGWD ++G
Sbjct: 83  AADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEG 142

Query: 137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           GQVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct: 143 GQVYSVPMGGMMVRQPFAIGGSGSSYIYGYVDATYREGMTKEECL 187

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. May catalyze basal processing of intracellular antigens.
Bos taurus (taxid: 9913)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|P28073|PSB6_RAT Proteasome subunit beta type-6 OS=Rattus norvegicus GN=Psmb6 PE=1 SV=3

 Score =  224 bits (572), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 103/176 (58%), Positives = 138/176 (78%), Gaps = 2/176 (1%)

Query: 8   VNAYHGGVEA--PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRV 65
           V+A   G EA  PDW   + S GTTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT +
Sbjct: 11  VSAPAFGPEALTPDWENREVSTGTTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPI 70

Query: 66  TDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAG 125
            D+I+CCRSGSAADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AG
Sbjct: 71  HDHIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAG 130

Query: 126 IICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           II AGWD ++GGQVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK E +
Sbjct: 131 IIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECL 186

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

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P28072|PSB6_HUMAN Proteasome subunit beta type-6 OS=Homo sapiens GN=PSMB6 PE=1 SV=4

 Score =  224 bits (570), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 98/164 (59%), Positives = 133/164 (81%)

Query: 18  PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA 77
           PDW + + S GTTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT + D I+CCRSGSA
Sbjct: 24  PDWESREVSTGTTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSA 83

Query: 78  ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
           ADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGWD ++GG
Sbjct: 84  ADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGG 143

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           QVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct: 144 QVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECL 187

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 peptidyl glutamyl-like activity. May catalyze basal processing of intracellular antigens.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q60692|PSB6_MOUSE Proteasome subunit beta type-6 OS=Mus musculus GN=Psmb6 PE=1 SV=3

 Score =  221 bits (564), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 97/164 (59%), Positives = 132/164 (80%)

Query: 18  PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA 77
           PDW   + S GTTI+AV+F+GGVV+GADSR++TG+Y+ANRV DKLT + D+I+CCRSGSA
Sbjct: 23  PDWENREVSTGTTIMAVQFNGGVVLGADSRTTTGSYIANRVTDKLTPIHDHIFCCRSGSA 82

Query: 78  ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
           ADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGWD ++GG
Sbjct: 83  ADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGG 142

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           QVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK E +
Sbjct: 143 QVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECL 186

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. May catalyze basal processing of intracellular antigens.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q55GJ6|PSB6_DICDI Proteasome subunit beta type-6 OS=Dictyostelium discoideum GN=psmB6 PE=1 SV=1

 Score =  206 bits (525), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 97/167 (58%), Positives = 130/167 (77%)

Query: 15  VEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRS 74
           +EAP+WL      GT+I+AVE+DGGV++GADSR++TGAY+ANRV +K+T + + IYCCRS
Sbjct: 1   MEAPEWLDNAVDLGTSIMAVEYDGGVIMGADSRTTTGAYIANRVTNKITPIHERIYCCRS 60

Query: 75  GSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRK 134
           GSAADTQAISD+V Y L++   EL +EP V + A LFQ L YS +++L AGII AGWD+ 
Sbjct: 61  GSAADTQAISDYVRYYLEMHTSELCDEPDVKTAASLFQLLCYSNKNNLMAGIIVAGWDKH 120

Query: 135 KGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +GG VY I LGG +++Q  A+GGSGSTY+YG+ D++FK  MTK E +
Sbjct: 121 QGGSVYNISLGGSMVKQPFAIGGSGSTYIYGYCDSKFKPKMTKDECI 167

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|Q8LD27|PSB6_ARATH Proteasome subunit beta type-6 OS=Arabidopsis thaliana GN=PBA1 PE=1 SV=2

 Score =  187 bits (474), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 87/160 (54%), Positives = 118/160 (73%)

Query: 21  LTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADT 80
           L A HS GTTII V ++GGVV+GADSR+STG YVANR +DK+T++TDN+Y CRSGSAAD+
Sbjct: 5   LDAPHSMGTTIIGVTYNGGVVLGADSRTSTGMYVANRASDKITQLTDNVYVCRSGSAADS 64

Query: 81  QAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVY 140
           Q +SD+V Y L    ++ G+   V   A L + L Y+ ++ L  G+I  GWD+ +GG++Y
Sbjct: 65  QVVSDYVRYFLHQHTIQHGQPATVKVSANLIRMLAYNNKNMLQTGLIVGGWDKYEGGKIY 124

Query: 141 CIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            IPLGG ++ Q  A+GGSGS+YLYG  D  +K+NMTK+EA
Sbjct: 125 GIPLGGTVVEQPFAIGGSGSSYLYGFFDQAWKDNMTKEEA 164

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

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|O43063|PSB1_SCHPO Probable proteasome subunit beta type-1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pre3 PE=3 SV=1

 Score =  186 bits (471), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 83/154 (53%), Positives = 117/154 (75%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTTI A+ +  GV++ ADSR++ GAY+ANRV DKLT++TDNI+CCRSGSAADTQ ++D +
Sbjct: 24  GTTITALRYKDGVILAADSRTTMGAYIANRVTDKLTQLTDNIWCCRSGSAADTQTVADLL 83

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGM 147
            Y L + R++ G +P V++ A L  E+ Y  ++ L+AG+I AG+D K GG VY IPLGG 
Sbjct: 84  KYYLSMYRIQFGHDPSVHTAATLASEMCYQNKNMLSAGLIVAGYDEKTGGDVYSIPLGGS 143

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           L +Q +A+GGSGS ++YG  D  F+ENMT++EA+
Sbjct: 144 LHKQPLAIGGSGSAFIYGFCDANFRENMTQEEAV 177

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

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P38624|PSB1_YEAST Proteasome subunit beta type-1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PRE3 PE=1 SV=2

 Score =  184 bits (468), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 89/156 (57%), Positives = 118/156 (75%), Gaps = 1/156 (0%)

Query: 26  SCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISD 85
           S GT+I+AV F  GV++GADSR++TGAY+ANRV DKLTRV D I+CCRSGSAADTQAI+D
Sbjct: 17  SLGTSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIAD 76

Query: 86  FVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLG 145
            V Y+L+L   + G  P   + A +F+EL Y  +D+LTAGII AG+D K  G+VY IPLG
Sbjct: 77  IVQYHLELYTSQYG-TPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLG 135

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           G + +   A+ GSGST++YG+ D  F+ENM+K+E +
Sbjct: 136 GSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETV 171

This subunit is necessary for the peptidylglutamyl-peptide hydrolyzing activity.

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P93395|PSB6_TOBAC Proteasome subunit beta type-6 OS=Nicotiana tabacum PE=2 SV=1

 Score =  182 bits (462), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 85/157 (54%), Positives = 115/157 (73%)

Query: 24  KHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI 83
            HS GTTII V ++GGVV+GADSR+STG YVANR +DK+T++TDN+Y CRSGSAAD+Q +
Sbjct: 9   PHSMGTTIIGVTYNGGVVLGADSRTSTGMYVANRASDKITQLTDNVYVCRSGSAADSQIV 68

Query: 84  SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIP 143
           SD+V Y L    ++LG+   V   A L + L Y+ +D L  G+I  GWD+ +GG++Y IP
Sbjct: 69  SDYVRYFLHQHTIQLGQPATVKVAANLTRLLSYNNKDRLQTGMIIGGWDKYEGGKIYGIP 128

Query: 144 LGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            GG ++ Q  A+GGSGS+YLYG  D  +KE MT++EA
Sbjct: 129 PGGTVLEQPFAIGGSGSSYLYGFFDQAWKEGMTQEEA 165

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

Nicotiana tabacum (taxid: 4097)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q8UW64|PSB9_ORYLA Proteasome subunit beta type-9 OS=Oryzias latipes GN=psmb9 PE=3 SV=1

 Score =  181 bits (458), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 83/162 (51%), Positives = 117/162 (72%), Gaps = 1/162 (0%)

Query: 18  PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA 77
           P W++ +   GTTIIA+EF+GGVV+G+DSR S G  V NRV +KL+ + D IYC  SGSA
Sbjct: 8   PQWISEEVKTGTTIIAIEFNGGVVLGSDSRVSAGDSVVNRVMNKLSPLHDKIYCALSGSA 67

Query: 78  ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
           AD Q I++ V+Y LD+  +E+ E+P V S A L + + Y Y++ L+A +I AGWDR+ GG
Sbjct: 68  ADAQTIAEMVNYQLDVHSLEIDEDPQVRSAATLVKNISYKYKEELSAHLIVAGWDRRDGG 127

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE 179
           QV+   LGG+L RQ  A+GGSGS+Y+YG +D +++  MTK+E
Sbjct: 128 QVFAT-LGGLLTRQPFAIGGSGSSYVYGFVDAEYRRGMTKEE 168

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.

Oryzias latipes (taxid: 8090)

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	184
443696644	231	hypothetical protein CAPTEDRAFT_156053 [	0.885	0.705	0.699	6e-65
346472801	242	hypothetical protein [Amblyomma maculatu	0.896	0.681	0.703	1e-64
321464090	225	hypothetical protein DAPPUDRAFT_306867 [	0.896	0.733	0.678	4e-64
389609335	220	proteasome beta1 subunit [Papilio xuthus	0.891	0.745	0.652	4e-64
350425330	232	PREDICTED: proteasome subunit beta type-	0.891	0.706	0.676	1e-63
167521337	216	hypothetical protein [Monosiga brevicoll	0.891	0.759	0.682	5e-63
91087659	224	PREDICTED: similar to predicted protein	0.929	0.763	0.632	1e-62
383850393	232	PREDICTED: proteasome subunit beta type-	0.885	0.702	0.668	6e-62
320164621	223	proteasome subunit beta type-6 [Capsaspo	0.891	0.735	0.670	8e-62
380027365	232	PREDICTED: proteasome subunit beta type-	0.885	0.702	0.662	9e-62

>gi|443696644|gb|ELT97307.1| hypothetical protein CAPTEDRAFT_156053 [Capitella teleta]

 Score =  252 bits (643), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 114/163 (69%), Positives = 142/163 (87%)

Query: 17  APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGS 76
            PDW++A+H  GTTI+AVE+DGGVV+GADSR++TG+YVANRV DKLT+V+D IYCCRSGS
Sbjct: 20  VPDWMSAEHLTGTTIVAVEYDGGVVVGADSRTTTGSYVANRVTDKLTKVSDYIYCCRSGS 79

Query: 77  AADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKG 136
           AADTQAISD VSY+L + + EL EEPLV++GA +FQ+L Y+YRD L+AGIICAGWD++KG
Sbjct: 80  AADTQAISDIVSYHLSVHKAELNEEPLVHTGASIFQDLCYNYRDQLSAGIICAGWDKRKG 139

Query: 137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE 179
           GQVY IPLGGM +R   ++GGSGSTYLYG +D+ FKE MTK+E
Sbjct: 140 GQVYSIPLGGMCVRVPFSIGGSGSTYLYGWVDSAFKEKMTKEE 182

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|346472801|gb|AEO36245.1| hypothetical protein [Amblyomma maculatum]

 Score =  251 bits (640), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 116/165 (70%), Positives = 140/165 (84%)

Query: 18  PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA 77
           PDW+TA+HS GT+IIAVEFDGGVVIGAD+R+STGAYVANRV+DKLTRVTD IYCCRSGSA
Sbjct: 32  PDWMTAEHSTGTSIIAVEFDGGVVIGADTRTSTGAYVANRVSDKLTRVTDRIYCCRSGSA 91

Query: 78  ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
           +DTQAI+D V+Y++ L  M +GE   V + A +F+EL Y++RD L AGIICAGWDR  GG
Sbjct: 92  SDTQAIADIVTYHVGLYEMVMGEPAKVETAANIFRELCYNHRDQLVAGIICAGWDRHNGG 151

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
           QVY +PLGGMLMRQ +AMGGSGSTYLYG++D  +K  MTK+E +S
Sbjct: 152 QVYMVPLGGMLMRQPVAMGGSGSTYLYGYVDANYKPGMTKEECLS 196

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321464090|gb|EFX75100.1| hypothetical protein DAPPUDRAFT_306867 [Daphnia pulex]

 Score =  249 bits (635), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 112/165 (67%), Positives = 142/165 (86%)

Query: 17  APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGS 76
           +PDWLT++HS GT+I+AVEF+GGVVIGADSR+STGAYVANRV DKLT++T++IYCCRSGS
Sbjct: 14  SPDWLTSEHSTGTSIMAVEFNGGVVIGADSRTSTGAYVANRVTDKLTKITNHIYCCRSGS 73

Query: 77  AADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKG 136
           AADTQAI+D V+Y+L+   ++LGE PLV + A +FQEL Y+YRD LTAGIICAGWDR+ G
Sbjct: 74  AADTQAIADIVNYHLEFHEVQLGEAPLVKTAASVFQELCYNYRDQLTAGIICAGWDRRHG 133

Query: 137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           GQV+ IPLGGM +RQ  A+GGSGSTY++G +D+ FK+ M K E +
Sbjct: 134 GQVFNIPLGGMCVRQSFAIGGSGSTYVFGFVDSNFKKGMIKDECV 178

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389609335|dbj|BAM18279.1| proteasome beta1 subunit [Papilio xuthus]

 Score =  249 bits (635), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 107/164 (65%), Positives = 142/164 (86%)

Query: 18  PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA 77
           P+W+ A HS GT+I+A EFDGGVVIGADSR++TGAY+ANRV DKLT++TD+IYCCRSGSA
Sbjct: 15  PEWMNAPHSTGTSIMACEFDGGVVIGADSRTTTGAYIANRVTDKLTKITDHIYCCRSGSA 74

Query: 78  ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
           ADTQAI+D V+Y+L+  +MELGE PLV + A +F+EL Y+YRDSL AGI+ AGWD+K+GG
Sbjct: 75  ADTQAIADIVTYHLNFHKMELGEPPLVQTAAAIFRELCYNYRDSLVAGILVAGWDKKEGG 134

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           Q+YC+P+GGM+ RQ +++GGSGS+Y+YG++D  FK  M+K EA+
Sbjct: 135 QIYCVPIGGMVQRQAVSIGGSGSSYVYGYVDANFKPKMSKDEAV 178

Source: Papilio xuthus

Species: Papilio xuthus

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350425330|ref|XP_003494087.1| PREDICTED: proteasome subunit beta type-6-like [Bombus impatiens]

 Score =  247 bits (631), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 111/164 (67%), Positives = 142/164 (86%)

Query: 18  PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA 77
           PDWL+++ S GT+I+A EFDGGVVIGADSR++TGAY++NR ADKLT++TD+IYCCRSGSA
Sbjct: 22  PDWLSSEQSTGTSIMACEFDGGVVIGADSRATTGAYISNRFADKLTKITDHIYCCRSGSA 81

Query: 78  ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
           ADTQAISD V+Y+L L +MELG EPLV + A +F+EL Y+YRDSL AGI+ AGWD +KGG
Sbjct: 82  ADTQAISDIVAYHLSLHKMELGMEPLVETAANVFRELCYNYRDSLMAGILVAGWDSRKGG 141

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           QVY IPLGGM +RQ +++GGSGSTY+YG+MD Q+K NM++ E +
Sbjct: 142 QVYSIPLGGMCVRQPISIGGSGSTYVYGYMDAQYKPNMSRDECV 185

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|167521337|ref|XP_001745007.1| hypothetical protein [Monosiga brevicollis MX1] gi|163776621|gb|EDQ90240.1| predicted protein [Monosiga brevicollis MX1]

 Score =  245 bits (626), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 112/164 (68%), Positives = 137/164 (83%)

Query: 18  PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA 77
           PDW+TA+H  GTTI+AVEF  GVVIGADSR++TG+YVANRV DKLT++TDNIYCCRSGSA
Sbjct: 6   PDWVTAEHLTGTTIMAVEFADGVVIGADSRTTTGSYVANRVTDKLTKITDNIYCCRSGSA 65

Query: 78  ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
           ADTQAI+D V Y LDL  ME+ E+P V++ A +F+   Y+ R+SL AGIICAGWD+KKGG
Sbjct: 66  ADTQAIADIVRYYLDLHSMEMDEDPEVHTAASVFRTFCYNNRESLMAGIICAGWDKKKGG 125

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           QVY IPLGG+L+RQ  ++GGSGST+LYGH D  +KENMTK E +
Sbjct: 126 QVYSIPLGGLLVRQPFSIGGSGSTFLYGHCDASYKENMTKDECL 169

Source: Monosiga brevicollis MX1

Species: Monosiga brevicollis

Genus: Monosiga

Family: Codonosigidae

Order: Choanoflagellida

Superkingdom: Eukaryota

>gi|91087659|ref|XP_973571.1| PREDICTED: similar to predicted protein [Tribolium castaneum] gi|270009417|gb|EFA05865.1| hypothetical protein TcasGA2_TC008665 [Tribolium castaneum]

 Score =  244 bits (624), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 112/177 (63%), Positives = 147/177 (83%), Gaps = 6/177 (3%)

Query: 5   DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTR 64
           DY +NA        DW+ A HS GT+I+A EF+GGV+IGADSR++TGAY+ANRV DKLT+
Sbjct: 7   DYGMNA------ESDWMNAAHSTGTSIMAAEFNGGVIIGADSRTTTGAYIANRVTDKLTK 60

Query: 65  VTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTA 124
           VTD+IYCCRSGSAADTQAI+D V+Y+L    MELGEEPLV +GA +F+EL Y+YRDSL A
Sbjct: 61  VTDHIYCCRSGSAADTQAIADIVAYHLSFHGMELGEEPLVETGAAVFRELCYNYRDSLMA 120

Query: 125 GIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           GI+ AGWD++KGGQVY IP+GGM +RQ++++GGSGS+Y+YG++D  +K NM+K+E +
Sbjct: 121 GILVAGWDKRKGGQVYSIPIGGMCVRQQVSIGGSGSSYVYGYVDANYKPNMSKEECV 177

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383850393|ref|XP_003700780.1| PREDICTED: proteasome subunit beta type-6-like isoform 1 [Megachile rotundata]

 Score =  242 bits (617), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 109/163 (66%), Positives = 142/163 (87%)

Query: 17  APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGS 76
            PDWL ++ S GT+I+A EFDGGVVIGADSR++TGAY+++R ADKLT++TD IYCCRSGS
Sbjct: 21  VPDWLHSEKSTGTSIMACEFDGGVVIGADSRATTGAYISSRFADKLTKITDYIYCCRSGS 80

Query: 77  AADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKG 136
           AADTQAISD V+Y+L+L +ME+G EPLV + A +F+EL Y+YRDSL AGI+ AGWD +KG
Sbjct: 81  AADTQAISDIVAYDLNLYKMEVGMEPLVETAANVFRELCYNYRDSLMAGILVAGWDNRKG 140

Query: 137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE 179
           GQVY IPLGGM +RQ +++GGSGSTY+YG+MD+Q+K NM+++E
Sbjct: 141 GQVYSIPLGGMCVRQPISIGGSGSTYVYGYMDSQYKPNMSREE 183

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|320164621|gb|EFW41520.1| proteasome subunit beta type-6 [Capsaspora owczarzaki ATCC 30864]

 Score =  241 bits (616), Expect = 8e-62,   Method: Compositional matrix adjust.
 Identities = 110/164 (67%), Positives = 137/164 (83%)

Query: 16  EAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSG 75
           +APDWL+++H  GT+I+AVEF+GGVVIGADSR++TG+Y+ANRV DKLTR+TD IYCCRSG
Sbjct: 11  DAPDWLSSEHMTGTSIMAVEFNGGVVIGADSRTTTGSYIANRVTDKLTRITDRIYCCRSG 70

Query: 76  SAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKK 135
           SAADTQAI+D+V Y LDL  +ELGE P V+S A +FQ+L Y  R++L AGII AGWDRK 
Sbjct: 71  SAADTQAIADYVKYYLDLHSIELGERPSVHSAASVFQQLCYGNRENLMAGIIVAGWDRKL 130

Query: 136 GGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE 179
           GGQVY IPLGGM +RQ  ++GGSGSTY++GH+D  FK  MT+ E
Sbjct: 131 GGQVYTIPLGGMCLRQPFSIGGSGSTYIFGHVDATFKLGMTQAE 174

Source: Capsaspora owczarzaki ATCC 30864

Species: Capsaspora owczarzaki

Genus: Capsaspora

Class: Ichthyosporea

Superkingdom: Eukaryota

>gi|380027365|ref|XP_003697397.1| PREDICTED: proteasome subunit beta type-6-like [Apis florea]

 Score =  241 bits (615), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 108/163 (66%), Positives = 141/163 (86%)

Query: 19  DWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAA 78
           DW++++ S GT+I+A EFDGGVVIGADSR++TGAY++NR ADKLT++TD IYCCRSGSAA
Sbjct: 23  DWVSSEQSTGTSIMACEFDGGVVIGADSRATTGAYISNRFADKLTKITDYIYCCRSGSAA 82

Query: 79  DTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQ 138
           DTQAISD V+Y+L L +MELG EPLV + A +F+EL Y+YRDSL AGI+ AGWD +KGGQ
Sbjct: 83  DTQAISDIVAYHLSLHKMELGIEPLVETAANVFRELCYNYRDSLMAGILVAGWDSRKGGQ 142

Query: 139 VYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           VY +P+GGM +RQ +++GGSGSTY+YG+MD+Q+K NM+K E +
Sbjct: 143 VYSVPIGGMCVRQPISIGGSGSTYVYGYMDSQYKPNMSKNECV 185

Source: Apis florea

Species: Apis florea

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	184
UNIPROTKB|Q3MHN0	239	PSMB6 "Proteasome subunit beta	0.896	0.690	0.6	5.5e-54
UNIPROTKB|P28072	239	PSMB6 "Proteasome subunit beta	0.913	0.702	0.594	5.5e-54
RGD|61881	238	Psmb6 "proteasome (prosome, ma	0.945	0.731	0.585	7e-54
UNIPROTKB|E2R0B6	239	PSMB6 "Proteasome subunit beta	0.913	0.702	0.588	8.9e-54
UNIPROTKB|F1RFV5	241	PSMB6 "Proteasome subunit beta	0.913	0.697	0.594	1.1e-53
ZFIN|ZDB-GENE-990415-216	232	psmb6 "proteasome (prosome, ma	0.891	0.706	0.603	1.1e-53
MGI|MGI:104880	238	Psmb6 "proteasome (prosome, ma	0.913	0.705	0.588	3e-53
DICTYBASE|DDB_G0267390	214	psmB6 "proteasome subunit beta	0.907	0.780	0.580	4.6e-50
FB|FBgn0010590	224	Prosbeta1 "Proteasome beta1 su	0.896	0.736	0.584	2e-49
ASPGD|ASPL0000017034	233	AN3756 [Emericella nidulans (t	0.836	0.660	0.584	1.3e-45

UNIPROTKB|Q3MHN0 PSMB6 "Proteasome subunit beta type-6" [Bos taurus (taxid:9913)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 99/165 (60%), Positives = 133/165 (80%)

Query:    17 APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGS 76
             APDW   + S GTTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT + D I+CCRSGS
Sbjct:    23 APDWENREVSTGTTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGS 82

Query:    77 AADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKG 136
             AADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGWD ++G
Sbjct:    83 AADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEG 142

Query:   137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             GQVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct:   143 GQVYSVPMGGMMVRQPFAIGGSGSSYIYGYVDATYREGMTKEECL 187

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

UNIPROTKB|P28072 PSMB6 "Proteasome subunit beta type-6" [Homo sapiens (taxid:9606)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 101/170 (59%), Positives = 136/170 (80%)

Query:    14 GVEA--PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYC 71
             G EA  PDW + + S GTTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT + D I+C
Sbjct:    18 GPEAFTPDWESREVSTGTTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFC 77

Query:    72 CRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGW 131
             CRSGSAADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGW
Sbjct:    78 CRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGW 137

Query:   132 DRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             D ++GGQVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct:   138 DPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECL 187

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

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

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

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

GO:0004175 "endopeptidase activity" evidence=NAS

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: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

RGD|61881 Psmb6 "proteasome (prosome, macropain) subunit, beta type 6" [Rattus norvegicus (taxid:10116)]

 Score = 557 (201.1 bits), Expect = 7.0e-54, P = 7.0e-54
 Identities = 103/176 (58%), Positives = 138/176 (78%)

Query:     8 VNAYHGGVEA--PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRV 65
             V+A   G EA  PDW   + S GTTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT +
Sbjct:    11 VSAPAFGPEALTPDWENREVSTGTTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPI 70

Query:    66 TDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAG 125
              D+I+CCRSGSAADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AG
Sbjct:    71 HDHIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAG 130

Query:   126 IICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             II AGWD ++GGQVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK E +
Sbjct:   131 IIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECL 186

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

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

UNIPROTKB|E2R0B6 PSMB6 "Proteasome subunit beta type" [Canis lupus familiaris (taxid:9615)]

 Score = 556 (200.8 bits), Expect = 8.9e-54, P = 8.9e-54
 Identities = 100/170 (58%), Positives = 136/170 (80%)

Query:    14 GVEA--PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYC 71
             G EA  PDW + + S GTTI+AV+F+GGVV+GADSR++TG+Y+ANRV DKLT + D I+C
Sbjct:    18 GAEAITPDWESREVSTGTTIMAVQFEGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFC 77

Query:    72 CRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGW 131
             CRSGSAADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGW
Sbjct:    78 CRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGW 137

Query:   132 DRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             D ++GGQVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct:   138 DPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECL 187

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

UNIPROTKB|F1RFV5 PSMB6 "Proteasome subunit beta type" [Sus scrofa (taxid:9823)]

 Score = 555 (200.4 bits), Expect = 1.1e-53, P = 1.1e-53
 Identities = 101/170 (59%), Positives = 135/170 (79%)

Query:    14 GVEA--PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYC 71
             G EA  PDW   + S GTTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT + D I+C
Sbjct:    20 GHEAITPDWENREVSTGTTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFC 79

Query:    72 CRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGW 131
             CRSGSAADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGW
Sbjct:    80 CRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIVAGW 139

Query:   132 DRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             D ++GGQVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct:   140 DPQEGGQVYSVPMGGMMVRQAFAIGGSGSSYIYGYVDATYREGMTKEECL 189

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

ZFIN|ZDB-GENE-990415-216 psmb6 "proteasome (prosome, macropain) subunit, beta type, 6" [Danio rerio (taxid:7955)]

 Score = 555 (200.4 bits), Expect = 1.1e-53, P = 1.1e-53
 Identities = 99/164 (60%), Positives = 132/164 (80%)

Query:    18 PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA 77
             PDW   + S GTTI+AVEFDGGVV+GADSR++TGAY+ANRV DKLT + D I+CCRSGSA
Sbjct:    22 PDWTQREVSTGTTIMAVEFDGGVVMGADSRATTGAYIANRVTDKLTPIHDRIFCCRSGSA 81

Query:    78 ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
             ADTQAI+D V+Y L    +EL E PLV + A LF+++ Y YR+ L AGII AGWDR++GG
Sbjct:    82 ADTQAIADAVTYQLGFHSIELDEAPLVQTAASLFRDMCYRYREELMAGIIVAGWDRRRGG 141

Query:   138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             QVY +P+GGML RQ +++GGSGS+Y+YG++D+ ++  M+K+E +
Sbjct:   142 QVYTVPVGGMLTRQPVSVGGSGSSYIYGYVDSNYRSGMSKEECL 185

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

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005839 "proteasome core complex" 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

MGI|MGI:104880 Psmb6 "proteasome (prosome, macropain) subunit, beta type 6" [Mus musculus (taxid:10090)]

 Score = 551 (199.0 bits), Expect = 3.0e-53, P = 3.0e-53
 Identities = 100/170 (58%), Positives = 135/170 (79%)

Query:    14 GVEA--PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYC 71
             G EA  PDW   + S GTTI+AV+F+GGVV+GADSR++TG+Y+ANRV DKLT + D+I+C
Sbjct:    17 GPEALTPDWENREVSTGTTIMAVQFNGGVVLGADSRTTTGSYIANRVTDKLTPIHDHIFC 76

Query:    72 CRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGW 131
             CRSGSAADTQA++D V+Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGW
Sbjct:    77 CRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGW 136

Query:   132 DRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             D ++GGQVY +P+GGM++RQ  A+GGSGS+Y+YG++D  ++E MTK E +
Sbjct:   137 DPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECL 186

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:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

DICTYBASE|DDB_G0267390 psmB6 "proteasome subunit beta type 6" [Dictyostelium discoideum (taxid:44689)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 97/167 (58%), Positives = 130/167 (77%)

Query:    15 VEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRS 74
             +EAP+WL      GT+I+AVE+DGGV++GADSR++TGAY+ANRV +K+T + + IYCCRS
Sbjct:     1 MEAPEWLDNAVDLGTSIMAVEYDGGVIMGADSRTTTGAYIANRVTNKITPIHERIYCCRS 60

Query:    75 GSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRK 134
             GSAADTQAISD+V Y L++   EL +EP V + A LFQ L YS +++L AGII AGWD+ 
Sbjct:    61 GSAADTQAISDYVRYYLEMHTSELCDEPDVKTAASLFQLLCYSNKNNLMAGIIVAGWDKH 120

Query:   135 KGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             +GG VY I LGG +++Q  A+GGSGSTY+YG+ D++FK  MTK E +
Sbjct:   121 QGGSVYNISLGGSMVKQPFAIGGSGSTYIYGYCDSKFKPKMTKDECI 167

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

GO:0006508 "proteolysis" evidence=IEA;IDA

GO:0005737 "cytoplasm" evidence=IEA;IPI

GO:0005634 "nucleus" evidence=IEA;IPI

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

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

FB|FBgn0010590 Prosbeta1 "Proteasome beta1 subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 515 (186.3 bits), Expect = 2.0e-49, P = 2.0e-49
 Identities = 97/166 (58%), Positives = 126/166 (75%)

Query:    19 DWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAA 78
             D+     S GTTI+AVEFDGGVVIGADSR+S+GAYVANRV DKLTR+TD +YCCRSGSAA
Sbjct:     6 DFTDTPVSTGTTIMAVEFDGGVVIGADSRTSSGAYVANRVTDKLTRITDKVYCCRSGSAA 65

Query:    79 DTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQ 138
             DTQAI+D V+Y+L+    +  ++ LV+  A  F+   YSYR+SL AGII AGWD ++GGQ
Sbjct:    66 DTQAIADIVAYSLNYHENQTNKDALVFEAASEFRNYCYSYRESLLAGIIVAGWDEQRGGQ 125

Query:   139 VYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF 184
             VY IPLGGML R+   +GGSGS+++YG +   ++ NM  ++ + TF
Sbjct:   126 VYSIPLGGMLTRESCTIGGSGSSFIYGFVREHYRPNMALEDCV-TF 170

GO:0004175 "endopeptidase activity" evidence=ISS

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:0006974 "response to DNA damage stimulus" evidence=IMP

ASPGD|ASPL0000017034 AN3756 [Emericella nidulans (taxid:162425)]

 Score = 479 (173.7 bits), Expect = 1.3e-45, P = 1.3e-45
 Identities = 90/154 (58%), Positives = 119/154 (77%)

Query:    28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
             GT+I+A+ F  GV++GADSR++TGAY+ANRV DKLT+V D I+CCRSGSAADTQA++D V
Sbjct:    31 GTSIMAINFKDGVILGADSRTTTGAYIANRVTDKLTQVHDTIWCCRSGSAADTQAVADIV 90

Query:    88 SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGM 147
             SY+L++  +   E P     A LFQEL Y  +D L+AGII AG+D + GGQVY IPLGG 
Sbjct:    91 SYHLNMYSIVNNEPPSTQVAAALFQELCYENKDMLSAGIIIAGYDPRHGGQVYSIPLGGS 150

Query:   148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             L +Q  ++GGSGSTY+YG+ D  +KENMT++E +
Sbjct:   151 LHKQAYSIGGSGSTYIYGYCDANWKENMTEEEGV 184

GO:0005634 "nucleus" evidence=IEA

GO:0019774 "proteasome core complex, beta-subunit complex" evidence=IEA

GO:0034515 "proteasome storage granule" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

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

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

GO:0010499 "proteasomal ubiquitin-independent protein catabolic process" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8LD27	PSB6_ARATH	3, ., 4, ., 2, 5, ., 1	0.5437	0.8695	0.6866	yes	N/A
Q8SR11	PSB1_ENCCU	3, ., 4, ., 2, 5, ., 1	0.4620	0.8423	0.7635	yes	N/A
Q60692	PSB6_MOUSE	3, ., 4, ., 2, 5, ., 1	0.5914	0.8913	0.6890	yes	N/A
Q3MHN0	PSB6_BOVIN	3, ., 4, ., 2, 5, ., 1	0.6	0.8967	0.6903	yes	N/A
P28073	PSB6_RAT	3, ., 4, ., 2, 5, ., 1	0.5852	0.9456	0.7310	yes	N/A
P28072	PSB6_HUMAN	3, ., 4, ., 2, 5, ., 1	0.5975	0.8913	0.6861	yes	N/A
O43063	PSB1_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5389	0.8369	0.6814	yes	N/A
Q55GJ6	PSB6_DICDI	3, ., 4, ., 2, 5, ., 1	0.5808	0.9076	0.7803	yes	N/A
P38624	PSB1_YEAST	3, ., 4, ., 2, 5, ., 1	0.5705	0.8423	0.7209	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	184
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	3e-90
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	6e-54
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	4e-46
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	8e-44
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	4e-34
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	2e-33
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	1e-32
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	6e-23
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	3e-22
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	9e-22
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	7e-21
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	4e-11
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	3e-07
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	5e-07
cd03760	197	cd03760, proteasome_beta_type_4, proteasome beta t	8e-07
TIGR03690	219	TIGR03690, 20S_bact_beta, proteasome, beta subunit	4e-06
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	7e-06
cd03759	195	cd03759, proteasome_beta_type_3, proteasome beta t	1e-05
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	3e-05
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	5e-04
cd01913	171	cd01913, protease_HslV, Protease HslV and the ATPa	0.003

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

 Score =  261 bits (669), Expect = 3e-90
 Identities = 102/152 (67%), Positives = 126/152 (82%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTIIAVE+DGGVV+GADSR+STG+YVANRV DKLT++ D IYCCRSGSAADTQAI+D+V 
Sbjct: 1   TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVR 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
           Y LD+  +ELGE PLV + A LF+ L Y+Y++ L+AGII AGWD + GGQVY IPLGGML
Sbjct: 61  YYLDMHSIELGEPPLVKTAASLFKNLCYNYKEMLSAGIIVAGWDEQNGGQVYSIPLGGML 120

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
           +RQ  A+GGSGSTY+YG++D  +K  MT +E 
Sbjct: 121 IRQPFAIGGSGSTYIYGYVDANYKPGMTLEEC 152

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

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

 Score =  169 bits (430), Expect = 6e-54
 Identities = 59/154 (38%), Positives = 89/154 (57%), Gaps = 1/154 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+ ++   GVV+ AD+R+S G+ VA+R  DK+ +++DNI    +GSAADTQA++  + 
Sbjct: 1   TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLK 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGM 147
            NL L  +  G E  V + A L   ++YSYR       +I  G D+  G  +Y +   G 
Sbjct: 61  RNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGS 120

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           L+       GSGS Y YG +D  +K +MT +EA+
Sbjct: 121 LIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAV 154

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 =  149 bits (378), Expect = 4e-46
 Identities = 53/155 (34%), Positives = 83/155 (53%), Gaps = 3/155 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+ ++   GVV+ AD R ++G  VA+   +K+ ++ D+I C  +G AAD Q + + + 
Sbjct: 1   TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLT---AGIICAGWDRKKGGQVYCIPLG 145
               L R+  GE   V + AKL   L+Y Y  SL      ++ AG D + G Q+Y +   
Sbjct: 61  KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPS 120

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
           G  +  K    GSGS Y  G ++  +K +MT +EA
Sbjct: 121 GSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEA 155

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 (363), Expect = 8e-44
 Identities = 49/160 (30%), Positives = 79/160 (49%), Gaps = 5/160 (3%)

Query: 26  SCGTTIIAVEFDGGVVIGADSRSSTGAYVANRV-ADKLTRVTDNIYCCRSGSAADTQAIS 84
             GTTI+ ++   GVV+ AD R++ G+ + ++   +K+ ++ D+I    +G AAD Q + 
Sbjct: 2   KTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLV 61

Query: 85  DFVSYNLDLQRMELGEEPLV----YSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVY 140
           D+      L R+  G    V        KL     YS R      ++ AG+D   G  +Y
Sbjct: 62  DYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHLY 121

Query: 141 CIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            I   G ++  K    GSGS Y YG ++  +K +MT +EA
Sbjct: 122 SIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEA 161

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

 Score =  118 bits (299), Expect = 4e-34
 Identities = 52/153 (33%), Positives = 92/153 (60%), Gaps = 1/153 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+ V F  GVV+GAD+R++ G  VA++  +K+  +  NIYCC +G+AADT+A+++ +S
Sbjct: 1   TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMIS 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            NL+L R+  G +P V +   + ++ ++ Y+  + A ++  G D   G  +Y I   G  
Sbjct: 61  SNLELHRLNTGRKPRVVTALTMLKQHLFRYQGHIGAALVLGGVD-YTGPHLYSIYPHGST 119

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +      GSGS      +++++K +MT++EA 
Sbjct: 120 DKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAK 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 = 189

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

 Score =  118 bits (297), Expect = 2e-33
 Identities = 45/157 (28%), Positives = 81/157 (51%), Gaps = 4/157 (2%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT + ++   GVV+ AD R+++G  +A+   +K+ ++ D+I    +G AAD Q +  + 
Sbjct: 30  GTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYA 89

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS---LTAGIICAGWDRKKGGQVYCIPL 144
                L R+  GE   V + AKL   ++  Y  S       ++ AG D   G ++Y    
Sbjct: 90  RAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVD-DGGPRLYSTDP 148

Query: 145 GGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            G     K    GSGS + YG ++ +++E+++ +EA+
Sbjct: 149 SGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAI 185

Length = 236

>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 =  114 bits (287), Expect = 1e-32
 Identities = 48/159 (30%), Positives = 74/159 (46%), Gaps = 4/159 (2%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           +T +A++  GGVV+ AD R S+G  VA     K+ +  D I    +G AAD Q +   + 
Sbjct: 1   STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS--LTAGIICAGWDRKKGGQVYCIPLGG 146
             L L R+  GE   V + AK   +L+  Y         +I AG D + GG +Y I   G
Sbjct: 61  EALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVD-EGGGNLYYIDPSG 119

Query: 147 MLMRQ-KMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF 184
            ++        GS S      ++  +K +MT +EA+   
Sbjct: 120 PVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELA 158

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

 Score = 91.2 bits (226), Expect = 6e-23
 Identities = 47/154 (30%), Positives = 82/154 (53%), Gaps = 2/154 (1%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT +A ++ GG++I  DS+++ G Y+A++   K+  +   +    +G AAD       +
Sbjct: 39  GTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL 98

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGG 146
           +    L  +  GE   V + +K+   +V++Y+   L+ G +  GWD KKG  ++ +   G
Sbjct: 99  AMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWD-KKGPGLFYVDNDG 157

Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
             +   M   GSGSTY YG +D  FK ++  +EA
Sbjct: 158 TRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEA 191

Length = 247

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

 Score = 88.1 bits (219), Expect = 3e-22
 Identities = 46/153 (30%), Positives = 81/153 (52%), Gaps = 2/153 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A  F GGV++  DSR++ G+Y+A++   K+  +   +    +G AAD Q     + 
Sbjct: 1   TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLG 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGM 147
               L  +   E   V + +KL   ++Y Y+   L+ G +  GWD K G  +Y +   G 
Sbjct: 61  RECRLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWD-KTGPGLYYVDSDGT 119

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            ++  +   GSGSTY YG +D+ ++ +++ +EA
Sbjct: 120 RLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEA 152

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

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

 Score = 86.9 bits (216), Expect = 9e-22
 Identities = 45/155 (29%), Positives = 81/155 (52%), Gaps = 4/155 (2%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT + ++   GVV+ AD R+S G +VA++ A K+ ++ D I    +GS  D Q++   +
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCI-PLG 145
                L  +  G    V + A L   ++ S R       ++  G D ++G  +Y + P G
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVD-EEGPHLYSLDPAG 119

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
           G+ +       GSGS   YG ++++++E+M+ +EA
Sbjct: 120 GI-IEDDYTATGSGSPVAYGVLEDEYREDMSVEEA 153

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 = 84.6 bits (210), Expect = 7e-21
 Identities = 44/154 (28%), Positives = 80/154 (51%), Gaps = 4/154 (2%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT + +    GVV+ AD R+S G ++A++   K+ ++ D I    +GS  D Q++   + 
Sbjct: 1   TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILK 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCI-PLGG 146
               L  +  G    + + A L   ++ S +       ++  G D ++G  +Y + PLG 
Sbjct: 61  AEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQLLIGGVD-EEGPHLYSLDPLGS 119

Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
           + +  K    GSGS Y YG +++++KE+MT +EA
Sbjct: 120 I-IEDKYTATGSGSPYAYGVLEDEYKEDMTVEEA 152

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|239727 cd03758, proteasome_beta_type_2, proteasome beta type-2 subunit

 Score = 58.4 bits (142), Expect = 4e-11
 Identities = 40/158 (25%), Positives = 76/158 (48%), Gaps = 3/158 (1%)

Query: 30  TIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSY 89
           T+I ++    V++ AD+ ++    V     DK+ +++D+     SG A D    ++++  
Sbjct: 3   TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQK 62

Query: 90  NLDLQRMELGEEPLVYSGAKLFQ-ELVYSYR--DSLTAGIICAGWDRKKGGQVYCIPLGG 146
           N+ L +M  G E    + A   + EL  S R        ++ AG+D+ +G  +Y I   G
Sbjct: 63  NIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYIDYLG 122

Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF 184
            L++   A  G G+ +    +D  +K +MT +EA+   
Sbjct: 123 TLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELM 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 = 193

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

 Score = 48.2 bits (116), Expect = 3e-07
 Identities = 38/167 (22%), Positives = 70/167 (41%), Gaps = 24/167 (14%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G+T + ++   GVV+  + +  T   +     +K+ ++ D+I C  +G  AD + + +  
Sbjct: 27  GSTAVGIKGKDGVVLAVE-KKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADARVLVNRA 85

Query: 87  ----VSYNLDLQRMELGEEPLVYSGAKLFQELV-----YSYRDSLTAGIICAGWDRKKGG 137
                +Y     R   GE   V    K   +L      Y         ++ AG+D + G 
Sbjct: 86  RVEAQNY-----RYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGP 140

Query: 138 QVYCIPLGGMLMRQKMAMGGSGS----TYLYGHMDNQFKENMTKKEA 180
           Q+Y     G     K    G GS    T+L    + ++K+++T +EA
Sbjct: 141 QLYQTDPSGTYFGYKATAIGKGSQEAKTFL----EKRYKKDLTLEEA 183

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

 Score = 47.6 bits (114), Expect = 5e-07
 Identities = 40/149 (26%), Positives = 70/149 (46%), Gaps = 11/149 (7%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G T++A+  +   VI  D+R S G  + +R + K+ ++TD      SG  AD  A++  +
Sbjct: 8   GGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL 67

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYS------YRDSLTAGIICAGWDRKKGGQVYC 141
              + + +    +E    + A+L   ++YS      Y  ++ AGI     D +  G VY 
Sbjct: 68  KARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGI-----DEEGKGVVYS 122

Query: 142 IPLGGMLMRQKMAMGGSGSTYLYGHMDNQ 170
               G   R+  + GGS S+ +   +DNQ
Sbjct: 123 YDPVGSYERETYSAGGSASSLIQPLLDNQ 151

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

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

 Score = 46.8 bits (112), Expect = 8e-07
 Identities = 22/74 (29%), Positives = 41/74 (55%), Gaps = 6/74 (8%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GT++IA+++  GV+I AD+  S G+    +  +++ +V DN     SG  AD Q    ++
Sbjct: 2   GTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQ----YL 57

Query: 88  SYNLDLQRMELGEE 101
              LD  ++ + +E
Sbjct: 58  KRLLD--QLVIDDE 69

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

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

 Score = 45.1 bits (107), Expect = 4e-06
 Identities = 41/166 (24%), Positives = 73/166 (43%), Gaps = 16/166 (9%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTTI+A+ + GGV++  D R++ G  +A+R  +K+    +      +G+A    AI + V
Sbjct: 2   GTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAG--LAI-ELV 58

Query: 88  S-YNLDLQRMELGE-EPLVYSGAKLFQELVYSYRDSLTAGI-------ICAGWD--RKKG 136
             + ++L+  E  E  PL   G      L    R +L A +       + AG+D     G
Sbjct: 59  RLFQVELEHYEKIEGVPLTLDGKA--NRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAG 116

Query: 137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
                   GG    +     GSGS +  G +   +  ++ + +A+ 
Sbjct: 117 RIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALR 162

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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 44.3 bits (105), Expect = 7e-06
 Identities = 37/168 (22%), Positives = 69/168 (41%), Gaps = 22/168 (13%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAAD-------- 79
           G+T I ++   GVV+  + R ++     + V +K+  + D+I C  SG  AD        
Sbjct: 27  GSTAIGIKTKEGVVLAVEKRITSPLMEPSSV-EKIMEIDDHIGCAMSGLIADARTLIDHA 85

Query: 80  -TQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAG------IICAGWD 132
             +A +   +YN   + M +  E +  + + L  +                  ++ AG D
Sbjct: 86  RVEAQNHRFTYN---EPMTV--ESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVD 140

Query: 133 RKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            + G Q++     G   R      GSGS      +  ++ ++MT +EA
Sbjct: 141 -ENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEA 187

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

 Score = 43.8 bits (104), Expect = 1e-05
 Identities = 35/163 (21%), Positives = 66/163 (40%), Gaps = 12/163 (7%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G  ++A+     V I +D R        +    K+ R+ D +Y   +G A D Q ++  +
Sbjct: 3   GGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKL 62

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS--LTAGIICAGWDRKKGGQVY----- 140
            + ++L R+    E    + + L   L+Y  R        ++ AG D    G+ +     
Sbjct: 63  RFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVV-AGLDPD--GKPFICTMD 119

Query: 141 CIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
            I  G   +     + G+ S  LYG  ++ ++ +M   E   T
Sbjct: 120 LI--GCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFET 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 = 195

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 42.7 bits (101), Expect = 3e-05
 Identities = 38/159 (23%), Positives = 67/159 (42%), Gaps = 7/159 (4%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT + ++   GVV+  D R  T   V     +K+ ++ D++    SG  AD + + D  
Sbjct: 28  GTTALGIKCKEGVVLAVDKR-ITSKLVEPESIEKIYKIDDHVGAATSGLVADARVLIDRA 86

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-----LTAGIICAGWDRKKGGQVYCI 142
                + R+  GE   V    K   +L   Y            ++ AG D   G +++  
Sbjct: 87  RVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVD-DGGPRLFET 145

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
              G     K    GSG   +   ++ ++KE+M+ +EA+
Sbjct: 146 DPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAI 184

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 = 38.8 bits (91), Expect = 5e-04
 Identities = 39/160 (24%), Positives = 74/160 (46%), Gaps = 9/160 (5%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT + ++   GVV+  D R ++     + + +K+ ++ D+I    SG  AD + + D  
Sbjct: 29  GTTAVGIKTKDGVVLAVDKRITSKLVEPSSI-EKIFKIDDHIGAATSGLVADARVLIDRA 87

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSY------RDSLTAGIICAGWDRKKGGQVYC 141
                + R+  GE   V + AK   +L   Y      R    A +I AG D   G +++ 
Sbjct: 88  RIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLI-AGVDD-GGPRLFE 145

Query: 142 IPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
               G L+  K    G+G   +   ++ +++E+++  EA+
Sbjct: 146 TDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAI 185

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|238894 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

 Score = 36.4 bits (85), Expect = 0.003
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRV-TDNIYCCRSGSAAD 79
          TTI+AV  +G VVI  D + + G  V    A K+ R+    +    +GS AD
Sbjct: 1  TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTAD 52

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. Length = 171

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	184
KOG0176|consensus	241		100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
KOG0184|consensus	254		100.0
KOG0183|consensus	249		100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
KOG0178|consensus	249		100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
KOG0181|consensus	233		100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
KOG0863|consensus	264		100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
KOG0182|consensus	246		100.0
KOG0175|consensus	285		100.0
KOG0179|consensus	235		100.0
KOG0173|consensus	271		100.0
KOG0174|consensus	224		100.0
KOG0177|consensus	200		100.0
KOG0180|consensus	204		100.0
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.98
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.97
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.97
KOG0185|consensus	256		99.97
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.97
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.46
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.44
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	98.47
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	93.99
KOG3361|consensus	157		90.58

>KOG0176|consensus

Probab=100.00  E-value=3.2e-52  Score=311.05  Aligned_cols=179  Identities=22%  Similarity=0.351  Sum_probs=170.9

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ...+++++|+|||||||||.+|++.|+|.|||+.++|||||+++|+++ .++.+++..||++|++||+|++||+.+|++.
T Consensus         9 drgVNTfSpEGRlfQVEYaieAikLGsTaIGv~TkEgVvL~vEKritS-pLm~p~sveKi~eid~HIgca~SGl~aDarT   87 (241)
T KOG0176|consen    9 DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITS-PLMEPSSVEKIVEIDDHIGCAMSGLIADART   87 (241)
T ss_pred             cccccccCCCceeeehhhHHHHHhcCCceeeeeccceEEEEEeccccC-cccCchhhhhheehhhceeeeccccccchHH
Confidence            456788999999999999999999999999999999999999999998 7789999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc----------CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecC
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY----------RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQK  152 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~----------r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~  152 (184)
                      ++++.|.+|++|++.++++|+++.+.+.++++-..+          +|||||++|+||+|+ +||+||+.||+|++.+++
T Consensus        88 lve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~-~gpqL~h~dPSGtf~~~~  166 (241)
T KOG0176|consen   88 LVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDE-TGPQLYHLDPSGTFIRYK  166 (241)
T ss_pred             HHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccC-CCceEEEeCCCCceEEec
Confidence            999999999999999999999999999999986443          469999999999997 899999999999999999


Q ss_pred             eEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         153 MAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       153 ~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +-|||+|++-+.+.|++.|+++|+++||+++
T Consensus       167 AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~  197 (241)
T KOG0176|consen  167 AKAIGSGSEGAESSLQEEYHKDLTLKEAEKI  197 (241)
T ss_pred             ceeccccchHHHHHHHHHHhhcccHHHHHHH
Confidence            9999999999999999999999999999875

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=100.00  E-value=4.2e-51  Score=319.02  Aligned_cols=180  Identities=17%  Similarity=0.245  Sum_probs=170.1

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+.+.++|+||++|||||++|+++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|++|++||+.+|++.+
T Consensus         3 ~~~~~fsp~Gr~~Qveya~~av~~G~t~Igik~~dgVvlaad~~~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   81 (207)
T cd03755           3 RAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVA-KLQDPRTVRKICMLDDHVCLAFAGLTADARVL   81 (207)
T ss_pred             CCCceECCCCeEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCCCC-cccCCCccCcEEEECCCEEEEEecchhhHHHH
Confidence            46788999999999999999999999999999999999999999876 46666789999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      .++++.+++.|++.++++|+++.+++.+++++|+++     +|+++++||+|||++++|+||.+||+|++.+++++|+|+
T Consensus        82 ~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~a~G~  161 (207)
T cd03755          82 INRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGR  161 (207)
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCcCEEcceEEEECC
Confidence            999999999999999999999999999999996653     499999999999986799999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      ++++++++||+.|+++||.|||++++
T Consensus       162 gs~~~~~~Le~~~~~~ms~eeai~l~  187 (207)
T cd03755         162 NSKTVREFLEKNYKEEMTRDDTIKLA  187 (207)
T ss_pred             CCHHHHHHHHhhccCCCCHHHHHHHH
Confidence            99999999999999999999999863

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=8.7e-51  Score=318.14  Aligned_cols=178  Identities=16%  Similarity=0.166  Sum_probs=167.7

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+-+.++|+||++|||||++|+++|+|+|||+++||||||+|+|.++ .+...++.+||++|++|+++++||+.+|++.+
T Consensus         6 ~~~t~fsp~Grl~Qveya~~a~~~G~tvIgik~kdgVvla~d~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   84 (212)
T cd03751           6 LSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTS-KLYEPGSNKRIFNVDRHIGIAVAGLLADGRHL   84 (212)
T ss_pred             CCCceECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEEccccc-cccCcchhcceeEecCcEEEEEEEChHhHHHH
Confidence            34567899999999999999999999999999999999999999986 55566788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      +++++.+++.|++.++++++++.+++.++++++.+     ++|+++++||+|||+ +||+||.+||+|++.+++++|+|+
T Consensus        85 ~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~-~gp~Ly~~D~~Gs~~~~~~~a~G~  163 (212)
T cd03751          85 VSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDS-DGPQLYMIEPSGVSYGYFGCAIGK  163 (212)
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeC-CcCEEEEECCCCCEEeeEEEEECC
Confidence            99999999999999999999999999999987664     359999999999996 689999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++.+++++||+.|+++||+|||+++
T Consensus       164 g~~~a~~~Lek~~~~dms~eeai~l  188 (212)
T cd03751         164 GKQAAKTELEKLKFSELTCREAVKE  188 (212)
T ss_pred             CCHHHHHHHHHhccCCCCHHHHHHH
Confidence            9999999999999999999999976

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=9.5e-51  Score=318.28  Aligned_cols=179  Identities=17%  Similarity=0.262  Sum_probs=169.8

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +-+.++|+||++|||||.+|+++|+|+|||+++||||||+|+|.+.+.++.+++.+||++|+++++|++||+.+|++.+.
T Consensus         6 ~~~~fsp~Grl~Qveya~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~   85 (213)
T cd03752           6 RTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANILI   85 (213)
T ss_pred             CCceECCCCEEhHHHhHHHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHhHHHHH
Confidence            44678999999999999999999999999999999999999999987776666999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecC
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSG  159 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g  159 (184)
                      ++++.+++.|++.++++|+++.+++.++..++.+     .|||++++||+|||++.||+||.+||+|++.+++++|+|++
T Consensus        86 ~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d~~G~~~~~~~~a~G~g  165 (213)
T cd03752          86 NYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNN  165 (213)
T ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEECCCCCeeeeeEEEECCC
Confidence            9999999999999999999999999999987654     35999999999999767999999999999999999999999


Q ss_pred             HHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         160 STYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       160 ~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++++||+.|+++||+|||+++
T Consensus       166 s~~~~~~Le~~y~~~ms~eea~~l  189 (213)
T cd03752         166 NQAAQSLLKQDYKDDMTLEEALAL  189 (213)
T ss_pred             cHHHHHHHHHhccCCCCHHHHHHH
Confidence            999999999999999999999986

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=2.7e-50  Score=318.46  Aligned_cols=179  Identities=16%  Similarity=0.258  Sum_probs=169.7

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+-+.++|+|||+|||||++|+++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|++|++||+.+|++.+
T Consensus         3 ~~~t~fsp~Grl~QveyA~~av~~G~t~igik~~dgVvlaad~~~~~-~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   81 (227)
T cd03750           3 FSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPS-PLIDESSVHKVEQITPHIGMVYSGMGPDFRVL   81 (227)
T ss_pred             CCCceECCCCeEhHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecCCc-cccCCCCcceEEEEcCCEEEEEeEcHHhHHHH
Confidence            34578999999999999999999999999999999999999999984 67788899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      .+.++.+++.|++.++++|+++.+++.+++++|.+     .+|+++++||+|||+ .||+||.+||+|++.+++++|+|+
T Consensus        82 ~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~-~g~~Ly~~d~~G~~~~~~~~a~G~  160 (227)
T cd03750          82 VKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDE-GGPYLYQVDPSGSYFTWKATAIGK  160 (227)
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeC-CCCEEEEECCCCCEEeeeEEEECC
Confidence            99999999999999999999999999999999765     259999999999997 699999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      |+++++++||+.|+++||+|||++++
T Consensus       161 g~~~~~~~Le~~~~~~ms~eeai~l~  186 (227)
T cd03750         161 NYSNAKTFLEKRYNEDLELEDAIHTA  186 (227)
T ss_pred             CCHHHHHHHHhhccCCCCHHHHHHHH
Confidence            99999999999999999999999873

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=1.2e-49  Score=311.98  Aligned_cols=178  Identities=21%  Similarity=0.323  Sum_probs=169.1

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +.+.++|+||++|||||++++++|+|+|||+++||||||+|+|.+. .+...++.+||++|+++++|++||+.+|++.+.
T Consensus         4 ~~~~f~p~G~~~Q~eya~~a~~~G~t~igik~~dgVvlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~   82 (213)
T cd03753           4 GVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITS-PLMEPSSVEKIMEIDDHIGCAMSGLIADARTLI   82 (213)
T ss_pred             CCccCCCCCeEhHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccCC-cCcCCCccceEEEEcCCEEEEEecCHHHHHHHH
Confidence            5688999999999999999999999999999999999999999986 456677899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC----------CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeE
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR----------DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMA  154 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r----------~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~  154 (184)
                      +.++.+++.|++.++++|+++.+++.+++++|+++          +||++++||+|||+ +||+||.+||+|++.+++++
T Consensus        83 ~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~-~gp~Ly~vd~~G~~~~~~~~  161 (213)
T cd03753          83 DHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDE-NGPQLFHTDPSGTFTRCDAK  161 (213)
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcC-CCCEEEEECCCCCeecccEE
Confidence            99999999999999999999999999999998642          69999999999997 78999999999999999999


Q ss_pred             EEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         155 MGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       155 a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      |+|+++++++++||+.|+++||+|||++++
T Consensus       162 a~G~~~~~~~~~L~~~~~~~ls~eeai~l~  191 (213)
T cd03753         162 AIGSGSEGAQSSLQEKYHKDMTLEEAEKLA  191 (213)
T ss_pred             EECCCcHHHHHHHHhhccCCCCHHHHHHHH
Confidence            999999999999999999999999999874

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

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=2e-49  Score=318.16  Aligned_cols=181  Identities=18%  Similarity=0.265  Sum_probs=170.8

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+.++++|+|||+|||||++|+++|+|+|||+++||||||+|+|.+++.++..++.+||++|+++++++++|+.+|++.+
T Consensus         7 ~~~~~fsp~Grl~QvEYA~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   86 (253)
T PTZ00246          7 SRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANIL   86 (253)
T ss_pred             CCCceECCCCEEhHHHHHHHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHHHHHHH
Confidence            35567899999999999999999999999999999999999999999877766678999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      .+.++.++..|++.++++++++.+++.++..++.++     +|++|++||+|||++.+|+||.+||+|++.+++++|+|+
T Consensus        87 ~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~~~~~~~a~G~  166 (253)
T PTZ00246         87 INQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQ  166 (253)
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECCCCCEecceEEEECC
Confidence            999999999999999999999999999999877654     499999999999976899999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      ++++++++||+.|+++|++|||++++
T Consensus       167 gs~~~~~~Le~~~~~~ms~eeai~l~  192 (253)
T PTZ00246        167 NNQTAQSILKQEWKEDLTLEQGLLLA  192 (253)
T ss_pred             CcHHHHHHHHHhccCCCCHHHHHHHH
Confidence            99999999999999999999999873

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=2.7e-49  Score=309.65  Aligned_cols=181  Identities=22%  Similarity=0.334  Sum_probs=171.1

Q ss_pred             CcccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHH
Q psy2074           2 WNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQ   81 (184)
Q Consensus         2 ~~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~   81 (184)
                      +..+-+.++|+||++|+|||.+++++|+|+|||+++||||||+|+|.+. .++..++.+||++|++++++++||+.+|++
T Consensus         2 y~~~~~~fsp~G~l~Q~eya~~av~~G~t~igik~~dgvvla~d~~~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   80 (211)
T cd03756           2 YDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITS-KLVEPESIEKIYKIDDHVGAATSGLVADAR   80 (211)
T ss_pred             CCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCC-cccCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            4567789999999999999999999999999999999999999999985 566678999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEE
Q psy2074          82 AISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMG  156 (184)
Q Consensus        82 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~  156 (184)
                      .+.+.++.+++.|+++++++++++.+++.++..++.++     +|+++++||+|||+ ++|+||.+||+|++.+++++|+
T Consensus        81 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~-~~~~ly~vd~~G~~~~~~~~a~  159 (211)
T cd03756          81 VLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFETDPSGAYNEYKATAI  159 (211)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeC-CCCEEEEECCCCCeeeeEEEEE
Confidence            99999999999999999999999999999999887653     49999999999997 7899999999999999999999


Q ss_pred             ecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         157 GSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       157 G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      |+++++++++||+.|+++|++|||++++
T Consensus       160 G~g~~~~~~~Le~~~~~~m~~~ea~~l~  187 (211)
T cd03756         160 GSGRQAVTEFLEKEYKEDMSLEEAIELA  187 (211)
T ss_pred             CCCCHHHHHHHHhhccCCCCHHHHHHHH
Confidence            9999999999999999999999999863

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

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=3.2e-49  Score=309.18  Aligned_cols=176  Identities=17%  Similarity=0.204  Sum_probs=165.0

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      -+.+.++|+||++|||||++|+++|+|+|||+++||||||+|+|.+.+ +  .++.+||++|+++++|++||+.+|++.+
T Consensus         3 ~~~t~fsp~Grl~Qveya~~av~~G~t~IgIk~~dgVvlaad~r~~~~-l--~~~~~KI~~I~~~i~~~~sG~~~D~~~l   79 (211)
T cd03749           3 TDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSE-L--SSYQKKIFKVDDHIGIAIAGLTADARVL   79 (211)
T ss_pred             CCCceECCCCeEeHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccCccc-c--CCccccEEEeCCCEEEEEEeChHhHHHH
Confidence            356789999999999999999999999999999999999999998775 3  3466999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      .++++.+++.|+++++++|+++.+++.++..+|.+     ++|++|++||+|||+ .||+||.+||+|++.+++++|+|+
T Consensus        80 ~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~-~gp~Ly~~Dp~G~~~~~~~~a~G~  158 (211)
T cd03749          80 SRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDE-SGPHLFQTCPSGNYFEYKATSIGA  158 (211)
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcC-CCCeEEEECCCcCEeeeeEEEECC
Confidence            99999999999999999999999999999988753     459999999999997 689999999999999999999999


Q ss_pred             CHHhHHHHHhccCC--CCCCHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFK--ENMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~--~~~s~eea~~l  183 (184)
                      ++++++++||+.|+  ++|+.|||+++
T Consensus       159 g~~~a~~~Le~~~~~~~~ms~ee~i~~  185 (211)
T cd03749         159 RSQSARTYLERHFEEFEDCSLEELIKH  185 (211)
T ss_pred             CcHHHHHHHHHhhccccCCCHHHHHHH
Confidence            99999999999998  69999999986

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=3e-49  Score=310.15  Aligned_cols=181  Identities=19%  Similarity=0.254  Sum_probs=167.7

Q ss_pred             CcccccccccCCCCCCCccccccccC-CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHH
Q psy2074           2 WNKDYNVNAYHGGVEAPDWLTAKHSC-GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADT   80 (184)
Q Consensus         2 ~~~~~~~~~~~G~l~qveya~~~~~~-g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~   80 (184)
                      +..+.+.++|+||++|||||++|+++ |+|+|||+++||||||+|+|.+.+ ++..++.+||++|+++++|++||+.+|+
T Consensus         2 yd~~~~~fsp~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~-~i~~~~~~Ki~~I~~~i~~~~sG~~~D~   80 (215)
T cd03754           2 FDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDK-LIDPSTVTHLFRITDEIGCVMTGMIADS   80 (215)
T ss_pred             CCCCCeeECCCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEecccccc-ccCCcccCceEEEcCCEEEEEEechhhH
Confidence            45678899999999999999999975 789999999999999999999874 5455688999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEE
Q psy2074          81 QAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAM  155 (184)
Q Consensus        81 ~~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a  155 (184)
                      +.+.++++.++..|+++++++|+++.+|+.++++++.+     .|||++++||||||++++|+||.+||+|++.+++++|
T Consensus        81 ~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~~~~a  160 (215)
T cd03754          81 RSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATA  160 (215)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCccEEeEEEEE
Confidence            99999999999999999999999999999999985543     2499999999999976899999999999999999999


Q ss_pred             EecCHHhHHHHHhccCCCC--C--CHHHHhhc
Q psy2074         156 GGSGSTYLYGHMDNQFKEN--M--TKKEAMST  183 (184)
Q Consensus       156 ~G~g~~~~~~~Le~~~~~~--~--s~eea~~l  183 (184)
                      +|+++++++++||+.|+++  |  |.|||+++
T Consensus       161 ~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l  192 (215)
T cd03754         161 AGVKEQEATNFLEKKLKKKPDLIESYEETVEL  192 (215)
T ss_pred             ECCCcHHHHHHHHHHhccccccCCCHHHHHHH
Confidence            9999999999999999985  7  99999986

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=4.2e-49  Score=312.85  Aligned_cols=180  Identities=25%  Similarity=0.429  Sum_probs=173.9

Q ss_pred             cccccccccCCCCCCCccccccccCC-ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCG-TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQ   81 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g-~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~   81 (184)
                      ....+.++|+|+++|+||+.+++.+| +|+|||+++||||||+|+|.++|.++..++.+|||+|++||+|++||+.+|++
T Consensus         4 ~~~~~~fsp~g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~aDa~   83 (236)
T COG0638           4 DRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQ   83 (236)
T ss_pred             cCcceeECCCCchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcHhHH
Confidence            34567899999999999999999986 99999999999999999999999998888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC---CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          82 AISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR---DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        82 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r---~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      .++++++.+++.|++.++++|+++.+++++++++|.++   +||+++++|||+|+ ++|+||++||+|++.++++.|+|+
T Consensus        84 ~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~~rP~gv~~iiaG~d~-~~p~Ly~~Dp~G~~~~~~~~a~Gs  162 (236)
T COG0638          84 VLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDD-GGPRLYSTDPSGSYNEYKATAIGS  162 (236)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCcccceEEEEEEEEcC-CCCeEEEECCCCceeecCEEEEcC
Confidence            99999999999999999999999999999999999998   49999999999999 899999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      |++.++++||+.|+++|++|||+++
T Consensus       163 gs~~a~~~Le~~y~~~m~~eeai~l  187 (236)
T COG0638         163 GSQFAYGFLEKEYREDLSLEEAIEL  187 (236)
T ss_pred             CcHHHHHHHHhhccCCCCHHHHHHH
Confidence            9999999999999999999999986

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=3.8e-49  Score=311.39  Aligned_cols=180  Identities=22%  Similarity=0.343  Sum_probs=170.7

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.+.++|+||++|||||++++++|+|+|||+++||||||+|+|.+. .++..++.+||++|+++++|++||+.+|++.
T Consensus         4 ~~~~~~f~p~Grl~Qieya~~av~~G~tvigi~~~dgvvlaad~r~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   82 (224)
T TIGR03633         4 DRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITS-KLVEPSSIEKIFKIDDHIGAATSGLVADARV   82 (224)
T ss_pred             CCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCc-cccCCCccceEEEECCCEEEEEeecHHhHHH
Confidence            457889999999999999999999999999999999999999999985 6667788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      +.+.++.++..|++.++++++++.+++.++++++.+     ++||++++||||+|+ ++|+||.+||.|++.+++++|+|
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~-~~~~Ly~~D~~G~~~~~~~~a~G  161 (224)
T TIGR03633        83 LIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFETDPSGALLEYKATAIG  161 (224)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeC-CcCEEEEECCCCCeecceEEEEC
Confidence            999999999999999999999999999999998765     359999999999996 79999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         158 SGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++.+++++||+.|+++|+.|||++++
T Consensus       162 ~g~~~~~~~L~~~~~~~~~~eeai~l~  188 (224)
T TIGR03633       162 AGRQAVTEFLEKEYREDLSLDEAIELA  188 (224)
T ss_pred             CCCHHHHHHHHHhccCCCCHHHHHHHH
Confidence            999999999999999999999999873

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=9.7e-49  Score=312.15  Aligned_cols=181  Identities=19%  Similarity=0.332  Sum_probs=171.6

Q ss_pred             CcccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHH
Q psy2074           2 WNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQ   81 (184)
Q Consensus         2 ~~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~   81 (184)
                      +..+.+.++|+||++|||||.+++++|+|+|||+++||||||+|+|.+. .+...++.+||++|+++++|++||+.+|++
T Consensus        10 y~~~~~~fsp~Gr~~Q~eya~~av~~G~t~igik~~dgVvlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   88 (241)
T PRK03996         10 YDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITS-PLIEPSSIEKIFKIDDHIGAASAGLVADAR   88 (241)
T ss_pred             cCCCCceECCCCeEhHHHHHHHHHHhCCCEEEEEeCCEEEEEEeccCCC-cccCCCccceEEEEcCCEEEEEcccHHHHH
Confidence            4578899999999999999999999999999999999999999999985 666778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEE
Q psy2074          82 AISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMG  156 (184)
Q Consensus        82 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~  156 (184)
                      .+++.++.+++.|++.++++++++.+++.+++.++.++     +|+++++||||||+ .||+||.+||+|++.+++++|+
T Consensus        89 ~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~-~gp~Ly~id~~G~~~~~~~~a~  167 (241)
T PRK03996         89 VLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDD-GGPRLFETDPSGAYLEYKATAI  167 (241)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeC-CcCEEEEECCCCCeecceEEEE
Confidence            99999999999999999999999999999999987653     49999999999997 6899999999999999999999


Q ss_pred             ecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         157 GSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       157 G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      |++++.++++||+.|+++|++|||++++
T Consensus       168 G~g~~~~~~~Le~~~~~~~s~eeai~l~  195 (241)
T PRK03996        168 GAGRDTVMEFLEKNYKEDLSLEEAIELA  195 (241)
T ss_pred             CCCcHHHHHHHHHhcccCCCHHHHHHHH
Confidence            9999999999999999999999999863

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=8.7e-49  Score=306.33  Aligned_cols=180  Identities=19%  Similarity=0.311  Sum_probs=169.7

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+-+.++|+||++|+|||++++++|+|+||++++||||+|+|+|.+.+ ++..++.+||++|++++++++||..+|++.+
T Consensus         3 ~~~~~f~~~G~~~q~eya~~~~~~G~tvigi~~~dgVvlaaD~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l   81 (209)
T cd01911           3 RSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSK-LLDPSSVEKIFKIDDHIGCAVAGLTADARVL   81 (209)
T ss_pred             CCCccCCCCCEEeHHHHHHHHHHcCCCEEEEEECCEEEEEEEecCCcc-ccCCcccceEEEecCCeEEEeccCcHhHHHH
Confidence            456789999999999999999999999999999999999999999875 5566889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      .+.++..+..|++.++++|+++.+|++++++++.+     .+|+++++||+|||++++|+||.+||.|++.+++++++|+
T Consensus        82 ~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~a~G~  161 (209)
T cd01911          82 VNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGK  161 (209)
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCCCeeeeeEEEeCC
Confidence            99999999999999999999999999999988654     3499999999999986799999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      ++++++++||+.|+++|+.+||++++
T Consensus       162 g~~~~~~~L~~~~~~~ms~~ea~~l~  187 (209)
T cd01911         162 GSQEAKTFLEKRYKKDLTLEEAIKLA  187 (209)
T ss_pred             CcHHHHHHHHHhcccCCCHHHHHHHH
Confidence            99999999999999999999999873

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.

>KOG0184|consensus

Probab=100.00  E-value=1.9e-44  Score=273.52  Aligned_cols=176  Identities=18%  Similarity=0.178  Sum_probs=167.2

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +...++|.||+||||||+||+.+++|+||||+|||||+++|+.+++ .+..+....||+.|++||+|+++|+.+|.+.+.
T Consensus        11 s~s~fSpdGrvfQveYA~KAven~~T~IGIk~kdGVVl~vEKli~S-kLy~p~sn~ri~~V~r~iG~avaGl~~Dg~~l~   89 (254)
T KOG0184|consen   11 SASTFSPDGRVFQVEYAQKAVENSGTCIGIKCKDGVVLAVEKLITS-KLYEPGSNERIFSVDRHIGMAVAGLIPDGRHLV   89 (254)
T ss_pred             cceeeCCCCceehHHHHHHHHhcCCcEEEEecCCeEEEEEeeeecc-cccccCCCCceEeecccccEEEeccccchHHHH
Confidence            3468899999999999999999999999999999999999999998 555778899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecC
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSG  159 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g  159 (184)
                      ++++.++..|+-.++.++|...+++.+.++.+.++     ||||++.++++||. +||+||.+||+|..+.++.+|+|.|
T Consensus        90 ~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~-~g~~LymiepSG~~~~Y~~aaiGKg  168 (254)
T KOG0184|consen   90 NRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDD-EGPQLYMIEPSGSSYGYKGAAIGKG  168 (254)
T ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeC-CCceEEEEcCCCCccceeeeeccch
Confidence            99999999999999999999999999999987765     59999999999996 8999999999999999999999999


Q ss_pred             HHhHHHHHhccCCCCCCHHHHhh
Q psy2074         160 STYLYGHMDNQFKENMTKKEAMS  182 (184)
Q Consensus       160 ~~~~~~~Le~~~~~~~s~eea~~  182 (184)
                      .+.+++.||++--.+|+.+|+++
T Consensus       169 rq~aKtElEKL~~~~mt~~e~Vk  191 (254)
T KOG0184|consen  169 RQAAKTELEKLKIDEMTCKELVK  191 (254)
T ss_pred             hHHHHHHHHhcccccccHHHHHH
Confidence            99999999999999999999886

>KOG0183|consensus

Probab=100.00  E-value=2.5e-45  Score=277.01  Aligned_cols=178  Identities=17%  Similarity=0.257  Sum_probs=167.8

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      -.++++|.|||+|||||++|+.+|+|+||++++|+|||+.+++... .+...+...||..+|+|++++++|+.+|++.++
T Consensus         7 altvFSPDGhL~QVEYAqEAvrkGstaVgvrg~~~vvlgvEkkSv~-~Lq~~r~~rkI~~ld~hV~mafaGl~aDArili   85 (249)
T KOG0183|consen    7 ALTVFSPDGHLFQVEYAQEAVRKGSTAVGVRGNNCVVLGVEKKSVP-KLQDERTVRKISMLDDHVVMAFAGLTADARILI   85 (249)
T ss_pred             ceEEECCCCCEEeeHhHHHHHhcCceEEEeccCceEEEEEeecchh-hhhhhhhhhhheeecceeeEEecCCCccceeeh
Confidence            4578999999999999999999999999999999999999999776 677888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecC
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSG  159 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g  159 (184)
                      +++|.+|+.|+++.+.|++++.++++++.+.|.|+     +|||+|.||+|||+++.|.||++||+|.|.+|++.|+|.+
T Consensus        86 nrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePsG~f~ewka~aiGr~  165 (249)
T KOG0183|consen   86 NRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPSGIFSEWKANAIGRS  165 (249)
T ss_pred             hhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCCcchhhhhccccccc
Confidence            99999999999999999999999999999998874     5999999999999999999999999999999999999999


Q ss_pred             HHhHHHHHhccCCCC--CCHHHHhhc
Q psy2074         160 STYLYGHMDNQFKEN--MTKKEAMST  183 (184)
Q Consensus       160 ~~~~~~~Le~~~~~~--~s~eea~~l  183 (184)
                      ++.+..+||+.|.++  .+..++++|
T Consensus       166 sk~VrEflEK~y~e~~~~~~~~~ikL  191 (249)
T KOG0183|consen  166 SKTVREFLEKNYKEEAIATEGETIKL  191 (249)
T ss_pred             cHHHHHHHHHhcccccccccccHHHH
Confidence            999999999999765  677777765

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=2.5e-43  Score=272.85  Aligned_cols=158  Identities=22%  Similarity=0.306  Sum_probs=150.3

Q ss_pred             CCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHH
Q psy2074          27 CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYS  106 (184)
Q Consensus        27 ~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~  106 (184)
                      +|+|+|||+++||||||+|+|.+++.++.+++.+|||+|++|+++++||..+|++.+.++++.+++.|+++++.+|+++.
T Consensus         2 ~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   81 (195)
T cd03759           2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKT   81 (195)
T ss_pred             CCceEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            69999999999999999999999987776778999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecC-eEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         107 GAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       107 la~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++++++|.+| +|+++++||||||++++|+||.+||+|++.+++ ++|+|+|+++++++||+.|+++||.|||++++
T Consensus        82 la~~l~~~ly~~r~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~  161 (195)
T cd03759          82 FSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETI  161 (195)
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHH
Confidence            9999999998875 599999999999986789999999999998877 99999999999999999999999999999873

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

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=5.2e-43  Score=269.63  Aligned_cols=155  Identities=29%  Similarity=0.550  Sum_probs=150.4

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      +|+|||+++||||||+|+|.+++.++.+++.+|||+|++|+++++||+.+|++.++++++.+++.|++.++++|+++.++
T Consensus         1 tT~igi~~kdgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la   80 (188)
T cd03761           1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAAS   80 (188)
T ss_pred             CcEEEEEECCEEEEEEcCCccCCcEEEcCCcceEEEccCcEEEEeCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            68999999999999999999998888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++++|.+|. |+++++||||||+ +||+||++||+|++.+++++|+|+|+++++++||+.|+++||.|||++++
T Consensus        81 ~~ls~~l~~~~~~~~~v~~li~G~D~-~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  156 (188)
T cd03761          81 KLLSNMLYQYKGMGLSMGTMICGWDK-TGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLA  156 (188)
T ss_pred             HHHHHHHHhcCCCCeEEEEEEEEEeC-CCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHH
Confidence            999999999986 9999999999997 79999999999999999999999999999999999999999999999873

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=1.9e-42  Score=267.55  Aligned_cols=155  Identities=24%  Similarity=0.384  Sum_probs=148.8

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      +|+|||+++||||||+|+|.+.+.++.+++.+|||+|++++++++||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         2 ~t~igi~~~dgVvlaad~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la   81 (193)
T cd03758           2 ETLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAA   81 (193)
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEecCcccEEEeCCCeEEEEccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            79999999999999999999998888999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc---CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSY---RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~---r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++++|.+   ++||++++||+|||++++|+||++||+|++.+++++|+|+|+++++++||+.|+++||.|||+++
T Consensus        82 ~~l~~~~~~~~~~~rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l  159 (193)
T cd03758          82 NFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALEL  159 (193)
T ss_pred             HHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHH
Confidence            9999998654   24999999999999768999999999999999999999999999999999999999999999986

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.

>KOG0178|consensus

Probab=100.00  E-value=7.9e-44  Score=268.34  Aligned_cols=177  Identities=18%  Similarity=0.279  Sum_probs=168.9

Q ss_pred             cccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHH
Q psy2074           7 NVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF   86 (184)
Q Consensus         7 ~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~   86 (184)
                      ++++|+||++|||||++++.+.+|+||+-.+||||||++++.+++.+-.+...+||++|+|||+|+++|+++|+..|++.
T Consensus        10 tiFspEGRLyQVEyAmeais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~DAnvL~n~   89 (249)
T KOG0178|consen   10 TIFSPEGRLYQVEYAMEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTSDANVLKNY   89 (249)
T ss_pred             cccCCCcchHHHHHHHHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccccHHHHHHH
Confidence            57899999999999999999999999999999999999999999877778899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHH
Q psy2074          87 VSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGST  161 (184)
Q Consensus        87 l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~  161 (184)
                      +|..++.|.+.+|++||++.|+..+++..|.++     ||||||+|.+|||...|.+||+.||+|++..|++.++|.++.
T Consensus        90 aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gWka~ciG~N~~  169 (249)
T KOG0178|consen   90 ARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGWKATCIGANSG  169 (249)
T ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCccccceeeeccchH
Confidence            999999999999999999999999999998775     599999999999998899999999999999999999999999


Q ss_pred             hHHHHHhccCCCCCC-HHHHhhc
Q psy2074         162 YLYGHMDNQFKENMT-KKEAMST  183 (184)
Q Consensus       162 ~~~~~Le~~~~~~~s-~eea~~l  183 (184)
                      .++.+|+..|+++.. ++||+.+
T Consensus       170 Aa~s~Lkqdykdd~~~~~eA~~l  192 (249)
T KOG0178|consen  170 AAQSMLKQDYKDDENDLEEAKAL  192 (249)
T ss_pred             HHHHHHHhhhccccccHHHHHHH
Confidence            999999999987665 9999875

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=1.6e-42  Score=271.56  Aligned_cols=160  Identities=27%  Similarity=0.313  Sum_probs=152.6

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      +++|+|+|||+++||||||+|+|.+++.++..++.+||++|++++++++||..+|++.+.+.++.+++.|++.++++|++
T Consensus         5 ~~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~   84 (212)
T cd03757           5 TDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMST   84 (212)
T ss_pred             cCCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCH
Confidence            46799999999999999999999999988888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCC---------CC
Q psy2074         105 YSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK---------EN  174 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~---------~~  174 (184)
                      +.+++.+++++|.+|. |+++++||||||++++|+||.+||+|++.+++++|+|+|+.+++++||+.|+         ++
T Consensus        85 ~~la~~ls~~ly~~R~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~~~~  164 (212)
T cd03757          85 EAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTP  164 (212)
T ss_pred             HHHHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcCCCCC
Confidence            9999999999998764 9999999999997678999999999999999999999999999999999985         89


Q ss_pred             CCHHHHhhcC
Q psy2074         175 MTKKEAMSTF  184 (184)
Q Consensus       175 ~s~eea~~l~  184 (184)
                      ||+|||++++
T Consensus       165 ms~eea~~l~  174 (212)
T cd03757         165 LSLEEAVSLV  174 (212)
T ss_pred             CCHHHHHHHH
Confidence            9999999873

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=4.8e-42  Score=266.01  Aligned_cols=158  Identities=20%  Similarity=0.293  Sum_probs=149.6

Q ss_pred             CCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHH-HHHHHhCCCCcHH
Q psy2074          27 CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLD-LQRMELGEEPLVY  105 (184)
Q Consensus        27 ~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~-~~~~~~~~~~~~~  105 (184)
                      .|+|+|||+++||||||+|+|.+++.++.+++.+|||+|++|++++++|+.+|++.++++++.+++ .+++.++.+|+++
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   80 (197)
T cd03760           1 TGTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPK   80 (197)
T ss_pred             CCceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            489999999999999999999998899899999999999999999999999999999999999987 5667899999999


Q ss_pred             HHHHHHHHHHHhcC---CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCC--CCCHHHH
Q psy2074         106 SGAKLFQELVYSYR---DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKE--NMTKKEA  180 (184)
Q Consensus       106 ~la~~l~~~l~~~r---~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~~s~eea  180 (184)
                      .+++++++++|.++   +||++++||||||++++|+||.+||+|++.+++++|+|+|+.+++++||+.|++  +||.|||
T Consensus        81 ~la~~i~~~~y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea  160 (197)
T cd03760          81 EIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEA  160 (197)
T ss_pred             HHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHH
Confidence            99999999998765   599999999999976899999999999999999999999999999999999999  9999999


Q ss_pred             hhcC
Q psy2074         181 MSTF  184 (184)
Q Consensus       181 ~~l~  184 (184)
                      ++++
T Consensus       161 ~~l~  164 (197)
T cd03760         161 RALI  164 (197)
T ss_pred             HHHH
Confidence            9863

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=9.1e-42  Score=262.60  Aligned_cols=156  Identities=65%  Similarity=1.122  Sum_probs=151.3

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|++++++|+.+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 ~t~igi~~~dgVvla~D~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a   80 (188)
T cd03762           1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAA   80 (188)
T ss_pred             CeEEEEEECCeEEEEEcccccCCceEEcCCcccEEEccCCEEEEecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHH
Confidence            68999999999999999999999888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++++|.+|+||++++||||+|++++|+||.+||.|++.+++++++|+++++++++||+.|+++||+|||++++
T Consensus        81 ~~l~~~~~~~~~~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l~  156 (188)
T cd03762          81 SLFKNLCYNYKEMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFV  156 (188)
T ss_pred             HHHHHHHHhccccceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHHH
Confidence            9999999999999999999999997678999999999999999999999999999999999999999999999863

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=1.8e-41  Score=260.34  Aligned_cols=156  Identities=28%  Similarity=0.469  Sum_probs=150.6

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      |+|+|||+++||||||+|+|.+.+.++.+++.+|||+|++++++++||..+|++.+.++++.+++.|++.++.+++++.+
T Consensus         1 G~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (185)
T TIGR03634         1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKAL   80 (185)
T ss_pred             CCcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            79999999999999999999998899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         108 AKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       108 a~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      ++++++++|.++ +|+++++||||||+ +||+||.+||+|++.+++++++|+++++++++||+.|+++||++||++++
T Consensus        81 a~~l~~~~~~~~~rP~~v~~ivaG~d~-~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~  157 (185)
T TIGR03634        81 ATLLSNILNSNRFFPFIVQLLVGGVDE-EGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLA  157 (185)
T ss_pred             HHHHHHHHHhcCCCCeEEEEEEEEEeC-CCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHH
Confidence            999999999876 49999999999997 68999999999999999999999999999999999999999999999863

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.

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=2.8e-41  Score=260.13  Aligned_cols=154  Identities=34%  Similarity=0.634  Sum_probs=149.8

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      +|+|||+++||||||+|+|.++|.++..++.+|||+|+++++++++|..+|++.+.+.++.+++.|+++++++++++.++
T Consensus         1 tt~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (189)
T cd03763           1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTAL   80 (189)
T ss_pred             CeEEEEEECCeEEEEEcCCcccCceEEcCCccceEEecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999999888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++.+|.++.|++|++||||||+ .+|+||.+||+|++.+++++|+|+++++++++||+.|+|+||++||+++
T Consensus        81 ~~l~~~l~~~~~p~~v~~ivaG~d~-~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l  154 (189)
T cd03763          81 TMLKQHLFRYQGHIGAALVLGGVDY-TGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKL  154 (189)
T ss_pred             HHHHHHHHHcCCccceeEEEEeEcC-CCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHH
Confidence            9999999999889999999999997 6799999999999999999999999999999999999999999999986

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

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=3.4e-41  Score=269.04  Aligned_cols=160  Identities=29%  Similarity=0.537  Sum_probs=153.3

Q ss_pred             cccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCc
Q psy2074          24 KHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPL  103 (184)
Q Consensus        24 ~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~  103 (184)
                      .+.+|+|+|||+++||||||+|+|.+++.++.+++.+||++|++|+++++||+.+|++.+.++++.+++.|++.++++|+
T Consensus        35 ~~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~is  114 (247)
T PTZ00488         35 EFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELIS  114 (247)
T ss_pred             ccCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCC
Confidence            67889999999999999999999999989999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhh
Q psy2074         104 VYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS  182 (184)
Q Consensus       104 ~~~la~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~  182 (184)
                      ++.+|+++++++|.+|. |+.+++||||||+ .||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.|||++
T Consensus       115 v~~la~~ls~~l~~~R~~~~~v~~iiaG~D~-~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~eEai~  193 (247)
T PTZ00488        115 VAAASKILANIVWNYKGMGLSMGTMICGWDK-KGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQD  193 (247)
T ss_pred             HHHHHHHHHHHHHhcCCCCeeEEEEEEEEeC-CCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCCCHHHHHH
Confidence            99999999999999875 7777799999997 689999999999999999999999999999999999999999999998


Q ss_pred             cC
Q psy2074         183 TF  184 (184)
Q Consensus       183 l~  184 (184)
                      ++
T Consensus       194 l~  195 (247)
T PTZ00488        194 LG  195 (247)
T ss_pred             HH
Confidence            74

>KOG0181|consensus

Probab=100.00  E-value=6.6e-43  Score=260.53  Aligned_cols=177  Identities=16%  Similarity=0.261  Sum_probs=170.3

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+.++++|+|+|-|+|||..|+.+|.+.|||+-.||||||++++..+ .+....+.+|++.|.+||+|.+||+.+|++.+
T Consensus         8 fslTtFSpsGKL~QieyAL~Av~~G~~SvGi~A~nGvVlatekk~~s-~L~~~~sv~KV~~i~~~IG~vYSGmgpD~Rvl   86 (233)
T KOG0181|consen    8 FSLTTFSPSGKLVQIEYALTAVVNGQTSVGIKAANGVVLATEKKDVS-PLVDEESVRKVEKITPHIGCVYSGMGPDYRVL   86 (233)
T ss_pred             eeeEEEcCCCceehHHHHHHHHhCCCCceeeeecCceEEEeccCCCC-ccchhhhhhhHhhccCCcceEEecCCCceeeh
Confidence            46789999999999999999999999999999999999999998876 77788899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      ++..++.++.|...++++|++..+...++..+|+++     +|||+++++||||+ ++|.||++||+|++..|+++|+|.
T Consensus        87 V~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~-~~p~LyQvdPSGsyf~wkatA~Gk  165 (233)
T KOG0181|consen   87 VHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDE-GGPLLYQVDPSGSYFAWKATAMGK  165 (233)
T ss_pred             hhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCC-CceeEEEECCccceeehhhhhhcc
Confidence            999999999999999999999999999999999986     49999999999999 799999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhh
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMS  182 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~  182 (184)
                      +...++.+||++|+++|.+++|+.
T Consensus       166 n~v~aktFlEkR~~edleldd~ih  189 (233)
T KOG0181|consen  166 NYVNAKTFLEKRYNEDLELDDAIH  189 (233)
T ss_pred             CcchHHHHHHHHhccccccchHHH
Confidence            999999999999999999999985

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=6.8e-41  Score=263.46  Aligned_cols=157  Identities=20%  Similarity=0.342  Sum_probs=149.4

Q ss_pred             CCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHH
Q psy2074          27 CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYS  106 (184)
Q Consensus        27 ~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~  106 (184)
                      +|+|+|||+++||||||+|+|.++|.++.+++.+|||+|++|++|++||+.+|++.+.++++.+++.|++.++++|+++.
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~   80 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDG   80 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc----CCCcceeeEEEEEeCC-CCeEEEEEcCCC-ceeecCeEEEecCHHhHHHHHhccCCCCCCHHHH
Q psy2074         107 GAKLFQELVYSY----RDSLTAGIICAGWDRK-KGGQVYCIPLGG-MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA  180 (184)
Q Consensus       107 la~~l~~~l~~~----r~p~~~s~llaG~D~~-~~~~Ly~idp~G-~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea  180 (184)
                      +++.+++++|.+    .+|+++++||||||++ ++|+||.+||+| ++..++++|+|+|+++++++||+.|+++||.|||
T Consensus        81 la~~ls~~~~~~~~~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eea  160 (219)
T TIGR03690        81 KANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDA  160 (219)
T ss_pred             HHHHHHHHHHhhhhhccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHHH
Confidence            999999998765    4699999999999964 689999999999 5888899999999999999999999999999999


Q ss_pred             hhc
Q psy2074         181 MST  183 (184)
Q Consensus       181 ~~l  183 (184)
                      +++
T Consensus       161 i~l  163 (219)
T TIGR03690       161 LRV  163 (219)
T ss_pred             HHH
Confidence            986

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.

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=9.7e-41  Score=256.88  Aligned_cols=155  Identities=27%  Similarity=0.461  Sum_probs=149.8

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|+++++++++|+.+|++.+.+.++.+++.|++.++++++++.++
T Consensus         1 tt~iai~~~dgvvia~d~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (188)
T cd03764           1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALA   80 (188)
T ss_pred             CcEEEEEeCCEEEEEEccccccCCEEecCCcccEEEccCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            68999999999999999999999998889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++++|.++ +||++++||||||+ ++|+||.+||+|++.+++++|+|+|+++++++||+.|+++|++|||++++
T Consensus        81 ~~i~~~~~~~~~~P~~~~~lvaG~d~-~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~  156 (188)
T cd03764          81 TLLSNILNSSKYFPYIVQLLIGGVDE-EGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLA  156 (188)
T ss_pred             HHHHHHHHhcCCCCcEEEEEEEEEeC-CCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHH
Confidence            99999999876 49999999999998 78999999999999999999999999999999999999999999999863

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.

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=1.7e-40  Score=255.51  Aligned_cols=156  Identities=38%  Similarity=0.589  Sum_probs=150.9

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      +|+|||+++||||||+|+|.+.+..+..++.+|||+|++++++++||+.+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAA   80 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCcCcEEEccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999998887789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++++|++++ |+++++||||+|++++|+||.+||+|++.+++++|+|+++++++++||+.|+++||+|||++++
T Consensus        81 ~~l~~~~~~~~~~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~~  157 (189)
T cd01912          81 NLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELV  157 (189)
T ss_pred             HHHHHHHHhcCCCCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHH
Confidence            999999999987 9999999999998789999999999999999999999999999999999999999999999863

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

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=3.4e-40  Score=260.46  Aligned_cols=157  Identities=12%  Similarity=0.229  Sum_probs=146.1

Q ss_pred             ccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHh
Q psy2074          19 DWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMEL   98 (184)
Q Consensus        19 eya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~   98 (184)
                      |||.+|+++|+|+|||+++||||||+|++.        ++.+||++|++|++|+++|+.+|++.+++.++.+++.|++.+
T Consensus        18 EYA~kav~~g~T~VGIk~kdgVVLaaek~~--------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~~~   89 (228)
T TIGR03691        18 ELARKGIARGRSVVVLTYADGILFVAENPS--------RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMRGYSY   89 (228)
T ss_pred             HHHHHHHHcCCcEEEEEeCCeEEEEEecCC--------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhhhc
Confidence            999999999999999999999999999972        357899999999999999999999999999999999999999


Q ss_pred             C-CCCcHHHHHHHHHHHHHh----cCCCcceeeEEEEEeC-CCCeEEEEEcCCCceeecC-eEEEecCHHhHHHHHhccC
Q psy2074          99 G-EEPLVYSGAKLFQELVYS----YRDSLTAGIICAGWDR-KKGGQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQF  171 (184)
Q Consensus        99 ~-~~~~~~~la~~l~~~l~~----~r~p~~~s~llaG~D~-~~~~~Ly~idp~G~~~~~~-~~a~G~g~~~~~~~Le~~~  171 (184)
                      + .+++++.+|+.+++.++.    +.+||+|++|++|||+ +.||+||.+||+|++.+++ ++|+|++++.++++||+.|
T Consensus        90 ~~~~~~v~~la~~~tq~~~~~~~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~Lek~y  169 (228)
T TIGR03691        90 DRRDVTGRGLANAYAQTLGTIFTEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESY  169 (228)
T ss_pred             CCCCccHHHHHHHHHhhcccccccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChHHHHHHHHHhc
Confidence            8 689999999988887653    3579999999999985 4789999999999999976 8999999999999999999


Q ss_pred             CCCCCHHHHhhc
Q psy2074         172 KENMTKKEAMST  183 (184)
Q Consensus       172 ~~~~s~eea~~l  183 (184)
                      +++||.|||+++
T Consensus       170 ~~~ms~eeai~l  181 (228)
T TIGR03691       170 RDGLSLADALGL  181 (228)
T ss_pred             CCCCCHHHHHHH
Confidence            999999999987

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.

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=2.2e-39  Score=247.53  Aligned_cols=156  Identities=33%  Similarity=0.526  Sum_probs=150.2

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      +|+|||+++||||||+|+|.+++....+++.+|||+|+++++++++|..+|++.+.+.++.++..|++.++++++++.++
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALA   80 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCcceEEEECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999998777688999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC---CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYR---DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r---~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++++|.++   +|+++++|+||+|++++|+||.+||+|++.+++++|+|+++++++++||+.|+++||.+||++++
T Consensus        81 ~~l~~~~~~~~~~~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l~  159 (182)
T cd01906          81 KLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELA  159 (182)
T ss_pred             HHHHHHHHHhCCCccChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHHH
Confidence            99999999987   69999999999998689999999999999999999999999999999999999999999999863

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

>KOG0863|consensus

Probab=100.00  E-value=1.6e-40  Score=253.44  Aligned_cols=178  Identities=17%  Similarity=0.246  Sum_probs=163.2

Q ss_pred             CCcccc----cccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCC
Q psy2074           1 MWNKDY----NVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGS   76 (184)
Q Consensus         1 ~~~~~~----~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~   76 (184)
                      ||||.|    ++.+|+||++|||||++|+++|+++||+|.++-.||++=+|..+.   .++..+|||+||+|++++++|+
T Consensus         1 Mfrnqyd~d~t~wsPqGrl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~se---Lss~QkKi~~iD~h~g~siAGL   77 (264)
T KOG0863|consen    1 MFRNQYDNDVTTWSPQGRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSE---LSSHQKKIFKIDDHIGISIAGL   77 (264)
T ss_pred             CCcccccCceeEECCcceehHHHHHHHHHhcccceEeecccceEEEeeeccchhH---HHHhhheeEecccccceEEecc
Confidence            888765    567999999999999999999999999999998888887776653   3567799999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeec
Q psy2074          77 AADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ  151 (184)
Q Consensus        77 ~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~  151 (184)
                      ++|++.+.++++.+|..+++.+++++++..+...+.+-+|..     ||||||.++++|+|+ .||+||.++|+|.+.++
T Consensus        78 t~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe-~G~hl~e~~Psg~v~e~  156 (264)
T KOG0863|consen   78 TADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDE-SGPHLYEFCPSGNVFEC  156 (264)
T ss_pred             CcchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecC-CCceeEEEcCCccEEEE
Confidence            999999999999999999999999999999998888877653     579999999999999 89999999999999999


Q ss_pred             CeEEEecCHHhHHHHHhccCC--CCCCHHHHhh
Q psy2074         152 KMAMGGSGSTYLYGHMDNQFK--ENMTKKEAMS  182 (184)
Q Consensus       152 ~~~a~G~g~~~~~~~Le~~~~--~~~s~eea~~  182 (184)
                      +..+||+.++.+.++||+...  ++++.||+++
T Consensus       157 ~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~  189 (264)
T KOG0863|consen  157 KGMSIGSRSQSARTYLERNLEEFEDSSPEELIK  189 (264)
T ss_pred             eeeecccchhhHHHHHHHHHHHHhcCCHHHHHH
Confidence            999999999999999999885  5999999886

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

Probab=100.00  E-value=2.9e-39  Score=248.39  Aligned_cols=159  Identities=27%  Similarity=0.381  Sum_probs=145.4

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecC-CCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCc
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRV-ADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPL  103 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~-~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~  103 (184)
                      +++|+|+|||+++||||||+|+|.+.|..+..++ .+|||+|++|+++++||..+|++.++++++.+++.|++.++.+++
T Consensus         1 v~~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~   80 (190)
T PF00227_consen    1 VNNGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPIS   80 (190)
T ss_dssp             HHTSBEEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTC
T ss_pred             CCCCeEEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCcccc
Confidence            4689999999999999999999999888775655 799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH----Hhc-CCCcceeeEEEEEeCCCCeEEEEEcCCCceeec-CeEEEecCHHhHHHHHhccCCCCCCH
Q psy2074         104 VYSGAKLFQELV----YSY-RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ-KMAMGGSGSTYLYGHMDNQFKENMTK  177 (184)
Q Consensus       104 ~~~la~~l~~~l----~~~-r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s~  177 (184)
                      ++.+++.+++.+    +.. ++|+++++|++|||++++|+||.+||+|++.++ +++|+|+|+++++++||+.|+++|++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~  160 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLSL  160 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSSH
T ss_pred             chhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhccCCCCH
Confidence            996665555544    433 569999999999998677999999999999999 69999999999999999999999999


Q ss_pred             HHHhhc
Q psy2074         178 KEAMST  183 (184)
Q Consensus       178 eea~~l  183 (184)
                      +||+++
T Consensus       161 ~ea~~~  166 (190)
T PF00227_consen  161 EEAIEL  166 (190)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999986

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

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=1e-38  Score=252.58  Aligned_cols=154  Identities=18%  Similarity=0.233  Sum_probs=140.7

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEec----CeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCC-CCc
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVT----DNIYCCRSGSAADTQAISDFVSYNLDLQRMELGE-EPL  103 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~----~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~-~~~  103 (184)
                      |.+|||+++||||||+|+|.+.+.. ..++.+||++|+    +|++|+.||+.+|++.+++.+|.++++|++++++ +++
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~l~-~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~   79 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAGVD-NISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPT   79 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCCCc-cccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCC
Confidence            5689999999999999999988644 344789999998    9999999999999999999999999999999999 899


Q ss_pred             HHHHHHHHHHHHHhc-----------CCCcceeeEEEEEeCCCCeEEEEEcCCCceeec----CeEEEecCHHhHHHHHh
Q psy2074         104 VYSGAKLFQELVYSY-----------RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ----KMAMGGSGSTYLYGHMD  168 (184)
Q Consensus       104 ~~~la~~l~~~l~~~-----------r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~----~~~a~G~g~~~~~~~Le  168 (184)
                      ++.+|+.++++++..           .+||++++||+|||++.||+||.+||+|++.++    +|+|+|. +++++++||
T Consensus        80 v~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Le  158 (236)
T cd03765          80 MFDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILD  158 (236)
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHH
Confidence            999999999986551           369999999999997689999999999999998    6789996 799999999


Q ss_pred             ccCCCCCCHHHHhhcC
Q psy2074         169 NQFKENMTKKEAMSTF  184 (184)
Q Consensus       169 ~~~~~~~s~eea~~l~  184 (184)
                      +.|+++||+|||++++
T Consensus       159 k~yk~~ms~eeai~la  174 (236)
T cd03765         159 RVITPDTSLEDAAKCA  174 (236)
T ss_pred             HhcCCCCCHHHHHHHH
Confidence            9999999999999863

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.

>KOG0182|consensus

Probab=100.00  E-value=1.6e-38  Score=239.74  Aligned_cols=177  Identities=19%  Similarity=0.230  Sum_probs=167.8

Q ss_pred             ccccccCCCCCCCccccccccC-CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           6 YNVNAYHGGVEAPDWLTAKHSC-GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         6 ~~~~~~~G~l~qveya~~~~~~-g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      -++++|+|||+|||||.+|+++ |-|.|++++||++|+++.++++. .++.++....+|+|+++|+|+++|..+|++..+
T Consensus        13 itIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpD-KLld~~tvt~~f~itk~ig~v~tG~~aDar~~v   91 (246)
T KOG0182|consen   13 ITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPD-KLLDSSTVTHLFRITKKIGCVITGMIADARSQV   91 (246)
T ss_pred             EEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcc-cccccccceeEEEeeccceEEEecCCcchHHHH
Confidence            4678999999999999999999 99999999999999999999997 676888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecC
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSG  159 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g  159 (184)
                      ++++.++.++++++|.+||++.||+.+++..|.++     ||+||.+++.|+|++.||.+|.+||.|-+..+++.|.|..
T Consensus        92 ~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~vYk~DpAGyy~g~kAtaaG~K  171 (246)
T KOG0182|consen   92 QRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSVYKTDPAGYYYGFKATAAGVK  171 (246)
T ss_pred             HHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcceEeecCccccccceeeecccc
Confidence            99999999999999999999999999999887764     5999999999999999999999999999999999999999


Q ss_pred             HHhHHHHHhccCCCC--CCHHHHhhc
Q psy2074         160 STYLYGHMDNQFKEN--MTKKEAMST  183 (184)
Q Consensus       160 ~~~~~~~Le~~~~~~--~s~eea~~l  183 (184)
                      ...+..+||+.|+++  +|.+|++++
T Consensus       172 q~e~tsfLEKk~Kk~~~~t~~e~ve~  197 (246)
T KOG0182|consen  172 QQEATSFLEKKYKKDIDLTFEETVET  197 (246)
T ss_pred             hhhHHHHHHHhhccCccchHHHHHHH
Confidence            999999999999877  679998875

>KOG0175|consensus

Probab=100.00  E-value=3.7e-35  Score=227.10  Aligned_cols=158  Identities=32%  Similarity=0.585  Sum_probs=154.5

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      ..+|||++|+++++|||+|+|+|.+.|.++.++.++||.+|+++++-+++|-.+|++.+-+.|.++|++|++++++.|+|
T Consensus        68 ~~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSV  147 (285)
T KOG0175|consen   68 FAHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISV  147 (285)
T ss_pred             ecCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceeh
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         105 YSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ...+++|++++|+|+. .+.+..+|+|||+ .||.||++|..|+-.+.+-.++|||+.+|+++||+.|++|||.|||..|
T Consensus       148 saASKllsN~~y~YkGmGLsmGtMi~G~Dk-~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~eEA~~L  226 (285)
T KOG0175|consen  148 SAASKLLSNMVYQYKGMGLSMGTMIAGWDK-KGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDEEAYDL  226 (285)
T ss_pred             HHHHHHHHHHHhhccCcchhheeeEeeccC-CCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCCHHHHHHH
Confidence            9999999999999997 7999999999999 8999999999999999999999999999999999999999999999876

>KOG0179|consensus

Probab=100.00  E-value=1.6e-34  Score=217.67  Aligned_cols=159  Identities=26%  Similarity=0.320  Sum_probs=152.2

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      ..||+|+|||++.|+.|+|+|+|.++|..+.+++.+|||++.|+++++.+|+.+|...|.+.++...+.|++++...|++
T Consensus        26 ~~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~  105 (235)
T KOG0179|consen   26 EDNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSI  105 (235)
T ss_pred             ccCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccH
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCC-----------
Q psy2074         105 YSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK-----------  172 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~-----------  172 (184)
                      ..+|++|+..||.+|+ |+.+..+|+|+|+++++.+|+.||.|++++..+.|.|+++.+++++||+...           
T Consensus       106 ~s~A~lls~~LY~kRFFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e~~~~  185 (235)
T KOG0179|consen  106 HSAAQLLSTILYSKRFFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLENAER  185 (235)
T ss_pred             HHHHHHHHHHHhhcccccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCcCcccccCcc
Confidence            9999999999999997 9999999999999999999999999999999999999999999999997652           


Q ss_pred             CCCCHHHHhhc
Q psy2074         173 ENMTKKEAMST  183 (184)
Q Consensus       173 ~~~s~eea~~l  183 (184)
                      +.+|+|||++|
T Consensus       186 ~~Ls~e~ai~l  196 (235)
T KOG0179|consen  186 TPLSLERAIRL  196 (235)
T ss_pred             cccCHHHHHHH
Confidence            46899999886

>KOG0173|consensus

Probab=100.00  E-value=1.4e-34  Score=223.32  Aligned_cols=163  Identities=32%  Similarity=0.599  Sum_probs=158.8

Q ss_pred             cccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhC
Q psy2074          20 WLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELG   99 (184)
Q Consensus        20 ya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~   99 (184)
                      =++++.+.|||++|+++|||||+++|+|.+.|..+.++++.||+.|.++|+||.+|..+|...+.+.+..+.+.|++..+
T Consensus        29 k~p~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~  108 (271)
T KOG0173|consen   29 KAPKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTG  108 (271)
T ss_pred             CCCcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccC
Confidence            35788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHH
Q psy2074         100 EEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE  179 (184)
Q Consensus       100 ~~~~~~~la~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~ee  179 (184)
                      +.+.|-...+++.++|+.|+.-.+..+|++|+|. .||+||.+.|.|+....+|.++|||+..++++||..|+|||+.||
T Consensus       109 R~~rVv~A~~mlkQ~LFrYqG~IgA~LiiGGvD~-TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k~dlt~ee  187 (271)
T KOG0173|consen  109 RKPRVVTALRMLKQHLFRYQGHIGAALILGGVDP-TGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWKPDLTKEE  187 (271)
T ss_pred             CCCceeeHHHHHHHHHHHhcCcccceeEEccccC-CCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcCcccCHHH
Confidence            9999999999999999999999999999999999 899999999999999999999999999999999999999999999


Q ss_pred             Hhhc
Q psy2074         180 AMST  183 (184)
Q Consensus       180 a~~l  183 (184)
                      |.+|
T Consensus       188 a~~L  191 (271)
T KOG0173|consen  188 AIKL  191 (271)
T ss_pred             HHHH
Confidence            9987

>KOG0174|consensus

Probab=100.00  E-value=1.2e-34  Score=216.16  Aligned_cols=160  Identities=63%  Similarity=1.058  Sum_probs=156.1

Q ss_pred             cccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCc
Q psy2074          24 KHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPL  103 (184)
Q Consensus        24 ~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~  103 (184)
                      .+..|||++|+.+++||||++|+|.+.|.++.++-.+|+-+|.|+|+||-||..+|.|.+.+.++..+..|...++++++
T Consensus        15 evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~   94 (224)
T KOG0174|consen   15 EVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPL   94 (224)
T ss_pred             ccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCch
Confidence            58899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         104 VYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       104 ~~~la~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +...|+.++++.|++|..+...+||||||+..|.++|.|-..|+..+.++..-|||+.++++++|..|+|+|++||++++
T Consensus        95 v~~aA~l~r~~~Y~~re~L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE~~~f  174 (224)
T KOG0174|consen   95 VHTAASLFREICYNYREMLSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTLEECVRF  174 (224)
T ss_pred             HHHHHHHHHHHHHhCHHhhhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999874

>KOG0177|consensus

Probab=100.00  E-value=1.7e-34  Score=214.48  Aligned_cols=156  Identities=24%  Similarity=0.387  Sum_probs=150.8

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      .+++||++.|+|++|+|+...++.++..++.+|++++++++.|+++|..+|.-++.+++++++++|++++|.+++|+..|
T Consensus         2 e~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aa   81 (200)
T KOG0177|consen    2 ETLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAA   81 (200)
T ss_pred             ceEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc---CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSY---RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~---r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++.+.++   |+|+.|++++||+|++.||.||++|..|+..+.++++.|.++.+..++||+.|+|+||.|||+++|
T Consensus        82 hFtR~~La~~LRsr~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lm  160 (200)
T KOG0177|consen   82 HFTRRELAESLRSRTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLM  160 (200)
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHH
Confidence            9999999765   459999999999999889999999999999999999999999999999999999999999999875

>KOG0180|consensus

Probab=100.00  E-value=8.2e-34  Score=208.13  Aligned_cols=159  Identities=20%  Similarity=0.283  Sum_probs=153.3

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      ..+|++++|+++|+||.||+|.|........+.+.+|||++.++.++|.+|+..|++.+.++++....+|+++.+++|.|
T Consensus         5 synGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P   84 (204)
T KOG0180|consen    5 SYNGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKP   84 (204)
T ss_pred             eecCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCc
Confidence            35899999999999999999999988888889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceee-cCeEEEecCHHhHHHHHhccCCCCCCHHHHhh
Q psy2074         105 YSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMR-QKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS  182 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~  182 (184)
                      +.+++++|.++|++|+ |+.+..+|||+|++++|.|..+|..|.... .+|++.|.+++.+++++|..|+|+|+.||+++
T Consensus        85 ~~~s~mvS~~lYekRfgpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~LFe  164 (204)
T KOG0180|consen   85 ETFSSMVSSLLYEKRFGPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDELFE  164 (204)
T ss_pred             HHHHHHHHHHHHHhhcCCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHHHHH
Confidence            9999999999999997 999999999999999999999999999875 79999999999999999999999999999987


Q ss_pred             c
Q psy2074         183 T  183 (184)
Q Consensus       183 l  183 (184)
                      .
T Consensus       165 t  165 (204)
T KOG0180|consen  165 T  165 (204)
T ss_pred             H
Confidence            5

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.98  E-value=3.4e-31  Score=200.43  Aligned_cols=143  Identities=24%  Similarity=0.317  Sum_probs=125.8

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEe-cCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHH
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRV-TDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYS  106 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i-~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~  106 (184)
                      |+|+||++++||||||+|+|.+.|.++.+++.+||++| +++++|+.||..+|+|.+.+.++.+++.|+.    ++ ++.
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~----~~-~~~   75 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQG----NL-LRA   75 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccC----cc-HHH
Confidence            79999999999999999999999999999999999999 9999999999999999999999999999882    22 577


Q ss_pred             HHHHHHHHH-HhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeec--CeEEEecCHHhHHHHHhccCC-CCCCHHHHhh
Q psy2074         107 GAKLFQELV-YSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ--KMAMGGSGSTYLYGHMDNQFK-ENMTKKEAMS  182 (184)
Q Consensus       107 la~~l~~~l-~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~--~~~a~G~g~~~~~~~Le~~~~-~~~s~eea~~  182 (184)
                      +++.+..+. +.+++|+.+++|++  |.   |+||.+||.|+..+.  ++.++|||+.+++++||+.|+ |+|   ||++
T Consensus        76 ~a~l~~~l~~~~~~~~l~~~~lv~--d~---~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---eA~~  147 (172)
T PRK05456         76 AVELAKDWRTDRYLRRLEAMLIVA--DK---EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---SAEE  147 (172)
T ss_pred             HHHHHHHHHhccCCCccEEEEEEE--cC---CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---CHHH
Confidence            777665543 34456888999994  44   699999999999665  899999999999999999999 999   6655


Q ss_pred             c
Q psy2074         183 T  183 (184)
Q Consensus       183 l  183 (184)
                      |
T Consensus       148 l  148 (172)
T PRK05456        148 I  148 (172)
T ss_pred             H
Confidence            4

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

Probab=99.97  E-value=2e-30  Score=192.65  Aligned_cols=155  Identities=31%  Similarity=0.394  Sum_probs=148.4

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      +|+||++++|||++|+|++.+.+......+.+|++.++++++++++|..+|++.+.++++++++.|++.++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            58999999999999999999998776578899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC--CCcceeeEEEEEeCCCCeEEEEEcCCCceeec-CeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYR--DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ-KMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r--~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +.+++.++.++  +|+++++|++|+|+ ++|+||.+||.|++.+. +++++|++++.+.++|++.|+++|+.+||++++
T Consensus        81 ~~~~~~~~~~~~~~p~~~~~iiag~~~-~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~~  158 (164)
T cd01901          81 KELAKLLQVYTQGRPFGVNLIVAGVDE-GGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELA  158 (164)
T ss_pred             HHHHHHHHHhcCCCCcceEEEEEEEcC-CCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            99999999887  69999999999998 89999999999999999 999999999999999999999999999998763

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

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

Probab=99.97  E-value=2.7e-30  Score=194.44  Aligned_cols=142  Identities=25%  Similarity=0.321  Sum_probs=122.1

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecC-eEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTD-NIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~-~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      +|+|||+++||||||+|+|.+.|.++.+++.+||++|++ |++|++||..+|++.|.++++.++++|+.+.++     .+
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~a   75 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HH
Confidence            699999999999999999999999999999999999999 999999999999999999999999999987663     55


Q ss_pred             HHHHHHHH-HhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeec--CeEEEecCHHhHHHHHhccCCCC-CCHHHH
Q psy2074         108 AKLFQELV-YSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ--KMAMGGSGSTYLYGHMDNQFKEN-MTKKEA  180 (184)
Q Consensus       108 a~~l~~~l-~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~--~~~a~G~g~~~~~~~Le~~~~~~-~s~eea  180 (184)
                      ++.+..++ ++++..+.+.++++  |.   ++||.+||.|...+.  ++.++|||+++++++||..|+++ ||.+|.
T Consensus        76 a~l~~~l~~~~~~~~l~a~~iv~--~~---~~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms~~~l  147 (171)
T cd01913          76 VELAKDWRTDRYLRRLEAMLIVA--DK---EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLSAEEI  147 (171)
T ss_pred             HHHHHHHHhccCcCceEEEEEEe--CC---CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCCHHHH
Confidence            55555553 33333344655655  33   499999999999998  49999999999999999999995 997754

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.

>KOG0185|consensus

Probab=99.97  E-value=2.5e-30  Score=198.02  Aligned_cols=168  Identities=19%  Similarity=0.277  Sum_probs=155.4

Q ss_pred             CCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHH-
Q psy2074          17 APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQR-   95 (184)
Q Consensus        17 qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~-   95 (184)
                      .+...++++-.||+|||+|++|||++|+|+..++|.+...++.+||++|+||+++++||..+|+|.+.+.|.....+.. 
T Consensus        30 ~~qrt~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD~Q~i~r~L~~l~iedn~  109 (256)
T KOG0185|consen   30 PIQRTLNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISDFQYIQRVLEQLVIEDNR  109 (256)
T ss_pred             CcccccCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHHHHHHHHHHHHHHhcccc
Confidence            4455677889999999999999999999999999999999999999999999999999999999999999988876654 


Q ss_pred             HHhCCCCcHHHHHHHHHHHHHhcCC---CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCC
Q psy2074          96 MELGEEPLVYSGAKLFQELVYSYRD---SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK  172 (184)
Q Consensus        96 ~~~~~~~~~~~la~~l~~~l~~~r~---p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~  172 (184)
                      +..++.+.|+.++++|.+++|.+|.   |+..+++|||+|..+.|.|-.+|-.|...+.+..|+|.|+..+.++|++.|.
T Consensus       110 ~~Dg~~l~Pk~ih~yltrvlY~rRsKmnPlwntlvVgGv~~~g~~~lg~V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~  189 (256)
T KOG0185|consen  110 LDDGQSLGPKAIHSYLTRVLYARRSKMNPLWNTLVVGGVDNTGEPFLGYVDLLGVAYESPVVATGFGAHLALPLLRDEWE  189 (256)
T ss_pred             cccccccChHHHHHHHHHHHHHhhhccCchhhheeEeeecCCCCeeEEEEeeccccccCchhhhhhHHHhhhHHHHHhhh
Confidence            4667999999999999999999885   9999999999999889999999999999999999999999999999999996


Q ss_pred             ---CCCCHHHHhhcC
Q psy2074         173 ---ENMTKKEAMSTF  184 (184)
Q Consensus       173 ---~~~s~eea~~l~  184 (184)
                         ++++.|||.+++
T Consensus       190 ~k~~~~s~eeA~~li  204 (256)
T KOG0185|consen  190 KKGEDLSREEAEALI  204 (256)
T ss_pred             ccchhhHHHHHHHHH
Confidence               689999998763

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.97  E-value=3.4e-29  Score=188.51  Aligned_cols=141  Identities=25%  Similarity=0.310  Sum_probs=120.8

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEe-cCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRV-TDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i-~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      +|+||++++||||||+|+|.+.|.++.+++.+||++| ++|++|++||..+|++.|.++++.++++|++..     .+.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~   75 (171)
T TIGR03692         1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEYQGNL-----TRAA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHHHHHHHHccCch-----HHHH
Confidence            6999999999999999999999999999999999999 599999999999999999999999999988633     4777


Q ss_pred             HHHHHHH-HHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeec--CeEEEecCHHhHHHHHhccC-CCCCCHHH
Q psy2074         108 AKLFQEL-VYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ--KMAMGGSGSTYLYGHMDNQF-KENMTKKE  179 (184)
Q Consensus       108 a~~l~~~-l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~--~~~a~G~g~~~~~~~Le~~~-~~~~s~ee  179 (184)
                      ++.++++ .+.+++.+.+.++++++     ++||.+||.|...++  ++.++|||+++++++||..| +++|+.++
T Consensus        76 a~l~~~~~~~~~~~~l~a~~iv~~~-----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~sa~~  146 (171)
T TIGR03692        76 VELAKDWRTDRYLRRLEAMLIVADK-----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLSAEE  146 (171)
T ss_pred             HHHHHHHhhcccccccEEEEEEEcC-----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCCHHH
Confidence            7777774 23333345566666533     499999999999996  69999999999999999999 58888443

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

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

Probab=99.46  E-value=1e-12  Score=99.67  Aligned_cols=154  Identities=20%  Similarity=0.244  Sum_probs=119.9

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEec----CeEEEEecCChHHHHHHHHHHHHHHHHHHHHhC-CCC
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVT----DNIYCCRSGSAADTQAISDFVSYNLDLQRMELG-EEP  102 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~----~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~-~~~  102 (184)
                      +|.|||++...|.|+++|+|.+.|.- ....++|+|...    .-++++.+|..+-.|.+++.+.+..+...-..= .-+
T Consensus         1 MTYCv~l~l~~GlVf~sDsRTNAGvD-~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~   79 (255)
T COG3484           1 MTYCVGLILDFGLVFGSDSRTNAGVD-YISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIP   79 (255)
T ss_pred             CceEEEEEeccceEEecccccccCch-HHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcch
Confidence            47899999999999999999998753 334577887664    456788999999999999999877652221111 223


Q ss_pred             cHHHHHHHHHHHHHh---cCC--------CcceeeEEEEEeCCCCeEEEEEcCCCceee----cCeEEEecCHHhHHHHH
Q psy2074         103 LVYSGAKLFQELVYS---YRD--------SLTAGIICAGWDRKKGGQVYCIPLGGMLMR----QKMAMGGSGSTYLYGHM  167 (184)
Q Consensus       103 ~~~~la~~l~~~l~~---~r~--------p~~~s~llaG~D~~~~~~Ly~idp~G~~~~----~~~~a~G~g~~~~~~~L  167 (184)
                      +..+.+.++.....+   +-.        -|.||++++|.-..+.|.||.|.|.|++.+    .+|..+|. +++.+++|
T Consensus        80 sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPil  158 (255)
T COG3484          80 SMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPIL  158 (255)
T ss_pred             hHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEccc-cccCchhh
Confidence            455556665554433   222        389999999998866799999999999986    79999995 67999999


Q ss_pred             hccCCCCCCHHHHhhc
Q psy2074         168 DNQFKENMTKKEAMST  183 (184)
Q Consensus       168 e~~~~~~~s~eea~~l  183 (184)
                      ++.+..++.+|||.++
T Consensus       159 dR~i~~~~pLeea~kc  174 (255)
T COG3484         159 DRTITYDTPLEEAAKC  174 (255)
T ss_pred             hhhhhccCCHHHHhhh
Confidence            9999999999999876

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

Probab=99.44  E-value=1.5e-12  Score=95.45  Aligned_cols=145  Identities=23%  Similarity=0.290  Sum_probs=111.5

Q ss_pred             CCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecC-eEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCC-cH
Q psy2074          27 CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTD-NIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEP-LV  104 (184)
Q Consensus        27 ~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~-~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~-~~  104 (184)
                      ++||+++++.++-|++|.|..+|.|..+...+..|+.+|.+ +++.+++|.++|+..|.+.++.+++.|.-   .-. ..
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g---~L~raa   79 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQG---DLFRAA   79 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccC---cHHHHH
Confidence            68999999999999999999999999999999888888865 89999999999999999999999988751   111 12


Q ss_pred             HHHHHHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceee--cCeEEEecCHHhHHHHHhccCC-CCCCHHHHh
Q psy2074         105 YSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMR--QKMAMGGSGSTYLYGHMDNQFK-ENMTKKEAM  181 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~--~~~~a~G~g~~~~~~~Le~~~~-~~~s~eea~  181 (184)
                      -++++..+.-  .+.+.+..-++++  |+   -.++-+...|...+  .+..|||||..++.+.....++ +++|.+|-.
T Consensus        80 velaKdwr~D--k~lr~LEAmllVa--d~---~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~lsA~eIa  152 (178)
T COG5405          80 VELAKDWRTD--KYLRKLEAMLLVA--DK---THILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELSAREIA  152 (178)
T ss_pred             HHHHHhhhhh--hHHHHHhhheeEe--CC---CcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCCHHHHH
Confidence            2333322211  1112355666776  44   46788877887664  5699999999999999998885 589988754

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

Probab=98.47  E-value=1.2e-08  Score=51.01  Aligned_cols=21  Identities=5%  Similarity=0.066  Sum_probs=18.5

Q ss_pred             ccccccccCCCCCCCcccccc
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAK   24 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~   24 (184)
                      .+.++++|+|||+|||||.+|
T Consensus         3 ~~~t~FSp~Grl~QVEYA~~A   23 (23)
T PF10584_consen    3 RSITTFSPDGRLFQVEYAMKA   23 (23)
T ss_dssp             SSTTSBBTTSSBHHHHHHHHH
T ss_pred             CCceeECCCCeEEeeEeeecC
Confidence            456789999999999999875

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

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

Probab=93.99  E-value=1.6  Score=33.53  Aligned_cols=124  Identities=19%  Similarity=0.180  Sum_probs=65.9

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCC-cHHH
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEP-LVYS  106 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~-~~~~  106 (184)
                      ++-+||..+++|.|+|.|+|.-                      ++-|.....+.|-+.|          |...+ +=++
T Consensus         1 MSLII~y~GknGaViaGDkR~I----------------------~F~G~~~~re~LEeeL----------YsG~IktdeE   48 (194)
T PF09894_consen    1 MSLIIAYYGKNGAVIAGDKRNI----------------------AFRGDEEKREKLEEEL----------YSGKIKTDEE   48 (194)
T ss_pred             CeEEEEEecCCCcEEeccceee----------------------eecCCHHHHHHHHHHH----------hCCccCCHHH
Confidence            4679999999999999999831                      2446655555444433          44444 4456


Q ss_pred             HHHHHHHHH-----HhcCC-CcceeeEEEE-------EeCCCCeEEEEE-------cCCCceeec-------CeEEEe--
Q psy2074         107 GAKLFQELV-----YSYRD-SLTAGIICAG-------WDRKKGGQVYCI-------PLGGMLMRQ-------KMAMGG--  157 (184)
Q Consensus       107 la~~l~~~l-----~~~r~-p~~~s~llaG-------~D~~~~~~Ly~i-------dp~G~~~~~-------~~~a~G--  157 (184)
                      |.+....+=     ..-|. -+-..-+|+|       .|. ..-++|.+       |-.|.-..-       .....|  
T Consensus        49 L~kkA~Elgv~i~I~D~r~KV~~~~~vlvGEV~s~~g~~s-kRRRiY~t~g~~~Ivei~~~~i~~~~~g~~sgiIVfGNk  127 (194)
T PF09894_consen   49 LLKKAEELGVKIKITDDREKVRKIGDVLVGEVTSISGKDS-KRRRIYATKGKYAIVEIENDEITNKSRGEGSGIIVFGNK  127 (194)
T ss_pred             HHHHHHHcCCEEEEecCchheEEeCCEEEEEEEEEcCccc-eeeEEEecCCCEEEEEecCCeEEEEecCCceeEEEECCH
Confidence            666555421     01111 1112223332       232 22344433       333332221       122222  


Q ss_pred             cCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         158 SGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      .--+.+...|.+.|++.|+++++..+|
T Consensus       128 ~~K~ia~~~lkk~~~~k~~l~~i~~i~  154 (194)
T PF09894_consen  128 FTKEIANKELKKYWKPKMSLKDIENIF  154 (194)
T ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence            112566778889999999999987664

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

>KOG3361|consensus

Probab=90.58  E-value=0.33  Score=35.02  Aligned_cols=44  Identities=18%  Similarity=0.236  Sum_probs=40.4

Q ss_pred             EEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         140 YCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       140 y~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ..+|.+|.....+|-..|-|+-.+.+-+-..|-.++|+|||.++
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~kI  114 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALKI  114 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHhc
Confidence            36688999999999999999999999999999999999999875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	184
1iru_H	205	Crystal Structure Of The Mammalian 20s Proteasome A		5e-56
3unb_N	205	Mouse Constitutive 20s Proteasome In Complex With P		2e-55
3nzj_N	215	Crystal Structure Of Yeast 20s Proteasome In Comple		2e-47
1ryp_H	205	Crystal Structure Of The 20s Proteasome From Yeast		6e-47
1g65_N	196	Crystal Structure Of Epoxomicin:20s Proteasome Reve		2e-46
1vsy_H	196	Proteasome Activator Complex Length = 196		6e-46
3unf_N	199	Mouse 20s Immunoproteasome In Complex With Pr-957 L		6e-39
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		6e-22
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		7e-21
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		8e-21
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		1e-19
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		4e-19
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		4e-17
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		5e-17
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		8e-17
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		1e-16
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		2e-16
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		3e-16
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		5e-14
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		7e-14
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		5e-13
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		2e-11
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		4e-06
1ryp_M	222	Crystal Structure Of The 20s Proteasome From Yeast		7e-06
1g0u_L	241	A Gated Channel Into The Proteasome Core Particle L		8e-06
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		3e-05
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		4e-05
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		4e-05
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		4e-05
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		4e-05
3unb_M	219	Mouse Constitutive 20s Proteasome In Complex With P		5e-05
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		5e-05
1iru_M	213	Crystal Structure Of The Mammalian 20s Proteasome A		9e-05
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		1e-04
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		1e-04
3unb_I	205	Mouse Constitutive 20s Proteasome In Complex With P		1e-04
3unb_L	213	Mouse Constitutive 20s Proteasome In Complex With P		2e-04
1g0u_M	266	A Gated Channel Into The Proteasome Core Particle L		3e-04
1iru_J	205	Crystal Structure Of The Mammalian 20s Proteasome A		3e-04
1ryp_N	233	Crystal Structure Of The 20s Proteasome From Yeast		4e-04
1iru_N	219	Crystal Structure Of The Mammalian 20s Proteasome A		4e-04
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		5e-04
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		5e-04

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

Iteration: 1
 Score =  213 bits (542), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 93/153 (60%), Positives = 126/153 (82%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT + D I+CCRSGSAADTQA++D V+
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
           Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGWD ++GGQVY +P+GGM+
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct: 121 VRQSFAIGGSGSSYIYGYVDATYREGMTKEECL 153

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

Iteration: 1
 Score =  211 bits (536), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 92/153 (60%), Positives = 126/153 (82%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+AV+F+GGVV+GADSR++TG+Y+ANRV DKLT + D+I+CCRSGSAADTQA++D V+
Sbjct: 1   TTIMAVQFNGGVVLGADSRTTTGSYIANRVTDKLTPIHDHIFCCRSGSAADTQAVADAVT 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
           Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGWD ++GGQVY +P+GGM+
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +RQ  A+GGSGS+Y+YG++D  ++E MTK E +
Sbjct: 121 VRQSFAIGGSGSSYIYGYVDATYREGMTKDECL 153

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

Iteration: 1
 Score =  184 bits (468), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 89/156 (57%), Positives = 118/156 (75%), Gaps = 1/156 (0%)
Query: 26  SCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISD 85
           S GT+I+AV F  GV++GADSR++TGAY+ANRV DKLTRV D I+CCRSGSAADTQAI+D
Sbjct: 17  SLGTSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIAD 76
Query: 86  FVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLG 145
            V Y+L+L   + G  P   + A +F+EL Y  +D+LTAGII AG+D K  G+VY IPLG
Sbjct: 77  IVQYHLELYTSQYG-TPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLG 135
Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           G + +   A+ GSGST++YG+ D  F+ENM+K+E +
Sbjct: 136 GSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETV 171

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

Iteration: 1
 Score =  182 bits (463), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 88/156 (56%), Positives = 117/156 (75%), Gaps = 1/156 (0%)
Query: 26  SCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISD 85
           S G +I+AV F  GV++GADSR++TGAY+ANRV DKLTRV D I+CCRSGSAADTQAI+D
Sbjct: 7   SLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIAD 66
Query: 86  FVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLG 145
            V Y+L+L   + G  P   + A +F+EL Y  +D+LTAGII AG+D K  G+VY IPLG
Sbjct: 67  IVQYHLELYTSQYG-TPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLG 125
Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           G + +   A+ GSGST++YG+ D  F+ENM+K+E +
Sbjct: 126 GSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETV 161

>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 =  181 bits (460), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 87/153 (56%), Positives = 116/153 (75%), Gaps = 1/153 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           T+I+AV F  GV++GADSR++TGAY+ANRV DKLTRV D I+CCRSGSAADTQAI+D V 
Sbjct: 1   TSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQ 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
           Y+L+L   + G  P   + A +F+EL Y  +D+LTAGII AG+D K  G+VY IPLGG +
Sbjct: 61  YHLELYTSQYG-TPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSV 119
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +   A+ GSGST++YG+ D  F+ENM+K+E +
Sbjct: 120 HKLPYAIAGSGSTFIYGYCDKNFRENMSKEETV 152

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

Iteration: 1
 Score =  179 bits (455), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 86/152 (56%), Positives = 115/152 (75%), Gaps = 1/152 (0%)
Query: 30  TIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSY 89
           +I+AV F  GV++GADSR++TGAY+ANRV DKLTRV D I+CCRSGSAADTQAI+D V Y
Sbjct: 2   SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQY 61
Query: 90  NLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLM 149
           +L+L   + G  P   + A +F+EL Y  +D+LTAGII AG+D K  G+VY IPLGG + 
Sbjct: 62  HLELYTSQYG-TPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVH 120
Query: 150 RQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +   A+ GSGST++YG+ D  F+ENM+K+E +
Sbjct: 121 KLPYAIAGSGSTFIYGYCDKNFRENMSKEETV 152

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

Iteration: 1
 Score =  156 bits (394), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 81/151 (53%), Positives = 109/151 (72%), Gaps = 1/151 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+AVEFDGGVV+G+DSR S G  V NRV DKL+ +   I+C  SGSAAD QAI+D  +
Sbjct: 1   TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAA 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
           Y L+L  +EL E PLV + A + + + Y YR+ L A +I AGWD+++GGQVY   +GGML
Sbjct: 61  YQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLIVAGWDQREGGQVYGT-MGGML 119
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKE 179
           +RQ   +GGSGS+Y+YG++D  +K  MT +E
Sbjct: 120 IRQPFTIGGSGSSYIYGYVDAAYKPGMTPEE 150

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

Iteration: 1
 Score =  100 bits (248), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 53/156 (33%), Positives = 92/156 (58%), Gaps = 1/156 (0%)
Query: 26  SCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISD 85
           S GTTI+ V+F+ GVVI AD+RS+ G  VA++   KL R++  I+C  +G+AADT+A++ 
Sbjct: 27  STGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQ 86
Query: 86  FVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLG 145
            +  N++L  +    EP V S  ++ ++ ++ Y+  + A +I AG D   G  ++ I   
Sbjct: 87  LIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVD-PTGSHLFSIHAH 145
Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           G          GSGS      +++ +K+++TK+EA+
Sbjct: 146 GSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI 181

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

Iteration: 1
 Score = 96.7 bits (239), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 90/153 (58%), Gaps = 1/153 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+ V+F+ GVVI AD+RS+ G  VA++   KL R++  I+C  +G+AADT+A++  + 
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            N++L  +    EP V S  ++ ++ ++ Y+  + A +I AG D   G  ++ I   G  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVD-PTGSHLFSIHAHGST 119
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
                   GSGS      +++ +K+++TK+EA+
Sbjct: 120 DVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI 152

>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 = 96.3 bits (238), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 90/153 (58%), Gaps = 1/153 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+ V+F+ GVVI AD+RS+ G  VA++   KL R++  I+C  +G+AADT+A++  + 
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            N++L  +    EP V S  ++ ++ ++ Y+  + A +I AG D   G  ++ I   G  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVD-PTGSHLFSIHAHGST 119
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
                   GSGS      +++ +K+++TK+EA+
Sbjct: 120 DVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI 152

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

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 85/152 (55%), Gaps = 1/152 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI  V +  G+V+GAD+R++ G  VA++   K+  ++ NIYCC +G+AADT   +  +S
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            NL+L  +  G  P V +  ++ +++++ YR  + A ++  G D   G  +Y I   G  
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVD-VTGPHLYSIYPHGST 119
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            +      GSGS       +++F+ +M ++EA
Sbjct: 120 DKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEA 151

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

Iteration: 1
 Score = 90.5 bits (223), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 85/152 (55%), Gaps = 1/152 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI  V +  G+V+GAD+R++ G  VA++   K+  ++ NIYCC +G+AADT   +  +S
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            NL+L  +  G  P V +  ++ +++++ Y+  + A ++  G D   G  +Y I   G  
Sbjct: 61  SNLELHSLTTGRLPRVVTANRMLKQMLFRYQGYIGAALVLGGVD-VTGPHLYSIYPHGST 119
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            +      GSGS       +++F+ +M ++EA
Sbjct: 120 DKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEA 151

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

Iteration: 1
 Score = 84.0 bits (206), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 45/159 (28%), Positives = 86/159 (54%), Gaps = 1/159 (0%)
Query: 24  KHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI 83
           K + GTT +A  F GG+++  DSR++ G +VA++   K+  +   +    +G AAD Q  
Sbjct: 71  KIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFW 130
Query: 84  SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAGWDRKKGGQVYCI 142
             ++     L  +   E   V + +K+   LVY Y+ + L+ G +  G+ RK+G  +Y +
Sbjct: 131 ETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYV 190
Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
              G  ++  +   GSG T+ YG +D+ +K +++ ++A+
Sbjct: 191 DSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDAL 229

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

Iteration: 1
 Score = 84.0 bits (206), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 44/152 (28%), Positives = 82/152 (53%), Gaps = 1/152 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI  + F  GV++GAD+R++  + VA++  +K+  +   IYCC +G AADT+  +   +
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
             ++L  +  G EP V +  ++ ++ ++ Y+  + A ++  G D   G Q+Y +   G  
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASLVVGGVD-LNGPQLYEVHPHGSY 119
Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            R      GSG       ++++F+ NMT + A
Sbjct: 120 SRLPFTALGSGQGAAVALLEDRFQPNMTLEAA 151

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

Iteration: 1
 Score = 83.2 bits (204), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 44/159 (27%), Positives = 86/159 (54%), Gaps = 1/159 (0%)
Query: 24  KHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI 83
           K + GTT +A  F GG+++  DSR++ G +VA++   ++  +   +    +G AAD Q  
Sbjct: 71  KIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFW 130
Query: 84  SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAGWDRKKGGQVYCI 142
             ++     L  +   E   V + +K+   LVY Y+ + L+ G +  G+ RK+G  +Y +
Sbjct: 131 ETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYV 190
Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
              G  ++  +   GSG T+ YG +D+ +K +++ ++A+
Sbjct: 191 DSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDAL 229

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

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 43/154 (27%), Positives = 83/154 (53%), Gaps = 1/154 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A  F GG+++  DSR++ G +VA++   K+  +   +    +G AAD Q    ++ 
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAGWDRKKGGQVYCIPLGGM 147
               L  +   E   V + +K+   LVY Y+ + L+ G +  G+ RK+G  +Y +   G 
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120
Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            ++  +   GSG T+ YG +D+ +K +++ ++A+
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDAL 154

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

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 48/153 (31%), Positives = 84/153 (54%), Gaps = 2/153 (1%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A +F  GV++  DSR++ G+Y+++   +K+  +   +    SG AAD Q     ++
Sbjct: 1   TTTLAFKFQHGVIVAVDSRATAGSYISSLRMNKVIEINPYLLGTMSGCAADCQYWERLLA 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGM 147
               L  +  GE   V + +KL   ++  YR   L+ G +  GWD KKG  +Y +   G 
Sbjct: 61  KECRLYYLRNGERISVSAASKLLSNMMLQYRGMGLSMGSMICGWD-KKGPGLYYVDDNGT 119
Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            +  +M   GSG+TY YG MD+ ++++++ +EA
Sbjct: 120 RLSGQMFSTGSGNTYAYGVMDSGYRQDLSPEEA 152

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

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 42/154 (27%), Positives = 83/154 (53%), Gaps = 1/154 (0%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A  F GG+++  DSR++ G +VA++   ++  +   +    +G AAD Q    ++ 
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAGWDRKKGGQVYCIPLGGM 147
               L  +   E   V + +K+   LVY Y+ + L+ G +  G+ RK+G  +Y +   G 
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120
Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            ++  +   GSG T+ YG +D+ +K +++ ++A+
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDAL 154

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

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 77/153 (50%), Gaps = 2/153 (1%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A +F  GV++ ADSR++ GAY+A++   K+  +   +    +G AAD       ++
Sbjct: 1   TTTLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGM 147
               +  +   E   V + +KL   +VY Y+   L+ G +  GWD++  G  Y    G  
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120
Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
           +     ++ GSGS Y YG MD  +  ++  +EA
Sbjct: 121 ISGTAFSV-GSGSVYAYGVMDRGYSYDLKVEEA 152

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

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 77/153 (50%), Gaps = 2/153 (1%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A +F  GV++ ADSR++ GAY+A++   K+  +   +    +G AAD       ++
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGM 147
               +  +   E   V + +KL   +VY Y+   L+ G +  GWD++  G  Y    G  
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120
Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
           +     ++ GSGS Y YG MD  +  ++  ++A
Sbjct: 121 ISGATFSV-GSGSVYAYGVMDRGYSYDLEVEQA 152

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

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 46/155 (29%), Positives = 76/155 (49%), Gaps = 2/155 (1%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT + +  D  V++  D R+S G  VA++ A KL ++ D I    +GS  D QAI   + 
Sbjct: 2   TTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLI 61
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCI-PLGG 146
               L +M  G      + A L   +++S R       II  G+D  +G +++ + PLGG
Sbjct: 62  AEAKLYKMRTGRNIPPLACATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLDPLGG 121
Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           M   +     GSGS   YG ++  +  +M+ +E +
Sbjct: 122 MNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGI 156

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

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 41/155 (26%), Positives = 78/155 (50%), Gaps = 3/155 (1%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT + +    GVV+  + R++ G ++A++ A K+ ++ D +    +GS  D Q ++  + 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCI-PLGG 146
              +L  +    +P V + A L   L+ SYR       ++  G D  +G  +Y I P+GG
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGID-SEGKSIYSIDPIGG 119
Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +  + +   GSGS   YG ++++F   +   EA+
Sbjct: 120 AIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAV 154

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 37/160 (23%), Positives = 71/160 (44%), Gaps = 7/160 (4%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT I +    GVV+  D R  T   V  R  +K+ ++ D++    SG  AD + + D  
Sbjct: 38  GTTAIGIACKDGVVLAVD-RRITSKLVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRA 96
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-----SLTAGIICAGWDRKKGGQVYCI 142
                + R+  GEE  +   AK   ++  +Y            ++ AG D+ +       
Sbjct: 97  RLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETD 156
Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
           P G ++  +  A+ GSG   +   ++ ++++++T  E + 
Sbjct: 157 PSGALIEYKATAI-GSGRPVVMELLEKEYRDDITLDEGLE 195

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 38/145 (26%), Positives = 64/145 (44%), Gaps = 2/145 (1%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G TI+ +  +   V+  D+R+ T   + +R   K+    DNI    +G AAD  A+    
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68
Query: 88  SYNLDLQRMELGEEPL-VYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLG 145
             ++     +  ++ L + S A+  Q L+Y  R        I AG D    G VY     
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPV 128
Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQ 170
           G   R++   GG+ ++ +   +DNQ
Sbjct: 129 GSYEREQCRAGGAAASLIMPFLDNQ 153

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 38/145 (26%), Positives = 64/145 (44%), Gaps = 2/145 (1%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G TI+ +  +   V+  D+R+ T   + +R   K+    DNI    +G AAD  A+    
Sbjct: 28  GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 87
Query: 88  SYNLDLQRMELGEEPL-VYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLG 145
             ++     +  ++ L + S A+  Q L+Y  R        I AG D    G VY     
Sbjct: 88  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPV 147
Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQ 170
           G   R++   GG+ ++ +   +DNQ
Sbjct: 148 GSYEREQCRAGGAAASLIMPFLDNQ 172

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 38/167 (22%), Positives = 71/167 (42%), Gaps = 21/167 (12%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T + ++F  GV++ +D +  +     N + +K+  + D +    SG  AD + + DF 
Sbjct: 28  GSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAVTSGLVADARVLVDFA 86
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLT------------AGIICAGWDRKK 135
                  R+   +E + Y      + LV    D +               +I AG D+  
Sbjct: 87  -------RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIG 139
Query: 136 GGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
                C P  G +   K    GSG   +   ++ ++KEN+ +KEA++
Sbjct: 140 PRLFDCDP-AGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVT 185

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 38/167 (22%), Positives = 71/167 (42%), Gaps = 21/167 (12%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T + ++F  GV++ +D +  +     N + +K+  + D +    SG  AD + + DF 
Sbjct: 34  GSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAVTSGLVADARVLVDFA 92
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLT------------AGIICAGWDRKK 135
                  R+   +E + Y      + LV    D +               +I AG D+  
Sbjct: 93  -------RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIG 145
Query: 136 GGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
                C P  G +   K    GSG   +   ++ ++KEN+ +KEA++
Sbjct: 146 PRLFDCDP-AGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVT 191

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 38/167 (22%), Positives = 71/167 (42%), Gaps = 21/167 (12%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T + ++F  GV++ +D +  +     N + +K+  + D +    SG  AD + + DF 
Sbjct: 34  GSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAVTSGLVADARVLVDFA 92
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLT------------AGIICAGWDRKK 135
                  R+   +E + Y      + LV    D +               +I AG D+  
Sbjct: 93  -------RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIG 145
Query: 136 GGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
                C P  G +   K    GSG   +   ++ ++KEN+ +KEA++
Sbjct: 146 PRLFDCDP-AGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVT 191

>pdb|2KU1|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 = 38/167 (22%), Positives = 71/167 (42%), Gaps = 21/167 (12%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T + ++F  GV++ +D +  +     N + +K+  + D +    SG  AD + + DF 
Sbjct: 38  GSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAVTSGLVADARVLVDFA 96
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLT------------AGIICAGWDRKK 135
                  R+   +E + Y      + LV    D +               +I AG D+  
Sbjct: 97  -------RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIG 149
Query: 136 GGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
                C P  G +   K    GSG   +   ++ ++KEN+ +KEA++
Sbjct: 150 PRLFDCDP-AGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVT 195

>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 = 38/167 (22%), Positives = 71/167 (42%), Gaps = 21/167 (12%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T + ++F  GV++ +D +  +     N + +K+  + D +    SG  AD + + DF 
Sbjct: 34  GSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAVTSGLVADARVLVDFA 92
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLT------------AGIICAGWDRKK 135
                  R+   +E + Y      + LV    D +               +I AG D+  
Sbjct: 93  -------RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIG 145
Query: 136 GGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
                C P  G +   K    GSG   +   ++ ++KEN+ +KEA++
Sbjct: 146 PRLFDCDP-AGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVT 191

>pdb|3UNB|M Chain M, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 219

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 33/61 (54%)
Query: 27 CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF 86
           GT+++ V+FDGGVVI AD   S G+    R   ++ RV D+     SG  AD Q +   
Sbjct: 7  TGTSVLGVKFDGGVVIAADMLGSYGSLARFRNISRIMRVNDSTMLGASGDYADFQYLKQV 66
Query: 87 V 87
          +
Sbjct: 67 L 67

>pdb|2KU2|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 = 5e-05,   Method: Compositional matrix adjust.
 Identities = 38/167 (22%), Positives = 71/167 (42%), Gaps = 21/167 (12%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T + ++F  GV++ +D +  +     N + +K+  + D +    SG  AD + + DF 
Sbjct: 38  GSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAVTSGLVADARVLVDFA 96
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLT------------AGIICAGWDRKK 135
                  R+   +E + Y      + LV    D +               +I AG D+  
Sbjct: 97  -------RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIG 149
Query: 136 GGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS 182
                C P  G +   K    GSG   +   ++ ++KEN+ +KEA++
Sbjct: 150 PRLFDCDP-AGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVT 195

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 41/155 (26%), Positives = 64/155 (41%), Gaps = 4/155 (2%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G TI+A+  +   ++ +D+R S G  +  R + K  ++TD      SG   D   ++  +
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGG 146
              L + +    +     + A +   ++YS R        I  G D +  G VY     G
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVG 128
Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQ--FKENMTKKE 179
              R     GGS S  L   +DNQ  FK NM   E
Sbjct: 129 SYQRDSFKAGGSASAMLQPLLDNQVGFK-NMQNVE 162

>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 = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/154 (20%), Positives = 66/154 (42%), Gaps = 3/154 (1%)
Query: 27  CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF 86
            GTT + +     V++  + R +   ++ ++   KL ++        +G   D Q +  +
Sbjct: 7   TGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRY 66
Query: 87  VSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLG 145
           +   L+L R++      + + A L   ++   +       ++  G D      V+ I   
Sbjct: 67  MKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID--TAPHVFSIDAA 124
Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE 179
           G  +    A  GSGS ++YG +++Q+ E MT  E
Sbjct: 125 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDE 158

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/154 (20%), Positives = 66/154 (42%), Gaps = 3/154 (1%)
Query: 27  CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF 86
            GTT + +     V++  + R +   ++ ++   KL ++        +G   D Q +  +
Sbjct: 7   TGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRY 66
Query: 87  VSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLG 145
           +   L+L R++      + + A L   ++   +       ++  G D      V+ I   
Sbjct: 67  MKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID--TAPHVFSIDAA 124
Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE 179
           G  +    A  GSGS ++YG +++Q+ E MT  E
Sbjct: 125 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDE 158

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 37/161 (22%), Positives = 69/161 (42%), Gaps = 5/161 (3%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G  ++A++    V I AD R    A +      K+  + D +Y   +G A D Q ++  +
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQMVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYR--DSLTAGIICAGWDRKKGGQVYCI--P 143
            + L+L  ++ G +   Y+   +   L+Y  R     T  +I AG D K      C    
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVI-AGLDPKTFKPFICSLDL 126
Query: 144 LGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF 184
           +G  ++     + G+ S  +YG  ++ ++ NM  +    T 
Sbjct: 127 IGCPMVTDDFVVSGTCSEQMYGMCESLWEPNMDPEHLFETI 167

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 40/155 (25%), Positives = 64/155 (41%), Gaps = 4/155 (2%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G T++A+  +   ++ +D+R S G  +  R + K  ++TD      SG   D   ++  +
Sbjct: 9   GGTVLAIAGEDFSIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGG 146
              L + +    +     + A +   ++YS R        I  G D +  G VY     G
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVG 128
Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQ--FKENMTKKE 179
              R     GGS S  L   +DNQ  FK NM   E
Sbjct: 129 SYQRDSFKAGGSASAMLQPLLDNQVGFK-NMQNVE 162

>pdb|1G0U|M Chain M, A Gated Channel Into The Proteasome Core Particle Length = 266

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 43/164 (26%), Positives = 68/164 (41%), Gaps = 17/164 (10%)
Query: 27  CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS-- 84
            GT++I++++D GV+I AD+  S G+ +     ++L  V DN     SG  +D Q I   
Sbjct: 40  TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERL 99
Query: 85  --DFVS---YNLDLQRMELGEEP---LVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKG 136
             D V+   Y+  L   E   EP     Y    ++Q    S  + L   II AG      
Sbjct: 100 LKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQR--RSKMNPLWNAIIVAGVQSNGD 157
Query: 137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
             +  + L G+         G G+     HM N     +  +E+
Sbjct: 158 QFLRYVNLLGVTYSSPTLATGFGA-----HMANPLLRKVVDRES 196

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 36/161 (22%), Positives = 68/161 (42%), Gaps = 5/161 (3%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G  ++A++    V I AD R    A +      K+  + D +Y   +G A D Q ++  +
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67
Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYR--DSLTAGIICAGWDRKKGGQVYCI--P 143
            + L+L  ++ G +   Y+   +   L+Y  R     T  +I AG D K      C    
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVI-AGLDPKTFKPFICSLDL 126
Query: 144 LGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF 184
           +G  ++     + G+ +  +YG  ++ ++ NM       T 
Sbjct: 127 IGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETI 167

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 43/164 (26%), Positives = 68/164 (41%), Gaps = 17/164 (10%)
Query: 27  CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS-- 84
            GT++I++++D GV+I AD+  S G+ +     ++L  V DN     SG  +D Q I   
Sbjct: 7   TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERL 66
Query: 85  --DFVS---YNLDLQRMELGEEP---LVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKG 136
             D V+   Y+  L   E   EP     Y    ++Q    S  + L   II AG      
Sbjct: 67  LKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQR--RSKMNPLWNAIIVAGVQSNGD 124
Query: 137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
             +  + L G+         G G+     HM N     +  +E+
Sbjct: 125 QFLRYVNLLGVTYSSPTLATGFGA-----HMANPLLRKVVDRES 163

>pdb|1IRU|N Chain N, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 219

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 33/61 (54%)
Query: 27 CGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF 86
           GT+++ V+F+GGVVI AD   S G+    R   ++ RV ++     SG  AD Q +   
Sbjct: 7  TGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQV 66
Query: 87 V 87
          +
Sbjct: 67 L 67

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 39/158 (24%), Positives = 70/158 (44%), Gaps = 9/158 (5%)
Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G+T I +    GVV+G + R+++    ++ + +K+  +  +I C  SG  AD +++ +  
Sbjct: 34  GSTAIGIATKEGVVLGVEKRATSPLLESDSI-EKIVEIDRHIGCAMSGLTADARSMIEHA 92
Query: 87  ----VSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCI 142
               V++NL     ++  E L  S   L      S        ++ AG D   G Q++  
Sbjct: 93  RTAAVTHNLYYDE-DINVESLTQSVCDLAAAAAMSR--PFGVALLIAGHDADDGYQLFHA 149
Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
              G   R      GSGS      + N++  ++T KEA
Sbjct: 150 EPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 187

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 31/152 (20%), Positives = 65/152 (42%), Gaps = 3/152 (1%)
Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT + +     V++  + R +   ++ ++   KL ++        +G   D Q +  ++ 
Sbjct: 1   TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMK 60
Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGM 147
             L+L R++      + + A L   ++   +       ++  G D      V+ I   G 
Sbjct: 61  AELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID--TAPHVFSIDAAGG 118
Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE 179
            +    A  GSGS ++YG +++Q+ E MT  E
Sbjct: 119 SVEDIYASTGSGSPFVYGVLESQYSEKMTVDE 150

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	184
1iru_H	205	20S proteasome; cell cycle, immune response, prote	1e-71
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	1e-69
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	1e-68
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	1e-68
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	7e-68
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	2e-67
1iru_I	234	20S proteasome; cell cycle, immune response, prote	3e-67
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	4e-67
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	8e-67
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	7e-65
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-64
1iru_L	204	20S proteasome; cell cycle, immune response, prote	2e-64
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	3e-64
1iru_J	205	20S proteasome; cell cycle, immune response, prote	1e-63
1iru_M	213	20S proteasome; cell cycle, immune response, prote	5e-63
1iru_K	201	20S proteasome; cell cycle, immune response, prote	5e-62
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	7e-62
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	2e-59
1iru_N	219	20S proteasome; cell cycle, immune response, prote	2e-58
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	1e-57
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	2e-57
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	3e-54
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	9e-54
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	5e-53
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	5e-53
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-23
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	1e-18
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	5e-17
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	3e-11
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	1e-10
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	1e-08
1iru_G	254	20S proteasome; cell cycle, immune response, prote	6e-08
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	1e-07
1iru_C	261	20S proteasome; cell cycle, immune response, prote	3e-07
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	6e-07
1iru_B	233	20S proteasome; cell cycle, immune response, prote	9e-07
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	1e-06
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	1e-06
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	2e-06
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	2e-06
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	3e-06
1iru_E	241	20S proteasome; cell cycle, immune response, prote	4e-06
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	7e-06
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	7e-06
1iru_D	248	20S proteasome; cell cycle, immune response, prote	9e-06
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-05
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	1e-05
1iru_F	263	20S proteasome; cell cycle, immune response, prote	2e-04

>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 =  214 bits (547), Expect = 1e-71
 Identities = 93/153 (60%), Positives = 126/153 (82%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT + D I+CCRSGSAADTQA++D V+
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
           Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGWD ++GGQVY +P+GGM+
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct: 121 VRQSFAIGGSGSSYIYGYVDATYREGMTKEECL 153

>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 =  209 bits (534), Expect = 1e-69
 Identities = 88/159 (55%), Positives = 118/159 (74%), Gaps = 1/159 (0%)

Query: 23  AKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA 82
            + S G +I+AV F  GV++GADSR++TGAY+ANRV DKLTRV D I+CCRSGSAADTQA
Sbjct: 4   GEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQA 63

Query: 83  ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCI 142
           I+D V Y+L+L   + G  P   + A +F+EL Y  +D+LTAGII AG+D K  G+VY I
Sbjct: 64  IADIVQYHLELYTSQYG-TPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTI 122

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           PLGG + +   A+ GSGST++YG+ D  F+ENM+K+E +
Sbjct: 123 PLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETV 161

>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 =  209 bits (534), Expect = 1e-68
 Identities = 46/171 (26%), Positives = 87/171 (50%), Gaps = 1/171 (0%)

Query: 12  HGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYC 71
           H           K + GTT +A  F GG+++  DSR++ G +VA++   K+  +   +  
Sbjct: 59  HTDDSRNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLG 118

Query: 72  CRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAG 130
             +G AAD Q    ++     L  +   E   V + +K+   LVY Y+ + L+ G +  G
Sbjct: 119 TMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICG 178

Query: 131 WDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           + RK+G  +Y +   G  ++  +   GSG T+ YG +D+ +K +++ ++A+
Sbjct: 179 YTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDAL 229

>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 =  207 bits (529), Expect = 1e-68
 Identities = 44/153 (28%), Positives = 82/153 (53%), Gaps = 1/153 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI  + F  GV++GAD+R++  + VA++  +K+  +   IYCC +G AADT+  +   +
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
             ++L  +  G EP V +  ++ ++ ++ Y+  + A ++  G D   G Q+Y +   G  
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASLVVGGVD-LNGPQLYEVHPHGSY 119

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            R      GSG       ++++F+ NMT + A 
Sbjct: 120 SRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQ 152

>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 =  204 bits (522), Expect = 7e-68
 Identities = 81/153 (52%), Positives = 108/153 (70%), Gaps = 1/153 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+AVEFDGGVV+G+DSR S G  V NRV DKL+ +   I+C  SGSAAD QAI+D  +
Sbjct: 1   TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAA 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
           Y L+L  +EL E PLV + A + + + Y YR+ L A +I AGWD+++GGQVY    GGML
Sbjct: 61  YQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLIVAGWDQREGGQVYGTM-GGML 119

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +RQ   +GGSGS+Y+YG++D  +K  MT +E  
Sbjct: 120 IRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECR 152

>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 =  205 bits (524), Expect = 2e-67
 Identities = 53/156 (33%), Positives = 92/156 (58%), Gaps = 1/156 (0%)

Query: 26  SCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISD 85
           S GTTI+ V+F+ GVVI AD+RS+ G  VA++   KL R++  I+C  +G+AADT+A++ 
Sbjct: 27  STGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQ 86

Query: 86  FVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLG 145
            +  N++L  +    EP V S  ++ ++ ++ Y+  + A +I AG D   G  ++ I   
Sbjct: 87  LIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVD-PTGSHLFSIHAH 145

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           G          GSGS      +++ +K+++TK+EA+
Sbjct: 146 GSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI 181

>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 =  204 bits (520), Expect = 3e-67
 Identities = 48/153 (31%), Positives = 85/153 (55%), Gaps = 1/153 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI  V +  G+V+GAD+R++ G  VA++   K+  ++ NIYCC +G+AADT   +  +S
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            NL+L  +  G  P V +  ++ +++++ YR  + A ++  G D   G  +Y I   G  
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVD-VTGPHLYSIYPHGST 119

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +      GSGS       +++F+ +M ++EA 
Sbjct: 120 DKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAK 152

>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 =  203 bits (519), Expect = 4e-67
 Identities = 51/153 (33%), Positives = 90/153 (58%), Gaps = 1/153 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+ V+F+ GVVI AD+RS+ G  VA++   KL R++  I+C  +G+AADT+A++  + 
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            N++L  +    EP V S  ++ ++ ++ Y+  + A +I AG D   G  ++ I   G  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVD-PTGSHLFSIHAHGST 119

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
                   GSGS      +++ +K+++TK+EA+
Sbjct: 120 DVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI 152

>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 =  202 bits (516), Expect = 8e-67
 Identities = 42/154 (27%), Positives = 82/154 (53%), Gaps = 1/154 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A  F GG+++  DSR++ G +VA++   ++  +   +    +G AAD Q    ++ 
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGM 147
               L  +   E   V + +K+   LVY Y+   L+ G +  G+ RK+G  +Y +   G 
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            ++  +   GSG T+ YG +D+ +K +++ ++A+
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDAL 154

>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 =  197 bits (503), Expect = 7e-65
 Identities = 32/155 (20%), Positives = 67/155 (43%), Gaps = 3/155 (1%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT + +     V++  + R +   ++ ++   KL ++        +G   D Q +  ++
Sbjct: 8   GTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYM 67

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGG 146
              L+L R++      + + A L   ++   +       ++  G D      V+ I   G
Sbjct: 68  KAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID--TAPHVFSIDAAG 125

Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             +    A  GSGS ++YG +++Q+ E MT  E +
Sbjct: 126 GSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGV 160

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

 Score =  197 bits (502), Expect = 1e-64
 Identities = 10/155 (6%), Positives = 25/155 (16%), Gaps = 2/155 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           + +  V                  Y      + + R T  I                   
Sbjct: 2   SHMQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSK 61

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAGWDRKKGGQVYCI-PLGG 146
                   ++ +     + A                           +   +  +     
Sbjct: 62  LVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKIC 121

Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            + +     GG     +   +    K      E  
Sbjct: 122 DIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETD 156

>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 =  195 bits (499), Expect = 2e-64
 Identities = 45/154 (29%), Positives = 77/154 (50%), Gaps = 2/154 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A +F  GV++ ADSR++ GAY+A++   K+  +   +    +G AAD       ++
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGM 147
               +  +   E   V + +KL   +VY Y+   L+ G +  GWD K+G  +Y +   G 
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWD-KRGPGLYYVDSEGN 119

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +       GSGS Y YG MD  +  ++  ++A 
Sbjct: 120 RISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAY 153

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

 Score =  195 bits (498), Expect = 3e-64
 Identities = 41/157 (26%), Positives = 78/157 (49%), Gaps = 3/157 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT + +    GVV+  + R++ G ++A++ A K+ ++ D +    +GS  D Q ++  + 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCI-PLGG 146
              +L  +    +P V + A L   L+ SYR       ++  G D  +G  +Y I P+GG
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGID-SEGKSIYSIDPIGG 119

Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
            +  + +   GSGS   YG ++++F   +   EA+  
Sbjct: 120 AIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL 156

>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 =  193 bits (494), Expect = 1e-63
 Identities = 33/163 (20%), Positives = 67/163 (41%), Gaps = 3/163 (1%)

Query: 24  KHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI 83
               G  ++A++    V I AD R    A +      K+  + D +Y   +G A D Q +
Sbjct: 4   MSYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTV 63

Query: 84  SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQ-VYC 141
           +  + + L+L  ++ G +   Y+   +   L+Y  R        + AG D K     +  
Sbjct: 64  AQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICS 123

Query: 142 I-PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
           +  +G  ++     + G+ +  +YG  ++ ++ NM       T
Sbjct: 124 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFET 166

>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 =  192 bits (491), Expect = 5e-63
 Identities = 38/166 (22%), Positives = 63/166 (37%), Gaps = 10/166 (6%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G TI+A+  +   ++ +D+R S G  +  R + K  ++TD      SG   D   ++  +
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGG 146
              L + +    +     + A +   ++YS R        I  G D +  G VY     G
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVG 128

Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQF---------KENMTKKEAMST 183
              R     GGS S  L   +DNQ             ++   AM  
Sbjct: 129 SYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRL 174

>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 =  189 bits (483), Expect = 5e-62
 Identities = 28/156 (17%), Positives = 66/156 (42%), Gaps = 3/156 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
             +I ++    V++ +D  +++         DK+ ++++ I     G A DT   ++++ 
Sbjct: 2   EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQ 61

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVY---SYRDSLTAGIICAGWDRKKGGQVYCIPLG 145
            N+ L +M  G E    + A   +  +      R      ++ AG+D  +G  +Y +   
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYL 121

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             L +   A  G G+      +D  +   ++++ A+
Sbjct: 122 AALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAV 157

>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 =  189 bits (482), Expect = 7e-62
 Identities = 27/157 (17%), Positives = 64/157 (40%), Gaps = 4/157 (2%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
             I+ +     V++ +    + G  V     DK  +++ +     +G A DT   ++++ 
Sbjct: 2   DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQ 61

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVY---SYRDSLTAGIICAGWDRKKGG-QVYCIPL 144
            N+ L  +    E    + +   ++ +      R      ++  G+D+KK   ++Y I  
Sbjct: 62  ANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDY 121

Query: 145 GGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            G  +       G    Y +  +D+ ++ +MT +E +
Sbjct: 122 LGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGL 158

>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 =  184 bits (468), Expect = 2e-59
 Identities = 39/175 (22%), Positives = 70/175 (40%), Gaps = 19/175 (10%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G TI+ +  +   V+  D+R+ T   + +R   K+    DNI    +G AAD  A+    
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 88  SYNLDLQRMELGEEPL-VYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLG 145
             ++     +  ++ L + S A+  Q L+Y  R        I AG D    G VY     
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPV 128

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFK-----------------ENMTKKEAMST 183
           G   R++   GG+ ++ +   +DNQ                   + ++ +E +  
Sbjct: 129 GSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKL 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 =  181 bits (462), Expect = 2e-58
 Identities = 32/160 (20%), Positives = 64/160 (40%), Gaps = 7/160 (4%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GT+++ V+F+GGVVI AD   S G+    R   ++ RV ++     SG  AD Q +   +
Sbjct: 8   GTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL 67

Query: 88  SYNLDLQRM-ELGEEPLVYSGAKLFQELVYSYR---DSLTAGIICAGWDRKKGGQVYCIP 143
              +  + +   G      +        +YS R   + L   ++  G+       +  + 
Sbjct: 68  GQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYA-DGESFLGYVD 126

Query: 144 LGGMLMRQKMAMGGSGSTYLYGHMDNQFKE--NMTKKEAM 181
           + G+         G G+      +    ++   +++ EA 
Sbjct: 127 MLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEAR 166

>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 =  179 bits (457), Expect = 1e-57
 Identities = 35/167 (20%), Positives = 59/167 (35%), Gaps = 13/167 (7%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GT++I++++D GV+I AD+  S G+ +     ++L  V DN     SG  +D Q I   +
Sbjct: 8   GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67

Query: 88  S-----YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS---LTAGIICAGWDRKKGGQV 139
                    D    +  E        +    ++Y  R     L   II AG        +
Sbjct: 68  KDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFL 127

Query: 140 YCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKE-----NMTKKEAM 181
             + L G+         G G+      +             T + A 
Sbjct: 128 RYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAE 174

>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 =  178 bits (453), Expect = 2e-57
 Identities = 27/159 (16%), Positives = 65/159 (40%), Gaps = 4/159 (2%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G  ++A+     V I  D R  + +   +   +K+     +++   +G A D   +++  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMF 66

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAGWDRKKG-GQVYCI-PL 144
            Y  +L +++        +  +L    +Y  R      G + AG + K G   +     +
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLI 126

Query: 145 GGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
           G +   +   + G+ S  L+G  ++ ++ N+  ++   T
Sbjct: 127 GCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFET 165

>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 =  171 bits (434), Expect = 3e-54
 Identities = 29/164 (17%), Positives = 61/164 (37%), Gaps = 11/164 (6%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+A+ + GGV++  D R++ G  +A+R  +K+    +      +G+A     +    +
Sbjct: 1   TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFA 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS---------LTAGIICAGWDRKKGGQV 139
             L+      G        A     +V     +         L  G      D  + G++
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRI 120

Query: 140 YCIPLGGMLMRQK--MAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
               + G    ++      GSGS +    +   +  +  ++ A+
Sbjct: 121 VSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETAL 164

>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 =  171 bits (434), Expect = 9e-54
 Identities = 38/189 (20%), Positives = 63/189 (33%), Gaps = 13/189 (6%)

Query: 6   YNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRV 65
           YN    + G             GT++I++++D GV+I AD+  S G+ +     ++L  V
Sbjct: 19  YNTQIANAGASPMVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPV 78

Query: 66  TDNIYCCRSGSAADTQAISDFVS-----YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD 120
            DN     SG  +D Q I   +         D    +  E        +    ++Y  R 
Sbjct: 79  GDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRS 138

Query: 121 S---LTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK----- 172
               L   II AG        +  + L G+         G G+      +          
Sbjct: 139 KMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDI 198

Query: 173 ENMTKKEAM 181
              T + A 
Sbjct: 199 PKTTVQVAE 207

>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 =  170 bits (431), Expect = 5e-53
 Identities = 37/183 (20%), Positives = 64/183 (34%), Gaps = 11/183 (6%)

Query: 10  AYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNI 69
           A   G        A+   GTTI+A+++ GGVV+  D RS+ G  ++ R   K+    D  
Sbjct: 39  ASISGGAPLAGGDAQLPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYT 98

Query: 70  YCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYS----YRDSLTAG 125
               +G+AA     +   +  L+      G              +V          L A 
Sbjct: 99  ATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLAL 158

Query: 126 IICAGWDR-----KKGGQVYCIPLGG--MLMRQKMAMGGSGSTYLYGHMDNQFKENMTKK 178
            + AG+D      +  G++      G   +  +     GSGS +    M   + +     
Sbjct: 159 PLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGD 218

Query: 179 EAM 181
             +
Sbjct: 219 SGL 221

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

 Score =  169 bits (430), Expect = 5e-53
 Identities = 33/192 (17%), Positives = 68/192 (35%), Gaps = 15/192 (7%)

Query: 1   MWNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVAD 60
                 +      G+E+ D   A H  GTTI+A+ + GGV++  D R++ G  +A+R  +
Sbjct: 42  RIGHRSHSTRGGDGMESGD--LAPH--GTTIVALTYKGGVLLAGDRRATQGNLIASRDVE 97

Query: 61  KLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRD 120
            +    +      +G+A     +    +  L+      G        A     +V     
Sbjct: 98  AVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLG 157

Query: 121 SLT---------AGIICAGWDRKKGGQVYCIPLGGMLMRQK--MAMGGSGSTYLYGHMDN 169
           +            G      D  + G++    + G    ++      GSGS +    +  
Sbjct: 158 AAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKK 217

Query: 170 QFKENMTKKEAM 181
            +  +  ++ A+
Sbjct: 218 IYSPDSDEETAL 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 = 92.4 bits (229), Expect = 2e-23
 Identities = 22/165 (13%), Positives = 57/165 (34%), Gaps = 17/165 (10%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G +++ + F  GV+  A++ S+           K++ + D +     G   + + +    
Sbjct: 27  GRSVVVLTFRDGVLFVAENPSTAL--------HKVSELYDRLGFAAVGKYNEFENLRRAG 78

Query: 88  SYNLDLQRMELGEEP-----LVYSGAKLFQELVYSYRDSLTAGIICA---GWDRKKGGQV 139
             + D++             L  + A+    +           I  A        K  Q+
Sbjct: 79  IVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQL 138

Query: 140 YCIPLGGMLMRQKMAM-GGSGSTYLYGHMDNQFKENMTKKEAMST 183
           Y I   G ++ ++  +  G  +  +   M   ++ ++  + A+  
Sbjct: 139 YRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGI 183

>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 = 77.7 bits (191), Expect = 1e-18
 Identities = 33/154 (21%), Positives = 61/154 (39%), Gaps = 11/154 (7%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDN-IYCCRSGSAADTQAISDFV 87
           TTI++V  +G VV+G D + S G  V    A K+ R+ +  +    +G  AD   + +  
Sbjct: 1   TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELF 60

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGM 147
              L++ +  L +  +    AK ++         L A +I A        +   I   G 
Sbjct: 61  ERKLEMHQGHLLKSAVEL--AKDWRT--DRALRKLEAMLIVADEK-----ESLIITGIGD 111

Query: 148 LMRQKM-AMGGSGSTYLYGHMDNQFKENMTKKEA 180
           +++ +   +   GS   Y     +     T+  A
Sbjct: 112 VVQPEEDQILAIGSGGNYALSAARALVENTELSA 145

>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 = 75.0 bits (184), Expect = 5e-17
 Identities = 21/163 (12%), Positives = 52/163 (31%), Gaps = 17/163 (10%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
             +++A+ + GGV+  A++ S +          K++ + D +    +G   +   +    
Sbjct: 27  AKSVVALAYAGGVLFVAENPSRSL--------QKISELYDRVGFAAAGKFNEFDNLRRGG 78

Query: 88  SYNLDLQRMELGEEP-----LVYSGAKLFQELVYSYRDSLTAGIICAGWDR---KKGGQV 139
               D +             L    A+    +           +  A        K  ++
Sbjct: 79  IQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRPEL 138

Query: 140 YCI-PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           Y I   G +       + G  +  +   +   + EN +  +A+
Sbjct: 139 YRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDAL 181

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

 Score = 58.1 bits (140), Expect = 3e-11
 Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDN-IYCCRSGSAADTQAISDFV 87
          TTI+ V  +G  V+G D + + G+ V    A K+ ++ +  +    +GS AD   + D  
Sbjct: 1  TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF 60

Query: 88 SYNLDLQRMELG 99
             L      L 
Sbjct: 61 EAKLREWGGNLT 72

>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 = 56.5 bits (136), Expect = 1e-10
 Identities = 29/155 (18%), Positives = 47/155 (30%), Gaps = 9/155 (5%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANR-VADKLTRVTDN-IYCCRSGSAADTQAISD 85
            TTI AV+  G   +  D + + G  V  +  A K+ ++ +  +    +GS AD   + +
Sbjct: 5   ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

Query: 86  FVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLG 145
                L+     L         AK  +         L A +I    D             
Sbjct: 65  KFEAKLEEYNGNLKRA--AVELAK--EWRSDKVLRKLEAMLIVMNQDTLLLVSGTG---E 117

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            +     +   GSG  Y         K       A
Sbjct: 118 VIEPDDGILAIGSGGNYALAAGRALKKHAGESMSA 152

>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 = 51.5 bits (124), Expect = 1e-08
 Identities = 31/166 (18%), Positives = 65/166 (39%), Gaps = 19/166 (11%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
             T I +    G+V+ A+ + ++     +   +KL ++ D I    +G  AD + + +  
Sbjct: 31  AGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTA 90

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                +Y          E+     LV   + + Q        R       I AG+D + G
Sbjct: 91  RIHAQNY-----LKTYNEDIPVEILVRRLSDIKQGYTQHGGLR-PFGVSFIYAGYDDRYG 144

Query: 137 GQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            Q+Y     G     K +++ G+ ++     +   +K++M   +A+
Sbjct: 145 YQLYTSNPSGNYTGWKAISV-GANTSAAQTLLQMDYKDDMKVDDAI 189

>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 = 50.0 bits (120), Expect = 6e-08
 Identities = 27/160 (16%), Positives = 50/160 (31%), Gaps = 8/160 (5%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
            +T I +    GVV G +    +  Y       +L  V  ++    +G  AD ++++D  
Sbjct: 33  SSTAIGIRCKDGVVFGVEKLVLSKLYEEGSN-KRLFNVDRHVGMAVAGLLADARSLADIA 91

Query: 88  SYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKGGQVYC 141
                  R   G       L    A       L  + R       +   +    G Q+Y 
Sbjct: 92  REEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVR-PFGCSFMLGSYSVNDGAQLYM 150

Query: 142 IPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           I   G+         G         ++    + MT ++ +
Sbjct: 151 IDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIV 190

>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 = 49.2 bits (118), Expect = 1e-07
 Identities = 39/167 (23%), Positives = 70/167 (41%), Gaps = 21/167 (12%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G T + ++   GVVI  + +SS+   ++  +  K++ +T +I    SG   D + + D  
Sbjct: 31  GVTSLGIKATNGVVIATEKKSSSPLAMSETL-SKVSLLTPDIGAVYSGMGPDYRVLVDKS 89

Query: 87  -----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKK 135
                 SY     +   GE P    LV   AK+ QE       R      ++ AG D   
Sbjct: 90  RKVAHTSY-----KRIYGEYPPTKLLVSEVAKIMQEATQSGGVR-PFGVSLLIAGHDEFN 143

Query: 136 GGQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           G  +Y +   G     K  A+ G GS      ++ ++ + +  ++A+
Sbjct: 144 GFSLYQVDPSGSYFPWKATAI-GKGSVAAKTFLEKRWNDELELEDAI 189

>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 = 48.1 bits (115), Expect = 3e-07
 Identities = 30/169 (17%), Positives = 63/169 (37%), Gaps = 24/169 (14%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
             T + +  + GV++ A+ R+          ++K+ ++ +++ C  +G  +D   +++  
Sbjct: 31  AGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNEL 90

Query: 87  ----VSYNLDLQRMELGE----EPLVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                 Y      ++  E    E LV +   + Q        R      ++  GWD+  G
Sbjct: 91  RLIAQRY-----LLQYQEPIPCEQLVTALCDIKQAYTQFGGKR-PFGVSLLYIGWDKHYG 144

Query: 137 GQVYCIPLGGMLMRQK-MAMGG---SGSTYLYGHMDNQFKENMTKKEAM 181
            Q+Y     G     K   +G    +  + L        +  MT K A+
Sbjct: 145 FQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYK---EGEMTLKSAL 190

>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 = 46.9 bits (112), Expect = 6e-07
 Identities = 37/171 (21%), Positives = 69/171 (40%), Gaps = 24/171 (14%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G+T I +    GVV+G + R+++    ++ + +K+  +  +I C  SG  AD +++ +  
Sbjct: 26  GSTAIGIATKEGVVLGVEKRATSPLLESDSI-EKIVEIDRHIGCAMSGLTADARSMIEHA 84

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQELVYSYRDSLTAG-------IICAGW 131
               V++      +   E+     L  S   L                      ++ AG 
Sbjct: 85  RTAAVTH-----NLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGH 139

Query: 132 DRKKGGQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           D   G Q++     G   R    A+ GSGS      + N++  ++T KEA 
Sbjct: 140 DADDGYQLFHAEPSGTFYRYNAKAI-GSGSEGAQAELLNEWHSSLTLKEAE 189

>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 = 46.4 bits (111), Expect = 9e-07
 Identities = 29/166 (17%), Positives = 58/166 (34%), Gaps = 21/166 (12%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G   + ++   GVV+  + +  +  Y    V  K+  +T +I    SG   D + +    
Sbjct: 31  GAPSVGIKAANGVVLATEKKQKSILYDERSV-HKVEPITKHIGLVYSGMGPDYRVLVHRA 89

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                 Y      +   E      LV   A + QE       R      ++  GW+ +  
Sbjct: 90  RKLAQQY-----YLVYQEPIPTAQLVQRVASVMQEYTQSGGVR-PFGVSLLICGWN-EGR 142

Query: 137 GQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             ++     G     K  AM G         ++ ++ E++  ++A+
Sbjct: 143 PYLFQSDPSGAYFAWKATAM-GKNYVNGKTFLEKRYNEDLELEDAI 187

>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 = 46.5 bits (111), Expect = 1e-06
 Identities = 35/165 (21%), Positives = 57/165 (34%), Gaps = 16/165 (9%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT I ++ + GVV   +   ++   V  +   K+  V  +I C  SG   D + + +  
Sbjct: 30  GTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCVYSGLIPDGRHLVNRG 88

Query: 88  SYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKGGQVYC 141
                  +                 +  Q   L  S R       I  G D K G  +Y 
Sbjct: 89  REEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVR-PFGVSTIFGGVD-KNGAHLYM 146

Query: 142 IPLGGMLMRQK-MAMGGSGS----TYLYGHMDNQFKENMTKKEAM 181
           +   G     K  A  G G       L   +D+   E ++ +EA+
Sbjct: 147 LEPSGSYWGYKGAAT-GKGRQSAKAELEKLVDH-HPEGLSAREAV 189

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

 Score = 46.5 bits (111), Expect = 1e-06
 Identities = 29/160 (18%), Positives = 64/160 (40%), Gaps = 10/160 (6%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G T I ++   GV++ AD R  +     + + +K+ ++ ++I    SG  AD + + D  
Sbjct: 34  GATAIGIKCKEGVILIADKRVGSKLLEKDTI-EKIYKIDEHICAATSGLVADARVLIDRA 92

Query: 88  SYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKGGQVYC 141
                + R+          L        Q+       R      ++ AG +  +  ++Y 
Sbjct: 93  RIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVR-PFGVSLLIAGVN--EVPKLYE 149

Query: 142 IPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
               G L+  K    G G   +    + +++++++  +AM
Sbjct: 150 TDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAM 189

>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 = 45.4 bits (108), Expect = 2e-06
 Identities = 31/171 (18%), Positives = 62/171 (36%), Gaps = 25/171 (14%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           GT  + V+    VV+G + RS+           K++++  ++    SG  AD++ + +  
Sbjct: 28  GTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEKA 87

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                S+     R+ L +      L    A + Q        R       + AG+D +  
Sbjct: 88  RVEAQSH-----RLTLEDPVTVEYLTRYVAGVQQRYTQSGGVR-PFGVSTLIAGFDPRDD 141

Query: 137 G-QVYCIPLGGMLMRQK-MAMGGSGS----TYLYGHMDNQFKENMTKKEAM 181
             ++Y     G+        + G  S     +L  + D +     T +E +
Sbjct: 142 EPKLYQTEPSGIYSSWSAQTI-GRNSKTVREFLEKNYDRKEPP-ATVEECV 190

>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 = 44.9 bits (107), Expect = 3e-06
 Identities = 24/173 (13%), Positives = 46/173 (26%), Gaps = 27/173 (15%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
               +AV      V+ +  +          V   +  ++  I    +G   D +  +   
Sbjct: 30  NINSLAVRGKDCTVVISQKKVPDKLLDPTTV-SYIFCISRTIGMVVNGPIPDARNAALRA 88

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                 +     R + G +     L    A L Q        R  L   +     D + G
Sbjct: 89  KAEAAEF-----RYKYGYDMPCDVLAKRMANLSQIYTQRAYMR-PLGVILTFVSVDEELG 142

Query: 137 GQVYCIPLGGMLMRQK-MAMGGSGS----TYL---YGHMDNQFKENMTKKEAM 181
             +Y     G  +  K  A  G       T L   +           + ++ +
Sbjct: 143 PSIYKTDPAGYYVGYKATAT-GPKQQEITTNLENHFKKSKIDHINEESWEKVV 194

>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 = 44.5 bits (106), Expect = 4e-06
 Identities = 31/170 (18%), Positives = 70/170 (41%), Gaps = 24/170 (14%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G+T I ++   GV +  + R ++     + + +K+  +  +I C  SG  AD + + D  
Sbjct: 34  GSTAIGIQTSEGVCLAVEKRITSPLMEPSSI-EKIVEIDAHIGCAMSGLIADAKTLIDKA 92

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLT----AGIICAGWD 132
                ++          E      +  + + L  +     +   +++      ++  G D
Sbjct: 93  RVETQNH-----WFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVD 147

Query: 133 RKKGGQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +KG Q++ +   G  ++    A+ GS S      +   + ++MT KEA+
Sbjct: 148 -EKGPQLFHMDPSGTFVQCDARAI-GSASEGAQSSLQELYHKSMTLKEAI 195

>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 = 43.9 bits (104), Expect = 7e-06
 Identities = 35/164 (21%), Positives = 57/164 (34%), Gaps = 14/164 (8%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT I ++ + GVV   +   ++   V  +   K+  V  +I C  SG   D + + +  
Sbjct: 34  GTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCVYSGLIPDGRHLVNRG 92

Query: 88  SYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKGGQVYC 141
                  +                 +  Q   L  S R       I  G D K G  +Y 
Sbjct: 93  REEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVR-PFGVSTIFGGVD-KNGAHLYM 150

Query: 142 IPLGGMLMRQKMAMGGSGS----TYLYGHMDNQFKENMTKKEAM 181
           +   G     K A  G G       L   +D+   E ++ +EA+
Sbjct: 151 LEPSGSYWGYKGAATGKGRQSAKAELEKLVDH-HPEGLSAREAV 193

>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 = 43.8 bits (104), Expect = 7e-06
 Identities = 38/166 (22%), Positives = 72/166 (43%), Gaps = 21/166 (12%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G+T + ++F  GV++ +D +  +     N + +K+  + D +    SG  AD + + DF 
Sbjct: 34  GSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAVTSGLVADARVLVDFA 92

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                       ++  G       LV   A   Q+       R      +I AG D + G
Sbjct: 93  RISAQQE-----KVTYGSLVNIENLVKRVADQMQQYTQYGGVR-PYGVSLIFAGID-QIG 145

Query: 137 GQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +++     G +   K  A+ GSG   +   ++ ++KEN+ +KEA+
Sbjct: 146 PRLFDCDPAGTINEYKATAI-GSGKDAVVSFLEREYKENLPEKEAV 190

>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 = 43.8 bits (104), Expect = 9e-06
 Identities = 28/166 (16%), Positives = 59/166 (35%), Gaps = 20/166 (12%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G+T + V     VV+G + +S         V  K+  + DN+    +G  AD + + +  
Sbjct: 29  GSTAVGVRGRDIVVLGVEKKSVAKLQDERTV-RKICALDDNVCMAFAGLTADARIVINRA 87

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                S+     R+ + +      +    A L Q        R       +  G+D    
Sbjct: 88  RVECQSH-----RLTVEDPVTVEYITRYIASLKQRYTQSNGRR-PFGISALIVGFDFDGT 141

Query: 137 GQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            ++Y     G     K  A+ G G+  +   ++  + +   + + +
Sbjct: 142 PRLYQTDPSGTYHAWKANAI-GRGAKSVREFLEKNYTDEAIETDDL 186

>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 = 43.3 bits (103), Expect = 1e-05
 Identities = 36/170 (21%), Positives = 62/170 (36%), Gaps = 26/170 (15%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G T +AV      VI    +       ++ V   L ++T+NI C  +G  AD+++     
Sbjct: 36  GLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV-THLFKITENIGCVMTGMTADSRSQVQRA 94

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                ++     + + G E     L    A + Q        R  L   +I  G D ++G
Sbjct: 95  RYEAANW-----KYKYGYEIPVDMLCKRIADISQVYTQNAEMR-PLGCCMILIGIDEEQG 148

Query: 137 GQVYCIPLGGMLMRQK-MAMGGSGS----TYLYGHMDNQFKENMTKKEAM 181
            QVY     G     K  A  G       ++L   +    K + T ++ +
Sbjct: 149 PQVYKCDPAGYYCGFKATAA-GVKQTESTSFLEKKVKK--KFDWTFEQTV 195

>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 = 43.0 bits (102), Expect = 1e-05
 Identities = 27/170 (15%), Positives = 59/170 (34%), Gaps = 27/170 (15%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G+  + +  +   V+ A  R++       +   K+ +  +++    +G A D + +S++ 
Sbjct: 31  GSVTVGLRSNTHAVLVALKRNADELSSYQK---KIIKCDEHMGLSLAGLAPDARVLSNYL 87

Query: 87  ----VSYNLDLQRMELGEEP----LVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
                        +    +       +      Q+    Y  R     G++  G+D K G
Sbjct: 88  RQQCNYS-----SLVFNRKLAVERAGHLLCDKAQKNTQSYGGR-PYGVGLLIIGYD-KSG 140

Query: 137 GQVYCIPLGGMLMRQK-MAMGGSGS----TYLYGHMDNQFKENMTKKEAM 181
             +      G +      A+ G+ S    TYL   +D   K +    E +
Sbjct: 141 AHLLEFQPSGNVTELYGTAI-GARSQGAKTYLERTLDTFIKIDGNPDELI 189

>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 = 40.0 bits (94), Expect = 2e-04
 Identities = 28/167 (16%), Positives = 56/167 (33%), Gaps = 25/167 (14%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF- 86
           G+  + ++     V+ A  R+ +      +   K+  V ++I    +G  AD + + +F 
Sbjct: 32  GSATVGLKSKTHAVLVALKRAQSELAAHQK---KILHVDNHIGISIAGLTADARLLCNFM 88

Query: 87  ----VSYNLDLQRMELGE----EPLVYSGAKLFQE--LVYSYRDSLTAGIICAGWDRKKG 136
               +       R           LV       Q     Y  R     G++ AG+D   G
Sbjct: 89  RQECLDS-----RFVFDRPLPVSRLVSLIGSKTQIPTQRYGRR-PYGVGLLIAGYD-DMG 141

Query: 137 GQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENM--TKKEA 180
             ++           + M++ G+ S     +++    E M     E 
Sbjct: 142 PHIFQTCPSANYFDCRAMSI-GARSQSARTYLERHMSEFMECNLNEL 187

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	184
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	100.0
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	100.0
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	100.0

>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=2.8e-51  Score=324.04  Aligned_cols=176  Identities=20%  Similarity=0.336  Sum_probs=168.6

Q ss_pred             ccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHH
Q psy2074           6 YNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISD   85 (184)
Q Consensus         6 ~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~   85 (184)
                      .++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.+++ ++.+++.+||++|++|+++++||..+|++.+.+
T Consensus        12 ~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~   90 (233)
T 1yar_A           12 ITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSR-LIEQNSIEKIQLIDDYVAAVTSGLVADARVLVD   90 (233)
T ss_dssp             -CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCT-TBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHH
T ss_pred             CceECcCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEeccCCcc-cccccccCeEEEecCCEEEEEeeCHHHHHHHHH
Confidence            3589999999999999999999999999999999999999999996 667889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCH
Q psy2074          86 FVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGS  160 (184)
Q Consensus        86 ~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~  160 (184)
                      +++.+++.|+++++++++++.+++.+++++|.++     +|+++++||||||+ ++|+||.+||+|++.++++.|+|+|+
T Consensus        91 ~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~-~gp~Ly~id~~G~~~~~~~~aiG~gs  169 (233)
T 1yar_A           91 FARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQ-IGPRLFDCDPAGTINEYKATAIGSGK  169 (233)
T ss_dssp             HHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECS-SCEEEEEECTTCCEEEBSEEEESTTH
T ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeC-CCCEEEEECCCCCEEeeeEEEEcCCc
Confidence            9999999999999999999999999999998765     49999999999998 79999999999999999999999999


Q ss_pred             HhHHHHHhccCCCCCCHHHHhhc
Q psy2074         161 TYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       161 ~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++++++||+.|+++||+|||+++
T Consensus       170 ~~a~~~Le~~~~~~~s~eea~~l  192 (233)
T 1yar_A          170 DAVVSFLEREYKENLPEKEAVTL  192 (233)
T ss_dssp             HHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCHHHHHHH
Confidence            99999999999999999999986

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

Probab=100.00  E-value=1.6e-51  Score=327.32  Aligned_cols=180  Identities=13%  Similarity=0.144  Sum_probs=170.9

Q ss_pred             cccccccccCCCCCCCccccccccC-CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSC-GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQ   81 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~-g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~   81 (184)
                      ..+.++++|+|||+|||||.+|+++ |+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|++|++||+.+|++
T Consensus         4 d~~~t~fsp~Grl~QvEYA~~av~~~Gtt~vgi~~~dgVvlaad~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~   82 (243)
T 1ryp_A            4 DRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVP-DKLLDPTTVSYIFCISRTIGMVVNGPIPDAR   82 (243)
T ss_dssp             GGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCC-CTTBCGGGCCSEEECSSSCEEEEESCHHHHH
T ss_pred             CCCCceECCCCeeHHHHHHHHHHhcCCCcEEEEEeCCEEEEEEEecCC-ccccCCCcCCceEEECCCEEEEEEecHHHHH
Confidence            3466789999999999999999999 9999999999999999999999 6777888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHH--HhcC---CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEE
Q psy2074          82 AISDFVSYNLDLQRMELGEEPLVYSGAKLFQELV--YSYR---DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMG  156 (184)
Q Consensus        82 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l--~~~r---~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~  156 (184)
                      .+++.++.+++.|++.++++|+++.+++++++++  |..+   +||++++||||||++++|+||.+||+|++.++++.|+
T Consensus        83 ~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~~~~~~~a~  162 (243)
T 1ryp_A           83 NAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATAT  162 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcCCCCEEEEEEEEE
Confidence            9999999999999999999999999999999999  4433   5999999999999768999999999999999999999


Q ss_pred             ecCHHhHHHHHhccCCC-------CCCHHHHhhc
Q psy2074         157 GSGSTYLYGHMDNQFKE-------NMTKKEAMST  183 (184)
Q Consensus       157 G~g~~~~~~~Le~~~~~-------~~s~eea~~l  183 (184)
                      |++++.++++||+.|++       +||+|||+++
T Consensus       163 G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l  196 (243)
T 1ryp_A          163 GPKQQEITTNLENHFKKSKIDHINEESWEKVVEF  196 (243)
T ss_dssp             STTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHH
T ss_pred             CCCcHHHHHHHHHHhhhcccccccCCCHHHHHHH
Confidence            99999999999999998       9999999986

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

Probab=100.00  E-value=2.7e-51  Score=325.83  Aligned_cols=178  Identities=20%  Similarity=0.277  Sum_probs=170.7

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.++|.++ +++.+||++|++|++|++||+.+|++.++
T Consensus         3 ~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~   81 (242)
T 1ryp_E            3 GVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE-SDSIEKIVEIDRHIGCAMSGLTADARSMI   81 (242)
T ss_dssp             CTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBC-GGGCCCEEEEETTEEEEEEESGGGHHHHH
T ss_pred             CCceECCCCcChHHHhHHHHHHcCCCEEEEEECCEEEEEEeecCCCcCcc-CccCCceEEEcCCEEEEEeecHHHHHHHH
Confidence            56889999999999999999999999999999999999999999998776 88899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----------CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCe
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----------RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKM  153 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----------r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~  153 (184)
                      ++++.+++.|++.++++++++.+++.+++++|.+           .+||++++||||||++++|+||.+||+|++.++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~  161 (242)
T 1ryp_E           82 EHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNA  161 (242)
T ss_dssp             HHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEeccCE
Confidence            9999999999999999999999999999998874           55999999999999658999999999999999999


Q ss_pred             EEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         154 AMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       154 ~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      .|+|+|+++++++||+.|+++||+|||+++
T Consensus       162 ~aiGsgs~~a~~~Le~~~~~~ms~eea~~l  191 (242)
T 1ryp_E          162 KAIGSGSEGAQAELLNEWHSSLTLKEAELL  191 (242)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             EEECCCCHHHHHHHHHhhccCCCHHHHHHH
Confidence            999999999999999999999999999886

>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=8.8e-51  Score=323.22  Aligned_cols=181  Identities=17%  Similarity=0.233  Sum_probs=171.9

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||+.+|++.
T Consensus         6 d~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   85 (244)
T 1ryp_C            6 DSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEI   85 (244)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHH
T ss_pred             CCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHHHHH
Confidence            35668899999999999999999999999999999999999999999987765889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      ++++++.+++.|++.++++++++.+++.+++++|.+     .+||++++||||||++++|+||.+||+|++.++++.|+|
T Consensus        86 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  165 (244)
T 1ryp_C           86 LINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVG  165 (244)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCCccEEeeeEEEEC
Confidence            999999999999999999999999999999999764     359999999999995589999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +|+++++++||+.|+++||+|||+++
T Consensus       166 sgs~~a~~~Le~~~~~~ms~eea~~l  191 (244)
T 1ryp_C          166 ANTSAAQTLLQMDYKDDMKVDDAIEL  191 (244)
T ss_dssp             TTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             CCcHHHHHHHHHhhhcCCCHHHHHHH
Confidence            99999999999999999999999986

>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=3.8e-51  Score=324.81  Aligned_cols=177  Identities=19%  Similarity=0.279  Sum_probs=169.2

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +.++++|+|||+|||||.+|+++|+|+|||+++||||||+|+|.++|.++ +++.+||++|++|+++++||..+|++.++
T Consensus        11 ~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~   89 (241)
T 1iru_E           11 GVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME-PSSIEKIVEIDAHIGCAMSGLIADAKTLI   89 (241)
T ss_dssp             CTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBC-TTSCCSEEEEETTEEEEEEECHHHHHHHH
T ss_pred             CCceECCCCccHHHHHHHHHHHcCCcEEEEEcCCEEEEEEecccCCcCcC-ccccceEEEEcCCEEEEEeeChHHHHHHH
Confidence            34589999999999999999999999999999999999999999998776 88999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc----------CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeE
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY----------RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMA  154 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~----------r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~  154 (184)
                      ++++.+++.|+++++++++++.+++.++++++.+          .+||++++||||||+ ++|+||.+||+|++.++++.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~~~~  168 (241)
T 1iru_E           90 DKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDE-KGPQLFHMDPSGTFVQCDAR  168 (241)
T ss_dssp             HHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEET-TEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeC-CCCEEEEECCCCcEEecceE
Confidence            9999999999999999999999999999999665          459999999999995 89999999999999999999


Q ss_pred             EEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         155 MGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       155 a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      |+|+|+++++++||+.|+++||+|||+++
T Consensus       169 aiGsgs~~a~~~Le~~~~~~ms~eea~~l  197 (241)
T 1iru_E          169 AIGSASEGAQSSLQELYHKSMTLKEAIKS  197 (241)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             EECCCcHHHHHHHHHHhccCCCHHHHHHH
Confidence            99999999999999999999999999986

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

Probab=100.00  E-value=7.8e-51  Score=323.01  Aligned_cols=181  Identities=15%  Similarity=0.225  Sum_probs=172.8

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.++++|+|||+|||||.+|+++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|++||+.+|++.
T Consensus         3 d~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   82 (241)
T 1ryp_D            3 DRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRI   82 (241)
T ss_dssp             CCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHH
T ss_pred             CCCceeECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHHHH
Confidence            45678999999999999999999999999999999999999999999988776668999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCC-CCeEEEEEcCCCceeecCeEEE
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRK-KGGQVYCIPLGGMLMRQKMAMG  156 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~-~~~~Ly~idp~G~~~~~~~~a~  156 (184)
                      ++++++.+++.|++.++++|+++.+++++++++|.++     +||++++||||||++ ++|+||.+||+|++.++++.|+
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~ai  162 (241)
T 1ryp_D           83 LIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTI  162 (241)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCCCCEEEeeeEEE
Confidence            9999999999999999999999999999999999863     499999999999986 7899999999999999999999


Q ss_pred             ecCHHhHHHHHhccC---CCCCCHHHHhhc
Q psy2074         157 GSGSTYLYGHMDNQF---KENMTKKEAMST  183 (184)
Q Consensus       157 G~g~~~~~~~Le~~~---~~~~s~eea~~l  183 (184)
                      |+++++++++||+.|   +++||+|||+++
T Consensus       163 G~gs~~a~~~Le~~~~~~~~~ms~eea~~l  192 (241)
T 1ryp_D          163 GRNSKTVREFLEKNYDRKEPPATVEECVKL  192 (241)
T ss_dssp             STTHHHHHHHHHTTCCTTSCCCSHHHHHHH
T ss_pred             CCCcHHHHHHHHHhhhcccCCCCHHHHHHH
Confidence            999999999999999   999999999876

>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=7.1e-51  Score=325.57  Aligned_cols=180  Identities=16%  Similarity=0.183  Sum_probs=171.7

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.+.|.++ .++.+||++|++|++|++||+.+|++.
T Consensus         8 d~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~KI~~i~~~i~~~~aG~~aD~~~   86 (254)
T 1iru_G            8 DLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYE-EGSNKRLFNVDRHVGMAVAGLLADARS   86 (254)
T ss_dssp             TSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBC-TTTTCCEEEEETTEEEEEEECHHHHHH
T ss_pred             CCCCccCCcCCccHHHHhHHHHHhcCCCEEEEEECCEEEEEEecccCCCCcC-cCcCCcEEEECCCEEEEEecChHHHHH
Confidence            3456789999999999999999999999999999999999999999998776 478999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      ++++++.+++.|++.++++|+++.+++.+++++|.++     +||++++||||||++++|+||.+||+|++.++++.|+|
T Consensus        87 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  166 (254)
T 1iru_G           87 LADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIG  166 (254)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCCCEEeeeeEEec
Confidence            9999999999999999999999999999999998875     59999999999995589999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++++++||+.|+++||+|||+++
T Consensus       167 sgs~~a~~~Le~~~~~~ms~eea~~l  192 (254)
T 1iru_G          167 KARQAAKTEIEKLQMKEMTCRDIVKE  192 (254)
T ss_dssp             TTHHHHHHHHTTSCGGGCCHHHHHHH
T ss_pred             CccHHHHHHHHHhccCCCCHHHHHHH
Confidence            99999999999999999999999985

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

Probab=100.00  E-value=1.3e-50  Score=320.17  Aligned_cols=178  Identities=13%  Similarity=0.190  Sum_probs=170.0

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||..+|++.+
T Consensus         7 ~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l   85 (233)
T 1iru_B            7 FSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQK-SILYDERSVHKVEPITKHIGLVYSGMGPDYRVL   85 (233)
T ss_dssp             SBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCC-CSSBCSTTCCSSEESSSSEEEEEEECHHHHHHH
T ss_pred             CCceeECCCCeEehhHhHHHHHHcCCcEEEEEeCCEEEEEEEecCC-ccccccccCCeEEEECCCEEEEEEEccHHHHHH
Confidence            4567899999999999999999999999999999999999999998 477788899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      +++++.+++.|++.++.+++++.++++++++++.++     +||++++||||||+ +||+||.+||+|++.++++.|+|+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~-~gp~Ly~id~~G~~~~~~~~aiG~  164 (233)
T 1iru_B           86 VHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNE-GRPYLFQSDPSGAYFAWKATAMGK  164 (233)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECS-SSEEEEEECTTSCEEEBSEEEEST
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeC-CCCeEEEECCCCCEEEeeEEEECC
Confidence            999999999999999999999999999999997653     49999999999995 789999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++++++++||+.|+++||+|||+++
T Consensus       165 gs~~a~~~Le~~~~~~ms~eea~~l  189 (233)
T 1iru_B          165 NYVNGKTFLEKRYNEDLELEDAIHT  189 (233)
T ss_dssp             THHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             CCHHHHHHHHHHhccCCCHHHHHHH
Confidence            9999999999999999999999986

>1iru_D 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unf_C* 3une_C* 3unh_C 3unb_C*

Probab=100.00  E-value=1.1e-50  Score=323.43  Aligned_cols=181  Identities=15%  Similarity=0.235  Sum_probs=172.4

Q ss_pred             CcccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHH
Q psy2074           2 WNKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQ   81 (184)
Q Consensus         2 ~~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~   81 (184)
                      +..+.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.+.+ ++..++.+||++|++|++|++||+.+|++
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~   81 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAK-LQDERTVRKICALDDNVCMAFAGLTADAR   81 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCS-SSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             ccCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeeccccc-CccCCCCCcEEEEcCCEEEEEeecHHHHH
Confidence            44677899999999999999999999999999999999999999999997 56778899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEE
Q psy2074          82 AISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMG  156 (184)
Q Consensus        82 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~  156 (184)
                      .++++++.+++.|++.++++++++.+++.+++++|.++     +||++++||||||++++|+||.+||+|++.++++.|+
T Consensus        82 ~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~ai  161 (248)
T 1iru_D           82 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI  161 (248)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeEEEE
Confidence            99999999999999999999999999999999998764     4999999999999658999999999999999999999


Q ss_pred             ecCHHhHHHHHhccCCCCC--CHHHHhhc
Q psy2074         157 GSGSTYLYGHMDNQFKENM--TKKEAMST  183 (184)
Q Consensus       157 G~g~~~~~~~Le~~~~~~~--s~eea~~l  183 (184)
                      |+++++++++||+.|+++|  |+|||+++
T Consensus       162 G~gs~~a~~~Le~~~~~~m~~s~eea~~l  190 (248)
T 1iru_D          162 GRGAKSVREFLEKNYTDEAIETDDLTIKL  190 (248)
T ss_dssp             STTHHHHHHHHTTTCCSSTTCSHHHHHHH
T ss_pred             CCCcHHHHHHHHHhhcccccCCHHHHHHH
Confidence            9999999999999999999  99999886

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

Probab=100.00  E-value=1.4e-50  Score=325.03  Aligned_cols=181  Identities=15%  Similarity=0.244  Sum_probs=173.3

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||+.+|++.
T Consensus         6 d~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~   85 (261)
T 1iru_C            6 DSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANV   85 (261)
T ss_dssp             CCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHH
T ss_pred             CCCCccCCCCCeehHHHhHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHHHHHH
Confidence            34567899999999999999999999999999999999999999999998877777999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      ++++++.+++.|++.++++++++.+++.+++++|.++     +||++++||||||++++|+||.+||+|++.++++.|+|
T Consensus        86 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  165 (261)
T 1iru_C           86 LTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIG  165 (261)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSEEEES
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECCCceEEeeeeEEeC
Confidence            9999999999999999999999999999999998875     49999999999997689999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCC-CCCHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQFKE-NMTKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~-~~s~eea~~l  183 (184)
                      +|+++++++||+.|++ +||+|||+++
T Consensus       166 sgs~~a~~~Le~~~~~~~ms~eeA~~l  192 (261)
T 1iru_C          166 NNSAAAVSMLKQDYKEGEMTLKSALAL  192 (261)
T ss_dssp             TTTTHHHHHHHHHCCTTCCCHHHHHHH
T ss_pred             cccHHHHHHHHHhhccCCCCHHHHHHH
Confidence            9999999999999999 9999999986

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

Probab=100.00  E-value=3.8e-51  Score=328.64  Aligned_cols=178  Identities=21%  Similarity=0.357  Sum_probs=169.3

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+.++++|+|||+|||||.+|+++|+|+|||+++||||||+|+|.+++ ++.+++.+||++|++|++|++||+.+|++.+
T Consensus        14 ~~~t~fSp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~-li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l   92 (264)
T 3h4p_A           14 RAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSK-LVKIRSIEKIFQIDDHVAAATSGLVADARVL   92 (264)
T ss_dssp             --CCCCCSSSSCHHHHHHHHHHHHSCCEEEECCSSEEEEEEECCCCST-TBCTTTCCCEEEEETTEEEEEEECSHHHHHH
T ss_pred             CCcceECCCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEecCccCC-ccccCccccEEEecCcEEEEeccchHHHHHH
Confidence            456789999999999999999999999999999999999999999986 6678899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      +++++.+++.|++.++++++++.+++.++++++.++     +||++++||||||+ +||+||.+||+|++.+++++|+|+
T Consensus        93 ~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~-~gp~Ly~iDp~G~~~~~~~~aiGs  171 (264)
T 3h4p_A           93 IDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDK-NEARLFETDPSGALIEYKATAIGS  171 (264)
T ss_dssp             HTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEET-TEEEEEEECTTCCCEEESEEEEST
T ss_pred             HHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeC-CcCEEEEECCCceEEecCeEEECC
Confidence            999999999999999999999999999999998764     49999999999997 799999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++++++++||+.|+++||+|||+++
T Consensus       172 gs~~a~~~Le~~~~~~ms~eea~~l  196 (264)
T 3h4p_A          172 GRPVVMELLEKEYRDDITLDEGLEL  196 (264)
T ss_dssp             THHHHTTTHHHHCCTTCCSHHHHHH
T ss_pred             CHHHHHHHHHHhccCCCCHHHHHHH
Confidence            9999999999999999999999986

>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=9.6e-50  Score=317.65  Aligned_cols=176  Identities=18%  Similarity=0.291  Sum_probs=167.4

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.+.+. +.+++.+||++|++|+++++||..+|++.++
T Consensus        11 ~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l-~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~   89 (246)
T 1j2p_A           11 AITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKL-LEKDTIEKIYKIDEHICAATSGLVADARVLI   89 (246)
T ss_dssp             CTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTT-BCGGGCCSEEECSSSEEEEEEECHHHHHHHH
T ss_pred             CCceECCCCeehHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCccc-cccCccCcEEEECCCEEEEEeEccHHHHHHH
Confidence            346789999999999999999999999999999999999999999864 5578899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecC
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSG  159 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g  159 (184)
                      ++++.+++.|++.++++++++.+++.+++++|.++     +|+++++||||||  ++|+||.+||+|++.+++++|+|+|
T Consensus        90 ~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D--~gp~Ly~idp~G~~~~~~~~aiGsg  167 (246)
T 1j2p_A           90 DRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN--EVPKLYETDPSGALLEYKATAIGMG  167 (246)
T ss_dssp             HHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES--SSEEEEEECTTCCEEEBSEEEESTT
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC--CCCEEEEECCCceEEeeeEEEECCC
Confidence            99999999999999999999999999999997663     3999999999999  7899999999999999999999999


Q ss_pred             HHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         160 STYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       160 ~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++++||+.|+++||+|||+++
T Consensus       168 s~~a~~~Le~~~~~~ms~eea~~l  191 (246)
T 1j2p_A          168 RMAVTEFFEKEYRDDLSFDDAMVL  191 (246)
T ss_dssp             HHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             cHHHHHHHHHHhccCCCHHHHHHH
Confidence            999999999999999999999986

>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-50  Score=325.39  Aligned_cols=179  Identities=18%  Similarity=0.205  Sum_probs=170.2

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.++++|+|||+|||||.+|+++|+|+|||+++||||||+|+|.++|.++. .+.+||++|++||+|++||+.+|++.
T Consensus         9 d~~~t~fSP~Grl~QvEYA~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~-~~~~KI~~I~d~i~~~~aG~~aD~~~   87 (288)
T 3nzj_F            9 DLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVP-QKNVKIQVVDRHIGCVYSGLIPDGRH   87 (288)
T ss_dssp             TSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCT-TCSCCCEEETTTEEEEEEECHHHHHH
T ss_pred             cCCcccCCCCCchHHHHHHHHHHhcCCcEEEEEECCEEEEEEcCCcccCCccc-cccceEEEEcCCEEEEecCcHHHHHH
Confidence            34567899999999999999999999999999999999999999999987754 47899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      |+++++.+++.|++.++++|+++.+|+.+++++|.++     +||++++||||||+ +||+||.+||+|++.+++++|+|
T Consensus        88 l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~-~Gp~Ly~iDp~G~~~~~~~~aiG  166 (288)
T 3nzj_F           88 LVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYMLEPSGSYWGYKGAATG  166 (288)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeC-CCCEEEEECCCCCEEEcCEEEEc
Confidence            9999999999999999999999999999999998763     49999999999998 78999999999999999999999


Q ss_pred             cCHHhHHHHHhcc---CCCCCCHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQ---FKENMTKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~---~~~~~s~eea~~l  183 (184)
                      +++++++++||+.   |+++||+|||+++
T Consensus       167 sgs~~a~~~Lek~~~~~~~~ms~eEAv~l  195 (288)
T 3nzj_F          167 KGRQSAKAELEKLVDHHPEGLSAREAVKQ  195 (288)
T ss_dssp             TTHHHHHHHHHHHHHHCTTCCCHHHHHHH
T ss_pred             CcHHHHHHHHHHhccccCCCCCHHHHHHH
Confidence            9999999999999   9999999999986

>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=7.7e-50  Score=317.88  Aligned_cols=179  Identities=18%  Similarity=0.200  Sum_probs=169.5

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.++|.++.+ +.+||++|++|++|++||+.+|++.
T Consensus         5 d~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~-~~~KI~~i~~~i~~~~aG~~aD~~~   83 (244)
T 1ryp_G            5 DLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQ-KNVKIQVVDRHIGCVYSGLIPDGRH   83 (244)
T ss_dssp             TSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTT-TSCCCEEETTTEEEEEEECHHHHHH
T ss_pred             cCCcccCCcCCchHHHHhHHHHHHCCCCEEEEEECCEEEEEEecccCCCCcccc-ccCceEEecCCEEEEEcccHHHHHH
Confidence            356788999999999999999999999999999999999999999999877654 4599999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      ++++++.+++.|++.++++++++.+++.+++++|.+     .+||++++||||||+ +||+||.+||+|++.++++.|+|
T Consensus        84 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG  162 (244)
T 1ryp_G           84 LVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYMLEPSGSYWGYKGAATG  162 (244)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeC-CcCEEEEECCCCCEEEeeEEEEC
Confidence            999999999999999999999999999999999775     259999999999997 79999999999999999999999


Q ss_pred             cCHHhHHHHHhcc---CCCCCCHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQ---FKENMTKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~---~~~~~s~eea~~l  183 (184)
                      +|+++++++||+.   |+++||+|||+++
T Consensus       163 ~gs~~a~~~Le~~~~~~~~~ms~eea~~l  191 (244)
T 1ryp_G          163 KGRQSAKAELEKLVDHHPEGLSAREAVKQ  191 (244)
T ss_dssp             TTHHHHHHHHHHHHHHCTTCCCHHHHHHH
T ss_pred             CChHHHHHHHHHhHhhcCCCCCHHHHHHH
Confidence            9999999999997   9999999999986

>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=3.7e-50  Score=322.86  Aligned_cols=179  Identities=16%  Similarity=0.197  Sum_probs=167.4

Q ss_pred             CCccccc----ccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCC
Q psy2074           1 MWNKDYN----VNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGS   76 (184)
Q Consensus         1 ~~~~~~~----~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~   76 (184)
                      |||+.|+    +++|+|||+|||||.+++++|+|+|||+++||||||+|+|.+.|..   ++.+||++|++|++|++||+
T Consensus         1 m~~~~yd~~~t~fsP~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl~---~~~~KI~~i~~~i~~~~aG~   77 (263)
T 1iru_F            1 MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA---AHQKKILHVDNHIGISIAGL   77 (263)
T ss_dssp             ---CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEEC
T ss_pred             CCcCCCCCCCccCCCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEecccccccc---cchhcEEEEcCCEEEEEeCC
Confidence            7887775    7899999999999999999999999999999999999999999743   47899999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeec
Q psy2074          77 AADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ  151 (184)
Q Consensus        77 ~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~  151 (184)
                      .+|++.++++++.+++.|++.++++|+++.+++.+++++|.+     .+||++++||||||+ +||+||.+||+|++.++
T Consensus        78 ~aD~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~  156 (263)
T 1iru_F           78 TADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDD-MGPHIFQTCPSANYFDC  156 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECSSSCEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcC-CCCEEEEECCCCCEEEe
Confidence            999999999999999999999999999999999999999854     359999999999998 78999999999999999


Q ss_pred             CeEEEecCHHhHHHHHhccCCC--CCCHHHHhhc
Q psy2074         152 KMAMGGSGSTYLYGHMDNQFKE--NMTKKEAMST  183 (184)
Q Consensus       152 ~~~a~G~g~~~~~~~Le~~~~~--~~s~eea~~l  183 (184)
                      ++.|+|+++++++++||+.|++  +||+|||+++
T Consensus       157 ~~~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~l  190 (263)
T 1iru_F          157 RAMSIGARSQSARTYLERHMSEFMECNLNELVKH  190 (263)
T ss_dssp             SEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             eEEEcCcccHHHHHHHHHHhcccCCCCHHHHHHH
Confidence            9999999999999999999998  9999999986

>1iru_A 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_G* 3une_G 3unf_G* 3unh_G

Probab=100.00  E-value=8.4e-50  Score=317.97  Aligned_cols=179  Identities=20%  Similarity=0.246  Sum_probs=169.3

Q ss_pred             ccccccccCCCCCCCccccccccC-CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSC-GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~-g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      .+.++++|+|||+|||||.+++++ |+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||+.+|++.
T Consensus        11 ~~~t~fsp~Grl~QvEya~~av~~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   89 (246)
T 1iru_A           11 RHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCVMTGMTADSRS   89 (246)
T ss_dssp             TTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEEEEECHHHHHH
T ss_pred             CCCccCCCCCeehHHHHHHHHHhcCCCCEEEEEeCCEEEEEEeecCC-CcccCCCccCceEEECCCEEEEEeccHHHHHH
Confidence            445789999999999999999999 9999999999999999999999 57888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      +.++++.+++.|++.++++++++.+++.++++++.+     .+||++++||||||++++|+||.+||+|++.+++++|+|
T Consensus        90 l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  169 (246)
T 1iru_A           90 QVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAG  169 (246)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEEE
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCeeEEEeeEEEEC
Confidence            999999999999999999999999999999986443     359999999999998689999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCC--CCCHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQFKE--NMTKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~--~~s~eea~~l  183 (184)
                      +|+++++++||+.|++  +||+|||+++
T Consensus       170 ~gs~~a~~~Le~~~~~~~~ms~eea~~l  197 (246)
T 1iru_A          170 VKQTESTSFLEKKVKKKFDWTFEQTVET  197 (246)
T ss_dssp             TTHHHHHHHHHHHTTSCCCCCHHHHHHH
T ss_pred             CCcHHHHHHHHHhhcccCCCCHHHHHHH
Confidence            9999999999999999  9999999876

>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B 1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A* 2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A* 3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ...

Probab=100.00  E-value=1.8e-49  Score=316.70  Aligned_cols=180  Identities=17%  Similarity=0.221  Sum_probs=169.7

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|++|++||..+|++.
T Consensus         6 d~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   84 (250)
T 1ryp_B            6 SFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSS-SPLAMSETLSKVSLLTPDIGAVYSGMGPDYRV   84 (250)
T ss_dssp             CSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCS-CSSBCGGGCCSSEEEETTEEEEEEECHHHHHH
T ss_pred             cCCceeECCCCccHHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCC-CccccCcccCceEEECCCEEEEeeeCHHHHHH
Confidence            35668899999999999999999999999999999999999999998 57888899999999999999999999999999


Q ss_pred             HHHHHHHHHHH-HHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEE
Q psy2074          83 ISDFVSYNLDL-QRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMG  156 (184)
Q Consensus        83 l~~~l~~~~~~-~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~  156 (184)
                      ++++++.+++. |++.++.+++++.+++.++++++.++     +||++++||||||++++|+||.+||+|++.++++.|+
T Consensus        85 l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~ai  164 (250)
T 1ryp_B           85 LVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAI  164 (250)
T ss_dssp             HHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEECCCCCEEeeceeEe
Confidence            99999999999 99999999999999888888876543     5999999999999867999999999999999999999


Q ss_pred             ecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         157 GSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       157 G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      |+|+++++++||+.|+++||+|||+++
T Consensus       165 Gsgs~~a~~~Le~~~~~~ms~eea~~l  191 (250)
T 1ryp_B          165 GKGSVAAKTFLEKRWNDELELEDAIHI  191 (250)
T ss_dssp             STTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             cCccHHHHHHHHHHhccCCCHHHHHHH
Confidence            999999999999999999999999886

>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E* 1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E* 3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E* 3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ...

Probab=100.00  E-value=1.1e-49  Score=314.96  Aligned_cols=175  Identities=12%  Similarity=0.179  Sum_probs=165.8

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +.++++|+|||+|||||.+++++|+|+|||+++||||||+|+|.+.+..   ++.+||++|++|+++++||+.+|++.+.
T Consensus         8 ~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~---~~~~Ki~~i~~~i~~~~aG~~aD~~~l~   84 (233)
T 1ryp_F            8 DTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS---SYQKKIIKCDEHMGLSLAGLAPDARVLS   84 (233)
T ss_dssp             CTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHHHHHH
T ss_pred             CCccCCCCCeehHHHHHHHHHHcCCCEEEEEcCCEEEEEEEeccccccc---cccCcEEEEcCCEEEEEEechHHHHHHH
Confidence            4467899999999999999999999999999999999999999999743   4789999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecC
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSG  159 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g  159 (184)
                      ++++.+++.|+++++++|+++.+++.++++++.+     .+||++++||||||+ .||+||.+||+|++.++++.|+|++
T Consensus        85 ~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG~g  163 (233)
T 1ryp_F           85 NYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDK-SGAHLLEFQPSGNVTELYGTAIGAR  163 (233)
T ss_dssp             HHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECTTSCEEEESEEEESTT
T ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeC-CcCEEEEECCCCCeeeeeEEEECCC
Confidence            9999999999999999999999999999999753     359999999999998 7899999999999999999999999


Q ss_pred             HHhHHHHHhccCCC--CC--CHHHHhhc
Q psy2074         160 STYLYGHMDNQFKE--NM--TKKEAMST  183 (184)
Q Consensus       160 ~~~~~~~Le~~~~~--~~--s~eea~~l  183 (184)
                      +++++++||+.|++  +|  |+|||+++
T Consensus       164 s~~a~~~Le~~~~~~~~m~~s~eea~~~  191 (233)
T 1ryp_F          164 SQGAKTYLERTLDTFIKIDGNPDELIKA  191 (233)
T ss_dssp             HHHHHHHHHHHHHHHTTCCSCHHHHHHH
T ss_pred             cHHHHHHHHHHhccccccCCCHHHHHHH
Confidence            99999999999998  99  99999986

>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=1.8e-43  Score=274.27  Aligned_cols=163  Identities=54%  Similarity=0.914  Sum_probs=157.5

Q ss_pred             cccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhC
Q psy2074          20 WLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELG   99 (184)
Q Consensus        20 ya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~   99 (184)
                      +..+++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++.++
T Consensus         1 ~~~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~   80 (205)
T 1ryp_H            1 LKKGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYG   80 (205)
T ss_dssp             CCTTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CCCCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence            35789999999999999999999999999999888899999999999999999999999999999999999999999999


Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHH
Q psy2074         100 EEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKE  179 (184)
Q Consensus       100 ~~~~~~~la~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~ee  179 (184)
                      + ++++.+++.+++++|.+|..+++++||||||++++|+||.+||+|++.++++.|+|+|+++++++||+.|+++||+||
T Consensus        81 ~-~~v~~la~~l~~~~~~~~~~~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~ee  159 (205)
T 1ryp_H           81 T-PSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEE  159 (205)
T ss_dssp             S-CCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHH
T ss_pred             C-CCHHHHHHHHHHHHHhhhcCceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCCCHHH
Confidence            9 999999999999999998789999999999986789999999999999999999999999999999999999999999


Q ss_pred             Hhhc
Q psy2074         180 AMST  183 (184)
Q Consensus       180 a~~l  183 (184)
                      |+++
T Consensus       160 a~~l  163 (205)
T 1ryp_H          160 TVDF  163 (205)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9986

>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=4.2e-43  Score=281.21  Aligned_cols=162  Identities=33%  Similarity=0.557  Sum_probs=151.2

Q ss_pred             ccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCC
Q psy2074          21 LTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGE  100 (184)
Q Consensus        21 a~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~  100 (184)
                      .++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||+.+|++.++++++.+++.|++.+++
T Consensus        22 ~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~  101 (261)
T 3nzj_H           22 QPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSR  101 (261)
T ss_dssp             --------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             CCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhCC
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHH
Q psy2074         101 EPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA  180 (184)
Q Consensus       101 ~~~~~~la~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea  180 (184)
                      +++++.+++++++.++++++|+++++||||||+ .||+||.+||+|++.++++.|+|+|+++++++||+.|+++||+|||
T Consensus       102 ~~~v~~~a~~l~~~l~~~~~~~gv~llvaG~D~-~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEA  180 (261)
T 3nzj_H          102 EPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA  180 (261)
T ss_dssp             CCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEET-TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhcCcccEEEEEEEEeC-CCCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhccCCCHHHH
Confidence            999999999999999999999999999999998 7899999999999999999999999999999999999999999999


Q ss_pred             hhc
Q psy2074         181 MST  183 (184)
Q Consensus       181 ~~l  183 (184)
                      +++
T Consensus       181 ~~l  183 (261)
T 3nzj_H          181 IKL  183 (261)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            986

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H

Probab=100.00  E-value=7.3e-43  Score=273.21  Aligned_cols=159  Identities=20%  Similarity=0.375  Sum_probs=149.2

Q ss_pred             ccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCC
Q psy2074          23 AKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEP  102 (184)
Q Consensus        23 ~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~  102 (184)
                      .++.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++++++++||+.+|++.++++++.+++.|++++++++
T Consensus         3 ~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T 1yar_H            3 QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNM   82 (217)
T ss_dssp             ------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CCCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHh
Q psy2074         103 LVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM  181 (184)
Q Consensus       103 ~~~~la~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~  181 (184)
                      +++.+++.+++++|.+| +||++++||||||  +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||+|||+
T Consensus        83 ~v~~la~~l~~~~~~~r~rp~~v~~lvaG~D--~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~  160 (217)
T 1yar_H           83 PIEAVATLLSNMLNQVKYMPYMVQLLVGGID--TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGV  160 (217)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCCCEEEEEEEES--SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             CHHHHHHHHHHHHHhcCCCCceEEEEEEEEC--CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCCCHHHHH
Confidence            99999999999999876 4999999999999  68999999999999999999999999999999999999999999999


Q ss_pred             hc
Q psy2074         182 ST  183 (184)
Q Consensus       182 ~l  183 (184)
                      ++
T Consensus       161 ~l  162 (217)
T 1yar_H          161 DL  162 (217)
T ss_dssp             HH
T ss_pred             HH
Confidence            86

>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=9.6e-43  Score=282.35  Aligned_cols=165  Identities=27%  Similarity=0.508  Sum_probs=151.6

Q ss_pred             ccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHh
Q psy2074          19 DWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMEL   98 (184)
Q Consensus        19 eya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~   98 (184)
                      .++..++.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++++++|..+|++.+.++++.+++.|++++
T Consensus        66 ~~~~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~l~~~lr~~~~~y~~~~  145 (287)
T 3nzj_K           66 PDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELRE  145 (287)
T ss_dssp             ----------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhheccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            46788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCcHHHHHHHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCH
Q psy2074          99 GEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTK  177 (184)
Q Consensus        99 ~~~~~~~~la~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~  177 (184)
                      +++++++.+++++++++|.+|. |+++++||||||++++|+||.+||+|++.++++.|+|+|+++++++||+.|+++||+
T Consensus       146 ~~~isv~~la~~ls~~l~~~r~~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~~~~~AiGsgs~~a~~~Le~~y~~dms~  225 (287)
T 3nzj_K          146 KERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSV  225 (287)
T ss_dssp             SSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHTSCCTTCCH
T ss_pred             CCCCCHHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCCEEEEECCCceEEEcCeEEEecchHHHHHHHHHhhcCCCCH
Confidence            9999999999999999999886 999999999999768999999999999999999999999999999999999999999


Q ss_pred             HHHhhc
Q psy2074         178 KEAMST  183 (184)
Q Consensus       178 eea~~l  183 (184)
                      |||+++
T Consensus       226 eEAi~l  231 (287)
T 3nzj_K          226 EDALYL  231 (287)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999986

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L

Probab=100.00  E-value=2.2e-42  Score=269.64  Aligned_cols=159  Identities=24%  Similarity=0.274  Sum_probs=152.8

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      +++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||+.+|++.++++++.+++.|++.+++++++
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   85 (213)
T 1iru_M            6 VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             cCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCCH
Confidence            57899999999999999999999999998888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhcc---------CCCC
Q psy2074         105 YSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQ---------FKEN  174 (184)
Q Consensus       105 ~~la~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~---------~~~~  174 (184)
                      +.+++++++++|.+| +||++++||||||++++|+||.+||+|++.++++.|+|+|+++++++||+.         |+++
T Consensus        86 ~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~~~~~  165 (213)
T 1iru_M           86 GAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVP  165 (213)
T ss_dssp             HHHHHHHHHHHHHTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCC
T ss_pred             HHHHHHHHHHHHhhCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhccccccccccCCCC
Confidence            999999999998776 599999999999986779999999999999999999999999999999999         8899


Q ss_pred             CCHHHHhhc
Q psy2074         175 MTKKEAMST  183 (184)
Q Consensus       175 ~s~eea~~l  183 (184)
                      ||+|||+++
T Consensus       166 ~s~eea~~l  174 (213)
T 1iru_M          166 LSLDRAMRL  174 (213)
T ss_dssp             CCHHHHHHH
T ss_pred             CCHHHHHHH
Confidence            999999986

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

Probab=100.00  E-value=1.2e-42  Score=272.35  Aligned_cols=156  Identities=28%  Similarity=0.426  Sum_probs=150.8

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      |+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||+.+|++.++++++.+++.|++.++++++++.+
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLAC   80 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHH
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            79999999999999999999999989999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecC-eEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         108 AKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       108 a~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++++++++|.+|. ||++++||||||+++||+||.+||+|++.+++ +.|+|+++++++++||+.|+++||+|||+++
T Consensus        81 a~~l~~~~~~~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~l  158 (219)
T 3h4p_a           81 ATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKL  158 (219)
T ss_dssp             HHHHHHHHHHTTTTTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            9999999998864 99999999999987899999999999999999 9999999999999999999999999999986

>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=1.1e-43  Score=284.58  Aligned_cols=167  Identities=13%  Similarity=0.209  Sum_probs=154.0

Q ss_pred             cccCCCCC-CCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHH
Q psy2074           9 NAYHGGVE-APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV   87 (184)
Q Consensus         9 ~~~~G~l~-qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l   87 (184)
                      .+|+|++. |||||.+++++|+|+|||+++||||||+|+|        +++.+||++|++||+|++||+.+|++.|++.+
T Consensus         7 ~sPe~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r--------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~   78 (259)
T 1q5q_A            7 ASAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP--------STALHKVSELYDRLGFAAVGKYNEFENLRRAG   78 (259)
T ss_dssp             --CHHHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS--------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC--------CCCcCcEEEeCCCEEEEEccCHHHHHHHHHHH
Confidence            47899996 9999999999999999999999999999998        35689999999999999999999999999999


Q ss_pred             HHHHHHHHHHhC-CCCcHHHHHHHHHHHH---Hhc-CCCcceeeEEEEEe--C-CCCeEEEEEcCCCcee-ecCeEEEec
Q psy2074          88 SYNLDLQRMELG-EEPLVYSGAKLFQELV---YSY-RDSLTAGIICAGWD--R-KKGGQVYCIPLGGMLM-RQKMAMGGS  158 (184)
Q Consensus        88 ~~~~~~~~~~~~-~~~~~~~la~~l~~~l---~~~-r~p~~~s~llaG~D--~-~~~~~Ly~idp~G~~~-~~~~~a~G~  158 (184)
                      +.+++.|++.++ ++|+++.+++.+++++   |.. .+||++++||||||  + +++|+||.+||+|++. ++++.|+|+
T Consensus        79 ~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~~~~aiG~  158 (259)
T 1q5q_A           79 IVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGG  158 (259)
T ss_dssp             HHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESS
T ss_pred             HHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCCCEEEECC
Confidence            999999999987 4999999999999953   433 46999999999999  3 4899999999999999 889999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++.++++||+.|+++||+|||+++
T Consensus       159 gs~~a~~~Le~~~~~~ms~eea~~l  183 (259)
T 1q5q_A          159 TTEPIATAMRESYRADLDLEAAVGI  183 (259)
T ss_dssp             SHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             ChHHHHHHHHhhccCCCCHHHHHHH
Confidence            9999999999999999999999986

>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=5.9e-43  Score=276.40  Aligned_cols=162  Identities=21%  Similarity=0.239  Sum_probs=156.3

Q ss_pred             cccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHH-----
Q psy2074          22 TAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRM-----   96 (184)
Q Consensus        22 ~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~-----   96 (184)
                      ++++++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|++||..+|++.+.++++.+++.|++     
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (233)
T 1ryp_N            2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             cccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchh
Confidence            678999999999999999999999999999999999999999999999999999999999999999999999999     


Q ss_pred             HhCCCCcHHHHHHHHHHHHHhcC---CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCC
Q psy2074          97 ELGEEPLVYSGAKLFQELVYSYR---DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKE  173 (184)
Q Consensus        97 ~~~~~~~~~~la~~l~~~l~~~r---~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~  173 (184)
                      .++++++++.+++++++++|.+|   +||++++||||||++++|+||.+||+|++.++++.|+|+|+++++++||+.|++
T Consensus        82 ~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  161 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDR  161 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCSS
T ss_pred             hcCCCCCHHHHHHHHHHHHHHhcCCCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhhcc
Confidence            89999999999999999998875   599999999999986699999999999999999999999999999999999999


Q ss_pred             -----CCCHHHHhhc
Q psy2074         174 -----NMTKKEAMST  183 (184)
Q Consensus       174 -----~~s~eea~~l  183 (184)
                           +||+|||+++
T Consensus       162 ~~~~~~ms~eea~~l  176 (233)
T 1ryp_N          162 ESDIPKTTVQVAEEA  176 (233)
T ss_dssp             GGGGGGCCHHHHHHH
T ss_pred             ccccCCCCHHHHHHH
Confidence                 9999999886

>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=2.6e-42  Score=267.75  Aligned_cols=155  Identities=60%  Similarity=1.090  Sum_probs=151.3

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||+.+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (205)
T 1iru_H            1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (205)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEecCCcCceEEcCCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999999888999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +.+++++|.+|+||++++|+||||++++|+||.+||+|++.+++++++|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~~~~~~~p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l  155 (205)
T 1iru_H           81 SLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQF  155 (205)
T ss_dssp             HHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhcCcCccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            999999999999999999999999877999999999999999999999999999999999999999999999986

>1ryp_M 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_M* 1jd2_L* 1g65_L 1vsy_M 1z7q_M 2f16_L* 2fak_L* 2fny_L* 2gpl_L* 3d29_L* 3dy3_L* 3dy4_L* 3e47_L* 3gpj_L* 3gpt_L* 3gpw_L* 3hye_L* 3l5q_Q 3mg0_L* 3mg4_L* ...

Probab=100.00  E-value=4.4e-42  Score=269.63  Aligned_cols=160  Identities=24%  Similarity=0.307  Sum_probs=153.5

Q ss_pred             cccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhC-CCC
Q psy2074          24 KHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELG-EEP  102 (184)
Q Consensus        24 ~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~-~~~  102 (184)
                      .+++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++++++++||+.+|++.++++++.+++.|+++++ +++
T Consensus         5 ~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (222)
T 1ryp_M            5 YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKL   84 (222)
T ss_dssp             CCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             cccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            4678999999999999999999999999988899999999999999999999999999999999999999999999 999


Q ss_pred             cHHHHHHHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhcc-----------
Q psy2074         103 LVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQ-----------  170 (184)
Q Consensus       103 ~~~~la~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~-----------  170 (184)
                      +++.+|+++++++|.+| +||++++||||||++++|+||.+||.|++.++++.|+|+++++++++||+.           
T Consensus        85 ~v~~la~~l~~~ly~~r~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~~~~  164 (222)
T 1ryp_M           85 SINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGT  164 (222)
T ss_dssp             CHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTS
T ss_pred             CHHHHHHHHHHHHHhcCCCCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhccccccccccccc
Confidence            99999999999999876 499999999999986779999999999999999999999999999999998           


Q ss_pred             ------CCCCCCHHHHhhc
Q psy2074         171 ------FKENMTKKEAMST  183 (184)
Q Consensus       171 ------~~~~~s~eea~~l  183 (184)
                            |+++||+|||+++
T Consensus       165 ~~~~~~~~~~~s~eeA~~l  183 (222)
T 1ryp_M          165 NGKVKKPLKYLSVEEVIKL  183 (222)
T ss_dssp             TTCSBCCCCCCCHHHHHHH
T ss_pred             ccccccCCCCCCHHHHHHH
Confidence                  8899999999986

>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=8.7e-43  Score=273.00  Aligned_cols=161  Identities=20%  Similarity=0.256  Sum_probs=155.3

Q ss_pred             cccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHH-HhCC
Q psy2074          22 TAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRM-ELGE  100 (184)
Q Consensus        22 ~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~-~~~~  100 (184)
                      ++++++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++ .+++
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (219)
T 1iru_N            2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (219)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            578999999999999999999999999999999999999999999999999999999999999999999999998 8999


Q ss_pred             CCcHHHHHHHHHHHHHhcC---CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCC--CC
Q psy2074         101 EPLVYSGAKLFQELVYSYR---DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKE--NM  175 (184)
Q Consensus       101 ~~~~~~la~~l~~~l~~~r---~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~~  175 (184)
                      +++++.+++++++++|.+|   +||++++||||||+ ++|+||.+||+|++.++++.|+|+|+++++++||+.|++  +|
T Consensus        82 ~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~-~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~m  160 (219)
T 1iru_N           82 SYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYAD-GESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVL  160 (219)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEET-TEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCC
T ss_pred             CCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEEC-CCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCCCC
Confidence            9999999999999998764   59999999999998 699999999999999999999999999999999999999  99


Q ss_pred             CHHHHhhc
Q psy2074         176 TKKEAMST  183 (184)
Q Consensus       176 s~eea~~l  183 (184)
                      |+|||+++
T Consensus       161 t~eea~~l  168 (219)
T 1iru_N          161 SQTEARDL  168 (219)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            99999986

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

Probab=100.00  E-value=7.4e-42  Score=264.60  Aligned_cols=154  Identities=26%  Similarity=0.458  Sum_probs=149.6

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||+.+|++.++++++.+++.|+++++++|+++.++
T Consensus         1 tt~vgi~~~dgVvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T 1j2q_H            1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEECCCcCcCCEEeeccccCEEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecC-eEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +.+++++|.+| +||++++||||||+ +||+||.+||+|++.+++ +.|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~~~~~r~rp~~~~~lvaG~D~-~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l  156 (202)
T 1j2q_H           81 TLTSNLLNSYRYFPYLVQLLIGGIDS-EGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL  156 (202)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEEET-TEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhCCCCceEEEEEEEEeC-CCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHH
Confidence            99999999876 49999999999998 789999999999999999 9999999999999999999999999999986

>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=7.7e-42  Score=266.39  Aligned_cols=155  Identities=27%  Similarity=0.541  Sum_probs=150.7

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (212)
T 1ryp_L            1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCCeEecCcccceeeeCCcEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++++|.+|+ ||++++||||||++++|+||.+||+|++.++++.|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~~~~~~~~p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l  156 (212)
T 1ryp_L           81 KILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  156 (212)
T ss_dssp             HHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHhhCCCCceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHH
Confidence            999999999886 999999999999657999999999999999999999999999999999999999999999986

>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K 1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J* 2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J* 3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ...

Probab=100.00  E-value=3.1e-42  Score=265.87  Aligned_cols=156  Identities=16%  Similarity=0.302  Sum_probs=150.1

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      ++|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||+.+|++.++++++.+++.|+++++++++++.+
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (198)
T 1ryp_K            1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAV   80 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHH
T ss_pred             CceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            58999999999999999999999988888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC---CCcceeeEEEEEeC-CCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         108 AKLFQELVYSYR---DSLTAGIICAGWDR-KKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       108 a~~l~~~l~~~r---~p~~~s~llaG~D~-~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++.+++.+|+++   +||++++||||||+ +++|+||.+||+|++.++++.|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 a~~l~~~l~~~~~~r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l  160 (198)
T 1ryp_K           81 SSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDL  160 (198)
T ss_dssp             HHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHHH
Confidence            999999998864   49999999999997 58999999999999999999999999999999999999999999999986

>3mi0_A Proteasome subunit alpha; enzyme inhibitors, lactones, proteasome endopeptidase comple mycobacterium tuberculosis, hydrolase; HET: SA6; 2.20A {Mycobacterium tuberculosis} SCOP: d.153.1.4 PDB: 3h6f_A 3krd_A* 3h6i_A* 3mka_A 2fhh_A* 2fhg_A 3hfa_D 3hf9_A 3mfe_D

Probab=100.00  E-value=1.6e-42  Score=275.95  Aligned_cols=159  Identities=13%  Similarity=0.183  Sum_probs=148.2

Q ss_pred             CCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHH
Q psy2074          17 APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRM   96 (184)
Q Consensus        17 qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~   96 (184)
                      ++|||.+|+++|+|+|||+++||||||+|+|        +++.+||++|++||+|+++|+.+|++.|++.++..++.|++
T Consensus        16 r~EYA~~av~~GtT~vgi~~kdgVVlaadkr--------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~~~~l~~~   87 (248)
T 3mi0_A           16 RSELARKGIARAKSVVALAYAGGVLFVAENP--------SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQFADTRGY   87 (248)
T ss_dssp             HHHHHHHHHHTSCCEEEEEETTEEEEEEECC--------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHhCCCcEEEEEeCCEEEEEEeCC--------CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHHHHHHHHH
Confidence            4799999999999999999999999999999        34689999999999999999999999999999999999999


Q ss_pred             HhC-CCCcHHHHHHHHHHH-HHh---cCCCcceeeEEEEEeC---CCCeEEEEEcCCCceee-cCeEEEecCHHhHHHHH
Q psy2074          97 ELG-EEPLVYSGAKLFQEL-VYS---YRDSLTAGIICAGWDR---KKGGQVYCIPLGGMLMR-QKMAMGGSGSTYLYGHM  167 (184)
Q Consensus        97 ~~~-~~~~~~~la~~l~~~-l~~---~r~p~~~s~llaG~D~---~~~~~Ly~idp~G~~~~-~~~~a~G~g~~~~~~~L  167 (184)
                      .++ .+++++.+++.+++. .+.   ..+||+|++||||||+   ++||+||++||+|++.+ +++.|+|++++.++++|
T Consensus        88 ~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~~L  167 (248)
T 3mi0_A           88 AYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANAL  167 (248)
T ss_dssp             HSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEEEESSCHHHHHHHH
T ss_pred             hcCCCCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEEEECccHHHHHHHH
Confidence            999 899999999999954 332   3569999999999997   47999999999999995 99999999999999999


Q ss_pred             hccCCCCCCHHHHhhc
Q psy2074         168 DNQFKENMTKKEAMST  183 (184)
Q Consensus       168 e~~~~~~~s~eea~~l  183 (184)
                      |+.|+++||+|||+++
T Consensus       168 e~~y~~~mt~eeai~l  183 (248)
T 3mi0_A          168 KESYAENASLTDALRI  183 (248)
T ss_dssp             HHHCCTTCCHHHHHHH
T ss_pred             HhhcCCCCCHHHHHHH
Confidence            9999999999999986

>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=8.1e-42  Score=269.98  Aligned_cols=154  Identities=29%  Similarity=0.545  Sum_probs=150.6

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.+.++++.++++|++.++++++++.++
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVT   80 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEecCCEEEEecccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHH
Confidence            69999999999999999999999988889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++++|.+++|+++++||||||+ +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~l~~~~~p~~v~llvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~l  154 (234)
T 3unf_H           81 RILRQTLFRYQGHVGASLVVGGVDL-NGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQEL  154 (234)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEEET-TEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHH
T ss_pred             HHHHHHHHhcCCCccEEEEEEEEeC-CCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHH
Confidence            9999999999999999999999998 7899999999999999999999999999999999999999999999986

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I

Probab=100.00  E-value=1.1e-41  Score=264.24  Aligned_cols=159  Identities=21%  Similarity=0.310  Sum_probs=150.9

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      +.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|+++++||..+|++.+.++++.+++.|++.+++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   84 (205)
T 1iru_J            5 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   84 (205)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             cCCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCH
Confidence            46899999999999999999999999998888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC-CcceeeEEEEEeC-CCCeEEEEEcCCCceee-cCeEEEecCHHhHHHHHhccCCCCCCHHHHh
Q psy2074         105 YSGAKLFQELVYSYRD-SLTAGIICAGWDR-KKGGQVYCIPLGGMLMR-QKMAMGGSGSTYLYGHMDNQFKENMTKKEAM  181 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~-p~~~s~llaG~D~-~~~~~Ly~idp~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~  181 (184)
                      +.+++.+++++|.+|. ||++++||||||+ +++|+||.+||+|++.+ .+|.|+|+|+++++++||+.|+++||+|||+
T Consensus        85 ~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~  164 (205)
T 1iru_J           85 YTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLF  164 (205)
T ss_dssp             HHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCHHHHH
Confidence            9999999999988764 9999999999996 57999999999999855 5779999999999999999999999999999


Q ss_pred             hc
Q psy2074         182 ST  183 (184)
Q Consensus       182 ~l  183 (184)
                      ++
T Consensus       165 ~l  166 (205)
T 1iru_J          165 ET  166 (205)
T ss_dssp             HH
T ss_pred             HH
Confidence            86

>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=1.5e-41  Score=263.21  Aligned_cols=154  Identities=29%  Similarity=0.522  Sum_probs=150.0

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||+.+|++.+.+.++.+++.|++.++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (204)
T 1iru_L            1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (204)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCCEEEcCcccceEEcCCCEEEEccCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +.+++++|.+|. |+++++||||||+ +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~~~~~r~~~~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l  155 (204)
T 1iru_L           81 KLLANMVYQYKGMGLSMGTMICGWDK-RGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDL  155 (204)
T ss_dssp             HHHHHHHHTTTTSCCCBEEEEEEECS-SSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHhCCCCeeEEEEEEEEeC-CCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHH
Confidence            999999999876 9999999999998 7999999999999999999999999999999999999999999999986

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=3.4e-42  Score=276.90  Aligned_cols=166  Identities=20%  Similarity=0.213  Sum_probs=157.6

Q ss_pred             CccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHH-
Q psy2074          18 PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRM-   96 (184)
Q Consensus        18 veya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~-   96 (184)
                      .+.+.+++++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|++||+.+|++.|+++++.+++.|++ 
T Consensus        31 ~~~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~  110 (266)
T 1g0u_M           31 MVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYD  110 (266)
T ss_dssp             ---CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhhhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhc
Confidence            5778899999999999999999999999999999999999999999999999999999999999999999999999998 


Q ss_pred             ----HhCCCCcHHHHHHHHHHHHHhcC---CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhc
Q psy2074          97 ----ELGEEPLVYSGAKLFQELVYSYR---DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDN  169 (184)
Q Consensus        97 ----~~~~~~~~~~la~~l~~~l~~~r---~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~  169 (184)
                          .++++++++.+++++++++|.+|   +||++++||||||++++|+||.+||+|++.++++.|+|+|+++++++||+
T Consensus       111 ~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~  190 (266)
T 1g0u_M          111 NPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRK  190 (266)
T ss_dssp             CTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHHHHHTT
T ss_pred             cchhhcCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHHHHHHH
Confidence                89999999999999999998875   59999999999998669999999999999999999999999999999999


Q ss_pred             cCCC-----CCCHHHHhhc
Q psy2074         170 QFKE-----NMTKKEAMST  183 (184)
Q Consensus       170 ~~~~-----~~s~eea~~l  183 (184)
                      .|++     +||+|||+++
T Consensus       191 ~~~~~~~~~~ms~eeA~~l  209 (266)
T 1g0u_M          191 VVDRESDIPKTTVQVAEEA  209 (266)
T ss_dssp             TCSSGGGGGGCCHHHHHHH
T ss_pred             hhcccccCCCCCHHHHHHH
Confidence            9999     9999999986

>1ryp_J 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_I* 1g65_I 1vsy_J 2f16_I* 2fak_I* 2fny_I* 2gpl_I* 3d29_I* 3dy3_I* 3dy4_I* 3e47_I* 3gpj_I* 3gpt_I* 3gpw_I* 3hye_I* 3l5q_N 3mg0_I* 3mg4_I* 3oeu_I* 3oev_I* ...

Probab=100.00  E-value=3.4e-41  Score=261.26  Aligned_cols=158  Identities=16%  Similarity=0.255  Sum_probs=150.2

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      +.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|+ |+++++||+.+|++.++++++.+++.|++++++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   83 (204)
T 1ryp_J            5 SINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEP   83 (204)
T ss_dssp             GSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             CCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCH
Confidence            578999999999999999999999999988888999999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC-CcceeeEEEEEeC-CCCeEEEEEcCCCceee-cCeEEEecCHHhHHHHHhccCCCCCCHHHHh
Q psy2074         105 YSGAKLFQELVYSYRD-SLTAGIICAGWDR-KKGGQVYCIPLGGMLMR-QKMAMGGSGSTYLYGHMDNQFKENMTKKEAM  181 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~-p~~~s~llaG~D~-~~~~~Ly~idp~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~  181 (184)
                      +.+++.+++++|.+|. ||++++||||||+ +++|+||.+||+|++.+ .+|.|+|+|+++++++||+.|+++||+|||+
T Consensus        84 ~~la~~l~~~~y~~~~~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~  163 (204)
T 1ryp_J           84 ETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLF  163 (204)
T ss_dssp             HHHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCCCcCHHHHH
Confidence            9999999999988764 9999999999996 57999999999999855 5789999999999999999999999999999


Q ss_pred             hc
Q psy2074         182 ST  183 (184)
Q Consensus       182 ~l  183 (184)
                      ++
T Consensus       164 ~l  165 (204)
T 1ryp_J          164 ET  165 (204)
T ss_dssp             HH
T ss_pred             HH
Confidence            86

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

Probab=100.00  E-value=1.6e-41  Score=275.97  Aligned_cols=163  Identities=18%  Similarity=0.257  Sum_probs=155.3

Q ss_pred             ccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCC
Q psy2074          21 LTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGE  100 (184)
Q Consensus        21 a~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~  100 (184)
                      |.+|+++|+|+|||+++||||||+|+|.++|.++.+++.+||++|+++++|+++|+.+|++.++++++.+++.|++.+++
T Consensus        58 a~~Av~~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g~  137 (294)
T 1q5r_H           58 SGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGV  137 (294)
T ss_dssp             --CCSCBCCCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHhcCceEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcHHHHHHHHHHHHHhcC----CCcceeeEEEEEeCCCC-----eEEEEEcCCCceeec--CeEEEecCHHhHHHHHhc
Q psy2074         101 EPLVYSGAKLFQELVYSYR----DSLTAGIICAGWDRKKG-----GQVYCIPLGGMLMRQ--KMAMGGSGSTYLYGHMDN  169 (184)
Q Consensus       101 ~~~~~~la~~l~~~l~~~r----~p~~~s~llaG~D~~~~-----~~Ly~idp~G~~~~~--~~~a~G~g~~~~~~~Le~  169 (184)
                      +++++.+++.+++++|.++    +||++++||||||++++     |+||.+||+|++.++  ++.|+|+|+++++++||+
T Consensus       138 ~isv~~la~~la~~l~~~~~~~~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~Le~  217 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKK  217 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHTTTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhhcCCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHHHH
Confidence            9999999999999998754    69999999999998656     999999999999998  999999999999999999


Q ss_pred             cCCCCCCHHHHhhc
Q psy2074         170 QFKENMTKKEAMST  183 (184)
Q Consensus       170 ~~~~~~s~eea~~l  183 (184)
                      .|+++||+|||+++
T Consensus       218 ~y~~~ms~eEAi~l  231 (294)
T 1q5r_H          218 IYSPDSDEETALRA  231 (294)
T ss_dssp             HCCSSCCHHHHHHH
T ss_pred             hccCCCCHHHHHHH
Confidence            99999999999986

>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=2.7e-41  Score=265.15  Aligned_cols=154  Identities=33%  Similarity=0.574  Sum_probs=150.5

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.++++++.+++.|+++++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEecCCEEEEecccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            68999999999999999999999988889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++.+|.+++|+++++||||||+ +||+||.+||+|++.++++.|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~l~~~~~p~~v~~lvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~l  154 (222)
T 1ryp_I           81 QMLKQHLFKYQGHIGAYLIVAGVDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKL  154 (222)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEEET-TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHH
T ss_pred             HHHHHHHhhcCCCCCeeEEEEEEeC-CCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHH
Confidence            9999999999999999999999998 7899999999999999999999999999999999999999999999986

>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB: 3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H* 3h6i_C 3h6f_C 3hf9_H 3mfe_H

Probab=100.00  E-value=1.2e-41  Score=276.47  Aligned_cols=165  Identities=21%  Similarity=0.248  Sum_probs=141.5

Q ss_pred             CccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHH
Q psy2074          18 PDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRME   97 (184)
Q Consensus        18 veya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~   97 (184)
                      +|||.+ +.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.++++++.+++.|++.
T Consensus        48 ~~ya~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~~~  126 (291)
T 2jay_A           48 AGGDAQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKL  126 (291)
T ss_dssp             -----------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEEEEESCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEEEEcccHHHHHHHHHHHHHHHHHhhhh
Confidence            799999 9999999999999999999999999998888899999999999999999999999999999999999999999


Q ss_pred             hCCCCcHHHHHHHHHHHHHhcC----CCcceeeEEEEEeCCCC-----eEEEEEcCCCcee--ecCeEEEecCHHhHHHH
Q psy2074          98 LGEEPLVYSGAKLFQELVYSYR----DSLTAGIICAGWDRKKG-----GQVYCIPLGGMLM--RQKMAMGGSGSTYLYGH  166 (184)
Q Consensus        98 ~~~~~~~~~la~~l~~~l~~~r----~p~~~s~llaG~D~~~~-----~~Ly~idp~G~~~--~~~~~a~G~g~~~~~~~  166 (184)
                      ++.+++++.+++.+++++|.++    +||++++||||||++++     |+||.+||+|++.  ++++.|+|+|+++++++
T Consensus       127 ~~~~i~v~~la~~la~~l~~~~~~~~rpf~v~~lvaG~D~~g~~~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~  206 (291)
T 2jay_A          127 EGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSS  206 (291)
T ss_dssp             HSSCCCHHHHHHHHHHHHHTCHHHHHHTCCCEEEEEEECTTCSCSTTCEEEEEECTTSCEEECSSSEEEESTTHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHhhhhhccccceeEEEEEEeCCCCcCCCCCEEEEECCCCcEEecCCCEEEEecCHHHHHHH
Confidence            9999999999999999999875    39999999999998656     9999999999988  89999999999999999


Q ss_pred             HhccCCCCCCHHHHhhc
Q psy2074         167 MDNQFKENMTKKEAMST  183 (184)
Q Consensus       167 Le~~~~~~~s~eea~~l  183 (184)
                      ||+.|+++||+|||+++
T Consensus       207 Le~~~~~~ms~eEAi~l  223 (291)
T 2jay_A          207 MKKLYSQVTDGDSGLRV  223 (291)
T ss_dssp             HHHHGGGCCSHHHHHHH
T ss_pred             HHHhcCCCCCHHHHHHH
Confidence            99999999999999876

>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=4.6e-41  Score=259.98  Aligned_cols=156  Identities=18%  Similarity=0.297  Sum_probs=148.2

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      ++|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.++++++.+++.|++.++++++++.+
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~   80 (201)
T 1iru_K            1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAA   80 (201)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHH
T ss_pred             CceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH-Hh-c-CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         108 AKLFQELV-YS-Y-RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       108 a~~l~~~l-~~-~-r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++++++.+ +. + ++||++++||||||++++|+||.+||+|++.++++.|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 a~~~~~~l~~~~~~~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l  159 (201)
T 1iru_K           81 ANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVEL  159 (201)
T ss_dssp             HHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHH
Confidence            99998765 43 2 35999999999999867999999999999999999999999999999999999999999999986

>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=1e-40  Score=263.80  Aligned_cols=154  Identities=31%  Similarity=0.587  Sum_probs=150.3

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TTivgi~~~dgVVlaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 1iru_I            1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (234)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCceeccCcccceEEecCCEEEEecCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            68999999999999999999999988888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++.+|.+++|+++++||||||+ +||+||.+||+|++.++++.|+|+|++.++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~l~~~~~~~~v~llvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~l  154 (234)
T 1iru_I           81 RMLKQMLFRYRGYIGAALVLGGVDV-TGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNL  154 (234)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEECS-SCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTH
T ss_pred             HHHHHHHHhcCCCCceeEEEEEEcC-CCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHH
Confidence            9999999999999999999999998 7899999999999999999999999999999999999999999999986

>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4

Probab=100.00  E-value=4.4e-40  Score=260.27  Aligned_cols=155  Identities=19%  Similarity=0.281  Sum_probs=149.1

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++|++||+.+|++.++++++.+++.|++.++++++++.++
T Consensus         1 tT~vgi~~~dgVVlaaD~r~~~g~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (235)
T 1q5q_H            1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (235)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCCcCCEEecCCcCcEEEeCCcEEEEcCCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc----CCCcceeeEEEEEeCCCC-----eEEEEEcCCCceeec--CeEEEecCHHhHHHHHhccCCCCCCH
Q psy2074         109 KLFQELVYSY----RDSLTAGIICAGWDRKKG-----GQVYCIPLGGMLMRQ--KMAMGGSGSTYLYGHMDNQFKENMTK  177 (184)
Q Consensus       109 ~~l~~~l~~~----r~p~~~s~llaG~D~~~~-----~~Ly~idp~G~~~~~--~~~a~G~g~~~~~~~Le~~~~~~~s~  177 (184)
                      +.+++++|.+    .+||++++||||||++++     |+||.+||+|++.++  ++.|+|+|+++++++||+.|+++||+
T Consensus        81 ~~l~~~~~~~~~~~~rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~  160 (235)
T 1q5q_H           81 NRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDE  160 (235)
T ss_dssp             HHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCH
T ss_pred             HHHHHHHHHHHHhhhcccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCCH
Confidence            9999999875    369999999999998657     999999999999999  99999999999999999999999999


Q ss_pred             HHHhhc
Q psy2074         178 KEAMST  183 (184)
Q Consensus       178 eea~~l  183 (184)
                      |||+++
T Consensus       161 eeA~~l  166 (235)
T 1q5q_H          161 ETALRA  166 (235)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999986

>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=3e-40  Score=254.96  Aligned_cols=153  Identities=50%  Similarity=0.863  Sum_probs=146.4

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||+.+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (199)
T 3unf_N            1 TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAA   80 (199)
T ss_dssp             CEEEEEECSSCEEEEECCCEEETTEEEESSCCCEEEEETTEEEEECSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             CeEEEEEeCCeEEEEECCcccCCceeEccccCceEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            79999999999999999999999899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceee-cCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMR-QKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +++++++|++++||++++||||||++++|+||.  |+|.+.+ .+++++|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~l~~~~~p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~l  154 (199)
T 3unf_N           81 NVVKNISYKYREDLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRF  154 (199)
T ss_dssp             HHHHHHHHHTTTTCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHHH
T ss_pred             HHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHHH
Confidence            999999999999999999999999878899999  9999755 567778999999999999999999999999986

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=100.00  E-value=1.2e-33  Score=215.08  Aligned_cols=146  Identities=21%  Similarity=0.231  Sum_probs=129.2

Q ss_pred             cCCceEEEEEeCCeEEEEEcCccccCce-eeecCCCceEEe-cCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCc
Q psy2074          26 SCGTTIIAVEFDGGVVIGADSRSSTGAY-VANRVADKLTRV-TDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPL  103 (184)
Q Consensus        26 ~~g~t~igi~~~dgVvla~d~r~~~g~~-~~~~~~~Ki~~i-~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~  103 (184)
                      .+|+|+|||+++||||||+|+|.+.|.+ +.+++.+||++| ++|++++++|..+|++.+.++++.+++.|+   +  +.
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g--~~   77 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G--NL   77 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T--CH
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C--Ch
Confidence            6799999999999999999999999887 899999999999 999999999999999999999999999987   3  33


Q ss_pred             HHHHHHHHHHHHHhc--CCCcceeeEEEEEeCCCCeEEEEEcCCCceee--cCeEEEecCHHhHHHHHhccCCC---CCC
Q psy2074         104 VYSGAKLFQELVYSY--RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMR--QKMAMGGSGSTYLYGHMDNQFKE---NMT  176 (184)
Q Consensus       104 ~~~la~~l~~~l~~~--r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~--~~~~a~G~g~~~~~~~Le~~~~~---~~s  176 (184)
                      ++.++ .+++.++.+  .+|+++++|||  |   +|+||.+||+|++.+  +++.|+|+|+++++++||+.|++   +||
T Consensus        78 ~~~~~-~l~~~~~~~~~~rp~~~~~lva--d---~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~mt  151 (180)
T 2z3b_A           78 KRAAV-ELAKEWRSDKVLRKLEAMLIVM--N---QDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMS  151 (180)
T ss_dssp             HHHHH-HHHHHHHHCTTGGGCCCCEEEE--C---SSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCC
T ss_pred             HHHHH-HHHHHHHhhhCcCcceEEEEEE--c---CCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCCCC
Confidence            44444 345555443  35999999999  4   599999999999997  59999999999999999999998   999


Q ss_pred             HHHHhh
Q psy2074         177 KKEAMS  182 (184)
Q Consensus       177 ~eea~~  182 (184)
                      .||+++
T Consensus       152 ~eel~~  157 (180)
T 2z3b_A          152 ASEIAR  157 (180)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999753

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

Probab=100.00  E-value=1.4e-33  Score=212.84  Aligned_cols=142  Identities=23%  Similarity=0.319  Sum_probs=127.9

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEe-cCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRV-TDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i-~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++| ++|+++++||..+|++.+.++++.+++.|+++     .++.+
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~   75 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc-----HHHHH
Confidence            6899999999999999999999999999999999999 99999999999999999999999999988743     36666


Q ss_pred             HHHHHHHHHhcC--CCcceeeEEEEEeCCCCeEEEEEcCCCceeecC--eEEEecCHHhHHHHHhccCC-CCCCHHHHh
Q psy2074         108 AKLFQELVYSYR--DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQK--MAMGGSGSTYLYGHMDNQFK-ENMTKKEAM  181 (184)
Q Consensus       108 a~~l~~~l~~~r--~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~--~~a~G~g~~~~~~~Le~~~~-~~~s~eea~  181 (184)
                      +++.+ .++.++  +|+++++|++  |   +|+||.+||+|++.+++  +.|+|+|+++++++||+.|+ ++||.+|++
T Consensus        76 ~~l~~-~~~~~~~~~~~~~~~lv~--D---~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~~~l~  148 (171)
T 1m4y_A           76 VELAK-DWRTDRVLRRLEALLLVA--D---KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSAREIV  148 (171)
T ss_dssp             HHHHH-HHHHCTTGGGCCCEEEEE--C---SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCHHHHH
T ss_pred             HHHHH-HHHHhCCCCceEEEEEEE--c---CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCHHHHH
Confidence            66654 565554  3799999888  5   79999999999999987  99999999999999999999 999987764

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

Probab=100.00  E-value=2.1e-33  Score=212.57  Aligned_cols=143  Identities=20%  Similarity=0.260  Sum_probs=128.6

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEe-cCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRV-TDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i-~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++| ++|+++++||+.+|++.+.++++.+++.|++      ++...
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~~~~~   74 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG------HLLKS   74 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------CHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------cHHHH
Confidence            6899999999999999999999988999999999999 9999999999999999999999999999875      45556


Q ss_pred             HHHHHHHHHhcCC--CcceeeEEEEEeCCCCeEEEEEcCCCceeecC---eEEEecCHHhHHHHHhccCC-CCCCHHHHh
Q psy2074         108 AKLFQELVYSYRD--SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQK---MAMGGSGSTYLYGHMDNQFK-ENMTKKEAM  181 (184)
Q Consensus       108 a~~l~~~l~~~r~--p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~---~~a~G~g~~~~~~~Le~~~~-~~~s~eea~  181 (184)
                      +..+++.++.++.  |  ++++++|+|   +|+||.+||+|++.+++   +.|+|+|+++++++||+.|+ ++||.+|.+
T Consensus        75 ~~~l~~~~~~~~~~r~--~~~~l~g~d---~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~~~l~  149 (174)
T 1g3k_A           75 AVELAKDWRTDRALRK--LEAMLIVAD---EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAHEIV  149 (174)
T ss_dssp             HHHHHHHHHHSTTGGG--CCCEEEEEC---SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHHHHH
T ss_pred             HHHHHHHHHhccCcCc--ceEEEEEEC---CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHHHHH
Confidence            6677777776654  6  567888897   69999999999999988   99999999999999999999 999988765


Q ss_pred             h
Q psy2074         182 S  182 (184)
Q Consensus       182 ~  182 (184)
                      +
T Consensus       150 ~  150 (174)
T 1g3k_A          150 E  150 (174)
T ss_dssp             H
T ss_pred             H
Confidence            3

---

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	184
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	9e-41
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-36
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-35
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	4e-34
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	3e-33
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-31
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	5e-31
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	4e-30
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	7e-30
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	1e-29
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	2e-28
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	3e-28
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-27
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-27
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-27
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	8e-27
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	8e-27
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	8e-27
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	5e-26
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	6e-26
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	9e-26
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	1e-25
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-25
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	3e-25
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	5e-25
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-24
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-24
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	5e-24
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	8e-24
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	1e-23
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-22
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	9e-22
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	2e-21
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-21
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	4e-21
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	3e-20
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	7e-20

>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 =  134 bits (339), Expect = 9e-41
 Identities = 93/153 (60%), Positives = 126/153 (82%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+AV+FDGGVV+GADSR++TG+Y+ANRV DKLT + D I+CCRSGSAADTQA++D V+
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
           Y L    +EL E PLV++ A LF+E+ Y YR+ L AGII AGWD ++GGQVY +P+GGM+
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +RQ  A+GGSGS+Y+YG++D  ++E MTK+E +
Sbjct: 121 VRQSFAIGGSGSSYIYGYVDATYREGMTKEECL 153

>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 =  122 bits (307), Expect = 5e-36
 Identities = 87/154 (56%), Positives = 116/154 (75%), Gaps = 1/154 (0%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G +I+AV F  GV++GADSR++TGAY+ANRV DKLTRV D I+CCRSGSAADTQAI+D V
Sbjct: 9   GASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGM 147
            Y+L+L   + G  P   + A +F+EL Y  +D+LTAGII AG+D K  G+VY IPLGG 
Sbjct: 69  QYHLELYTSQYG-TPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGS 127

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           + +   A+ GSGST++YG+ D  F+ENM+K+E +
Sbjct: 128 VHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETV 161

>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 =  121 bits (304), Expect = 2e-35
 Identities = 51/153 (33%), Positives = 90/153 (58%), Gaps = 1/153 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+ V+F+ GVVI AD+RS+ G  VA++   KL R++  I+C  +G+AADT+A++  + 
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            N++L  +    EP V S  ++ ++ ++ Y+  + A +I AG D   G  ++ I   G  
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVD-PTGSHLFSIHAHGST 119

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
                   GSGS      +++ +K+++TK+EA+
Sbjct: 120 DVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAI 152

>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 =  117 bits (295), Expect = 4e-34
 Identities = 42/154 (27%), Positives = 83/154 (53%), Gaps = 1/154 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A  F GG+++  DSR++ G +VA++   ++  +   +    +G AAD Q    ++ 
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAGWDRKKGGQVYCIPLGGM 147
               L  +   E   V + +K+   LVY Y+ + L+ G +  G+ RK+G  +Y +   G 
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            ++  +   GSG T+ YG +D+ +K +++ ++A+
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDAL 154

>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 =  115 bits (289), Expect = 3e-33
 Identities = 48/153 (31%), Positives = 85/153 (55%), Gaps = 1/153 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI  V +  G+V+GAD+R++ G  VA++   K+  ++ NIYCC +G+AADT   +  +S
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
            NL+L  +  G  P V +  ++ +++++ YR  + A ++  G D   G  +Y I   G  
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVD-VTGPHLYSIYPHGST 119

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +      GSGS       +++F+ +M ++EA 
Sbjct: 120 DKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAK 152

>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 =  110 bits (276), Expect = 2e-31
 Identities = 38/154 (24%), Positives = 74/154 (48%), Gaps = 1/154 (0%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT + +    GVV+  + R++ G ++A++ A K+ ++ D +    +GS  D Q ++  + 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGM 147
              +L  +    +P V + A L   L+ SYR       ++  G D +        P+GG 
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGA 120

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +  + +   GSGS   YG ++++F   +   EA+
Sbjct: 121 IEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAV 154

>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 =  110 bits (275), Expect = 5e-31
 Identities = 36/158 (22%), Positives = 64/158 (40%), Gaps = 2/158 (1%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G TI+ +  +   V+  D+R+ T   + +R   K+    DNI    +G AAD  A+    
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 88  SYNLDLQRMELG-EEPLVYSGAKLFQELVYSY-RDSLTAGIICAGWDRKKGGQVYCIPLG 145
             ++     +   ++  + S A+  Q L+Y           I AG D    G VY     
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPV 128

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
           G   R++   GG+ ++ +   +DNQ       +   + 
Sbjct: 129 GSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNG 166

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 198

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  107 bits (267), Expect = 4e-30
 Identities = 27/159 (16%), Positives = 64/159 (40%), Gaps = 4/159 (2%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
             I+ +     V++ +    + G  V     DK  +++ +     +G A DT   ++++ 
Sbjct: 2   DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQ 61

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELV---YSYRDSLTAGIICAGWDRKKGG-QVYCIPL 144
            N+ L  +    E    + +   ++ +      R      ++  G+D+KK   ++Y I  
Sbjct: 62  ANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDY 121

Query: 145 GGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
            G  +       G    Y +  +D+ ++ +MT +E +  
Sbjct: 122 LGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDL 160

>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 =  107 bits (268), Expect = 7e-30
 Identities = 33/167 (19%), Positives = 59/167 (35%), Gaps = 13/167 (7%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GT++I++++D GV+I AD+  S G+ +     ++L  V DN     SG  +D Q I   +
Sbjct: 8   GTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67

Query: 88  SYNLDLQRME-----LGEEPLVYSGAKLFQELVYSYRDSLT---AGIICAGWDRKKGGQV 139
              +     +       E        +    ++Y  R  +      II AG        +
Sbjct: 68  KDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFL 127

Query: 140 YCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKE-----NMTKKEAM 181
             + L G+         G G+      +             T + A 
Sbjct: 128 RYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAE 174

>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 =  105 bits (264), Expect = 1e-29
 Identities = 44/156 (28%), Positives = 77/156 (49%), Gaps = 2/156 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT +A +F  GV++ ADSR++ GAY+A++   K+  +   +    +G AAD       ++
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGM 147
               +  +   E   V + +KL   +VY Y+   L+ G +  GWD++  G  Y    G  
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
           +     ++ GSGS Y YG MD  +  ++  ++A   
Sbjct: 121 ISGATFSV-GSGSVYAYGVMDRGYSYDLEVEQAYDL 155

>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 =  102 bits (256), Expect = 2e-28
 Identities = 31/157 (19%), Positives = 63/157 (40%), Gaps = 3/157 (1%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G  ++A++    V I AD R    A +      K+  + D +Y   +G A D Q ++  +
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSY-RDSLTAGIICAGWDRKKGGQ--VYCIPL 144
            + L+L  ++ G +   Y+   +   L+Y           + AG D K           +
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLI 126

Query: 145 GGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           G  ++     + G+ +  +YG  ++ ++ NM      
Sbjct: 127 GCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLF 163

>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 =  102 bits (255), Expect = 3e-28
 Identities = 31/154 (20%), Positives = 66/154 (42%), Gaps = 3/154 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TT + +     V++  + R +   ++ ++   KL ++        +G   D Q +  ++ 
Sbjct: 1   TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMK 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-LTAGIICAGWDRKKGGQVYCIPLGGM 147
             L+L R++      + + A L   ++   +       ++  G D      V+ I   G 
Sbjct: 61  AELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID--TAPHVFSIDAAGG 118

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
            +    A  GSGS ++YG +++Q+ E MT  E +
Sbjct: 119 SVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGV 152

>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 =  100 bits (251), Expect = 2e-27
 Identities = 23/163 (14%), Positives = 58/163 (35%), Gaps = 17/163 (10%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G +++ + F  GV+  A++ S+           K++ + D +     G   + + +    
Sbjct: 19  GRSVVVLTFRDGVLFVAENPSTAL--------HKVSELYDRLGFAAVGKYNEFENLRRAG 70

Query: 88  SYNLDLQRMELGEEP-----LVYSGAKLFQELVYSYRDSLTAGIICAGWD---RKKGGQV 139
             + D++             L  + A+    +           I  A        K  Q+
Sbjct: 71  IVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQL 130

Query: 140 YCIPLGGMLMRQKMAMGGSGSTY-LYGHMDNQFKENMTKKEAM 181
           Y I   G ++ ++  +   G+T  +   M   ++ ++  + A+
Sbjct: 131 YRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAV 173

>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 =  101 bits (252), Expect = 2e-27
 Identities = 27/160 (16%), Positives = 62/160 (38%), Gaps = 6/160 (3%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
             T + +  + GV++ A+ R+          ++K+ ++ +++ C  +G  +D   +++ +
Sbjct: 30  AGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNEL 89

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCI 142
                   ++  E            ++  +Y     +      ++  GWD+  G Q+Y  
Sbjct: 90  RLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQS 149

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKE-NMTKKEAM 181
              G     K    G+ S      +   +KE  MT K A+
Sbjct: 150 DPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSAL 189

>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 =   99 bits (248), Expect = 5e-27
 Identities = 30/164 (18%), Positives = 60/164 (36%), Gaps = 11/164 (6%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+A+ + GGV++  D R++ G  +A+R  +K+    +      +G+A     +    +
Sbjct: 1   TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFA 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS---------LTAGIICAGWDRKKGGQV 139
             L+      G        A     +V     +         L  G      D  + G++
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRI 120

Query: 140 YCIPLGGMLM--RQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
               + G     R      GSGS +    +   +  +  ++ A+
Sbjct: 121 VSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETAL 164

>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 = 99.2 bits (246), Expect = 8e-27
 Identities = 37/164 (22%), Positives = 62/164 (37%), Gaps = 10/164 (6%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G TI+A+  +   ++ +D+R S G  +  R + K  ++TD      SG   D   ++  +
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSY-RDSLTAGIICAGWDRKKGGQVYCIPLGG 146
              L + +    +     + A +   ++YS          I  G D +  G VY     G
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVG 128

Query: 147 MLMRQKMAMGGSGSTYLYGHMDNQFK---------ENMTKKEAM 181
              R     GGS S  L   +DNQ             ++   AM
Sbjct: 129 SYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAM 172

>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 = 99.7 bits (248), Expect = 8e-27
 Identities = 26/158 (16%), Positives = 50/158 (31%), Gaps = 6/158 (3%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
            +T I +    GVV G +    +  Y       +L  V  ++    +G  AD ++++D  
Sbjct: 33  SSTAIGIRCKDGVVFGVEKLVLSKLYEEGSN-KRLFNVDRHVGMAVAGLLADARSLADIA 91

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCI 142
                  R   G    +   A      V++Y             +   +    G Q+Y I
Sbjct: 92  REEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMI 151

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
              G+         G         ++    + MT ++ 
Sbjct: 152 DPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDI 189

>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 = 99.3 bits (247), Expect = 8e-27
 Identities = 32/164 (19%), Positives = 62/164 (37%), Gaps = 12/164 (7%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T I ++   GV +  + R ++   +     +K+  +  +I C  SG  AD + + D  
Sbjct: 27  GSTAIGIQTSEGVCLAVEKRITSP-LMEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKA 85

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS----------LTAGIICAGWDRKKGG 137
                       E   V S  +    L   + +               ++  G D +KG 
Sbjct: 86  RVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVD-EKGP 144

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           Q++ +   G  ++      GS S      +   + ++MT KEA+
Sbjct: 145 QLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAI 188

>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 = 96.9 bits (240), Expect = 5e-26
 Identities = 29/156 (18%), Positives = 67/156 (42%), Gaps = 3/156 (1%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
             +I ++    V++ +D  +++         DK+ ++++ I     G A DT   ++++ 
Sbjct: 2   EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQ 61

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLT---AGIICAGWDRKKGGQVYCIPLG 145
            N+ L +M  G E    + A   +  +     S T     ++ AG+D  +G  +Y +   
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYL 121

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
             L +   A  G G+      +D  +   ++++ A+
Sbjct: 122 AALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAV 157

>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 = 97.4 bits (242), Expect = 6e-26
 Identities = 30/162 (18%), Positives = 57/162 (35%), Gaps = 10/162 (6%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GTT I ++ + GVV   +   ++   V  +   K+  V  +I C  SG   D + + +  
Sbjct: 30  GTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCVYSGLIPDGRHLVNRG 88

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCI 142
                  +        + + A    + V ++             I  G   K G  +Y +
Sbjct: 89  REEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGV-DKNGAHLYML 147

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMD---NQFKENMTKKEAM 181
              G     K A  G G       ++   +   E ++ +EA+
Sbjct: 148 EPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAV 189

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 204

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 96.0 bits (238), Expect = 9e-26
 Identities = 26/157 (16%), Positives = 63/157 (40%), Gaps = 4/157 (2%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G  ++A+     V I  D R  + +   +   +K+     +++   +G A D   +++  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMF 66

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGG--QVYCIPL 144
            Y  +L +++        +  +L    +Y  R      G + AG + K G         +
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLI 126

Query: 145 GGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           G +   +   + G+ S  L+G  ++ ++ N+  ++  
Sbjct: 127 GCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLF 163

>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 = 96.0 bits (238), Expect = 1e-25
 Identities = 30/161 (18%), Positives = 60/161 (37%), Gaps = 5/161 (3%)

Query: 26  SCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISD 85
             GT+++ V+F+GGVVI AD   S G+    R   ++ RV ++     SG  AD Q +  
Sbjct: 6   VTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQ 65

Query: 86  FVSYNLDL-QRMELGEEPLVYSGAKLFQELVYSY--RDSLTAGIICAGWDRKKGGQVYCI 142
            +   +   + +  G      +        +YS   + +     +  G        +  +
Sbjct: 66  VLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYV 125

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFK--ENMTKKEAM 181
            + G+         G G+      +    +    +++ EA 
Sbjct: 126 DMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEAR 166

>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 = 96.3 bits (239), Expect = 2e-25
 Identities = 27/159 (16%), Positives = 60/159 (37%), Gaps = 5/159 (3%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
             T I +    G+V+ A+ + ++     +   +KL ++ D I    +G  AD + + +  
Sbjct: 31  AGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTA 90

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELV-----YSYRDSLTAGIICAGWDRKKGGQVYCI 142
             +         E+  V    +   ++      +          I AG+D + G Q+Y  
Sbjct: 91  RIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTS 150

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
              G     K    G+ ++     +   +K++M   +A+
Sbjct: 151 NPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAI 189

>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 = 95.9 bits (238), Expect = 3e-25
 Identities = 26/159 (16%), Positives = 55/159 (34%), Gaps = 6/159 (3%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T + V     VV+G + +S        R   K+  + DN+    +G  AD + + +  
Sbjct: 28  GSTAVGVRGRDIVVLGVEKKS-VAKLQDERTVRKICALDDNVCMAFAGLTADARIVINRA 86

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCI 142
                  R+ + +   V    +    L   Y     R       +  G+D     ++Y  
Sbjct: 87  RVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQT 146

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
              G     K    G G+  +   ++  + +   + + +
Sbjct: 147 DPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDL 185

>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 = 95.2 bits (236), Expect = 5e-25
 Identities = 35/164 (21%), Positives = 67/164 (40%), Gaps = 12/164 (7%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T I +    GVV+G + R+++   + +   +K+  +  +I C  SG  AD +++ +  
Sbjct: 26  GSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADARSMIEHA 84

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-----------LTAGIICAGWDRKKG 136
                   +   E+  V S  +   +L   + +                ++ AG D   G
Sbjct: 85  RTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDG 144

Query: 137 GQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
            Q++     G   R      GSGS      + N++  ++T KEA
Sbjct: 145 YQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEA 188

>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 = 93.6 bits (232), Expect = 2e-24
 Identities = 28/163 (17%), Positives = 58/163 (35%), Gaps = 9/163 (5%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           GT  + V+    VV+G + RS+           K++++  ++    SG  AD++ + +  
Sbjct: 28  GTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEKA 87

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDS-----LTAGIICAGWD-RKKGGQVYC 141
                  R+ L +   V    +    +   Y  S          + AG+D R    ++Y 
Sbjct: 88  RVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQ 147

Query: 142 IPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKEN---MTKKEAM 181
               G+         G  S  +   ++  +       T +E +
Sbjct: 148 TEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECV 190

>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 = 93.6 bits (232), Expect = 2e-24
 Identities = 20/166 (12%), Positives = 46/166 (27%), Gaps = 6/166 (3%)

Query: 23  AKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA 82
           A +      +AV      V+ +  +      +       +  ++  I    +G   D + 
Sbjct: 25  ATNQTNINSLAVRGKDCTVVISQKK-VPDKLLDPTTVSYIFCISRTIGMVVNGPIPDARN 83

Query: 83  ISDFVSYNLDLQRMELGEEP-----LVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGG 137
            +          R + G +                    +Y   L   +     D + G 
Sbjct: 84  AALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGP 143

Query: 138 QVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
            +Y     G  +  K    G     +  +++N FK++        +
Sbjct: 144 SIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEES 189

>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 = 92.1 bits (228), Expect = 5e-24
 Identities = 32/159 (20%), Positives = 68/159 (42%), Gaps = 7/159 (4%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+T + ++F  GV++ +D +      +     +K+  + D +    SG  AD + + DF 
Sbjct: 22  GSTALGMKFANGVLLISDKKV-RSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFA 80

Query: 88  SYNLDLQRMELGEEP-----LVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCI 142
             +   +++  G        +     ++ Q   Y         +I AG   + G +++  
Sbjct: 81  RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGI-DQIGPRLFDC 139

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
              G +   K    GSG   +   ++ ++KEN+ +KEA+
Sbjct: 140 DPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAV 178

>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 = 92.0 bits (228), Expect = 8e-24
 Identities = 29/159 (18%), Positives = 63/159 (39%), Gaps = 8/159 (5%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G T I ++   GV++ AD R  +     + + +K+ ++ ++I    SG  AD + + D  
Sbjct: 31  GATAIGIKCKEGVILIADKRVGSKLLEKDTI-EKIYKIDEHICAATSGLVADARVLIDRA 89

Query: 88  SYNLDLQRMELGEEPLVYS-----GAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCI 142
                + R+       V            Q   Y         ++ AG +  +  ++Y  
Sbjct: 90  RIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN--EVPKLYET 147

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
              G L+  K    G G   +    + +++++++  +AM
Sbjct: 148 DPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAM 186

>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 = 91.3 bits (226), Expect = 1e-23
 Identities = 34/160 (21%), Positives = 64/160 (40%), Gaps = 7/160 (4%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G T + ++   GVVI  + +SS+   ++  +  K++ +T +I    SG   D + + D  
Sbjct: 31  GVTSLGIKATNGVVIATEKKSSSPLAMSETL-SKVSLLTPDIGAVYSGMGPDYRVLVDKS 89

Query: 88  SYNLDLQRMELGEEP-----LVYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYC 141
                     +  E      LV   AK+ QE   S         ++ AG D   G  +Y 
Sbjct: 90  RKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQ 149

Query: 142 IPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAM 181
           +   G     K    G GS      ++ ++ + +  ++A+
Sbjct: 150 VDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAI 189

>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 = 88.2 bits (218), Expect = 2e-22
 Identities = 24/154 (15%), Positives = 50/154 (32%), Gaps = 9/154 (5%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+  + ++     V+ A  R+ +      +   K+  V ++I    +G  AD + + +F+
Sbjct: 29  GSATVGLKSKTHAVLVALKRAQSELAAHQK---KILHVDNHIGISIAGLTADARLLCNFM 85

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCI 142
                  R        V     L             R     G++ AG+D   G  ++  
Sbjct: 86  RQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYD-DMGPHIFQT 144

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMT 176
                    +    G+ S     +++    E M 
Sbjct: 145 CPSANYFDCRAMSIGARSQSARTYLERHMSEFME 178

>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 = 85.2 bits (210), Expect = 9e-22
 Identities = 25/155 (16%), Positives = 43/155 (27%), Gaps = 9/155 (5%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTD--NIYCCRSGSAADTQAISD 85
            TTI AV+  G   +  D + + G  V  +   +  R      +    +GS AD   + +
Sbjct: 5   ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

Query: 86  FVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLG 145
                L+     L    +  +      +++      L              G+V      
Sbjct: 65  KFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPD-- 122

Query: 146 GMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
                  +   GSG  Y         K       A
Sbjct: 123 -----DGILAIGSGGNYALAAGRALKKHAGESMSA 152

>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 = 84.0 bits (207), Expect = 2e-21
 Identities = 22/152 (14%), Positives = 46/152 (30%), Gaps = 7/152 (4%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVS 88
           TTI+ V  +G  V+G D + + G+ V    A K+ ++ +         +           
Sbjct: 1   TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF 60

Query: 89  YNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGML 148
                +      +  V        + V    ++L           K+   +       + 
Sbjct: 61  EAKLREWGGNLTKAAVELAKDWRTDRVLRRLEAL------LLVADKENIFIISGNGEVIQ 114

Query: 149 MRQKMAMGGSGSTYLYGHMDNQFKE-NMTKKE 179
                A  GSG  Y         +  +++ +E
Sbjct: 115 PDDDAAAIGSGGPYALAAAKALLRNTDLSARE 146

>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 = 85.4 bits (211), Expect = 3e-21
 Identities = 35/161 (21%), Positives = 60/161 (37%), Gaps = 8/161 (4%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G T +AV      VI    +       ++ V   L ++T+NI C  +G  AD+++     
Sbjct: 35  GLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV-THLFKITENIGCVMTGMTADSRSQVQRA 93

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCI 142
            Y     + + G E  V    K   ++   Y        L   +I  G D ++G QVY  
Sbjct: 94  RYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKC 153

Query: 143 PLGGMLMRQKMAMGGSGSTYLYGHMDNQFKEN--MTKKEAM 181
              G     K    G   T     ++ + K+    T ++ +
Sbjct: 154 DPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTV 194

>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 = 82.9 bits (204), Expect = 4e-21
 Identities = 31/153 (20%), Positives = 56/153 (36%), Gaps = 9/153 (5%)

Query: 29  TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDN-IYCCRSGSAADTQAISDFV 87
           TTI++V  +G VV+G D + S G  V    A K+ R+ +  +    +G  AD   + +  
Sbjct: 1   TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELF 60

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGM 147
              L++ +  L +       AK ++      +       +    D K+   +  I     
Sbjct: 61  ERKLEMHQGHLLKS--AVELAKDWRTDRALRKLEA----MLIVADEKESLIITGIGDVVQ 114

Query: 148 LMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEA 180
               ++   GSG  Y             T+  A
Sbjct: 115 PEEDQILAIGSGGNYALSAAR--ALVENTELSA 145

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 233

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 82.4 bits (203), Expect = 3e-20
 Identities = 24/163 (14%), Positives = 56/163 (34%), Gaps = 13/163 (7%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G+  + +  +   V+ A  R++       +   K+ +  +++    +G A D + +S+++
Sbjct: 31  GSVTVGLRSNTHAVLVALKRNADELSSYQK---KIIKCDEHMGLSLAGLAPDARVLSNYL 87

Query: 88  SYNLDLQRMELGEEPLVYSGAKLFQELV-----YSYRDSLTAGIICAGWDRKKGGQVYCI 142
               +   +    +  V     L  +                G++  G+  K G  +   
Sbjct: 88  RQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGY-DKSGAHLLEF 146

Query: 143 PLGGMLMRQKMAMGGSGS----TYLYGHMDNQFKENMTKKEAM 181
              G +        G+ S    TYL   +D   K +    E +
Sbjct: 147 QPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELI 189

>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 = 81.3 bits (200), Expect = 7e-20
 Identities = 21/160 (13%), Positives = 48/160 (30%), Gaps = 5/160 (3%)

Query: 28  GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFV 87
           G   + ++   GVV+  + +  +      R   K+  +T +I    SG   D + +    
Sbjct: 31  GAPSVGIKAANGVVLATEKKQKSI-LYDERSVHKVEPITKHIGLVYSGMGPDYRVLVHRA 89

Query: 88  SYNLDLQRMELGEEPLVYSGAKLF----QELVYSYRDSLTAGIICAGWDRKKGGQVYCIP 143
                   +   E        +      QE   S         +      +    ++   
Sbjct: 90  RKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSD 149

Query: 144 LGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST 183
             G     K    G         ++ ++ E++  ++A+ T
Sbjct: 150 PSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHT 189

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	184
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypl_	212	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
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
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
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.91
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.91
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.87

>d1irug_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.1e-51  Score=325.12  Aligned_cols=178  Identities=16%  Similarity=0.188  Sum_probs=169.7

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +.++++|+|||+|||||++|+++|+|+|||+++||||||+|+|.+.+.+ ...+.+||++|++|++|++||+.+|++.++
T Consensus        10 ~~t~Fsp~Grl~QvEYa~~av~~G~t~VGik~~dgVvlaad~~~~~~~~-~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~   88 (245)
T d1irug_          10 SASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLY-EEGSNKRLFNVDRHVGMAVAGLLADARSLA   88 (245)
T ss_dssp             CTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTB-CTTTTCCEEEEETTEEEEEEECHHHHHHHH
T ss_pred             CCceECCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEecccccccc-ccCccceEEEcCCCEEEEeccCchhHHHHH
Confidence            5678999999999999999999999999999999999999999888554 678889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecC
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSG  159 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g  159 (184)
                      +.++.+++.|++.++.+++++.+++.+++++|.++     +|+++++||+|+|++++|+||.+||+|++.+++++|+|++
T Consensus        89 ~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~~~~~~~~a~G~g  168 (245)
T d1irug_          89 DIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKA  168 (245)
T ss_dssp             HHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEESTT
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCceEEeeeEEEECCc
Confidence            99999999999999999999999999999988764     4999999999999878999999999999999999999999


Q ss_pred             HHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         160 STYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       160 ~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++.++++||+.|+++||.|||+++
T Consensus       169 s~~a~~~Le~~~~~dmt~eea~~l  192 (245)
T d1irug_         169 RQAAKTEIEKLQMKEMTCRDIVKE  192 (245)
T ss_dssp             HHHHHHHHTTSCGGGCCHHHHHHH
T ss_pred             cHHHHHHHHhhcCCCCCHHHHHHH
Confidence            999999999999999999999986

>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=1.1e-50  Score=321.90  Aligned_cols=180  Identities=16%  Similarity=0.241  Sum_probs=172.3

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+-++++|+|||+|||||++|+++|+|+|||+++||||||+|++.+++.++.+++.+|||+|++|++|++||+.+|++.+
T Consensus         6 ~~~t~fsp~Grl~QvEyA~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   85 (250)
T d1iruc_           6 SRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVL   85 (250)
T ss_dssp             CCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHHH
T ss_pred             CCCeeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccchHHHH
Confidence            45678999999999999999999999999999999999999999999988888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      ++.++.++..|++.++.+++++.+++.++.+++.++     +|+++++||+|+|+++||+||.+||+|++.+++++|+|+
T Consensus        86 ~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~~~~~~~a~G~  165 (250)
T d1iruc_          86 TNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGN  165 (250)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSEEEEST
T ss_pred             HHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEcccccEeeeeEEEeCc
Confidence            999999999999999999999999999999998875     499999999999987899999999999999999999999


Q ss_pred             CHHhHHHHHhccCCC-CCCHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFKE-NMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~~-~~s~eea~~l  183 (184)
                      |++.+.++||+.|++ +||+|||+++
T Consensus       166 gs~~a~~~Le~~y~~~~ms~eeai~l  191 (250)
T d1iruc_         166 NSAAAVSMLKQDYKEGEMTLKSALAL  191 (250)
T ss_dssp             TTTHHHHHHHHHCCTTCCCHHHHHHH
T ss_pred             ChHHHHHHHHhhcccCCCCHHHHHHH
Confidence            999999999999985 8999999986

>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=2.8e-50  Score=314.16  Aligned_cols=175  Identities=20%  Similarity=0.340  Sum_probs=167.1

Q ss_pred             cccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHH
Q psy2074           7 NVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDF   86 (184)
Q Consensus         7 ~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~   86 (184)
                      ++++|+|||+|||||++++++|+|+|||+++||||||+|+|.+. .++.+++.+||++|++|++++++|+.+|++.+.+.
T Consensus         1 t~fsp~G~l~QvEYa~~av~~G~t~vgi~~~dgVvlaad~r~~~-~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~   79 (221)
T d1yara1           1 TVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRS-RLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF   79 (221)
T ss_dssp             CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCC-TTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             CeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEecccCC-cccccCccceEEEecCCceEEeeeccchHHHHHHH
Confidence            46899999999999999999999999999999999999999884 66678889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHH
Q psy2074          87 VSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGST  161 (184)
Q Consensus        87 l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~  161 (184)
                      ++.+++.|++.++++++++.+++.++.+++.++     +|+++++||+|+|+ +||+||.+||+|++.+++++|+|+|++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~  158 (221)
T d1yara1          80 ARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQ-IGPRLFDCDPAGTINEYKATAIGSGKD  158 (221)
T ss_dssp             HHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECS-SCEEEEEECTTCCEEEBSEEEESTTHH
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEec-CCCeEEEEcCCccEEEeeEEEECCchH
Confidence            999999999999999999999999999998764     49999999999998 789999999999999999999999999


Q ss_pred             hHHHHHhccCCCCCCHHHHhhc
Q psy2074         162 YLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       162 ~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      .++++||+.|+++||.|||+++
T Consensus       159 ~~~~~Le~~~~~~ms~~ea~~l  180 (221)
T d1yara1         159 AVVSFLEREYKENLPEKEAVTL  180 (221)
T ss_dssp             HHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHhhccccHHHHHHH
Confidence            9999999999999999999876

>d1rype_ d.153.1.4 (E:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.3e-50  Score=318.55  Aligned_cols=178  Identities=20%  Similarity=0.286  Sum_probs=169.5

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +.+.++|+||++|||||++|+++|+|+|||+++||||||+|+|.+.+ +...++.+||++|+++++|++||+.+|++.++
T Consensus         3 ~~t~fsp~G~l~Qveya~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~-~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   81 (242)
T d1rype_           3 GVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADARSMI   81 (242)
T ss_dssp             CTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSST-TBCGGGCCCEEEEETTEEEEEEESGGGHHHHH
T ss_pred             CcceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCccCc-CcccCccceEEEcCCCEEEEEeecchhHHHHH
Confidence            56789999999999999999999999999999999999999999986 56677899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----------CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCe
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----------RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKM  153 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----------r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~  153 (184)
                      ++++.+++.|++.++++++++.+++.++++++.+           .+||++++||+|+|++++|+||.+||+|++.++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~~~~  161 (242)
T d1rype_          82 EHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNA  161 (242)
T ss_dssp             HHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceeccce
Confidence            9999999999999999999999999999988754           25999999999999878899999999999999999


Q ss_pred             EEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         154 AMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       154 ~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +|+|+|+++++++||+.|+++||++||+++
T Consensus       162 ~a~G~gs~~~~~~Le~~~~~~ms~~ea~~l  191 (242)
T d1rype_         162 KAIGSGSEGAQAELLNEWHSSLTLKEAELL  191 (242)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             eecccchHHHHHHHHHhccCCCCHHHHHHH
Confidence            999999999999999999999999999886

>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=4.5e-50  Score=317.28  Aligned_cols=179  Identities=17%  Similarity=0.232  Sum_probs=171.8

Q ss_pred             cccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHH
Q psy2074           5 DYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAIS   84 (184)
Q Consensus         5 ~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~   84 (184)
                      +-++++|+||++|||||++|+++|+|+|||+++||||||+|+|.+++.++.+++.+||++|+++++++++|..+|++.++
T Consensus         8 ~~t~fsp~G~~~Qveya~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~   87 (244)
T d1rypc_           8 RTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILI   87 (244)
T ss_dssp             CTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHHHH
T ss_pred             CceeECCCCcChHHHHHHHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCcHHHHH
Confidence            45678999999999999999999999999999999999999999999888888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecC
Q psy2074          85 DFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSG  159 (184)
Q Consensus        85 ~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g  159 (184)
                      +.++.+++.|++.++++++++.+++.++++++.+     .+|+++++||+|+|++++|+||.+||+|++.+++++|+|+|
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~~~~~a~G~g  167 (244)
T d1rypc_          88 NTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGAN  167 (244)
T ss_dssp             HHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEESTT
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEecCCCcEeeeeeeeccch
Confidence            9999999999999999999999999999998764     35999999999999878999999999999999999999999


Q ss_pred             HHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         160 STYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       160 ~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +.+++++||+.|+++||+|||+++
T Consensus       168 ~~~a~~~Le~~~~~~ms~eeai~l  191 (244)
T d1rypc_         168 TSAAQTLLQMDYKDDMKVDDAIEL  191 (244)
T ss_dssp             HHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             hHHHHHHHHhcccCCCCHHHHHHH
Confidence            999999999999999999999986

>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=7.6e-50  Score=317.00  Aligned_cols=180  Identities=17%  Similarity=0.212  Sum_probs=168.6

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+-++++|+|||+|||||++|+++|+|+|||+++||||||+|+|.+++. +..++.+||++|++|++|++||..+|++.+
T Consensus         7 ~~~t~fsp~G~l~QvEyA~kav~~G~tvvgi~~~dgVvlaad~r~~~~~-~~~~~~~ki~~I~~~i~~~~sG~~~D~~~l   85 (250)
T d1rypb_           7 FSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPL-AMSETLSKVSLLTPDIGAVYSGMGPDYRVL   85 (250)
T ss_dssp             SBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSS-BCGGGCCSSEEEETTEEEEEEECHHHHHHH
T ss_pred             CCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCcc-ccccccceeEeccCCEEEEeeecccHHHHH
Confidence            4557899999999999999999999999999999999999999988764 467889999999999999999999999999


Q ss_pred             HHHHHHHHHH-HHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          84 SDFVSYNLDL-QRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        84 ~~~l~~~~~~-~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      +++++.+++. |+..++++++++.+++.++++++.++     +|+++++||+|+|+++||+||++||.|++.+++++|+|
T Consensus        86 ~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id~~G~~~~~~~~a~G  165 (250)
T d1rypb_          86 VDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIG  165 (250)
T ss_dssp             HHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEcCcEEEEEeeEEecC
Confidence            9999999874 88899999999999999999997654     49999999999998789999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         158 SGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +|++++.++||+.|+++||++||++++
T Consensus       166 ~gs~~a~~~Le~~~~~~ms~eea~~la  192 (250)
T d1rypb_         166 KGSVAAKTFLEKRWNDELELEDAIHIA  192 (250)
T ss_dssp             TTHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             cchHHHHHHHHHhcccCCCHHHHHHHH
Confidence            999999999999999999999999863

>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=7.5e-50  Score=314.23  Aligned_cols=178  Identities=19%  Similarity=0.289  Sum_probs=168.6

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      -+-++++|+|||+|||||++|+++|+|+|||+++||||||+|++.+.+. +..++.+||++|++|+++++||+.+|++.+
T Consensus         3 ~~~t~fsp~G~l~QvEYa~kav~~G~t~vgik~~dgVvlaad~~~~~~~-~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   81 (234)
T d1irue_           3 RGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPL-MEPSSIEKIVEIDAHIGCAMSGLIADAKTL   81 (234)
T ss_dssp             CCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTT-BCTTSCCSEEEEETTEEEEEEECHHHHHHH
T ss_pred             CCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCccCCC-cccCcccCEEEccCcEEEEEeeccchHHHH
Confidence            3567899999999999999999999999999999999999999998865 457888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc----------CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCe
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY----------RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKM  153 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~----------r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~  153 (184)
                      ++.++.++..|++.++++++++.+++.+++++|.+          .+|+++++|+||||+ +||+||.+||+|++.++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~-~gp~Ly~idp~G~~~~~~~  160 (234)
T d1irue_          82 IDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDE-KGPQLFHMDPSGTFVQCDA  160 (234)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEET-TEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcC-CCCEEEEEecCcccceeee
Confidence            99999999999999999999999999999998764          359999999999998 7899999999999999999


Q ss_pred             EEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         154 AMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       154 ~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +|+|+|+++++++||+.|+++|++|||+++
T Consensus       161 ~a~G~gs~~~~~~Le~~~~~~~~~eeai~~  190 (234)
T d1irue_         161 RAIGSASEGAQSSLQELYHKSMTLKEAIKS  190 (234)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             EEeCCchHHHHHHHHHhhccCCCHHHHHHH
Confidence            999999999999999999999999999875

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.1e-49  Score=315.19  Aligned_cols=178  Identities=18%  Similarity=0.205  Sum_probs=168.3

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+-++++|+|||+|||||++|+++|+|+|||+++||||||+|+|.+++..+ .+..+||++|++|++|+++|+.+|++.+
T Consensus         6 ~~~t~fsp~Grl~QvEya~kav~~G~t~igik~~dgVvlaad~~~~~~~~~-~~~~~KI~~I~~~i~~~~sG~~~D~~~l   84 (244)
T d1rypg_           6 LSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV-PQKNVKIQVVDRHIGCVYSGLIPDGRHL   84 (244)
T ss_dssp             SSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBC-TTTSCCCEEETTTEEEEEEECHHHHHHH
T ss_pred             CCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCCCcc-ccccceEEEccCceEEEEccchhhHHHH
Confidence            456789999999999999999999999999999999999999999997654 5667899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      ++.++.+++.|++.++++++++.+++.++..+|.++     +|+++++|+||||+ +||+||.+||+|++.+++++|+|+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~-~gp~Ly~idp~Gs~~~~~~~a~G~  163 (244)
T d1rypg_          85 VNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDK-NGAHLYMLEPSGSYWGYKGAATGK  163 (244)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEET-TEEEEEEECTTSCEEEBSEEEEST
T ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeC-CCCEEEEEcCCccEEecCeEecCC
Confidence            999999999999999999999999999999998764     49999999999998 799999999999999999999999


Q ss_pred             CHHhHHHHHhc---cCCCCCCHHHHhhc
Q psy2074         159 GSTYLYGHMDN---QFKENMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~---~~~~~~s~eea~~l  183 (184)
                      |+..++++||+   .|+++||+|||+++
T Consensus       164 gs~~~~~~Lek~~~~~~~~mt~eeai~l  191 (244)
T d1rypg_         164 GRQSAKAELEKLVDHHPEGLSAREAVKQ  191 (244)
T ss_dssp             THHHHHHHHHHHHHHCTTCCCHHHHHHH
T ss_pred             ccHHHHHHHHHHHhhCCCCCCHHHHHHH
Confidence            99999999996   69999999999986

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.4e-49  Score=312.93  Aligned_cols=180  Identities=16%  Similarity=0.239  Sum_probs=168.6

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+-+.++|+|||+|||||.+|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|+++++|++||+.+|++.
T Consensus         3 d~~~t~Fsp~Grl~QvEya~kav~~G~Tvvgik~~dgVvla~d~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   81 (243)
T d1irud_           3 DRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSV-AKLQDERTVRKICALDDNVCMAFAGLTADARI   81 (243)
T ss_dssp             CCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCC-CSSSCGGGGCSEEESSSSCEEEEEECHHHHHH
T ss_pred             CCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccc-CcccCCCccccEEECCCCEEEEEEEchhhHHH
Confidence            34567899999999999999999999999999999999999999976 67878899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      +++.++.+++.|++.++.+|+++.+++.+++++|.+     ++|+++++||+|||++++|+||.+||+|++.+++++|+|
T Consensus        82 l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~~~a~G  161 (243)
T d1irud_          82 VINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIG  161 (243)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcEEEEeccEEEEC
Confidence            999999999999999999999999999999999765     359999999999998789999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCCCC--CHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQFKENM--TKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~~~--s~eea~~l  183 (184)
                      +|++.++++||+.|+++|  +.++|+++
T Consensus       162 ~gs~~a~~~Lek~~~~~~~~~~~~~i~~  189 (243)
T d1irud_         162 RGAKSVREFLEKNYTDEAIETDDLTIKL  189 (243)
T ss_dssp             TTHHHHHHHHTTTCCSSTTCSHHHHHHH
T ss_pred             CChHHHHHHHHHhcccCCCccHHHHHHH
Confidence            999999999999999998  66667664

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.9e-49  Score=312.62  Aligned_cols=180  Identities=20%  Similarity=0.240  Sum_probs=167.9

Q ss_pred             cccccccccCCCCCCCccccccccCCc-eEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGT-TIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQ   81 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~-t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~   81 (184)
                      ..+.+.++|+||++|||||++|+++|+ |+|||+++||||||+|+|.+. .++..++.+||++|++|++|++||+.+|++
T Consensus         9 d~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   87 (244)
T d1irua_           9 DRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPD-KLLDSSTVTHLFKITENIGCVMTGMTADSR   87 (244)
T ss_dssp             TTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCC-SSBCGGGCCSEEESSSSCEEEEEECHHHHH
T ss_pred             CCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEeccccc-ccccCCccceEEEecCCcEEEEecchHHHH
Confidence            456788999999999999999999975 899999999999999999985 555677899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEE
Q psy2074          82 AISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMG  156 (184)
Q Consensus        82 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~  156 (184)
                      .+.+.++.+++.|++.++++++++.+++.++.+++.+     .+|+++++||+|||+++||+||.+||+|++.+++++|+
T Consensus        88 ~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~a~  167 (244)
T d1irua_          88 SQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAA  167 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCccEEecceEec
Confidence            9999999999999999999999999999999988764     36999999999999878999999999999999999999


Q ss_pred             ecCHHhHHHHHhccC--CCCCCHHHHhhc
Q psy2074         157 GSGSTYLYGHMDNQF--KENMTKKEAMST  183 (184)
Q Consensus       157 G~g~~~~~~~Le~~~--~~~~s~eea~~l  183 (184)
                      |+++..++++||+.|  .++|+++||+++
T Consensus       168 G~gs~~~~~~Le~~~~~~~d~t~eeai~l  196 (244)
T d1irua_         168 GVKQTESTSFLEKKVKKKFDWTFEQTVET  196 (244)
T ss_dssp             ETTHHHHHHHHHHHTTSCCCCCHHHHHHH
T ss_pred             cCchhHHHHHHHhccccccCCCHHHHHHH
Confidence            999999999999999  458999999986

>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=5.5e-49  Score=310.51  Aligned_cols=181  Identities=15%  Similarity=0.222  Sum_probs=171.3

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.+.++|+||++|||||++++++|+|+|||+++||||||+|++.+++.+....+.+||++|++|++|++||+.+|++.
T Consensus         3 d~~~t~fsp~Grl~QvEya~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   82 (241)
T d1rypd_           3 DRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRI   82 (241)
T ss_dssp             CCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHH
T ss_pred             CCCCceECCCCcEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchHHH
Confidence            45678899999999999999999999999999999999999999999988877788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeC-CCCeEEEEEcCCCceeecCeEEE
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDR-KKGGQVYCIPLGGMLMRQKMAMG  156 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~-~~~~~Ly~idp~G~~~~~~~~a~  156 (184)
                      +++.++.+++.|++.++.+++++.+++.++.+++.++     +|+++++|+||+|+ +++|+||.+||+|++.+++++|+
T Consensus        83 l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~~~~a~  162 (241)
T d1rypd_          83 LIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTI  162 (241)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEEEEeeCeEEE
Confidence            9999999999999999999999999999999998764     49999999999996 36899999999999999999999


Q ss_pred             ecCHHhHHHHHhccCCC---CCCHHHHhhc
Q psy2074         157 GSGSTYLYGHMDNQFKE---NMTKKEAMST  183 (184)
Q Consensus       157 G~g~~~~~~~Le~~~~~---~~s~eea~~l  183 (184)
                      |+|++.++++||+.|++   +|+++||+++
T Consensus       163 G~gs~~~~~~Le~~~~~~~~~~t~~e~i~l  192 (241)
T d1rypd_         163 GRNSKTVREFLEKNYDRKEPPATVEECVKL  192 (241)
T ss_dssp             STTHHHHHHHHHTTCCTTSCCCSHHHHHHH
T ss_pred             CcCHHHHHHHHHHhhhcccCCCCHHHHHHH
Confidence            99999999999999964   6999999986

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.6e-49  Score=310.96  Aligned_cols=178  Identities=12%  Similarity=0.203  Sum_probs=165.1

Q ss_pred             Cccccc----ccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCCh
Q psy2074           2 WNKDYN----VNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSA   77 (184)
Q Consensus         2 ~~~~~~----~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~   77 (184)
                      |||+|+    +++|+||++|||||++|+++|+|+|||+++||||||+|++.+++.   ..+.+||++|+++++|++||+.
T Consensus         1 ~~~~yd~~~t~FspdGrl~QvEyA~kav~~g~t~igi~~~dgvvlaad~~~~~~l---~~~~~KI~~I~~~i~~~~sG~~   77 (233)
T d1rypf_           1 FRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL---SSYQKKIIKCDEHMGLSLAGLA   77 (233)
T ss_dssp             CHHHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTT---BCCCCCEEEEETTEEEEEEECH
T ss_pred             CCccccCCCceECCCCcChHHHHHHHHHHcCCCEEEEEECCeEEEEEeccccccC---CcchheEEEcCCCEEEEEeecc
Confidence            455554    678999999999999999999999999999999999999998763   3567899999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecC
Q psy2074          78 ADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQK  152 (184)
Q Consensus        78 ~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~  152 (184)
                      +|++.++++++.+++.|++.++++++++.+|+.++++++.+     +|||++++||+|||+ +||+||.+||+|++.+++
T Consensus        78 ~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~-~g~~Ly~idp~G~~~~~~  156 (233)
T d1rypf_          78 PDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDK-SGAHLLEFQPSGNVTELY  156 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECTTSCEEEES
T ss_pred             ccHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcC-CCCEEEEEccccceeccc
Confidence            99999999999999999999999999999999999999754     369999999999998 689999999999999999


Q ss_pred             eEEEecCHHhHHHHHhccC----CCCCCHHHHhhc
Q psy2074         153 MAMGGSGSTYLYGHMDNQF----KENMTKKEAMST  183 (184)
Q Consensus       153 ~~a~G~g~~~~~~~Le~~~----~~~~s~eea~~l  183 (184)
                      ++|+|+|++.+.++||+.|    +++|++|||+++
T Consensus       157 ~~aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l  191 (233)
T d1rypf_         157 GTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKA  191 (233)
T ss_dssp             EEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHH
T ss_pred             EEEecCchHHHHHHHHHHHhhccccCCCHHHHHHH
Confidence            9999999999999998754    789999999986

>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=9.6e-49  Score=309.48  Aligned_cols=177  Identities=18%  Similarity=0.290  Sum_probs=168.2

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      -+.++++|+||++|||||++|+++|+|+|||+++||||||+|+|.+++.+ ..++.+|||+|+++++|++||..+|++.+
T Consensus         7 ~~~t~fsp~Grl~QvEya~kav~~G~t~Igik~~dgVvlaad~r~~~~~~-~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   85 (243)
T d1j2pa_           7 RAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLL-EKDTIEKIYKIDEHICAATSGLVADARVL   85 (243)
T ss_dssp             SCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTB-CGGGCCSEEECSSSEEEEEEECHHHHHHH
T ss_pred             CCCccCCCCCcchHHHHHHHHHHcCCCEEEEEECCEEEEEEecCccccCc-cccccccEeecCCcEEEEeeecccHHHHH
Confidence            46678999999999999999999999999999999999999999999765 55778999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      .+.++.++..|++.++.+++++.+++.++..+|.++     +|+++++|+||+|+  +|+||.+||+|++.+++++|+|+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~--~p~Ly~~Dp~G~~~~~~~~a~G~  163 (243)
T d1j2pa_          86 IDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE--VPKLYETDPSGALLEYKATAIGM  163 (243)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS--SEEEEEECTTCCEEEBSEEEEST
T ss_pred             HHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC--CceEEEEeccCceeeeeEEEeCC
Confidence            999999999999999999999999999999998754     49999999999985  59999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      |++.++++||+.|+++||+|||+++
T Consensus       164 g~~~a~~~Le~~y~~~ms~eeai~l  188 (243)
T d1j2pa_         164 GRMAVTEFFEKEYRDDLSFDDAMVL  188 (243)
T ss_dssp             THHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             CcHHHHHHHHhhcccCCCHHHHHHH
Confidence            9999999999999999999999986

>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=5e-48  Score=303.27  Aligned_cols=179  Identities=13%  Similarity=0.201  Sum_probs=170.5

Q ss_pred             cccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           3 NKDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         3 ~~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      ..+.+.++|+||++|||||++|+++|+|+|||+++||||||+|+|.+.+.+ ..++.+|||+|+++++|+++|..+|++.
T Consensus         6 d~~~t~fsp~Gr~~Qveya~kav~~G~tvigik~~dgVvlaaD~r~~~~~~-~~~~~~ki~~i~~~i~~~~sG~~~D~~~   84 (233)
T d1irub_           6 SFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILY-DERSVHKVEPITKHIGLVYSGMGPDYRV   84 (233)
T ss_dssp             CSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSB-CSTTCCSSEESSSSEEEEEEECHHHHHH
T ss_pred             CCCCCeECCCCcChHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCcccCCc-cccccceEEEecCceEEEEeccchHHHH
Confidence            457789999999999999999999999999999999999999999998765 5788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhcC-----CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR-----DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~r-----~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      +++.++.+++.|+..++++++++.+++.+++.++.++     +|++++++++|+|+ ++|+||.+||.|++.+++++|+|
T Consensus        85 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~-~~~~ly~id~~G~~~~~~~~a~G  163 (233)
T d1irub_          85 LVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNE-GRPYLFQSDPSGAYFAWKATAMG  163 (233)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECS-SSEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeeccc-CCceEEEEcCCcceEeccceecC
Confidence            9999999999999999999999999999999987654     49999999999987 89999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +|++++.++||+.|+++||+|||+++
T Consensus       164 ~gs~~~~~~Le~~~~~~ms~eea~~l  189 (233)
T d1irub_         164 KNYVNGKTFLEKRYNEDLELEDAIHT  189 (233)
T ss_dssp             TTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             CcHHHHHHHHHhhcccCccHHHHHHH
Confidence            99999999999999999999999986

>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=1.6e-48  Score=307.35  Aligned_cols=176  Identities=16%  Similarity=0.174  Sum_probs=163.9

Q ss_pred             ccccccccCCCCCCCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAI   83 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   83 (184)
                      .+-+.++|+|||+|||||++|+++|+|+|||+++||||||+|+|.+++..   .+.+||++|+++++|++||+.+|++.+
T Consensus         5 ~~~tiFsp~Grl~QvEYA~kav~~G~t~vgik~~dgVvlaad~~~~~~~~---~~~~KI~~I~~~i~~~~sG~~~D~~~l   81 (238)
T d1iruf_           5 NDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA---AHQKKILHVDNHIGISIAGLTADARLL   81 (238)
T ss_dssp             SCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHHHHH
T ss_pred             CCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccccCCC---CccceEEEeCCceEEEEeccchHHHHH
Confidence            34568999999999999999999999999999999999999999998754   346899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEec
Q psy2074          84 SDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGS  158 (184)
Q Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~  158 (184)
                      ++.++.++..|++.++++++++.+++.++...+.+     ++|+++++||||||+ +||+||.+||+|++.+++++|+|+
T Consensus        82 ~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~-~gp~Ly~~D~~G~~~~~~~~a~G~  160 (238)
T d1iruf_          82 CNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDD-MGPHIFQTCPSANYFDCRAMSIGA  160 (238)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEET-TEEEEEEECSSSCEEEESEEEEST
T ss_pred             HHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcC-CCceEEEEcCCCCEEeeeeEEECC
Confidence            99999999999999999999999999999986554     369999999999998 789999999999999999999999


Q ss_pred             CHHhHHHHHhccCCCCC--CHHHHhhc
Q psy2074         159 GSTYLYGHMDNQFKENM--TKKEAMST  183 (184)
Q Consensus       159 g~~~~~~~Le~~~~~~~--s~eea~~l  183 (184)
                      +++.++++||+.|+++|  +++||+++
T Consensus       161 g~~~~~~~Lek~~~~~~~~~~~eav~l  187 (238)
T d1iruf_         161 RSQSARTYLERHMSEFMECNLNELVKH  187 (238)
T ss_dssp             THHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             CchhhHHHHHhhcccccCCCHHHHHHH
Confidence            99999999999999855  89999876

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.3e-48  Score=308.63  Aligned_cols=179  Identities=13%  Similarity=0.122  Sum_probs=166.8

Q ss_pred             ccccccccCCCCCCCccccccccC-CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHH
Q psy2074           4 KDYNVNAYHGGVEAPDWLTAKHSC-GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQA   82 (184)
Q Consensus         4 ~~~~~~~~~G~l~qveya~~~~~~-g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~   82 (184)
                      .+-++++|+|||+|||||++|+++ |+|+|||+++||||||+|+|.+. .++..++.+||++|++|++|++||+.+|++.
T Consensus         5 ~~~t~fsp~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   83 (243)
T d1rypa_           5 RHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPD-KLLDPTTVSYIFCISRTIGMVVNGPIPDARN   83 (243)
T ss_dssp             GTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCC-TTBCGGGCCSEEECSSSCEEEEESCHHHHHH
T ss_pred             CCCCeECCCCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccc-cccccCcccceEecCCCEEEEEecCcHHHHH
Confidence            456789999999999999999997 55899999999999999999886 6677888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhc-----CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEe
Q psy2074          83 ISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSY-----RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGG  157 (184)
Q Consensus        83 l~~~l~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~-----r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G  157 (184)
                      +.+.++.+++.|++.++.+++++.+++.+++.++.+     ++|+++++||+|||+++||+||.+||+|++.+++++|+|
T Consensus        84 l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~a~G  163 (243)
T d1rypa_          84 AALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATG  163 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCCEEEEecceEEeC
Confidence            999999999999999999999999999999988765     459999999999998789999999999999999999999


Q ss_pred             cCHHhHHHHHhccCCC-------CCCHHHHhhc
Q psy2074         158 SGSTYLYGHMDNQFKE-------NMTKKEAMST  183 (184)
Q Consensus       158 ~g~~~~~~~Le~~~~~-------~~s~eea~~l  183 (184)
                      +|+..++++||+.|++       ++|++||+++
T Consensus       164 ~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~l  196 (243)
T d1rypa_         164 PKQQEITTNLENHFKKSKIDHINEESWEKVVEF  196 (243)
T ss_dssp             TTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHH
T ss_pred             ccHHHHHHHHHHHhhcccccccccccHHHHHHH
Confidence            9999999999999974       5689999986

>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=5.1e-43  Score=270.00  Aligned_cols=161  Identities=54%  Similarity=0.916  Sum_probs=154.2

Q ss_pred             ccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCC
Q psy2074          23 AKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEP  102 (184)
Q Consensus        23 ~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~  102 (184)
                      ..+++|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++ 
T Consensus         4 ~~v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-   82 (205)
T d1ryph_           4 GEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-   82 (205)
T ss_dssp             TCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-
T ss_pred             CcccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-
Confidence            4588999999999999999999999999999999999999999999999999999999999999999999999999865 


Q ss_pred             cHHHHHHHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhh
Q psy2074         103 LVYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMS  182 (184)
Q Consensus       103 ~~~~la~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~  182 (184)
                      ++..+++.+++++|.+++|+++++|+||||++++|+||.+||.|++.+++++|+|+|+.+++++||+.|+++||.|||++
T Consensus        83 ~~~~~~~~~~~~~~~~~~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~  162 (205)
T d1ryph_          83 STETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVD  162 (205)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCccCceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhcccCHHHHHH
Confidence            57889999999999999999999999999987899999999999999999999999999999999999999999999998


Q ss_pred             cC
Q psy2074         183 TF  184 (184)
Q Consensus       183 l~  184 (184)
                      ++
T Consensus       163 l~  164 (205)
T d1ryph_         163 FI  164 (205)
T ss_dssp             HH
T ss_pred             HH
Confidence            73

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=8.6e-42  Score=262.22  Aligned_cols=155  Identities=28%  Similarity=0.514  Sum_probs=150.6

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+|||+|+++++|+++|..+|++.+.+.++.+++.|++.++.+++++.++
T Consensus         1 TT~igi~~~dgVvlaaD~~~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (201)
T d1irul_           1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (201)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCCEeecCCcccEEEeCCcEEEEEcCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +.+++++|.+|. |++++++++|+|+ ++|+||.+||+|++.+++++|+|+|+++++++||+.|+++||.|||++++
T Consensus        81 ~~l~~~~~~~~~~p~~~~~lvaG~d~-~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~  156 (201)
T d1irul_          81 KLLANMVYQYKGMGLSMGTMICGWDK-RGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLA  156 (201)
T ss_dssp             HHHHHHHHTTTTSCCCBEEEEEEECS-SSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHH
T ss_pred             HHHHHHhhhccCCCceEEEEEEEEec-CCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHH
Confidence            999999998875 9999999999998 79999999999999999999999999999999999999999999999863

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.4e-41  Score=261.22  Aligned_cols=156  Identities=60%  Similarity=1.079  Sum_probs=152.5

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|++.++.+++++.++
T Consensus         1 TTivai~~~dgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1iruh_           1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCccccCCeeecCCcceEEEcCCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++.+|.+|+|+++++|++|+|++++|+||.+||.|++.+.+++|+|+|+.+++++||+.|+++|+.+||++++
T Consensus        81 ~~l~~~l~~~~~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l~  156 (202)
T d1iruh_          81 SLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFT  156 (202)
T ss_dssp             HHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHhhccceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHHH
Confidence            9999999999999999999999999889999999999999999999999999999999999999999999999863

>d1rypl_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.9e-41  Score=262.38  Aligned_cols=155  Identities=27%  Similarity=0.541  Sum_probs=151.0

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||++|||||||+|+|.++|.++.+++.+|||+|+++++|+++|..+|++.+++.++.+++.|++.++.+++++.++
T Consensus         1 TT~iai~~kdgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (212)
T d1rypl_           1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +.+++++|+++. |++++.+++|+|++++|+||.+||+|++.+++++|+|+|+++++++||+.|+++||++||+++
T Consensus        81 ~~ls~~~~~~~~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l  156 (212)
T d1rypl_          81 KILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL  156 (212)
T ss_dssp             HHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHhccCCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHHH
Confidence            999999998865 999999999999888999999999999999999999999999999999999999999999986

>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=1.2e-41  Score=260.82  Aligned_cols=156  Identities=17%  Similarity=0.317  Sum_probs=149.6

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      ++|+|||+++||||||+|+|.+.|.++..++.+||++|++|+++++||..+|++.+.+.++.+++.|+++++.+++++.+
T Consensus         1 m~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
T d1rypk_           1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAV   80 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHH
T ss_pred             CeEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc---CCCcceeeEEEEEeCC-CCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         108 AKLFQELVYSY---RDSLTAGIICAGWDRK-KGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       108 a~~l~~~l~~~---r~p~~~s~llaG~D~~-~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++++++.+|.+   ++|+++++||||||+. ++|+||.+||+|++.+++++|+|+|++++.++||+.|+++|+.|||+++
T Consensus        81 ~~~i~~~~~~~~~~~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~l  160 (198)
T d1rypk_          81 SSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDL  160 (198)
T ss_dssp             HHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHHHHHHH
Confidence            99999999874   4599999999999973 6899999999999999999999999999999999999999999999876

>d1yarh1 d.153.1.4 (H:1-203) Proteasome beta subunit (catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=3.8e-41  Score=258.91  Aligned_cols=154  Identities=20%  Similarity=0.378  Sum_probs=148.9

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|++.|.++.+++.+|||+|++++++++||..+|++.+.+.++.+++.|++.++.+++++.++
T Consensus         1 TT~igi~~kdgVvia~D~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (203)
T d1yarh1           1 TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVA   80 (203)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCEeecCCcccEEEecCCeeeecCCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +.++++++.++ +|+++++|+||+|.  +|+||.+||+|++.+++++|+|+|+++++++||+.|+++||.|||++++
T Consensus        81 ~~l~~~~~~~~~~p~~~~~lvaG~d~--~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~  155 (203)
T d1yarh1          81 TLLSNMLNQVKYMPYMVQLLVGGIDT--APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLV  155 (203)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEESS--SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHhhccCCccceeEEEEEcC--CCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHH
Confidence            99999999887 59999999999986  5999999999999999999999999999999999999999999999863

>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=5.7e-41  Score=260.96  Aligned_cols=155  Identities=31%  Similarity=0.583  Sum_probs=151.3

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|++++++|..+|++.+.+.++.+++.|++.++.+++++.++
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEecCcEEEEEccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhcC
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMSTF  184 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~  184 (184)
                      +++++++|++++|+++++|++|+|. +||+||.+||.|++.+++++|+|+|+++++++|++.|+++||.+||++++
T Consensus        81 ~~l~~~~y~~~~p~~~~~ivaG~D~-~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~  155 (220)
T d1irui_          81 RMLKQMLFRYRGYIGAALVLGGVDV-TGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLV  155 (220)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEECS-SCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHH
T ss_pred             HHHHhhhhhcccccceeEEEEEEeC-CCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHH
Confidence            9999999999999999999999998 78999999999999999999999999999999999999999999999863

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=2.3e-41  Score=264.52  Aligned_cols=159  Identities=14%  Similarity=0.226  Sum_probs=143.7

Q ss_pred             CCccccccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHH
Q psy2074          17 APDWLTAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRM   96 (184)
Q Consensus        17 qveya~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~   96 (184)
                      |||||.+++++|+|+|||+++||||||+|+|.++        .+||++|++||+|+++|+.+|++.++++++.+++.|++
T Consensus         8 q~eyA~~av~~GtT~vgi~~~~GVvlaad~r~~s--------~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~   79 (227)
T d1q5qa_           8 RSELARKGIARGRSVVVLTFRDGVLFVAENPSTA--------LHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGY   79 (227)
T ss_dssp             HHHHHHHHHHTSCCEEEEECSSEEEEEECCSCSS--------SCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCEEEEEECCEEEEEEccCCCC--------cceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998643        58999999999999999999999999999999999999


Q ss_pred             HhC-CCCcHHHHHHHHHHHHH----hcCCCcceeeEEEEEeC---CCCeEEEEEcCCCceeecC-eEEEecCHHhHHHHH
Q psy2074          97 ELG-EEPLVYSGAKLFQELVY----SYRDSLTAGIICAGWDR---KKGGQVYCIPLGGMLMRQK-MAMGGSGSTYLYGHM  167 (184)
Q Consensus        97 ~~~-~~~~~~~la~~l~~~l~----~~r~p~~~s~llaG~D~---~~~~~Ly~idp~G~~~~~~-~~a~G~g~~~~~~~L  167 (184)
                      .++ .+++++.+++.++++++    ...+||++++||||||.   +++|+||.+||+|++.+++ +++.|++++.+.++|
T Consensus        80 ~~~~~~~~~~~la~~~~~~~~~~~~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~L  159 (227)
T d1q5qa_          80 SYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAM  159 (227)
T ss_dssp             HSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHHHHHH
T ss_pred             HhCCCCCcHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHHHHHH
Confidence            988 46899999988887642    33469999999999996   3579999999999988755 567778899999999


Q ss_pred             hccCCCCCCHHHHhhc
Q psy2074         168 DNQFKENMTKKEAMST  183 (184)
Q Consensus       168 e~~~~~~~s~eea~~l  183 (184)
                      ++.|+++||+|||+++
T Consensus       160 e~~y~~~ms~eea~~l  175 (227)
T d1q5qa_         160 RESYRADLDLEAAVGI  175 (227)
T ss_dssp             HHHCCTTCCHHHHHHH
T ss_pred             HHhccCCCCHHHHHHH
Confidence            9999999999999986

>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=1.2e-40  Score=259.51  Aligned_cols=154  Identities=33%  Similarity=0.574  Sum_probs=150.9

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++|+++|..+|++.+.+.++.+++.|++.++.++++..++
T Consensus         1 TTiVgik~~dGVviaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a   80 (222)
T d1rypi_           1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCceeecCCcccEEEEcCCEEEEecccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +.+++.++++++|+++++++||+|+ +||+||.+||+|++.+++++|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~l~~~~~~~~~p~~~~~l~aG~d~-~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l  154 (222)
T d1rypi_          81 QMLKQHLFKYQGHIGAYLIVAGVDP-TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKL  154 (222)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEEET-TEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHH
T ss_pred             HHHHHHHHhhhhccceeEEEEEEcC-CCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHH
Confidence            9999999999999999999999998 8999999999999999999999999999999999999999999999986

>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=6.2e-40  Score=251.52  Aligned_cols=154  Identities=25%  Similarity=0.456  Sum_probs=148.1

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.+.|.++.+++.+|||+|+++++|++||..+|++.+.++++.+++.|++.++.+++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~s~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1j2qh_           1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCeeccCccceEEEecCcEEEEecCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeec-CeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         109 KLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQ-KMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       109 ~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      +.+++++|.+|. |+++++|+||+|+ .+|+||.+||+|.+.++ .++|+|+|+++++++||+.|+++||+|||+++
T Consensus        81 ~~~~~~~~~~~~~p~~~~~lvaG~d~-~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l  156 (202)
T d1j2qh_          81 TLTSNLLNSYRYFPYLVQLLIGGIDS-EGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL  156 (202)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEEET-TEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHhhhcccceeeEEEEEEEcC-CCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHH
Confidence            999999999875 9999999999998 78999999999997764 69999999999999999999999999999986

>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=2.5e-39  Score=248.91  Aligned_cols=159  Identities=22%  Similarity=0.323  Sum_probs=150.4

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      ..||+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++++++|..+|++.+.++++.+++.|++.++.++++
T Consensus         4 ~~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1iruj_           4 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   83 (204)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             eeCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccch
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC-CcceeeEEEEEeCCC-CeEEEEEcCCCceee-cCeEEEecCHHhHHHHHhccCCCCCCHHHHh
Q psy2074         105 YSGAKLFQELVYSYRD-SLTAGIICAGWDRKK-GGQVYCIPLGGMLMR-QKMAMGGSGSTYLYGHMDNQFKENMTKKEAM  181 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~-p~~~s~llaG~D~~~-~~~Ly~idp~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~  181 (184)
                      +.+++.+++++|.+++ |+++++||||+|+++ +|.+|.+||.|.... ..++++|+|+++++++||+.|+++||.+||+
T Consensus        84 ~~~a~~l~~~~~~~~~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~ea~  163 (204)
T d1iruj_          84 YTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLF  163 (204)
T ss_dssp             HHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHH
T ss_pred             HHHHHHHHHHHHHhhhccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCCCHHHHH
Confidence            9999999999998865 999999999999754 688999999998665 5789999999999999999999999999999


Q ss_pred             hc
Q psy2074         182 ST  183 (184)
Q Consensus       182 ~l  183 (184)
                      ++
T Consensus       164 ~l  165 (204)
T d1iruj_         164 ET  165 (204)
T ss_dssp             HH
T ss_pred             HH
Confidence            86

>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=3.8e-40  Score=258.27  Aligned_cols=163  Identities=20%  Similarity=0.221  Sum_probs=153.6

Q ss_pred             cccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHh---
Q psy2074          22 TAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMEL---   98 (184)
Q Consensus        22 ~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~---   98 (184)
                      ++++.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|+++|..+|++.+.+.++.++..|++++   
T Consensus         2 ~~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~   81 (233)
T d1ryp2_           2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             CCCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCC
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999998876   


Q ss_pred             --CCCCcHHHHHHHHHHHHHhc---CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCC-
Q psy2074          99 --GEEPLVYSGAKLFQELVYSY---RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK-  172 (184)
Q Consensus        99 --~~~~~~~~la~~l~~~l~~~---r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~-  172 (184)
                        +.++++..+++++++.+|..   .+|++++++|+|+|++++|+||.+||.|++.+++++|+|+|+++++++||+.|+ 
T Consensus        82 ~~~~~~~~~~~a~~l~~~~y~~~~~~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~  161 (233)
T d1ryp2_          82 DAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDR  161 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCCS
T ss_pred             CCCcccCHHHHHHHHHHHHHhhccccCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHHhh
Confidence              56789999999999998765   359999999999999889999999999999999999999999999999999997 


Q ss_pred             ----CCCCHHHHhhcC
Q psy2074         173 ----ENMTKKEAMSTF  184 (184)
Q Consensus       173 ----~~~s~eea~~l~  184 (184)
                          |+|+.|||++++
T Consensus       162 ~~~~~~ms~eeA~~l~  177 (233)
T d1ryp2_         162 ESDIPKTTVQVAEEAI  177 (233)
T ss_dssp             GGGGGGCCHHHHHHHH
T ss_pred             cccccccCHHHHHHHH
Confidence                799999999863

>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=8.6e-39  Score=245.56  Aligned_cols=158  Identities=17%  Similarity=0.263  Sum_probs=148.7

Q ss_pred             cCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHH
Q psy2074          26 SCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVY  105 (184)
Q Consensus        26 ~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~  105 (184)
                      .+|+|+|||+++||||||+|+|.+.+.++..++.+|||++ ++++++++|..+|++.+.++++.+++.|++.++.+++++
T Consensus         6 ~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1rypj_           6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPE   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             cCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcch
Confidence            4799999999999999999999999999999999999999 599999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-CcceeeEEEEEeCC-CCeEEEEEcCCCceeec-CeEEEecCHHhHHHHHhccCCCCCCHHHHhh
Q psy2074         106 SGAKLFQELVYSYRD-SLTAGIICAGWDRK-KGGQVYCIPLGGMLMRQ-KMAMGGSGSTYLYGHMDNQFKENMTKKEAMS  182 (184)
Q Consensus       106 ~la~~l~~~l~~~r~-p~~~s~llaG~D~~-~~~~Ly~idp~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~  182 (184)
                      .+++.+++.+|.+++ |++++++++|||+. +.|+||++||+|++.++ .++++|+|+++++++||+.|+++||++||++
T Consensus        85 ~la~~l~~~l~~~~~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~ea~~  164 (204)
T d1rypj_          85 TFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFE  164 (204)
T ss_dssp             HHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHH
T ss_pred             HHHHHHHHHHHhhcccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccCCCHHHHHH
Confidence            999999999998765 99999999999964 45999999999998875 5899999999999999999999999999988


Q ss_pred             cC
Q psy2074         183 TF  184 (184)
Q Consensus       183 l~  184 (184)
                      ++
T Consensus       165 l~  166 (204)
T d1rypj_         165 TI  166 (204)
T ss_dssp             HH
T ss_pred             HH
Confidence            63

>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=7e-39  Score=249.12  Aligned_cols=160  Identities=24%  Similarity=0.325  Sum_probs=150.5

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhC-CCCc
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELG-EEPL  103 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~-~~~~  103 (184)
                      +.+|+|+|||+++||||||+|+|.+.+.++..++.+||++|++|+++++||..+|++.+.++++.+++.|++.++ .+++
T Consensus         6 ~~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T d1ryp1_           6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             cCCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCc
Confidence            468999999999999999999999999998999999999999999999999999999999999999999998865 5688


Q ss_pred             HHHHHHHHHHHHHhcC-CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCC----------
Q psy2074         104 VYSGAKLFQELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK----------  172 (184)
Q Consensus       104 ~~~la~~l~~~l~~~r-~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~----------  172 (184)
                      +..+++.++.+++..+ +|++++++|+|+|++++|+||.+||+|++.+++++|+|+|+++++++||+.|+          
T Consensus        86 ~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~~~~  165 (222)
T d1ryp1_          86 INSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTN  165 (222)
T ss_dssp             HHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTST
T ss_pred             HHHHHHHHHHHHHhhhhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhccccccCcccc
Confidence            9999999999998776 49999999999999888999999999999999999999999999999999886          


Q ss_pred             -------CCCCHHHHhhcC
Q psy2074         173 -------ENMTKKEAMSTF  184 (184)
Q Consensus       173 -------~~~s~eea~~l~  184 (184)
                             ++||.+||++++
T Consensus       166 ~~~~~~~~~lt~~ea~~l~  184 (222)
T d1ryp1_         166 GKVKKPLKYLSVEEVIKLV  184 (222)
T ss_dssp             TCSBCCCCCCCHHHHHHHH
T ss_pred             hhhhcccccccHHHHHHHH
Confidence                   689999999863

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.9e-38  Score=246.05  Aligned_cols=161  Identities=20%  Similarity=0.253  Sum_probs=150.6

Q ss_pred             cccccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHH-HhCC
Q psy2074          22 TAKHSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRM-ELGE  100 (184)
Q Consensus        22 ~~~~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~-~~~~  100 (184)
                      ++++.+|+|+|||+++||||||+|+|.+.|.++..++.+||++|+++++++++|..+|++.+.+.++.++..+++ .++.
T Consensus         2 ~~~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (217)
T d1iru2_           2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (217)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCCcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCC
Confidence            567899999999999999999999999999999999999999999999999999999999999999999988876 4578


Q ss_pred             CCcHHHHHHHHHHHHHhcC---CCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccC--CCCC
Q psy2074         101 EPLVYSGAKLFQELVYSYR---DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQF--KENM  175 (184)
Q Consensus       101 ~~~~~~la~~l~~~l~~~r---~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~--~~~~  175 (184)
                      +++++.+++.+++.+|.++   +|+++++|++|+|. ++|+||.+||+|++.+++++|+|+|+.+++++||+.|  +++|
T Consensus        82 ~~~v~~~a~~l~~~~y~~~~~~~p~~~~~li~G~d~-~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~l  160 (217)
T d1iru2_          82 SYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYAD-GESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVL  160 (217)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEET-TEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCC
T ss_pred             CCCHHHHHHHHHHHHHHhccccCcccceEEEEEEcC-CCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCC
Confidence            9999999999999987654   59999999999997 8999999999999999999999999999999999966  4899


Q ss_pred             CHHHHhhc
Q psy2074         176 TKKEAMST  183 (184)
Q Consensus       176 s~eea~~l  183 (184)
                      |.+||+++
T Consensus       161 t~~ea~~l  168 (217)
T d1iru2_         161 SQTEARDL  168 (217)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            99999886

>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=2.1e-37  Score=238.50  Aligned_cols=160  Identities=24%  Similarity=0.277  Sum_probs=152.3

Q ss_pred             ccCCceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcH
Q psy2074          25 HSCGTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV  104 (184)
Q Consensus        25 ~~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~  104 (184)
                      +.||+|+|||+++||||||+|+|.+.|.++...+.+||++|++|++++++|..+|++.+.++++.+++.|++.++.++++
T Consensus         6 ~~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (213)
T d1iru1_           6 VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             cCCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhH
Confidence            35899999999999999999999999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC-CcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCC---------CC
Q psy2074         105 YSGAKLFQELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK---------EN  174 (184)
Q Consensus       105 ~~la~~l~~~l~~~r~-p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~---------~~  174 (184)
                      ..+++.++..+|.++. |++++.+++|+|.+++|.+|.+||.|++.+++++++|+|++++.++||+.|+         ++
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~~~~  165 (213)
T d1iru1_          86 GAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVP  165 (213)
T ss_dssp             HHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCC
T ss_pred             HHHHHHHHHHHHHHHhhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhcccccC
Confidence            9999999999998865 9999999999999899999999999999999999999999999999987664         78


Q ss_pred             CCHHHHhhcC
Q psy2074         175 MTKKEAMSTF  184 (184)
Q Consensus       175 ~s~eea~~l~  184 (184)
                      ||++||++++
T Consensus       166 ~s~~ea~~~~  175 (213)
T d1iru1_         166 LSLDRAMRLV  175 (213)
T ss_dssp             CCHHHHHHHH
T ss_pred             CCHHHHHHHH
Confidence            9999999863

>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=7.2e-37  Score=232.29  Aligned_cols=156  Identities=18%  Similarity=0.302  Sum_probs=149.4

Q ss_pred             CceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          28 GTTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        28 g~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      +||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++++++|..+|++.+.++++.+++.|+..++.+++++.+
T Consensus         1 Mt~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (199)
T d1iruk_           1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAA   80 (199)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHH
T ss_pred             CeEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHH
Confidence            58999999999999999999999999888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc---CCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         108 AKLFQELVYSY---RDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       108 a~~l~~~l~~~---r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ++.++..++.+   ..|++++++++|+|++++|+||.+||.|.+.+++++++|+|+++++++|++.|+++|+++||+++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l  159 (199)
T d1iruk_          81 ANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVEL  159 (199)
T ss_dssp             HHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHhhccCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHH
Confidence            99999988764   34999999999999988999999999999999999999999999999999999999999999886

>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=2.1e-36  Score=235.10  Aligned_cols=156  Identities=19%  Similarity=0.281  Sum_probs=146.1

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.++|.++..++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++.++++..++
T Consensus         1 TTivgi~~kdgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T d1q5qh_           1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (224)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeecCCcceEEEeCCcEEEEecccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC----CCcceeeEEEEEe-----CCCCeEEEEEcCCCceee--cCeEEEecCHHhHHHHHhccCCCCCCH
Q psy2074         109 KLFQELVYSYR----DSLTAGIICAGWD-----RKKGGQVYCIPLGGMLMR--QKMAMGGSGSTYLYGHMDNQFKENMTK  177 (184)
Q Consensus       109 ~~l~~~l~~~r----~p~~~s~llaG~D-----~~~~~~Ly~idp~G~~~~--~~~~a~G~g~~~~~~~Le~~~~~~~s~  177 (184)
                      +.+++.+|.++    +|+++.++++|+|     .+++|+||.+||+|+..+  .+++|+|+|+++++++||+.|+++||.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt~  160 (224)
T d1q5qh_          81 NRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDE  160 (224)
T ss_dssp             HHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCH
T ss_pred             HHHHHHHHHhhcccccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCCH
Confidence            99999998764    4889999998876     346899999999999765  588999999999999999999999999


Q ss_pred             HHHhhcC
Q psy2074         178 KEAMSTF  184 (184)
Q Consensus       178 eea~~l~  184 (184)
                      +||++++
T Consensus       161 ~ea~~l~  167 (224)
T d1q5qh_         161 ETALRAA  167 (224)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998763

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

Probab=99.91  E-value=8.3e-26  Score=169.41  Aligned_cols=151  Identities=16%  Similarity=0.075  Sum_probs=105.8

Q ss_pred             cCCceEEEEEeCCeEEEEEcCccccCceeeec-CCCceEEecC-eEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCc
Q psy2074          26 SCGTTIIAVEFDGGVVIGADSRSSTGAYVANR-VADKLTRVTD-NIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPL  103 (184)
Q Consensus        26 ~~g~t~igi~~~dgVvla~d~r~~~g~~~~~~-~~~Ki~~i~~-~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~  103 (184)
                      -+|||+|||+++||||||+|+|.|.|.++..+ ..+|++++++ .++++.+|...|.+.+.+.++.+.+.++........
T Consensus         3 ~~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (180)
T d2z3ba1           3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAV   82 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             CCCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhccccchhHH
Confidence            47999999999999999999999999766655 5788999977 488888999999999998887666554322211111


Q ss_pred             HHHHHHHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCCCCCCHHHHhhc
Q psy2074         104 VYSGAKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFKENMTKKEAMST  183 (184)
Q Consensus       104 ~~~la~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l  183 (184)
                      ..........+.+.++.++.......|++       +..++.+.....++.|+|+|+.+++++||..|+++||.+||++|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~a~GSGs~~A~g~l~~~~~~~~s~~eA~~l  155 (180)
T d2z3ba1          83 ELAKEWRSDKVLRKLEAMLIVMNQDTLLL-------VSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASEI  155 (180)
T ss_dssp             HHHHHHHHCTTGGGCCCCEEEECSSCEEE-------ECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCCHHHH
T ss_pred             HHHHHHhHHHHHHHhhcceeeeecccccc-------ccCCceeecccccEEEEcCchHHHHHHHHHHhhcCCCccCHHHH
Confidence            11111111111222233444433334444       44444444444558999999999999999999999999999986

>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=99.91  E-value=9e-24  Score=156.67  Aligned_cols=147  Identities=15%  Similarity=0.062  Sum_probs=115.2

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeEEEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGA  108 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la  108 (184)
                      ||+|||+++||||||+|+|.|.|.++.+++.+||++|+++++++.+|..+|.+.+.+.+......+..  +   ......
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~--~---~~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWG--G---NLTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTT--T---CHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhh--c---cchhhH
Confidence            79999999999999999999999999999999999999999999999999999888776655444322  1   122222


Q ss_pred             HHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCC-CCCCHHHHh
Q psy2074         109 KLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK-ENMTKKEAM  181 (184)
Q Consensus       109 ~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~-~~~s~eea~  181 (184)
                      ......+.....++....++.+.+. ++|.++..|+.|.....++.|+|||++++++.|+..++ ++|+.+|++
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~a~el~  148 (171)
T d1m4ya_          76 VELAKDWRTDRVLRRLEALLLVADK-ENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSAREIV  148 (171)
T ss_dssp             HHHHHHHHHCTTGGGCCCEEEEECS-SCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCHHHHH
T ss_pred             HHHHHHHHHhhhhcccccccceecC-CcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCCCHHHHH
Confidence            2222223333333333444555555 78999999999999999999999999999999998764 689998854

>d1g3ka_ d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Haemophilus influenzae [TaxId: 727]

Probab=99.87  E-value=5e-22  Score=147.46  Aligned_cols=146  Identities=20%  Similarity=0.192  Sum_probs=107.6

Q ss_pred             ceEEEEEeCCeEEEEEcCccccCceeeecCCCceEEecCeE-EEEecCChHHHHHHHHHHHHHHHHHHHHhCCCCcHHHH
Q psy2074          29 TTIIAVEFDGGVVIGADSRSSTGAYVANRVADKLTRVTDNI-YCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG  107 (184)
Q Consensus        29 ~t~igi~~~dgVvla~d~r~~~g~~~~~~~~~Ki~~i~~~i-~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l  107 (184)
                      ||+|||+++||||||+|+|.|.|.++.+++.+||++|++++ +++.+|...+.+.+.+..+....     .. +......
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~-~~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLE-----MH-QGHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHH-----HT-TTCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHH-----hh-cCcchhH
Confidence            79999999999999999999999999999999999998874 55566666665555544332221     12 2233334


Q ss_pred             HHHHHHHHHhcCCCcceeeEEEEEeCCCCeEEEEEcCCCceeecCeEEEecCHHhHHHHHhccCC-CCCCHHHH
Q psy2074         108 AKLFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTYLYGHMDNQFK-ENMTKKEA  180 (184)
Q Consensus       108 a~~l~~~l~~~r~p~~~s~llaG~D~~~~~~Ly~idp~G~~~~~~~~a~G~g~~~~~~~Le~~~~-~~~s~eea  180 (184)
                      +..+...++..+.++.....+.+.|.++++.++..|+.|.+.+.++.|+|+|+.+|++.|+..++ .+++.+|.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~~~~~~A~el  148 (173)
T d1g3ka_          75 AVELAKDWRTDRALRKLEAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAHEI  148 (173)
T ss_dssp             HHHHHHHHHHSTTGGGCCCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHHHH
T ss_pred             HHHHHHHHHHhhhhcccccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhhcCCCCHHHH
Confidence            44445445444443333344556676689999999999999999999999999999999998885 36666653